#### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment ------CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg taatgaaggccactcttacttctgtgataacttatctcttcacttttcagGTCCCTCTCACCAAACTGAGCACAGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTGAACCTCATGATCATACCCTTGGTGGGGGCTATTGCTACAggtaagaggggttccaagttcactagcctgatctatctctatcttcctaag Alignment from CESAR ------CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg taatgaaggccactcttacttctgtgataacttatctcttcacttttcagGTCCCTCTCACCAAACTGAGCACAGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTGAACCTCATGATCATACCCTTGGTGGGGGCTATTGCTACAggtaagaggggttccaagttcactagcctgatctatctctatcttcctaag Alignment from Spaln_aa2Genome ----CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccactcttacttctgtgataacttatctcttcacttttcagGTCCCTCTCACCAAACTGAGCACAGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTGAACCTCATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaagaggggttccaagttcactagcctgatctatctctatcttcctaag Alignment from Spaln_nt2Genome CTCACCAAGCT------GAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccactcttacttctgtgataacttatctcttcacttttcagGTCCCTCTCACCAAACTGAGCACAGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTGAACCTCATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaagaggggttccaagttcactagcctgatctatctctatcttcctaag Alignment from Pairagon ------CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccactcttacttctgtgataacttatctcttcacttttcagGTCCCTCTCACCAAACTGAGCACAGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTGAACCTCATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaagaggggttccaagttcactagcctgatctatctctatcttcctaag Alignment from Exonerate_protein2genome ------CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccactcttacttctgtgataacttatctcttcacttttcagGTCCCTCTCACCAAACTGAGCACAGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTGAACCTCATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaagaggggttccaagttcactagcctgatctatctctatcttcctaag Alignment from Exonerate_coding2genome ------CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccactcttacttctgtgataacttatctcttcacttttcagGTCCCTCTCACCAAACTGAGCACAGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTGAACCTCATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaagaggggttccaagttcactagcctgatctatctctatcttcctaag Alignment from GeneWise ------CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccactcttacttctgtgataacttatctcttcacttttcagGTCCCTCTCACCAAACTGAGCACAGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTGAACCTCATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaagaggggttccaagttcactagcctgatctatctctatcttcctaag #### 1700055N04Rik_ID228_6 --> 0 - 1 Original Alignment ------------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg aagaggcttgcctcctgagttgtctccaagttctgtcctgtttcctgcagTACACTGCCGGGAGCTGCTTTGCTGTGATGCTGGGAGGCCCTGAGGAGACAGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACAggtgagtagggccctgttgagaaccatcaatagagtgatataatataatat Alignment from CESAR ------------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg aagaggcttgcctcctgagttgtctccaagttctgtcctgtttcctgcagTACACTGCCGGGAGCTGCTTTGCTGTGATGCTGGGAGGCCCTGAGGAGACAGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACAggtgagtagggccctgttgagaaccatcaatagagtgatataatataatat Alignment from Spaln_aa2Genome AGCTGCTTT------------GCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aagaggcttgcctcctgagttgtctccaagttctgtcctgtttcctgcagTACACTGCCGGGAGCTGCTTTGCTGTGATGCTGGGAGGCCCTGAGGAGACAGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACAGgtgagtagggccctgttgagaaccatcaatagagtgatataatataatat Alignment from Spaln_nt2Genome GCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aagaggcttgcctcctgagttgtctccaagttctgtcctgtttcctgcagtacactgccgggagCTGCTTT-GCTGTGATGCTGGGAGGCCCTGAGGAGACAGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACAGgtgagtagggccctgttgagaaccatcaatagagtgatataatataatat Alignment from Pairagon ------------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aagaggcttgcctcctgagttgtctccaagttctgtcctgtttcctgcagTACACTGCCGGGAGCTGCTTTGCTGTGATGCTGGGAGGCCCTGAGGAGACAGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACAGgtgagtagggccctgttgagaaccatcaatagagtgatataatataatat Alignment from Exonerate_protein2genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aagaggcttgcctcctgagttgtctccaagttctgtcctgtttcctgcagtacactgccgggAGCTGCTTTGCTGTGATGCTGGGAGGCCCTGAGGAGACAGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACAGgtgagtagggccctgttgagaaccatcaatagagtgatataatataatat Alignment from Exonerate_coding2genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aagaggcttgcctcctgagttgtctccaagttctgtcctgtttcctgcagtacactgccgggAGCTGCTTTGCTGTGATGCTGGGAGGCCCTGAGGAGACAGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACAGgtgagtagggccctgttgagaaccatcaatagagtgatataatataatat Alignment from GeneWise ------------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAGGAAG aagaggcttgcctcctgagttgtctccaagttctgtcctgtttcctgcagTACACTGCCGGGAGCTGCTTTGCTGTGATGCTGGGAGGCCCTGAGGAGACAGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACAGGTGAgtagggccctgttgagaaccatcaatagagtgatataatataatat #### 1700123I01Rik_ID1493_5 --> 2 - 0 Original Alignment gg---------AAACCAGCAGATGATATTCCTCTTGAGTTG acaggtaatacagtcttgccccatcatcactctgactttacctcttccaggtCGCCCAGATAAACCTGCAGATGATATTCCACTTGAGTTGgtaatatttaatggtttcttttacgtctccatctagattaatcaagccac Alignment from CESAR ggAAACCAGCAGATGATATTCCTCTTGAGTTG cccaaaaacacaggtaatacagtcttgccccatcactttacctcttccaggtcgcccagatAAACCTGCAGATGATATTCCACTTGAGTTGgtaatatttaatggtttcttttacgtctccatctagattaatcaagccac Alignment from Spaln_aa2Genome GGAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtaatacagtcttgccccatcatcactctgactttacctcttccaggtcgcccagATAAACCTGCAGATGATATTCCACTTGAGTTGgtaatatttaatggtttcttttacgtctccatctagattaatcaagccac Alignment from Spaln_nt2Genome GGAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtaatacagtcttgccccatcatcactctgactttacctcttccaggtcgcccagATAAACCTGCAGATGATATTCCACTTGAGTTGgtaatatttaatggtttcttttacgtctccatctagattaatcaagccac Alignment from Pairagon GGAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtaatacagtcttgccccatcatcactctgactttacctcttccaggtcgcccagATAAACCTGCAGATGATATTCCACTTGAGTTGgtaatatttaatggtttcttttacgtctccatctagattaatcaagccac Alignment from Exonerate_protein2genome GGAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtaatacagtcttgccccatcatcactctgactttacctcttccaggtcgcccagATAAACCTGCAGATGATATTCCACTTGAGTTGgtaatatttaatggtttcttttacgtctccatctagattaatcaagccac Alignment from Exonerate_coding2genome GGAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtaatacagtcttgccccatcatcactctgactttacctcttccaggtcgcccagATAAACCTGCAGATGATATTCCACTTGAGTTGgtaatatttaatggtttcttttacgtctccatctagattaatcaagccac Alignment from GeneWise GGAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtaatacagtcttgccccatcatcactctgactttacctcttccaggtcgcccagATAAACCTGCAGATGATATTCCACTTGAGTTGgtaatatttaatggtttcttttacgtctccatctagattaatcaagccac #### 1810009A15Rik_ID2453_2 --> 0 - 2 Original Alignment ---GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGgc aggtgggaagcctaggccttacatggatctcacagccatgtctaccttagGATGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGCTTGACTATGAAGCACCACCTCAAGAAGCGGgcgtgaggacaaatccacttcttaccagatatagtgaatctttagtttactg Alignment from CESAR ---GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGgc aggtgggaagcctaggccttacatggatctcacagccatgtctaccttagGATGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGCTTGACTATGAAGCACCACCTCAAGAAGCGGgcgtgaggacaaatccacttcttaccagatatagtgaatctttagtttactg Alignment from Spaln_aa2Genome ---GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGC aggtgggaagcctaggccttacatggatctcacagccatgtctaccttagGATGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGCTTGACTATGAAGCACCACCTCAAGAAGCGGGCgtgaggacaaatccacttcttaccagatatagtgaatctttagtttactg Alignment from Spaln_nt2Genome GA---GCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGC aggtgggaagcctaggccttacatggatctcacagccatgtctaccttagGATGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGCTTGACTATGAAGCACCACCTCAAGAAGCGGGCgtgaggacaaatccacttcttaccagatatagtgaatctttagtttactg Alignment from Pairagon ---GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGC aggtgggaagcctaggccttacatggatctcacagccatgtctaccttagGATGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGCTTGACTATGAAGCACCACCTCAAGAAGCGGGCgtgaggacaaatccacttcttaccagatatagtgaatctttagtttactg Alignment from Exonerate_protein2genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGC aggtgggaagcctaggccttacatggatctcacagccatgtctaccttaggatGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGCTTGACTATGAAGCACCACCTCAAGAAGCGGGCgtgaggacaaatccacttcttaccagatatagtgaatctttagtttactg Alignment from Exonerate_coding2genome CCCCGGACGGAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGC aggtgggaagcctaggccttacatggatctcacagccatgtctaCCTTAGGATGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGCTTGACTATGAAGCACCACCTCAAGAAGCGGGCgtgaggacaaatccacttcttaccagatatagtgaatctttagtttactg Alignment from GeneWise GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGC aggtgggaagcctaggccttacatggatctcacagccatgtctaccttaggatGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGCTTGACTATGAAGCACCACCTCAAGAAGCGGGCgtgaggacaaatccacttcttaccagatatagtgaatctttagtttactg #### AI846148_ID2142_4 --> 2 - 1 Original Alignment ttACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAg aagagtgagtggagtgaaatctgccaagtcattattttgattattcttagttACCCCAGTCATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGAC---------ggtatggtgagcaacttgaattgggggtgacatgtctgaataactcaagca Alignment from CESAR ttACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAg aagagtgagtggagtgaaatctgccaagtcattattttgattattcttagttACCCCAGTCATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGAC---------ggtatggtgagcaacttgaattgggggtgacatgtctgaataactcaagca Alignment from Spaln_aa2Genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG aagagtgagtggagtgaaatctgccaagtcattattttgattattcttagTTACCCCAGTCATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACGGTATGGTGAgcaacttgaattgggggtgacatgtctgaataactcaagca Alignment from Spaln_nt2Genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACC aagagtgagtggagtgaaatctgccaagtcattattttgattattcttagTTACCCCAGTCATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACGgtatggtgagcaacttgaattgggggtgacatgtctgaataactcaagca Alignment from Pairagon TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACC aagagtgagtggagtgaaatctgccaagtcattattttgattattcttagTTACCCCAGTCATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACGgtatggtgagcaacttgaattgggggtgacatgtctgaataactcaagca Alignment from Exonerate_protein2genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACC aagagtgagtggagtgaaatctgccaagtcattattttgattattcttagTTACCCCAGTCATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACGgtatggtgagcaacttgaattgggggtgacatgtctgaataactcaagca Alignment from Exonerate_coding2genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACC aagagtgagtggagtgaaatctgccaagtcattattttgattattcttagTTACCCCAGTCATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACGgtatggtgagcaacttgaattgggggtgacatgtctgaataactcaagca Alignment from GeneWise TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGAC aagagtgagtggagtgaaatctgccaagtcattattttgattattcttagTTACCCCAGTCATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACGGTATGgtgagcaacttgaattgggggtgacatgtctgaataactcaagca #### AI846148_ID2143_3 --> 2 - 1 Original Alignment agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg tagagagagctgaaggctcccaagcgactaaaatgtacactgctttgcagaa---GGCCAGGATGGTCGGCCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCT---GAACTGCCGagtaagccaccaagaatccttgggtttggtaggacatcctatagtaaggga Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gagtagagagagctgaaggctcccagactaaaatgtacactgctttgcagaa---GGCCAGGATGGTCGGCCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCT---GAACTGCCGagtaagccaccaagaatccttgggtttggtaggacatcctatagtaaggga Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG tagagagagctgaaggctcccaagcgactaaaatgtacactgctttgcagAAGGCCAGGATGGT---CGGCCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCT---GAACTGCCGAgtaagccaccaagaatccttgggtttggtaggacatcctatagtaaggga Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG tagagagagctgaaggctcccaagcgactaaaatgtacactgctttgcagA---AGGCCAGGATGGTCGGCCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCC---TGAACTGCCGAgtaagccaccaagaatccttgggtttggtaggacatcctatagtaaggga Alignment from Pairagon AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG tagagagagctgaaggctcccaagcgactaaaatgtacactgctttgcagA---AGGCCAGGATGGTCGGCCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCC---TGAACTGCCGAgtaagccaccaagaatccttgggtttggtaggacatcctatagtaaggga Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG tagagagagctgaaggctcccaagcgactaaaatgtacactgctttgcagAA---GGCCAGGATGGTCGGCCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCT---GAACTGCCGAgtaagccaccaagaatccttgggtttggtaggacatcctatagtaaggga Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG tagagagagctgaaggctcccaagcgactaaaatgtacactgctttgcagAA---GGCCAGGATGGTCGGCCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCT---GAACTGCCGAgtaagccaccaagaatccttgggtttggtaggacatcctatagtaaggga Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG tagagagagctgaaggctcccaagcgactaaaatgtacactgctttgcagAA---GGCCAGGATGGTCGGCCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCT---GAACTGCCGAgtaagccaccaagaatccttgggtttggtaggacatcctatagtaaggga #### Acsl5_ID11610_15 --> 2 - 0 Original Alignment gtCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG ttgctctagggttgccctgtcctccttccaccaaccattccttgttgcaggt------------CCAGTAGCTTGCAATTTTGTAAAACTTGAAGATGTGGCAGACATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaagggggtgtgatacagcacctatctaatgggcatggagaaactttcc Alignment from CESAR gtCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG atataaatgtgcttgctctagggttttccaccaaccattccttgttgcaggt------------CCAGTAGCTTGCAATTTTGTAAAACTTGAAGATGTGGCAGACATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaagggggtgtgatacagcacctatctaatgggcatggagaaactttcc Alignment from Spaln_aa2Genome CTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG ttgctctagggttgccctgtcctccttccaccaaccattccttgttgcagGTCCAGTAGCTTGCAATTTTGTAAAACTTGAAGATGTGGCAGACATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaagggggtgtgatacagcacctatctaatgggcatggagaaactttcc Alignment from Spaln_nt2Genome CTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG ttgctctagggttgccctgtcctccttccaccaaccattccttgttgcagGTCCAGTAGCTTGCAATTTTGTAAAACTTGAAGATGTGGCAGACATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaagggggtgtgatacagcacctatctaatgggcatggagaaactttcc Alignment from Pairagon GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG ttgctctagggttgccctgtcctccttccaccaaccattccttgttgcagG------------TCCAGTAGCTTGCAATTTTGTAAAACTTGAAGATGTGGCAGACATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaagggggtgtgatacagcacctatctaatgggcatggagaaactttcc Alignment from Exonerate_protein2genome GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG ttgctctagggttgccctgtcctccttccaccaaccatTCCTTGTTGCAGGTCCAGTAGCTTGCAATTTTGTAAAACTTGAAGATGTGGCAGACATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaagggggtgtgatacagcacctatctaatgggcatggagaaactttcc Alignment from Exonerate_coding2genome GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG ttgctctagggttgccctgtcctccttccaccaaccatTCCTTGTTGCAGGTCCAGTAGCTTGCAATTTTGTAAAACTTGAAGATGTGGCAGACATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaagggggtgtgatacagcacctatctaatgggcatggagaaactttcc Alignment from GeneWise GTCATGTTGGGACTCCAGTGGCTTGCAATTTTGTAAAGCTGGAAGATGTGGCTGACATGAACTACTTTTCAGTAAACAACGAAGGCGAG ttgctctagggttgccctgtcctccttccaccaaccattccttgttgcagGT------------CCAGTAGCTTGCAATTTTGTAAAACTTGAAGATGTGGCAGACATGAACTACTTTTCAGTAAACAATAAAGGTGAGgtaagggggtgtgatacagcacctatctaatgggcatggagaaactttcc #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment ---TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG ttcaggcatcttaggccttttagttacgatgtgacctgttctctctgaagATCTGTGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTTGAAATCCCTTGAGCAGgtactgatttgggatgccttttgccattctggttcttcaaggtctagcta Alignment from CESAR ---TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG ttcaggcatcttaggccttttagttacgatgtgacctgttctctctgaagATCTGTGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTTGAAATCCCTTGAGCAGgtactgatttgggatgccttttgccattctggttcttcaaggtctagcta Alignment from Spaln_aa2Genome TGTGTAAAG---GAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG ttcaggcatcttaggccttttagttacgatgtgacctgttctctctgaagATCTGTGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTTGAAATCCCTTGAGCAGgtactgatttgggatgccttttgccattctggttcttcaaggtctagcta Alignment from Spaln_nt2Genome TGTGTAAAGGA---AGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG ttcaggcatcttaggccttttagttacgatgtgacctgttctctctgaagATCTGTGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTTGAAATCCCTTGAGCAGgtactgatttgggatgccttttgccattctggttcttcaaggtctagcta Alignment from Pairagon ---TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG ttcaggcatcttaggccttttagttacgatgtgacctgttctctctgaagATCTGTGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTTGAAATCCCTTGAGCAGgtactgatttgggatgccttttgccattctggttcttcaaggtctagcta Alignment from Exonerate_protein2genome ---TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG ttcaggcatcttaggccttttagttacgatgtgacctgttctctctgaagATCTGTGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTTGAAATCCCTTGAGCAGgtactgatttgggatgccttttgccattctggttcttcaaggtctagcta Alignment from Exonerate_coding2genome ---TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG ttcaggcatcttaggccttttagttacgatgtgacctgttctctctgaagATCTGTGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTTGAAATCCCTTGAGCAGgtactgatttgggatgccttttgccattctggttcttcaaggtctagcta Alignment from GeneWise ---TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG ttcaggcatcttaggccttttagttacgatgtgacctgttctctctgaagATCTGTGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGTGGCTTGAAATCCCTTGAGCAGgtactgatttgggatgccttttgccattctggttcttcaaggtctagcta #### Actn3_ID691_19 --> 0 - 0 Original Alignment AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG--------- gagaggagacttcacctgatagacattactgcctccctccctctccacagAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGGCGCTCCCTgtgagggccttgcccagttcaaacacaccatcagatcagatctcctcctt Alignment from CESAR AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG--------- aagcggagacttcacctgatagacattactgcctccctccctctccacagAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGGCGCTCCCTgtgagggccttgcccagttcaaacacaccatcagatcagatctcctcctt Alignment from Spaln_aa2Genome AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG gagaggagacttcacctgatagacattactgcctccctccctctccacagAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgcgctccctgtgagggccttgcccagttcaaacacaccatcagatcagatctcctcctt Alignment from Spaln_nt2Genome AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG gagaggagacttcacctgatagacattactgcctccctccctctccacagAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgcgctccctgtgagggccttgcccagttcaaacacaccatcagatcagatctcctcctt Alignment from Pairagon AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG--------- gagaggagacttcacctgatagacattactgcctccctccctctccacagAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGGCGCTCCCTgtgagggccttgcccagttcaaacacaccatcagatcagatctcctcctt Alignment from Exonerate_protein2genome AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG gagaggagacttcacctgatagacattactgcctccctccctctccacagAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgcgctccctgtgagggccttgcccagttcaaacacaccatcagatcagatctcctcctt Alignment from Exonerate_coding2genome AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG gagaggagacttcacctgatagacattactgcctccctccctctccacagAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgcgctccctgtgagggccttgcccagttcaaacacaccatcagatcagatctcctcctt Alignment from GeneWise AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG--------- gagaggagacttcacctgatagacattactgcctccctccctctccacagAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGGCGCTCCCTgtgagggccttgcccagttcaaacacaccatcagatcagatctcctcctt #### Actn3_ID694_16 --> 0 - 0 Original Alignment GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG--------------- acaccttattattgcagacttggccatttcccttccgtgcctccccgcagGTCAGAAAAAAACTGGCCCCTGCCCGTGACCAGACATTCCAGGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAGGTGGAGCGTTTGTTGATTGAAgtgcgcgttgggaggctgggccagtacagagatcggcatggagcaaagta Alignment from CESAR GTCAGAAAG---CTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG- acaccttattattgcagacttggccatttcccttccgtgcctccccgcagGTCAGAAAAAAACTGGCCCCTGCCCGTGACCAGACATTCCAGGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAGGTGGAGCgtttgttgattgaagtgcgcgttgggaggctgggccagtacagagatcggcatggagcaaagta Alignment from Spaln_aa2Genome GTCAGAAAGCTGGTACCC---AGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAGGAAG acaccttattattgcagacttggccatttcccttccgtgcctccccgcagGTCAGAAAAAAACTGGCCCCTGCCCGTGACCAGACATTCCAGGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAGGTGGAG---Cgtttgttgattgaagtgcgcgttgggaggctgggccagtacagagatcggcatggagcaaagta Alignment from Spaln_nt2Genome GTCAGAAAG---CTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG- acaccttattattgcagacttggccatttcccttccgtgcctccccgcagGTCAGAAAAAAACTGGCCCCTGCCCGTGACCAGACATTCCAGGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAGGTGGAGCgtttgttgattgaagtgcgcgttgggaggctgggccagtacagagatcggcatggagcaaagta Alignment from Pairagon GTCAG---AAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGG------------------------------------------------------------------- acaccttattattgcagacttggccatttcccttccgtgcctccccgcagGTCAGAAAAAAACTGGCCCCTGCCCGTGACCAGACATTCCAGGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAGGTGGAGCGTTTGTTGATTGAAGTGCGCGTTGGGAGGCTGGGCCAGTACAGAGATCGGCATGGAGCAAAGTA Alignment from Exonerate_protein2genome GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAA acaccttattattgcagacttggccatttcccttccgtgcctccccgcagGTCAGAAAAAAACTGGCCCCTGCCCGTGACCAGACATTCCAGGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAGgtggagcgtttgttgattgaagtgcgcgttgggaggctgggccagtacagagatcggcatggagcaaagta Alignment from Exonerate_coding2genome GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAA acaccttattattgcagacttggccatttcccttccgtgcctccccgcagGTCAGAAAAAAACTGGCCCCTGCCCGTGACCAGACATTCCAGGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAGgtggagcgtttgttgattgaagtgcgcgttgggaggctgggccagtacagagatcggcatggagcaaagta Alignment from GeneWise GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG------------GAA acaccttattattgcagacttggccatttcccttccgtgcctccccgcagGTCAGAAAAAAACTGGCCCCTGCCCGTGACCAGACATTCCAGGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAGGTGGAGCGTTTGTTGATTGAAgtgcgcgttgggaggctgggccagtacagagatcggcatggagcaaagta #### Actn3_ID695_15 --> 0 - 0 Original Alignment ------AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatggggatactggtttttctttgtcatttcactagCTAGATAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATTTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaaggaaccctgtgtgttccttacttattcttgcacttttaatacaatg Alignment from CESAR ------AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatggggatactggtttttctttgtcatttcactagCTAGATAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATTTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaaggaaccctgtgtgttccttacttattcttgcacttttaatacaatg Alignment from Spaln_aa2Genome ------AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatggggatactggtttttctttgtcatttcactagCTAGATAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATTTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaaggaaccctgtgtgttccttacttattcttgcacttttaatacaatg Alignment from Spaln_nt2Genome A--GCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatggggatactggtttttctttgtcatttcactagctagATAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATTTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaaggaaccctgtgtgttccttacttattcttgcacttttaatacaatg Alignment from Pairagon ------AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatggggatactggtttttctttgtcatttcactagCTAGATAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATTTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaaggaaccctgtgtgttccttacttattcttgcacttttaatacaatg Alignment from Exonerate_protein2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatggggatactggtttttctttgtcatttcactagctagatAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATTTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaaggaaccctgtgtgttccttacttattcttgcacttttaatacaatg Alignment from Exonerate_coding2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatggggatactggtttttctttgtcatttcactagctagatAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATTTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaaggaaccctgtgtgttccttacttattcttgcacttttaatacaatg Alignment from GeneWise ------AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatggggatactggtttttctttgtcatttcactagCTAGATAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATTTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaaggaaccctgtgtgttccttacttattcttgcacttttaatacaatg #### Actn3_ID696_14 --> 0 - 0 Original Alignment AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG aagaccagcagtctgagaagaatctggacctactcgtgtcaaacttgtagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACA---gtgagcagtggacacattaggcagggagtctttggatgcactttatgtgg Alignment from CESAR AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG aagaccagcagtctgagaagaatctggacctactcgtgtcaaacttgtagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACA---gtgagcagtggacacattaggcagggagtctttggatgcactttatg Alignment from Spaln_aa2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACC aagaccagcagtctgagaagaatctggacctactcgtgtcaaacttgtagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACAgtgagcagtggacacattaggcagggagtctttggatgcactttatgtgg Alignment from Spaln_nt2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG- aagaccagcagtctgagaagaatctggacctactcgtgtcaaacttgtagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACAGTGAgcagtggacacattaggcagggagtctttggatgcactttatgtgg Alignment from Pairagon AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACC aagaccagcagtctgagaagaatctggacctactcgtgtcaaacttgtagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACAgtgagcagtggacacattaggcagggagtctttggatgcactttatgtgg Alignment from Exonerate_protein2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aagaccagcagtctgagaagaatctggacctactcgtgtcaaacttgtagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACAgtgagcagtggacacattaggcagggagtctttggatgcactttatgtgg Alignment from Exonerate_coding2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aagaccagcagtctgagaagaatctggacctactcgtgtcaaacttgtagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACAgtgagcagtggacacattaggcagggagtctttggatgcactttatgtgg Alignment from GeneWise AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACC aagaccagcagtctgagaagaatctggacctactcgtgtcaaacttgtagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACAgtgagcagtggacacattaggcagggagtctttggatgcactttatgtgg #### Actn3_ID697_13 --> 1 - 0 Original Alignment tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG--------- cttaactctgccacataccttgggtctaccactgttcattttcttctcagtGAGCTTGACTACCATGAGGCGACTTCTGTGAACAGCCGGTGCCAAGCTATCTGTGACCAGTGGGATAACCTGGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGGGGCGGCCGgtacttggtagggccgcaaggagataagaccagcagtctgagaagaatct Alignment from CESAR tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG--------- cttaactctgccacataccttgggtctaccactgttcattttcttctcagtGAGCTTGACTACCATGAGGCGACTTCTGTGAACAGCCGGTGCCAAGCTATCTGTGACCAGTGGGATAACCTGGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGGGGCGGCCGgtacttggtagggccgcaaggagataagaccagcagtctgagaagaatct Alignment from Spaln_aa2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAGAG cttaactctgccacataccttgggtctaccactgttcattttcttctcagTGAGCTTGACTACCATGAGGCGACTTCTGTGAACAGCCGGTGCCAAGCTATCTGTGACCAGTGGGATAACCTGGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGGGgcggccggtacttggtagggccgcaaggagataagaccagcagtctgagaagaatct Alignment from Spaln_nt2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG----- cttaactctgccacataccttgggtctaccactgttcattttcttctcagTGAGCTTGACTACCATGAGGCGACTTCTGTGAACAGCCGGTGCCAAGCTATCTGTGACCAGTGGGATAACCTGGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGGGGCGgccggtacttggtagggccgcaaggagataagaccagcagtctgagaagaatct Alignment from Pairagon TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAG------------------------------------------------------------- cttaactctgccacataccttgggtctaccactgttcattttcttctcagTGAGCTTGACTACCATGAGGCGACTTCTGTGAACAGCCGGTGCCAAGCTATCTGTGACCAGTGGGATAACCTGGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGGGGCGGCCGGTACTTGGTAGGGCCGCAAGGAGATAAGACCAGCAGTCTGAGAAGAATCT Alignment from Exonerate_protein2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cttaactctgccacataccttgggtctaccactgttcattttcttctcagTGAGCTTGACTACCATGAGGCGACTTCTGTGAACAGCCGGTGCCAAGCTATCTGTGACCAGTGGGATAACCTGGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgggcggccggtacttggtagggccgcaaggagataagaccagcagtctgagaagaatct Alignment from Exonerate_coding2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG cttaactctgccacataccttgggtctaccactgttcattttcttctcagTGAGCTTGACTACCATGAGGCGACTTCTGTGAACAGCCGGTGCCAAGCTATCTGTGACCAGTGGGATAACCTGGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgggcggccggtacttggtagggccgcaaggagataagaccagcagtctgagaagaatct Alignment from GeneWise TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG--------- cttaactctgccacataccttgggtctaccactgttcattttcttctcagTGAGCTTGACTACCATGAGGCGACTTCTGTGAACAGCCGGTGCCAAGCTATCTGTGACCAGTGGGATAACCTGGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGGGGCGGCCGgtacttggtagggccgcaaggagataagaccagcagtctgagaagaatct #### Actr1a_ID9870_10 --> 0 - 2 Original Alignment ------ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTgg gatattagaactccaggagagagtgtacgtcttttgtacttttcccacagGTAGATATATCTGCCCCCCAGGAGCAACTGTATTCCACATGGATCgggtaagcaacccttctaatggaataggatgggaagtaaaagcttttgatca Alignment from CESAR ------ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTgg gatattagaactccaggagagagtgtacgtcttttgtacttttcccacagGTAGATATATCTGCCCCCCAGGAGCAACTGTATTCCACATGGATCgggtaagcaacccttctaatggaataggatgggaagtaaaagcttttgatca Alignment from Spaln_aa2Genome ATATCTGCACCCCAG------GAGAGACTGTATTCCACATGGATTGG gatattagaactccaggagagagtgtacgtcttttgtacttttcccacagGTAGATATATCTGCCCCCCAGGAGCAACTGTATTCCACATGGATCGGgtaagcaacccttctaatggaataggatgggaagtaaaagcttttgatca Alignment from Spaln_nt2Genome ATATCTGCACCCCA------GGAGAGACTGTATTCCACATGGATTGG gatattagaactccaggagagagtgtacgtcttttgtacttttcccacagGTAGATATATCTGCCCCCCAGGAGCAACTGTATTCCACATGGATCGGgtaagcaacccttctaatggaataggatgggaagtaaaagcttttgatca Alignment from Pairagon ------ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatattagaactccaggagagagtgtacgtcttttgtacttttcccacagGTAGATATATCTGCCCCCCAGGAGCAACTGTATTCCACATGGATCGGgtaagcaacccttctaatggaataggatgggaagtaaaagcttttgatca Alignment from Exonerate_protein2genome ATCAGGATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatattagaactccaggagagagtgtacgtcttttgtacttttcccacagGTAGATATATCTGCCCCCCAGGAGCAACTGTATTCCACATGGATCGGgtaagcaacccttctaatggaataggatgggaagtaaaagcttttgatca Alignment from Exonerate_coding2genome ATCAGGATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatattagaactccaggagagagtgtacgtcttttgtacttttcccacagGTAGATATATCTGCCCCCCAGGAGCAACTGTATTCCACATGGATCGGgtaagcaacccttctaatggaataggatgggaagtaaaagcttttgatca Alignment from GeneWise ------ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatattagaactccaggagagagtgtacgtcttttgtacttttcccacagGTAGATATATCTGCCCCCCAGGAGCAACTGTATTCCACATGGATCGGgtaagcaacccttctaatggaataggatgggaagtaaaagcttttgatca #### Actr1a_ID9872_8 --> 0 - 1 Original Alignment ---------ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAg cacaagttggtggtctcagtctgctcctaatttgaaacttcaccttccagAGGATCAGTATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAggtgagtgtatccacttttgagccaaccatagaaacaacctgatcatttct Alignment from CESAR ---------ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAg cacaagttggtggtctcagtctgctcctaatttgaaacttcaccttccagAGGATCAGTATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAggtgagtgtatccacttttgagccaaccatagaaacaacctgatcatttct Alignment from Spaln_aa2Genome ATTGGCCCTTCCCGG---------TTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG cacaagttggtggtctcagtctgctcctaatttgaaacttcaccttccagAGGATCAGTATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtgtatccacttttgagccaaccatagaaacaacctgatcatttct Alignment from Spaln_nt2Genome ATTGGCCCTTC-CCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG cacaagttggtggtctcagtctgctcctaatttgaaacttcaccttccagaggatcagTATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtgtatccacttttgagccaaccatagaaacaacctgatcatttct Alignment from Pairagon ---------ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG cacaagttggtggtctcagtctgctcctaatttgaaacttcaccttccagAGGATCAGTATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtgtatccacttttgagccaaccatagaaacaacctgatcatttct Alignment from Exonerate_protein2genome GATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG cacaagttggtggtctcagtctgctcctaatttgaaacttcaccttccagaggatcagTATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtgtatccacttttgagccaaccatagaaacaacctgatcatttct Alignment from Exonerate_coding2genome GATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG cacaagttggtggtctcagtctgctcctaatttgaaacttcaccttccagaggatcagTATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtgtatccacttttgagccaaccatagaaacaacctgatcatttct Alignment from GeneWise ---------ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG cacaagttggtggtctcagtctgctcctaatttgaaacttcaccttccagAGGATCAGTATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtgtatccacttttgagccaaccatagaaacaacctgatcatttct #### Adrbk1_ID476_19 --> 0 - 0 Original Alignment ------CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT ctaggaccttcaccttctttcacaactcgcccttctatctgtctcctcagGCACCACAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCACAGATCAAGGAACACAAGTGTCTACTACTTAAGGTCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATgtgagagagagtgaggggtgaggcttatggtattggtggaaggtaagtgc Alignment from CESAR ------CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT ctaggaccttcaccttctttcacaactcgcccttctatctgtctcctcagGCACCACAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCACAGATCAAGGAACACAAGTGTCTACTACTTAAGGTCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATgtgagagagagtgaggggtgaggcttatggtattggtggaaggtaagtgc Alignment from Spaln_aa2Genome GCTCCGCAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT ctaggaccttcaccttctttcacaactcgcccttctatctgtctcctcagGCACCACAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCACAGATCAAGGAACACAAGTGTCTACTACTTAAGGTCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATgtgagagagagtgaggggtgaggcttatggtattggtggaaggtaagtgc Alignment from Spaln_nt2Genome GCTCCGCAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT ctaggaccttcaccttctttcacaactcgcccttctatctgtctcctcagGCACCACAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCACAGATCAAGGAACACAAGTGTCTACTACTTAAGGTCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATgtgagagagagtgaggggtgaggcttatggtattggtggaaggtaagtgc Alignment from Pairagon ------CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT ctaggaccttcaccttctttcacaactcgcccttctatctgtctcctcagGCACCACAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCACAGATCAAGGAACACAAGTGTCTACTACTTAAGGTCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATgtgagagagagtgaggggtgaggcttatggtattggtggaaggtaagtgc Alignment from Exonerate_protein2genome GCTCCGCAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT ctaggaccttcaccttctttcacaactcgcccttctatctgtctcctcagGCACCACAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCACAGATCAAGGAACACAAGTGTCTACTACTTAAGGTCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATgtgagagagagtgaggggtgaggcttatggtattggtggaaggtaagtgc Alignment from Exonerate_coding2genome GCTCCGCAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT ctaggaccttcaccttctttcacaactcgcccttctatctgtctcctcagGCACCACAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCACAGATCAAGGAACACAAGTGTCTACTACTTAAGGTCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATgtgagagagagtgaggggtgaggcttatggtattggtggaaggtaagtgc Alignment from GeneWise ------CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT ctaggaccttcaccttctttcacaactcgcccttctatctgtctcctcagGCACCACAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCACAGATCAAGGAACACAAGTGTCTACTACTTAAGGTCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATgtgagagagagtgaggggtgaggcttatggtattggtggaaggtaagtgc #### Adrbk1_ID480_15 --> 1 - 0 Original Alignment gGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG atccagatgccaggtaataggtaatagggaggagagctgtttcattgcaggGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTC---------gtaagaataattacaaactaacccacagggagagccatgtaccttctctg Alignment from CESAR gGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG atccagatgccaggtaataggtaatagggaggagagctgtttcattgcaggGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTC---------gtaagaataattacaaactaacccacagggagagccatgta Alignment from Spaln_aa2Genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTC atccagatgccaggtaataggtaatagggaggagagctgtttcattgcagGGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCgtaagaataattacaaactaacccacagggagagccatgtaccttctctg Alignment from Spaln_nt2Genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTC atccagatgccaggtaataggtaatagggaggagagctgtttcattgcagGGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCgtaagaataattacaaactaacccacagggagagccatgtaccttctctg Alignment from Pairagon GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTC atccagatgccaggtaataggtaatagggaggagagctgtttcattgcagGGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCgtaagaataattacaaactaacccacagggagagccatgtaccttctctg Alignment from Exonerate_protein2genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG atccagatgccaggtaataggtaatagggaggagagctgtttcattgcagGGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCGTAAGAATAattacaaactaacccacagggagagccatgtaccttctctg Alignment from Exonerate_coding2genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG atccagatgccaggtaataggtaatagggaggagagctgtttcattgcagGGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCGTAAGAATAattacaaactaacccacagggagagccatgtaccttctctg Alignment from GeneWise -GCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTC atccagatgccaggtaataggtaatagggaggagagctgtttcattgcagGGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCgtaagaataattacaaactaacccacagggagagccatgtaccttctctg #### Adrbk1_ID481_14 --> 0 - 2 Original Alignment GCTGTAGAGCTGCCTGACTCCTTCTCCCCTGAACTCCGATCCCTGCTGGAAGGTTTGTTGCAGAGGGACGTCAATCGGAGACTAGGCTGTCTGGGC---CGT---gg ggtaggttctcttcctagctactgttgatgtgaatgtcttacattttcagGCTGTAGAACTGCTTGATTCCTTCTCCCCTGAACTCCGTTCCCTGTTGGAGGGTTTGCTGCAGAGGGACATCAACCGGAGGTCGGGCTGTCTGGGCCGTCGGTGGgggtgagcatcatgacctcccagccatggcttttatttctgttaatgcagcc Alignment from CESAR GCTGTAGAGCTGCCTGACTCCTTCTCCCCTGAACTCCGATCCCTGCTGGAAGGTTTGTTGCAGAGGGACGTCAATCGGAGACTAGGCTGTCTGGGCCGTgg ggtaggttctcttcctagctactgttgatgtgaatgtcttacattttcagGCTGTAGAACTGCTTGATTCCTTCTCCCCTGAACTCCGTTCCCTGTTGGAGGGTTTGCTGCAGAGGGACATCAACCGGAGGTCGGGCTGTCTGGGCCGTcggtgggggtgagcatcatgacctcccagccatggcttttatttctgttaatgcagcc Alignment from Spaln_aa2Genome GCTGTAGAGCTGCCTGACTCCTTCTCCCCTGAACTCCGATCCCTGCTGGAAGGTTTGTTGCAGAGGGACGTCAATCGGAGACTAGGCTGTCTGGGCCGTGG ggtaggttctcttcctagctactgttgatgtgaatgtcttacattttcagGCTGTAGAACTGCTTGATTCCTTCTCCCCTGAACTCCGTTCCCTGTTGGAGGGTTTGCTGCAGAGGGACATCAACCGGAGGTCGGGCTGTCTGGGCCGTCGgtgggggtgagcatcatgacctcccagccatggcttttatttctgttaatgcagcc Alignment from Spaln_nt2Genome GCTGTAGAGCTGCCTGACTCCTTCTCCCCTGAACTCCGATCCCTGCTGGAAGGTTTGTTGCAGAGGGACGTCAATCGGAGACTAGGCTGTCTGGGCCGTGG ggtaggttctcttcctagctactgttgatgtgaatgtcttacattttcagGCTGTAGAACTGCTTGATTCCTTCTCCCCTGAACTCCGTTCCCTGTTGGAGGGTTTGCTGCAGAGGGACATCAACCGGAGGTCGGGCTGTCTGGGCCGTCGgtgggggtgagcatcatgacctcccagccatggcttttatttctgttaatgcagcc Alignment from Pairagon GCTGTAGAGCTGCCTGACTCCTTCTCCCCTGAACTCCGATCCCTGCTGGAAGGTTTGTTGCAGAGGGACGTCAATCGGAGACTAGGCTGTCTGGGCCGTGG ggtaggttctcttcctagctactgttgatgtgaatgtcttacattttcagGCTGTAGAACTGCTTGATTCCTTCTCCCCTGAACTCCGTTCCCTGTTGGAGGGTTTGCTGCAGAGGGACATCAACCGGAGGTCGGGCTGTCTGGGCCGTCGgtgggggtgagcatcatgacctcccagccatggcttttatttctgttaatgcagcc Alignment from Exonerate_protein2genome GCTGTAGAGCTGCCTGACTCCTTCTCCCCTGAACTCCGATCCCTGCTGGAAGGTTTGTTGCAGAGGGACGTCAATCGGAGACTAGGCTGTCTGGGCCGTGG ggtaggttctcttcctagctactgttgatgtgaatgtcttacattttcagGCTGTAGAACTGCTTGATTCCTTCTCCCCTGAACTCCGTTCCCTGTTGGAGGGTTTGCTGCAGAGGGACATCAACCGGAGGTCGGGCTGTCTGGGCCGTCGgtgggggtgagcatcatgacctcccagccatggcttttatttctgttaatgcagcc Alignment from Exonerate_coding2genome GCTGTAGAGCTGCCTGACTCCTTCTCCCCTGAACTCCGATCCCTGCTGGAAGGTTTGTTGCAGAGGGACGTCAATCGGAGACTAGGCTGTCTGGGCCGTGG ggtaggttctcttcctagctactgttgatgtgaatgtcttacattttcagGCTGTAGAACTGCTTGATTCCTTCTCCCCTGAACTCCGTTCCCTGTTGGAGGGTTTGCTGCAGAGGGACATCAACCGGAGGTCGGGCTGTCTGGGCCGTCGgtgggggtgagcatcatgacctcccagccatggcttttatttctgttaatgcagcc Alignment from GeneWise GCTGTAGAGCTGCCTGACTCCTTCTCCCCTGAACTCCGATCCCTGCTGGAAGGTTTGTTGCAGAGGGACGTCAATCGGAGACTAGGCTGTCTGGGCCGTGG ggtaggttctcttcctagctactgttgatgtgaatgtcttacattttcagGCTGTAGAACTGCTTGATTCCTTCTCCCCTGAACTCCGTTCCCTGTTGGAGGGTTTGCTGCAGAGGGACATCAACCGGAGGTCGGGCTGTCTGGGCCGTCGgtgggggtgagcatcatgacctcccagccatggcttttatttctgttaatgcagcc #### Adrbk1_ID483_12 --> 1 - 2 Original Alignment GTgt gGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GTgtgtaatggcccacatattcactccacgggttttgtctggcttttcaggGGCACACATGGGTACATAGCCCCCAAGGTACTACAAAAAGGTGTAGCCTATGACAGCAGTGCTGACTGGTTCTCCTTGGGATGCATGCTCTTCAAGTTGTTG---gggtgactggttggcacatggggaacaagaatgttggggggagagccctgca Alignment from CESAR GTgt gGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGgg GTgtgtaattgcccacatattcactccacgggttttgtctggcttttcaggGGCACACATGGGTACATAGCCCCCAAGGTACTACAAAAAGGTGTAGCCTATGACAGCAGTGCTGACTGGTTCTCCTTGGGATGCATGCTCTTCAAGTTGTTG---gggtgactggttggcacatggggaacaagaatgttggggggagagccctgca Alignment from Spaln_aa2Genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCG GTGTgtaatggcccacatattcactccacgggttttgtctggcttttcagGGGCACACATGGGTACATAGCCCCCAAGGTACTACAAAAAGGTGTAGCCTATGACAGCAGTGCTGACTGGTTCTCCTTGGGATGCATGCTCTTCAAGTTGTTGGGgtgactggttggcacatggggaacaagaatgttggggggagagccctgca Alignment from Spaln_nt2Genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG---- GTGTgtaatggcccacatattcactccacgggttttgtctggcttttcagGGGCACACATGGGTACATAGCCCCCAAGGTACTACAAAAAGGTGTAGCCTATGACAGCAGTGCTGACTGGTTCTCCTTGGGATGCATGCTCTTCAAGTTGTTGGGGTGACTGgttggcacatggggaacaagaatgttggggggagagccctgca Alignment from Pairagon GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GTGTgtaatggcccacatattcactccacgggttttgtctggcttttcagGGGCACACATGGGTACATAGCCCCCAAGGTACTACAAAAAGGTGTAGCCTATGACAGCAGTGCTGACTGGTTCTCCTTGGGATGCATGCTCTTCAAGTTGTT---GGGgtgactggttggcacatggggaacaagaatgttggggggagagccctgca Alignment from Exonerate_protein2genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GTGTgtaatggcccacatattcactccacgggttttgtctggcttttcagGGGCACACATGGGTACATAGCCCCCAAGGTACTACAAAAAGGTGTAGCCTATGACAGCAGTGCTGACTGGTTCTCCTTGGGATGCATGCTCTTCAAGTTGTTG---GGgtgactggttggcacatggggaacaagaatgttggggggagagccctgca Alignment from Exonerate_coding2genome GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCGGGG GTGTgtaatggcccacatattcactccacgggttttgtctggcttttcagGGGCACACATGGGTACATAGCCCCCAAGGTACTACAAAAAGGTGTAGCCTATGACAGCAGTGCTGACTGGTTCTCCTTGGGATGCATGCTCTTCAAGTTGTTG---GGgtgactggttggcacatggggaacaagaatgttggggggagagccctgca Alignment from GeneWise GTGT GGGCACACACGGGTACATGGCCCCCGAAGTCCTACAGAAGGGCGTGGCCTATGACAGCAGTGCAGACTGGTTCTCCCTGGGCTGCATGCTCTTCAAGTTGTTGCG GTGTgtaatggcccacatattcactccacgggttttgtctggcttttcagGGGCACACATGGGTACATAGCCCCCAAGGTACTACAAAAAGGTGTAGCCTATGACAGCAGTGCTGACTGGTTCTCCTTGGGATGCATGCTCTTCAAGTTGTTGGGgtgactggttggcacatggggaacaagaatgttggggggagagccctgca #### Adrbk1_ID485_10 --> 2 - 0 Original Alignment CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG------ TATGAATggtgagttagcttaggggatggttcacatttggtattttacaggtGGGGACCTGCACTACCACTTATCACAGCATGGAGTCTTCTCAGAAGCCGACATGCGTCTCTATGCTGCTGAGATCATCCTAGGCCTTGAACACATGCACAATCATTTTGTAGTTTTCAGGGACTTGAAGTCAGAAgtgagttgcagttgatagggcactctttctctaccctccccctactcctc Alignment from CESAR CATGAACg gtGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG------ TATGAATggtaagatagcttaggggatggttcacatttggtattttacaggtGGGGACCTGCACTACCACTTATCACAGCATGGAGTCTTCTCAGAAGCCGACATGCGTCTCTATGCTGCTGAGATCATCCTAGGCCTTGAACACATGCACAATCATTTTGTAGTTTTCAGGGACTTGAAGTCAGAAgtgagttgcagttgatagggcactctttctctaccctccccctactcctc Alignment from Spaln_aa2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG------ TATGAATGgtgagttagcttaggggatggttcacatttggtattttacagGTGGGGACCTGCACTACCACTTATCACAGCATGGAGTCTTCTCAGAAGCCGACATGCGTCTCTATGCTGCTGAGATCATCCTAGGCCTTGAACACATGCACAATCATTTTGTAGTTTTCAGGGACTTGAAGTCAGAAgtgagttgcagttgatagggcactctttctctaccctccccctactcctc Alignment from Spaln_nt2Genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAA TATGAATGgtgagttagcttaggggatggttcacatttggtattttacagGTGGGGACCTGCACTACCACTTATCACAGCATGGAGTCTTCTCAGAAGCCGACATGCGTCTCTATGCTGCTGAGATCATCCTAGGCCTTGAACACATGCACAATCATTTTGTAGTTTTCAGGGACTTGAAgtcagaagtgagttgcagttgatagggcactctttctctaccctccccctactcctc Alignment from Pairagon CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG------ TATGAATGgtgagttagcttaggggatggttcacatttggtattttacagGTGGGGACCTGCACTACCACTTATCACAGCATGGAGTCTTCTCAGAAGCCGACATGCGTCTCTATGCTGCTGAGATCATCCTAGGCCTTGAACACATGCACAATCATTTTGTAGTTTTCAGGGACTTGAAGTCAGAAgtgagttgcagttgatagggcactctttctctaccctccccctactcctc Alignment from Exonerate_protein2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagttagcttaggggatggttcacatttggtattttacagGTGGGGACCTGCACTACCACTTATCACAGCATGGAGTCTTCTCAGAAGCCGACATGCGTCTCTATGCTGCTGAGATCATCCTAGGCCTTGAACACATGCACAATCATTTTGTAGTTTTCAGGGACTTGAAGtcagaagtgagttgcagttgatagggcactctttctctaccctccccctactcctc Alignment from Exonerate_coding2genome CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG TATGAATGgtgagttagcttaggggatggttcacatttggtattttacagGTGGGGACCTGCACTACCACTTATCACAGCATGGAGTCTTCTCAGAAGCCGACATGCGTCTCTATGCTGCTGAGATCATCCTAGGCCTTGAACACATGCACAATCATTTTGTAGTTTTCAGGGACTTGAAGtcagaagtgagttgcagttgatagggcactctttctctaccctccccctactcctc Alignment from GeneWise CATGAACG GTGGGGACCTGCACTACCACCTGTCTCAGCATGGAGTCTTCTCTGAAGCCGACATGCGCTTCTACGCCGCTGAGATCATCCTGGGCCTTGAACACATGCACAATCGCTTTGTAGTCTACAGGGACCTGAAG------ TATGAATGgtgagttagcttaggggatggttcacatttggtattttacagGTGGGGACCTGCACTACCACTTATCACAGCATGGAGTCTTCTCAGAAGCCGACATGCGTCTCTATGCTGCTGAGATCATCCTAGGCCTTGAACACATGCACAATCATTTTGTAGTTTTCAGGGACTTGAAGTCAGAAgtgagttgcagttgatagggcactctttctctaccctccccctactcctc #### Adrbk1_ID487_8 --> 1 - 0 Original Alignment gTACGCCATGAAGTGTCTG---GACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgctctgtcttgcagggcttgcttagctggagtattggggtgtttgctagg---GCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtataataagtggccaagtggacttccactttgaccattttaacctctca Alignment from CESAR gTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG cactgctctgtcttgcagggcttgcgctggagtattggggtgtttgctagg---GCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtataataagtggccaagtggacttccactttgaccattttaacctctca Alignment from Spaln_aa2Genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgctctgtcttgcagggcttgcttagctggagtattggggtgtttgctagG---GCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtataataagtggccaagtggacttccactttgaccattttaacctctca Alignment from Spaln_nt2Genome ACGCCATGAAGTGTCTGGA---CAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgctctgtcttgcagggcttgcttagctggagtattggggtgtttgctag-GGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtataataagtggccaagtggacttccactttgaccattttaacctctca Alignment from Pairagon ACGCCATGAAGTGTCTGG---ACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgctctgtcttgcagggcttgcttagctggagtattggggtgtttgctag-GGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtataataagtggccaagtggacttccactttgaccattttaacctctca Alignment from Exonerate_protein2genome GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgctctgtcttgcagggcttgcttagctggagtattggggtgtttgctagGGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtataataagtggccaagtggacttccactttgaccattttaacctctca Alignment from Exonerate_coding2genome GTACGCCATGAAGTGTCTGGACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgctctgtcttgcagggcttgcttagctggagtattggggtgtttgctagGGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtataataagtggccaagtggacttccactttgaccattttaacctctca Alignment from GeneWise GTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tgctctgtcttgcagggcttgcttagctggagtattggggtgtttgctagggctaagagGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtataataagtggccaagtggacttccactttgaccattttaacctctca #### Adrbk1_ID488_7 --> 0 - 2 Original Alignment CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---------at gcacaccaccattgctgtgaaaccagtgtgatctctccattctcttccagCTGACCATGAATGATTTTAGTGTACATCGAATCATCGGACACGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAGGCGGATATAGGCAAGGAACGATCCatgtatccactggactggttggggtggccatggaaggagtcaggctttgcat Alignment from CESAR CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---------at gcacaccaccattgctgtgaaaccagtgtgatctctccattctcttccagCTGACCATGAATGATTTTAGTGTACATCGAATCATCGGACACGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAGGCGGATATAGGCAAGGAACGATCCatgtatccactggactggttggggtggccatggaaggagtcaggctttgcat Alignment from Spaln_aa2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGATG-------- gcacaccaccattgctgtgaaaccagtgtgatctctccattctcttccagCTGACCATGAATGATTTTAGTGTACATCGAATCATCGGACACGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAGGCGGATATAGGCAAGGAACGATCCATgtatccactggactggttggggtggccatggaaggagtcaggctttgcat Alignment from Spaln_nt2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---------AT gcacaccaccattgctgtgaaaccagtgtgatctctccattctcttccagCTGACCATGAATGATTTTAGTGTACATCGAATCATCGGACACGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAGGCGGATATAGGCAAGGAACGATCCATgtatccactggactggttggggtggccatggaaggagtcaggctttgcat Alignment from Pairagon CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---------AT gcacaccaccattgctgtgaaaccagtgtgatctctccattctcttccagCTGACCATGAATGATTTTAGTGTACATCGAATCATCGGACACGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAGGCGGATATAGGCAAGGAACGATCCATgtatccactggactggttggggtggccatggaaggagtcaggctttgcat Alignment from Exonerate_protein2genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG gcacaccaccattgctgtgaaaccagtgtgatctctccattctcttccagCTGACCATGAATGATTTTAGTGTACATCGAATCATCGGACACGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAGGCGGATATAGGCAAGgaacgatccatgtatccactggactggttggggtggccatggaaggagtcaggctttgcat Alignment from Exonerate_coding2genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG gcacaccaccattgctgtgaaaccagtgtgatctctccattctcttccagCTGACCATGAATGATTTTAGTGTACATCGAATCATCGGACACGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAGGCGGATATAGGCAAGgaacgatccatgtatccactggactggttggggtggccatggaaggagtcaggctttgcat Alignment from GeneWise CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---------AT gcacaccaccattgctgtgaaaccagtgtgatctctccattctcttccagCTGACCATGAATGATTTTAGTGTACATCGAATCATCGGACACGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAGGCGGATATAGGCAAGGAACGATCCATgtatccactggactggttggggtggccatggaaggagtcaggctttgcat #### Adrbk1_ID492_3 --> 0 - 0 Original Alignment ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT tgtggccataaatagtgatttccgccttccttccctccctcttccttcag---------TATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCTTGCTCACATgtaagtgctgaatctatctgttgttcctagatatgtggggttaaagagag Alignment from CESAR ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT gcttcatgctgtggccataaatagtcttccttccctccctcttccttcag---------TATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCTTGCTCACATgtaagtgctgaatctatctgttgttcctagatatgtggggttaaagagag Alignment from Spaln_aa2Genome TATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT tgtggccataaatagtgatttccgccttccttccctccctcttccttcagTATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCTTGCTCACATgtaagtgctgaatctatctgttgttcctagatatgtggggttaaagagag Alignment from Spaln_nt2Genome TATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT tgtggccataaatagtgatttccgccttccttccctccctcttccttcagTATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCTTGCTCACATgtaagtgctgaatctatctgttgttcctagatatgtggggttaaagagag Alignment from Pairagon ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT tgtggccataaatagtgatttccgccttccttccctccctcttccttcag---------TATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCTTGCTCACATgtaagtgctgaatctatctgttgttcctagatatgtggggttaaagagag Alignment from Exonerate_protein2genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT tgtggccataaatagtgatttccgccttccttccctccctcTTCCTTCAGTATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCTTGCTCACATgtaagtgctgaatctatctgttgttcctagatatgtggggttaaagagag Alignment from Exonerate_coding2genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT tgtggccataaatagtgatttccgccttccttccctccctcTTCCTTCAGTATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCTTGCTCACATgtaagtgctgaatctatctgttgttcctagatatgtggggttaaagagag Alignment from GeneWise TATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT tgtggccataaatagtgatttccgccttccttccctccctcttccttcagTATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGAGTCCTACATTATGAAGGAGCTCCTGGCTTGCTCACATgtaagtgctgaatctatctgttgttcctagatatgtggggttaaagagag #### Afap1l2_ID12244_19 --> 0 - 0 Original Alignment CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG agtttaatatagacatactaactttactattctttcttaaatgtttgcagCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTCTCTGTCATGGTTATGGGTAAAGGGACTGTCCTGCAG---------gtaaagtgcgcgtaggggcgcactccaaattgtagaatgtagcctagcag Alignment from CESAR CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG agtttaatatagacatactaactttactattctttcttaaatgtttgcagCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTCTCTGTCATGGTTATGGGTAAAGGGACTGTCCTGCAG---------gtaaagtgcgcgtaggggcgcactccaaattgtagaatgta Alignment from Spaln_aa2Genome CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAG agtttaatatagacatactaactttactattctttcttaaatgtttgcagCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCAGCT---ACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTCTCTGTCATGGTTATGGGTAAAGGGACTGTCCTGCAGgtaaagtgcgcgtaggggcgcactccaaattgtagaatgtagcctagcag Alignment from Spaln_nt2Genome CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAG agtttaatatagacatactaactttactattctttcttaaatgtttgcagCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCAG---CTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTCTCTGTCATGGTTATGGGTAAAGGGACTGTCCTGCAGgtaaagtgcgcgtaggggcgcactccaaattgtagaatgtagcctagcag Alignment from Pairagon CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAG agtttaatatagacatactaactttactattctttcttaaatgtttgcagCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCAG---CTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTCTCTGTCATGGTTATGGGTAAAGGGACTGTCCTGCAGgtaaagtgcgcgtaggggcgcactccaaattgtagaatgtagcctagcag Alignment from Exonerate_protein2genome CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAG agtttaatatagacatactaactttactattctttcttaaatgtttgcagCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTCTCTGTCATGGTTATGGGTAAAGGGACTGTCCTGCAGgtaaagtgcgcgtaggggcgcactccaaattgtagaatgtagcctagcag Alignment from Exonerate_coding2genome CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAG agtttaatatagacatactaactttactattctttcttaaatgtttgcagCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTCTCTGTCATGGTTATGGGTAAAGGGACTGTCCTGCAGgtaaagtgcgcgtaggggcgcactccaaattgtagaatgtagcctagcag Alignment from GeneWise CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAG agtttaatatagacatactaactttactattctttcttaaatgtttgcagCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTCTCTGTCATGGTTATGGGTAAAGGGACTGTCCTGCAGgtaaagtgcgcgtaggggcgcactccaaattgtagaatgtagcctagcag #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tctctaggcctgcagccagacagtaccggtctcctggtcttttctggtag---CAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAGCCTACCCCACGAAGCACCATGGTTAAGTTACAGGCGGAGCAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACGATGGCTTCCGCCCCCATTTCTGCCAGCCCGCCTGTGAAAGAGAAGCTAAGAGTTACTGGTGCAggtaagtggactaaagccccacctagcacttataacctaacaagttagccc Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tgctctctaggcctgcagccagacaccggtctcctggtcttttctggtag---CAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAGCCTACCCCACGAAGCACCATGGTTAAGTTACAGGCGGAGCAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACGATGGCTTCCGCCCCCATTTCTGCCAGCCCGCCTGTGAAAGAGAAGCTAAGAGTTACTGGTGCAggtaagtggactaaagccccacctagcacttataacctaacaagttagccc Alignment from Spaln_aa2Genome CAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tctctaggcctgcagccagacagtaccggtctcctggtcttttctggtagCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAGCCTACCCCACGAAGCACCATGGTTAAGTTACAGGCGGAGCAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACGATGGCTTCCGCCCCCATTTCTGCCAGCCCGCCTGTGAAAGAGAAGCTAAGAGTTACTGGTGCAGgtaagtggactaaagccccacctagcacttataacctaacaagttagccc Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tctctaggcctgcagccagacagtaccggtctcctggtcttttctggtag---CAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAGCCTACCCCACGAAGCACCATGGTTAAGTTACAGGCGGAGCAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACGATGGCTTCCGCCCCCATTTCTGCCAGCCCGCCTGTGAAAGAGAAGCTAAGAGTTACTGGTGCAGgtaagtggactaaagccccacctagcacttataacctaacaagttagccc Alignment from Pairagon ----------------------------------------------GAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG TCTCTAGGCCTGCAGCCAGACAGTACCGGTCTCCTGGTCTTTTCTGGTAGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAGCCTACCCCACGAAGCACCATGGTTAAGTTACAGGCGGAGCAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACGATGGCTTCCGCCCCCATTTCTGCCAGCCCGCCTGTGAAAGAGAAGCTAAGAGTTACTGGTGCAGgtaagtggactaaagccccacctagcacttataacctaacaagttagccc Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tctctaggcctgcagccagacagtaccggtctcctggtcttttctggTAGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAGCCTACCCCACGAAGCACCATGGTTAAGTTACAGGCGGAGCAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACGATGGCTTCCGCCCCCATTTCTGCCAGCCCGCCTGTGAAAGAGAAGCTAAGAGTTACTGGTGCAGgtaagtggactaaagccccacctagcacttataacctaacaagttagccc Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tctctaggcctgcagccagacagtaccggtctcctggtcttttctggTAGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAGCCTACCCCACGAAGCACCATGGTTAAGTTACAGGCGGAGCAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACGATGGCTTCCGCCCCCATTTCTGCCAGCCCGCCTGTGAAAGAGAAGCTAAGAGTTACTGGTGCAGgtaagtggactaaagccccacctagcacttataacctaacaagttagccc Alignment from GeneWise ---CCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tctctaggcctgcagccagacagtaccggtctcctggtcttttctggtagCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAGCCTACCCCACGAAGCACCATGGTTAAGTTACAGGCGGAGCAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACGATGGCTTCCGCCCCCATTTCTGCCAGCCCGCCTGTGAAAGAGAAGCTAAGAGTTACTGGTGCAGgtaagtggactaaagccccacctagcacttataacctaacaagttagccc #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ccattcatctgactcttcatttaccactaatgaaattttattctccacagTATCTTCTCACAAAGCTTAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAggtgagtgaggttttgagcccacccattctgatgagagtgccctaagaggg Alignment from CESAR ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ccattcatctgactcttcatttaccactaatgaaattttattctccacagTATCTTCTCACAAAGCTTAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAggtgagtgaggttttgagcccacccattctgatgagagtgccctaagaggg Alignment from Spaln_aa2Genome TTGCTCACCAAGCTG---AGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgactcttcatttaccactaatgaaattttattctccacagTATCTTCTCACAAAGCTTAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagtgaggttttgagcccacccattctgatgagagtgccctaagaggg Alignment from Spaln_nt2Genome ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgactcttcatttaccactaatgaaattttattctccacagTATCTTCTCACAAAGCTTAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagtgaggttttgagcccacccattctgatgagagtgccctaagaggg Alignment from Pairagon ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgactcttcatttaccactaatgaaattttattctccacagTATCTTCTCACAAAGCTTAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagtgaggttttgagcccacccattctgatgagagtgccctaagaggg Alignment from Exonerate_protein2genome ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgactcttcatttaccactaatgaaattttattctccacagTATCTTCTCACAAAGCTTAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagtgaggttttgagcccacccattctgatgagagtgccctaagaggg Alignment from Exonerate_coding2genome ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgactcttcatttaccactaatgaaattttattctccacagTATCTTCTCACAAAGCTTAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagtgaggttttgagcccacccattctgatgagagtgccctaagaggg Alignment from GeneWise ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgactcttcatttaccactaatgaaattttattctccacagTATCTTCTCACAAAGCTTAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagtgaggttttgagcccacccattctgatgagagtgccctaagaggg #### Aldh3b2_ID239_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTG tacacgcaccaacctgttctcactatcttttactatctaaaacgttctagga---TGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAG---ATGCAGGCAGAGCTACTG---CAGCATCTGGACCAGgtgagtaagtcctgtccctgtggtttcagAGCTGCTTTGCTGTGATGCTG Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTG gtatacacgcaccaacctgttctcatcttttactatctaaaacgttctagga---TGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAG---ATGCAGGCAGAGCTACTG---CAGCATCTGGACCAGgtgagcactcagaattttctttcccacagAGCTGCTTTGCTGTGATGCTG Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCC CCAGTATCTGGACCAGAGC tacacgcaccaacctgttctcactatcttttactatctaaaacgttctagGATGTGTGGTATTGAGGCCA---TCTGAAATCAGTAAGAACACAGAG---ATGCAGGCAGAGCTACTGCAgcatctggaccaggtgagtaagtcctgtccctgtggtttcagagC------------------ Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG-------------------------------AGCTGCTTTGCTGTGATGT tacacgcaccaacctgttctcactatcttttactatctaaaacgttctagGA---TGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAGA---TGCAGGCAGAGCTACTG---CAGCATCTGGACCAGGTGAGTAAGTCCTGTCCCTGTGGTTTCAGAG--CTGCTTTGCTGTGATGC Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG-----------------------------AGCTGCTTTGCTGTGATGTTG tacacgcaccaacctgttctcactatcttttactatctaaaacgttctagGA---TGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAGA---TGCAGGCAGAGCTACTG---CAGCATCTGGACCAGGTGAGTAAGTCCTGTCCCTGTGGTTTCAGAGCTGCTTTGCTGTGATGCTG Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATG tacacgcaccaacctgttctcactatcttttactatctaaaacgttctagGA---TGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAG---ATGCAGGCAGAGCTACTG---CAGCATCTGGACCAGgtgagtaagtcctgtccctgtggtttcagagcTGCTTTGCTGTGATGCTG Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATG tacacgcaccaacctgttctcactatcttttactatctaaaacgttctagGA---TGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAG---ATGCAGGCAGAGCTACTG---CAGCATCTGGACCAGgtgagtaagtcctgtccctgtggtttcagagcTGCTTTGCTGTGATGCTG Alignment from GeneWise --TGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTG tacacgcaccaacctgttctcactatcttttactatctaaaacgttctagGATGTGTGGTATTGAGGCCATCTGAAATCAGTAAGAACACAGAG---ATGCAGGCAGAGCTACTG---CAGCATCTGGACCAGgtgagtaagtcctgtccctgtggtttcagAGCTGCTTTGCTGTGATGCTG #### Aldh3b2_ID240_6 --> 0 - 1 Original Alignment CTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg CTG---CAGCATCTGGACCAGgtaagtactcagaattttctttcccacagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGATGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATC---------ggtaggccctatgaacaaaatggatttgggacctggggtagagcagggcag Alignment from CESAR CTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg CTG---CAGCATCTGGACCAGgtgagcactcagaattttctttcccacagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGATGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATC---------ggtaggccctatgaacaaaatggatttgggacctggggtagagcagggcag Alignment from Spaln_aa2Genome CTGGCAGAGCTGCTGCCCCAGTATCTGGACCAGAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATC- catctggaccaggtaagTACTCAGAATTT---------TCTTTCCCACAGAGCTGCTTTGCTGTGATGCTGGGAGGACCTGATGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCGgtaggccctatgaacaaaatggatttgggacctggggtagagcagggcag Alignment from Spaln_nt2Genome CTGCCCCAGTATCTGGACCAG-------------------------------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCT CTG---CAGCATCTGGACCAGGTAAGTACTCAGAATTTTCTTTCCCACAGAG--CTGCTTTGCTGTGATGCTGGGAGGACCTGATGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCGgtaggccctatgaacaaaatggatttgggacctggggtagagcagggcag Alignment from Pairagon CTGCCCCAGTATCTGGACCAG-----------------------------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG CTG---CAGCATCTGGACCAGGTAAGTACTCAGAATTTTCTTTCCCACAGAGCTGCTTTGCTGTGATGCTGGGAGGACCTGATGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATC---------Ggtaggccctatgaacaaaatggatttgggacctggggtagagcagggcag Alignment from Exonerate_protein2genome CCCCAGTATCTGGACCAGAGC TGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCT ---CAGCATCTGGACCAG---gtaagtactcagaattttctttcccacagagcTGCTTTGCTGTGATGCTGGGAGGACCTGATGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCGgtaggccctatgaacaaaatggatttgggacctggggtagagcagggcag Alignment from Exonerate_coding2genome CCCCAGTATCTGGACCAGAGC TGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCT ---CAGCATCTGGACCAG---gtaagtactcagaattttctttcccacagagcTGCTTTGCTGTGATGCTGGGAGGACCTGATGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCGgtaggccctatgaacaaaatggatttgggacctggggtagagcagggcag Alignment from GeneWise CTGCCCCAGTATCTGGACCAG AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCT CTG---CAGCATCTGGACCAGgtaagtactcagaattttctttcccacagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGATGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCGgtaggccctatgaacaaaatggatttgggacctggggtagagcagggcag #### Aldh3b2_ID241_7 --> 2 - 1 Original Alignment gaAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTg ggtgtgctagttgaacaggttttccttagagaaatacgtttactttacagga---------GTAGGCAAGATGGTGATGACTGCTGCAGCCAATCACCTGACCCCCACCTCCCTGCAACTGGGAGGCAAGAATCCCTGCTAT---GATGACAACTGTGACCCACAGACAGTGACCAACCGTGTGGCCTGGTTCCACTATTTCAATGCTGGTCAGACCTGTGTGGCCCCAGAATACATCTTGTGTAGCCAAGAGATGCAGGAACGGTTGGTATCTGCCTTGCAAAATTCCATCACTCGTTTCTATGGAGACAATCCACAGACTTCACCTAACCTGGGAAGGATAATCAATCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGGTGTGGCCGTGTGGCCATTGGTGGTCAGAGTGATGAGGGAGGGTGCTGCATTggtgctgctcttgctgcgtctgtggccccagcatagagcccatgggaccct Alignment from CESAR gaAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTg aggctgaagggtgtgctagttgaacttagagaaatacgtttactttacagga---------GTAGGCAAGATGGTGATGACTGCTGCAGCCAATCACCTGACCCCCACCTCCCTGCAACTGGGAGGCAAGAATCCCTGCTAT---GATGACAACTGTGACCCACAGACAGTGACCAACCGTGTGGCCTGGTTCCACTATTTCAATGCTGGTCAGACCTGTGTGGCCCCAGAATACATCTTGTGTAGCCAAGAGATGCAGGAACGGTTGGTATCTGCCTTGCAAAATTCCATCACTCGTTTCTATGGAGACAATCCACAGACTTCACCTAACCTGGGAAGGATAATCAATCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGGTGTGGCCGTGTGGCCATTGGTGGTCAGAGTGATGAGGGAGGGTGCTGCATTggtgctgctcttgctgcgtctgtggccccagcatagagcccatgggaccct Alignment from Spaln_aa2Genome GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG ggtgtgctagttgaacaggttttccttagagaaatacgtttactttacagGA---------GTAGGCAAGATGGTGATGACTGCTGCAGCCAATCACCTGACCCCCACCTCCCTGCAACTGGGAGGCAAGAATCCCTGCTATGAT---GACAACTGTGACCCACAGACAGTGACCAACCGTGTGGCCTGGTTCCACTATTTCAATGCTGGTCAGACCTGTGTGGCCCCAGAATACATCTTGTGTAGCCAAGAGATGCAGGAACGGTTGGTATCTGCCTTGCAAAATTCCATCACTCGTTTCTATGGAGACAATCCACAGACTTCACCTAACCTGGGAAGGATAATCAATCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGGTGTGGCCGTGTGGCCATTGGTGGTCAGAGTGATGAGGGAGGGTGCTGCATTGgtgctgctcttgctgcgtctgtggccccagcatagagcccatgggaccct Alignment from Spaln_nt2Genome G-GTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG ggtgtgctagttgaacaggttttccttagagaaatacgtttactttacagGAGTAGGCAAGATGGTGATGACTGCTGCAGCCAATCACCTGACCCCCACCTCCCTGCAACTGGGAGGCAAGAATCCCTGCTAT---GATGACAACTGTGACCCACAGACAGTGACCAACCGTGTGGCCTGGTTCCACTATTTCAATGCTGGTCAGACCTGTGTGGCCCCAGAATACATCTTGTGTAGCCAAGAGATGCAGGAACGGTTGGTATCTGCCTTGCAAAATTCCATCACTCGTTTCTATGGAGACAATCCACAGACTTCACCTAACCTGGGAAGGATAATCAATCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGGTGTGGCCGTGTGGCCATTGGTGGTCAGAGTGATGAGGGAGGGTGCTGCATTGgtgctgctcttgctgcgtctgtggccccagcatagagcccatgggaccct Alignment from Pairagon GAAGTCCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG ggtgtgctagttgaacaggttttccttagagaaatacgtttactttacagGA---------GTAGGCAAGATGGTGATGACTGCTGCAGCCAATCACCTGACCCCCACCTCCCTGCAACTGGGAGGCAAGAATCCCTGCTAT---GATGACAACTGTGACCCACAGACAGTGACCAACCGTGTGGCCTGGTTCCACTATTTCAATGCTGGTCAGACCTGTGTGGCCCCAGAATACATCTTGTGTAGCCAAGAGATGCAGGAACGGTTGGTATCTGCCTTGCAAAATTCCATCACTCGTTTCTATGGAGACAATCCACAGACTTCACCTAACCTGGGAAGGATAATCAATCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGGTGTGGCCGTGTGGCCATTGGTGGTCAGAGTGATGAGGGAGGGTGCTGCATTGgtgctgctcttgctgcgtctgtggccccagcatagagcccatgggaccct Alignment from Exonerate_protein2genome GGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG ggtgtgctagttgaacaggttttccttagagaaatacgtttactttacagGAGTAGGCAAGATGGTGATGACTGCTGCAGCCAATCACCTGACCCCCACCTCCCTGCAACTGGGAGGCAAGAATCCCTGCTAT---GATGACAACTGTGACCCACAGACAGTGACCAACCGTGTGGCCTGGTTCCACTATTTCAATGCTGGTCAGACCTGTGTGGCCCCAGAATACATCTTGTGTAGCCAAGAGATGCAGGAACGGTTGGTATCTGCCTTGCAAAATTCCATCACTCGTTTCTATGGAGACAATCCACAGACTTCACCTAACCTGGGAAGGATAATCAATCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGGTGTGGCCGTGTGGCCATTGGTGGTCAGAGTGATGAGGGAGGGTGCTGCATTGgtgctgctcttgctgcgtctgtggccccagcatagagcccatgggaccct Alignment from Exonerate_coding2genome CCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG ggtgtgctagttgaacaggttttccttagagaaatacgtttactttacagGA----GTAGGCAAGATGGTGATGACTGCTGCAGCCAATCACCTGACCCCCACCTCCCTGCAACTGGGAGGCAAGAATCCCTGCTAT---GATGACAACTGTGACCCACAGACAGTGACCAACCGTGTGGCCTGGTTCCACTATTTCAATGCTGGTCAGACCTGTGTGGCCCCAGAATACATCTTGTGTAGCCAAGAGATGCAGGAACGGTTGGTATCTGCCTTGCAAAATTCCATCACTCGTTTCTATGGAGACAATCCACAGACTTCACCTAACCTGGGAAGGATAATCAATCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGGTGTGGCCGTGTGGCCATTGGTGGTCAGAGTGATGAGGGAGGGTGCTGCATTGgtgctgctcttgctgcgtctgtggccccagcatagagcccatgggaccct Alignment from GeneWise ---------------CCTCGGGTAGGCAAGATCGTCATGACTGCTGCTGCCAAACACCTGACACCCATCACCCTGGAGCTGGGGGGTAAGAACCCCTGCTATGTGGATGACAACTGCGACCCCCAGACAGTGGCCAACCGTGTGGCCTGGTTCCGCTATTTCAATGCCGGCCAGACCTGTGTGGCCCCCGATTATATCCTGTGTAGCCAGGAGATGCAGGAGCGGTTGGTGCCTGCCCTGCAGAATTCCATCACGCGTTTCTATGGAGATAACCCACAGACCTCCCCCAACCTGGGCAGAATCATCAACCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGCTGTGGCCGTGTGGCCATCGGTGGCCAGAGTGATGAGGGAGAGCGCTACATTG ggtgtgctagttgaacaggttttccttagagAAATACGTTTACTTTACAGGAGTAGGCAAGATGGTGATGACTGCTGCAGCCAATCACCTGACCCCCACCTCCCTGCAACTGGGAGGCAAGAATCCCTGCTAT---GATGACAACTGTGACCCACAGACAGTGACCAACCGTGTGGCCTGGTTCCACTATTTCAATGCTGGTCAGACCTGTGTGGCCCCAGAATACATCTTGTGTAGCCAAGAGATGCAGGAACGGTTGGTATCTGCCTTGCAAAATTCCATCACTCGTTTCTATGGAGACAATCCACAGACTTCACCTAACCTGGGAAGGATAATCAATCAGAAGCATTTCAAGAGGCTCCAGGGATTGCTGGGGTGTGGCCGTGTGGCCATTGGTGGTCAGAGTGATGAGGGAGGGTGCTGCATTGgtgctgctcttgctgcgtctgtggccccagcatagagcccatgggaccct #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment ga------AGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctgactttccgataagcctttgggatctctctcccacctcttctgcaggaGATGAGGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAAAGCCTGCTTGAGGCAGGCATACAGGCAGAGCAGgtaggatgtgaaatagttggttatggcccctaatgtctcaggcccaaggt Alignment from CESAR ga------AGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctgactttccgataagcctttgggatctctctcccacctcttctgcaggaGATGAGGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAAAGCCTGCTTGAGGCAGGCATACAGGCAGAGCAGgtaggatgtgaaatagttggttatggcccctaatgtctcaggcccaaggt Alignment from Spaln_aa2Genome GA------AGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctgactttccgataagcctttgggatctctctcccacctcttctgcagGAGATGAGGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAAAGCCTGCTTGAGGCAGGCATACAGGCAGAGCAGgtaggatgtgaaatagttggttatggcccctaatgtctcaggcccaaggt Alignment from Spaln_nt2Genome GAA------GCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctgactttccgataagcctttgggatctctctcccacctcttctgcagGAGATGAGGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAAAGCCTGCTTGAGGCAGGCATACAGGCAGAGCAGgtaggatgtgaaatagttggttatggcccctaatgtctcaggcccaaggt Alignment from Pairagon -----------------------------------------------------------GCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG ATCTGACTTTCCGATAAGCCTTTGGGATCTCTCTCCCACCTCTTCTGCAGGAGATGAGGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAAAGCCTGCTTGAGGCAGGCATACAGGCAGAGCAGgtaggatgtgaaatagttggttatggcccctaatgtctcaggcccaaggt Alignment from Exonerate_protein2genome GAAGCCCT------TTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctgactttccgataagcctttgggatctctctcccacctcttctgcagGAGATGAGGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAAAGCCTGCTTGAGGCAGGCATACAGGCAGAGCAGgtaggatgtgaaatagttggttatggcccctaatgtctcaggcccaaggt Alignment from Exonerate_coding2genome GAAGCCCT------TTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctgactttccgataagcctttgggatctctctcccacctcttctgcagGAGATGAGGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAAAGCCTGCTTGAGGCAGGCATACAGGCAGAGCAGgtaggatgtgaaatagttggttatggcccctaatgtctcaggcccaaggt Alignment from GeneWise --GGAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG atctgactttccgataagcctttgggatctctctcccacctcttctgcaggagATGAGGGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCTTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAAAGCCTGCTTGAGGCAGGCATACAGGCAGAGCAGgtaggatgtgaaatagttggttatggcccctaatgtctcaggcccaaggt #### Ankrd13d_ID461_12 --> 2 - 1 Original Alignment agATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCA------g aggggttactggggcatactggcaacctcactccctttgccccaccacagaaATTCCCCTCTTTCATGTGCATAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTTTAGCCATTTCTGCTTCACCGGATggtaagactatagccatgtatgatattcccatctgactttccgataagcct Alignment from CESAR agATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCA------g aggggttactggggcatactggcaacctcactccctttgccccaccacagaaATTCCCCTCTTTCATGTGCATAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTTTAGCCATTTCTGCTTCACCGGATggtaagactatagccatgtatgatattcccatctgactttccgataagcct Alignment from Spaln_aa2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCA------G aggggttactggggcatactggcaacctcactccctttgccccaccacagAAATTCCCCTCTTTCATGTGCATAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTTTAGCCATTTCTGCTTCACCGGATGgtaagactatagccatgtatgatattcccatctgactttccgataagcct Alignment from Spaln_nt2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCA------G aggggttactggggcatactggcaacctcactccctttgccccaccacagAAATTCCCCTCTTTCATGTGCATAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTTTAGCCATTTCTGCTTCACCGGATGgtaagactatagccatgtatgatattcccatctgactttccgataagcct Alignment from Pairagon AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTT----------------------------------------------------------- aggggttactggggcatactggcaacctcactccctttgccccaccacagAAATTCCCCTCTTTCATGTGCATAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTTTAGCCATTTCTGCTTCACCGGATGGTAAGACTATAGCCATGTATGATATTCCCATCTGACTTTCCGATAAGCCT Alignment from Exonerate_protein2genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCA------G aggggttactggggcatactggcaacctcactccctttgccccaccacagAAATTCCCCTCTTTCATGTGCATAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTTTAGCCATTTCTGCTTCACCGGATGgtaagactatagccatgtatgatattcccatctgactttccgataagcct Alignment from Exonerate_coding2genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCA------G aggggttactggggcatactggcaacctcactccctttgccccaccacagAAATTCCCCTCTTTCATGTGCATAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTTTAGCCATTTCTGCTTCACCGGATGgtaagactatagccatgtatgatattcccatctgactttccgataagcct Alignment from GeneWise AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAGGAAGC- aggggttactggggcatactggcaacctcactccctttgccccaccacagAAATTCCCCTCTTTCATGTGCATAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGTGTCCCCAACTCCAGTTTAGCCATTTCTGCTTCACCGGATGgtaagactatagccatgtatgatattcccatctgactttccgataagcct #### Ankrd13d_ID464_9 --> 2 - 0 Original Alignment ggGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG------------------------ cacatcttacttagatacacaaggatctcccatcctctgtctcctttcagggGGGAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACACTCTTCACACACTTTGCGGCCCAGCAACCCCACGAATGATgtaaggttggtgagggtaggggttggtaaggctgggtaggtggggtttcc Alignment from CESAR ggGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG------------------------ cacatcttacttagatacacaaggatctcccatcctctgtctcctttcagggGGGAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACACTCTTCACACACTTTGCGGCCCAGCAACCCCACGAATGATgtaaggttggtgagggtaggggttggtaaggctgggtaggtggggtttcc Alignment from Spaln_aa2Genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG---------GCTCCCGTGCAGCAG cacatcttacttagatacacaaggatctcccatcctctgtctcctttcagGGGGGAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACACTCTTCACACACTTTGCGGCCCAGCAACCCCACGAATGATgtaaggttggtgagggtaggggttggtaaggctgggtaggtggggtttcc Alignment from Spaln_nt2Genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG-- cacatcttacttagatacacaaggatctcccatcctctgtctcctttcagGGGGGAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACACTCTTCACACACTTTGCGgcccagcaaccccacgaatgatgtaaggttggtgagggtaggggttggtaaggctgggtaggtggggtttcc Alignment from Pairagon GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG------------------------ cacatcttacttagatacacaaggatctcccatcctctgtctcctttcagGGGGGAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACACTCTTCACACACTTTGCGGCCCAGCAACCCCACGAATGATgtaaggttggtgagggtaggggttggtaaggctgggtaggtggggtttcc Alignment from Exonerate_protein2genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cacatcttacttagatacacaaggatctcccatcctctgtctcctttcagGGGGGAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACACTCTTCACACACTTTGcggcccagcaaccccacgaatgatgtaaggttggtgagggtaggggttggtaaggctgggtaggtggggtttcc Alignment from Exonerate_coding2genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cacatcttacttagatacacaaggatctcccatcctctgtctcctttcagGGGGGAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACACTCTTCACACACTTTGcggcccagcaaccccacgaatgatgtaaggttggtgagggtaggggttggtaaggctgggtaggtggggtttcc Alignment from GeneWise GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG------------------------ cacatcttacttagatacacaaggatctcccatcctctgtctcctttcagGGGGGAAGACTCCATTCCAATCCTTCTTGGGTATGGCCCAGCAACACTCTTCACACACTTTGCGGCCCAGCAACCCCACGAATGATgtaaggttggtgagggtaggggttggtaaggctgggtaggtggggtttcc #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg gtgtgtgttttctttcacactttttacgttaatttttattctatttttag------------ACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAggtattgccacttgcaactgtcttctgctcaagcttcctagggtatgtgcc Alignment from CESAR GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg cctcagtcccatgtgtgtgttttctacgttaatttttattctatttttag------------ACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAggtattgccacttgcaactgtcttctgctcaagcttcctagggtatgtgcc Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG gtgtgtgttttctttcacactttttacgttaatttttattctatttttag------------ACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtattgccacttgcaactgtcttctgctcaagcttcctagggtatgtgcc Alignment from Spaln_nt2Genome ACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG gtgtgtgttttctttcacactttttacgttaatttttattctatttttagACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtattgccacttgcaactgtcttctgctcaagcttcctagggtatgtgcc Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG gtgtgtgttttctttcacactttttacgttaatttttattctatttttag------------ACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtattgccacttgcaactgtcttctgctcaagcttcctagggtatgtgcc Alignment from Exonerate_protein2genome ATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG gtgtgtgttttctttcacactttttacgttaatttttattctatttttagacaaATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtattgccacttgcaactgtcttctgctcaagcttcctagggtatgtgcc Alignment from Exonerate_coding2genome ATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG gtgtgtgttttctttcacactttttacgttaatttttattctatttttagacaaATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtattgccacttgcaactgtcttctgctcaagcttcctagggtatgtgcc Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG gtgtgtgttttctttcacactttttacgttaatttttattctatttttagACA------------AATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtattgccacttgcaactgtcttctgctcaagcttcctagggtatgtgcc #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg gcattggtcctcttgtccgatgtattatccctcataccttgttcccacagGCACCACATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCACTGGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGTGCGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAAGGCTGGGCTggtaccctgctaggtggtgcttccatgttggtgaatggtgcctacaggact Alignment from CESAR ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg gcattggtcctcttgtccgatgtattatccctcataccttgttcccacagGCACCACATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCACTGGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGTGCGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAAGGCTGGGCTggtaccctgctaggtggtgcttccatgttggtgaatggtgcctacaggact Alignment from Spaln_aa2Genome CACGACATT------GAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttgtccgatgtattatccctcataccttgttcccacagGCACCACATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCACTGGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGTGCGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAAGGCTGGGCTGgtaccctgctaggtggtgcttccatgttggtgaatggtgcctacaggact Alignment from Spaln_nt2Genome CACGACATTGA------GCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttgtccgatgtattatccctcataccttgttcccacagGCACCACATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCACTGGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGTGCGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAAGGCTGGGCTGgtaccctgctaggtggtgcttccatgttggtgaatggtgcctacaggact Alignment from Pairagon ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGC---------------------------------------------------- gcattggtcctcttgtccgatgtattatccctcataccttgttcccacagGCACCACATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCACTGGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGTGCGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAAGGCTGGGCTGGTACCCTGCTAGGTGGTGCTTCCATGTTGGTGAATGGTGCCTACAGGACT Alignment from Exonerate_protein2genome ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttgtccgatgtattatccctcataccttgttcccacagGCACCACATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCACTGGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGTGCGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAAGGCTGGGCTGgtaccctgctaggtggtgcttccatgttggtgaatggtgcctacaggact Alignment from Exonerate_coding2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttgtccgatgtattatccctcataccttgttcccacaggcaccaCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCACTGGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGTGCGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAAGGCTGGGCTGgtaccctgctaggtggtgcttccatgttggtgaatggtgcctacaggact Alignment from GeneWise ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttgtccgatgtattatccctcataccttgttcccacagGCACCACATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCACTGGAGCTTGCTGTGACTTTGGGGAACTTAGAGTCAGTGCGAGTCCTCCTCAAACATAATGCCAATGTAGGCAAGGAAAGCCACCAAGGCTGGGCTGgtaccctgctaggtggtgcttccatgttggtgaatggtgcctacaggact #### Atg2a_ID1517_6 --> 0 - 1 Original Alignment TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCA---------g aaattggtcaagaccatgcaaccgctcacctgtggctgccttcccctcagCTAGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACACCAGCCTCTggtaagcttgtaattaggagtgaaaccaaaacagccaggcaggacattgcc Alignment from CESAR TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCA---------g aaattggtcaagaccatgcaaccgctcacctgtggctgccttcccctcagCTAGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACACCAGCCTCTggtaagcttgtaattaggagtgaaaccaaaacagccaggcaggctctctct Alignment from Spaln_aa2Genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAGACCCTGCAG aaattggtcaagaccatgcaaccgctcacctgtggctgccttcccctcagCTAGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACACCAGCCTCTGgtaagcttgtaattaggagtgaaaccaaaacagccaggcaggacattgcc Alignment from Spaln_nt2Genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCA---------G aaattggtcaagaccatgcaaccgctcacctgtggctgccttcccctcagCTAGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCA---CCATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACACCAGCCTCTGgtaagcttgtaattaggagtgaaaccaaaacagccaggcaggacattgcc Alignment from Pairagon TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGC------------------------------------------------------------- aaattggtcaagaccatgcaaccgctcacctgtggctgccttcccctcagCTAGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCA---CCATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACACCAGCCTCTGGTAAGCTTGTAATTAGGAGTGAAACCAAAACAGCCAGGCAGGACATTGCC Alignment from Exonerate_protein2genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAGACCCTGCAG aaattggtcaagaccatgcaaccgctcacctgtggctgccttcccctcagCTAGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACACCAGCCTCTGgtaagcttgtaattaggagtgaaaccaaaacagccaggcaggacattgcc Alignment from Exonerate_coding2genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAGACCCTGCAG aaattggtcaagaccatgcaaccgctcacctgtggctgccttcccctcagCTAGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACACCAGCCTCTGgtaagcttgtaattaggagtgaaaccaaaacagccaggcaggacattgcc Alignment from GeneWise TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTT------GCAGAC- aaattggtcaagaccatgcaaccgctcacctgtggctgccttcccctcagCTAGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACACCAGCCTCTGgtaagcttgtaattaggagtgaaaccaaaacagccaggcaggacattgcc #### Atg2a_ID1518_7 --> 2 - 1 Original Alignment acCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGg aggagtgaaaccaaaacagccaggcaggctctctctatctcttgctacagacCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTG---------ggtgggtcccggtctttgtaaccattttcaatcagagggatattcagcgaa Alignment from CESAR acCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGg aggagtgaaaccaaaacagccaggcaggctctctctatctcttgctacagacCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTG---------ggtgggtcccggtctttgtaaccattttcaatcagagggatattcagcgaa Alignment from Spaln_aa2Genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGG aggagtgaaaccaaaacagccaggcaggctctctctatctcttgctacagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGgtgggtcccggtctttgtaaccattttcaatcagagggatattcagcgaa Alignment from Spaln_nt2Genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG-G aggagtgaaaccaaaacagccaggcaggctctctctatctcttgctacagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGGTGGGTCCCGgtctttgtaaccattttcaatcagagggatattcagcgaa Alignment from Pairagon ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGG aggagtgaaaccaaaacagccaggcaggctctctctatctcttgctacagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGgtgggtcccggtctttgtaaccattttcaatcagagggatattcagcgaa Alignment from Exonerate_protein2genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGG aggagtgaaaccaaaacagccaggcaggctctctctatctcttgctacagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGgtgggtcccggtctttgtaaccattttcaatcagagggatattcagcgaa Alignment from Exonerate_coding2genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGG aggagtgaaaccaaaacagccaggcaggctctctctatctcttgctacagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGgtgggtcccggtctttgtaaccattttcaatcagagggatattcagcgaa Alignment from GeneWise ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTG- aggagtgaaaccaaaacagccaggcaggctctctctatctcttgctacagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGgtgggtcccggtctttgtaaccattttcaatcagagggatattcagcgaa #### Atg2a_ID1526_15 --> 1 - 0 Original Alignment gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ aaacttttggtggcagcatcagggcacctgactatcttttttataatcaggGTGGTGGTGACCCTGAATCCC---CCCAGTAGCACCCAACGGGAGACAGCTTATGAGAAAGGTCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCCATGTATGAGACTGAGGAAAAAGCTgtgagatctcctgactttcccactgggggcaacatttccgtgcgactagt Alignment from CESAR gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ aaacttttggtggcagcatcagggcacctgactatcttttttataatcaggGTGGTGGTGACCCTGAATCCC---CCCAGTAGCACCCAACGGGAGACAGCTTATGAGAAAGGTCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCCATGTATGAGACTGAGGAAAAAGCTgtgagatctcctgactttcccactgggggcaacatttccgtgcgactagt Alignment from Spaln_aa2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ aaacttttggtggcagcatcagggcacctgactatcttttttataatcagGGTGGTGGTGACCCTGAATCCCCCCAGTAGC---ACCCAACGGGAGACAGCTTATGAGAAAGGTCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCCATGTATGAGACTGAGGAAAAAGCTgtgagatctcctgactttcccactgggggcaacatttccgtgcgactagt Alignment from Spaln_nt2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ aaacttttggtggcagcatcagggcacctgactatcttttttataatcagGGTGGTGGTGACCCTGAATCCCC---CCAGTAGCACCCAACGGGAGACAGCTTATGAGAAAGGTCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCCATGTATGAGACTGAGGAAAAAGCTgtgagatctcctgactttcccactgggggcaacatttccgtgcgactagt Alignment from Pairagon GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ aaacttttggtggcagcatcagggcacctgactatcttttttataatcagGGTGGTGGTGACCCTGAATCCCC---CCAGTAGCACCCAACGGGAGACAGCTTATGAGAAAGGTCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCCATGTATGAGACTGAGGAAAAAGCTgtgagatctcctgactttcccactgggggcaacatttccgtgcgactagt Alignment from Exonerate_protein2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA aaacttttggtggcagcatcagggcacctgactatcttttttataatcagGGTGGTGGTGACCCTGAATCCCCCCAGTAGC---ACCCAACGGGAGACAGCTTATGAGAAAGGTCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCCATGTATGAGACTGAGGAAaaagctgtgagatctcctgactttcccactgggggcaacatttccgtgcgactagt Alignment from Exonerate_coding2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA aaacttttggtggcagcatcagggcacctgactatcttttttataatcagGGTGGTGGTGACCCTGAATCCCCCCAGTAGC---ACCCAACGGGAGACAGCTTATGAGAAAGGTCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCCATGTATGAGACTGAGGAAaaagctgtgagatctcctgactttcccactgggggcaacatttccgtgcgactagt Alignment from GeneWise GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA------ aaacttttggtggcagcatcagggcacctgactatcttttttataatcagGGTGGTGGTGACCCTGAATCCCCCCAGTAGC---ACCCAACGGGAGACAGCTTATGAGAAAGGTCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCCATGTATGAGACTGAGGAAAAAGCTgtgagatctcctgactttcccactgggggcaacatttccgtgcgactagt #### Atg2a_ID1527_16 --> 0 - 2 Original Alignment ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACag tgtaactcactggaccgtatctaatccttgtcttgtttcttcccatccag------------------------GAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCCAGTAAGGAAGTATACAAAAGTATCTACAACaggtaagtggagggattcaggctggtctggttaaggcaggaccaggatggag Alignment from CESAR ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACag caatggacggcgccaccagatgcttccttgtcttgtttcttcccatccag------------------------GAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCCAGTAAGGAAGTATACAAAAGTATCTACAACaggtaagtggagggattcaggctggtctggttaaggcaggaccaggatggag Alignment from Spaln_aa2Genome GAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tgtaactcactggaccgtatctaatccttgtcttgtttcttcccatccagGAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCCAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaagtggagggattcaggctggtctggttaaggcaggaccaggatggag Alignment from Spaln_nt2Genome GAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tgtaactcactggaccgtatctaatccttgtcttgtttcttcccatccagGAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCCAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaagtggagggattcaggctggtctggttaaggcaggaccaggatggag Alignment from Pairagon ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tgtaactcactggaccgtatctaatccttgtcttgtttcttcccatccag------------------------GAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCCAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaagtggagggattcaggctggtctggttaaggcaggaccaggatggag Alignment from Exonerate_protein2genome GAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tgtaactcactggaccgtatctaatccttgtcttgtttcttcccatccagGAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCCAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaagtggagggattcaggctggtctggttaaggcaggaccaggatggag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tgtaactcactggaccgtatctaatccttgtcttgtttcttcccatccagGAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCCAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaagtggagggattcaggctggtctggttaaggcaggaccaggatggag #### Atg2a_ID1528_17 --> 1 - 1 Original Alignment gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTA------------------g aggatggaggtcctgtctttagactgctctctgtcccgtgtcttcctcagaATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACACAGTCTGCCCAGTGGggtaagtgagggacactagctagacaggaagggggatgccaggtcaagcag Alignment from CESAR gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTA------------------g aggatggaggtcctgtctttagactgctctctgtcccgtgtcttcctcagaATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACACAGTCTGCCCAGTGGggtaagtgagggacactagctagacaggaagggggatgccaggtcaagcag Alignment from Spaln_aa2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTA------------------G aggatggaggtcctgtctttagactgctctctgtcccgtgtcttcctcagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACACAGTCTGCCCAGTGGGgtaagtgagggacactagctagacaggaagggggatgccaggtcaagcag Alignment from Spaln_nt2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG---- aggatggaggtcctgtctttagactgctctctgtcccgtgtcttcctcagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACACAgtctgcccagtggggtaagtgagggacactagctagacaggaagggggatgccaggtcaagcag Alignment from Pairagon GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCT---------------------------------------------------------------------- aggatggaggtcctgtctttagactgctctctgtcccgtgtcttcctcagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACACAGTCTGCCCAGTGGGGTAAGTGAGGGACACTAGCTAGACAGGAAGGGGGATGCCAGGTCAAGCAG Alignment from Exonerate_protein2genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAA aggatggaggtcctgtctttagactgctctctgtcccgtgtcttcctcagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAgtcagccttcaagcttacacagtctgcccagtggggtaagtgagggacactagctagacaggaagggggatgccaggtcaagcag Alignment from Exonerate_coding2genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAA aggatggaggtcctgtctttagactgctctctgtcccgtgtcttcctcagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAgtcagccttcaagcttacacagtctgcccagtggggtaagtgagggacactagctagacaggaagggggatgccaggtcaagcag Alignment from GeneWise GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTA------------------G aggatggaggtcctgtctttagactgctctctgtcccgtgtcttcctcagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACACAGTCTGCCCAGTGGGgtaagtgagggacactagctagacaggaagggggatgccaggtcaagcag #### Atg2a_ID1529_18 --> 2 - 0 Original Alignment acTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG gccaagctgcattcaaaatagtcttcctgctctctctctctctctctcagacTCAGACTCAGATGAAGAAGAAGCCCAGTTCTTCTCAATGGCATCAGGTGTCCCCCACACACCTGCCCCAGAACCCCCCCGTCGCCAATCCCAGAGTACCTTCTCCACTCTTGTGACAGTACTCAAGGGTCGAATCACTGCACTCCGT---------gtaaatcaactgcgcgtacccagaagccataaaggtctgctgcttcatct Alignment from CESAR acTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG gccaagctgcattcaaaatagtcttcctgctctctctctctctctctcagacTCAGACTCAGATGAAGAAGAAGCCCAGTTCTTCTCAATGGCATCAGGTGTCCCCCACACACCTGCCCCAGAACCCCCCCGTCGCCAATCCCAGAGTACCTTCTCCACTCTTGTGACAGTACTCAAGGGTCGAATCACTGCACTC---------CGTgtaaatcaactgcgcgtacccagaagccataaaggtctgctgcttcatct Alignment from Spaln_aa2Genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGT------GAGGCTAAG gccaagctgcattcaaaatagtcttcctgctctctctctctctctctcagACTCAGACTCAGATGAAGAAGAAGCCCAGTTCTTCTCAATGGCATCAGGTGTCCCCCACACACCTGCCCCAGAACCCCCCCGTCGCCAATCCCAGAGTACCTTCTCCACTCTTGTGACAGTACTCAAGGGTCGAATCACTGCACTCCGTGTAAATCAACTGCGCgtacccagaagccataaaggtctgctgcttcatct Alignment from Spaln_nt2Genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTG--AGGCTAAG gccaagctgcattcaaaatagtcttcctgctctctctctctctctctcagACTCAGACTCAGATGAAGAAGAAGCCCAGTTCTTCTCAATGGCATCAGGTGTCCCCCACACACCTGCCCCAGAACCCCCCCGTCGCCAATCCCAGAGTACCTTCTCCACTCTTGTGACAGTACTCAAGGGTCGAATCACTGCACTCCGTGTAAATCAACTgcgcgtacccagaagccataaaggtctgctgcttcatct Alignment from Pairagon ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGT gccaagctgcattcaaaatagtcttcctgctctctctctctctctctcagACTCAGACTCAGATGAAGAAGAAGCCCAGTTCTTCTCAATGGCATCAGGTGTCCCCCACACACCTGCCCCAGAACCCCCCCGTCGCCAATCCCAGAGTACCTTCTCCACTCTTGTGACAGTACTCAAGGGTCGAATCACTGCACTCCGTgtaaatcaactgcgcgtacccagaagccataaaggtctgctgcttcatct Alignment from Exonerate_protein2genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG gccaagctgcattcaaaatagtcttcctgctctctctctctctctctcagACTCAGACTCAGATGAAGAAGAAGCCCAGTTCTTCTCAATGGCATCAGGTGTCCCCCACACACCTGCCCCAGAACCCCCCCGTCGCCAATCCCAGAGTACCTTCTCCACTCTTGTGACAGTACTCAAGGGTCGAATCACTGCACTCCGTGTAAATCAActgcgcgtacccagaagccataaaggtctgctgcttcatct Alignment from Exonerate_coding2genome ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG gccaagctgcattcaaaatagtcttcctgctctctctctctctctctcagACTCAGACTCAGATGAAGAAGAAGCCCAGTTCTTCTCAATGGCATCAGGTGTCCCCCACACACCTGCCCCAGAACCCCCCCGTCGCCAATCCCAGAGTACCTTCTCCACTCTTGTGACAGTACTCAAGGGTCGAATCACTGCACTCCGTGTAAATCAActgcgcgtacccagaagccataaaggtctgctgcttcatct Alignment from GeneWise ACTCGGATTCAGATGAAGAAGACGCCCAGTTCTTCTCGATGGCATCAGGTGTCCCCCAGACACCTGCCCCAGAACCTTCCCGTCGTCAGTCCCAGAGTACCTTCTCCACACTGGTGACAGTGCTGAAGGGTCGGATCACTGCGCTCTGTGAGGCTAAG gccaagctgcattcaaaatagtcttcctgctctctctctctctctctcagACTCAGACTCAGATGAAGAAGAAGCCCAGTTCTTCTCAATGGCATCAGGTGTCCCCCACACACCTGCCCCAGAACCCCCCCGTCGCCAATCCCAGAGTACCTTCTCCACTCTTGTGACAGTACTCAAGGGTCGAATCACTGCACTC---------CGTgtaaatcaactgcgcgtacccagaagccataaaggtctgctgcttcatct #### Atg2a_ID1530_19 --> 0 - 1 Original Alignment GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGA---g catagttcccaagctctaatcccaacaaggtaattatttcctttccttagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATCATCGGCCCggtaaccgagtcactatgacacacaagcgtcagccataaggtctctctctt Alignment from CESAR GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGA---g catagttcccaagctctaatcccaacaaggtaattatttcctttccttagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATCATCGGCCCggtaaccgagtcactatgacacacaagcgtcagccaatatggtttgctctg Alignment from Spaln_aa2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagttcccaagctctaatcccaacaaggtaattatttcctttccttagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATCATCGGCCCGgtaaccgagtcactatgacacacaagcgtcagccataaggtctctctctt Alignment from Spaln_nt2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagttcccaagctctaatcccaacaaggtaattatttcctttccttagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATCATCGGCCCGgtaaccgagtcactatgacacacaagcgtcagccataaggtctctctctt Alignment from Pairagon GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCG------------------------------------------------------- catagttcccaagctctaatcccaacaaggtaattatttcctttccttagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATCATCGGCCCGGTAACCGAGTCACTATGACACACAAGCGTCAGCCATAAGGTCTCTCTCTT Alignment from Exonerate_protein2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagttcccaagctctaatcccaacaaggtaattatttcctttccttagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATCATCGGCCCGgtaaccgagtcactatgacacacaagcgtcagccataaggtctctctctt Alignment from Exonerate_coding2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagttcccaagctctaatcccaacaaggtaattatttcctttccttagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATCATCGGCCCGgtaaccgagtcactatgacacacaagcgtcagccataaggtctctctctt Alignment from GeneWise GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAGCGG catagttcccaagctctaatcccaacaaggtaattatttcctttccttagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATCATCGGCCCGgtaaccgagtcactatgacacacaagcgtcagccataaggtctctctctt #### Atg2a_ID1531_20 --> 2 - 0 Original Alignment cg------------------------------------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcactatgacacacaagcgtcagccacgctgatgttgctctatcccagcaTCACTGAGGCTGGAGATATCCCCGCGGCCCCTTCGGGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATGAGAATGTCAAGgtaagccacgggcattctgggccacttccccctacccgtgccggtggcaa Alignment from CESAR cccaactccagcccaggtcacatccaagtcatgaggtgccaatctgctacc Alignment from Spaln_aa2Genome CG------------------------------------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcactatgacacacaagcgtcagccacgctgatgttgctctatcccagCATCACTGAGGCTGGAGATATCCCCGCGGCCCCTTCGGGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATGAGAATGTCAAGgtaagccacgggcattctgggccacttccccctacccgtgccggtggcaa Alignment from Spaln_nt2Genome C-------------------GGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcactatgacacacaagcgtcagccacgctgatgttgctctatcccagcatcactgaggctggagATATCCCCGCGGCCCCTTCGGGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATGAGAATGTCAAGgtaagccacgggcattctgggccacttccccctacccgtgccggtggcaa Alignment from Pairagon --------------------------------------------------------------------------------------CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG AGTCACTATGACACACAAGCGTCAGCCACGCTGATGTTGCTCTATCCCAGCATCACTGAGGCTGGAGATATCCCCGCGGCCCCTTCGGGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATGAGAATGTCAAGgtaagccacgggcattctgggccacttccccctacccgtgccggtggcaa Alignment from Exonerate_protein2genome CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcactatgacacacaagcgtcagccacgctgatgttgctctatcccagcatcactgaggctggagatatccccgcggccccttcGGGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATGAGAATGTCAAGgtaagccacgggcattctgggccacttccccctacccgtgccggtggcaa Alignment from Exonerate_coding2genome CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcactatgacacacaagcgtcagccacgctgatgttgctctatcccagcatcactgaggctggagatatccccgcggccccttcGGGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATGAGAATGTCAAGgtaagccacgggcattctgggccacttccccctacccgtgccggtggcaa Alignment from GeneWise -----------------------------------GCGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG agtcactatgacacacaagcgtcagccacgctgatgttgctctatcccagCATCACTGAGGCTGGAGATATCCCCGCGGCCCCTTCGGGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATGAGAATGTCAAGgtaagccacgggcattctgggccacttccccctacccgtgccggtggcaa #### Atg2a_ID1532_21 --> 0 - 0 Original Alignment GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG attggcctctactctcttctggacttgctgtgtttctgtctctttatcag------CTAGTGACGGTAAGATTGCACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCCAGgtatgtcaagaccactgaagtcattgccctggggttacaatctaaccctt Alignment from CESAR GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG ctgaatattggcctctactctcttctgctgtgtttctgtctctttatcag------CTAGTGACGGTAAGATTGCACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCCAGgtatgtcaagaccactgaagtcattgccctggggttacaatctaaccctt Alignment from Spaln_aa2Genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG attggcctctactctcttctggacttgctgtgtttctgtctctttatcag------CTAGTGACGGTAAGATTGCACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCCAGgtatgtcaagaccactgaagtcattgccctggggttacaatctaaccctt Alignment from Spaln_nt2Genome -TGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG attggcctctactctcttctggacttgctgtgtttctgtctctttatcagCTAGTGACGGTAAGATTGCACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCCAGgtatgtcaagaccactgaagtcattgccctggggttacaatctaaccctt Alignment from Pairagon GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG attggcctctactctcttctggacttgctgtgtttctgtctctttatcag------CTAGTGACGGTAAGATTGCACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCCAGgtatgtcaagaccactgaagtcattgccctggggttacaatctaaccctt Alignment from Exonerate_protein2genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG attggcctctactctcttctggacttgctgtgtttctgtctcttTATCAGCTAGTGACGGTAAGATTGCACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCCAGgtatgtcaagaccactgaagtcattgccctggggttacaatctaaccctt Alignment from Exonerate_coding2genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG attggcctctactctcttctggacttgctgtgtttctgtctcttTATCAGCTAGTGACGGTAAGATTGCACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCCAGgtatgtcaagaccactgaagtcattgccctggggttacaatctaaccctt Alignment from GeneWise TTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG attggcctctactctcttctggacttgctgtgtttctgtctctttatcagCTAGTGACGGTAAGATTGCACAAGGCAACCCTTTGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCCAGgtatgtcaagaccactgaagtcattgccctggggttacaatctaaccctt #### Atg2a_ID1534_23 --> 1 - 2 Original Alignment g---------------------CCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCag aggcaggtgttacagggagaagcatgcccctcccccttctggtctcccagaGAATCTACTGATGTGGGTAACCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACATTCTTGCTAaggtaaaatagctactctatgcctggtccattctattctcaaataactccct Alignment from CESAR g---------------------CCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCag aggcaggtgttacagggagaagcatgcccctcccccttctggtctcccagaGAATCTACTGATGTGGGTAACCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACATTCTTGCTAaggtaaaatagctactctatgcctggtccattctattctcaaataactccct Alignment from Spaln_aa2Genome G---------------------CCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCA aggcaggtgttacagggagaagcatgcccctcccccttctggtctcccagAGAATCTACTGATGTGGGTAACCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACATTCTTGCTAAGgtaaaatagctactctatgcctggtccattctattctcaaataactccct Alignment from Spaln_nt2Genome ACTAC----AGGCCCCTCTAC----------CTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG aggcaggtgttacagggagaagcatgcccctcccccttctggtctcccagAGAATCTACTGATGTGGGTAACCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACATTCTTGCTAAGgtaaaatagctactctatgcctggtccattctattctcaaataactccct Alignment from Pairagon ------------------------------------------------------------------------CCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG AGGCAGGTGTTACAGGGAGAAGCATGCCCCTCCCCCTTCTGGTCTCCCAGAGAATCTACTGATGTGGGTAACCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACATTCTTGCTAAGgtaaaatagctactctatgcctggtccattctattctcaaataactccct Alignment from Exonerate_protein2genome GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG aggcaggtgttacagggagaagcatgcccctcccccttctggtctcccagagaatctactgatgtgggtaaCCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACATTCTTGCTAAGgtaaaatagctactctatgcctggtccattctattctcaaataactccct Alignment from Exonerate_coding2genome GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG aggcaggtgttacagggagaagcatgcccctcccccttctggtctcccagagaatctactgatgtgggtaaCCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACATTCTTGCTAAGgtaaaatagctactctatgcctggtccattctattctcaaataactccct Alignment from GeneWise -------------------AGGCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG aggcaggtgttacagggagaagcatgcccctcccccttctggtctcccagAGAATCTACTGATGTGGGTAACCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACATTCTTGCTAAGgtaaaatagctactctatgcctggtccattctattctcaaataactccct #### Atg2a_ID1537_26 --> 0 - 0 Original Alignment AGCCAGCCTCTGTTTGAGCTGCGCTGCTCCAACAACGTGGTGCACGTGCATAGCTGTGCTGACTCCTGCGCCCTGCTGGTCAACCTGCTCCAGTACCTAACCAGCTCGGGTGACCTGCACCCCCCACCCCGGCCCCCCAGCCCTACAGAGATCGCTGGCCAGAAG aggcagccaagtctttgacactcctgtgtgcattctttttctttccatag------------------------------------------------CATAGCTGTGCCGACTCCTGCGCTCTACTGTTCAATCTGCTCCAGTACTTAACTAGCTCAGGTGACCTACACCCCCCGCCCCGGCCCCCCAGCCCCACAGAGCTTGCTGGCCAGAAGgtactcgtatgccctgcaggctactagagcccagccaggcccctctttgt Alignment from CESAR AGCCAGCCTCTGTTTGAGCTGCGCTGCTCCAACAACGTGGTGCACGTGCATAGCTGTGCTGACTCCTGCGCCCTGCTGGTCAACCTGCTCCAGTACCTAACCAGCTCGGGTGACCTGCACCCCCCACCCCGGCCCCCCAGCCCTACAGAGATCGCTGGCCAGAAG ttgcagccaagtctttgacactcctgtgtgcattctttttctttccatag------------------------------------------------CATAGCTGTGCCGACTCCTGCGCTCTACTGTTCAATCTGCTCCAGTACTTAACTAGCTCAGGTGACCTACACCCCCCGCCCCGGCCCCCCAGCCCCACAGAGCTTGCTGGCCAGAAGgtactcgtatgccctgcaggctactagagcccagccaggcccctctttgt Alignment from Spaln_aa2Genome CATAGCTGTGCTGACTCCTGCGCCCTGCTGGTCAACCTGCTCCAGTACCTAACCAGCTCGGGTGACCTGCACCCCCCACCCCGGCCCCCCAGCCCTACAGAGATCGCTGGCCAGAAG aggcagccaagtctttgacactcctgtgtgcattctttttctttccatagCATAGCTGTGCCGACTCCTGCGCTCTACTGTTCAATCTGCTCCAGTACTTAACTAGCTCAGGTGACCTACACCCCCCGCCCCGGCCCCCCAGCCCCACAGAGCTTGCTGGCCAGAAGgtactcgtatgccctgcaggctactagagcccagccaggcccctctttgt Alignment from Spaln_nt2Genome CATAGCTGTGCTGACTCCTGCGCCCTGCTGGTCAACCTGCTCCAGTACCTAACCAGCTCGGGTGACCTGCACCCCCCACCCCGGCCCCCCAGCCCTACAGAGATCGCTGGCCAGAAG aggcagccaagtctttgacactcctgtgtgcattctttttctttccatagCATAGCTGTGCCGACTCCTGCGCTCTACTGTTCAATCTGCTCCAGTACTTAACTAGCTCAGGTGACCTACACCCCCCGCCCCGGCCCCCCAGCCCCACAGAGCTTGCTGGCCAGAAGgtactcgtatgccctgcaggctactagagcccagccaggcccctctttgt Alignment from Pairagon AGCCAGCCTCTGTTTGAGCTGCGCTGCTCCAACAACGTGGTGCACGTGCATAGCTGTGCTGACTCCTGCGCCCTGCTGGTCAACCTGCTCCAGTACCTAACCAGCTCGGGTGACCTGCACCCCCCACCCCGGCCCCCCAGCCCTACAGAGATCGCTGGCCAGAAG aggcagccaagtctttgacactcctgtgtgcattctttttctttccatag------------------------------------------------CATAGCTGTGCCGACTCCTGCGCTCTACTGTTCAATCTGCTCCAGTACTTAACTAGCTCAGGTGACCTACACCCCCCGCCCCGGCCCCCCAGCCCCACAGAGCTTGCTGGCCAGAAGgtactcgtatgccctgcaggctactagagcccagccaggcccctctttgt Alignment from Exonerate_protein2genome AGCCAGCCTCTGTTTGAGCTGCGCTGCTCCAACAACGTGGTGCACGTGCATAGCTGTGCTGACTCCTGCGCCCTGCTGGTCAACCTGCTCCAGTACCTAACCAGCTCGGGTGACCTGCACCCCCCACCCCGGCCCCCCAGCCCTACAGAGATCGCTGGCCAGAAG agGCAGCCAAGTCTTTGACACTCCTGTGTGCATTCTTTTTCTTTCCATAGCATAGCTGTGCCGACTCCTGCGCTCTACTGTTCAATCTGCTCCAGTACTTAACTAGCTCAGGTGACCTACACCCCCCGCCCCGGCCCCCCAGCCCCACAGAGCTTGCTGGCCAGAAGgtactcgtatgccctgcaggctactagagcccagccaggcccctctttgt Alignment from Exonerate_coding2genome aggcagccaagtctttgacactcctgtgtgcattctttttctttccatagcatagctgtgccgactcctgcgctctactgttcaatctgctccagtacttaactagctcaggtgacctacaccccccgccccggccccccagccccacagagcttgctggccagaaggtactcgtatgccctgcaggctactagagcccagccaggcccctctttgt Alignment from GeneWise CATAGCTGTGCTGACTCCTGCGCCCTGCTGGTCAACCTGCTCCAGTACCTAACCAGCTCGGGTGACCTGCACCCCCCACCCCGGCCCCCCAGCCCTACAGAGATCGCTGGCCAGAAG aggcagccaagtctttgacactcctgtgtgcattctttttctttccatagCATAGCTGTGCCGACTCCTGCGCTCTACTGTTCAATCTGCTCCAGTACTTAACTAGCTCAGGTGACCTACACCCCCCGCCCCGGCCCCCCAGCCCCACAGAGCTTGCTGGCCAGAAGgtactcgtatgccctgcaggctactagagcccagccaggcccctctttgt #### Atg2a_ID1538_27 --> 0 - 1 Original Alignment ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGg agctggagctatctccgcttccattgctgtgttgcctttactcttcctagAAAAACCGACTATCAGAAAGTCCTGCCTCTCTGCCTTCATGCCTA---CTGGAGACAGCCCTAATCAATCAACGAGACTTGACTGATGCCCTTCTAGATACTGAGCGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAggtgagtgggggcaacccaagggcaaggaactagtcacattctcatagcca Alignment from CESAR ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGg agctggagctatctccgcttccattgctgtgttgcctttactcttcctagAAAAACCGACTATCAGAAAGTCCTGCCTCTCTGCCTTCATGCCTA---CTGGAGACAGCCCTAATCAATCAACGAGACTTGACTGATGCCCTTCTAGATACTGAGCGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAggtgagtgggggcaacccaagggcaaggaactagtcacattctcatagcca Alignment from Spaln_aa2Genome CTTTCGGAGAGCCCT---------GCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatctccgcttccattgctgtgttgcctttactcttcctagAAAAACCGACTATCAGAAAGTCCTGCCTCTCTGCCTTCATGCCTA---CTGGAGACAGCCCTAATCAATCAACGAGACTTGACTGATGCCCTTCTAGATACTGAGCGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgagtgggggcaacccaagggcaaggaactagtcacattctcatagcca Alignment from Spaln_nt2Genome ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatctccgcttccattgctgtgttgcctttactcttcctagAAAAACCGACTATCAGAAAGTCCTGCCTCTCTGCCTTCATGCCTAC---TGGAGACAGCCCTAATCAATCAACGAGACTTGACTGATGCCCTTCTAGATACTGAGCGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgagtgggggcaacccaagggcaaggaactagtcacattctcatagcca Alignment from Pairagon ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatctccgcttccattgctgtgttgcctttactcttcctagAAAAACCGACTATCAGAAAGTCCTGCCTCTCTGCCTTCATGCCTAC---TGGAGACAGCCCTAATCAATCAACGAGACTTGACTGATGCCCTTCTAGATACTGAGCGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgagtgggggcaacccaagggcaaggaactagtcacattctcatagcca Alignment from Exonerate_protein2genome ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatctccgcttccattgctgtgttgcctttactcttcctagAAAAACCGACTATCAGAAAGTCCTGCCTCTCTGCCTTCATGCCTA---CTGGAGACAGCCCTAATCAATCAACGAGACTTGACTGATGCCCTTCTAGATACTGAGCGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgagtgggggcaacccaagggcaaggaactagtcacattctcatagcca Alignment from Exonerate_coding2genome ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatctccgcttccattgctgtgttgcctttactcttcctagAAAAACCGACTATCAGAAAGTCCTGCCTCTCTGCCTTCATGCCTA---CTGGAGACAGCCCTAATCAATCAACGAGACTTGACTGATGCCCTTCTAGATACTGAGCGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgagtgggggcaacccaagggcaaggaactagtcacattctcatagcca Alignment from GeneWise ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatctccgcttccattgctgtgttgcctttactcttcctagAAAAACCGACTATCAGAAAGTCCTGCCTCTCTGCCTTCATGCCTA---CTGGAGACAGCCCTAATCAATCAACGAGACTTGACTGATGCCCTTCTAGATACTGAGCGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgagtgggggcaacccaagggcaaggaactagtcacattctcatagcca #### Atg2a_ID1539_28 --> 2 - 0 Original Alignment gt---GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cacattctcatagccagacctcacactgatggcgtgtctttcttctttaggtAGAGGTACACTTCCTCAGTCCTCTCCCATCTCAGTCTAT---TTCCCAGGTGGGCGGAGTGGGGTCCAGGCGCCTTCACATCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCAAGGGAGCATGAA------GAGGAAGGTGATGGAGACACCCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCCTAGGTATTGCAgtaagtatgttgggattggggtgtttggtaagatgagcaacttcagcttt Alignment from CESAR gt---GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cacattctcatagccagacctcacactgatggcgtgtctttcttctttaggtAGAGGTACACTTCCTCAGTCCTCTCCCATCTCAGTCTAT---TTCCCAGGTGGGCGGAGTGGGGTCCAGGCGCCTTCACATCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACCCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCCTAGGTATTGCAgtaagtatgttgggattggggtgtttggtaagatgagcaacttcagcttt Alignment from Spaln_aa2Genome GT---GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cacattctcatagccagacctcacactgatggcgtgtctttcttctttagGTAGAGGTACACTTCCTCAGTCCTCTCCCATCTCAGTCTAT---TTCCCAGGTGGGCGGAGTGGGGTCCAGGCGCCTTCACATCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACCCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCCTAGGTATTGCAgtaagtatgttgggattggggtgtttggtaagatgagcaacttcagcttt Alignment from Spaln_nt2Genome GT---GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cacattctcatagccagacctcacactgatggcgtgtctttcttctttagGTAGAGGTACACTTCCTCAGTCCTCTCCCATCTCAGTCTAT---TTCCCAGGTGGGCGGAGTGGGGTCCAGGCGCCTTCACATCCTCCTGGGGCCTCTTCTCATACCTTGGG---TAAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACCCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCCTAGGTATTGCAgtaagtatgttgggattggggtgtttggtaagatgagcaacttcagcttt Alignment from Pairagon GT---GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cacattctcatagccagacctcacactgatggcgtgtctttcttctttagGTAGAGGTACACTTCCTCAGTCCTCTCCCATCTCAGTCTAT---TTCCCAGGTGGGCGGAGTGGGGTCCAGGCGCCTTCACATCCTCCTGGGGCCTCTTCTCATACCTTGGG---TAAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACCCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCCTAGGTATTGCAgtaagtatgttgggattggggtgtttggtaagatgagcaacttcagcttt Alignment from Exonerate_protein2genome GT---GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cacattctcatagccagacctcacactgatggcgtgtctttcttctttagGTAGAGGTACACTTCCTCAGTCCTCTCCCATCTCAGTCTAT---TTCCCAGGTGGGCGGAGTGGGGTCCAGGCGCCTTCACATCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACCCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCCTAGGTATTGCAgtaagtatgttgggattggggtgtttggtaagatgagcaacttcagcttt Alignment from Exonerate_coding2genome GT---GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cacattctcatagccagacctcacactgatggcgtgtctttcttctttagGTAGAGGTACACTTCCTCAGTCCTCTCCCATCTCAGTCTAT---TTCCCAGGTGGGCGGAGTGGGGTCCAGGCGCCTTCACATCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCAAGGGAGCAT------GAAGAGGAAGGTGATGGAGACACCCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCCTAGGTATTGCAgtaagtatgttgggattggggtgtttggtaagatgagcaacttcagcttt Alignment from GeneWise -GGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG cacattctcatagccagacctcacactgatggcgtgtctttcttctttaggtagAGGTACACTTCCTCAGTCCTCTCCCATCTCAGTCTAT---TTCCCAGGTGGGCGGAGTGGGGTCCAGGCGCCTTCACATCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCAAGGGAGCATGAA------GAGGAAGGTGATGGAGACACCCTGGATAGTGATGAATTCTGCATCCTTGATGCCCCTGGCCTAGGTATTGCAgtaagtatgttgggattggggtgtttggtaagatgagcaacttcagcttt #### Atg2a_ID1546_35 --> 1 - 0 Original Alignment gGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG ttgtcagccagcatagtagaagggatccgaacttctggatctcccggcagg------------------------------TGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtgagcgtcttcactgggcaggctttgttagctgttgtcaattttcagca Alignment from CESAR gGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG cagtggtgggttagaggcctagggatccgaacttctggatctcccggcagg------------------------------TGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtgagcgtcttcactgggcaggctttgttagctgttgtcaattttcagca Alignment from Spaln_aa2Genome CTACTTCAGGGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG ttgtcagccagCATAGTAGAAGGGATCCGAACTTCTGGATCTCCCGGCAGGTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtgagcgtcttcactgggcaggctttgttagctgttgtcaattttcagca Alignment from Spaln_nt2Genome CTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG ttgtcagccagcatagtagaagggatccgaacttctggatctcccggcagGTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtgagcgtcttcactgggcaggctttgttagctgttgtcaattttcagca Alignment from Pairagon GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG ttgtcagccagcatagtagaagggatccgaacttctggatctcccggcagG------------------------------TGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtgagcgtcttcactgggcaggctttgttagctgttgtcaattttcagca Alignment from Exonerate_protein2genome CTATCTACTTCAGGGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG ttgtcagCCAGCATAGTAGAAGGGATCCGAACTTCTGGATCTCCCGGCAGGTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtgagcgtcttcactgggcaggctttgttagctgttgtcaattttcagca Alignment from Exonerate_coding2genome CTATCTACTTCAGGGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG ttgtcagCCAGCATAGTAGAAGGGATCCGAACTTCTGGATCTCCCGGCAGGTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtgagcgtcttcactgggcaggctttgttagctgttgtcaattttcagca Alignment from GeneWise -------AGGGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG ttgtcagccagCATAGTAGAAGGGATCCGAACTTCTGGATCTCCCGGCAGGTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGgtgagcgtcttcactgggcaggctttgttagctgttgtcaattttcagca #### Best1_ID2637_2 --> 1 - 1 Original Alignment aATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGg cacccagtaccctacgtgtgtagagtcttgtcctgccttacaacccacaga------------------------------TTCAAGAAGTTGGCTCTGTACTGTGACAGCTACATTCAGCTCATCCCAATATCTTTTGTTCTGggtgagtgccccttgtagctagtgatgacctagccctcacccaagcccctg Alignment from CESAR aATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGg ccacagccagaatgatactctagagtcttgtcctgccttacaacccacaga------------------------------TTCAAGAAGTTGGCTCTGTACTGTGACAGCTACATTCAGCTCATCCCAATATCTTTTGTTCTGggtgagtgccccttgtagctagtgatgacctagccctcacccaagcccctg Alignment from Spaln_aa2Genome AATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG ccagtaccctacgtgtgtagA---GTCTTGTCCTGCCTTACAACCCACAGATTCAAGAAGTTGGCTCTGTACTGTGACAGCTACATTCAGCTCATCCCAATATCTTTTGTTCTGGgtgagtgccccttgtagctagtgatgacctagccctcacccaagcccctg Alignment from Spaln_nt2Genome TGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG cacccagtaccctacgtgtgtagagtcttgtcctgccttacaacccacag-ATTCAAGAAGTTGGCTCTGTACTGTGACAGCTACATTCAGCTCATCCCAATATCTTTTGTTCTGGgtgagtgccccttgtagctagtgatgacctagccctcacccaagcccctg Alignment from Pairagon AATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG cacccagtaccctacgtgtgtagagtcttgtcctgccttacaacccacagA------------------------------TTCAAGAAGTTGGCTCTGTACTGTGACAGCTACATTCAGCTCATCCCAATATCTTTTGTTCTGGgtgagtgccccttgtagctagtgatgacctagccctcacccaagcccctg Alignment from Exonerate_protein2genome AATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG ccagtaccctacgtgtgtagA---GTCTTGTCCTGCCTTACAACCCACAGATTCAAGAAGTTGGCTCTGTACTGTGACAGCTACATTCAGCTCATCCCAATATCTTTTGTTCTGGgtgagtgccccttgtagctagtgatgacctagccctcacccaagcccctg Alignment from Exonerate_coding2genome AATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG ccagtaccctacgtgtgtagA---GTCTTGTCCTGCCTTACAACCCACAGATTCAAGAAGTTGGCTCTGTACTGTGACAGCTACATTCAGCTCATCCCAATATCTTTTGTTCTGGgtgagtgccccttgtagctagtgatgacctagccctcacccaagcccctg Alignment from GeneWise AATGGTTCTCTCGAGTGATCAGCAGCTGTTGTTTGAGAAGCTGGCTCTGTACTGCGACAGCTACATTCAGCTCATCCCTATATCCTTCGTTCTGG ccagtaccctacgtgtgtagA---GTCTTGTCCTGCCTTACAACCCACAGATTCAAGAAGTTGGCTCTGTACTGTGACAGCTACATTCAGCTCATCCCAATATCTTTTGTTCTGGgtgagtgccccttgtagctagtgatgacctagccctcacccaagcccctg #### Bscl2_ID2422_5 --> 0 - 0 Original Alignment GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG--- cactatcactgtattcaggcacccagaagttttaaattactttccatcagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGTTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGAACTCAGGTgtaagtggcagacaaccttgcaaagcaagtcctcaatgagccagaattgt Alignment from CESAR GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG--- cactatcactgtattcaggcacccagaagttttaaattactttccatcagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGTTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGAACTCAGGTgtaagtggcagacaaccttgcaaagcaagtcctcaatgagccagaattgt Alignment from Spaln_aa2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG--- cactatcactgtattcaggcacccagaagttttaaattactttccatcagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGTTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGAACTCAGGTgtaagtggcagacaaccttgcaaagcaagtcctcaatgagccagaattgt Alignment from Spaln_nt2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAGAATTC-G cactatcactgtattcaggcacccagaagttttaaattactttccatcagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGTTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGAACTCAGgtgtaagtggcagacaaccttgcaaagcaagtcctcaatgagccagaattgt Alignment from Pairagon GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAGAATTCG--- cactatcactgtattcaggcacccagaagttttaaattactttccatcagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGTTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGAACTCAGGTgtaagtggcagacaaccttgcaaagcaagtcctcaatgagccagaattgt Alignment from Exonerate_protein2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCGTAT cactatcactgtattcaggcacccagaagttttaaattactttccatcagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGTTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGAACTCAGGTgtaagtggcagacaaccttgcaaagcaagtcctcaatgagccagaattgt Alignment from Exonerate_coding2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCGTAT cactatcactgtattcaggcacccagaagttttaaattactttccatcagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGTTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGAACTCAGGTgtaagtggcagacaaccttgcaaagcaagtcctcaatgagccagaattgt Alignment from GeneWise GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCGTAT cactatcactgtattcaggcacccagaagttttaaattactttccatcagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGTTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGAACTCAGGTgtaagtggcagacaaccttgcaaagcaagtcctcaatgagccagaattgt #### Bscl2_ID2425_8 --> 0 - 1 Original Alignment GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAg ttctggagaggggagtctaagctcacgggtttcctcttcatttttaatagGTCAATACCCGTCAAAGGGATAACTCACACCATGGA------GACCGCATCTCACACCATCAG---ggtaccaattaaattggttaatagaagtctggggggaaaacacaaaagaga Alignment from CESAR GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAg ttctggagaggggagtctaagctcacgggtttcctcttcatttttaatagGTCAATACCCGTCAAAGGGATAACTCACACCATGGAGAC------CGCATCTCACACCATCAG---ggtaccaattaaattggttaatagaagtctggggggaaaacacaaaagaga Alignment from Spaln_aa2Genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAG- ttctggagaggggagtctaagctcacgggtttcctcttcatttttaatagGTCAATACCCGTCAAAGGGATAACTCACACCATGGAGAC------CGCATCTCACACCATCAGGgtaccaattaaattggttaatagaagtctggggggaaaacacaaaagaga Alignment from Spaln_nt2Genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG ttctggagaggggagtctaagctcacgggtttcctcttcatttttaatagGTCAATACCCGTCAAAGGGATAACTCACACCATGGAGAC------CGCATCTCACACCATCAG---Ggtaccaattaaattggttaatagaagtctggggggaaaacacaaaagaga Alignment from Pairagon GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG ttctggagaggggagtctaagctcacgggtttcctcttcatttttaatagGTCAATACCCGTCAAAGGGATAACTCACACCATGGAGAC------CGCATCTCACACCATCAG---Ggtaccaattaaattggttaatagaagtctggggggaaaacacaaaagaga Alignment from Exonerate_protein2genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCC ttctggagaggggagtctaagctcacgggtttcctcttcatttttaatagGTCAATACCCGTCAAAGGGATAACTCACACCATGGAGACCGCATCTCACACCATCAGGgtaccaattaaattggttaatagaagtctggggggaaaacacaaaagaga Alignment from Exonerate_coding2genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCC ttctggagaggggagtctaagctcacgggtttcctcttcatttttaatagGTCAATACCCGTCAAAGGGATAACTCACACCATGGAGACCGCATCTCACACCATCAGGgtaccaattaaattggttaatagaagtctggggggaaaacacaaaagaga Alignment from GeneWise GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGC ttctggagaggggagtctaagctcacgggtttcctcttcatttttaatagGTCAATACCCGTCAAAGGGATAACTCACACCATGGA------GACCGCATCTCACACCATCAGGgtaccaattaaattggttaatagaagtctggggggaaaacacaaaagaga #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg cagtgccagagctctcccctctgtctcagcttgatctaaatgctttgcagagGGCCAACTGTCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCCAGT---ggttagtaaagtagtatatgtcatagacaggggtactgtgtggtggggagg Alignment from CESAR agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg cagtgccagagctctcccctctgtctcagcttgatctaaatgctttgcagagGGCCAACTGTCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCCAGT---ggttagtaaagtagtatatgtcatagacaggggtactgtgtggtggggagg Alignment from Spaln_aa2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGT- cagtgccagagctctcccctctgtctcagcttgatctaaatgctttgcagAGGGCCAACTGTCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCCAGTGgttagtaaagtagtatatgtcatagacaggggtactgtgtggtggggagg Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTG cagtgccagagctctcccctctgtctcagcttgatctaaatgctttgcagAGGGCCAACTGTCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCCAGTGgttagtaaagtagtatatgtcatagacaggggtactgtgtggtggggagg Alignment from Pairagon AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTG cagtgccagagctctcccctctgtctcagcttgatctaaatgctttgcagAGGGCCAACTGTCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCCAGTGgttagtaaagtagtatatgtcatagacaggggtactgtgtggtggggagg Alignment from Exonerate_protein2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTG cagtgccagagctctcccctctgtctcagcttgatctaaatgctttgcagAGGGCCAACTGTCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCCAGTGgttagtaaagtagtatatgtcatagacaggggtactgtgtggtggggagg Alignment from Exonerate_coding2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTG cagtgccagagctctcccctctgtctcagcttgatctaaatgctttgcagAGGGCCAACTGTCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCCAGTGgttagtaaagtagtatatgtcatagacaggggtactgtgtggtggggagg Alignment from GeneWise AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTG cagtgccagagctctcccctctgtctcagcttgatctaaatgctttgcagAGGGCCAACTGTCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCCAGTGgttagtaaagtagtatatgtcatagacaggggtactgtgtggtggggagg #### Btrc_ID9458_8 --> 0 - 0 Original Alignment ---ACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgagtagttagtattgtctttattgggtatttatgctatgttaaatttagAGTACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGTAAAGGGGTCTACTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGCCTTCGAGACAACACCATCAAGgtgagtgggaccacttcagtggagaagcaaacatccatagagcagtgtgc Alignment from CESAR ---ACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgagtagttagtattgtctttattgggtatttatgctatgttaaatttagAGTACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGTAAAGGGGTCTACTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGCCTTCGAGACAACACCATCAAGgtgagtgggaccacttcagtggagaagcaaacatccatagagcagtgtgc Alignment from Spaln_aa2Genome ACAATAGAGTCCAAT---TGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgagtagttagtattgtctttattgggtatttatgctatgttaaatttagAGTACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGTAAAGGGGTCTACTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGCCTTCGAGACAACACCATCAAGgtgagtgggaccacttcagtggagaagcaaacatccatagagcagtgtgc Alignment from Spaln_nt2Genome A---CAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgagtagttagtattgtctttattgggtatttatgctatgttaaatttagAGTACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGTAAAGGGGTCTACTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGCCTTCGAGACAACACCATCAAGgtgagtgggaccacttcagtggagaagcaaacatccatagagcagtgtgc Alignment from Pairagon ---ACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgagtagttagtattgtctttattgggtatttatgctatgttaaatttagAGTACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGTAAAGGGGTCTACTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGCCTTCGAGACAACACCATCAAGgtgagtgggaccacttcagtggagaagcaaacatccatagagcagtgtgc Alignment from Exonerate_protein2genome ---ACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgagtagttagtattgtctttattgggtatttatgctatgttaaatttagAGTACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGTAAAGGGGTCTACTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGCCTTCGAGACAACACCATCAAGgtgagtgggaccacttcagtggagaagcaaacatccatagagcagtgtgc Alignment from Exonerate_coding2genome ---ACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgagtagttagtattgtctttattgggtatttatgctatgttaaatttagAGTACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGTAAAGGGGTCTACTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGCCTTCGAGACAACACCATCAAGgtgagtgggaccacttcagtggagaagcaaacatccatagagcagtgtgc Alignment from GeneWise ---ACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGAATCCACTGCCGGAGTGAAACAAGTAAAGGGGTTTACTGTTTACAGTACGACGACCAGAAGATAGTCAGCGGCCTTCGAGACAACACCATCAAG tgagtagttagtattgtctttattgggtatttatgctatgttaaatttagAGTACAATAGAGTCCAATTGGAGATGTGGGCGACATAGTTTACAGAGGATTTACTGCCGGAGTGAAACAAGTAAAGGGGTCTACTGTTTACAGTATGATGATCAGAAGATAGTCAGTGGCCTTCGAGACAACACCATCAAGgtgagtgggaccacttcagtggagaagcaaacatccatagagcagtgtgc #### C030046E11Rik_ID6307_21 --> 0 - 2 Original Alignment ---GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag cctcagcagagcatctttgattagaactactcttaactctcactctgcagGCTGAGCCCAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACCGGTCCTTCTGGGAAAaggcaagagaagagagggaggttatggctccagagctttcctgcactcctca Alignment from CESAR ---GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag cctcagcagagcatctttgattagaactactcttaactctcactctgcagGCTGAGCCCAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACCGGTCCTTCTGGGAAAaggcaagagaagagagggaggttatggctccagagctttcctgcactcctca Alignment from Spaln_aa2Genome GAGCCCAGTTCAAGT---GGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG cctcagcagagcatctttgattagaactactcttaactctcactctgcagGCTGAGCCCAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACCGGTCCTTCTGGGAAAAGgcaagagaagagagggaggttatggctccagagctttcctgcactcctca Alignment from Spaln_nt2Genome GAGCCCAGTT---CAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG cctcagcagagcatctttgattagaactactcttaactctcactctgcagGCTGAGCCCAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACCGGTCCTTCTGGGAAAAGgcaagagaagagagggaggttatggctccagagctttcctgcactcctca Alignment from Pairagon ---GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG cctcagcagagcatctttgattagaactactcttaactctcactctgcagGCTGAGCCCAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACCGGTCCTTCTGGGAAAAGgcaagagaagagagggaggttatggctccagagctttcctgcactcctca Alignment from Exonerate_protein2genome ---GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG cctcagcagagcatctttgattagaactactcttaactctcactctgcagGCTGAGCCCAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACCGGTCCTTCTGGGAAAAGgcaagagaagagagggaggttatggctccagagctttcctgcactcctca Alignment from Exonerate_coding2genome ---GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG cctcagcagagcatctttgattagaactactcttaactctcactctgcagGCTGAGCCCAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACCGGTCCTTCTGGGAAAAGgcaagagaagagagggaggttatggctccagagctttcctgcactcctca Alignment from GeneWise ---GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAGA----------------- cctcagcagagcatctttgattagaactactcttaactctcactctgcagGCTGAGCCCAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACCGGTCCTTCTGGGAAAAGGCAAGAGAAGAGAGGGAGgttatggctccagagctttcctgcactcctca #### C030046E11Rik_ID6311_25 --> 1 - 2 Original Alignment cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAAGCAGTGGACCGCTGGGCCTCTACAGACtg gtgagcttctattgttcatatggaccctaatatactcttttactctgtagcTACTTGCTGCACATTTACATGGAGGCAGGATGTCTGGACTGGTGTGTTGTCATTGGCTTGATTCTCCGAGAAGCGTCAGTGGTCAGTCAGCTCCTTGGGCTTACCCAATCCCCTGGGATGGATGGAGAAATGTTACAAAACATAAAATCTGGACTGCAAGCAGTTGATCGCTGG------------tggtaagtgaatgcagtattcctagtttcgtaccctggtcccttggcaaatt Alignment from CESAR cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAAGCAGTGGACCGCTGGGCCTCTACAGACtg gtgagcttctattgttcatatggaccctaatatactcttttactctgtagcTACTTGCTGCACATTTACATGGAGGCAGGATGTCTGGACTGGTGTGTTGTCATTGGCTTGATTCTCCGAGAAGCGTCAGTGGTCAGTCAGCTCCTTGGGCTTACCCAATCCCCTGGGATGGATGGAGAAATGTTACAAAACATAAAATCTGGACTGCAAGCAGTTGATCGCTGG------------tggtaagtgaatgcagtattcctagtttcgtaccctggtcccttggcaaatt Alignment from Spaln_aa2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAAGCAGTGGACCGCTGGGC gtgagcttctattgttcatatggaccctaatatactcttttactctgtagCTACTTGCTGCACATTTACATGGAGGCAGGATGTCTGGACTGGTGTGTTGTCATTGGCTTGATTCTCCGAGAAGCGTCAGTGGTCAGTCAGCTCCTTGGGCTTACCCAATCCCCTGGGATGGATGGAGAAATGTTACAAAACATAAAATCTGGACTGCAAGCAGTTGATCGCTGGTGgtaagtgaatgcagtattcctagtttcgtaccctggtcccttggcaaatt Alignment from Spaln_nt2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAAGCAGTGGACCGCTGGGC gtgagcttctattgttcatatggaccctaatatactcttttactctgtagCTACTTGCTGCACATTTACATGGAGGCAGGATGTCTGGACTGGTGTGTTGTCATTGGCTTGATTCTCCGAGAAGCGTCAGTGGTCAGTCAGCTCCTTGGGCTTACCCAATCCCCTGGGATGGATGGAGAAATGTTACAAAACATAAAATCTGGACTGCAAGCAGTTGATCGCTGGTGgtaagtgaatgcagtattcctagtttcgtaccctggtcccttggcaaatt Alignment from Pairagon CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAAGCAGTGGACCGCTGGGCCTCTACAGACTG gtgagcttctattgttcatatggaccctaatatactcttttactctgtagCTACTTGCTGCACATTTACATGGAGGCAGGATGTCTGGACTGGTGTGTTGTCATTGGCTTGATTCTCCGAGAAGCGTCAGTGGTCAGTCAGCTCCTTGGGCTTACCCAATCCCCTGGGATGGATGGAGAAATGTTACAAAACATAAAATCTGGACTGCAAGCAGTTGATCGCTGG------------TGgtaagtgaatgcagtattcctagtttcgtaccctggtcccttggcaaatt Alignment from Exonerate_protein2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAAGCAGTGGACCGCTGGGC gtgagcttctattgttcatatggaccctaatatactcttttactctgtagCTACTTGCTGCACATTTACATGGAGGCAGGATGTCTGGACTGGTGTGTTGTCATTGGCTTGATTCTCCGAGAAGCGTCAGTGGTCAGTCAGCTCCTTGGGCTTACCCAATCCCCTGGGATGGATGGAGAAATGTTACAAAACATAAAATCTGGACTGCAAGCAGTTGATCGCTGGTGgtaagtgaatgcagtattcctagtttcgtaccctggtcccttggcaaatt Alignment from Exonerate_coding2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAAGCAGTGGACCGCTGGGC gtgagcttctattgttcatatggaccctaatatactcttttactctgtagCTACTTGCTGCACATTTACATGGAGGCAGGATGTCTGGACTGGTGTGTTGTCATTGGCTTGATTCTCCGAGAAGCGTCAGTGGTCAGTCAGCTCCTTGGGCTTACCCAATCCCCTGGGATGGATGGAGAAATGTTACAAAACATAAAATCTGGACTGCAAGCAGTTGATCGCTGGTGgtaagtgaatgcagtattcctagtttcgtaccctggtcccttggcaaatt Alignment from GeneWise CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAAGCAGTGGACCGCTGGGC gtgagcttctattgttcatatggaccctaatatactcttttactctgtagCTACTTGCTGCACATTTACATGGAGGCAGGATGTCTGGACTGGTGTGTTGTCATTGGCTTGATTCTCCGAGAAGCGTCAGTGGTCAGTCAGCTCCTTGGGCTTACCCAATCCCCTGGGATGGATGGAGAAATGTTACAAAACATAAAATCTGGACTGCAAGCAGTTGATCGCTGGTGgtaagtgaatgcagtattcctagtttcgtaccctggtcccttggcaaatt #### Cabp2_ID288_3 --> 0 - 1 Original Alignment GATCGAGAGCTGAGACCAGAAGAGATCGAAg ctaagatttggacaggggcagtagctccttgtttgtttttttacaaatagGACCGGGAG---AGACCAGAAAAAATT---ggtaagggacattttattgtagttgaggtacagtgtatgctcaggattaca Alignment from CESAR GATCGAGAGCTGAGACCAGAAGAGATCGAAg ctaagatttggacaggggcagtagctccttgtttgtttttttacaaatagGACCGGGAG---AGACCAGAAAAAATT---ggtaagggacattttattgtagttgaggtacagtgtatgctcaggattaca Alignment from Spaln_aa2Genome GATCGAGAGCTGAGACCAGAAGAGATC- ctaagatttggacaggggcagtagctccttgtttgtttttttacaaatagGACCGGGAG---AGACCAGAAAAAATTGgtaagggacattttattgtagttgaggtacagtgtatgctcaggattaca Alignment from Spaln_nt2Genome GATCGAGAGCTGAGACCAGAAGAGATCG ctaagatttggacaggggcagtagctccttgtttgtttttttacaaatagGACCGGGA---GAGACCAGAAAAAATTGgtaagggacattttattgtagttgaggtacagtgtatgctcaggattaca Alignment from Pairagon ctaagatttggacaggggcagtagctccttgtttgtttttttacaaataggaccgggagagaccagaaaaaattggtaagggacattttattgtagttgaggtacagtgtatgctcaggattaca Alignment from Exonerate_protein2genome ctaagatttggacaggggcagtagctccttgtttgtttttttacaaataggaccgggagagaccagaaaaaattggtaagggacattttattgtagttgaggtacagtgtatgctcaggattaca Alignment from Exonerate_coding2genome ctaagatttggacaggggcagtagctccttgtttgtttttttacaaataggaccgggagagaccagaaaaaattggtaagggacattttattgtagttgaggtacagtgtatgctcaggattaca Alignment from GeneWise ctaagatttggacaggggcagtagctccttgtttgtttttttacaaataggaccgggagagaccagaaaaaattggtaagggacattttattgtagttgaggtacagtgtatgctcaggattaca #### Cabp2_ID289_4 --> 2 - 1 Original Alignment agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa agcattctcaatggtggaacgcctgtccgtgatgtctttgtgtctttcagag---------GGCTTCCAGGAGTTTGACCGAGACCGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGGTTagtaagtggttaccttatggcccagtgctcatagcccttaggcagatgtgt Alignment from CESAR agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa agccaggtgagcattctcaatggtgtccgtgatgtctttgtgtctttcagag---------GGCTTCCAGGAGTTTGACCGAGACCGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGGTTagtaagtggttaccttatggcccagtgctcatagcccttaggcagatgtgt Alignment from Spaln_aa2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA agcattctcaatggtggaacgcctgtccgtgatgtctttgtgtctttcagAG---------GGCTTCCAGGAGTTTGACCGAGACCGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtaagtggttaccttatggcccagtgctcatagcccttaggcagatgtgt Alignment from Spaln_nt2Genome TCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA agcattctcaatggtggaacgcctgtccgtgatgtctttgtgtctttcagAGGGCTTCCAGGAGTTTGACCGAGACCGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtaagtggttaccttatggcccagtgctcatagcccttaggcagatgtgt Alignment from Pairagon AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA agcattctcaatggtggaacgcctgtccgtgatgtctttgtgtctttcagAG---------GGCTTCCAGGAGTTTGACCGAGACCGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtaagtggttaccttatggcccagtgctcatagcccttaggcagatgtgt Alignment from Exonerate_protein2genome CTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA agcattctcaatggtggaacgcctgtccgtgatgtctttgtgtCTTTCAGAGGGCTTCCAGGAGTTTGACCGAGACCGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtaagtggttaccttatggcccagtgctcatagcccttaggcagatgtgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA agcattctcaatggtggaacgcctgtccgtgatgtctttgtgtctttcagagGGCTTCCAGGAGTTTGACCGAGACCGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtaagtggttaccttatggcccagtgctcatagcccttaggcagatgtgt #### Carns1_ID386_6 --> 2 - 0 Original Alignment CGGCTGCCCTTACCAg gcGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG CGGCTGCCCTTGCCAggtaagttgtactcagagtgtcacctcttcatcaggaGGTCCTCCACCTGGGCCTGAGCTGGCTGTGCACATGTGTGCAGTGGTGTGTCAGATCCAG------------------------gtatacggtgtatgccatcctgtagttgtaacctcgcttactggggccca Alignment from CESAR CGGCTGCCCTTACCAg gcGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG CGGCTGCCCTTGCCAggtaaggtgtactcagagtgtcacctcttcatcaggaGGTCCTCCACCTGGGCCTGAGCTGGCTGTGCACATGTGTGCAGTGGTGTGTCAGATCCAG------------------------gtatacggtgtatgccatcctgtagt Alignment from Spaln_aa2Genome CGGCTGCCCTTACCAG GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG CGGCTGCCCTTGCCAGgtaagttgtactcagagtgtcacctcttcatcagGAGGTCCTCCACCTGGGCCTGAGCTGGCTGTGCACATGTGTGCAGTGGTGTGTCAGATCCAGGTATACGGTGTATGCCATCCTGTAgttgtaacctcgcttactggggccca Alignment from Spaln_nt2Genome CGGCTGCCCTTACCAG GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAG CGGCTGCCCTTGCCAGgtaagttgtactcagagtgtcacctcttcatcagGAGGTCCTCCACCTGGGCCTGAGCTGGCTGTGCACATGTGTGCAGTGGTGTGTCAGATCCAGgtatacggtgtatgccatcctgtagttgtaacctcgcttactggggccca Alignment from Pairagon CGGCTGCCCTTACCAG GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAG CGGCTGCCCTTGCCAGgtaagttgtactcagagtgtcacctcttcatcagGAGGTCCTCCACCTGGGCCTGAGCTGGCTGTGCACATGTGTGCAGTGGTGTGTCAGATCCAGgtatacggtgtatgccatcctgtagttgtaacctcgcttactggggccca Alignment from Exonerate_protein2genome CGGCTGCCCTTACCAG GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATA CGGCTGCCCTTGCCAGgtaagttgtactcagagtgtcacctcttcatcagGAGGTCCTCCACCTGGGCCTGAGCTGGCTGTGCACATGTGTGCAGTGGTGTGTCAGATCCAGGTATACGgtgtatgccatcctgtagttgtaacctcgcttactggggccca Alignment from Exonerate_coding2genome CGGCTGCCCTTACCAG GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATA CGGCTGCCCTTGCCAGgtaagttgtactcagagtgtcacctcttcatcagGAGGTCCTCCACCTGGGCCTGAGCTGGCTGTGCACATGTGTGCAGTGGTGTGTCAGATCCAGGTATACGgtgtatgccatcctgtagttgtaacctcgcttactggggccca Alignment from GeneWise CGGCTGCCCTTACCAG GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAGGTG CGGCTGCCCTTGCCAGgtaagttgtactcagagtgtcacctcttcatcagGAGGTCCTCCACCTGGGCCTGAGCTGGCTGTGCACATGTGTGCAGTGGTGTGTCAGATCCAGGTATACGGTGTATGCCATCCTGTAGTTgtaacctcgcttactggggccca #### Carns1_ID389_3 --> 2 - 1 Original Alignment gcTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg gataatgaggacagggtggtgtttgtttgctgtctatgtctcccttacaggc---------GCAGAGGTGACCTTGTGCATTCTAGGTTCTCTCAGCACCTTCCTATCGCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTggtaaaattgtgctttaataccctaccttctcctacaaaatgggaagcccg Alignment from CESAR gcTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg acaaatatagataatgaggacagggtttgctgtctatgtctcccttacaggc---------GCAGAGGTGACCTTGTGCATTCTAGGTTCTCTCAGCACCTTCCTATCGCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTggtaaaattgtgctttaataccctaccttctcctacaaaatgggaagcccg Alignment from Spaln_aa2Genome GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gataatgaggacagggtggtgtttgtttgctgtctatgtctcccttacagGC---------GCAGAGGTGACCTTGTGCATTCTAGGTTCTCTCAGCACCTTCCTATCGCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaaaattgtgctttaataccctaccttctcctacaaaatgggaagcccg Alignment from Spaln_nt2Genome GGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gataatgaggacagggtggtgtttgtttgctgtctatgtctcccttacagGCGCAGAGGTGACCTTGTGCATTCTAGGTTCTCTCAGCACCTTCCTATCGCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaaaattgtgctttaataccctaccttctcctacaaaatgggaagcccg Alignment from Pairagon GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gataatgaggacagggtggtgtttgtttgctgtctatgtctcccttacagGC---------GCAGAGGTGACCTTGTGCATTCTAGGTTCTCTCAGCACCTTCCTATCGCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaaaattgtgctttaataccctaccttctcctacaaaatgggaagcccg Alignment from Exonerate_protein2genome GGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gataatgaggacagggtggtgtttgtttgctgtctatgtctcccttacagGCGCAGAGGTGACCTTGTGCATTCTAGGTTCTCTCAGCACCTTCCTATCGCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaaaattgtgctttaataccctaccttctcctacaaaatgggaagcccg Alignment from Exonerate_coding2genome GGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gataatgaggacagggtggtgtttgtttgctgtctatgtctcccttacagGCGCAGAGGTGACCTTGTGCATTCTAGGTTCTCTCAGCACCTTCCTATCGCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaaaattgtgctttaataccctaccttctcctacaaaatgggaagcccg Alignment from GeneWise GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG gataatgaggacagggtggtgtttgtttgctgtctatgtctcccttacagGC---------GCAGAGGTGACCTTGTGCATTCTAGGTTCTCTCAGCACCTTCCTATCGCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaaaattgtgctttaataccctaccttctcctacaaaatgggaagcccg #### Catsper1_ID927_4 --> 2 - 2 Original Alignment acTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCag ttttggtttgacacccatcctactctgtctttgttgtttgttgtttgcagac------ATTATGGTCATGGCA---CTGGGCTTTGTACTACTGCAGATCAATTCACTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTCGGAGGCTCaggtgaggagcactaccccactcatgttcttggagagctctcaacagtaaaa Alignment from CESAR acTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCag ggctttttttggtttgacacccatctgtctttgttgtttgttgtttgcagac------ATTATGGTCATGGCA---CTGGGCTTTGTACTACTGCAGATCAATTCACTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTCGGAGGCTCaggtgaggagcactaccccactcatgttcttggagagctctcaacagtaaaa Alignment from Spaln_aa2Genome ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG ttttggtttgacacccatcctactctgtctttgttgtttgttgtttgcagAC------ATTATGGTCATGGCA---CTGGGCTTTGTACTACTGCAGATCAATTCACTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTCGGAGGCTCAGgtgaggagcactaccccactcatgttcttggagagctctcaacagtaaaa Alignment from Spaln_nt2Genome ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG ttttggtttgacacccatcctactctgtctttgttgtttgttgtttgcagA------CATTATGGTCATGGCA---CTGGGCTTTGTACTACTGCAGATCAATTCACTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTCGGAGGCTCAGgtgaggagcactaccccactcatgttcttggagagctctcaacagtaaaa Alignment from Pairagon ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG ttttggtttgacacccatcctactctgtctttgttgtttgttgtttgcagA------CATTATGGTCATGGCA---CTGGGCTTTGTACTACTGCAGATCAATTCACTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTCGGAGGCTCAGgtgaggagcactaccccactcatgttcttggagagctctcaacagtaaaa Alignment from Exonerate_protein2genome TCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG ttttggtttgacacccatcctactctgtctttgttgtttgttgtttgcagACATTATGGTCATGGCA---CTGGGCTTTGTACTACTGCAGATCAATTCACTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTCGGAGGCTCAGgtgaggagcactaccccactcatgttcttggagagctctcaacagtaaaa Alignment from Exonerate_coding2genome TCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG ttttggtttgacacccatcctactctgtctttgttgtttgttgtttgcagACATTATGGTCATGGCA---CTGGGCTTTGTACTACTGCAGATCAATTCACTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTCGGAGGCTCAGgtgaggagcactaccccactcatgttcttggagagctctcaacagtaaaa Alignment from GeneWise ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG ttttggtttgacacccatcctactctgtctttgttgtttgttgtttgcagAC------ATTATGGTCATGGCA---CTGGGCTTTGTACTACTGCAGATCAATTCACTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTCGGAGGCTCAGgtgaggagcactaccccactcatgttcttggagagctctcaacagtaaaa #### Catsper1_ID928_5 --> 1 - 1 Original Alignment cATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCt ccccccttgcctcatcactaacttgacttaacttattgctatttttttagtATCCTGACTAGTGTCCATGAAGTAGCTGGGACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTC---------tgtgagctgtcctcatctgacaacagagattaggcaataaccctgagtagg Alignment from CESAR cATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCt ccccccttgcctcatcactaacttgacttaacttattgctatttttttagtATCCTGACTAGTGTCCATGAAGTAGCTGGGACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTC---------tgtgagctgtcctcatctgacaacagagattaggcaataaccctgagtagg Alignment from Spaln_aa2Genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTT- ccccccttgcctcatcactaacttgacttaacttattgctatttttttagTATCCTGACTAGTGTCCATGAAGTAGCTGGGACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCTgtgagctgtcctcatctgacaacagagattaggcaataaccctgagtagg Alignment from Spaln_nt2Genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTA ccccccttgcctcatcactaacttgacttaacttattgctatttttttagTATCCTGACTAGTGTCCATGAAGTAGCTGGGACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCTgtgagctgtcctcatctgacaacagagattaggcaataaccctgagtagg Alignment from Pairagon CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ccccccttgcctcatcactaacttgacttaacttattgctatttttttagTATCCTGACTAGTGTCCATGAAGTAGCTGGGACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGT---------TCTgtgagctgtcctcatctgacaacagagattaggcaataaccctgagtagg Alignment from Exonerate_protein2genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTA ccccccttgcctcatcactaacttgacttaacttattgctatttttttagTATCCTGACTAGTGTCCATGAAGTAGCTGGGACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCTgtgagctgtcctcatctgacaacagagattaggcaataaccctgagtagg Alignment from Exonerate_coding2genome CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTA ccccccttgcctcatcactaacttgacttaacttattgctatttttttagTATCCTGACTAGTGTCCATGAAGTAGCTGGGACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCTgtgagctgtcctcatctgacaacagagattaggcaataaccctgagtagg Alignment from GeneWise CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTA ccccccttgcctcatcactaacttgacttaacttattgctatttttttagTATCCTGACTAGTGTCCATGAAGTAGCTGGGACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCTgtgagctgtcctcatctgacaacagagattaggcaataaccctgagtagg #### Catsper1_ID931_8 --> 1 - 0 Original Alignment cCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG--- ggccccttccttggtcccccatttagggacctacttgttggatcttgtagcCTGGTGATTGCAGTTCTAGTAGATAACTTCCTGATGGCACTGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAGATCgtgagtcgccacattgggtgatgacagcaagggttggaagcacatacacc Alignment from CESAR cCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG--- ggccccttccttggtcccccatttagggacctacttgttggatcttgtagcCTGGTGATTGCAGTTCTAGTAGATAACTTCCTGATGGCACTGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAGATCgtgagtcgccacattgggtgatgacagcaagggttggaagcacatacacc Alignment from Spaln_aa2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG--- ggccccttccttggtcccccatttagggacctacttgttggatcttgtagCCTGGTGATTGCAGTTCTAGTAGATAACTTCCTGATGGCACTGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAGATCgtgagtcgccacattgggtgatgacagcaagggttggaagcacatacacc Alignment from Spaln_nt2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG--- ggccccttccttggtcccccatttagggacctacttgttggatcttgtagCCTGGTGATTGCAGTTCTAGTAGATAACTTCCTGATGGCACTGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAGATCgtgagtcgccacattgggtgatgacagcaagggttggaagcacatacacc Alignment from Pairagon CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG--- ggccccttccttggtcccccatttagggacctacttgttggatcttgtagCCTGGTGATTGCAGTTCTAGTAGATAACTTCCTGATGGCACTGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAGATCgtgagtcgccacattgggtgatgacagcaagggttggaagcacatacacc Alignment from Exonerate_protein2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG--- ggccccttccttggtcccccatttagggacctacttgttggatcttgtagCCTGGTGATTGCAGTTCTAGTAGATAACTTCCTGATGGCACTGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAGATCgtgagtcgccacattgggtgatgacagcaagggttggaagcacatacacc Alignment from Exonerate_coding2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG--- ggccccttccttggtcccccatttagggacctacttgttggatcttgtagCCTGGTGATTGCAGTTCTAGTAGATAACTTCCTGATGGCACTGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAGATCgtgagtcgccacattgggtgatgacagcaagggttggaagcacatacacc Alignment from GeneWise CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAGCAA ggccccttccttggtcccccatttagggacctacttgttggatcttgtagCCTGGTGATTGCAGTTCTAGTAGATAACTTCCTGATGGCACTGCTCAAAGGCCTGGAGAAAGTGAAGCTGGAGATCgtgagtcgccacattgggtgatgacagcaagggttggaagcacatacacc #### Ccdc88b_ID1838_11 --> 0 - 0 Original Alignment ------------------------------------GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG ctgaagagactcaaccccttcagcaaggcccctctcttgctcttttccagTCATTGTTGGATTGTCCTCTAGATGAAGATTGTGAAGAGGAGCGGGTCCTCTCTGAAGCTGTAGAGGCCTCAACAGTCCTTCTCGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtaaggtgtcctgcatgttgcaagttgggaccaagatttgacttttaaag Alignment from CESAR tgctggtgacataatatctgggattttgtagtcagctgtgcctggatacat Alignment from Spaln_aa2Genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG ctgaagagactcaaccccttcagcaaggcccctctcttgctcttttccagtcattgttggattgtcctctagatgaagattgtgaagagGAGCGG---GTCCTCTCTGAAGCTGTAGAGGCCTCAACAGTCCTTCTCGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtaaggtgtcctgcatgttgcaagttgggaccaagatttgacttttaaag Alignment from Spaln_nt2Genome GAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG ctgaagagactcaaccccttcagcaaggcccctctcttgctcttttccagtcattgttggattgtcctctagatgaagattgtgaagagGAGCGGGTCCTCTCTGAAGCTGTAGAGGCCTCAACAGTCCTTCTCGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtaaggtgtcctgcatgttgcaagttgggaccaagatttgacttttaaag Alignment from Pairagon --------------GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG ctgaagagactcaaccccttcagcaaggcccctctcttgctcttttccagtcattgttggattgtcctctagATGAAGATTGTGAAGAGGAGCGGGTCCTCTCTGAAGCTGTAGAGGCCTCAACAGTCCTTCTCGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtaaggtgtcctgcatgttgcaagttgggaccaagatttgacttttaaag Alignment from Exonerate_protein2genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG ctgaagagactcaaccccttcagcaaggcccctctcttgctcttttccagtcattgttggattgtcctctagatgaagattgtgaaGAGGAGCGGGTCCTCTCTGAAGCTGTAGAGGCCTCAACAGTCCTTCTCGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtaaggtgtcctgcatgttgcaagttgggaccaagatttgacttttaaag Alignment from Exonerate_coding2genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG ctgaagagactcaaccccttcagcaaggcccctctcttgctcttttccagtcattgttggattgtcctctagatgaagattgtgaaGAGGAGCGGGTCCTCTCTGAAGCTGTAGAGGCCTCAACAGTCCTTCTCGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtaaggtgtcctgcatgttgcaagttgggaccaagatttgacttttaaag Alignment from GeneWise GAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG ctgaagagactcaaccccttcagcaaggcccctctcttgctcttttccagtcattgttggattgtcctctagatgaagattgtgaagagGAGCGGGTCCTCTCTGAAGCTGTAGAGGCCTCAACAGTCCTTCTCGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtaaggtgtcctgcatgttgcaagttgggaccaagatttgacttttaaag #### Ccdc88b_ID1839_10 --> 0 - 0 Original Alignment ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG--- cctcacccctttgtcccataactcactaactcctgcaaatatttcaacagACTCAGGCACTCTCTGCCCAAGCAAAGTGTGCAGAACTCTGCCGTGAAGAAGCAGAGGCACTAAAG---GAGGCTGGTCACTTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCTGCAGAAGTCTTCAAGGGTCATTTGGAGATAgcagattgggctatggcagagccagagacagactatttgataatgtcact Alignment from CESAR ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG--- cctcacccctttgtcccataactcactaactcctgcaaatatttcaacagACTCAGGCACTCTCTGCCCAAGCAAAGTGTGCAGAACTCTGCCGTGAAGAAGCAGAGGCACTAAAGGAG---GCTGGTCACTTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCTGCAGAAGTCTTCAAGGGTCATTTGGAGATAgcagattgggctatggcagagccagagacagactatttgataatgtcact Alignment from Spaln_aa2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAGGAG cctcacccctttgtcccataactcactaactcctgcaaatatttcaacagACTCAGGCACTCTCTGCCCAAGCAAAGTGTGCAGAACTCTGCCGTGAAGAAGCAGAGGCACTAAAGGAG---GCTGGTCACTTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCTGCAGAAGTCTTCAAGGGTCATTTGGAGATAgcagattgggctatggcagagccagagacagactatttgataatgtcact Alignment from Spaln_nt2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG--- cctcacccctttgtcccataactcactaactcctgcaaatatttcaacagACTCAGGCACTCTCTGCCCAAGCAAAGTGTGCAGAACTCTGCCGTGAAGAAGCAGAGGCACTAAAGGA---GGCTGGTCACTTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCTGCAGAAGTCTTCAAGGGTCATTTGGAGATAgcagattgggctatggcagagccagagacagactatttgataatgtcact Alignment from Pairagon ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG--- cctcacccctttgtcccataactcactaactcctgcaaatatttcaacagACTCAGGCACTCTCTGCCCAAGCAAAGTGTGCAGAACTCTGCCGTGAAGAAGCAGAGGCACTAAAGGA---GGCTGGTCACTTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCTGCAGAAGTCTTCAAGGGTCATTTGGAGATAgcagattgggctatggcagagccagagacagactatttgataatgtcact Alignment from Exonerate_protein2genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG cctcacccctttgtcccataactcactaactcctgcaaatatttcaacagACTCAGGCACTCTCTGCCCAAGCAAAGTGTGCAGAACTCTGCCGTGAAGAAGCAGAGGCACTAAAGGAG---GCTGGTCACTTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCTGCAGAAGTCTTCAAGGGTCATTTGGAGatagcagattgggctatggcagagccagagacagactatttgataatgtcact Alignment from Exonerate_coding2genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG cctcacccctttgtcccataactcactaactcctgcaaatatttcaacagACTCAGGCACTCTCTGCCCAAGCAAAGTGTGCAGAACTCTGCCGTGAAGAAGCAGAGGCACTAAAGGAG---GCTGGTCACTTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCTGCAGAAGTCTTCAAGGGTCATTTGGAGatagcagattgggctatggcagagccagagacagactatttgataatgtcact Alignment from GeneWise ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAG- cctcacccctttgtcccataactcactaactcctgcaaatatttcaacagACTCAGGCACTCTCTGCCCAAGCAAAGTGTGCAGAACTCTGCCGTGAAGAAGCAGAGGCACTAAAGGAG---GCTGGTCACTTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCTGCAGAAGTCTTCAAGGgtcatttggagatagcagattgggctatggcagagccagagacagactatttgataatgtcact #### Ccdc88b_ID1844_5 --> 2 - 0 Original Alignment aa---GAGGCAGTGGAC------------------------------------------------------GAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgctctctgttctatatccttatcttgctgttttgctttctgcttccagagCATGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGTTGGGGGCTTCAATACAGGTGAAAAGGAAGCTAGAAAGCATCCTTAGGTTGTTGCTAGGGGCTTCAGTGCGGgtaagatgagggtggggaaaaagactggagttcagacagaaagtgggacc Alignment from CESAR aa---GAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgctctctgttctatatccttatcttgctgttttgctttctgcttccagagCATGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGTTGGGGGCTTCAATACAGgtgaaaaggaagctagaaagcatccttaggttgttgctaggggcttcagtgcgggtaagatgagggtggggaaaaagactggagttcagacagaaagtgggacc Alignment from Spaln_aa2Genome AA---GAGGCAGTGGACGA G---CTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgctctctgttctatatccttatcttgctgttttgctttctgcttccagAGCATGAGGCAGTGGATGAgctagagagcatcctgcggttgttgttgggggcttcaatacaggtgaaaagGAAGCTAGAAAGCATCCTTAGGTTGTTGCTAGGGGCTTCAGTGCGGgtaagatgagggtggggaaaaagactggagttcagacagaaagtgggacc Alignment from Spaln_nt2Genome AA---GAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgctctctgttctatatccttatcttgctgttttgctttctgcttccagAGCATGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGTTGGGGGCTTCAATACAGgtgaaaaggaagctagaaagcatccttaggttgttgctaggggcttcagtgcgggtaagatgagggtggggaaaaagactggagttcagacagaaagtgggacc Alignment from Pairagon ---AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgctctctgttctatatccttatcttgctgttttgctttctgcttccagAGCATGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGTTGGGGGCTTCAATACAGgtgaaaaggaagctagaaagcatccttaggttgttgctaggggcttcagtgcgggtaagatgagggtggggaaaaagactggagttcagacagaaagtgggacc Alignment from Exonerate_protein2genome AA---GAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgctctctgttctatatccttatcttgctgttttgctttctgcttccagAGCATGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGTTGGGGGCTTCAATACAGgtgaaaaggaagctagaaagcatccttaggttgttgctaggggcttcagtgcgggtaagatgagggtggggaaaaagactggagttcagacagaaagtgggacc Alignment from Exonerate_coding2genome AA---GAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgctctctgttctatatccttatcttgctgttttgctttctgcttccagAGCATGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGTTGGGGGCTTCAATACAGgtgaaaaggaagctagaaagcatccttaggttgttgctaggggcttcagtgcgggtaagatgagggtggggaaaaagactggagttcagacagaaagtgggacc Alignment from GeneWise --GAAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgctctctgttctatatccttatcttgctgttttgctttctgcttccagAGCATGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGTTGGGGGCTTCAATACAGgtgaaaaggaagctagaaagcatccttaggttgttgctaggggcttcagtgcgggtaagatgagggtggggaaaaagactggagttcagacagaaagtgggacc #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment at---TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct tggcaaattaagtgtttcattgttaagattactctgtgatgcctccgcagatATGTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCTGCATGTGTGGCCTCTTCGAGAATTATACTTCGCCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATCGAACGGTTATTGctgtgagtagagcctcatagcccaagcaaccatttgccatcaggcagactat Alignment from CESAR at---TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct tggcaaattaagtgtttcattgttaagattactctgtgatgcctccgcagatATGTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCTGCATGTGTGGCCTCTTCGAGAATTATACTTCGCCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATCGAACGGTTATTGctgtgagtagagcctcatagcccaagcaaccatttgccatcaggcagactat Alignment from Spaln_aa2Genome AT---TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tggcaaattaagtgtttcattgttaagattactctgtgatgcctccgcagATATGTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCTGCATGTGTGGCCTCTTCGAGAATTATACTTCGCCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATCGAACGGTTATTGCTgtgagtagagcctcatagcccaagcaaccatttgccatcaggcagactat Alignment from Spaln_nt2Genome AT---TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tggcaaattaagtgtttcattgttaagattactctgtgatgcctccgcagATATGTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCTGCATGTGTGGCCTCTTCGAGAATTATACTTCGCCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATCGAACGGTTATTGCTgtgagtagagcctcatagcccaagcaaccatttgccatcaggcagactat Alignment from Pairagon AT---TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tggcaaattaagtgtttcattgttaagattactctgtgatgcctccgcagATATGTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCTGCATGTGTGGCCTCTTCGAGAATTATACTTCGCCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATCGAACGGTTATTGCTgtgagtagagcctcatagcccaagcaaccatttgccatcaggcagactat Alignment from Exonerate_protein2genome AT---TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tggcaaattaagtgtttcattgttaagattactctgtgatgcctccgcagATATGTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCTGCATGTGTGGCCTCTTCGAGAATTATACTTCGCCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATCGAACGGTTATTGCTgtgagtagagcctcatagcccaagcaaccatttgccatcaggcagactat Alignment from Exonerate_coding2genome AT---TATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tggcaaattaagtgtttcattgttaagattactctgtgatgcctccgcagATATGTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCTGCATGTGTGGCCTCTTCGAGAATTATACTTCGCCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATCGAACGGTTATTGCTgtgagtagagcctcatagcccaagcaaccatttgccatcaggcagactat Alignment from GeneWise --GATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tggcaaattaagtgtttcattgttaagattactctgtgatgcctccgcagATATGTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCTGCATGTGTGGCCTCTTCGAGAATTATACTTCGCCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATCGAACGGTTATTGCTgtgagtagagcctcatagcccaagcaaccatttgccatcaggcagactat #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag cgaggctgatggtactgagtatcttcccaccctctgcctgtcactcccag---------GTGATTGGCCGCAGCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCTGGGAAGaggtagttcatatatcccccaacagaggcaatgatatgccagtggtccacct Alignment from CESAR GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gcagtcacacgaggctgatggtactcccaccctctgcctgtcactcccag---------GTGATTGGCCGCAGCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCTGGGAAGaggtagttcatatatcccccaacagaggcaatgatatgccagtggtccacct Alignment from Spaln_aa2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG cgaggctgatggtactgagtatcttcccaccctctgcctgtcactcccag---------GTGATTGGCCGCAGCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtagttcatatatcccccaacagaggcaatgatatgccagtggtccacct Alignment from Spaln_nt2Genome GTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG cgaggctgatggtactgagtatcttcccaccctctgcctgtcactcccagGTGATTGGCCGCAGCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtagttcatatatcccccaacagaggcaatgatatgccagtggtccacct Alignment from Pairagon GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGGT------------------------------------------------ cgaggctgatggtactgagtatcttcccaccctctgcctgtcactcccag---------GTGATTGGCCGCAGCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCTGGGAAGAGGTAGTTCATATATCCCCCAACAGAGGCAATGATATGCCAGTGGTCCACCT Alignment from Exonerate_protein2genome TGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG cgaggctgatggtactgagtatcttcccaccctctgcctgtcactcccaggTGATTGGCCGCAGCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtagttcatatatcccccaacagaggcaatgatatgccagtggtccacct Alignment from Exonerate_coding2genome TGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG cgaggctgatggtactgagtatcttcccaccctctgcctgtcactcccaggTGATTGGCCGCAGCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtagttcatatatcccccaacagaggcaatgatatgccagtggtccacct Alignment from GeneWise --------------------------------------------------GTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGG-- CGAGGCTGATGGTACTGAGTATCTTCCCACCCTCTGCCTGTCACTCCCAGGTGATTGGCCGCAGCCTGGTTATTGATGAGGGAGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGATCACAGGGAATTCTGGGAAGAGGTAgttcatatatcccccaacagaggcaatgatatgccagtggtccacct #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--------- tgggctttcctgtgggtttagtcttattctttgtggtgatgttttcccagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGTTTGAATGGgtgagctggcccaaaaacgtaaaatgtagccgcctctgtgttctgatgct Alignment from CESAR GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--------- tgggctttcctgtgggtttagtcttattctttgtggtgatgttttcccagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGTTTGAATGGgtgagctggcccaaaaacgtaaaatgtagccgtgcccgatcatttgctct Alignment from Spaln_aa2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--------- tgggctttcctgtgggtttagtcttattctttgtggtgatgttttcccagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGTTTGAATGGgtgagctggcccaaaaacgtaaaatgtagccgcctctgtgttctgatgct Alignment from Spaln_nt2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGA tgggctttcctgtgggtttagtcttattctttgtggtgatgttttcccagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAgtttgaatgggtgagctggcccaaaaacgtaaaatgtagccgcctctgtgttctgatgct Alignment from Pairagon GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTG------------------------------------------------------------- tgggctttcctgtgggtttagtcttattctttgtggtgatgttttcccagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGTTTGAATGGGTGAGCTGGCCCAAAAACGTAAAATGTAGCCGCCTCTGTGTTCTGATGCT Alignment from Exonerate_protein2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG tgggctttcctgtgggtttagtcttattctttgtggtgatgttttcccagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGtttgaatgggtgagctggcccaaaaacgtaaaatgtagccgcctctgtgttctgatgct Alignment from Exonerate_coding2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG tgggctttcctgtgggtttagtcttattctttgtggtgatgttttcccagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGtttgaatgggtgagctggcccaaaaacgtaaaatgtagccgcctctgtgttctgatgct Alignment from GeneWise GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG----------------------------------------------------------- tgggctttcctgtgggtttagtcttattctttgtggtgatgttttcccagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGTTTGAATGGGTGAGCTGGCCCAAAAACGTAAAATGTAGCCGCCTCTGTGTTCTGATGCT #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ---------ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gttggcccaaaaacgtaaaatgtagccgtttatttttttcatttttaaagGTTCATCCTACAACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCGTTCCAGGATGAGGAGTTCTTAgtgaggaaccttgtttagtagaggggcgttacccagacagtgctgttctt Alignment from CESAR ---------ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gatggcccaaaaacgtaaaatgtagccgtttatttttttcatttttaaagGTTCATCCTACAACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCGTTCCAGGATGAGGAGTTCTTAgtgaggaaccttgtttagtagaggggcgttacccagacagtgctgttctt Alignment from Spaln_aa2Genome ---------ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gttggcccaaaaacgtaaaatgtagccgtttatttttttcatttttaaagGTTCATCCTACAACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCGTTCCAGGATGAGGAGTTCTTAgtgaggaaccttgtttagtagaggggcgttacccagacagtgctgttctt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGG---------GAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gttggcccaaaaacgtaaaatgtagccgtttatttttttcatttttaaagGTTCATCCTACAACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCGTTCCAGGATGAGGAGTTCTTAgtgaggaaccttgtttagtagaggggcgttacccagacagtgctgttctt Alignment from Pairagon -----------------------------------------------------------ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG GTTGGCCCAAAAACGTAAAATGTAGCCGTTTATTTTTTTCATTTTTAAAGGTTCATCCTACAACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCGTTCCAGGATGAGGAGTTCTTAgtgaggaaccttgtttagtagaggggcgttacccagacagtgctgttctt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gttggcccaaaaacgtaaaatgtagccgtttatttttttcatttttaaaggttcatcctACAACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCGTTCCAGGATGAGGAGTTCTTAgtgaggaaccttgtttagtagaggggcgttacccagacagtgctgttctt Alignment from Exonerate_coding2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG gttggcccaaaaacgtaaaatgtagccgtttatttttttcatttttaaaggttcatcctACAACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCGTTCCAGGATGAGGAGTTCTTAgtgaggaaccttgtttagtagaggggcgttacccagacagtgctgttctt Alignment from GeneWise -----------------------------------------------------------ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG GTTGGCCCAAAAACGTAAAATGTAGCCGTTTATTTTTTTCATTTTTAAAGGTTCATCCTACAACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCGTTCCAGGATGAGGAGTTCTTAgtgaggaaccttgtttagtagaggggcgttacccagacagtgctgttctt #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG taaggtcaccctgggattccgctctactctgaaccctctcctacccacaga---AGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtaaaaatgaaatatgacaaagcacaggttggctgccagccaggtgggtc Alignment from CESAR gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG aggtaaggtcaccctgggattccgcactctgaaccctctcctacccacaga---AGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtaaaaatgaaatatgacaaagcacaggttggctgccagccaggtgggtc Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG taaggtcaccctgggattccgctctactctgaaccctctcctacccacagA---AGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtaaaaatgaaatatgacaaagcacaggttggctgccagccaggtgggtc Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG taaggtcaccctgggattccgctctactctgaaccctctcctacccacag---AAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtaaaaatgaaatatgacaaagcacaggttggctgccagccaggtgggtc Alignment from Pairagon GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG taaggtcaccctgggattccgctctactctgaaccctctcctacccacag---AAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtaaaaatgaaatatgacaaagcacaggttggctgccagccaggtgggtc Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG taaggtcaccctgggattccgctctactctgaaccctctcctacccacagA---AGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtaaaaatgaaatatgacaaagcacaggttggctgccagccaggtgggtc Alignment from Exonerate_coding2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG taaggtcaccctgggattccgctctactctgaaccctctcctacccacagA---AGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtaaaaatgaaatatgacaaagcacaggttggctgccagccaggtgggtc Alignment from GeneWise GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG taaggtcaccctgggattccgctctactctgaaccctctcctacccacagA---AGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtaaaaatgaaatatgacaaagcacaggttggctgccagccaggtgggtc #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment ---CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg tggggctataaggcattgaggattaatcatttctggttttcctcacccagTTCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCtggtaggaatacacagctaggtggcacctctgatactgaggacccagctcat Alignment from CESAR ---CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg tggggctataaggcattgaggattaatcatttctggttttcctcacccagTTCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCtggtaggaatacacagctaggtggcacctctgatactgaggacccagctcat Alignment from Spaln_aa2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tggggctataaggcattgaggattaatcatttctggttttcctcacccagTTCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaggaatacacagctaggtggcacctctgatactgaggacccagctcat Alignment from Spaln_nt2Genome CT---GGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tggggctataaggcattgaggattaatcatttctggttttcctcacccagTTCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaggaatacacagctaggtggcacctctgatactgaggacccagctcat Alignment from Pairagon ---CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tggggctataaggcattgaggattaatcatttctggttttcctcacccagTTCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaggaatacacagctaggtggcacctctgatactgaggacccagctcat Alignment from Exonerate_protein2genome CGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tggggctataaggcattgaggattaatcatttctggttttcctcacccagTTCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaggaatacacagctaggtggcacctctgatactgaggacccagctcat Alignment from Exonerate_coding2genome CGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tggggctataaggcattgaggattaatcatttctggttttcctcacccagTTCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaggaatacacagctaggtggcacctctgatactgaggacccagctcat Alignment from GeneWise ---CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tggggctataaggcattgaggattaatcatttctggttttcctcacccagTTCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaggaatacacagctaggtggcacctctgatactgaggacccagctcat #### Cdc42bpg_ID1591_21 --> 2 - 0 Original Alignment at------GCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtcctgcagcagggcaatgggctcaggttttttgtttgtcattgtttagatCATATAGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaccttccacacagcgggtctagcaagtgtaaacagctgatgacaaaca Alignment from CESAR at------GCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtcctgcagcagggcaatgggctcaggttttttgtttgtcattgtttagatCATATAGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaccttccacacagcgggtctagcaagtgtaaacagctgatgacaaaca Alignment from Spaln_aa2Genome AT------GCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtcctgcagcagggcaatgggctcaggttttttgtttgtcattgtttagATCATATAGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaccttccacacagcgggtctagcaagtgtaaacagctgatgacaaaca Alignment from Spaln_nt2Genome AT------GCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtcctgcagcagggcaatgggctcaggttttttgtttgtcattgtttagATCATATAGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaccttccacacagcgggtctagcaagtgtaaacagctgatgacaaaca Alignment from Pairagon AT------GCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtcctgcagcagggcaatgggctcaggttttttgtttgtcattgtttagATCATATAGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaccttccacacagcgggtctagcaagtgtaaacagctgatgacaaaca Alignment from Exonerate_protein2genome AT------GCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtcctgcagcagggcaatgggctcaggttttttgtttgtcattgtttagATCATATAGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaccttccacacagcgggtctagcaagtgtaaacagctgatgacaaaca Alignment from Exonerate_coding2genome AT------GCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtcctgcagcagggcaatgggctcaggttttttgtttgtcattgtttagATCATATAGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaccttccacacagcgggtctagcaagtgtaaacagctgatgacaaaca Alignment from GeneWise -----GATGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAG agtcctgcagcagggcaatgggctcaggttttttgtttgtcattgtttagATCATATAGCCAGGCCTTCCACTTCCCTCATCCCTCTCCTGTCCTTCTGGAACACAGAGgtaccttccacacagcgggtctagcaagtgtaaacagctgatgacaaaca #### Cdc42bpg_ID1592_22 --> 0 - 0 Original Alignment AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG ctgatgacaaacataaaccctgacattcgacgccccaactcaccatgcagAAGGATTTTGCTAAAGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCGGAAGCAGAGCTTAGGCCAGAGGGCCGCCGCAGTCTG---------gtaaagctccacttgttatgtaccaagccagaataaaaataggtgggatt Alignment from CESAR AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG ctgatgacaaacataaaccctgacattcgacgccccaactcaccatgcagAAGGATTTTGCTAAAGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCGGAAGCAGAGCTTAGGCCAGAGGGCCGCCGCAGTCTG---------gtaaagctccacttgttatgtaccaagccagaataaaaata Alignment from Spaln_aa2Genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTG---CGCATGGGGAG ctgatgacaaacataaaccctgacattcgacgccccaactcaccatgcagAAGGATTTTGCTAAAGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCGGAAGCAGAGCTTAGGCCAGAGGGCCGCCGCAGTCTGGTAAAGCTCCACTTgttatgtaccaagccagaataaaaataggtgggatt Alignment from Spaln_nt2Genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTG ctgatgacaaacataaaccctgacattcgacgccccaactcaccatgcagAAGGATTTTGCTAAAGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCGGAAGCAGAGCTTAGGCCAGAGGGCCGCCGCAGTCTGgtaaagctccacttgttatgtaccaagccagaataaaaataggtgggatt Alignment from Pairagon AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTG ctgatgacaaacataaaccctgacattcgacgccccaactcaccatgcagAAGGATTTTGCTAAAGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCGGAAGCAGAGCTTAGGCCAGAGGGCCGCCGCAGTCTGgtaaagctccacttgttatgtaccaagccagaataaaaataggtgggatt Alignment from Exonerate_protein2genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTG ctgatgacaaacataaaccctgacattcgacgccccaactcaccatgcagAAGGATTTTGCTAAAGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCGGAAGCAGAGCTTAGGCCAGAGGGCCGCCGCAGTCTGgtaaagctccacttgttatgtaccaagccagaataaaaataggtgggatt Alignment from Exonerate_coding2genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTG ctgatgacaaacataaaccctgacattcgacgccccaactcaccatgcagAAGGATTTTGCTAAAGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCGGAAGCAGAGCTTAGGCCAGAGGGCCGCCGCAGTCTGgtaaagctccacttgttatgtaccaagccagaataaaaataggtgggatt Alignment from GeneWise AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTG---CGCATGGGGAG ctgatgacaaacataaaccctgacattcgacgccccaactcaccatgcagAAGGATTTTGCTAAAGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCGGAAGCAGAGCTTAGGCCAGAGGGCCGCCGCAGTCTGGTAAAGCTCCACTTgttatgtaccaagccagaataaaaataggtgggatt #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag GCTTTCTGTCAgtaagatgtgggggctgggctgtgcatttccacccacagGTACGACAGCCATCATGTGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTATTTGATGCCCCCGACCCTCGTGGTAGCCTGGCCAGTGGGATCCTTCTGCAGGCCTTA------aggtaggtcccagcgacaggcacacaggacatgggaagtccacaccagggtg Alignment from CESAR GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag GCTTTCTGTCAgtaagttgtgggggctgggctgtgcatttccacccacagGTACGACAGCCATCATGTGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTATTTGATGCCCCCGACCCTCGTGGTAGCCTGGCCAGTGGGATCCTTCTGCAGGCCTTA------aggtaggtcccagcgacaggcacacaggacatgggaagtccacaccagggct Alignment from Spaln_aa2Genome GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTCTGTCAgtaagatgtgggggctgggctgtgcatttccacccacagGTACGACAGCCATCATGTGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTATTTGATGCCCCCGACCCTCGTGGTAGCCTGGCCAGTGGGATCCTTCTGCAGGCC------TTAAGgtaggtcccagcgacaggcacacaggacatgggaagtccacaccagggtg Alignment from Spaln_nt2Genome GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTCTGTCAgtaagatgtgggggctgggctgtgcatttccacccacagGTACGACAGCCATCATGTGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTATTTGATGCCCCCGACCCTCGTGGTAGCCTGGCCAGTGGGATCCTTCTGCAGGCCT------TAAGgtaggtcccagcgacaggcacacaggacatgggaagtccacaccagggtg Alignment from Pairagon GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTCTGTCAgtaagatgtgggggctgggctgtgcatttccacccacagGTACGACAGCCATCATGTGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTATTTGATGCCCCCGACCCTCGTGGTAGCCTGGCCAGTGGGATCCTTCTGCAGGCCT------TAAGgtaggtcccagcgacaggcacacaggacatgggaagtccacaccagggtg Alignment from Exonerate_protein2genome GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGA GCTTTCTGTCAgtaagatgtgggggctgggctgtgcatttccacccacagGTACGACAGCCATCATGTGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTATTTGATGCCCCCGACCCTCGTGGTAGCCTGGCCAGTGGGATCCTTCTGCAGGCCTTAAGgtaggtcccagcgacaggcacacaggacatgggaagtccacaccagggtg Alignment from Exonerate_coding2genome GCTTCCTGTCG GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGA GCTTTCTGTCAgtaagatgtgggggctgggctgtgcatttccacccacagGTACGACAGCCATCATGTGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTATTTGATGCCCCCGACCCTCGTGGTAGCCTGGCCAGTGGGATCCTTCTGCAGGCCTTAAGgtaggtcccagcgacaggcacacaggacatgggaagtccacaccagggtg Alignment from GeneWise GCTTCCTGTCG---------------------------------------GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTTTCTGTCAGTAAGATGTGGGGGCTGGGCTGTGCATTTCCACCCACAGGTACGACAGCCATCATGTGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCTCTCAGTGACTCCCGTTTGTTATTATTTGATGCCCCCGACCCTCGTGGTAGCCTGGCCAGTGGGATCCTTCTGCAGGCC------TTAAGgtaggtcccagcgacaggcacacaggacatgggaagtccacaccagggtg #### Cdc42bpg_ID1597_27 --> 1 - 0 Original Alignment g---GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgggaagtccacaccagggtggtatctctcttcctttcctcccacttcaggAGTGACCCCCAGTTTTCAGCCACTCCCGTCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGTATCTTCAGGgtgagtacaccgggtgagatggcccatcctccatatctccacctgtgctt Alignment from CESAR g---GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgggaagtccacaccagggtggtatctctcttcctttcctcccacttcaggAGTGACCCCCAGTTTTCAGCCACTCCCGTCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGTATCTTCAGGgtgagtacaccgggtgagatggcccatcctccatatctccacctgtgctt Alignment from Spaln_aa2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgggaagtccacaccagggtggtatctctcttcctttcctcccacttcaggagTGACCCCCAGTTTTCAGCCACTCCCGTCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGTATCTTCAGGgtgagtacaccgggtgagatggcccatcctccatatctccacctgtgctt Alignment from Spaln_nt2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgggaagtccacaccagggtggtatctctcttcctttcctcccacttcaggagTGACCCCCAGTTTTCAGCCACTCCCGTCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGTATCTTCAGGgtgagtacaccgggtgagatggcccatcctccatatctccacctgtgctt Alignment from Pairagon ------------------------------------------------------GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG TGGGAAGTCCACACCAGGGTGGTATCTCTCTTCCTTTCCTCCCACTTCAGGAGTGACCCCCAGTTTTCAGCCACTCCCGTCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGTATCTTCAGGgtgagtacaccgggtgagatggcccatcctccatatctccacctgtgctt Alignment from Exonerate_protein2genome G---GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgggaagtccacaccagggtggtatctctcttcctttcctcccacttcagGAGTGACCCCCAGTTTTCAGCCACTCCCGTCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGTATCTTCAGGgtgagtacaccgggtgagatggcccatcctccatatctccacctgtgctt Alignment from Exonerate_coding2genome G---GACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgggaagtccacaccagggtggtatctctcttcctttcctcccacttcagGAGTGACCCCCAGTTTTCAGCCACTCCCGTCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGTATCTTCAGGgtgagtacaccgggtgagatggcccatcctccatatctccacctgtgctt Alignment from GeneWise GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgggaagtccacaccagggtggtatctctcttcctttcctcccacttcaggagTGACCCCCAGTTTTCAGCCACTCCCGTCTTGGCCCCAGATGTCATTCATGCCCAATCAAAGGACCTGCCACGTATCTTCAGGgtgagtacaccgggtgagatggcccatcctccatatctccacctgtgctt #### Cdc42bpg_ID1603_33 --> 2 - 2 Original Alignment agAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC------ag aggcctacagttacaagtgaacagctccctgacccctcctgcctttgcagaaAAGGATGAGTTTGAGATTCCTGACCTGACAGACAACAGCCGGCGCCAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTCTCGCAaggtgagtagctatgtggtgggtctagctactgggtgggactttcctattct Alignment from CESAR agAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC------ag aggcctacagttacaagtgaacagctccctgacccctcctgcctttgcagaaAAGGATGAGTTTGAGATTCCTGACCTGACAGACAACAGCCGGCGCCAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTCTCGCAaggtgagtagctatgtggtgggtctagctactgggtgggactttcctattct Alignment from Spaln_aa2Genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCAGG----- aggcctacagttacaagtgaacagctccctgacccctcctgcctttgcagAAAAGGATGAGTTTGAGATTCCTGACCTGACAGACAACAGCCGGCGCCAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTCTCGCAAGgtgagtagctatgtggtgggtctagctactgggtgggactttcctattct Alignment from Spaln_nt2Genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC------AG aggcctacagttacaagtgaacagctccctgacccctcctgcctttgcagAAAAGGATGAGTTTGAGATTCCTGACCTGACAGACAACAGCCGGCGCCAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTCTCGCAAGgtgagtagctatgtggtgggtctagctactgggtgggactttcctattct Alignment from Pairagon AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCG----------------------------------------------------------- aggcctacagttacaagtgaacagctccctgacccctcctgcctttgcagAAAAGGATGAGTTTGAGATTCCTGACCTGACAGACAACAGCCGGCGCCAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTCTCGCAAGGTGAGTAGCTATGTGGTGGGTCTAGCTACTGGGTGGGACTTTCCTATTCT Alignment from Exonerate_protein2genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC------AG aggcctacagttacaagtgaacagctccctgacccctcctgcctttgcagAAAAGGATGAGTTTGAGATTCCTGACCTGACAGACAACAGCCGGCGCCAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTCTCGCAAGgtgagtagctatgtggtgggtctagctactgggtgggactttcctattct Alignment from Exonerate_coding2genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC------AG aggcctacagttacaagtgaacagctccctgacccctcctgcctttgcagAAAAGGATGAGTTTGAGATTCCTGACCTGACAGACAACAGCCGGCGCCAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTCTCGCAAGgtgagtagctatgtggtgggtctagctactgggtgggactttcctattct Alignment from GeneWise AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC------AG aggcctacagttacaagtgaacagctccctgacccctcctgcctttgcagAAAAGGATGAGTTTGAGATTCCTGACCTGACAGACAACAGCCGGCGCCAGCTCTTCCGGAGCAAGAGTAAGCGCCGTTTCTTCTTCCGTGTGTCTGATGAGCTGCAACAGCAACAGCGTCTCGCAAGgtgagtagctatgtggtgggtctagctactgggtgggactttcctattct #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment ---------GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg ggacaaggcccctattggggttctatagctctattgctttcctgctctagGCTACAGAAGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGAAGAGAggtaaatgaagccatggctaaactgtaacaaaacagtgcagtcaggaaggt Alignment from CESAR ---------GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg ggacaaggcccctattggggttctatagctctattgctttcctgctctagGCTACAGAAGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGAAGAGAggtaaatgaagccatggctaaactgtaacaaaacagtgcagtcaggaaggt Alignment from Spaln_aa2Genome GCGATGAAGCCA---------CCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggacaaggcccctattggggttctatagctctattgctttcctgctctagGCTACAGAAGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGAAGAGAGgtaaatgaagccatggctaaactgtaacaaaacagtgcagtcaggaaggt Alignment from Spaln_nt2Genome GCGATGAAGCCA--CCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggacaaggcccctattggggttctatagctctattgctttcctgctctaggctacagAAGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGAAGAGAGgtaaatgaagccatggctaaactgtaacaaaacagtgcagtcaggaaggt Alignment from Pairagon --GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggacaaggcccctattggggttctatagctctattgctttcctgctctaggctacagAAGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGAAGAGAGgtaaatgaagccatggctaaactgtaacaaaacagtgcagtcaggaaggt Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggacaaggcccctattggggttctatagctctattgctttcctgctctaggctacagaaGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGAAGAGAGgtaaatgaagccatggctaaactgtaacaaaacagtgcagtcaggaaggt Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggacaaggcccctattggggttctatagctctattgctttcctgctctaggctacagaaGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGAAGAGAGgtaaatgaagccatggctaaactgtaacaaaacagtgcagtcaggaaggt Alignment from GeneWise --ATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggacaaggcccctattggggttctatagctctattgctttcctgctctaggctacagaagCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGAAGAGAGgtaaatgaagccatggctaaactgtaacaaaacagtgcagtcaggaaggt #### Col17a1_ID10272_50 --> 2 - 1 Original Alignment cc---TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAg agccaatggtactatatgagtcttgaagtgccgtactctcttccacccagccAAGTATGGTACTATTCCAGGTCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAggtgagcgtgccaaatctatagtttagttgataatgccctagtaccttact Alignment from CESAR cc---TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAg agccaatggtactatatgagtcttgaagtgccgtactctcttccacccagccAAGTATGGTACTATTCCAGGTCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAggtgagcgtgccaaatctatagtttagttgataatgccctagtaccttact Alignment from Spaln_aa2Genome CCTACGGCACTATC---CCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG agccaatggtactatatgagtcttgaagtgccgtactctcttccacccagCCAAGTATGGTACTATTCCAGGTCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtgagcgtgccaaatctatagtttagttgataatgccctagtaccttact Alignment from Spaln_nt2Genome CC---TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG agccaatggtactatatgagtcttgaagtgccgtactctcttccacccagCCAAGTATGGTACTATTCCAGGTCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtgagcgtgccaaatctatagtttagttgataatgccctagtaccttact Alignment from Pairagon CC---TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG agccaatggtactatatgagtcttgaagtgccgtactctcttccacccagCCAAGTATGGTACTATTCCAGGTCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtgagcgtgccaaatctatagtttagttgataatgccctagtaccttact Alignment from Exonerate_protein2genome CC---TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG agccaatggtactatatgagtcttgaagtgccgtactctcttccacccagCCAAGTATGGTACTATTCCAGGTCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtgagcgtgccaaatctatagtttagttgataatgccctagtaccttact Alignment from Exonerate_coding2genome CC---TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG agccaatggtactatatgagtcttgaagtgccgtactctcttccacccagCCAAGTATGGTACTATTCCAGGTCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtgagcgtgccaaatctatagtttagttgataatgccctagtaccttact Alignment from GeneWise --ACCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG agccaatggtactatatgagtcttgaagtgccgtactctcttccacccagCCAAGTATGGTACTATTCCAGGTCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtgagcgtgccaaatctatagtttagttgataatgccctagtaccttact #### Col17a1_ID10276_46 --> 2 - 1 Original Alignment gtTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---g accagagttctctggaagttcttcttactagcatctcttctttacctcaggtGCTGGCATCAGTTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTATCTGGAACATCCTATGAAGAGTTACTGTCTATGCTTAAAATGggtgagtcaaaacccaaatgtccatcaactcaggatggtgcatcctggcta Alignment from CESAR gtTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---g accagagttctctggaagttcttcttactagcatctcttctttacctcaggtGCTGGCATCAGTTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTATCTGGAACATCCTATGAAGAGTTACTGTCTATGCTTAAAATGggtgagtcaaaacccaaatgtccatcaactcaggatggtgcatcctggcta Alignment from Spaln_aa2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---G accagagttctctggaagttcttcttactagcatctcttctttacctcagGTGCTGGCATCAGTTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTATCTGGAACATCCTATGAAGAGTTACTGTCTATGCTTAAAATGGgtgagtcaaaacccaaatgtccatcaactcaggatggtgcatcctggcta Alignment from Spaln_nt2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---G accagagttctctggaagttcttcttactagcatctcttctttacctcagGTGCTGGCATCAGTTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTATCTGGAACATCCTATGAAGAGTTACTGTCTATGCTTAAAATGGgtgagtcaaaacccaaatgtccatcaactcaggatggtgcatcctggcta Alignment from Pairagon GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCT-------- accagagttctctggaagttcttcttactagcatctcttctttacctcagGTGCTGGCATCAGTTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTATCTGGAACATCCTATGAAGAGTTACTGTCTATGCTTAAAATGGgtgagtcaaaacccaaatgtccatcaactcaggatggtgcatcctggcta Alignment from Exonerate_protein2genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---G accagagttctctggaagttcttcttactagcatctcttctttacctcagGTGCTGGCATCAGTTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTATCTGGAACATCCTATGAAGAGTTACTGTCTATGCTTAAAATGGgtgagtcaaaacccaaatgtccatcaactcaggatggtgcatcctggcta Alignment from Exonerate_coding2genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGA---G accagagttctctggaagttcttcttactagcatctcttctttacctcagGTGCTGGCATCAGTTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTATCTGGAACATCCTATGAAGAGTTACTGTCTATGCTTAAAATGGgtgagtcaaaacccaaatgtccatcaactcaggatggtgcatcctggcta Alignment from GeneWise GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAGCC- accagagttctctggaagttcttcttactagcatctcttctttacctcagGTGCTGGCATCAGTTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTATCTGGAACATCCTATGAAGAGTTACTGTCTATGCTTAAAATGGgtgagtcaaaacccaaatgtccatcaactcaggatggtgcatcctggcta #### Col17a1_ID10277_45 --> 2 - 1 Original Alignment ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa gacacattgggctcattgactctaatgtaacgggatgcattctgtttcagga---GATGTGTGGCAATACTTGCGTCAAAATCTGGTGGGTCCTCCAAGTCCCTCAGGGCCATTAGGCGTCAGTGGAGAAGGGTCACTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAagtaaggaatcaggattaacaacctcactgaggttgcctaagtagcctctt Alignment from CESAR ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa acagacacattgggctcattgactctgtaacgggatgcattctgtttcagga---GATGTGTGGCAATACTTGCGTCAAAATCTGGTGGGTCCTCCAAGTCCCTCAGGGCCATTAGGCGTCAGTGGAGAAGGGTCACTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAagtaaggaatcaggattaacaacctcactgaggttgcctaagtagcctctt Alignment from Spaln_aa2Genome ATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA gacacattgggctcattgactctaatgtaacgggatgcattctgtttcaggagATGTGTGGCAATACTTGCGTCAAAATCTGGTGGGTCCTCCAAGTCCCTCAGGGCCATTAGGCGTCAGT---------GGAGAAGGGTCACTACTGTCTGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaaggaatcaggattaacaacctcactgaggttgcctaagtagcctctt Alignment from Spaln_nt2Genome ACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA gacacattgggctcattgactctaatgtaacgggatgcattctgtttcagGAGATGTGTGGCAATACTTGCGTCAAAATCTGGTGGGTCCTCCAAGTCCCTCAGGGCCATTAGGCGTCAGTGGAGAAGGGTCACTACTGTC---------TGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaaggaatcaggattaacaacctcactgaggttgcctaagtagcctctt Alignment from Pairagon GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA gacacattgggctcattgactctaatgtaacgggatgcattctgtttcagGA---GATGTGTGGCAATACTTGCGTCAAAATCTGGTGGGTCCTCCAAGTCCCTCAGGGCCATTAGGCGTCAGTGGAGAAGGGTCACTACTGTC---------TGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaaggaatcaggattaacaacctcactgaggttgcctaagtagcctctt Alignment from Exonerate_protein2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA gacacattgggctcattgactctaatgtaacgggatgcattctgtttcagGA---GATGTGTGGCAATACTTGCGTCAAAATCTGGTGGGTCCTCCAAGTCCCTCAGGGCCATTAGGCGTCAGTGGAGAAGGGTCACTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaaggaatcaggattaacaacctcactgaggttgcctaagtagcctctt Alignment from Exonerate_coding2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA gacacattgggctcattgactctaatgtaacgggatgcattctgtttcagGA---GATGTGTGGCAATACTTGCGTCAAAATCTGGTGGGTCCTCCAAGTCCCTCAGGGCCATTAGGCGTCAGTGGAGAAGGGTCACTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaaggaatcaggattaacaacctcactgaggttgcctaagtagcctctt Alignment from GeneWise --GATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA gacacattgggctcattgactctaatgtaacgggatgcattctgtttcagGAGATGTGTGGCAATACTTGCGTCAAAATCTGGTGGGTCCTCCAAGTCCCTCAGGGCCATTAGGCGTCAGTGGAGAAGGGTCACTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaaggaatcaggattaacaacctcactgaggttgcctaagtagcctctt #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gt---------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt cagctctttctggctgcaggcttgatcaaatggtctctgttgtccctcaggtGTGGAGCCCGGCAACATCAGGACATATCTCCTAGGGGTTCAGGGGCCCCCTGGACCCCCGGGACCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTAGTTAGCTACCTACGGtgttggtccatgaaaatttctatgttcttcccctctacctttgcaggtcat Alignment from CESAR gt---------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt cagctctttctggctgcaggcttgatcaaatggtctctgttgtccctcaggtGTGGAGCCCGGCAACATCAGGACATATCTCCTAGGGGTTCAGGGGCCCCCTGGACCCCCGGGACCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTAGTTAGCTACCTACGGtgttggtccatgaaaatttctatgttcttcccctctacctttgcaggtcat Alignment from Spaln_aa2Genome GT---------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcttgatcaaatggtctctgttgtccctcagGTGTGGAGCCCGGCAACATCAGGACATATCTCCTAGGGGTTCAGGGGCCCCCTGGACCCCCGGGACCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTAGTTAGCTACCTACGGTgttggtccatgaaaatttctatgttcttcccctctacctttgcaggtcat Alignment from Spaln_nt2Genome GTGACAACATCAG---------GACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcttgatcaaatggtctctgttgtccctcagGTGTGGAGCCCGGCAACATCAGGACATATCTCCTAGGGGTTCAGGGGCCCCCTGGACCCCCGGGACCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTAGTTAGCTACCTACGGTgttggtccatgaaaatttctatgttcttcccctctacctttgcaggtcat Alignment from Pairagon GT---------GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcttgatcaaatggtctctgttgtccctcagGTGTGGAGCCCGGCAACATCAGGACATATCTCCTAGGGGTTCAGGGGCCCCCTGGACCCCCGGGACCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTAGTTAGCTACCTACGGTgttggtccatgaaaatttctatgttcttcccctctacctttgcaggtcat Alignment from Exonerate_protein2genome CAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcttgatcaaatggtctctgttgtccctcaggtgtggagcccggCAACATCAGGACATATCTCCTAGGGGTTCAGGGGCCCCCTGGACCCCCGGGACCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTAGTTAGCTACCTACGGTgttggtccatgaaaatttctatgttcttcccctctacctttgcaggtcat Alignment from Exonerate_coding2genome CAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcttgatcaaatggtctctgttgtccctcaggtgtggagcccggCAACATCAGGACATATCTCCTAGGGGTTCAGGGGCCCCCTGGACCCCCGGGACCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTAGTTAGCTACCTACGGTgttggtccatgaaaatttctatgttcttcccctctacctttgcaggtcat Alignment from GeneWise --------AGTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcttgatcaaatggtctctgttgtccctcagGTGTGGAGCCCGGCAACATCAGGACATATCTCCTAGGGGTTCAGGGGCCCCCTGGACCCCCGGGACCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTAGTTAGCTACCTACGGTgttggtccatgaaaatttctatgttcttcccctctacctttgcaggtcat #### Col17a1_ID10280_42 --> 2 - 1 Original Alignment ggGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAa tatttttggtgagataaggagctgaattgtttgtattcttattttcatagggGCATCATCAAGCACTCTGTACATGCAGGGGCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAA---------agtaggggctataggaagctcgacataccacacaacaccatggacatgagt Alignment from CESAR ggGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAa tatttttggtgagataaggagctgaattgtttgtattcttattttcatagggGCATCATCAAGCACTCTGTACATGCAGGGGCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAA---------agtaggggctataggaagctcgacataccacacaacaccatggacatgagt Alignment from Spaln_aa2Genome GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAA tatttttggtgagataaggagctgaattgtttgtattcttattttcatagGGGCATCATCAAGCACTCTGTACATGCAGGGGCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAA---AGTAGGGgctataggaagctcgacataccacacaacaccatggacatgagt Alignment from Spaln_nt2Genome GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATA tatttttggtgagataaggagctgaattgtttgtattcttattttcatagGGGCATCATCAAGCACTCTGTACATGCAGGGGCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAA-Agtaggggctataggaagctcgacataccacacaacaccatggacatgagt Alignment from Pairagon GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAA tatttttggtgagataaggagctgaattgtttgtattcttattttcatagGGGCATCATCAAGCACTCTGTACATGCAGGGGCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAG---------AAAgtaggggctataggaagctcgacataccacacaacaccatggacatgagt Alignment from Exonerate_protein2genome GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCA tatttttggtgagataaggagctgaattgtttgtattcttattttcatagGGGCATCATCAAGCACTCTGTACATGCAGGGGCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAAAGTAGGGGctataggaagctcgacataccacacaacaccatggacatgagt Alignment from Exonerate_coding2genome GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCA tatttttggtgagataaggagctgaattgtttgtattcttattttcatagGGGCATCATCAAGCACTCTGTACATGCAGGGGCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAAAGTAGGGGctataggaagctcgacataccacacaacaccatggacatgagt Alignment from GeneWise -----TCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAAT tatttttggtgagataaggagctgaattgtttgtattcttattttcatagGGGCATCATCAAGCACTCTGTACATGCAGGGGCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAAAgtaggggctataggaagctcgacataccacacaacaccatggacatgagt #### Col17a1_ID10281_41 --> 2 - 1 Original Alignment gtGATCCTGGTGTCCCAGGTACTCCTGGCATCTCTGGTGGTCTTTCTCATg aaaggctgctgcactcaacctgggtgggcggttctttcccacacccgcaggtGATCCTGGTGTCCCAGGTACCCCTGGTATTTCTGGTGGTCTTTCT---ggtggggtaggttgaagattaagagagttcccctcctacccatggacggta Alignment from CESAR gtGATCCTGGTGTCCCAGGTACTCCTGGCATCTCTGGTGGTCTTTCTCATg aaaggctgctgcactcaacctgggtgggcggttctttcccacacccgcaggtGATCCTGGTGTCCCAGGTACCCCTGGTATTTCTGGTGGTCTTTCT---ggtggggtaggttgaagattaagagagttcccctcctacccatggacggta Alignment from Spaln_aa2Genome GTGATCCTGGTGTCCCAGGTACTCCTGGCATCTCTGGTGGTCTTTCTCATG aaaggctgctgcactcaacctgggtgggcggttctttcccacacccgcagGTGATCCTGGTGTCCCAGGTACCCCTGGTATTTCTGGTGGTCTTTCT---Ggtggggtaggttgaagattaagagagttcccctcctacccatggacggta Alignment from Spaln_nt2Genome GTGATCCTGGTGTCCCAGGTACTCCTGGCATCTCTGGTGGTCTTTCTCATGGG aaaggctgctgcactcaacctgggtgggcggttctttcccacacccgcagGTGATCCTGGTGTCCCAGGTACCCCTGGTATTTCTGGTGGTCTTTCTGGTGGGgtaggttgaagattaagagagttcccctcctacccatggacggta Alignment from Pairagon GTGATCCTGGTGTCCCAGGTACTCCTGGCATCTCTGGTGGTCTTTCTCATG-- aaaggctgctgcactcaacctgggtgggcggttctttcccacacccgcagGTGATCCTGGTGTCCCAGGTACCCCTGGTATTTCTGGTGGTCTTTCTGGTGGGgtaggttgaagattaagagagttcccctcctacccatggacggta Alignment from Exonerate_protein2genome GTGATCCTGGTGTCCCAGGTACTCCTGGCATCTCTGGTGGTCTTTCTC aaaggctgctgcactcaacctgggtgggcggttctttcccacacccgcagGTGATCCTGGTGTCCCAGGTACCCCTGGTATTTCTGGTGGTCTTTCTGgtggggtaggttgaagattaagagagttcccctcctacccatggacggta Alignment from Exonerate_coding2genome GTGATCCTGGTGTCCCAGGTACTCCTGGCATCTCTGGTGGTCTTTCTC aaaggctgctgcactcaacctgggtgggcggttctttcccacacccgcagGTGATCCTGGTGTCCCAGGTACCCCTGGTATTTCTGGTGGTCTTTCTGgtggggtaggttgaagattaagagagttcccctcctacccatggacggta Alignment from GeneWise GTGATCCTGGTGTCCCAGGTACTCCTGGCATCTCTGGTGGTCTTTCTCATGGGGCG- aaaggctgctgcactcaacctgggtgggcggttctttcccacacccgcagGTGATCCTGGTGTCCCAGGTACCCCTGGTATTTCTGGTGGTCTTTCTGGTGGGGTAGgttgaagattaagagagttcccctcctacccatggacggta #### Col17a1_ID10284_38 --> 2 - 1 Original Alignment ggCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg gaatcagcctccaagggcaccattgttctcacttctctccctgtactcaggg---------CCAGGCCCACCAGGACCCCGAAGTCCGCCGggtgcacgctgaattgttttcacataggagggggcaatggctggggtaagc Alignment from CESAR ggCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg aagtgggaagaatcagcctccaaggttctcacttctctccctgtactcaggg---------CCAGGCCCACCAGGACCCCGAAGTCCGCCGggtgcacgctgaattgttttcacataggagggggcaatggctggggtaagc Alignment from Spaln_aa2Genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG gaatcagcctccaagggcaccattgttctcacttctctccctgtactcagGG---------CCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgcacgctgaattgttttcacataggagggggcaatggctggggtaagc Alignment from Spaln_nt2Genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG gaatcagcctccaagggcaccattgttctcacttctctccctgtactcagGG---------CCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgcacgctgaattgttttcacataggagggggcaatggctggggtaagc Alignment from Pairagon GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG gaatcagcctccaagggcaccattgttctcacttctctccctgtactcagGG---------CCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgcacgctgaattgttttcacataggagggggcaatggctggggtaagc Alignment from Exonerate_protein2genome TCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG gaatcagcctccaagggcaccattgttctcacttctctccctgtactcagGGCCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgcacgctgaattgttttcacataggagggggcaatggctggggtaagc Alignment from Exonerate_coding2genome TCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG gaatcagcctccaagggcaccattgttctcacttctctccctgtactcagGGCCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgcacgctgaattgttttcacataggagggggcaatggctggggtaagc Alignment from GeneWise gaatcagcctccaagggcaccattgttctcacttctctccctgtactcagggccaggcccaccaggaccccgaagtccgccgggtgcacgctgaattgttttcacataggagggggcaatggctggggtaagc #### Col17a1_ID10297_25 --> 2 - 1 Original Alignment gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAg gatgggaatgtaggctagggtcccttctacttctgtcttctgcccaccaggt---------ACCCAGGGGCTCCGGGGTGACGTGGGACTGCCTGGTGTGAAAggtaatatagggggggagggacaattaaaaagcatgctgtggggaccctca Alignment from CESAR gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAg tacctgcatgatgggaatgtaggcttctacttctgtcttctgcccaccaggtACC---------CAGGGGCTCCGGGGTGACGTGGGACTGCCTGGTGTGAAAggtaatatagggggggagggacaattaaaaagcatgctgtggggaccctca Alignment from Spaln_aa2Genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG gatgggaatgtaggctagggtcccttctacttctgtcttctgcccaccagGTACC---------CAGGGGCTCCGGGGTGACGTGGGACTGCCTGGTGTGAAAGgtaatatagggggggagggacaattaaaaagcatgctgtggggaccctca Alignment from Spaln_nt2Genome GTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG gatgggaatgtaggctagggtcccttctacttctgtcttctgcccaccagGTACCCAGGGGCTCCGGGGTGACGTGGGACTGCCTGGTGTGAAAGgtaatatagggggggagggacaattaaaaagcatgctgtggggaccctca Alignment from Pairagon GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG gatgggaatgtaggctagggtcccttctacttctgtcttctgcccaccag---------GTACCCAGGGGCTCCGGGGTGACGTGGGACTGCCTGGTGTGAAAGgtaatatagggggggagggacaattaaaaagcatgctgtggggaccctca Alignment from Exonerate_protein2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG gatgggaatgtaggctagggtcccttctacttctgtcttctGCCCACCAGGTACCCAGGGGCTCCGGGGTGACGTGGGACTGCCTGGTGTGAAAGgtaatatagggggggagggacaattaaaaagcatgctgtggggaccctca Alignment from Exonerate_coding2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG gatgggaatgtaggctagggtcccttctacttctgtcttctGCCCACCAGGTACCCAGGGGCTCCGGGGTGACGTGGGACTGCCTGGTGTGAAAGgtaatatagggggggagggacaattaaaaagcatgctgtggggaccctca Alignment from GeneWise CAGCGGCTCTCCTGGTCCCCAAGGCCCCCCAGGTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAGGTGACAAAGGA------------------------CTCATGGGACCACCA gatgggaatgtaggctagGGTCCCTTCTACTTCTGTCTTCTGCCCACCAGGTACC---------CAGGGGCTCCGGGGTGACGTGGGACTGCCTGGTGTGAAAGGTAATATAGGGGGGGAGGGACAATTAAAAAGCATGCTGTGGGGACCCTCA #### Coro1b_ID356_6 --> 0 - 0 Original Alignment GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG tttagaaagaggtgatgctgcatcaaccggtgtcttctcttctctttcagGAAAACCTCGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGGTCTTCTGCCATTCTATGACCCTGACTCTAGTGTGGTCTATGTCTGT------gtaagcttcaacctgtatgggcagcatactaaagctgaacagaaaggaag Alignment from CESAR GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG tttagaaagaggtgatgctgcatcaaccggtgtcttctcttctctttcagGAAAACCTCGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGGTCTTCTGCCATTCTATGACCCTGACTCTAGTGTGGTCTATGTCTGT------gtaagcttcaacctgtatgggcagcatactaaagctgaacagaa Alignment from Spaln_aa2Genome GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGT tttagaaagaggtgatgctgcatcaaccggtgtcttctcttctctttcagGAAAACCTCGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGGTCTTCTGCCATTCTATGACCCTGACTCTAGTGTGGTCTATGTCTGTgtaagcttcaacctgtatgggcagcatactaaagctgaacagaaaggaag Alignment from Spaln_nt2Genome GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGT tttagaaagaggtgatgctgcatcaaccggtgtcttctcttctctttcagGAAAACCTCGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGGTCTTCTGCCATTCTATGACCCTGACTCTAGTGTGGTCTATGTCTGTgtaagcttcaacctgtatgggcagcatactaaagctgaacagaaaggaag Alignment from Pairagon GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGT tttagaaagaggtgatgctgcatcaaccggtgtcttctcttctctttcagGAAAACCTCGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGGTCTTCTGCCATTCTATGACCCTGACTCTAGTGTGGTCTATGTCTGTgtaagcttcaacctgtatgggcagcatactaaagctgaacagaaaggaag Alignment from Exonerate_protein2genome GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG tttagaaagaggtgatgctgcatcaaccggtgtcttctcttctctttcagGAAAACCTCGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGGTCTTCTGCCATTCTATGACCCTGACTCTAGTGTGGTCTATGTCTGTGTAAGCttcaacctgtatgggcagcatactaaagctgaacagaaaggaag Alignment from Exonerate_coding2genome GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG tttagaaagaggtgatgctgcatcaaccggtgtcttctcttctctttcagGAAAACCTCGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGGTCTTCTGCCATTCTATGACCCTGACTCTAGTGTGGTCTATGTCTGTGTAAGCttcaacctgtatgggcagcatactaaagctgaacagaaaggaag Alignment from GeneWise GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGT---------------------------------------------GGCAA tttagaaagaggtgatgctgcatcaaccggtgtcttctcttctctttcagGAAAACCTCGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGGTCTTCTGCCATTCTATGACCCTGACTCTAGTGTGGTCTATGTCTGTGTAAGCTTCAACCTGTATGGGCAGCATACTAAAGCTGAACAGAAAGGAAG #### Csf2ra_ID13430_10 --> 1 - 0 Original Alignment g---------TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttggacacccaggtgcatgctactctgcaagaacttttctttccactcaggACTATTCCATTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagaagtcataggcactagcggtgggagttgagcgtgacactggactc Alignment from CESAR g---------TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttggacacccaggtgcatgctactctgcaagaacttttctttccactcaggACTATTCCATTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagaagtcataggcactagcggtgggagttgagcgtgacactggactc Alignment from Spaln_aa2Genome GTTCGAGGTGACGCGCCGA---------CTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttggacacccaggtgcatgctactctgcaagaacttttctttccactcagGACTATTCCATTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagaagtcataggcactagcggtgggagttgagcgtgacactggactc Alignment from Spaln_nt2Genome G---------TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttggacacccaggtgcatgctactctgcaagaacttttctttccactcagGACTATTCCATTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagaagtcataggcactagcggtgggagttgagcgtgacactggactc Alignment from Pairagon ------------------------------------------------------------TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG TTGGACACCCAGGTGCATGCTACTCTGCAAGAACTTTTCTTTCCACTCAGGACTATTCCATTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagaagtcataggcactagcggtgggagttgagcgtgacactggactc Alignment from Exonerate_protein2genome G---------TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttggacacccaggtgcatgctactctgcaagaacttttctttccactcagGACTATTCCATTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagaagtcataggcactagcggtgggagttgagcgtgacactggactc Alignment from Exonerate_coding2genome G---------TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttggacacccaggtgcatgctactctgcaagaacttttctttccactcagGACTATTCCATTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagaagtcataggcactagcggtgggagttgagcgtgacactggactc Alignment from GeneWise -------AGGTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ttggacacccaggtgcatgctactctgcaagaacttttctttccactcagGACTATTCCATTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagaagtcataggcactagcggtgggagttgagcgtgacactggactc #### Csf2ra_ID13431_9 --> 2 - 2 Original Alignment agGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---ag acatgaacagatcacttctagtttgctagtgtctccctctgttctcccagatGCAGAGGACACACGGGTGCCTGGTGCACTCCTGTACACAGTAACTGCCTGTGCGGTCCTGCTGTGCGCACTGGTGCTCGGAGTGACTTGTAGGTCAaggtaagacaaaggggcattatcatgaacaagggtgtgagcagttggacacc Alignment from CESAR agGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---ag acatgaacagatcacttctagtttgctagtgtctccctctgttctcccagatGCAGAGGACACACGGGTGCCTGGTGCACTCCTGTACACAGTAACTGCCTGTGCGGTCCTGCTGTGCGCACTGGTGCTCGGAGTGACTTGTAGGTCAaggtaagacaaaggggcattatcatgaacaagggtgtgagcagttggacacc Alignment from Spaln_aa2Genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAGG-- acatgaacagatcacttctagtttgctagtgtctccctctgttctcccagATGCAGAGGACACACGGGTGCCTGGTGCACTCCTGTACACAGTAACTGCCTGTGCGGTCCTGCTGTGCGCACTGGTGCTCGGAGTGACTTGTAGGTCAAGgtaagacaaaggggcattatcatgaacaagggtgtgagcagttggacacc Alignment from Spaln_nt2Genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---AG acatgaacagatcacttctagtttgctagtgtctccctctgttctcccagATGCAGAGGACACACGGGTGCCTGGTGCACTCCTGTACACAGTAACTGCCTGTGCGGTCCTGCTGTGCGCACTGGTGCTCGGAGTGACTTGTAGGTCAAGgtaagacaaaggggcattatcatgaacaagggtgtgagcagttggacacc Alignment from Pairagon AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---AG acatgaacagatcacttctagtttgctagtgtctccctctgttctcccagATGCAGAGGACACACGGGTGCCTGGTGCACTCCTGTACACAGTAACTGCCTGTGCGGTCCTGCTGTGCGCACTGGTGCTCGGAGTGACTTGTAGGTCAAGgtaagacaaaggggcattatcatgaacaagggtgtgagcagttggacacc Alignment from Exonerate_protein2genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---AG acatgaacagatcacttctagtttgctagtgtctccctctgttctcccagATGCAGAGGACACACGGGTGCCTGGTGCACTCCTGTACACAGTAACTGCCTGTGCGGTCCTGCTGTGCGCACTGGTGCTCGGAGTGACTTGTAGGTCAAGgtaagacaaaggggcattatcatgaacaagggtgtgagcagttggacacc Alignment from Exonerate_coding2genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGG---AG acatgaacagatcacttctagtttgctagtgtctccctctgttctcccagATGCAGAGGACACACGGGTGCCTGGTGCACTCCTGTACACAGTAACTGCCTGTGCGGTCCTGCTGTGCGCACTGGTGCTCGGAGTGACTTGTAGGTCAAGgtaagacaaaggggcattatcatgaacaagggtgtgagcagttggacacc Alignment from GeneWise AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAGG-- acatgaacagatcacttctagtttgctagtgtctccctctgttctcccagATGCAGAGGACACACGGGTGCCTGGTGCACTCCTGTACACAGTAACTGCCTGTGCGGTCCTGCTGTGCGCACTGGTGCTCGGAGTGACTTGTAGGTCAAGgtaagacaaaggggcattatcatgaacaagggtgtgagcagttggacacc #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment ---------GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg taagataagttcacactctcagcccaatcttctctctgtccactctgcagTTTGGGCCTGTCCTGGTTGTGGAGGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAAGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCCCATCCTCTCggtaagtgtaggtgtctcgacccattcccccaaatacatgcctgctgtcca Alignment from CESAR ---------GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg taagataagttcacactctcagcccaatcttctctctgtccactctgcagTTTGGGCCTGTCCTGGTTGTGGAGGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAAGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCCCATCCTCTCggtaagtgtaggtgtctcgacccattcccccaaatacatgcctgctgtcca Alignment from Spaln_aa2Genome ---------GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTC taagataagttcacactctcagcccaatcttctctctgtccactctgcagTTTGGGCCTGTCCTGGTTGTGGAGGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAAGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCCCATCCTCTCGgtaagtgtaggtgtctcgacccattcccccaaatacatgcctgctgtcca Alignment from Spaln_nt2Genome ---------GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG taagataagttcacactctcagcccaatcttctctctgtccactctgcagTTTGGGCCTGTCCTGGTTGTGGAGGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAAGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCCCATCCTCTCGgtaagtgtaggtgtctcgacccattcccccaaatacatgcctgctgtcca Alignment from Pairagon ---------GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG taagataagttcacactctcagcccaatcttctctctgtccactctgcagTTTGGGCCTGTCCTGGTTGTGGAGGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAAGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCCCATCCTCTCGgtaagtgtaggtgtctcgacccattcccccaaatacatgcctgctgtcca Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG taagataagttcacactctcagcccaatcttctctctgtccactctgcagtttgggcctGTCCTGGTTGTGGAGGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAAGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCCCATCCTCTCGgtaagtgtaggtgtctcgacccattcccccaaatacatgcctgctgtcca Alignment from Exonerate_coding2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG taagataagttcacactctcagcccaatcttctctctgtccactctgcagtttgggcctGTCCTGGTTGTGGAGGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAAGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCCCATCCTCTCGgtaagtgtaggtgtctcgacccattcccccaaatacatgcctgctgtcca Alignment from GeneWise AGCGCAGAGCCAGGAAGCACACCCCGGAAGGTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG taagataagttcacactctcagcccaatcttctctctgtccactctgcagTTTGGGCCT---------------------GTCCTGGTTGTGGAGGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAAGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCCCATCCTCTCGgtaagtgtaggtgtctcgacccattcccccaaatacatgcctgctgtcca #### Csf2ra_ID13433_7 --> 0 - 0 Original Alignment ---------AGCGCAGAGCCAGGAAGCACACCCCGGAAG atgccaagggcttgtcaaaatccacagccctctctatttttcccacctagTGGGCTGACAGCGCAGAACCAGGAAGCACACCCCGGCAGgtaagctgagtagatgcagcaactggcctggattgtactataggagtaca Alignment from CESAR ---------AGCGCAGAGCCAGGAAGCACACCCCGGAAG atgccaagggcttgtcaaaatccacagccctctctatttttcccacctagTGGGCTGACAGCGCAGAACCAGGAAGCACACCCCGGCAGgtaagctgagtagatgcagcaactggcctggattgtactataggagtaca Alignment from Spaln_aa2Genome AGCGCAGAGCCA---------GGAAGCACACCCCGGAAG atgccaagggcttgtcaaaatccacagccctctctatttttcccacctagTGGGCTGACAGCGCAGAACCAGGAAGCACACCCCGGCAGgtaagctgagtagatgcagcaactggcctggattgtactataggagtaca Alignment from Spaln_nt2Genome AGAGCGCAGAGCC-------AGGAAGCACACCCCGGAAG atgccaagggcttgtcaaaatccacagccctctctatttttcccacctagTGGGCTGACAGCGCAGAACCAGGAAGCACACCCCGGCAGgtaagctgagtagatgcagcaactggcctggattgtactataggagtaca Alignment from Pairagon -----------------------------------------------------------AGCGCAGAGCCAGGAAGCACACCCCGGAAG ATGCCAAGGGCTTGTCAAAATCCACAGCCCTCTCTATTTTTCCCACCTAGTGGGCTGACAGCGCAGAACCAGGAAGCACACCCCGGCAGgtaagctgagtagatgcagcaactggcctggattgtactataggagtaca Alignment from Exonerate_protein2genome AGCGCAGAGCCAGGAAGCACACCCCGGAAG atgccaagggcttgtcaaaatccacagccctctctatttttcccacctagtgggctgacAGCGCAGAACCAGGAAGCACACCCCGGCAGgtaagctgagtagatgcagcaactggcctggattgtactataggagtaca Alignment from Exonerate_coding2genome AGCGCAGAGCCAGGAAGCACACCCCGGAAG atgccaagggcttgtcaaaatccacagccctctctatttttcccacctagtgggctgacAGCGCAGAACCAGGAAGCACACCCCGGCAGgtaagctgagtagatgcagcaactggcctggattgtactataggagtaca Alignment from GeneWise ------CAGAGCGCAGAGCCAGGAAGCACACCCCGGAAG atgccaagggcttgtcaaaatccacagccctctctatttttcccacctagTGGGCTGACAGCGCAGAACCAGGAAGCACACCCCGGCAGgtaagctgagtagatgcagcaactggcctggattgtactataggagtaca #### Csf2ra_ID13435_5 --> 1 - 1 Original Alignment gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---g ctttctataacctcattgctgtctctgataccccctttaccggctcatagaGGTCATGATGTGGCACGCTGCATGGCTGATCCTGGGGATGATGTCATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTAACTGGTCGAAGCGGGGCGGGGCCAGTGTGGTTTCTAGATGATGTGGTGGCTACAAAGGCACTCGCCggtacgcttgtggttatgagtaggtgtagggcttctaagtggcaacctgga Alignment from CESAR gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---g ctttctataacctcattgctgtctctgataccccctttaccggctcatagaGGTCATGATGTGGCACGCTGCATGGCTGATCCTGGGGATGATGTCATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTAACTGGTCGAAGCGGGGCGGGGCCAGTGTGGTTTCTAGATGATGTGGTGGCTACAAAGGCACTCGCCggtacgcttgtggttatgagtaggtgtagggcttctaagtggcaacctgga Alignment from Spaln_aa2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---G ctttctataacctcattgctgtctctgataccccctttaccggctcatagAGGTCATGATGTGGCACGCTGCATGGCTGATCCTGGGGATGATGTCATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTAACTGGTCGAAGCGGGGCGGGGCCAGTGTGGTTTCTAGATGATGTGGTGGCTACAAAGGCACTCGCCGgtacgcttgtggttatgagtaggtgtagggcttctaagtggcaacctgga Alignment from Spaln_nt2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG--- ctttctataacctcattgctgtctctgataccccctttaccggctcatagAGGTCATGATGTGGCACGCTGCATGGCTGATCCTGGGGATGATGTCATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTAACTGGTCGAAGCGGGGCGGGGCCAGTGTGGTTTCTAGATGATGTGGTGGCTACAAAGGCACTCGCCGgtacgcttgtggttatgagtaggtgtagggcttctaagtggcaacctgga Alignment from Pairagon GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG--------------------- ctttctataacctcattgctgtctctgataccccctttaccggctcatagAGGTCATGATGTGGCACGCTGCATGGCTGATCCTGGGGATGATGTCATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTAACTGGTCGAAGCGGGGCGGGGCCAGTGTGGTTTCTAGATGATGTGGTGGCTACAAAGGCACTCGCCGGTACGCTTGTGGTTATGAgtaggtgtagggcttctaagtggcaacctgga Alignment from Exonerate_protein2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---G ctttctataacctcattgctgtctctgataccccctttaccggctcatagAGGTCATGATGTGGCACGCTGCATGGCTGATCCTGGGGATGATGTCATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTAACTGGTCGAAGCGGGGCGGGGCCAGTGTGGTTTCTAGATGATGTGGTGGCTACAAAGGCACTCGCCGgtacgcttgtggttatgagtaggtgtagggcttctaagtggcaacctgga Alignment from Exonerate_coding2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---G ctttctataacctcattgctgtctctgataccccctttaccggctcatagAGGTCATGATGTGGCACGCTGCATGGCTGATCCTGGGGATGATGTCATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTAACTGGTCGAAGCGGGGCGGGGCCAGTGTGGTTTCTAGATGATGTGGTGGCTACAAAGGCACTCGCCGgtacgcttgtggttatgagtaggtgtagggcttctaagtggcaacctgga Alignment from GeneWise GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCGAG- ctttctataacctcattgctgtctctgataccccctttaccggctcatagAGGTCATGATGTGGCACGCTGCATGGCTGATCCTGGGGATGATGTCATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTCGTAACTGGTCGAAGCGGGGCGGGGCCAGTGTGGTTTCTAGATGATGTGGTGGCTACAAAGGCACTCGCCGgtacgcttgtggttatgagtaggtgtagggcttctaagtggcaacctgga #### Csf2ra_ID13436_4 --> 2 - 2 Original Alignment gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC---------------ac ggacggggtgtggtgaattccagccaagtgtagtgcttttccactcccaggcACTGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATTCGAGCTTCTCGCTTCCTTTCCTGTGCTTGGCGAGAAGGGCCAGCGGCACCTGCAGATGTCCGGCACTCACTGCAGGTCCTCAACTCAGTGACCTTCAAGAAGacgtgagttgtaatctcccagccgtccgtccatccattgcattgctactatt Alignment from CESAR gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC---------------ac ggacggggtgtggtgaattccagccaagtgtagtgcttttccactcccaggcACTGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATTCGAGCTTCTCGCTTCCTTTCCTGTGCTTGGCGAGAAGGGCCAGCGGCACCTGCAGATGTCCGGCACTCACTGCAGGTCCTCAACTCAGTGACCTTCAAGAAGacgtgagttgtaatctcccagccgtccgtccatccattgcattgctactatt Alignment from Spaln_aa2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCACG-------------- ggacggggtgtggtgaattccagccaagtgtagtgcttttccactcccagGCACTGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATTCGAGCTTCTCGCTTCCTTTCCTGTGCTTGGCGAGAAGGGCCAGCGGCACCTGCAGATGTCCGGCACTCACTGCAGGTCCTCAACTCAGTGACCTTCAAGAAGACgtgagttgtaatctcccagccgtccgtccatccattgcattgctactatt Alignment from Spaln_nt2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC ggacggggtgtggtgaattccagccaagtgtagtgcttttccactcccagGCACTGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATTCGAGCTTCTCGCTTCCTTTCCTGTGCTTGGCGAGAAGGGCCAGCGGCACCTGCAGATGTCCGGCACTCACTGCAGGTCCTCAACTCAgtgaccttcaagaagacgtgagttgtaatctcccagccgtccgtccatccattgcattgctactatt Alignment from Pairagon GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTC---------------CAC ggacggggtgtggtgaattccagccaagtgtagtgcttttccactcccagGCACTGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATTCGAGCTTCTCGCTTCCTTTCCTGTGCTTGGCGAGAAGGGCCAGCGGCACCTGCAGATGTCCGGCACTCACTGCAGGTCCTCAACTCAGTGACCTTCAAGAAGACgtgagttgtaatctcccagccgtccgtccatccattgcattgctactatt Alignment from Exonerate_protein2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC ggacggggtgtggtgaattccagccaagtgtagtgcttttccactcccagGCACTGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATTCGAGCTTCTCGCTTCCTTTCCTGTGCTTGGCGAGAAGGGCCAGCGGCACCTGCAGATGTCCGGCACTCACTGCAGGTCCTCAACTCAGTgaccttcaagaagacgtgagttgtaatctcccagccgtccgtccatccattgcattgctactatt Alignment from Exonerate_coding2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC ggacggggtgtggtgaattccagccaagtgtagtgcttttccactcccagGCACTGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATTCGAGCTTCTCGCTTCCTTTCCTGTGCTTGGCGAGAAGGGCCAGCGGCACCTGCAGATGTCCGGCACTCACTGCAGGTCCTCAACTCAGTgaccttcaagaagacgtgagttgtaatctcccagccgtccgtccatccattgcattgctactatt Alignment from GeneWise GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC---------------AC ggacggggtgtggtgaattccagccaagtgtagtgcttttccactcccagGCACTGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATTCGAGCTTCTCGCTTCCTTTCCTGTGCTTGGCGAGAAGGGCCAGCGGCACCTGCAGATGTCCGGCACTCACTGCAGGTCCTCAACTCAGTGACCTTCAAGAAGACgtgagttgtaatctcccagccgtccgtccatccattgcattgctactatt #### Csf2ra_ID13437_3 --> 0 - 1 Original Alignment CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg cactctcactgcactacttcaccacccttgcatgtgaatcttttttacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTCAGCTTC---------ggtatctatggacccggtggatgggggggtttccatgataccattactaag Alignment from CESAR CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg cactctcactgcactacttcaccacccttgcatgtgaatcttttttacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTCAGCTTC---------ggtatctatggacccggtggatgggggggtttccatgataccattactaag Alignment from Spaln_aa2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTC- cactctcactgcactacttcaccacccttgcatgtgaatcttttttacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTCAGCTTCGgtatctatggacccggtggatgggggggtttccatgataccattactaag Alignment from Spaln_nt2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCG cactctcactgcactacttcaccacccttgcatgtgaatcttttttacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTCAGCTTCGgtatctatggacccggtggatgggggggtttccatgataccattactaag Alignment from Pairagon CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCG cactctcactgcactacttcaccacccttgcatgtgaatcttttttacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTCAGCTTCGgtatctatggacccggtggatgggggggtttccatgataccattactaag Alignment from Exonerate_protein2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCG cactctcactgcactacttcaccacccttgcatgtgaatcttttttacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTCAGCTTCGgtatctatggacccggtggatgggggggtttccatgataccattactaag Alignment from Exonerate_coding2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCG cactctcactgcactacttcaccacccttgcatgtgaatcttttttacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTCAGCTTCGgtatctatggacccggtggatgggggggtttccatgataccattactaag Alignment from GeneWise CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAGGCGCG- cactctcactgcactacttcaccacccttgcatgtgaatcttttttacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGGTGTAACACTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTCAGCTTCGGTATCTATGGACCCGgtggatgggggggtttccatgataccattactaag #### Csf2ra_ID13438_2 --> 2 - 0 Original Alignment ct---CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG ttgctaccaaggcactctaccaaggcagttattttctcaattgaacacagccCATCCAACCACACCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCAgtaaagggggctagtatgagagggccatgccccataatgatgtcatgccc Alignment from CESAR ct---CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG ttgctaccaaggcactctaccaaggcagttattttctcaattgaacacagccCATCCAACCACACCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCAgtaaagggggctagtatgagagggccatgccccataatgatgtcatgccc Alignment from Spaln_aa2Genome CT---CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG ttgctaccaaggcactctaccaaggcagttattttctcaattgaacacagCCCATCCAACCACACCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCAgtaaagggggctagtatgagagggccatgccccataatgatgtcatgccc Alignment from Spaln_nt2Genome C---TCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG ttgctaccaaggcactctaccaaggcagttattttctcaattgaacacagCCCATCCAACCACACCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCAgtaaagggggctagtatgagagggccatgccccataatgatgtcatgccc Alignment from Pairagon C---TCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG ttgctaccaaggcactctaccaaggcagttattttctcaattgaacacagCCCATCCAACCACACCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCAgtaaagggggctagtatgagagggccatgccccataatgatgtcatgccc Alignment from Exonerate_protein2genome CT---CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG ttgctaccaaggcactctaccaaggcagttattttctcaattgaacacagCCCATCCAACCACACCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCAgtaaagggggctagtatgagagggccatgccccataatgatgtcatgccc Alignment from Exonerate_coding2genome CT---CCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG ttgctaccaaggcactctaccaaggcagttattttctcaattgaacacagCCCATCCAACCACACCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCAgtaaagggggctagtatgagagggccatgccccataatgatgtcatgccc Alignment from GeneWise --GCTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG ttgctaccaaggcactctaccaaggcagttattttctcaattgaacacagCCCATCCAACCACACCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCAgtaaagggggctagtatgagagggccatgccccataatgatgtcatgccc #### Cst6_ID938_2 --> 0 - 0 Original Alignment ------CTGGTGGCTGGCATCAAGTACTACCTGACTTTGGACATAGAAAGCACAGAGTGCCGAAAGACCAGAGTCTCTGGAGAACACATGGACCTCACCACCTGCCCTCTGGCTGCAGGGGGGCAGCAGGAG ggaatagcttaacagtaaaagctaactattccctgcaccctgggaggcagAGGCTGCTGGTGGCTGGCATTGAGTACCACCTAACCCTGGACATTGAGAGCACAAAGTGCCGAAAGACCAAACTCTCCGGCAAACACATGGACCTCACTACCTGCCCATTGGCTGCAGGGGGACAGCAAGAGgtaaagacactaatcttgtctcaaccccattcaaggtttcaggcccttag Alignment from CESAR ------CTGGTGGCTGGCATCAAGTACTACCTGACTTTGGACATAGAAAGCACAGAGTGCCGAAAGACCAGAGTCTCTGGAGAACACATGGACCTCACCACCTGCCCTCTGGCTGCAGGGGGGCAGCAGGAG ggaatagcttaacagtaaaagctaactattccctgcaccctgggaggcagAGGCTGCTGGTGGCTGGCATTGAGTACCACCTAACCCTGGACATTGAGAGCACAAAGTGCCGAAAGACCAAACTCTCCGGCAAACACATGGACCTCACTACCTGCCCATTGGCTGCAGGGGGACAGCAAGAGgtaaagacactaatcttgtctcaaccccattcaaggtttcaggcccttag Alignment from Spaln_aa2Genome CTGGTGGCTGGC------ATCAAGTACTACCTGACTTTGGACATAGAAAGCACAGAGTGCCGAAAGACCAGAGTCTCTGGAGAACACATGGACCTCACCACCTGCCCTCTGGCTGCAGGGGGGCAGCAGGAG ggaatagcttaacagtaaaagctaactattccctgcaccctgggaggcagAGGCTGCTGGTGGCTGGCATTGAGTACCACCTAACCCTGGACATTGAGAGCACAAAGTGCCGAAAGACCAAACTCTCCGGCAAACACATGGACCTCACTACCTGCCCATTGGCTGCAGGGGGACAGCAAGAGgtaaagacactaatcttgtctcaaccccattcaaggtttcaggcccttag Alignment from Spaln_nt2Genome GCTGGTGGCT-----GGCATCAAGTACTACCTGACTTTGGACATAGAAAGCACAGAGTGCCGAAAGACCAGAGTCTCTGGAGAACACATGGACCTCACCACCTGCCCTCTGGCTGCAGGGGGGCAGCAGGAG ggaatagcttaacagtaaaagctaactattccctgcaccctgggaggcagAGGCTGCTGGTGGCTGGCATTGAGTACCACCTAACCCTGGACATTGAGAGCACAAAGTGCCGAAAGACCAAACTCTCCGGCAAACACATGGACCTCACTACCTGCCCATTGGCTGCAGGGGGACAGCAAGAGgtaaagacactaatcttgtctcaaccccattcaaggtttcaggcccttag Alignment from Pairagon ------CTGGTGGCTGGCATCAAGTACTACCTGACTTTGGACATAGAAAGCACAGAGTGCCGAAAGACCAGAGTCTCTGGAGAACACATGGACCTCACCACCTGCCCTCTGGCTGCAGGGGGGCAGCAGGAG ggaatagcttaacagtaaaagctaactattccctgcaccctgggaggcagAGGCTGCTGGTGGCTGGCATTGAGTACCACCTAACCCTGGACATTGAGAGCACAAAGTGCCGAAAGACCAAACTCTCCGGCAAACACATGGACCTCACTACCTGCCCATTGGCTGCAGGGGGACAGCAAGAGgtaaagacactaatcttgtctcaaccccattcaaggtttcaggcccttag Alignment from Exonerate_protein2genome CTGGTGGCTGGCATCAAGTACTACCTGACTTTGGACATAGAAAGCACAGAGTGCCGAAAGACCAGAGTCTCTGGAGAACACATGGACCTCACCACCTGCCCTCTGGCTGCAGGGGGGCAGCAGGAG ggaatagcttaacagtaaaagctaactattccctgcaccctgggaggcagaggctgCTGGTGGCTGGCATTGAGTACCACCTAACCCTGGACATTGAGAGCACAAAGTGCCGAAAGACCAAACTCTCCGGCAAACACATGGACCTCACTACCTGCCCATTGGCTGCAGGGGGACAGCAAGAGgtaaagacactaatcttgtctcaaccccattcaaggtttcaggcccttag Alignment from Exonerate_coding2genome CTGGTGGCTGGCATCAAGTACTACCTGACTTTGGACATAGAAAGCACAGAGTGCCGAAAGACCAGAGTCTCTGGAGAACACATGGACCTCACCACCTGCCCTCTGGCTGCAGGGGGGCAGCAGGAG ggaatagcttaacagtaaaagctaactattccctgcaccctgggaggcagaggctgCTGGTGGCTGGCATTGAGTACCACCTAACCCTGGACATTGAGAGCACAAAGTGCCGAAAGACCAAACTCTCCGGCAAACACATGGACCTCACTACCTGCCCATTGGCTGCAGGGGGACAGCAAGAGgtaaagacactaatcttgtctcaaccccattcaaggtttcaggcccttag Alignment from GeneWise ------CTGGTGGCTGGCATCAAGTACTACCTGACTTTGGACATAGAAAGCACAGAGTGCCGAAAGACCAGAGTCTCTGGAGAACACATGGACCTCACCACCTGCCCTCTGGCTGCAGGGGGGCAGCAGGAG ggaatagcttaacagtaaaagctaactattccctgcaccctgggaggcagAGGCTGCTGGTGGCTGGCATTGAGTACCACCTAACCCTGGACATTGAGAGCACAAAGTGCCGAAAGACCAAACTCTCCGGCAAACACATGGACCTCACTACCTGCCCATTGGCTGCAGGGGGACAGCAAGAGgtaaagacactaatcttgtctcaaccccattcaaggtttcaggcccttag #### Ctsf_ID676_4 --> 2 - 0 Original Alignment agTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG--------- atacccaagtaaaatctggccataaataggccacaccattccatctgcagagTTTCGAAATGCAACCCTTGGCTCATTCCTACCACTGCTGGACAAAGATCCCCTGCCCCAGACTTCGCCTgtaagtacactgttatgtggggagacagcacctccttaattctggttccc Alignment from CESAR agTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG--------- atacccaagtaaaatctggccataaataggccacaccattccatctgcagagTTTCGAAATGCAACCCTTGGCTCATTCCTACCACTGCTGGACAAAGATCCCCTGCCCCAGACTTCGCCTgtaagtacactgttatgtggggagacagcacctccttaattctggttccc Alignment from Spaln_aa2Genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG--------- atacccaagtaaaatctggccataaataggccacaccattccatctgcagAGTTTCGAAATGCAACCCTTGGCTCATTCCTACCACTGCTGGACAAAGATCCCCTGCCCCAGACTTCGCCTgtaagtacactgttatgtggggagacagcacctccttaattctggttccc Alignment from Spaln_nt2Genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG--------- atacccaagtaaaatctggccataaataggccacaccattccatctgcagAGTTTCGAAATGCAACCCTTGGCTCATTCCTACCACTGCTGGACAAAGATCCCCTGCCCCAGACTTCGCCTgtaagtacactgttatgtggggagacagcacctccttaattctggttccc Alignment from Pairagon AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG--------- atacccaagtaaaatctggccataaataggccacaccattccatctgcagAGTTTCGAAATGCAACCCTTGGCTCATTCCTACCACTGCTGGACAAAGATCCCCTGCCCCAGACTTCGCCTgtaagtacactgttatgtggggagacagcacctccttaattctggttccc Alignment from Exonerate_protein2genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG atacccaagtaaaatctggccataaataggccacaccattccatctgcagAGTTTCGAAATGCAACCCTTGGCTCATTCCTACCACTGCTGGACAAAGATCCCCTGCCCCAGacttcgcctgtaagtacactgttatgtggggagacagcacctccttaattctggttccc Alignment from Exonerate_coding2genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG atacccaagtaaaatctggccataaataggccacaccattccatctgcagAGTTTCGAAATGCAACCCTTGGCTCATTCCTACCACTGCTGGACAAAGATCCCCTGCCCCAGacttcgcctgtaagtacactgttatgtggggagacagcacctccttaattctggttccc Alignment from GeneWise AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG--------- atacccaagtaaaatctggccataaataggccacaccattccatctgcagAGTTTCGAAATGCAACCCTTGGCTCATTCCTACCACTGCTGGACAAAGATCCCCTGCCCCAGACTTCGCCTgtaagtacactgttatgtggggagacagcacctccttaattctggttccc #### Ctsf_ID685_13 --> 2 - 0 Original Alignment gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- tacaacaggtgactgagggtttttggcttgattgcaaaaccattttctaggcTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGCTATTTCAAgtgttttttggcctgtccatctttgacccccttgctcctcctctacccgg Alignment from CESAR gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- tacaacaggtgactgagggtttttggcttgattgcaaaaccattttctaggcTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGCTATTTCAAgtgttttttggcctgtccatctttgacccccttgctcctcctctacccgg Alignment from Spaln_aa2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- tacaacaggtgactgagggtttttggcttgattgcaaaaccattttctagGCTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGCTATTTCAAgtgttttttggcctgtccatctttgacccccttgctcctcctctacccgg Alignment from Spaln_nt2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGA tacaacaggtgactgagggtttttggcttgattgcaaaaccattttctagGCTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAgctatttcaagtgttttttggcctgtccatctttgacccccttgctcctcctctacccgg Alignment from Pairagon GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGG------------------------------------------------------------- tacaacaggtgactgagggtttttggcttgattgcaaaaccattttctagGCTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGCTATTTCAAGTGTTTTTTGGCCTGTCCATCTTTGACCCCCTTGCTCCTCCTCTACCCGG Alignment from Exonerate_protein2genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG tacaacaggtgactgagggtttttggcttgattgcaaaaccattttctagGCTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGctatttcaagtgttttttggcctgtccatctttgacccccttgctcctcctctacccgg Alignment from Exonerate_coding2genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG tacaacaggtgactgagggtttttggcttgattgcaaaaccattttctagGCTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGctatttcaagtgttttttggcctgtccatctttgacccccttgctcctcctctacccgg Alignment from GeneWise GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG----------------------------------------------------------- tacaacaggtgactgagggtttttggcttgattgcaaaaccattttctagGCTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGCTATTTCAAGTGTTTTTTGGCCTGTCCATCTTTGACCCCCTTGCTCCTCCTCTACCCGG #### Ctsw_ID1018_8 --> 2 - 0 Original Alignment caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtggtgacacggcaccttcaagacagtaaccttttctctctcacagtaATTGCCCACTATCTTGCTGCACATGGACCCATCACTGTGACAATCAATATGAAA---------gtgagtagctaggtccatacagtaagatgacaaggagaggtgccctgtgg Alignment from CESAR caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtggtgacacggcaccttcaagacagtaaccttttctctctcacagtaATTGCCCACTATCTTGCTGCACATGGACCCATCACTGTGACAATCAATATGAAA---------gtgagtagctaggtccatacagtaagatgacaaggagaggt Alignment from Spaln_aa2Genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAA agtagtggtgacacggcaccttcaagacagtaaccttttctctctcacagTAATTGCCCACTATCTTGCTGCACATGGACCCATCACTGTGACAATCAATATGAAAgtgagtagctaggtccatacagtaagatgacaaggagaggtgccctgtgg Alignment from Spaln_nt2Genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAA agtagtggtgacacggcaccttcaagacagtaaccttttctctctcacagTAATTGCCCACTATCTTGCTGCACATGGACCCATCACTGTGACAATCAATATGAAAgtgagtagctaggtccatacagtaagatgacaaggagaggtgccctgtgg Alignment from Pairagon CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAA agtagtggtgacacggcaccttcaagacagtaaccttttctctctcacagTAATTGCCCACTATCTTGCTGCACATGGACCCATCACTGTGACAATCAATATGAAAgtgagtagctaggtccatacagtaagatgacaaggagaggtgccctgtgg Alignment from Exonerate_protein2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAA agtagtggtgacacggcaccttcaagacagtaaccttttctctctcacagTAATTGCCCACTATCTTGCTGCACATGGACCCATCACTGTGACAATCAATATGAAAgtgagtagctaggtccatacagtaagatgacaaggagaggtgccctgtgg Alignment from Exonerate_coding2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAA agtagtggtgacacggcaccttcaagacagtaaccttttctctctcacagTAATTGCCCACTATCTTGCTGCACATGGACCCATCACTGTGACAATCAATATGAAAgtgagtagctaggtccatacagtaagatgacaaggagaggtgccctgtgg Alignment from GeneWise CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTA- agtagtggtgacacggcaccttcaagacagtaaccttttctctctcacagTAATTGCCCACTATCTTGCTGCACATGGACCCATCACTGTGACAATCAATATGAAAGTGAgtagctaggtccatacagtaagatgacaaggagaggtgccctgtgg #### Ctsw_ID1020_6 --> 2 - 1 Original Alignment agCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGGGACGCATATCTAACTGTCCTCAACAAC---a tccctgcctgcctgtggcaattaggcccttttttcccctccttgggtcagagCTTTTGGACTGTGAGCACTGTGGCAATGGCTGCAATGATGGCTTTGTATGGGATGCATATCTAACTGTCCTCAATAATAAGagtgagttcctacgcctaacaggagatgagtagggcaagtgagtgctcagc Alignment from CESAR agCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGGGACGCATATCTAACTGTCCTCAACAAC---a tccctgcctgcctgtggcaattaggcccttttttcccctccttgggtcagagCTTTTGGACTGTGAGCACTGTGGCAATGGCTGCAATGATGGCTTTGTATGGGATGCATATCTAACTGTCCTCAATAATAAGagtgagttcctacgcctaacaggagatgagtagggcaagtgagtgctcagc Alignment from Spaln_aa2Genome AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGGGACGCATATCTAACTGTCCTCAACAAC---A tccctgcctgcctgtggcaattaggcccttttttcccctccttgggtcagAGCTTTTGGACTGTGAGCACTGTGGCAATGGCTGCAATGATGGCTTTGTATGGGATGCATATCTAACTGTCCTCAATAATAAGAgtgagttcctacgcctaacaggagatgagtagggcaagtgagtgctcagc Alignment from Spaln_nt2Genome AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGGGACGCATATCTAACTGTCCTCAACAACA--- tccctgcctgcctgtggcaattaggcccttttttcccctccttgggtcagAGCTTTTGGACTGTGAGCACTGTGGCAATGGCTGCAATGATGGCTTTGTATGGGATGCATATCTAACTGTCCTCAATAATAAGAgtgagttcctacgcctaacaggagatgagtagggcaagtgagtgctcagc Alignment from Pairagon AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGGGACGCATATCTAACTGTCCTCAACAACA--- tccctgcctgcctgtggcaattaggcccttttttcccctccttgggtcagAGCTTTTGGACTGTGAGCACTGTGGCAATGGCTGCAATGATGGCTTTGTATGGGATGCATATCTAACTGTCCTCAATAATAAGAgtgagttcctacgcctaacaggagatgagtagggcaagtgagtgctcagc Alignment from Exonerate_protein2genome AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGGGACGCATATCTAACTGTCCTCAACAAC---A tccctgcctgcctgtggcaattaggcccttttttcccctccttgggtcagAGCTTTTGGACTGTGAGCACTGTGGCAATGGCTGCAATGATGGCTTTGTATGGGATGCATATCTAACTGTCCTCAATAATAAGAgtgagttcctacgcctaacaggagatgagtagggcaagtgagtgctcagc Alignment from Exonerate_coding2genome AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGGGACGCATATCTAACTGTCCTCAACAAC---A tccctgcctgcctgtggcaattaggcccttttttcccctccttgggtcagAGCTTTTGGACTGTGAGCACTGTGGCAATGGCTGCAATGATGGCTTTGTATGGGATGCATATCTAACTGTCCTCAATAATAAGAgtgagttcctacgcctaacaggagatgagtagggcaagtgagtgctcagc Alignment from GeneWise AGCTGCTGGACTGCGAACGCTGTGGAAATGGTTGCAATGGTGGCTTCGTGTGGGACGCATATCTAACTGTCCTCAACAACAGT- tccctgcctgcctgtggcaattaggcccttttttcccctccttgggtcagAGCTTTTGGACTGTGAGCACTGTGGCAATGGCTGCAATGATGGCTTTGTATGGGATGCATATCTAACTGTCCTCAATAATAAGAgtgagttcctacgcctaacaggagatgagtagggcaagtgagtgctcagc #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment ag---GAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcctttgccaccctcttgataccgagcaaatgttttttctttcagagTATGAGGAGTTTGGCCAATTATATGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTGAAGCGAAGAACATCATCTCATCAATCAAGAATCAGgtaaccgccctgcctcagtttgggctaatccaacccaaggacactgttct Alignment from CESAR ag---GAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcctttgccaccctcttgataccgagcaaatgttttttctttcagagTATGAGGAGTTTGGCCAATTATATGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTGAAGCGAAGAACATCATCTCATCAATCAAGAATCAGgtaaccgccctgcctcagtttgggctaatccaacccaaggacaagtgaac Alignment from Spaln_aa2Genome AG---GAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcctttgccaccctcttgataccgagcaaatgttttttctttcagAGTATGAGGAGTTTGGCCAATTATATGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTGAAGCGAAGAACATCATCTCATCAATCAAGAATCAGgtaaccgccctgcctcagtttgggctaatccaacccaaggacactgttct Alignment from Spaln_nt2Genome AG---GAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcctttgccaccctcttgataccgagcaaatgttttttctttcagAGTATGAGGAGTTTGGCCAATTATATGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTGAAGCGAAGAACATCATCTCATCAATCAAGAATCAGgtaaccgccctgcctcagtttgggctaatccaacccaaggacactgttct Alignment from Pairagon AG---GAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcctttgccaccctcttgataccgagcaaatgttttttctttcagAGTATGAGGAGTTTGGCCAATTATATGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTGAAGCGAAGAACATCATCTCATCAATCAAGAATCAGgtaaccgccctgcctcagtttgggctaatccaacccaaggacactgttct Alignment from Exonerate_protein2genome AG---GAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcctttgccaccctcttgataccgagcaaatgttttttctttcagAGTATGAGGAGTTTGGCCAATTATATGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTGAAGCGAAGAACATCATCTCATCAATCAAGAATCAGgtaaccgccctgcctcagtttgggctaatccaacccaaggacactgttct Alignment from Exonerate_coding2genome AG---GAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcctttgccaccctcttgataccgagcaaatgttttttctttcagAGTATGAGGAGTTTGGCCAATTATATGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTGAAGCGAAGAACATCATCTCATCAATCAAGAATCAGgtaaccgccctgcctcagtttgggctaatccaacccaaggacactgttct Alignment from GeneWise --GAGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactcctttgccaccctcttgataccgagcaaatgttttttctttcagAGTATGAGGAGTTTGGCCAATTATATGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGATTGGTGTGAAGCGAAGAACATCATCTCATCAATCAAGAATCAGgtaaccgccctgcctcagtttgggctaatccaacccaaggacactgttct #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg ctagccactacctgtctcaaaacagaaccaggctcctccatgcttcacagagTACACTCATCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGAC------agtgaggtctcataggtgggtgatgggcagatgtacaagggaaatttccca Alignment from CESAR agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg ctagccactacctgtctcaaaacagaaccaggctcctccatgcttcacagagTACACTCATCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGAC------agtgaggtctcataggtgggtgatgggcagatgtacaagggaaatttccca Alignment from Spaln_aa2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGAC- ctagccactacctgtctcaaaacagaaccaggctcctccatgcttcacagAGTACACTCATCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACAgtgaggtctcataggtgggtgatgggcagatgtacaagggaaatttccca Alignment from Spaln_nt2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGAC--------CTCACAG ctagccactacctgtctcaaaacagaaccaggctcctccatgcttcacagAGTACACTCATCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACAGTGAGGTCTCATAGgtgggtgatgggcagatgtacaagggaaatttccca Alignment from Pairagon AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGAC--------CTCACAG ctagccactacctgtctcaaaacagaaccaggctcctccatgcttcacagAGTACACTCATCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACAGTGAGGTCTCATAGgtgggtgatgggcagatgtacaagggaaatttccca Alignment from Exonerate_protein2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACC ctagccactacctgtctcaaaacagaaccaggctcctccatgcttcacagAGTACACTCATCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACAgtgaggtctcataggtgggtgatgggcagatgtacaagggaaatttccca Alignment from Exonerate_coding2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACC ctagccactacctgtctcaaaacagaaccaggctcctccatgcttcacagAGTACACTCATCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACAgtgaggtctcataggtgggtgatgggcagatgtacaagggaaatttccca Alignment from GeneWise AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGAG ctagccactacctgtctcaaaacagaaccaggctcctccatgcttcacagAGTACACTCATCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAGGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGAC---AGTGAGgtctcataggtgggtgatgggcagatgtacaagggaaatttccca #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg gtgagcccaattccagctatccctgctcactggggtctctcccctgacagga---------AGTAAGGGAAATGTGTGGAAAAACATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGTCTTCAAGAGGAAGCTCGTTGTCTTGTTGAGGAACTTCGGAAAACCAATggtaggacaggtgcagactcagaacttggtgtgatcttaatcaggtttttc Alignment from CESAR gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg agagaatgtgtgagcccaattccagctcactggggtctctcccctgacagga---------AGTAAGGGAAATGTGTGGAAAAACATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGTCTTCAAGAGGAAGCTCGTTGTCTTGTTGAGGAACTTCGGAAAACCAATggtaggacaggtgcagactcagaacttggtgtgatcttaatcaggtttttc Alignment from Spaln_aa2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgagcccaattccagctatccctgctcactggggtctctcccctgacagGA---------AGTAAGGGAAATGTGTGGAAAAACATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGTCTTCAAGAGGAAGCTCGTTGTCTTGTTGAGGAACTTCGGAAAACCAATGgtaggacaggtgcagactcagaacttggtgtgatcttaatcaggtttttc Alignment from Spaln_nt2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgagcccaattccagctatccctgctcactggggtctctcccctgacagG---------AAGTAAGGGAAATGTGTGGAAAAACATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGTCTTCAAGAGGAAGCTCGTTGTCTTGTTGAGGAACTTCGGAAAACCAATGgtaggacaggtgcagactcagaacttggtgtgatcttaatcaggtttttc Alignment from Pairagon GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgagcccaattccagctatccctgctcactggggtctctcccctgacagGA---------AGTAAGGGAAATGTGTGGAAAAACATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGTCTTCAAGAGGAAGCTCGTTGTCTTGTTGAGGAACTTCGGAAAACCAATGgtaggacaggtgcagactcagaacttggtgtgatcttaatcaggtttttc Alignment from Exonerate_protein2genome ATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgagcccaattccagctatccctgctcactggggtctctcccctgACAGGAAGTAAGGGAAATGTGTGGAAAAACATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGTCTTCAAGAGGAAGCTCGTTGTCTTGTTGAGGAACTTCGGAAAACCAATGgtaggacaggtgcagactcagaacttggtgtgatcttaatcaggtttttc Alignment from Exonerate_coding2genome ATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgagcccaattccagctatccctgctcactggggtctctcccctgACAGGAAGTAAGGGAAATGTGTGGAAAAACATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGTCTTCAAGAGGAAGCTCGTTGTCTTGTTGAGGAACTTCGGAAAACCAATGgtaggacaggtgcagactcagaacttggtgtgatcttaatcaggtttttc Alignment from GeneWise GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gtgagcccaattccagctatccctgctcactggggtctctcccctgacagGA---------AGTAAGGGAAATGTGTGGAAAAACATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGTCTTCAAGAGGAAGCTCGTTGTCTTGTTGAGGAACTTCGGAAAACCAATGgtaggacaggtgcagactcagaacttggtgtgatcttaatcaggtttttc #### D19Bwg1357e_ID5846_6 --> 2 - 2 Original Alignment gcGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATgg actgcagtgaggagcacagtatgcttcgtctttaacttttctgtttttaggt---TTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATCATGTATgggtaatcgcaagagcaatagtgtattgaggtgttccttaaaatgataagtg Alignment from CESAR gcGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATgg agcactgcagtgaggagcacagtattcgtctttaacttttctgtttttaggt---TTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATCATGTATgggtaatcgcaagagcaatagtgtattgaggtgttccttaaaatgataagtg Alignment from Spaln_aa2Genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG actgcagtgaggagcacagtatgcttcgtctttaacttttctgtttttagGT---TTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATCATGTATGGgtaatcgcaagagcaatagtgtattgaggtgttccttaaaatgataagtg Alignment from Spaln_nt2Genome ACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG actgcagtgaggagcacagtatgcttcgtctttaacttttctgtttttagGTTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATCATGTATGGgtaatcgcaagagcaatagtgtattgaggtgttccttaaaatgataagtg Alignment from Pairagon GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG actgcagtgaggagcacagtatgcttcgtctttaacttttctgtttttaggtttag---------TTGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATCATGTATGGgtaatcgcaagagcaatagtgtattgaggtgttccttaaaatgataagtg Alignment from Exonerate_protein2genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG actgcagtgaggagcacagtatgcttcgtctttaacttttctgtttttagGT---TTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATCATGTATGGgtaatcgcaagagcaatagtgtattgaggtgttccttaaaatgataagtg Alignment from Exonerate_coding2genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG actgcagtgaggagcacagtatgcttcgtctttaacttttctgtttttagGT---TTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATCATGTATGGgtaatcgcaagagcaatagtgtattgaggtgttccttaaaatgataagtg Alignment from GeneWise --TTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG actgcagtgaggagcacagtatgcttcgtctttaacttttctgtttttagGTTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATCATGTATGGgtaatcgcaagagcaatagtgtattgaggtgttccttaaaatgataagtg #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAA------g tatctcaaattatgcctacatgtacacatgttttccttttacatttgtagAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAAAATTTAACGCTAAGATTCAGGCAGAAAAAAAGAAAGCGCTCCAAAAAGAAAACGggtgagcactcttaaatccttaaatctagcttaggatgttggataggctta Alignment from CESAR AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAA------g tatctcaaattatgcctacatgtacacatgttttccttttacatttgtagAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAAAATTTAACGCTAAGATTCAGGCAGAAAAAAAGAAAGCGCTCCAAAAAGAAAACGggtgagcactcttaaatccttaaatctagcttaggatgttggataggctta Alignment from Spaln_aa2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAA------G tatctcaaattatgcctacatgtacacatgttttccttttacatttgtagAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAAAATTTAACGCTAAGATTCAGGCAGAAAAAAAGAAAGCGCTCCAAAAAGAAAACGGgtgagcactcttaaatccttaaatctagcttaggatgttggataggctta Alignment from Spaln_nt2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAA------G tatctcaaattatgcctacatgtacacatgttttccttttacatttgtagAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAAAATTTAACGCTAAGATTCAGGCAGAAAAAAAGAAAGCGCTCCAAAAAGAAAACGGgtgagcactcttaaatccttaaatctagcttaggatgttggataggctta Alignment from Pairagon AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAA------------------------------------------------------------ tatctcaaattatgcctacatgtacacatgttttccttttacatttgtagAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAAAATTTAACGCTAAGATTCAGGCAGAAAAAAAGAAAGCGCTCCAAAAAGAAAACGGGTGAGCACTCTTAAATCCTTAAATCTAGCTTAGGATGTTGGATAGGCTTA Alignment from Exonerate_protein2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAA tatctcaaattatgcctacatgtacacatgttttccttttacatttgtagAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAAAATTTAACGCTAAGATTCAGGCAGAAAAAAAGAAAGCGCTCCAAAAAgaaaacgggtgagcactcttaaatccttaaatctagcttaggatgttggataggctta Alignment from Exonerate_coding2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAA tatctcaaattatgcctacatgtacacatgttttccttttacatttgtagAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAAAATTTAACGCTAAGATTCAGGCAGAAAAAAAGAAAGCGCTCCAAAAAgaaaacgggtgagcactcttaaatccttaaatctagcttaggatgttggataggctta Alignment from GeneWise AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAA- tatctcaaattatgcctacatgtacacatgttttccttttacatttgtagAAATTTCAAGAATTACATAAAAAAAATTCTGAACAGAAAAATTTAACGCTAAGATTCAGGCAGAAAAAAAGAAAGCGCTCCAAAAAGAAAACGGgtgagcactcttaaatccttaaatctagcttaggatgttggataggctta #### Dagla_ID2758_12 --> 0 - 0 Original Alignment ---------GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG acctcgctcttctcctgctagggctactatacctttttcctttaacacagCGCTGCCTGGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtaagttgccaactatattccatcctgaagaggttggctgactgaatgca Alignment from CESAR ---------GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG acctcgctcttctcctgctagggctactatacctttttcctttaacacagCGCTGCCTGGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtaagttgccaactatattccatcctgaagaggttggctgactgaatgca Alignment from Spaln_aa2Genome ---------GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG acctcgctcttctcctgctagggctactatacctttttcctttaacacagCGCTGCCTGGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtaagttgccaactatattccatcctgaagaggttggctgactgaatgca Alignment from Spaln_nt2Genome GGGCATGGTACTCTCAG--------CTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG acctcgctcttctcctgctagggctactatacctttttcctttaacacagCGCTGCCTGGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtaagttgccaactatattccatcctgaagaggttggctgactgaatgca Alignment from Pairagon ----------------------------------------------------------GGGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ACCTCGCTCTTCTCCTGCTAGGGCTACTATACCTTTTTCCTTTAACACAGCGCTGCCTGGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtaagttgccaactatattccatcctgaagaggttggctgactgaatgca Alignment from Exonerate_protein2genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG acctcgctcttctcctgctagggctactatacctttttcctttaacacagcgctgcctgGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtaagttgccaactatattccatcctgaagaggttggctgactgaatgca Alignment from Exonerate_coding2genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG acctcgctcttctcctgctagggctactatacctttttcctttaacacagcgctgcctgGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtaagttgccaactatattccatcctgaagaggttggctgactgaatgca Alignment from GeneWise -----------------------------------------------------------GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG ACCTCGCTCTTCTCCTGCTAGGGCTACTATACCTTTTTCCTTTAACACAGCGCTGCCTGGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGgtaagttgccaactatattccatcctgaagaggttggctgactgaatgca #### Dagla_ID2759_11 --> 0 - 0 Original Alignment GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG tggtgtacttcttttggacccccacttatgtttgccttcatgttctccagGACGCCCTAACCGACCTGACAGGTGATGCTGAGCGCCTTCCTGCAGAGGCACACAGAGGCACCTGGTTGGGC------gtaggaatggagagttcactgaggttcccccacctcgctcttctcctgct Alignment from CESAR GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG tggtgtacttcttttggacccccacttatgtttgccttcatgttctccagGACGCCCTAACCGACCTGACAGGTGATGCTGAGCGCCTTCCTGCAGAGGCACACAGAGGCACCTGGTTGGGC------gtaggaatggagagttcactgaggttcccccacctcgctcttct Alignment from Spaln_aa2Genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGC tggtgtacttcttttggacccccacttatgtttgccttcatgttctccagGACGCCCTAACCGACCTGACAGGTGATGCTGAGCGCCTTCCTGCAGAGGCACACAGAGGCACCTGGTTGGGCgtaggaatggagagttcactgaggttcccccacctcgctcttctcctgct Alignment from Spaln_nt2Genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGC tggtgtacttcttttggacccccacttatgtttgccttcatgttctccagGACGCCCTAACCGACCTGACAGGTGATGCTGAGCGCCTTCCTGCAGAGGCACACAGAGGCACCTGGTTGGGCgtaggaatggagagttcactgaggttcccccacctcgctcttctcctgct Alignment from Pairagon GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGC-------------------------------------------------- tggtgtacttcttttggacccccacttatgtttgccttcatgttctccagGACGCCCTAACCGACCTGACAGGTGATGCTGAGCGCCTTCCTGCAGAGGCACACAGAGGCACCTGGTTGGGCGTAGGAATGGAGAGTTCACTGAGGTTCCCCCACCTCGCTCTTCTCCTGCT Alignment from Exonerate_protein2genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGC tggtgtacttcttttggacccccacttatgtttgccttcatgttctccagGACGCCCTAACCGACCTGACAGGTGATGCTGAGCGCCTTCCTGCAGAGGCACACAGAGGCACCTGGTTGGGCgtaggaatggagagttcactgaggttcccccacctcgctcttctcctgct Alignment from Exonerate_coding2genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGC tggtgtacttcttttggacccccacttatgtttgccttcatgttctccagGACGCCCTAACCGACCTGACAGGTGATGCTGAGCGCCTTCCTGCAGAGGCACACAGAGGCACCTGGTTGGGCgtaggaatggagagttcactgaggttcccccacctcgctcttctcctgct Alignment from GeneWise GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGC-------------------------------------------------- tggtgtacttcttttggacccccacttatgtttgccttcatgttctccagGACGCCCTAACCGACCTGACAGGTGATGCTGAGCGCCTTCCTGCAGAGGCACACAGAGGCACCTGGTTGGGCGTAGGAATGGAGAGTTCACTGAGGTTCCCCCACCTCGCTCTTCTCCTGCT #### Dak_ID2898_15 --> 1 - 0 Original Alignment g---------TATGGAAAGGCTGCACCAGGAGACAGGACAATG cttggcacctgtgtaaacatctaaagaaaatttttctctgtgttacttaggTTTGATGGCTATGGAAAGGCTGCACCAGGAGACAGGACAATGgtaatatccccttccccgtttgggccttcctaagtgccggggtctgtagt Alignment from CESAR g---------TATGGAAAGGCTGCACCAGGAGACAGGACAATG cttggcacctgtgtaaacatctaaagaaaatttttctctgtgttacttaggTTTGATGGCTATGGAAAGGCTGCACCAGGAGACAGGACAATGgtaatatccccttccccgtttgggccttcctaagtgccggggtctgtgag Alignment from Spaln_aa2Genome GTATGGAAAG---------GCTGCACCAGGAGACAGGACAATG cttggcacctgtgtaaacatctaaagaaaatttttctctgtgttacttagGTTTGATGGCTATGGAAAGGCTGCACCAGGAGACAGGACAATGgtaatatccccttccccgtttgggccttcctaagtgccggggtctgtagt Alignment from Spaln_nt2Genome GTATGGAAAGG---------CTGCACCAGGAGACAGGACAATG cttggcacctgtgtaaacatctaaagaaaatttttctctgtgttacttagGTTTGATGGCTATGGAAAGGCTGCACCAGGAGACAGGACAATGgtaatatccccttccccgtttgggccttcctaagtgccggggtctgtagt Alignment from Pairagon ------------------------------------------------------------TATGGAAAGGCTGCACCAGGAGACAGGACAATG CTTGGCACCTGTGTAAACATCTAAAGAAAATTTTTCTCTGTGTTACTTAGGTTTGATGGCTATGGAAAGGCTGCACCAGGAGACAGGACAATGgtaatatccccttccccgtttgggccttcctaagtgccggggtctgtagt Alignment from Exonerate_protein2genome GTATGGAAAGGCTGCACCAGGAGACAGGACAATG cttggcacctgtgtaaacatctaaagaaaatttttctctgtgttacttaggtttgatggCTATGGAAAGGCTGCACCAGGAGACAGGACAATGgtaatatccccttccccgtttgggccttcctaagtgccggggtctgtagt Alignment from Exonerate_coding2genome GTATGGAAAGGCTGCACCAGGAGACAGGACAATG cttggcacctgtgtaaacatctaaagaaaatttttctctgtgttacttaggtttgatggCTATGGAAAGGCTGCACCAGGAGACAGGACAATGgtaatatccccttccccgtttgggccttcctaagtgccggggtctgtagt Alignment from GeneWise -------AAGTATGGAAAGGCTGCACCAGGAGACAGGACAATG cttggcacctgtgtaaacatctaaagaaaatttttctctgtgttacttagGTTTGATGGCTATGGAAAGGCTGCACCAGGAGACAGGACAATGgtaatatccccttccccgtttgggccttcctaagtgccggggtctgtagt #### Dak_ID2902_11 --> 2 - 1 Original Alignment atGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg gtatgtctaggcctctattgtgtgtgaatctctgttggccctggattcagatGCTGAAACTACTGCAAAACCTTGGCAT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCCCCAGAGTCCCCTGAAGCCACT---------ggtaaagagtagataaggacctactaaggtctgtggcagttgaaactctac Alignment from CESAR atGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg gtatgtctaggcctctattgtgtgtgaatctctgttggccctggattcagatGCTGAAACTACTGCAAAACCTTGG---CATATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCCCCAGAGTCCCCTGAAGCCACT---------ggtaaagagtagataaggacctactaaggtctgtggcagttgaaactctac Alignment from Spaln_aa2Genome ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACT- gtatgtctaggcctctattgtgtgtgaatctctgttggccctggattcagATGCTGAAACTACTGCAAAACCTTGG---CATATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCCCCAGAGTCCCCTGAAGCCACTGgtaaagagtagataaggacctactaaggtctgtggcagttgaaactctac Alignment from Spaln_nt2Genome ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGG gtatgtctaggcctctattgtgtgtgaatctctgttggccctggattcagATGCTGAAACTACTGCAAAACCTTGG---CATATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCCCCAGAGTCCCCTGAAGCCACTGGTAAAGAgtagataaggacctactaaggtctgtggcagttgaaactctac Alignment from Pairagon ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTG gtatgtctaggcctctattgtgtgtgaatctctgttggccctggattcagATGCTGAAACTACTGCAAAACCTTGG---CATATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCCCCAGAGTCCCCTGAAGCCACTGgtaaagagtagataaggacctactaaggtctgtggcagttgaaactctac Alignment from Exonerate_protein2genome ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTG gtatgtctaggcctctattgtgtgtgaatctctgttggccctggattcagATGCTGAAACTACTGCAAAACCTTGG---CATATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCCCCAGAGTCCCCTGAAGCCACTGgtaaagagtagataaggacctactaaggtctgtggcagttgaaactctac Alignment from Exonerate_coding2genome ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTG gtatgtctaggcctctattgtgtgtgaatctctgttggccctggattcagATGCTGAAACTACTGCAAAACCTTGG---CATATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCCCCAGAGTCCCCTGAAGCCACTGgtaaagagtagataaggacctactaaggtctgtggcagttgaaactctac Alignment from GeneWise ATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACT- gtatgtctaggcctctattgtgtgtgaatctctgttggccctggattcagATGCTGAAACTACTGCAAAACCTTGG---CATATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCCCCAGAGTCCCCTGAAGCCACTGgtaaagagtagataaggacctactaaggtctgtggcagttgaaactctac #### Ddb1_ID2929_14 --> 1 - 1 Original Alignment cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg gtgtagcattcattcctgctattaatgttcaaactatcttccatccacagcCACACAGAGATGGAACATGAAGTGGCATGTTTGGATACCACCCCATTAGGGGATAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAGGCTCCCATCCTTTGAACTATTACATAAGGAGATGCTGGGT---ggtacttcttctattagtacttccaggtcaaagccctagtaaatcttgatt Alignment from CESAR cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg gtgtagcattcattcctgctattaatgttcaaactatcttccatccacagcCACACAGAGATGGAACATGAAGTGGCATGTTTGGATACCACCCCATTAGGGGATAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAGGCTCCCATCCTTTGAACTATTACATAAGGAGATGCTGGGT---ggtacttcttctattagtacttccaggtcaaagccctaaggtgtctgtctt Alignment from Spaln_aa2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG gtgtagcattcattcctgctattaatgttcaaactatcttccatccacagCCACACAGAGATGGAACATGAAGTGGCATGTTTGGATACCACCCCATTAGGGGATAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAGGCTCCCATCCTTTGAACTATTACATAAGGAGATGCTGGGT---Ggtacttcttctattagtacttccaggtcaaagccctagtaaatcttgatt Alignment from Spaln_nt2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG------------ gtgtagcattcattcctgctattaatgttcaaactatcttccatccacagCCACACAGAGATGGAACATGAAGTGGCATGTTTGGATACCACCCCATTAGGGGATAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAGGCTCCCATCCTTTGAACTATTACATAAGGAGATGCTGGGTGGTACTTCTTCTATTAgtacttccaggtcaaagccctagtaaatcttgatt Alignment from Pairagon CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGG------------------------------------------------- gtgtagcattcattcctgctattaatgttcaaactatcttccatccacagCCACACAGAGATGGAACATGAAGTGGCATGTTTGGATACCACCCCATTAGGGGATAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAGGCTCCCATCCTTTGAACTATTACATAAGGAGATGCTGGGTGGTACTTCTTCTATTAGTACTTCCAGGTCAAAGCCCTAGTAAATCTTGATT Alignment from Exonerate_protein2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG gtgtagcattcattcctgctattaatgttcaaactatcttccatccacagCCACACAGAGATGGAACATGAAGTGGCATGTTTGGATACCACCCCATTAGGGGATAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAGGCTCCCATCCTTTGAACTATTACATAAGGAGATGCTGGGTGGTActtcttctattagtacttccaggtcaaagccctagtaaatcttgatt Alignment from Exonerate_coding2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG gtgtagcattcattcctgctattaatgttcaaactatcttccatccacagCCACACAGAGATGGAACATGAAGTGGCATGTTTGGATACCACCCCATTAGGGGATAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAGGCTCCCATCCTTTGAACTATTACATAAGGAGATGCTGGGTGGTActtcttctattagtacttccaggtcaaagccctagtaaatcttgatt Alignment from GeneWise CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGA------------G gtgtagcattcattcctgctattaatgttcaaactatcttccatccacagCCACACAGAGATGGAACATGAAGTGGCATGTTTGGATACCACCCCATTAGGGGATAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAGGCTCCCATCCTTTGAACTATTACATAAGGAGATGCTGGGTGGTACTTCTTCTATTAgtacttccaggtcaaagccctagtaaatcttgatt #### Ddb1_ID2936_21 --> 2 - 0 Original Alignment gaAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG agggcacccagggaaaggtctactaaggtgatgctctacctctcatgcaggaAAACTACAGACTGTCGCTGATAAGGAAGTAAAAGGGGCTGTGTACTCCATGGTGGAGTTTAATGGG---------------------------gtgagttatgggggtttacatgtttgtaactctagtcgtttcgaagctct Alignment from CESAR gaAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGGAAGCTGCTTGCCAGCATCAATAGCACG agggcacccagggaaaggtctactaaggtgatgctctacctctcatgcaggaAAACTACAGACTGTCGCTGATAAGGAAGTAAAAGGGGCTGTGTACTCCATGGTGGAGTTTAATGGG---------------------------gtgagttatgggggtttacatgt Alignment from Spaln_aa2Genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGG agggcacccagggaaaggtctactaaggtgatgctctacctctcatgcagGAAAACTACAGACTGTCGCTGATAAGGAAGTAAAAGGGGCTGTGTACTCCATGGTGGAGTTTAATGGGgtgagttatgggggtttacatgtttgtaactctagtcgtttcgaagctct Alignment from Spaln_nt2Genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGG agggcacccagggaaaggtctactaaggtgatgctctacctctcatgcagGAAAACTACAGACTGTCGCTGATAAGGAAGTAAAAGGGGCTGTGTACTCCATGGTGGAGTTTAATGGGgtgagttatgggggtttacatgtttgtaactctagtcgtttcgaagctct Alignment from Pairagon GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGG agggcacccagggaaaggtctactaaggtgatgctctacctctcatgcagGAAAACTACAGACTGTCGCTGATAAGGAAGTAAAAGGGGCTGTGTACTCCATGGTGGAGTTTAATGGGgtgagttatgggggtttacatgtttgtaactctagtcgtttcgaagctct Alignment from Exonerate_protein2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGG agggcacccagggaaaggtctactaaggtgatgctctacctctcatgcagGAAAACTACAGACTGTCGCTGATAAGGAAGTAAAAGGGGCTGTGTACTCCATGGTGGAGTTTAATGGGgtgagttatgggggtttacatgtttgtaactctagtcgtttcgaagctct Alignment from Exonerate_coding2genome GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGG agggcacccagggaaaggtctactaaggtgatgctctacctctcatgcagGAAAACTACAGACTGTCGCTGATAAGGAAGTAAAAGGGGCTGTGTACTCCATGGTGGAGTTTAATGGGgtgagttatgggggtttacatgtttgtaactctagtcgtttcgaagctct Alignment from GeneWise GAAAACTACAGACTGTGGCTGAAAAGGAAGTAAAAGGAGCTGTGTACTCTATGGTGGAGTTTAATGGG agggcacccagggaaaggtctactaaggtgatgctctacctctcatgcagGAAAACTACAGACTGTCGCTGATAAGGAAGTAAAAGGGGCTGTGTACTCCATGGTGGAGTTTAATGGGgtgagttatgggggtttacatgtttgtaactctagtcgtttcgaagctct #### Ddb1_ID2939_24 --> 1 - 1 Original Alignment t------------------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg acagcctcttagggagaagtgttctggatgcatttttctccttttcttagtGACACCGAACAGTGGGACGCTGCAACCACTGTCGAGGAGCGGCAGCATTTACAGGAGATAGGTCTCTTTCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCTCTAGTTATGCAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCAGTGCTTTTTGGCACAGTCAATATCATGATAggtaagtgttgttcttggtgagcacacctggctcgagctcttatgccaggc Alignment from CESAR t------------------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg acagcctcttagggagaagtgttctggatgcatttttctccttttcttagtGACACCGAACAGTGGGACGCTGCAACCACTGTCGAGGAGCGGCAGCATTTACAGGAGATAGGTCTCTTTCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCTCTAGTTATGCAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCAGTGCTTTTTGGCACAGTCAATATCATGATAggtaagtgttgttcttggtgagcacacctggctcgagctcttatgccaggc Alignment from Spaln_aa2Genome T-------------------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG acagcctcttagggagaagtgttctggatgcatttttctccttttcttagTGACACCGAACAGTGGGACGCTGCAACCACTGTCGAGGAGCGGCAGCATTTACAGGAGATAGGTCTCTTTCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCTCTAGTTATGCAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCAGTGCTTTTTGGCACAGTCAATATCATGATAGgtaagtgttgttcttggtgagcacacctggctcgagctcttatgccaggc Alignment from Spaln_nt2Genome TGCTGCCACCAC-----TGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG acagcctcttagggagaagtgttctggatgcatttttctccttttcttagtgacaccgaacagTGGGACGCTGCAACCACTGTCGAGGAGCGGCAGCATTTACAGGAGATAGGTCTCTTTCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCTCTAGTTATGCAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCAGTGCTTTTTGGCACAGTCAATATCATGATAGgtaagtgttgttcttggtgagcacacctggctcgagctcttatgccaggc Alignment from Pairagon T------------------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG acagcctcttagggagaagtgttctggatgcatttttctccttttcttagTGACACCGAACAGTGGGACGCTGCAACCACTGTCGAGGAGCGGCAGCATTTACAGGAGATAGGTCTCTTTCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCTCTAGTTATGCAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCAGTGCTTTTTGGCACAGTCAATATCATGATAGgtaagtgttgttcttggtgagcacacctggctcgagctcttatgccaggc Alignment from Exonerate_protein2genome GACAGTGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG acagcctcttagggagaagtgttctggatgcatttttctccttttcttagtgacaccgaacagTGGGACGCTGCAACCACTGTCGAGGAGCGGCAGCATTTACAGGAGATAGGTCTCTTTCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCTCTAGTTATGCAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCAGTGCTTTTTGGCACAGTCAATATCATGATAGgtaagtgttgttcttggtgagcacacctggctcgagctcttatgccaggc Alignment from Exonerate_coding2genome GACAGTGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG acagcctcttagggagaagtgttctggatgcatttttctccttttcttagtgacaccgaacagTGGGACGCTGCAACCACTGTCGAGGAGCGGCAGCATTTACAGGAGATAGGTCTCTTTCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCTCTAGTTATGCAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCAGTGCTTTTTGGCACAGTCAATATCATGATAGgtaagtgttgttcttggtgagcacacctggctcgagctcttatgccaggc Alignment from GeneWise ----------------AGTGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG acagcctcttagggagaagtgttctggatgcatttttctccttttcttagTGACACCGAACAGTGGGACGCTGCAACCACTGTCGAGGAGCGGCAGCATTTACAGGAGATAGGTCTCTTTCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCTCTAGTTATGCAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCAGTGCTTTTTGGCACAGTCAATATCATGATAGgtaagtgttgttcttggtgagcacacctggctcgagctcttatgccaggc #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG--------- cctgagtcttgcatcacagctgattccaattatgtttattgtttgtaaaggTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCTGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCACCACTTTGCgtaaggacttaaccagaactggtggtatgctaccttccagtctggtttct Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG--------- cctgagtcttgcatcacagctgattccaattatgtttattgtttgtaaaggTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCTGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCACCACTTTGCgtaaggacttaaccagaactggtggtatgctaccttccagtctggtttct Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG--------- cctgagtcttgcatcacagctgattccaattatgtttattgtttgtaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCTGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCACCACTTTGCgtaaggacttaaccagaactggtggtatgctaccttccagtctggtttct Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG--------- cctgagtcttgcatcacagctgattccaattatgtttattgtttgtaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCTGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCACCACTTTGCgtaaggacttaaccagaactggtggtatgctaccttccagtctggtttct Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG--------- cctgagtcttgcatcacagctgattccaattatgtttattgtttgtaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCTGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCACCACTTTGCgtaaggacttaaccagaactggtggtatgctaccttccagtctggtttct Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG cctgagtcttgcatcacagctgattccaattatgtttattgtttgtaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCTGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAccactttgcgtaaggacttaaccagaactggtggtatgctaccttccagtctggtttct Alignment from Exonerate_coding2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG cctgagtcttgcatcacagctgattccaattatgtttattgtttgtaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCTGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCAccactttgcgtaaggacttaaccagaactggtggtatgctaccttccagtctggtttct Alignment from GeneWise GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG--------- cctgagtcttgcatcacagctgattccaattatgtttattgtttgtaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCTGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACTCACCACTTTGCgtaaggacttaaccagaactggtggtatgctaccttccagtctggtttct #### Dpf2_ID1304_9 --> 2 - 0 Original Alignment ggCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctgcaccctggtttccaactctgcttcttaaagtgtttttcttcctgaaggg---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATgtaagtgtcattgagccagctaggcccgatgagcctgccgggcttcaata Alignment from CESAR ggCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ttgcctactctgcaccctggtttcctcttaaagtgtttttcttcctgaaggg---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATgtaagtgtcattgagccagctaggcccgatgagcctgccgggcttcaata Alignment from Spaln_aa2Genome CCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctgcaccctggtttccaactctgcttcttaaagtgtttttcttcctgaagGGTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATgtaagtgtcattgagccagctaggcccgatgagcctgccgggcttcaata Alignment from Spaln_nt2Genome GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctgcaccctggtttccaactctgcttcttaaagtgtttttcttcctgaagGG---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATgtaagtgtcattgagccagctaggcccgatgagcctgccgggcttcaata Alignment from Pairagon GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctgcaccctggtttccaactctgcttcttaaagtgtttttcttcctgaagGG---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATgtaagtgtcattgagccagctaggcccgatgagcctgccgggcttcaata Alignment from Exonerate_protein2genome CCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctgcaccctggtttccaactctgcttcttaaagtgtttttcttcctgaagGGTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATgtaagtgtcattgagccagctaggcccgatgagcctgccgggcttcaata Alignment from Exonerate_coding2genome CCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctgcaccctggtttccaactctgcttcttaaagtgtttttcttcctgaagGGTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATgtaagtgtcattgagccagctaggcccgatgagcctgccgggcttcaata Alignment from GeneWise CCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctgcaccctggtttccaactctgcttcttaaagtgtttttcttcctgaagGGTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATgtaagtgtcattgagccagctaggcccgatgagcctgccgggcttcaata #### Dpf2_ID1309_5 --> 0 - 0 Original Alignment CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG--- AGTAAGGGTGTGAG gattcggctgtgtttgagctatacttgtagccattttgttcaccttacagCGAGTCATTGAACCCGATGACTTCTTTGATGACCTGGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGAAAGGGCAAGTCCAAGCCTgtaagggccttatcagaaccgcttctctgtccacagAGTAAGGGTGTTAG Alignment from CESAR CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG--- AGTAAGGGTGTGAG gattcggctgtgtttgagctatacttgtagccattttgttcaccttacagCGAGTCATTGAACCCGATGACTTCTTTGATGACCTGGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGAAAGGGCAAGTCCAAGCCTgtaagggccttatcagtgatccttttctgcttccagAGTAAGGGTGTTAG Alignment from Spaln_aa2Genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG--- AGTAAGGGTGTGAG gattcggctgtgtttgagctatacttgtagccattttgttcaccttacagCGAGTCATTGAACCCGATGACTTCTTTGATGACCTGGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGAAAGGGCAAGTCCAAGCCTgtaagggccttatcagaaccgcttctctgtccacagAGTAAGGGTGTTAG Alignment from Spaln_nt2Genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG--- AGTAAGGGTGTGAG gattcggctgtgtttgagctatacttgtagccattttgttcaccttacagCGAGTCATTGAACCCGATGACTTCTTTGATGACCTGGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGAAAGGGCAAGTCCAAGCCTgtaagggccttatcagaaccgcttctctgtccacagAGTAAGGGTGTTAG Alignment from Pairagon CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCA---------------------------------------AGAGTAAGGGTGTGAG gattcggctgtgtttgagctatacttgtagccattttgttcaccttacagCGAGTCATTGAACCCGATGACTTCTTTGATGACCTGGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGAAAGGGCAAGTCCAAGCCTGTAAGGGCCTTATCAGAACCGCTTCTCTGTCCACAGAGTAAGGGTGTTAG Alignment from Exonerate_protein2genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG--- AGTAAGGGTGTGAG gattcggctgtgtttgagctatacttgtagccattttgttcaccttacagCGAGTCATTGAACCCGATGACTTCTTTGATGACCTGGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGAAAGGGCAAGTCCAAGCCTgtaagggccttatcagaaccgcttctctgtccacagAGTAAGGGTGTTAG Alignment from Exonerate_coding2genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG--- AGTAAGGGTGTGAG gattcggctgtgtttgagctatacttgtagccattttgttcaccttacagCGAGTCATTGAACCCGATGACTTCTTTGATGACCTGGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGAAAGGGCAAGTCCAAGCCTgtaagggccttatcagaaccgcttctctgtccacagAGTAAGGGTGTTAG Alignment from GeneWise CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG---------------------------------------AGTAAGGGTGTGAG gattcggctgtgtttgagctatacttgtagccattttgttcaccttacagCGAGTCATTGAACCCGATGACTTCTTTGATGACCTGGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGAAAGGGCAAGTCCAAGCCTGTAAGGGCCTTATCAGAACCGCTTCTCTGTCCACAGAGTAAGGGTGTTAG #### Drap1_ID988_2 --> 0 - 1 Original Alignment ---------------------GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCt tccaaatgttggggatgcaggaatgaagcaccttctaattgctgtttcagGTGGACCTGGTGGCCCCAGGTACGCGGATCACAAAGATCATGCAGACAGATGAAGAGATTGGAAAGGTGGCAGCAGCTGTGCCTGTCATCATCtgtaaataaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from CESAR ---------------------GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCt tccaaatgttggggatgcaggaatgaagcaccttctaattgctgtttcagGTGGACCTGGTGGCCCCAGGTACGCGGATCACAAAGATCATGCAGACAGATGAAGAGATTGGAAAGGTGGCAGCAGCTGTGCCTGTCATCATCtgtaaataaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Spaln_aa2Genome GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT tccaaatgttggggatgcaggaatgaagcaccttctaattgctgtttcaggtggacctggtggccccagGTACGCGGATCACAAAGATCATGCAGACAGATGAAGAGATTGGAAAGGTGGCAGCAGCTGTGCCTGTCATCATCTgtaaataaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Spaln_nt2Genome G--CGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT tccaaatgttggggatgcaggaatgaagcaccttctaattgctgtttcaggtggacctggtggccccagGTACGCGGATCACAAAGATCATGCAGACAGATGAAGAGATTGGAAAGGTGGCAGCAGCTGTGCCTGTCATCATCTgtaaataaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Pairagon G--CGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT tccaaatgttggggatgcaggaatgaagcaccttctaattgctgtttcaggtggacctggtggccccagGTACGCGGATCACAAAGATCATGCAGACAGATGAAGAGATTGGAAAGGTGGCAGCAGCTGTGCCTGTCATCATCTgtaaataaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Exonerate_protein2genome GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT tccaaatgttggggatgcaggaatgaagcaccttctaattgctgtttcaggtggacctggtggccccaggtACGCGGATCACAAAGATCATGCAGACAGATGAAGAGATTGGAAAGGTGGCAGCAGCTGTGCCTGTCATCATCTgtaaataaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Exonerate_coding2genome GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT tccaaatgttggggatgcaggaatgaagcaccttctaattgctgtttcaggtggacctggtggccccaggtACGCGGATCACAAAGATCATGCAGACAGATGAAGAGATTGGAAAGGTGGCAGCAGCTGTGCCTGTCATCATCTgtaaataaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from GeneWise -----CGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATCT tccaaatgttggggatgcaggaatgaagcaccttctaattgctgtttcaggtggacctggtggccccagGTACGCGGATCACAAAGATCATGCAGACAGATGAAGAGATTGGAAAGGTGGCAGCAGCTGTGCCTGTCATCATCTgtaaataaccagggcccagttagtctgaggtgtgggactaaggcactcca #### Eef1g_ID2562_4 --> 2 - 0 Original Alignment taAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcttaatgttgtgatgtactaaatggtaacccacctcttccttacagtaAGCAATGAGGAGCTGCGAGGAAGTGCACCAGAGGCGGCAGCTCAGGTGGCACAGTGGGTTAGCTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAAC------gtttgttttccttttgtcggtgatgggccaccaatagagtgagagttgga Alignment from CESAR taAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG caagcttaatgttgtgatgtactaaatggtaacccacctcttccttacagtaAGCAATGAGGAGCTGCGAGGAAGTGCACCAGAGGCGGCAGCTCAGGTGGCACAGTGGGTTAGCTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAAC------gtttgttttccttttgtcggtgatgggccaccaatagagtgaga Alignment from Spaln_aa2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAAC caagcttaatgttgtgatgtactaaatggtaacccacctcttccttacagTAAGCAATGAGGAGCTGCGAGGAAGTGCACCAGAGGCGGCAGCTCAGGTGGCACAGTGGGTTAGCTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACgtttgttttccttttgtcggtgatgggccaccaatagagtgagagttgga Alignment from Spaln_nt2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAAC caagcttaatgttgtgatgtactaaatggtaacccacctcttccttacagTAAGCAATGAGGAGCTGCGAGGAAGTGCACCAGAGGCGGCAGCTCAGGTGGCACAGTGGGTTAGCTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACgtttgttttccttttgtcggtgatgggccaccaatagagtgagagttgga Alignment from Pairagon TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAAC caagcttaatgttgtgatgtactaaatggtaacccacctcttccttacagTAAGCAATGAGGAGCTGCGAGGAAGTGCACCAGAGGCGGCAGCTCAGGTGGCACAGTGGGTTAGCTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACgtttgttttccttttgtcggtgatgggccaccaatagagtgagagttgga Alignment from Exonerate_protein2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAAC caagcttaatgttgtgatgtactaaatggtaacccacctcttccttacagTAAGCAATGAGGAGCTGCGAGGAAGTGCACCAGAGGCGGCAGCTCAGGTGGCACAGTGGGTTAGCTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACgtttgttttccttttgtcggtgatgggccaccaatagagtgagagttgga Alignment from Exonerate_coding2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAAC caagcttaatgttgtgatgtactaaatggtaacccacctcttccttacagTAAGCAATGAGGAGCTGCGAGGAAGTGCACCAGAGGCGGCAGCTCAGGTGGCACAGTGGGTTAGCTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACgtttgttttccttttgtcggtgatgggccaccaatagagtgagagttgga Alignment from GeneWise TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAAC caagcttaatgttgtgatgtactaaatggtaacccacctcttccttacagTAAGCAATGAGGAGCTGCGAGGAAGTGCACCAGAGGCGGCAGCTCAGGTGGCACAGTGGGTTAGCTTTACAGACAGTGACATCGTTCCACCAGCAAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACgtttgttttccttttgtcggtgatgggccaccaatagagtgagagttgga #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment ac------------------------------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg aggggtggtatggcctgtcttccatttatgctttcttgttttccctccagacGACCTGGCTGTTGAGTTTGCACACGTCGGAATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAATCTGCCAGGCTCATTTCGATGCCAGTGCGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCTTGTGTGggtgatgtgctgtgtcctacaaggttctgaggtcctcccgggtgaaccagt Alignment from CESAR ac------------------------------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg aggggtggtatggcctgtcttccatttatgctttcttgttttccctccagacGACCTGGCTGTTGAGTTTGCACACGTCGGAATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAATCTGCCAGGCTCATTTCGATGCCAGTGCGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCTTGTGTGggtgatgtgctgtgtcctacaaggttctgaggtcctcccgggtgaaccagt Alignment from Spaln_aa2Genome CGGGCCAGCTCTGTACTGAGACTCACGGTCTTTGTGGGAGCCTATACCTTC aaaatgtaccttagtctcgcttcaaagctcttcttccactcatctttgcag Alignment from Spaln_nt2Genome ATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtatggcctgtcttccatttatgctttcttgttttccctccagacgacctggctgttgagtttgcacacgtcggaatagATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAATCTGCCAGGCTCATTTCGATGCCAGTGCGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCTTGTGTGGgtgatgtgctgtgtcctacaaggttctgaggtcctcccgggtgaaccagt Alignment from Pairagon AC------------------------------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtatggcctgtcttccatttatgctttcttgttttccctccagACGACCTGGCTGTTGAGTTTGCACACGTCGGAATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAATCTGCCAGGCTCATTTCGATGCCAGTGCGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCTTGTGTGGgtgatgtgctgtgtcctacaaggttctgaggtcctcccgggtgaaccagt Alignment from Exonerate_protein2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtatggcctgtcttccatttatgctttcttgttttccctccagacgacctggctgttgagtttgcacacgtcgGAATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAATCTGCCAGGCTCATTTCGATGCCAGTGCGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCTTGTGTGGgtgatgtgctgtgtcctacaaggttctgaggtcctcccgggtgaaccagt Alignment from Exonerate_coding2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtatggcctgtcttccatttatgctttcttgttttccctccagacgacctggctgttgagtttgcacacgtcgGAATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAATCTGCCAGGCTCATTTCGATGCCAGTGCGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCTTGTGTGGgtgatgtgctgtgtcctacaaggttctgaggtcctcccgggtgaaccagt Alignment from GeneWise ---------GTGGACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtatggcctgtcttccatttatgctttcttgttttccctccagacgacctggctgttgagTTTGCACACGTCGGAATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAATCTGCCAGGCTCATTTCGATGCCAGTGCGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCTTGTGTGGgtgatgtgctgtgtcctacaaggttctgaggtcctcccgggtgaaccagt #### Ehbp1l1_ID1217_18 --> 2 - 2 Original Alignment ag------------------------------TGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat cctcttcttagaagggcagaagaagtctaagaagtacttttctgttttagaaAGAAACTCTGTGGGTGAGAAGAGGAGTTTGTGGCAGAAAACAGTTGCACAGCAGCACCGTGAGCAACTTCTGCTGGAGGAGCTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTGGTCCGGGACCTGGATCAGAAGGAGCGGgtgtaagaatctgagtgtccttggttttgaggagcccccagggtgcaaaact Alignment from CESAR agccaattttgaaaaaaaatctggagacaaaagatgtttacatctataaaa Alignment from Spaln_aa2Genome -GAGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT cctcttcttagaagggcagaagaagtctaagaagtacttttctgttttagaaagaaactctgtgggtgagaagaggagTTTGTGGCAGAAAACAGTTGCACAGCAGCACCGTGAGCAACTTCTGCTGGAGGAGCTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTGGTCCGGGACCTGGATCAGAAGGAGCGGGTgtaagaatctgagtgtccttggttttgaggagcccccagggtgcaaaact Alignment from Spaln_nt2Genome AGTGGCAGAA-------AACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT cctcttcttagaagggcagaagaagtctaagaagtacttttctgttttagaaagaaactctgtgggtgagaagAGGAGTTTGTGGCAGAAAACAGTTGCACAGCAGCACCGTGAGCAACTTCTGCTGGAGGAGCTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTGGTCCGGGACCTGGATCAGAAGGAGCGGGTgtaagaatctgagtgtccttggttttgaggagcccccagggtgcaaaact Alignment from Pairagon A------------------------------GTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT cctcttcttagaagggcagaagaagtctaagaagtacttttctgttttagAAAGAAACTCTGTGGGTGAGAAGAGGAGTTTGTGGCAGAAAACAGTTGCACAGCAGCACCGTGAGCAACTTCTGCTGGAGGAGCTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTGGTCCGGGACCTGGATCAGAAGGAGCGGGTgtaagaatctgagtgtccttggttttgaggagcccccagggtgcaaaact Alignment from Exonerate_protein2genome AAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT cctcttcttagaagggcagaagaagtctaagaagtacttttctgttttagaaagaaactctgtgggtgagaagaggagtttgtggcagAAAACAGTTGCACAGCAGCACCGTGAGCAACTTCTGCTGGAGGAGCTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTGGTCCGGGACCTGGATCAGAAGGAGCGGGTgtaagaatctgagtgtccttggttttgaggagcccccagggtgcaaaact Alignment from Exonerate_coding2genome AAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT cctcttcttagaagggcagaagaagtctaagaagtacttttctgttttagaaagaaactctgtgggtgagaagaggagtttgtggcagAAAACAGTTGCACAGCAGCACCGTGAGCAACTTCTGCTGGAGGAGCTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTGGTCCGGGACCTGGATCAGAAGGAGCGGGTgtaagaatctgagtgtccttggttttgaggagcccccagggtgcaaaact Alignment from GeneWise ----TGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT cctcttcttagaagggcagaagaagtctaagaagtacttttctgttttagaaagaaactctgtgggtgagaagaggagTTTGTGGCAGAAAACAGTTGCACAGCAGCACCGTGAGCAACTTCTGCTGGAGGAGCTTGTGTCTTTAGTAAACCAGAGGGAAGAGCTGGTCCGGGACCTGGATCAGAAGGAGCGGGTgtaagaatctgagtgtccttggttttgaggagcccccagggtgcaaaact #### Ehbp1l1_ID1227_8 --> 2 - 2 Original Alignment ct---GCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag gggttgcagtctgaacctacatgacctgaatttttaatttcctttggtagctGCAGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCTCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATGACTGATGGG---GTGGGGCCTGAGACCTCAGAGCCCCCGGCATCTCCACCAGAGACGaggtaaacatcatctaagcttcaaggctgctagaagaggataccacatattc Alignment from CESAR ct---GCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag gggttgcagtctgaacctacatgacctgaatttttaatttcctttggtagctGCAGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCTCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATGACTGATGGG---GTGGGGCCTGAGACCTCAGAGCCCCCGGCATCTCCACCAGAGACGaggtaaacatcatctaagcttcaaggctgctagaagaggataccacatattc Alignment from Spaln_aa2Genome CAGCTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gggttgcagtctgaacctacatgacctgaatttttaatttcctttggtagCTGCAGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCTCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATGACTGATGGG---GTGGGGCCTGAGACCTCAGAGCCCCCGGCATCTCCACCAGAGACGAGgtaaacatcatctaagcttcaaggctgctagaagaggataccacatattc Alignment from Spaln_nt2Genome CTGCCAGACCC---TCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gggttgcagtctgaacctacatgacctgaatttttaatttcctttggtagCTGCAGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCTCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATGACTGATGG---GGTGGGGCCTGAGACCTCAGAGCCCCCGGCATCTCCACCAGAGACGAGgtaaacatcatctaagcttcaaggctgctagaagaggataccacatattc Alignment from Pairagon CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gggttgcagtctgaacctacatgacctgaatttttaatttcctttggtagctgcag---CCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCTCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATGACTGATGG---GGTGGGGCCTGAGACCTCAGAGCCCCCGGCATCTCCACCAGAGACGAGgtaaacatcatctaagcttcaaggctgctagaagaggataccacatattc Alignment from Exonerate_protein2genome gggttgcagtctgaacctacatgacctgaatttttaatttcctttggtagctgcagccagaccctctagtgctgaagacaccagtcctgctccagtaagtgcccctgcacccccagttagagctttccggggccagggggaaccagctgccatgactgatggggtggggcctgagacctcagagcccccggcatctccaccagagacgaggtaaacatcatctaagcttcaaggctgctagaagaggataccacatattc Alignment from Exonerate_coding2genome gggttgcagtctgaacctacatgacctgaatttttaatttcctttggtagctgcagccagaccctctagtgctgaagacaccagtcctgctccagtaagtgcccctgcacccccagttagagctttccggggccagggggaaccagctgccatgactgatggggtggggcctgagacctcagagcccccggcatctccaccagagacgaggtaaacatcatctaagcttcaaggctgctagaagaggataccacatattc Alignment from GeneWise --GCTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gggttgcagtctgaacctacatgacctgaatttttaatttcctttggtagCTGCAGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCTCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATGACTGATGGG---GTGGGGCCTGAGACCTCAGAGCCCCCGGCATCTCCACCAGAGACGAGgtaaacatcatctaagcttcaaggctgctagaagaggataccacatattc #### Ehbp1l1_ID1229_6 --> 1 - 1 Original Alignment gGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg gggctcggcagctgtgagcccagaatctctattttatatttaactttcaga------GACATGCAAAGTCTGGCCAGCCTCATGAGCGTGAAGCCTAGTGATGTGGGAAACCTGGACGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCAGACCCGAGGCCCCCAGTCCggtcagtttacagttggccagatcgccagtacctgaggtggatacaactcc Alignment from CESAR gGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg gcacctgggctcggcagctgtgagctctctattttatatttaactttcaga------GACATGCAAAGTCTGGCCAGCCTCATGAGCGTGAAGCCTAGTGATGTGGGAAACCTGGACGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCAGACCCGAGGCCCCCAGTCCggtcagtttacagttggccagatcgccagtacctgaggtggatacaactcc Alignment from Spaln_aa2Genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG gggctcggcagctgtgagcccagaatctctattttatatttaactttcagA------GACATGCAAAGTCTGGCCAGCCTCATGAGCGTGAAGCCTAGTGATGTGGGAAACCTGGACGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCAGACCCGAGGCCCCCAGTCCGgtcagtttacagttggccagatcgccagtacctgaggtggatacaactcc Alignment from Spaln_nt2Genome ATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG gggctcggcagctgtgagcccagaatctctattttatatttaactttcagA-GACATGCAAAGTCTGGCCAGCCTCATGAGCGTGAAGCCTAGTGATGTGGGAAACCTGGACGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCAGACCCGAGGCCCCCAGTCCGgtcagtttacagttggccagatcgccagtacctgaggtggatacaactcc Alignment from Pairagon GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG gggctcggcagctgtgagcccagaatctctattttatatttaactttcag------AGACATGCAAAGTCTGGCCAGCCTCATGAGCGTGAAGCCTAGTGATGTGGGAAACCTGGACGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCAGACCCGAGGCCCCCAGTCCGgtcagtttacagttggccagatcgccagtacctgaggtggatacaactcc Alignment from Exonerate_protein2genome gggctcggcagctgtgagcccagaatctctattttatatttaactttcagagacatgcaaagtctggccagcctcatgagcgtgaagcctagtgatgtgggaaacctggacgactttgctgagagtgatgaggaggaagctaatggccctggggctcctgaggtccagacccgaggcccccagtccggtcagtttacagttggccagatcgccagtacctgaggtggatacaactcc Alignment from Exonerate_coding2genome gggctcggcagctgtgagcccagaatctctattttatatttaactttcagagacatgcaaagtctggccagcctcatgagcgtgaagcctagtgatgtgggaaacctggacgactttgctgagagtgatgaggaggaagctaatggccctggggctcctgaggtccagacccgaggcccccagtccggtcagtttacagttggccagatcgccagtacctgaggtggatacaactcc Alignment from GeneWise GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG gggctcggcagctgtgagcccagaatctctattttatatttaactttcagA------GACATGCAAAGTCTGGCCAGCCTCATGAGCGTGAAGCCTAGTGATGTGGGAAACCTGGACGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCAGACCCGAGGCCCCCAGTCCGgtcagtttacagttggccagatcgccagtacctgaggtggatacaactcc #### Ehbp1l1_ID1232_3 --> 0 - 0 Original Alignment GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- tataagaattcaacaatggtggggaatagactggctccttctgtgtgcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAAGTGCgtattggcactgagtgtggcatgggcaggcactgcagagagatgggcagg Alignment from CESAR GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- tataagaattcaacaatggtggggaatagactggctccttctgtgtgcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAAGTGCgtattggcactgagtgtggcatgggcaggcactgcagagagatgggcagg Alignment from Spaln_aa2Genome GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- tataagaattcaacaatggtggggaatagactggctccttctgtgtgcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAAGTGCgtattggcactgagtgtggcatgggcaggcactgcagagagatgggcagg Alignment from Spaln_nt2Genome GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAG tataagaattcaacaatggtggggaatagactggctccttctgtgtgcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAAgtgcgtattggcactgagtgtggcatgggcaggcactgcagagagatgggcagg Alignment from Pairagon GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAG tataagaattcaacaatggtggggaatagactggctccttctgtgtgcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAAgtgcgtattggcactgagtgtggcatgggcaggcactgcagagagatgggcagg Alignment from Exonerate_protein2genome tataagaattcaacaatggtggggaatagactggctccttctgtgtgcaggcccacagctggcagcctggcattcagaatccataccttggcactgcagtatggatggttcctgagaatgtggacatctcagtaaccttgcacaagtgcgtattggcactgagtgtggcatgggcaggcactgcagagagatgggcagg Alignment from Exonerate_coding2genome tataagaattcaacaatggtggggaatagactggctccttctgtgtgcaggcccacagctggcagcctggcattcagaatccataccttggcactgcagtatggatggttcctgagaatgtggacatctcagtaaccttgcacaagtgcgtattggcactgagtgtggcatgggcaggcactgcagagagatgggcagg Alignment from GeneWise GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGGGAC tataagaattcaacaatggtggggaatagactggctccttctgtgtgcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAAGTGCgtattggcactgagtgtggcatgggcaggcactgcagagagatgggcagg #### Eif3a_ID13316_14 --> 0 - 0 Original Alignment ---ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAA---------------GAAGAAGAAAGA gggggccgtcctgctccaggtctgtgtgtccccttgttttcctattttagGGAATTGACTATTTTGAGAGGGTGAAGCGCTTGGAAGAAATTCCTCTAATAAAGAGTGCATATGAAGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGGTAAAAGATGAAAGGgtgagcttttcaattggattgtgacgtcacaaaacaaaactaaattaaag Alignment from CESAR ---ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gggggccgtcctgctccaggtctgtgtgtccccttgttttcctattttagGGAATTGACTATTTTGAGAGGGTGAAGCGCTTGGAAGAAATTCCTCTAATAAAGAGTGCATATGAAGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGgtaaaagatgaaagggtgagcttttcaattggattgtgacgtcacaaaacaaaactaaattaaag Alignment from Spaln_aa2Genome ATTGACTATTTT---GAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gggggccgtcctgctccaggtctgtgtgtccccttgttttcctattttagGGAATTGACTATTTTGAGAGGGTGAAGCGCTTGGAAGAAATTCCTCTAATAAAGAGTGCATATGAAGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGgtaaaagatgaaagggtgagcttttcaattggattgtgacgtcacaaaacaaaactaaattaaag Alignment from Spaln_nt2Genome ATTGACTAT---TTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gggggccgtcctgctccaggtctgtgtgtccccttgttttcctattttagGGAATTGACTATTTTGAGAGGGTGAAGCGCTTGGAAGAAATTCCTCTAATAAAGAGTGCATATGAAGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGgtaaaagatgaaagggtgagcttttcaattggattgtgacgtcacaaaacaaaactaaattaaag Alignment from Pairagon ---ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gggggccgtcctgctccaggtctgtgtgtccccttgttttcctattttagGGAATTGACTATTTTGAGAGGGTGAAGCGCTTGGAAGAAATTCCTCTAATAAAGAGTGCATATGAAGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGgtaaaagatgaaagggtgagcttttcaattggattgtgacgtcacaaaacaaaactaaattaaag Alignment from Exonerate_protein2genome ---ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gggggccgtcctgctccaggtctgtgtgtccccttgttttcctattttagGGAATTGACTATTTTGAGAGGGTGAAGCGCTTGGAAGAAATTCCTCTAATAAAGAGTGCATATGAAGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGgtaaaagatgaaagggtgagcttttcaattggattgtgacgtcacaaaacaaaactaaattaaag Alignment from Exonerate_coding2genome ---ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gggggccgtcctgctccaggtctgtgtgtccccttgttttcctattttagGGAATTGACTATTTTGAGAGGGTGAAGCGCTTGGAAGAAATTCCTCTAATAAAGAGTGCATATGAAGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGgtaaaagatgaaagggtgagcttttcaattggattgtgacgtcacaaaacaaaactaaattaaag Alignment from GeneWise ---ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA gggggccgtcctgctccaggtctgtgtgtccccttgttttcctattttagGGAATTGACTATTTTGAGAGGGTGAAGCGCTTGGAAGAAATTCCTCTAATAAAGAGTGCATATGAAGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGgtaaaagatgaaagggtgagcttttcaattggattgtgacgtcacaaaacaaaactaaattaaag #### Eif3a_ID13317_13 --> 0 - 0 Original Alignment ---GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtggtgcatcaaggtaggtatgaggtccccgctgccttcctaacagCCAGACCTTGAAGAACTGGACCAAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAGAAGGAACTTCAGGAACGCCTCAAAACTCAAGAAAAGAAGgtgagtgtgggtcactgataggttctaatcctaaactaaattggacctaa Alignment from CESAR ---GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtggtgcatcaaggtaggtatgaggtccccgctgccttcctaacagCCAGACCTTGAAGAACTGGACCAAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAGAAGGAACTTCAGGAACGCCTCAAAACTCAAGAAAAGAAGgtgagtgtgggtcactgataggttctaatcctaaactaaattggacctaa Alignment from Spaln_aa2Genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtggtgcatcaaggtaggtatgaggtccccgctgccttcctaacagCCAGACCTTGAAGAACTGGACCAAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAGAAGGAACTTCAGGAACGCCTCAAAACTCAAGAAAAGAAGgtgagtgtgggtcactgataggttctaatcctaaactaaattggacctaa Alignment from Spaln_nt2Genome ---GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtggtgcatcaaggtaggtatgaggtccccgctgccttcctaacagCCAGACCTTGAAGAACTGGACCAAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAGAAGGAACTTCAGGAACGCCTCAAAACTCAAGAAAAGAAGgtgagtgtgggtcactgataggttctaatcctaaactaaattggacctaa Alignment from Pairagon ---GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtggtgcatcaaggtaggtatgaggtccccgctgccttcctaacagCCAGACCTTGAAGAACTGGACCAAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAGAAGGAACTTCAGGAACGCCTCAAAACTCAAGAAAAGAAGgtgagtgtgggtcactgataggttctaatcctaaactaaattggacctaa Alignment from Exonerate_protein2genome GATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtggtgcatcaaggtaggtatgaggtccccgctgCCTTCCTAACAGCCAGACCTTGAAGAACTGGACCAAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAGAAGGAACTTCAGGAACGCCTCAAAACTCAAGAAAAGAAGgtgagtgtgggtcactgataggttctaatcctaaactaaattggacctaa Alignment from Exonerate_coding2genome GATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtggtgcatcaaggtaggtatgaggtccccgctgCCTTCCTAACAGCCAGACCTTGAAGAACTGGACCAAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAGAAGGAACTTCAGGAACGCCTCAAAACTCAAGAAAAGAAGgtgagtgtgggtcactgataggttctaatcctaaactaaattggacctaa Alignment from GeneWise ---GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttgtggtgcatcaaggtaggtatgaggtccccgctgccttcctaacagCCAGACCTTGAAGAACTGGACCAAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAGAAGGAACTTCAGGAACGCCTCAAAACTCAAGAAAAGAAGgtgagtgtgggtcactgataggttctaatcctaaactaaattggacctaa #### Eif3a_ID13327_3 --> 0 - 2 Original Alignment ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGag aatggatttgctgtgccttactttaaagcctcctcgcttggccctgccagCCCGTAAACATTAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGaggtagcaagtaagagggcattttttatcatcagacaaggtgttacaacaat Alignment from CESAR ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGag aatggatttgctgtgccttactttaaagcctcctcgcttggccctgccagCCCGTAAACATTAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGaggtagcaagtaagagggcattttttatcatcagacaaggtgttacaacaat Alignment from Spaln_aa2Genome GTAAACATTAAATCTTTA---GAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG aatggatttgctgtgccttactttaaagcctcctcgcttggccctgccagCCCGTAAACATTAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtagcaagtaagagggcattttttatcatcagacaaggtgttacaacaat Alignment from Spaln_nt2Genome GTAAACATTAAA---TCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG aatggatttgctgtgccttactttaaagcctcctcgcttggccctgccagCCCGTAAACATTAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtagcaagtaagagggcattttttatcatcagacaaggtgttacaacaat Alignment from Pairagon ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG aatggatttgctgtgccttactttaaagcctcctcgcttggccctgccagCCCGTAAACATTAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtagcaagtaagagggcattttttatcatcagacaaggtgttacaacaat Alignment from Exonerate_protein2genome GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG aatggatttgctgtgccttactttaaagcctcctcgcttggccctgccagcccGTAAACATTAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtagcaagtaagagggcattttttatcatcagacaaggtgttacaacaat Alignment from Exonerate_coding2genome GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG aatggatttgctgtgccttactttaaagcctcctcgcttggccctgccagcccGTAAACATTAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtagcaagtaagagggcattttttatcatcagacaaggtgttacaacaat Alignment from GeneWise ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG aatggatttgctgtgccttactttaaagcctcctcgcttggccctgccagCCCGTAAACATTAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtagcaagtaagagggcattttttatcatcagacaaggtgttacaacaat #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC---ac gCCCCGAAGAAATTCTTCCTCCTCC tacaattattctgatgtgctgggtattgtgtttggtgttttcctcatcagcAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGTCCTTCCTTGGTGACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTACCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTTacgtctcccttgctgtgccccctccaggCCGCGAAGAAATTCTTCCTCCTCA Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC---ac gCCCCGAAGAAATTCTTCCTCCTCC tacaattattctgatgtgctgggtattgtgtttggtgttttcctcatcagcAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGTCCTTCCTTGGTGACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTACCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTTacgtatttacttccttgcctgttttaggCCGCGAAGAAATTCTTCCTCCTCA Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCA GCGTTCTGACACGCCCCGAAGAAAT tacaattattctgatgtgctgggtattgtgtttggtgttttcctcatcagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGTCCTTCCTTGGTGACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTACCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAGCCTCTTGAgtgttcagacgttacgtctcccttgctgtgccccctccagG------------CCGCGAAGAAAT Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGC GTTCTGACACGCCCCGAAGAAATTC tacaattattctgatgtgctgggtattgtgtttggtgttttcctcatcagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGTCCTTCCTTGGTGACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTACCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAGCCTCTTGAGTgttcagacgttacgtctcccttgctgtgccccctccag----------GCCGCGAAGAAATTC Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGA----------------------------CACGCCCCGAAGAAATTCTTCCTCCTCC tacaattattctgatgtgctgggtattgtgtttggtgttttcctcatcagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGTCCTTCCTTGGTGACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTACCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTTACGTCTCCCTTGCTGTGCCCCCTCCAGGCCGCGAAGAAATTCTTCCTCCTCA Alignment from Exonerate_protein2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC ACGCCCCGAAGAAATTCTTCCTCC tacaattattctgatgtgctgggtattgtgtttggtgttttcctcatcagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGTCCTTCCTTGGTGACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTACCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACgttacgtctcccttgctgtgccccctccaggCCGCGAAGAAATTCTTCC---TCC Alignment from Exonerate_coding2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGAC ACGCCCCGAAGAAATTCTTCCTCC tacaattattctgatgtgctgggtattgtgtttggtgttttcctcatcagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGTCCTTCCTTGGTGACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTACCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACgttacgtctcccttgctgtgccccctccaggCCGCGAAGAAATTCTTCC---TCC Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG-- -CCCCGAAGAAATTCTTCCTCCTCC tacaattattctgatgtgctgggtattgtgtttggtgttttcctcatcagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGTCCTTCCTTGGTGACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTACCTTCCTCTGGACCCCCTGGCCTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACGTTACgtctcccttgctgtgccccctccagGCCGCGAAGAAATTCTTCCTCCTCA #### Eml3_ID2507_6 --> 2 - 2 Original Alignment aa------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt ttgctgtggggcctccaagaaggaggctcacactgctttgggatttacagaaTACAAGGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGgtgtcggtggtttaaaactgtcacacacaatgggtaccctggcatctttgca Alignment from CESAR aa------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt ttgctgtggggcctccaagaaggaggctcacactgctttgggatttacagaaTACAAGGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGgtgtcggtggtttaaaactgtcacacacaatgggtaccctggcatctttgca Alignment from Spaln_aa2Genome AA------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgtggggcctccaagaaggaggctcacactgctttgggatttacagAATACAAGGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtcggtggtttaaaactgtcacacacaatgggtaccctggcatctttgca Alignment from Spaln_nt2Genome AA------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgtggggcctccaagaaggaggctcacactgctttgggatttacagAATACAAGGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtcggtggtttaaaactgtcacacacaatgggtaccctggcatctttgca Alignment from Pairagon AA------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgtggggcctccaagaaggaggctcacactgctttgggatttacagAATACAAGGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtcggtggtttaaaactgtcacacacaatgggtaccctggcatctttgca Alignment from Exonerate_protein2genome AA------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgtggggcctccaagaaggaggctcacactgctttgggatttacagAATACAAGGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtcggtggtttaaaactgtcacacacaatgggtaccctggcatctttgca Alignment from Exonerate_coding2genome AA------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgtggggcctccaagaaggaggctcacactgctttgggatttacagAATACAAGGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtcggtggtttaaaactgtcacacacaatgggtaccctggcatctttgca Alignment from GeneWise -----GAAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgtggggcctccaagaaggaggctcacactgctttgggatttacagAATACAAGGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtcggtggtttaaaactgtcacacacaatgggtaccctggcatctttgca #### Eml3_ID2512_11 --> 0 - 0 Original Alignment AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tagacttgttcgagccatacagcaagaaatgtgcatcttttttattttag---------GACTCAGTCCTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACTAGTGGAAAATCGCATGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCCTGGGAATGGACTCCTTGCCCGGAAGCAGGGTGTTCTTGGGgtagtctgggtgaggtgattgaggctgctacatactctattgcaccacac Alignment from CESAR AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tgccaggcctagacttgttcgagccgaaatgtgcatcttttttattttag---------GACTCAGTCCTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACTAGTGGAAAATCGCATGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCCTGGGAATGGACTCCTTGCCCGGAAGCAGGGTGTTCTTGGGgtagtctgggtgaggtgattgaggctgctacatactctattgcaccacac Alignment from Spaln_aa2Genome GACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tagacttgttcgagccatacagcaagaaatgtgcatcttttttattttagGACTCAGTCCTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACTAGTGGAAAATCGCATGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCCTGGGAATGGACTCCTTGCCCGGAAGCAGGGTGTTCTTGGGgtagtctgggtgaggtgattgaggctgctacatactctattgcaccacac Alignment from Spaln_nt2Genome GACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tagacttgttcgagccatacagcaagaaatgtgcatcttttttattttagGACTCAGTCCTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACTAGTGGAAAATCGCATGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCCTGGGAATGGACTCCTTGCCCGGAAGCAGGGTGTTCTTGGGgtagtctgggtgaggtgattgaggctgctacatactctattgcaccacac Alignment from Pairagon AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tagacttgttcgagccatacagcaagaaatgtgcatcttttttattttag---------GACTCAGTCCTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACTAGTGGAAAATCGCATGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCCTGGGAATGGACTCCTTGCCCGGAAGCAGGGTGTTCTTGGGgtagtctgggtgaggtgattgaggctgctacatactctattgcaccacac Alignment from Exonerate_protein2genome GACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tagacttgttcgagccatacagcaagaaatgtgcatcttttttattttagGACTCAGTCCTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACTAGTGGAAAATCGCATGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCCTGGGAATGGACTCCTTGCCCGGAAGCAGGGTGTTCTTGGGgtagtctgggtgaggtgattgaggctgctacatactctattgcaccacac Alignment from Exonerate_coding2genome GACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tagacttgttcgagccatacagcaagaaatgtgcatcttttttattttagGACTCAGTCCTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACTAGTGGAAAATCGCATGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCCTGGGAATGGACTCCTTGCCCGGAAGCAGGGTGTTCTTGGGgtagtctgggtgaggtgattgaggctgctacatactctattgcaccacac Alignment from GeneWise GACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tagacttgttcgagccatacagcaagaaatgtgcatcttttttattttagGACTCAGTCCTTGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACTAGTGGAAAATCGCATGTCCACTTTTGGAACTGGAGTGGTGGCACAGGGGCTCCTGGGAATGGACTCCTTGCCCGGAAGCAGGGTGTTCTTGGGgtagtctgggtgaggtgattgaggctgctacatactctattgcaccacac #### Eml3_ID2514_13 --> 2 - 0 Original Alignment agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gttgtccatgtctaatgcaaaggcttgcctgtgttatgtttactgtgtagagACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTCCTTCTTTGCCCTATGTCTCCACCAGGATGGAACAGTACTGAGTGGTGGTGGGTGGGATCGACGACTGGTG---------------------------------------gtatgtcatgtcctggactctgagtctgagaagggatggtgagccgagga Alignment from CESAR agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gttgtccatgtctaatgcaaaggcttgcctgtgttatgtttactgtgtagagACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTCCTTCTTTGCCCTATGTCTCCACCAGGATGGAACAGTACTGAGTGGTGGTGGGTGGGATCGACGACTGGTG---------------------------------------gtatgtcatgt Alignment from Spaln_aa2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTG CA gttgtccatgtctaatgcaaaggcttgcctgtgttatgtttactgtgtagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTCCTTCTTTGCCCTATGTCTCCACCAGGATGGAACAGTACTGAGTGGTGGTGGGTGGGATCGACGACTGGTGgtatgtcatgtcctggactctgagtctgagaagggatggtgagccgagGA Alignment from Spaln_nt2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGG-GCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gttgtccatgtctaatgcaaaggcttgcctgtgttatgtttactgtgtagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTCCTTCTTTGCCCTATGTCTCCACCAGGATGGAACAGTACTGAGTGGTGGTGGGTGGGATCGACGACTGGTGGTATGTCATGTCCTGGACTCTGAGTCT-GAGAAGGGA-TGgtgagccgag Alignment from Pairagon AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTG gttgtccatgtctaatgcaaaggcttgcctgtgttatgtttactgtgtagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTCCTTCTTTGCCCTATGTCTCCACCAGGATGGAACAGTACTGAGTGGTGGTGGGTGGGATCGACGACTGGTGgtatgtcatgtcctggactctgagtctgagaagggatggtgagccgagga Alignment from Exonerate_protein2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGA gttgtccatgtctaatgcaaaggcttgcctgtgttatgtttactgtgtagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTCCTTCTTTGCCCTATGTCTCCACCAGGATGGAACAGTACTGAGTGGTGGTGGGTGGGATCGACGACTGGTGGTATGTCATGTCCTGGACTCTGAGTCTGAGAAGGGATGgtgagccgagga Alignment from Exonerate_coding2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGA gttgtccatgtctaatgcaaaggcttgcctgtgttatgtttactgtgtagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTCCTTCTTTGCCCTATGTCTCCACCAGGATGGAACAGTACTGAGTGGTGGTGGGTGGGATCGACGACTGGTGGTATGTCATGTCCTGGACTCTGAGTCTGAGAAGGGATGgtgagccgagga Alignment from GeneWise AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gttgtccatgtctaatgcaaaggcttgcctgtgttatgtttactgtgtagAGACCTACACAATTGTGGCTCAGTCCCATGCTCATGAGGAGTCCTTCTTTGCCCTATGTCTCCACCAGGATGGAACAGTACTGAGTGGTGGTGGGTGGGATCGACGACTGGTGGTA------------------------------TGTCATgtcctggactc #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG------ GGCCACACTGATGA gggatggggagacatgtggttagtatattcattaatcttgtattttacagATTCCAGAACACTTTGGTGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACAAAGAATGCATTACTGAGAGGAGATCTTGCCCAAGGTTTCTCCCCTGTTATCCAGGGCCGCgtgagtattgtagcatagacgtccgtgtctccctagGGACACACTGATGA Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG------ GGCCACACTGATGA gggatggggagacatgtggttagtatattcattaatcttgtattttacagATTCCAGAACACTTTGGTGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACAAAGAATGCATTACTGAGAGGAGATCTTGCCCAAGGTTTCTCCCCTGTTATCCAGGGCCGCgtgagtattgtagccctctcccttcttgcttcttagGGACACACTGATGA Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG------ GGCCACACTGATGA gggatggggagacatgtggttagtatattcattaatcttgtattttacagATTCCAGAACACTTTGGTGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACAAAGAATGCATTACTGAGAGGAGATCTTGCCCAAGGTTTCTCCCCTGTTATCCAGGGCCGCgtgagtattgtagcatagacgtccgtgtctccctagGGACACACTGATGA Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAGGGC--- CACACTGATG---A gggatggggagacatgtggttagtatattcattaatcttgtattttacagATTCCAGAACACTTTGGTGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACAAAGAATGCATTACTGAGAGGAGATCTTGCCCAAGGTTTCTCCCCTGTTATCCAGGGCCGCgtgagtattgtagcatagacgtccgtgtctccctagGGACACACTGATGA Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAGGGC------------------------------------------CACACTGATGA gggatggggagacatgtggttagtatattcattaatcttgtattttacagATTCCAGAACACTTTGGTGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACAAAGAATGCATTACTGAGAGGAGATCTTGCCCAAGGTTTCTCCCCTGTTATCCAGGGCCGCGTGAGTATTGTAGCATAGACGTCCGTGTCTCCCTAGGGACACACTGATGA Alignment from Exonerate_protein2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGA gggatggggagacatgtggttagtatattcattaatcttgtattttacagATTCCAGAACACTTTGGTGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACAAAGAATGCATTACTGAGAGGAGATCTTGCCCAAGGTTTCTCCCCTGTTATCCAGggccgcgtgagtattgtagcatagacgtccgtgtctccctagGGACACACTGATGA Alignment from Exonerate_coding2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGA gggatggggagacatgtggttagtatattcattaatcttgtattttacagATTCCAGAACACTTTGGTGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACAAAGAATGCATTACTGAGAGGAGATCTTGCCCAAGGTTTCTCCCCTGTTATCCAGggccgcgtgagtattgtagcatagacgtccgtgtctccctagGGACACACTGATGA Alignment from GeneWise ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAGGGC--- ---CACACTGATGA gggatggggagacatgtggttagtatattcattaatcttgtattttacagATTCCAGAACACTTTGGTGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACAAAGAATGCATTACTGAGAGGAGATCTTGCCCAAGGTTTCTCCCCTGTTATCCAGGGCCGCgtgagtattgtagcatagacgtccgtgtctccctagGGACACACTGATGA #### Eml3_ID2516_15 --> 0 - 0 Original Alignment CCCCTGTTATCCAG GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CCCCTGTTATCCAGgtaggcgccctctctctaatgaagcatctcatttag------ACTGATGAGCTCTGGGGCTTGTGTACACATCCATCTCAGAATCGCTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGACGGGGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgccctttatcagcctcaccaaacatgttctgatacgcaaa Alignment from CESAR CCCCTGTTATCCAG GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CCCCTGTTATCCAGgtgcgtattgtctctctaatgaagcatctcatttag------ACTGATGAGCTCTGGGGCTTGTGTACACATCCATCTCAGAATCGCTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGACGGGGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgccctttatcagcctcaccaaacatgttctgatacgcaaa Alignment from Spaln_aa2Genome CCCCTGTTATCCAG GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CCCCTGTTATCCAGgtaggcgccctctctctaatgaagcatctcatttag------ACTGATGAGCTCTGGGGCTTGTGTACACATCCATCTCAGAATCGCTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGACGGGGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgccctttatcagcctcaccaaacatgttctgatacgcaaa Alignment from Spaln_nt2Genome CCCCTGTTATCCAG GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CCCCTGTTATCCAGgtaggcgccctctctctaatgaagcatctcatttag------ACTGATGAGCTCTGGGGCTTGTGTACACATCCATCTCAGAATCGCTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGACGGGGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgccctttatcagcctcaccaaacatgttctgatacgcaaa Alignment from Pairagon CCCCTGTTATCCAGG-----GCC-------------------------ACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CCCCTGTTATCCAGGTAGGCGCCCTCTCTCTAATGAAGCATCTCATTTAGACTGATGAGCTCTGGGGCTTGTGTACACATCCATCTCAGAATCGCTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGACGGGGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgccctttatcagcctcaccaaacatgttctgatacgcaaa Alignment from Exonerate_protein2genome TTATCCAGGGCCAC ACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG TTATCCAG------gtaggcgccctctctctaatgaagcatctcatttagACTGATGAGCTCTGGGGCTTGTGTACACATCCATCTCAGAATCGCTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGACGGGGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgccctttatcagcctcaccaaacatgttctgatacgcaaa Alignment from Exonerate_coding2genome TTATCCAGGGCCAC ACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG TTATCCAG------gtaggcgccctctctctaatgaagcatctcatttagACTGATGAGCTCTGGGGCTTGTGTACACATCCATCTCAGAATCGCTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGACGGGGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgccctttatcagcctcaccaaacatgttctgatacgcaaa Alignment from GeneWise TTATCCAGGGCCAC ACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG TTATC------CAGgtaggcgccctctctctaatgaagcatctcatttagACTGATGAGCTCTGGGGCTTGTGTACACATCCATCTCAGAATCGCTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGACGGGGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtaagtagctgccctttatcagcctcaccaaacatgttctgatacgcaaa #### Eml3_ID2518_17 --> 1 - 1 Original Alignment gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aggtgtaaggtaaaatcttgtctccatgtccgtttctttgttgtccacaggTGGTTGGTCTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAG------------------------ggtaagggtgcctacccccggcctgatcgatcgggaatcagttcgatctgg Alignment from CESAR gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aggtgtaaggtaaaatcttgtctccatgtccgtttctttgttgtccacaggTGGTTGGTCTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAG------------------------ggtaagggtgcctacccccggcctgatcgatcgggaatcagttcgatctgg Alignment from Spaln_aa2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aggtgtaaggtaaaatcttgtctccatgtccgtttctttgttgtccacagGTGGTTGGTCTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGGGTAAGGGTGCCTACCCCCGGCCTGatcgatcgggaatcagttcgatctgg Alignment from Spaln_nt2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aggtgtaaggtaaaatcttgtctccatgtccgtttctttgttgtccacagGTGGTTGGTCTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGGGTAAGGGTGCC---TAC--CCCCGgcctgatcgatcgggaatcagttcga Alignment from Pairagon GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aggtgtaaggtaaaatcttgtctccatgtccgtttctttgttgtccacagGTGGTTGGTCTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAG------------------------Ggtaagggtgcctacccccggcctgatcgatcgggaatcagttcgatctgg Alignment from Exonerate_protein2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGC aggtgtaaggtaaaatcttgtctccatgtccgtttctttgttgtccacagGTGGTTGGTCTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGGgtaagggtgcctacccccggcctgatcgatcgggaatcagttcgatctgg Alignment from Exonerate_coding2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGC aggtgtaaggtaaaatcttgtctccatgtccgtttctttgttgtccacagGTGGTTGGTCTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGGgtaagggtgcctacccccggcctgatcgatcgggaatcagttcgatctgg Alignment from GeneWise GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAG--------------------------------------------------- aggtgtaaggtaaaatcttgtctccatgtccgtttctttgttgtccacagGTGGTTGGTCTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGGGTAAGGGTGCCTACCCCCGGCCTGATCGATCGGGAATCAGTTCGATCTGG #### Eml3_ID2519_18 --> 2 - 0 Original Alignment atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgtcataactcttgtgtgtgttttttaattttagat---TTGTACCTTGCGATAGGTTCACATGACAACATGATCTACATCTACAGTATTTCCAGTTGTGGTACTAAATCCAGCCGCTTTGGCAGGTGTATGgtactcattctggctagaggatactatttgtcttactttggtcatggtaa Alignment from CESAR atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG caaatatgttgcccacccatgtcattcttgtgtgtgttttttaattttagat---TTGTACCTTGCGATAGGTTCACATGACAACATGATCTACATCTACAGTATTTCCAGTTGTGGTACTAAATCCAGCCGCTTTGGCAGGTGTATGgtactcattctggctagaggatactatttgtcttactttggtcatggtaa Alignment from Spaln_aa2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgtcataactcttgtgtgtgttttttaattttagAT---TTGTACCTTGCGATAGGTTCACATGACAACATGATCTACATCTACAGTATTTCCAGTTGTGGTACTAAATCCAGCCGCTTTGGCAGGTGTATGgtactcattctggctagaggatactatttgtcttactttggtcatggtaa Alignment from Spaln_nt2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgtcataactcttgtgtgtgttttttaattttagAT---TTGTACCTTGCGATAGGTTCACATGACAACATGATCTACATCTACAGTATTTCCAGTTGTGGTACTAAATCCAGCCGCTTTGGCAGGTGTATGgtactcattctggctagaggatactatttgtcttactttggtcatggtaa Alignment from Pairagon ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgtcataactcttgtgtgtgttttttaattttagAT---TTGTACCTTGCGATAGGTTCACATGACAACATGATCTACATCTACAGTATTTCCAGTTGTGGTACTAAATCCAGCCGCTTTGGCAGGTGTATGgtactcattctggctagaggatactatttgtcttactttggtcatggtaa Alignment from Exonerate_protein2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgtcataactcttgtgtgtgttttttaattttagAT---TTGTACCTTGCGATAGGTTCACATGACAACATGATCTACATCTACAGTATTTCCAGTTGTGGTACTAAATCCAGCCGCTTTGGCAGGTGTATGgtactcattctggctagaggatactatttgtcttactttggtcatggtaa Alignment from Exonerate_coding2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgtcataactcttgtgtgtgttttttaattttagAT---TTGTACCTTGCGATAGGTTCACATGACAACATGATCTACATCTACAGTATTTCCAGTTGTGGTACTAAATCCAGCCGCTTTGGCAGGTGTATGgtactcattctggctagaggatactatttgtcttactttggtcatggtaa Alignment from GeneWise ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgtcataactcttgtgtgtgttttttaattttagAT---TTGTACCTTGCGATAGGTTCACATGACAACATGATCTACATCTACAGTATTTCCAGTTGTGGTACTAAATCCAGCCGCTTTGGCAGGTGTATGgtactcattctggctagaggatactatttgtcttactttggtcatggtaa #### Fads1_ID2689_3 --> 0 - 0 Original Alignment AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG acattggttaagtgggatactttatggcactcacagatgcccctttgcag---------TCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGCCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTCACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgaggtttacctgttaattcaaacatcagatgccaagagaatggtctgt Alignment from CESAR AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG gctctcttgacattggttaagtgggggcactcacagatgcccctttgcag---------TCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGCCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTCACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgaggtttacctgttaattcaaacatcagatgccaagagaatggtctgt Alignment from Spaln_aa2Genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG acattggttaagtgggatactttatggcactcacagatgcccctttgcag---------TCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGCCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTCACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgaggtttacctgttaattcaaacatcagatgccaagagaatggtctgt Alignment from Spaln_nt2Genome ACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG acattggttaagtgggatactttatggcactcacagatgcccctttgcagTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGCCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTCACACTATGGATCTTTGGAACTTCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgaggtttacctgttaattcaaacatcagatgccaagagaatggtctgt Alignment from Pairagon AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG acattggttaagtgggatactttatggcactcacagatgcccctttgcag---------TCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGCCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTCACACTATGGATCTTTGGAACTTCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgaggtttacctgttaattcaaacatcagatgccaagagaatggtctgt Alignment from Exonerate_protein2genome AAAGCGCTA-----ACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG acattggttaagtgggatactttatggcactcacagATGCCCCTTTGCAGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGCCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTCACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgaggtttacctgttaattcaaacatcagatgccaagagaatggtctgt Alignment from Exonerate_coding2genome AAAGCGCTA-----ACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG acattggttaagtgggatactttatggcactcacagATGCCCCTTTGCAGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGCCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTCACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgaggtttacctgttaattcaaacatcagatgccaagagaatggtctgt Alignment from GeneWise --------GCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG acattggttaagtgggatactttatggcactcacagATGCCCCTTTGCAGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGCCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTCACACTATGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtgaggtttacctgttaattcaaacatcagatgccaagagaatggtctgt #### Fads1_ID2695_9 --> 1 - 0 Original Alignment gTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG ctcttatcttcaaattcaactcagcttcttgtcgcctttttgatctttagg---------------------GTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGACCCAGACCGAAATGTGGACTGGGTCTCCACCCAGgtgagttacagtctttaaagcccgcccttggcactgaagagtttagatga Alignment from CESAR gTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG cgctcttatgatcagttctacctctttcttgtcgcctttttgatctttagg---------------------GTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGACCCAGACCGAAATGTGGACTGGGTCTCCACCCAGgtgagttacagtctttaaagcccgcccttggcactgaagagtttagatga Alignment from Spaln_aa2Genome GTCAGGTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG ctcttatcttcaaattcaactcagCTTCTTGTCGCCTTTTTGATCTTTAGGGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGACCCAGACCGAAATGTGGACTGGGTCTCCACCCAGgtgagttacagtctttaaagcccgcccttggcactgaagagtttagatga Alignment from Spaln_nt2Genome GTTCCTGGAAAGCAACTGGTTT-----GTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG ctcttatcttcaaattcaactcagCTTCTTGTCGCCTTTTTGATCTTTAGGGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGACCCAGACCGAAATGTGGACTGGGTCTCCACCCAGgtgagttacagtctttaaagcccgcccttggcactgaagagtttagatga Alignment from Pairagon GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG ctcttatcttcaaattcaactcagcttcttgtcgcctttttgatctttagG---------------------GTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGACCCAGACCGAAATGTGGACTGGGTCTCCACCCAGgtgagttacagtctttaaagcccgcccttggcactgaagagtttagatga Alignment from Exonerate_protein2genome TGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG ctcttatcttcaaattcaactcagcttcttgtcgCCTTTTTGATCTTTAGGGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGACCCAGACCGAAATGTGGACTGGGTCTCCACCCAGgtgagttacagtctttaaagcccgcccttggcactgaagagtttagatga Alignment from Exonerate_coding2genome TGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG ctcttatcttcaaattcaactcagcttcttgtcgCCTTTTTGATCTTTAGGGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGACCCAGACCGAAATGTGGACTGGGTCTCCACCCAGgtgagttacagtctttaaagcccgcccttggcactgaagagtttagatga Alignment from GeneWise ------GTCAGGTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG tcttcaaattcaactcagCTTCTTGTCGCCTTTTTGATC------TTTAGGGTGTGGGTGACACAGATGAACCATATCTCCATGCACATTGACCCAGACCGAAATGTGGACTGGGTCTCCACCCAGgtgagttacagtctttaaagcccgcccttggcactgaagagtttagatga #### Fads1_ID2696_10 --> 0 - 2 Original Alignment CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca atgatcctacactctgacatggaaatctgatatctttgttttcttcgcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACAC---------------------cagtaatcgcagatacccgggaatctttcaaattgtcaggacgcacaggggt Alignment from CESAR CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca atgatcctacactctgacatggaaatctgatatctttgttttcttcgcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGA---------------------CACcagtaatcgcagatacccgggaatctttcaaattgtcaggacgcacaggggt Alignment from Spaln_aa2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA atgatcctacactctgacatggaaatctgatatctttgttttcttcgcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGA---------------------CACCAgtaatcgcagatacccgggaatctttcaaattgtcaggacgcacaggggt Alignment from Spaln_nt2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATT-----GAACACCACC---- atgatcctacactctgacatggaaatctgatatctttgttttcttcgcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCAGTAATCGCAGATACCCGGGAATCTTTCAAATTgtcaggacgcacaggggt Alignment from Pairagon CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA atgatcctacactctgacatggaaatctgatatctttgttttcttcgcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGG---------------------ACACCAgtaatcgcagatacccgggaatctttcaaattgtcaggacgcacaggggt Alignment from Exonerate_protein2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAA atgatcctacactctgacatggaaatctgatatctttgttttcttcgcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCAGTAATCGCAGATACCCgggaatctttcaaattgtcaggacgcacaggggt Alignment from Exonerate_coding2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAA atgatcctacactctgacatggaaatctgatatctttgttttcttcgcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGACACCAGTAATCGCAGATACCCgggaatctttcaaattgtcaggacgcacaggggt Alignment from GeneWise CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA atgatcctacactctgacatggaaatctgatatctttgttttcttcgcagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGTGGA---------------------CACCAgtaatcgcagatacccgggaatctttcaaattgtcaggacgcacaggggt #### Fads1_ID2697_11 --> 1 - 2 Original Alignment cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta caataagggattgacagggaagcaaaattactgacccatccccattgcagtGTCTTCCCCACAATGCCTCGCCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATCAAGTATGAGTCTAAACCC---------------------------tagtacgtatgaacgctgagctgacagtacccaaatctcaccaaatgaatca Alignment from CESAR cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta caataagggattgacagggaagcaaaattactgacccatccccattgcagtGTCTTCCCCACAATGCCTCGCCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATCAAGTATGAGTCTAAACCC---------------------------tagtacgtatgaacgctgagctgacagtacccaaatctcaccaaatgaatca Alignment from Spaln_aa2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCT caataagggattgacagggaagcaaaattactgacccatccccattgcagTGTCTTCCCCACAATGCCTCGCCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATCAAGTATGAGTCTAAACCCTAgtacgtatgaacgctgagctgacagtacccaaatctcaccaaatgaatca Alignment from Spaln_nt2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCC- caataagggattgacagggaagcaaaattactgacccatccccattgcagTGTCTTCCCCACAATGCCTCGCCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATCAAGTATGAGTCTAAACCCTAgtacgtatgaacgctgagctgacagtacccaaatctcaccaaatgaatca Alignment from Pairagon CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA caataagggattgacagggaagcaaaattactgacccatccccattgcagTGTCTTCCCCACAATGCCTCGCCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATCAAGTATGAGTCTAAACCC---------------------------TAgtacgtatgaacgctgagctgacagtacccaaatctcaccaaatgaatca Alignment from Exonerate_protein2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCC caataagggattgacagggaagcaaaattactgacccatccccattgcagTGTCTTCCCCACAATGCCTCGCCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATCAAGTATGAGTCTAAACCCtagtacgtatgaacgctgagctgacagtacccaaatctcaccaaatgaatca Alignment from Exonerate_coding2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCC caataagggattgacagggaagcaaaattactgacccatccccattgcagTGTCTTCCCCACAATGCCTCGCCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATCAAGTATGAGTCTAAACCCtagtacgtatgaacgctgagctgacagtacccaaatctcaccaaatgaatca Alignment from GeneWise CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCC caataagggattgacagggaagcaaaattactgacccatccccattgcagTGTCTTCCCCACAATGCCTCGCCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATCAAGTATGAGTCTAAACCCtagtacgtatgaacgctgagctgacagtacccaaatctcaccaaatgaatca #### Fads3_ID2662_5 --> 0 - 0 Original Alignment GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG ttcagcccgtgcggaccggatcgttccccctgcctgcctcgctctctaag---------------------AATTTCCGTCACTTCAAGCATCATGCCAAACCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCACCTGTCTTCCTTCTTGGCGTATCATCTGTAGAGgtaagaggtagttttgtcccccacagctcacgaggcccactggagactga Alignment from CESAR GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG taccaggctggagcacaacaattcaccccctgcctgcctcgctctctaag---------------------AATTTCCGTCACTTCAAGCATCATGCCAAACCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCACCTGTCTTCCTTCTTGGCGTATCATCTGTAGAGgtaagaggtagttttgtcccccacagctcacgaggcccactggagactga Alignment from Spaln_aa2Genome AATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG ttcagcccgtgcggaccggatcgttccccctgcctgcctcgctctctaagAATTTCCGTCACTTCAAGCATCATGCCAAACCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCACCTGTCTTCCTTCTTGGCGTATCATCTGTAGAGgtaagaggtagttttgtcccccacagctcacgaggcccactggagactga Alignment from Spaln_nt2Genome AATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG ttcagcccgtgcggaccggatcgttccccctgcctgcctcgctctctaagAATTTCCGTCACTTCAAGCATCATGCCAAACCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCACCTGTCTTCCTTCTTGGCGTATCATCTGTAGAGgtaagaggtagttttgtcccccacagctcacgaggcccactggagactga Alignment from Pairagon GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG ttcagcccgtgcggaccggatcgttccccctgcctgcctcgctctctaag---------------------AATTTCCGTCACTTCAAGCATCATGCCAAACCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCACCTGTCTTCCTTCTTGGCGTATCATCTGTAGAGgtaagaggtagttttgtcccccacagctcacgaggcccactggagactga Alignment from Exonerate_protein2genome GAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG ttcagcccgtgcggaccggatcgttccccctgcctgcctcgctctctaaGAATTTCCGTCACTTCAAGCATCATGCCAAACCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCACCTGTCTTCCTTCTTGGCGTATCATCTGTAGAGgtaagaggtagttttgtcccccacagctcacgaggcccactggagactga Alignment from Exonerate_coding2genome GAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG ttcagcccgtgcggaccggatcgttccccctgcctgcctcgctctctaaGAATTTCCGTCACTTCAAGCATCATGCCAAACCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCACCTGTCTTCCTTCTTGGCGTATCATCTGTAGAGgtaagaggtagttttgtcccccacagctcacgaggcccactggagactga Alignment from GeneWise AATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG ttcagcccgtgcggaccggatcgttccccctgcctgcctcgctctctaagAATTTCCGTCACTTCAAGCATCATGCCAAACCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCACCTGTCTTCCTTCTTGGCGTATCATCTGTAGAGgtaagaggtagttttgtcccccacagctcacgaggcccactggagactga #### Fads3_ID2664_7 --> 2 - 0 Original Alignment ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG--------- taccatttgtatagcccactccccagtggagacctcgcgtgtgtccacagttGGCCCTCCACTGCTCACATTAGTGAACTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGTGGACTGGCCCAAACgtaggaagattgtgctcaagatctaaggtgtgataggtgtatgctgctga Alignment from CESAR ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG--------- taccatttgtatagcccactccccagtggagacctcgcgtgtgtccacagttGGCCCTCCACTGCTCACATTAGTGAACTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGTGGACTGGCCCAAACgtaggaagattgtgctcaagatctaaggtgtgataggtgtatgctgctga Alignment from Spaln_aa2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG--------- taccatttgtatagcccactccccagtggagacctcgcgtgtgtccacagTTGGCCCTCCACTGCTCACATTAGTGAACTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGTGGACTGGCCCAAACgtaggaagattgtgctcaagatctaaggtgtgataggtgtatgctgctga Alignment from Spaln_nt2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGAC-G taccatttgtatagcccactccccagtggagacctcgcgtgtgtccacagTTGGCCCTCCACTGCTCACATTAGTGAACTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGTGGACTGgcccaaacgtaggaagattgtgctcaagatctaaggtgtgataggtgtatgctgctga Alignment from Pairagon TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG--------- taccatttgtatagcccactccccagtggagacctcgcgtgtgtccacagTTGGCCCTCCACTGCTCACATTAGTGAACTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGTGGACTGGCCCAAACgtaggaagattgtgctcaagatctaaggtgtgataggtgtatgctgctga Alignment from Exonerate_protein2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG taccatttgtatagcccactccccagtggagacctcgcgtgtgtccacagTTGGCCCTCCACTGCTCACATTAGTGAACTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGTGGACTggcccaaacgtaggaagattgtgctcaagatctaaggtgtgataggtgtatgctgctga Alignment from Exonerate_coding2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG taccatttgtatagcccactccccagtggagacctcgcgtgtgtccacagTTGGCCCTCCACTGCTCACATTAGTGAACTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGTGGACTggcccaaacgtaggaagattgtgctcaagatctaaggtgtgataggtgtatgctgctga Alignment from GeneWise TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG--------- taccatttgtatagcccactccccagtggagacctcgcgtgtgtccacagTTGGCCCTCCACTGCTCACATTAGTGAACTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGTGGACTGGCCCAAACgtaggaagattgtgctcaagatctaaggtgtgataggtgtatgctgctga #### Fads3_ID2665_8 --> 0 - 2 Original Alignment ---------GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag ttctggccccccaggtccccagcgcaggattctttgggtctttttcccagTTTCCCTCCGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCCTGTCCTACTCACCCTTCTACGGGGCCACTGGGACGCTAATTCTCTTTGTTGCTGTCaggtaagtcgcaacatgctgtccattgaggtccacttaggtcttgctggcac Alignment from CESAR ---------GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag ttctggccccccaggtccccagcgcaggattctttgggtctttttcccagTTTCCCTCCGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCCTGTCCTACTCACCCTTCTACGGGGCCACTGGGACGCTAATTCTCTTTGTTGCTGTCaggtaagtcgcaacatgctgtccattgaggtccacttaggtcttgctggcac Alignment from Spaln_aa2Genome GACTTGCTGTGG---------GCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctggccccccaggtccccagcgcaggattctttgggtctttttcccagTTTCCCTCCGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCCTGTCCTACTCACCCTTCTACGGGGCCACTGGGACGCTAATTCTCTTTGTTGCTGTCAGgtaagtcgcaacatgctgtccattgaggtccacttaggtcttgctggcac Alignment from Spaln_nt2Genome CGGACTTGCTGTG-------GGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctggccccccaggtccccagcgcaggattctttgggtctttttcccagTTTCCCTCCGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCCTGTCCTACTCACCCTTCTACGGGGCCACTGGGACGCTAATTCTCTTTGTTGCTGTCAGgtaagtcgcaacatgctgtccattgaggtccacttaggtcttgctggcac Alignment from Pairagon ---------GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctggccccccaggtccccagcgcaggattctttgggtctttttcccagTTTCCCTCCGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCCTGTCCTACTCACCCTTCTACGGGGCCACTGGGACGCTAATTCTCTTTGTTGCTGTCAGgtaagtcgcaacatgctgtccattgaggtccacttaggtcttgctggcac Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctggccccccaggtccccagcgcaggattctttgggtctttttcccagtttccctccGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCCTGTCCTACTCACCCTTCTACGGGGCCACTGGGACGCTAATTCTCTTTGTTGCTGTCAGgtaagtcgcaacatgctgtccattgaggtccacttaggtcttgctggcac Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctggccccccaggtccccagcgcaggattctttgggtctttttcccagtttccctccGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCCTGTCCTACTCACCCTTCTACGGGGCCACTGGGACGCTAATTCTCTTTGTTGCTGTCAGgtaagtcgcaacatgctgtccattgaggtccacttaggtcttgctggcac Alignment from GeneWise ---------GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctggccccccaggtccccagcgcaggattctttgggtctttttcccagTTTCCCTCCGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCCTGTCCTACTCACCCTTCTACGGGGCCACTGGGACGCTAATTCTCTTTGTTGCTGTCAGgtaagtcgcaacatgctgtccattgaggtccacttaggtcttgctggcac #### Fads3_ID2666_9 --> 1 - 0 Original Alignment gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaattgaatcaaggatgctgttggtgtccttttgaacctccaggGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGAC---------------gtaagtactgttaagctgactcagacaatccctgatggaaaaacatacta Alignment from CESAR gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaattgaatcaaggatgctgttggtgtccttttgaacctccaggGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGAC---------------gtaagtactgttaagctgactcagacaatccctga Alignment from Spaln_aa2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaattgaatcaaggatgctgttggtgtccttttgaacctccagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGAC------GTAAGTACTgttaagctgactcagacaatccctgatggaaaaac Alignment from Spaln_nt2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGAC atggaataaattgaatcaaggatgctgttggtgtccttttgaacctccagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACgtaagtactgttaagctgactcagacaatccctgatggaaaaacatacta Alignment from Pairagon GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGAC atggaataaattgaatcaaggatgctgttggtgtccttttgaacctccagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACgtaagtactgttaagctgactcagacaatccctgatggaaaaacatacta Alignment from Exonerate_protein2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaattgaatcaaggatgctgttggtgtccttttgaacctccagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACGTAAGTACTGTTAAGctgactcagacaatccctgatggaaaaacatacta Alignment from Exonerate_coding2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaattgaatcaaggatgctgttggtgtccttttgaacctccagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACGTAAGTACTGTTAAGctgactcagacaatccctgatggaaaaacatacta Alignment from GeneWise GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGG- atggaataaattgaatcaaggatgctgttggtgtccttttgaacctccagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACGTAAgtactgttaagctgactcagacaatccctgatggaaaaacatacta #### Fads3_ID2667_10 --> 0 - 2 Original Alignment CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACca aaggtagcaaacaagttgtctctatgttcttccctgtctctcccttgcag---GCAGCCACCTGCAATGTTGAGTCATCACTTTTTATTGACTGGTTCAGTGGTCACCTCAATTTTCAAATTGAGCACtagtaattatggcatggaggggttacttgctggggtccagacctagagccga Alignment from CESAR CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACca gccaaggtagcaaacaagttgtctcgttcttccctgtctctcccttgcag---GCAGCCACCTGCAATGTTGAGTCATCACTTTTTATTGACTGGTTCAGTGGTCACCTCAATTTTCAAATTGAGCACtagtaattatggcatggaggggttacttgctggggtccagacctagagccga Alignment from Spaln_aa2Genome CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA aaggtagcaaacaagttgtctctatgttcttccctgtctctcccttgcag---GCAGCCACCTGCAATGTTGAGTCATCACTTTTTATTGACTGGTTCAGTGGTCACCTCAATTTTCAAATTGAGCACTAgtaattatggcatggaggggttacttgctggggtccagacctagagccga Alignment from Spaln_nt2Genome GCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA aaggtagcaaacaagttgtctctatgttcttccctgtctctcccttgcagGCAGCCACCTGCAATGTTGAGTCATCACTTTTTATTGACTGGTTCAGTGGTCACCTCAATTTTCAAATTGAGCACTAgtaattatggcatggaggggttacttgctggggtccagacctagagccga Alignment from Pairagon CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA aaggtagcaaacaagttgtctctatgttcttccctgtctctcccttgcag---GCAGCCACCTGCAATGTTGAGTCATCACTTTTTATTGACTGGTTCAGTGGTCACCTCAATTTTCAAATTGAGCACTAgtaattatggcatggaggggttacttgctggggtccagacctagagccga Alignment from Exonerate_protein2genome GCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA aaggtagcaaacaagttgtctctatgttcttccctgtctctcccttgcagGCAGCCACCTGCAATGTTGAGTCATCACTTTTTATTGACTGGTTCAGTGGTCACCTCAATTTTCAAATTGAGCACTAgtaattatggcatggaggggttacttgctggggtccagacctagagccga Alignment from Exonerate_coding2genome GCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA aaggtagcaaacaagttgtctctatgttcttccctgtctctcccttgcagGCAGCCACCTGCAATGTTGAGTCATCACTTTTTATTGACTGGTTCAGTGGTCACCTCAATTTTCAAATTGAGCACTAgtaattatggcatggaggggttacttgctggggtccagacctagagccga Alignment from GeneWise ---GCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA aaggtagcaaacaagttgtctctatgttcttccctgtctctcccttgcagGCAGCCACCTGCAATGTTGAGTCATCACTTTTTATTGACTGGTTCAGTGGTCACCTCAATTTTCAAATTGAGCACTAgtaattatggcatggaggggttacttgctggggtccagacctagagccga #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGG------gg ccatttatgctaaatctgacaagctccacttgtttctccttgtttctcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTTGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGGCGTTACCTCAGTCAGTGGACCCCTTAGACATTGAAACTGTGGAGGCAGTTAACTGGGTTTTGgggtaatcactcattctgtacatttgatgatgggtatcagggttcggtaagc Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGG------gg ccatttatgctaaatctgacaagctccacttgtttctccttgtttctcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTTGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGGCGTTACCTCAGTCAGTGGACCCCTTAGACATTGAAACTGTGGAGGCAGTTAACTGGGTTTTGgggtaatcactcattctgtacatttgatgatgggtatcagggttcggtaagc Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGGG----- ccatttatgctaaatctgacaagctccacttgtttctccttgtttctcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTTGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGGCGTTACCTCAGTCAGTGGACCCCTTAGACATTGAAACTGTGGAGGCAGTTAACTGGGTTTTGGGgtaatcactcattctgtacatttgatgatgggtatcagggttcggtaagc Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGG------G ccatttatgctaaatctgacaagctccacttgtttctccttgtttctcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTTGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGGCGTTACCTCAGTCAGTGGACCCCTTAGACATTGAAACTGTGGAGGCAGTTAACTGGGTTTTGGGgtaatcactcattctgtacatttgatgatgggtatcagggttcggtaagc Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTG------GGG ccatttatgctaaatctgacaagctccacttgtttctccttgtttctcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTTGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGGCGTTACCTCAGTCAGTGGACCCCTTAGACATTGAAACTGTGGAGGCAGTTAACTGGGTTTTGGGgtaatcactcattctgtacatttgatgatgggtatcagggttcggtaagc Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG ccatttatgctaaatctgacaagctccacttgtttctccttgtttctcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTTGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGGCGTTACCTCAGTCAGTGGACCCCTTAGACATTGAAACTGTGGAGGCAGTTAACTGGGTtttggggtaatcactcattctgtacatttgatgatgggtatcagggttcggtaagc Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG ccatttatgctaaatctgacaagctccacttgtttctccttgtttctcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTTGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGGCGTTACCTCAGTCAGTGGACCCCTTAGACATTGAAACTGTGGAGGCAGTTAACTGGGTtttggggtaatcactcattctgtacatttgatgatgggtatcagggttcggtaagc Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGGGTTG-- ccatttatgctaaatctgacaagctccacttgtttctccttgtttctcagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTTGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGGCGTTACCTCAGTCAGTGGACCCCTTAGACATTGAAACTGTGGAGGCAGTTAACTGGGTTTTGGGgtaatcactcattctgtacatttgatgatgggtatcagggttcggtaagc #### Fam160b1_ID12357_8 --> 1 - 0 Original Alignment gTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--------- ccctttgtccaaatcttgtgtacctttaaatttgttgctttcatcaataggTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGCACGTGCTCgttagtagcttgatattatattcatagtgtgtgtggtcattgagccgact Alignment from CESAR gTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--------- ccctttgtccaaatcttgtgtacctttaaatttgttgctttcatcaataggTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGCACGTGCTCgttagtagcttgatattatattcatagtgtgtgtggtcattgagccgact Alignment from Spaln_aa2Genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--- ccctttgtccaaatcttgtgtacctttaaatttgttgctttcatcaatagGTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGCACgtgctcgttagtagcttgatattatattcatagtgtgtgtggtcattgagccgact Alignment from Spaln_nt2Genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAA ccctttgtccaaatcttgtgtacctttaaatttgttgctttcatcaatagGTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAgcacgtgctcgttagtagcttgatattatattcatagtgtgtgtggtcattgagccgact Alignment from Pairagon GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--------- ccctttgtccaaatcttgtgtacctttaaatttgttgctttcatcaatagGTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGCACGTGCTCgttagtagcttgatattatattcatagtgtgtgtggtcattgagccgact Alignment from Exonerate_protein2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--- ccctttgtccaaatcttgtgtacctttaaatttgttgctttcatcaatagGTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGCACgtgctcgttagtagcttgatattatattcatagtgtgtgtggtcattgagccgact Alignment from Exonerate_coding2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--- ccctttgtccaaatcttgtgtacctttaaatttgttgctttcatcaatagGTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGCACgtgctcgttagtagcttgatattatattcatagtgtgtgtggtcattgagccgact Alignment from GeneWise GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACT ccctttgtccaaatcttgtgtacctttaaatttgttgctttcatcaatagGTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGCACgtgctcgttagtagcttgatattatattcatagtgtgtgtggtcattgagccgact #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ------------ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac ccattataccttggatgttataagttttaccttctgtgtcctccctacagGGAGAAGAAATAACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGacgtgagtgtcctctcacttcgcaggcaacaaaccatgctgtatcttttcct Alignment from CESAR ------------ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac ccattataccttggatgttataagttttaccttctgtgtcctccctacagGGAGAAGAAATAACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGacgtgagtgtcctctcacttcgcaggcaacaaaccatgctgtatcttttcct Alignment from Spaln_aa2Genome ACTGCTGCTGTTGCT------------CTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC ccattataccttggatgttataagttttaccttctgtgtcctccctacagGGAGAAGAAATAACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcacttcgcaggcaacaaaccatgctgtatcttttcct Alignment from Spaln_nt2Genome ACTGCTGCT------------GTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC ccattataccttggatgttataagttttaccttctgtgtcctccctacagGGAGAAGAAATAACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcacttcgcaggcaacaaaccatgctgtatcttttcct Alignment from Pairagon ------------ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC ccattataccttggatgttataagttttaccttctgtgtcctccctacagGGAGAAGAAATAACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcacttcgcaggcaacaaaccatgctgtatcttttcct Alignment from Exonerate_protein2genome ------------ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC ccattataccttggatgttataagttttaccttctgtgtcctccctacagGGAGAAGAAATAACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcacttcgcaggcaacaaaccatgctgtatcttttcct Alignment from Exonerate_coding2genome ------------ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC ccattataccttggatgttataagttttaccttctgtgtcctccctacagGGAGAAGAAATAACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcacttcgcaggcaacaaaccatgctgtatcttttcct Alignment from GeneWise ------------ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC ccattataccttggatgttataagttttaccttctgtgtcctccctacagGGAGAAGAAATAACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcacttcgcaggcaacaaaccatgctgtatcttttcct #### Fam160b1_ID12359_10 --> 1 - 0 Original Alignment c---------TCTGAGATGGGGATTCTGACCTCGACGGCCTTGCTGCACCGCATCGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGAAATGGTGGTCTTCATCCTCGGAGAACAGAGGGAGCCAGAAACTCTGTCAGAAATTAGCAGACATCCTCTAAGACATAGGTTAATCGAACATTGCGATCACATATCTGATGAG accatgctgtatcttttcctggtgctgttgtctctctttccttttgatagaGGCCCACTTTCTGAGATGGGAATTCTGACCTCAACTGCCCTGCTACACCGTATTGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGTTATGGTTGTCTTCATACTTGCAGAACAAAAAGAGCCAGAAACTTTGTCAGAGATTAGCAGACACCCACTAAGACATAGGTTAATTGAACATTGTGATCACATCTCTGATGAGgtaagtcacatcaagccgctgtgtacacatgtagcatggagatatgaggg Alignment from CESAR c---------TCTGAGATGGGGATTCTGACCTCGACGGCCTTGCTGCACCGCATCGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGAAATGGTGGTCTTCATCCTCGGAGAACAGAGGGAGCCAGAAACTCTGTCAGAAATTAGCAGACATCCTCTAAGACATAGGTTAATCGAACATTGCGATCACATATCTGATGAG accatgctgtatcttttcctggtgctgttgtctctctttccttttgatagaGGCCCACTTTCTGAGATGGGAATTCTGACCTCAACTGCCCTGCTACACCGTATTGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGTTATGGTTGTCTTCATACTTGCAGAACAAAAAGAGCCAGAAACTTTGTCAGAGATTAGCAGACACCCACTAAGACATAGGTTAATTGAACATTGTGATCACATCTCTGATGAGgtaagtcacatcaagccgctgtgtacacatgtagcatggagatatgaggg Alignment from Spaln_aa2Genome CTCTGAGATGGGG---------ATTCTGACCTCGACGGCCTTGCTGCACCGCATCGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGAAATGGTGGTCTTCATCCTCGGAGAACAGAGGGAGCCAGAAACTCTGTCAGAAATTAGCAGACATCCTCTAAGACATAGGTTAATCGAACATTGCGATCACATATCTGATGAG accatgctgtatcttttcctggtgctgttgtctctctttccttttgatagAGGCCCACTTTCTGAGATGGGAATTCTGACCTCAACTGCCCTGCTACACCGTATTGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGTTATGGTTGTCTTCATACTTGCAGAACAAAAAGAGCCAGAAACTTTGTCAGAGATTAGCAGACACCCACTAAGACATAGGTTAATTGAACATTGTGATCACATCTCTGATGAGgtaagtcacatcaagccgctgtgtacacatgtagcatggagatatgaggg Alignment from Spaln_nt2Genome CTCTGAGATG---------GGGATTCTGACCTCGACGGCCTTGCTGCACCGCATCGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGAAATGGTGGTCTTCATCCTCGGAGAACAGAGGGAGCCAGAAACTCTGTCAGAAATTAGCAGACATCCTCTAAGACATAGGTTAATCGAACATTGCGATCACATATCTGATGAG accatgctgtatcttttcctggtgctgttgtctctctttccttttgatagAGGCCCACTTTCTGAGATGGGAATTCTGACCTCAACTGCCCTGCTACACCGTATTGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGTTATGGTTGTCTTCATACTTGCAGAACAAAAAGAGCCAGAAACTTTGTCAGAGATTAGCAGACACCCACTAAGACATAGGTTAATTGAACATTGTGATCACATCTCTGATGAGgtaagtcacatcaagccgctgtgtacacatgtagcatggagatatgaggg Alignment from Pairagon ---------CTCTGAGATGGGGATTCTGACCTCGACGGCCTTGCTGCACCGCATCGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGAAATGGTGGTCTTCATCCTCGGAGAACAGAGGGAGCCAGAAACTCTGTCAGAAATTAGCAGACATCCTCTAAGACATAGGTTAATCGAACATTGCGATCACATATCTGATGAG accatgctgtatcttttcctggtgctgttgtctctctttccttttgatagAGGCCCACTTTCTGAGATGGGAATTCTGACCTCAACTGCCCTGCTACACCGTATTGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGTTATGGTTGTCTTCATACTTGCAGAACAAAAAGAGCCAGAAACTTTGTCAGAGATTAGCAGACACCCACTAAGACATAGGTTAATTGAACATTGTGATCACATCTCTGATGAGgtaagtcacatcaagccgctgtgtacacatgtagcatggagatatgaggg Alignment from Exonerate_protein2genome C---------TCTGAGATGGGGATTCTGACCTCGACGGCCTTGCTGCACCGCATCGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGAAATGGTGGTCTTCATCCTCGGAGAACAGAGGGAGCCAGAAACTCTGTCAGAAATTAGCAGACATCCTCTAAGACATAGGTTAATCGAACATTGCGATCACATATCTGATGAG accatgctgtatcttttcctggtgctgttgtctctctttccttttgatagAGGCCCACTTTCTGAGATGGGAATTCTGACCTCAACTGCCCTGCTACACCGTATTGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGTTATGGTTGTCTTCATACTTGCAGAACAAAAAGAGCCAGAAACTTTGTCAGAGATTAGCAGACACCCACTAAGACATAGGTTAATTGAACATTGTGATCACATCTCTGATGAGgtaagtcacatcaagccgctgtgtacacatgtagcatggagatatgaggg Alignment from Exonerate_coding2genome C---------TCTGAGATGGGGATTCTGACCTCGACGGCCTTGCTGCACCGCATCGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGAAATGGTGGTCTTCATCCTCGGAGAACAGAGGGAGCCAGAAACTCTGTCAGAAATTAGCAGACATCCTCTAAGACATAGGTTAATCGAACATTGCGATCACATATCTGATGAG accatgctgtatcttttcctggtgctgttgtctctctttccttttgatagAGGCCCACTTTCTGAGATGGGAATTCTGACCTCAACTGCCCTGCTACACCGTATTGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGTTATGGTTGTCTTCATACTTGCAGAACAAAAAGAGCCAGAAACTTTGTCAGAGATTAGCAGACACCCACTAAGACATAGGTTAATTGAACATTGTGATCACATCTCTGATGAGgtaagtcacatcaagccgctgtgtacacatgtagcatggagatatgaggg Alignment from GeneWise -------ACCTCTGAGATGGGGATTCTGACCTCGACGGCCTTGCTGCACCGCATCGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGAAATGGTGGTCTTCATCCTCGGAGAACAGAGGGAGCCAGAAACTCTGTCAGAAATTAGCAGACATCCTCTAAGACATAGGTTAATCGAACATTGCGATCACATATCTGATGAG accatgctgtatcttttcctggtgctgttgtctctctttccttttgatagAGGCCCACTTTCTGAGATGGGAATTCTGACCTCAACTGCCCTGCTACACCGTATTGTCCGGCAAGTGACCTCAGACGTCCTGCTTCAGGTTATGGTTGTCTTCATACTTGCAGAACAAAAAGAGCCAGAAACTTTGTCAGAGATTAGCAGACACCCACTAAGACATAGGTTAATTGAACATTGTGATCACATCTCTGATGAGgtaagtcacatcaagccgctgtgtacacatgtagcatggagatatgaggg #### Fas_ID6925_6 --> 2 - 1 Original Alignment gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTg gcccctgcttaagaaaattctgggtcttactcctcctctctcctctccaggt---------TGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTggtatttctaaaggtgttcggggtgaatattaaggtgatgttgagaagtag Alignment from CESAR gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTg cagtgatctgcccctgcttaagaaacttactcctcctctctcctctccaggt---------TGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTggtatttctaaaggtgttcggggtgaatattaaggtgatgttgagaagtag Alignment from Spaln_aa2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG gcccctgcttaagaaaattctgggtcttactcctcctctctcctctccagGT---------TGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGgtatttctaaaggtgttcggggtgaatattaaggtgatgttgagaagtag Alignment from Spaln_nt2Genome -TCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG gcccctgcttaagaaaattctgggtcttactcctcctctctcctctccagGTTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGgtatttctaaaggtgttcggggtgaatattaaggtgatgttgagaagtag Alignment from Pairagon GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG gcccctgcttaagaaaattctgggtcttactcctcctctctcctctccagG---------TTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGgtatttctaaaggtgttcggggtgaatattaaggtgatgttgagaagtag Alignment from Exonerate_protein2genome GAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG gcccctgcttaagaaaattctgggtcttactcctcctctctcctctccagGT---TGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGgtatttctaaaggtgttcggggtgaatattaaggtgatgttgagaagtag Alignment from Exonerate_coding2genome GAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG gcccctgcttaagaaaattctgggtcttactcctcctctctcctctccagGT---TGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGgtatttctaaaggtgttcggggtgaatattaaggtgatgttgagaagtag Alignment from GeneWise GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG gcccctgcttaagaaaattctgggtcttactcctcctctctcctctccagGT---------TGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGgtatttctaaaggtgttcggggtgaatattaaggtgatgttgagaagtag #### Fbxl15_ID9850_2 --> 1 - 0 Original Alignment gCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG acactgtaagatgcacttatcttgcagaccttctttttctgatgaatcagaCTCCTTGATCTGCCTTGGGAAGATGTGCTGCTCCTGCATGTTCTAAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTAGAGCCTTCGGGGCACTTATTCAGTTACATTTGGCAAGGCTGCGCCGCTTTGAT---------gtatggtgggagagctgttgattggggctgcccttgtccctgtgctgctt Alignment from CESAR gCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG acactgtaagatgcacttatcttgcagaccttctttttctgatgaatcagaCTCCTTGATCTGCCTTGGGAAGATGTGCTGCTCCTGCATGTTCTAAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTAGAGCCTTCGGGGCACTTATTCAGTTACATTTGGCAAGGCTGCGCCGCTTTGAT---------gtatggtgggagagctgttgattggggctgcccttgtccct Alignment from Spaln_aa2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGAC acactgtaagatgcacttatcttgcagaccttctttttctgatgaatcagACTCCTTGATCTGCCTTGGGAAGATGTGCTGCTCCTGCATGTTCTAAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTAGAGCCTTCGGGGCACTTATTCAGTTACATTTGGCAAGGCTGCGCCGCTTTGATgtatggtgggagagctgttgattggggctgcccttgtccctgtgctgctt Alignment from Spaln_nt2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGC acactgtaagatgcacttatcttgcagaccttctttttctgatgaatcagACTCCTTGATCTGCCTTGGGAAGATGTGCTGCTCCTGCATGTTCTAAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTAGAGCCTTCGGGGCACTTATTCAGTTACATTTGGCAAGGCTGCGCCGCTTTGATGTATGgtgggagagctgttgattggggctgcccttgtccctgtgctgctt Alignment from Pairagon GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACG------------------------------------------------- acactgtaagatgcacttatcttgcagaccttctttttctgatgaatcagACTCCTTGATCTGCCTTGGGAAGATGTGCTGCTCCTGCATGTTCTAAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTAGAGCCTTCGGGGCACTTATTCAGTTACATTTGGCAAGGCTGCGCCGCTTTGATGTATGGTGGGAGAGCTGTTGATTGGGGCTGCCCTTGTCCCTGTGCTGCTT Alignment from Exonerate_protein2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGC acactgtaagatgcacttatcttgcagaccttctttttctgatgaatcagACTCCTTGATCTGCCTTGGGAAGATGTGCTGCTCCTGCATGTTCTAAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTAGAGCCTTCGGGGCACTTATTCAGTTACATTTGGCAAGGCTGCGCCGCTTTGATGTATGgtgggagagctgttgattggggctgcccttgtccctgtgctgctt Alignment from Exonerate_coding2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGC acactgtaagatgcacttatcttgcagaccttctttttctgatgaatcagACTCCTTGATCTGCCTTGGGAAGATGTGCTGCTCCTGCATGTTCTAAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTAGAGCCTTCGGGGCACTTATTCAGTTACATTTGGCAAGGCTGCGCCGCTTTGATGTATGgtgggagagctgttgattggggctgcccttgtccctgtgctgctt Alignment from GeneWise GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGAC acactgtaagatgcacttatcttgcagaccttctttttctgatgaatcagACTCCTTGATCTGCCTTGGGAAGATGTGCTGCTCCTGCATGTTCTAAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTAGAGCCTTCGGGGCACTTATTCAGTTACATTTGGCAAGGCTGCGCCGCTTTGATgtatggtgggagagctgttgattggggctgcccttgtccctgtgctgctt #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG agtctcatgagtcagggcatggtctgtttgacatgtcccctctctcttag------CCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAAGGTGTTTCCCAACAAgtgagatcagactctcccatgcctgggtttgtctatccattccaggcttg Alignment from CESAR GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggcagtttgacatgtcccctctctcttag------CCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAAGGTGTTTCCCAACAAgtgagatcagactctcccatgcctgggtttgtctatccattccaggcttg Alignment from Spaln_aa2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG agtctcatgagtcagggcatggtctgtttgacatgtcccctctctcttag------CCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAAGGTGTTTCCCAACAAgtgagatcagactctcccatgcctgggtttgtctatccattccaggcttg Alignment from Spaln_nt2Genome CCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG agtctcatgagtcagggcatggtctgtttgacatgtcccctctctcttagCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAAGGTGTTTCCCAACAAgtgagatcagactctcccatgcctgggtttgtctatccattccaggcttg Alignment from Pairagon GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG agtctcatgagtcagggcatggtctgtttgacatgtcccctctctcttag------CCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAAGGTGTTTCCCAACAAgtgagatcagactctcccatgcctgggtttgtctatccattccaggcttg Alignment from Exonerate_protein2genome CCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG agtctcatgagtcagggcatggtctgtttgacatgtcccctctctcttagCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAAGGTGTTTCCCAACAAgtgagatcagactctcccatgcctgggtttgtctatccattccaggcttg Alignment from Exonerate_coding2genome CCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG agtctcatgagtcagggcatggtctgtttgacatgtcccctctctcttagCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAAGGTGTTTCCCAACAAgtgagatcagactctcccatgcctgggtttgtctatccattccaggcttg Alignment from GeneWise CCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG agtctcatgagtcagggcatggtctgtttgacatgtcccctctctcttagCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAAGGTGTTTCCCAACAAgtgagatcagactctcccatgcctgggtttgtctatccattccaggcttg #### Fibp_ID1008_5 --> 1 - 1 Original Alignment g---GATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg gcataaaaaagaatttctggtccaaagatcctctgtattgtatattgcaggGTGGATTATGCAGCTATTGTCTTCTTTGCCAATAACGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGCGAGGCCCCAACTGATCCAggtgatcaaactccacacccctcatggaactagctaccttgtgtcagttta Alignment from CESAR g---GATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg gcataaaaaagaatttctggtccaaagatcctctgtattgtatattgcaggGTGGATTATGCAGCTATTGTCTTCTTTGCCAATAACGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGCGAGGCCCCAACTGATCCAggtgatcaaactccacacccctcatggaactagctaccttgtgtcagttta Alignment from Spaln_aa2Genome GGATTACGCAGCC---ATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG gcataaaaaagaatttctggtccaaagatcctctgtattgtatattgcagGGTGGATTATGCAGCTATTGTCTTCTTTGCCAATAACGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGCGAGGCCCCAACTGATCCAGgtgatcaaactccacacccctcatggaactagctaccttgtgtcagttta Alignment from Spaln_nt2Genome GG---ATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG gcataaaaaagaatttctggtccaaagatcctctgtattgtatattgcagGGTGGATTATGCAGCTATTGTCTTCTTTGCCAATAACGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGCGAGGCCCCAACTGATCCAGgtgatcaaactccacacccctcatggaactagctaccttgtgtcagttta Alignment from Pairagon ---GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG gcataaaaaagaatttctggtccaaagatcctctgtattgtatattgcagGGTGGATTATGCAGCTATTGTCTTCTTTGCCAATAACGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGCGAGGCCCCAACTGATCCAGgtgatcaaactccacacccctcatggaactagctaccttgtgtcagttta Alignment from Exonerate_protein2genome G---GATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG gcataaaaaagaatttctggtccaaagatcctctgtattgtatattgcagGGTGGATTATGCAGCTATTGTCTTCTTTGCCAATAACGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGCGAGGCCCCAACTGATCCAGgtgatcaaactccacacccctcatggaactagctaccttgtgtcagttta Alignment from Exonerate_coding2genome G---GATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG gcataaaaaagaatttctggtccaaagatcctctgtattgtatattgcagGGTGGATTATGCAGCTATTGTCTTCTTTGCCAATAACGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGCGAGGCCCCAACTGATCCAGgtgatcaaactccacacccctcatggaactagctaccttgtgtcagttta Alignment from GeneWise -AGGGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG gcataaaaaagaatttctggtccaaagatcctctgtattgtatattgcagGGTGGATTATGCAGCTATTGTCTTCTTTGCCAATAACGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGCGAGGCCCCAACTGATCCAGgtgatcaaactccacacccctcatggaactagctaccttgtgtcagttta #### Fibp_ID1011_8 --> 0 - 0 Original Alignment AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG cccacattaaaagcaggaggcagaaccactgagggaccttgttcttgcagAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAG---gtgagtagaagtgcttagatgtgtggcagtcacgggaccaggggcagggc Alignment from CESAR AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG cccacattaaaagcaggaggcagaaccactgagggaccttgttcttgcagAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAG---gtgagtagaagtgcttagatgtgtggcagtcacgggaccaggggcag Alignment from Spaln_aa2Genome AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAG cccacattaaaagcaggaggcagaaccactgagggaccttgttcttgcagAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGgtgagtagaagtgcttagatgtgtggcagtcacgggaccaggggcagggc Alignment from Spaln_nt2Genome AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAG cccacattaaaagcaggaggcagaaccactgagggaccttgttcttgcagAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGgtgagtagaagtgcttagatgtgtggcagtcacgggaccaggggcagggc Alignment from Pairagon AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAG cccacattaaaagcaggaggcagaaccactgagggaccttgttcttgcagAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGgtgagtagaagtgcttagatgtgtggcagtcacgggaccaggggcagggc Alignment from Exonerate_protein2genome AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG cccacattaaaagcaggaggcagaaccactgagggaccttgttcttgcagAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAG---gtgagtagaagtgcttagatgtgtggcagtcacgggaccaggggcag Alignment from Exonerate_coding2genome AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG cccacattaaaagcaggaggcagaaccactgagggaccttgttcttgcagAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAG---gtgagtagaagtgcttagatgtgtggcagtcacgggaccaggggcag Alignment from GeneWise AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG cccacattaaaagcaggaggcagaaccactgagggaccttgttcttgcagAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTG---GAGgtgagtagaagtgcttagatgtgtggcagtcacgggaccaggggcagggc #### Frmd8_ID1284_4 --> 2 - 0 Original Alignment atGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG agcctagggaactaggatatgactctctattctgacacccatctctgcagat---------CTTCACTTCCGAAGGAATGTTTTTTTCCCCAGGCAGCGTGAGCTCCAGgtgagccaggacttgggcatatcaaagtgttccagtatgtcaatgccagt Alignment from CESAR atGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG ggctgcctcagcctagggaactaggtctattctgacacccatctctgcagat---------CTTCACTTCCGAAGGAATGTTTTTTTCCCCAGGCAGCGTGAGCTCCAGgtgagccaggacttgggcatatcaaagtgttccagtatgtcaatgccagt Alignment from Spaln_aa2Genome CCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG agcctagggaactaggatatgactctctattctgacacccatctctgcagATCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGGCAGCGTGAGCTCCAGgtgagccaggacttgggcatatcaaagtgttccagtatgtcaatgccagt Alignment from Spaln_nt2Genome C-CTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG agcctagggaactaggatatgactctctattctgacacccatctctgcagATCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGGCAGCGTGAGCTCCAGgtgagccaggacttgggcatatcaaagtgttccagtatgtcaatgccagt Alignment from Pairagon ATGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG agcctagggaactaggatatgactctctattctgacacccatctctgcagAT---------CTTCACTTCCGAAGGAATGTTTTTTTCCCCAGGCAGCGTGAGCTCCAGgtgagccaggacttgggcatatcaaagtgttccagtatgtcaatgccagt Alignment from Exonerate_protein2genome TGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG agcctagggaactaggatatgactctctattctgacacccatCTCTGCAGATCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGGCAGCGTGAGCTCCAGgtgagccaggacttgggcatatcaaagtgttccagtatgtcaatgccagt Alignment from Exonerate_coding2genome TGAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG agcctagggaactaggatatgactctctattctgacacccatCTCTGCAGATCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGGCAGCGTGAGCTCCAGgtgagccaggacttgggcatatcaaagtgttccagtatgtcaatgccagt Alignment from GeneWise CCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG agcctagggaactaggatatgactctctattctgacacccatctctgcagATCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGGCAGCGTGAGCTCCAGgtgagccaggacttgggcatatcaaagtgttccagtatgtcaatgccagt #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--- tgctggctaggactaatgattaggatgaacacttactttatttgctttagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCGACTGACAAGAATGACCCCCATATTgtgagcaacagttgggtggaggagatgatttgctaggacctgggagacct Alignment from CESAR AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--- tgctggctaggactaatgattaggatgaacacttactttatttgctttagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCGACTGACAAGAATGACCCCCATATTgtgagcaacagttgggtggaggagatgatttgctaggacctgggagacct Alignment from Spaln_aa2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--- tgctggctaggactaatgattaggatgaacacttactttatttgctttagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCGACTGACAAGAATGACCCCCATATTgtgagcaacagttgggtggaggagatgatttgctaggacctgggagacct Alignment from Spaln_nt2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--- tgctggctaggactaatgattaggatgaacacttactttatttgctttagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCGACTGACAAGAATGACCCCCATATTgtgagcaacagttgggtggaggagatgatttgctaggacctgggagacct Alignment from Pairagon AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--- tgctggctaggactaatgattaggatgaacacttactttatttgctttagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCGACTGACAAGAATGACCCCCATATTgtgagcaacagttgggtggaggagatgatttgctaggacctgggagacct Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--- tgctggctaggactaatgattaggatgaacacttactttatttgctttagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCGACTGACAAGAATGACCCCCATATTgtgagcaacagttgggtggaggagatgatttgctaggacctgggagacct Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--- tgctggctaggactaatgattaggatgaacacttactttatttgctttagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCGACTGACAAGAATGACCCCCATATTgtgagcaacagttgggtggaggagatgatttgctaggacctgggagacct Alignment from GeneWise AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCACTTA tgctggctaggactaatgattaggatgaacacttactttatttgctttagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCGACTGACAAGAATGACCCCCATATTgtgagcaacagttgggtggaggagatgatttgctaggacctgggagacct #### Gal_ID62_4 --> 2 - 1 Original Alignment gaAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAAg aagggggtggtcaggaagtggcctgtaattttgtgtcttgaatatcctaggaAGTGTTGATGTGCCCCTGCCTGAGAGTATCATTGTTCGCACTATAATG---------------------------ggtaagacaacaacttttctctaaagtattattcgtctcgcaaggaaaagt Alignment from CESAR gaAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAAg aagggggtggtcaggaagtggcctgtaattttgtgtcttgaatatcctaggaAGTGTTGATGTGCCCCTGCCTGAGAGTATCATTGTTCGCACTATAATG---------------------------ggtaagacaacaacttttctctaaagtattattcgtctcgcaaggaaaagt Alignment from Spaln_aa2Genome GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGG A aagggggtggtcaggaagtggcctgtaattttgtgtcttgaatatcctagGAAGTGTTGATGTGCCCCTGCCTGAGAGTATCATTGTTCGCACTATAATGGgtaagacaacaacttttctctaaagtattattcgtctcgcaaggaaaagT Alignment from Spaln_nt2Genome GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGG aagggggtggtcaggaagtggcctgtaattttgtgtcttgaatatcctagGAAGTGTTGATGTGCCCCTGCCTGAGAGTATCATTGTTCGCACTATAATGGgtaagacaacaacttttctctaaagtattattcgtctcgcaaggaaaagt Alignment from Pairagon GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGG aagggggtggtcaggaagtggcctgtaattttgtgtcttgaatatcctagGAAGTGTTGATGTGCCCCTGCCTGAGAGTATCATTGTTCGCACTATAATGGgtaagacaacaacttttctctaaagtattattcgtctcgcaaggaaaagt Alignment from Exonerate_protein2genome GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATG---GAGTTTCTCAGTTTCTTGCACC aagggggtggtcaggaagtggcctgtaattttgtgtcttgaatatcctagGAAGTGTTGATGTGCCCCTGCCTGAGAGTATCATTGTTCGCACTATAATGGGTAAGACAACAACTTTTCTCTAAAgtattattcgtctcgcaaggaaaagt Alignment from Exonerate_coding2genome GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATG---GAGTTTCTCAGTTTCTTGCACC aagggggtggtcaggaagtggcctgtaattttgtgtcttgaatatcctagGAAGTGTTGATGTGCCCCTGCCTGAGAGTATCATTGTTCGCACTATAATGGGTAAGACAACAACTTTTCTCTAAAgtattattcgtctcgcaaggaaaagt Alignment from GeneWise aagggggtggtcaggaagtggcctgtaattttgtgtcttgaatatcctaggaagtgttgatgtgcccctgcctgagagtatcattgttcgcactataatgggtaagacaacaacttttctctaaagtattattcgtctcgcaaggaaaagt #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT---ga catgtaattgggcaagaccaaagagtcgttaacagaatttgtctttataggtCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAGCATGCTGACAGCTTGAGACTGAAGGTCACTCACgagtaggtccatgctaaatagggttaacaaaggtgatgaaaaaccaaagttt Alignment from CESAR gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT---ga tatggaattgggcaagaccaaagagtcgttaacagaatttgtctttataggtCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAGCATGCTGACAGCTTGAGACTGAAGGTCACTCACgagtaggtccatgctaaatagggttaacaaaggtgatgaaaaaccaaagttt Alignment from Spaln_aa2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGAG-- catgtaattgggcaagaccaaagagtcgttaacagaatttgtctttatagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAGCATGCTGACAGCTTGAGACTGAAGGTCACTCACGAgtaggtccatgctaaatagggttaacaaaggtgatgaaaaaccaaagttt Alignment from Spaln_nt2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT---GA catgtaattgggcaagaccaaagagtcgttaacagaatttgtctttatagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAGCATGCTGACAGCTTGAGACTGAAGGTCACTCACGAgtaggtccatgctaaatagggttaacaaaggtgatgaaaaaccaaagttt Alignment from Pairagon C---------------------------------------------------CCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT---GA CATGTAATTGGGCAAGACCAAAGAGTCGTTAACAGAATTTGTCTTTATAGGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAGCATGCTGACAGCTTGAGACTGAAGGTCACTCACGAgtaggtccatgctaaatagggttaacaaaggtgatgaaaaaccaaagttt Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT---GA catgtaattgggcaagaccaaagagtcgttaacagaatttgtctttatagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAGCATGCTGACAGCTTGAGACTGAAGGTCACTCACGAgtaggtccatgctaaatagggttaacaaaggtgatgaaaaaccaaagttt Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT---GA catgtaattgggcaagaccaaagagtcgttaacagaatttgtctttatagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAGCATGCTGACAGCTTGAGACTGAAGGTCACTCACGAgtaggtccatgctaaatagggttaacaaaggtgatgaaaaaccaaagttt Alignment from GeneWise -------------------------------------------------GGCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGAG-- CATGTAATTGGGCAAGACCAAAGAGTCGTTAACAGAATTTGTCTTTATAGGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATACGGGATCCCTGAGCATGCTGACAGCTTGAGACTGAAGGTCACTCACGAgtaggtccatgctaaatagggttaacaaaggtgatgaaaaaccaaagttt #### Ganab_ID2474_13 --> 0 - 1 Original Alignment CTGGTGGCCATTGTGGACCCCCACATCAAGGTA------GACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCA------------------g ggatggccatggtagtctaaacaatttcgttgtgtcccctgtgtccccagCTAGTTGCTACTGTGGACCCCCATATCAAGGTTAAAGTAGACTCCGGCTACCGAGTTCATGAAGAGTTGCAAAACCATGGCCTGTACATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGTGTTGGCCAGATGACCTGAGAGGAACAggtaagttctgctgtcaatgaaatagtcatttttatgatctttttctctta Alignment from CESAR CTGGTGGCCATTGTGGACCCCCACATCAAG------GTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCA------------------g ggatggccatggtagtctaaacaatttcgttgtgtcccctgtgtccccagCTAGTTGCTACTGTGGACCCCCATATCAAGGTTAAAGTAGACTCCGGCTACCGAGTTCATGAAGAGTTGCAAAACCATGGCCTGTACATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGTGTTGGCCAGATGACCTGAGAGGAACAggtaagttctgctgtcaatgaaatagtcattgttatggttttgttttgtca Alignment from Spaln_aa2Genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG ggatggccatggtagtctaaacaatttcgttgtgtcccctgtgtccccagCTAGTTGCTACTGTGGACCCCCATATCAAGGTTAAAGTAGACTCCGGCTACCGAGTTCATGAAGAGTTGCAAAACCATGGCCTGTACATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGTGTTGGCCAGatgacctgagaggaacaggtaagttctgctgtcaatgaaatagtcatttttatgatctttttctctta Alignment from Spaln_nt2Genome CTGGTGGCCATTGTGGACCCCCACATCAAG------GTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG------------GCTCAG ggatggccatggtagtctaaacaatttcgttgtgtcccctgtgtccccagCTAGTTGCTACTGTGGACCCCCATATCAAGGTTAAAGTAGACTCCGGCTACCGAGTTCATGAAGAGTTGCAAAACCATGGCCTGTACATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGTGTTGGCCAGATGACCTGAGAGGAACAGgtaagttctgctgtcaatgaaatagtcatttttatgatctttttctctta Alignment from Pairagon CTGGTGGCCATTGTGGACCCCCACATCAAG------GTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCC---------------------------------------------------------------------A ggatggccatggtagtctaaacaatttcgttgtgtcccctgtgtccccagCTAGTTGCTACTGTGGACCCCCATATCAAGGTTAAAGTAGACTCCGGCTACCGAGTTCATGAAGAGTTGCAAAACCATGGCCTGTACATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGTGTTGGCCAGATGACCTGAGAGGAACAGGTAAGTTCTGCTGTCAATGAAATAGTCATTTTTATGATCTTTTTCTCTTA Alignment from Exonerate_protein2genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG ggatggccatggtagtctaaacaatttcgttgtgtcccctgtgtccccagCTAGTTGCTACTGTGGACCCCCATATCAAGGTTAAAGTAGACTCCGGCTACCGAGTTCATGAAGAGTTGCAAAACCATGGCCTGTACATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGTGTTGGCCAGatgacctgagaggaacaggtaagttctgctgtcaatgaaatagtcatttttatgatctttttctctta Alignment from Exonerate_coding2genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCAG ggatggccatggtagtctaaacaatttcgttgtgtcccctgtgtccccagCTAGTTGCTACTGTGGACCCCCATATCAAGGTTAAAGTAGACTCCGGCTACCGAGTTCATGAAGAGTTGCAAAACCATGGCCTGTACATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGTGTTGGCCAGatgacctgagaggaacaggtaagttctgctgtcaatgaaatagtcatttttatgatctttttctctta Alignment from GeneWise CTGGTGGCCATTGTGGACCCCCACATCAAGGTA------GACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCA------------GGCTCAG ggatggccatggtagtctaaacaatttcgttgtgtcccctgtgtccccagCTAGTTGCTACTGTGGACCCCCATATCAAGGTTAAAGTAGACTCCGGCTACCGAGTTCATGAAGAGTTGCAAAACCATGGCCTGTACATTAAGACTCGAGATGGCTCTGATTATGAGGGCTGGTGTTGGCCAGATGACCTGAGAGGAACAGgtaagttctgctgtcaatgaaatagtcatttttatgatctttttctctta #### Ganab_ID2475_14 --> 2 - 0 Original Alignment gcTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG taagttctgctgtcaatgaaatagtcattgttatggttttgttttgtcaggcTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGAC---------gtgagtatccaccaggtctggtaatgttgatcatcattatcctgttgatc Alignment from CESAR gcTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG taagttctgctgtcaatgaaatagtcattgttatggttttgttttgtcaggcTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGAC---------gtgagtatccaccaggtctggtaatgttgatcatcattatc Alignment from Spaln_aa2Genome GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGAC------AATTATGAG taagttctgctgtcaatgaaatagtcattgttatggttttgttttgtcagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACGTGAGTATCCACCAGgtctggtaatgttgatcatcattatcctgttgatc Alignment from Spaln_nt2Genome GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACA--ATTATG----AG taagttctgctgtcaatgaaatagtcattgttatggttttgttttgtcagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACGTGAGTATCCACCAGgtctggtaatgttgatcatcattatcctgttgatc Alignment from Pairagon GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGAC taagttctgctgtcaatgaaatagtcattgttatggttttgttttgtcagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACgtgagtatccaccaggtctggtaatgttgatcatcattatcctgttgatc Alignment from Exonerate_protein2genome GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGAC taagttctgctgtcaatgaaatagtcattgttatggttttgttttgtcagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACgtgagtatccaccaggtctggtaatgttgatcatcattatcctgttgatc Alignment from Exonerate_coding2genome GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGAC taagttctgctgtcaatgaaatagtcattgttatggttttgttttgtcagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACgtgagtatccaccaggtctggtaatgttgatcatcattatcctgttgatc Alignment from GeneWise GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAAT------TATGAG taagttctgctgtcaatgaaatagtcattgttatggttttgttttgtcagGCTCAGCTAGTTACCCTGACTACACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACGTGAGTATCCACCAGgtctggtaatgttgatcatcattatcctgttgatc #### Ganab_ID2476_15 --> 0 - 0 Original Alignment GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG tgtttcctttttctccccctttacaagttacatttttcttttctttttag---TCAGCTCCTAATCTCTATGTCTGGAATGACATGAATGAACCTTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtaaatcagacaaaggggaaggcagtaaggcaaagggaatcagacagttg Alignment from CESAR GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG agttgtttcctttttctccccctttagttacatttttcttttctttttag---TCAGCTCCTAATCTCTATGTCTGGAATGACATGAATGAACCTTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtaaatcagacaaaggggaaggcagtaaggcaaagggaatcagacagttg Alignment from Spaln_aa2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG tgtttcctttttctccccctttacaagttacatttttcttttctttttag---TCAGCTCCTAATCTCTATGTCTGGAATGACATGAATGAACCTTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtaaatcagacaaaggggaaggcagtaaggcaaagggaatcagacagttg Alignment from Spaln_nt2Genome TCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG tgtttcctttttctccccctttacaagttacatttttcttttctttttagTCAGCTCCTAATCTCTATGTCTGGAATGACATGAATGAACCTTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtaaatcagacaaaggggaaggcagtaaggcaaagggaatcagacagttg Alignment from Pairagon GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG tgtttcctttttctccccctttacaagttacatttttcttttctttttag---TCAGCTCCTAATCTCTATGTCTGGAATGACATGAATGAACCTTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtaaatcagacaaaggggaaggcagtaaggcaaagggaatcagacagttg Alignment from Exonerate_protein2genome TCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG tgtttcctttttctccccctttacaagttacatttttcttttctttttagTCAGCTCCTAATCTCTATGTCTGGAATGACATGAATGAACCTTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtaaatcagacaaaggggaaggcagtaaggcaaagggaatcagacagttg Alignment from Exonerate_coding2genome TCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG tgtttcctttttctccccctttacaagttacatttttcttttctttttagTCAGCTCCTAATCTCTATGTCTGGAATGACATGAATGAACCTTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtaaatcagacaaaggggaaggcagtaaggcaaagggaatcagacagttg Alignment from GeneWise GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG tgtttcctttttctccccctttacaagttacatttttcttttctttttagTCA---GCTCCTAATCTCTATGTCTGGAATGACATGAATGAACCTTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtaaatcagacaaaggggaaggcagtaaggcaaagggaatcagacagttg #### Ganab_ID2477_16 --> 0 - 1 Original Alignment CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTT------g accagaaggcagatgggatttgttcttcccttttttttttttttttgtagCACATGGCAACTGCTGATGGGCTGATACAGTGCTCAGGGGGCATAGAGCGTTCCTTTGTGTTGAGTAGGGCTTTCTTCTCGGGTTCCCAGCGGTTTATAGAAggtaggctgttgaaactagggctgtagcttcagtcacctagcctggttaaa Alignment from CESAR CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTT------g accagaaggcagatgggatttgttcttcccttttttttttttttttgtagCACATGGCAACTGCTGATGGGCTGATACAGTGCTCAGGGGGCATAGAGCGTTCCTTTGTGTTGAGTAGGGCTTTCTTCTCGGGTTCCCAGCGGTTTATAGAAggtaggctgttgaaactagggctgtagcttcagtcacctagcctggttaaa Alignment from Spaln_aa2Genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTT------G accagaaggcagatgggatttgttcttcccttttttttttttttttgtagCACATGGCAACTGCTGATGGGCTGATACAGTGCTCAGGGGGCATAGAGCGTTCCTTTGTGTTGAGTAGGGCTTTCTTCTCGGGTTCCCAGCGGTTTATAGAAGgtaggctgttgaaactagggctgtagcttcagtcacctagcctggttaaa Alignment from Spaln_nt2Genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTT------G accagaaggcagatgggatttgttcttcccttttttttttttttttgtagCACATGGCAACTGCTGATGGGCTGATACAGTGCTCAGGGGGCATAGAGCGTTCCTTTGTGTTGAGTAGGGCTTTCTTCTCGGGTTCCCAGCGGTTTATAGAAGgtaggctgttgaaactagggctgtagcttcagtcacctagcctggttaaa Alignment from Pairagon CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTT------G accagaaggcagatgggatttgttcttcccttttttttttttttttgtagCACATGGCAACTGCTGATGGGCTGATACAGTGCTCAGGGGGCATAGAGCGTTCCTTTGTGTTGAGTAGGGCTTTCTTCTCGGGTTCCCAGCGGTTTATAGAAGgtaggctgttgaaactagggctgtagcttcagtcacctagcctggttaaa Alignment from Exonerate_protein2genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTT------G accagaaggcagatgggatttgttcttcccttttttttttttttttgtagCACATGGCAACTGCTGATGGGCTGATACAGTGCTCAGGGGGCATAGAGCGTTCCTTTGTGTTGAGTAGGGCTTTCTTCTCGGGTTCCCAGCGGTTTATAGAAGgtaggctgttgaaactagggctgtagcttcagtcacctagcctggttaaa Alignment from Exonerate_coding2genome CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTT------G accagaaggcagatgggatttgttcttcccttttttttttttttttgtagCACATGGCAACTGCTGATGGGCTGATACAGTGCTCAGGGGGCATAGAGCGTTCCTTTGTGTTGAGTAGGGCTTTCTTCTCGGGTTCCCAGCGGTTTATAGAAGgtaggctgttgaaactagggctgtagcttcagtcacctagcctggttaaa Alignment from GeneWise CACATGGCGACTGCTGATGGGCTAATACAGCGCTCTGGGGGCATAGAGCGTCCCTTTGTCCTGAGTAGGGCTTTCTTCTCAGGCTCCCAGCGCTTT------G accagaaggcagatgggatttgttcttcccttttttttttttttttgtagCACATGGCAACTGCTGATGGGCTGATACAGTGCTCAGGGGGCATAGAGCGTTCCTTTGTGTTGAGTAGGGCTTTCTTCTCGGGTTCCCAGCGGTTTATAGAAGgtaggctgttgaaactagggctgtagcttcagtcacctagcctggttaaa #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gtGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggtcccataagtgtgtataacatggtattctttgctctctccttccgcaggtGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCTGGCCAA------gtatccctacagcaccaaatatagcagccaaagggacaaaaacatagatg Alignment from CESAR gtGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggtcccataagtgtgtataacatggtattctttgctctctccttccgcaggtGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCTGGCCAA------gtatccctacagcaccaaatatagcagccaaagggacaaaaaca Alignment from Spaln_aa2Genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAA ggtcccataagtgtgtataacatggtattctttgctctctccttccgcagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCTGGCCAAgtatccctacagcaccaaatatagcagccaaagggacaaaaacatagatg Alignment from Spaln_nt2Genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAA ggtcccataagtgtgtataacatggtattctttgctctctccttccgcagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCTGGCCAAgtatccctacagcaccaaatatagcagccaaagggacaaaaacatagatg Alignment from Pairagon GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAA ggtcccataagtgtgtataacatggtattctttgctctctccttccgcagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCTGGCCAAgtatccctacagcaccaaatatagcagccaaagggacaaaaacatagatg Alignment from Exonerate_protein2genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggtcccataagtgtgtataacatggtattctttgctctctccttccgcagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCTGGCCAAGTATCCctacagcaccaaatatagcagccaaagggacaaaaacatagatg Alignment from Exonerate_coding2genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggtcccataagtgtgtataacatggtattctttgctctctccttccgcagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCTGGCCAAGTATCCctacagcaccaaatatagcagccaaagggacaaaaacatagatg Alignment from GeneWise GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggtcccataagtgtgtataacatggtattctttgctctctccttccgcagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCTGGC------CAAgtatccctacagcaccaaatatagcagccaaagggacaaaaacatagatg #### Ganab_ID2482_21 --> 0 - 0 Original Alignment ---GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagatgccctatgtaccgtgtgaatcattatctcctccctttcagATGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCAGTgtaatgatgactctctagccactatctctgtttgcttgttcactcctgga Alignment from CESAR ---GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagatgccctatgtaccgtgtgaatcattatctcctccctttcagATGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCAGTgtaatgatgactctctagccactatctctgtttgcttgttcactcctgga Alignment from Spaln_aa2Genome GTGTGGTAT---GACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagatgccctatgtaccgtgtgaatcattatctcctccctttcagATGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCAGTgtaatgatgactctctagccactatctctgtttgcttgttcactcctgga Alignment from Spaln_nt2Genome GTGTGGTATGA---CATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagatgccctatgtaccgtgtgaatcattatctcctccctttcagATGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCAGTgtaatgatgactctctagccactatctctgtttgcttgttcactcctgga Alignment from Pairagon ---GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagatgccctatgtaccgtgtgaatcattatctcctccctttcagATGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCAGTgtaatgatgactctctagccactatctctgtttgcttgttcactcctgga Alignment from Exonerate_protein2genome ---GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagatgccctatgtaccgtgtgaatcattatctcctccctttcagATGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCAGTgtaatgatgactctctagccactatctctgtttgcttgttcactcctgga Alignment from Exonerate_coding2genome ---GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagatgccctatgtaccgtgtgaatcattatctcctccctttcagATGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCAGTgtaatgatgactctctagccactatctctgtttgcttgttcactcctgga Alignment from GeneWise ---GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagatgccctatgtaccgtgtgaatcattatctcctccctttcagATGGTGTGGTATGATATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCAGTgtaatgatgactctctagccactatctctgtttgcttgttcactcctgga #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG tacttggaaggcatgaagtaggcttactctctgttcttctcttatctcag---CCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTCGTTGCTCTCAGTCCCCAGgtaggcatccaatcaatgagggctgacttaattatagactactttaagag Alignment from CESAR ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtgtacttggaaggcatgaagtaggactctctgttcttctcttatctcag---CCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTCGTTGCTCTCAGTCCCCAGgtaggcatccaatcaatgagggctgacttaattatagactactttaagag Alignment from Spaln_aa2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG tacttggaaggcatgaagtaggcttactctctgttcttctcttatctcagCCTGTGTTC---CAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTCGTTGCTCTCAGTCCCCAGgtaggcatccaatcaatgagggctgacttaattatagactactttaagag Alignment from Spaln_nt2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG tacttggaaggcatgaagtaggcttactctctgttcttctcttatctcag---CCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTCGTTGCTCTCAGTCCCCAGgtaggcatccaatcaatgagggctgacttaattatagactactttaagag Alignment from Pairagon ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG tacttggaaggcatgaagtaggcttactctctgttcttctcttatctcag---CCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTCGTTGCTCTCAGTCCCCAGgtaggcatccaatcaatgagggctgacttaattatagactactttaagag Alignment from Exonerate_protein2genome CCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG tacttggaaggcatgaagtaggcttactctctgttcttctcttatctcagCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTCGTTGCTCTCAGTCCCCAGgtaggcatccaatcaatgagggctgacttaattatagactactttaagag Alignment from Exonerate_coding2genome CCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG tacttggaaggcatgaagtaggcttactctctgttcttctcttatctcagCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTCGTTGCTCTCAGTCCCCAGgtaggcatccaatcaatgagggctgacttaattatagactactttaagag Alignment from GeneWise CCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG tacttggaaggcatgaagtaggcttactctctgttcttctcttatctcagCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTCGTTGCTCTCAGTCCCCAGgtaggcatccaatcaatgagggctgacttaattatagactactttaagag #### Ganab_ID2484_23 --> 0 - 2 Original Alignment GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTag ggtgaacacaccccctcattggcttaggatgtctccttccttctttctagGGTACTGCACAAGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACA---------aggtaggaggtgggcaaagagtcctctgtatgccttgcctccaagggctcag Alignment from CESAR GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTag ggtgaacacaccccctcattggcttaggatgtctccttccttctttctagGGTACTGCACAAGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACA---------aggtaggaggtgggcaaagagtcctctgtatgccttgcctccaagggctcag Alignment from Spaln_aa2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACT ggtgaacacaccccctcattggcttaggatgtctccttccttctttctagGGTACTGCACAAGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACAAGgtaggaggtgggcaaagagtcctctgtatgccttgcctccaagggctcag Alignment from Spaln_nt2Genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTG GTCTCTA ggtgaacacaccccctcattggcttaggatgtctccttccttctttctagGGTACTGCACAAGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACA-AGgtaggaggtgggcaaagagtcctctgtatgccttgcctccaagGGCTC-A Alignment from Pairagon GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACTGGTCTCTAG ggtgaacacaccccctcattggcttaggatgtctccttccttctttctagGGTACTGCACAAGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACA---------AGgtaggaggtgggcaaagagtcctctgtatgccttgcctccaagggctcag Alignment from Exonerate_protein2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACT ggtgaacacaccccctcattggcttaggatgtctccttccttctttctagGGTACTGCACAAGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACAAGgtaggaggtgggcaaagagtcctctgtatgccttgcctccaagggctcag Alignment from Exonerate_coding2genome GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACT ggtgaacacaccccctcattggcttaggatgtctccttccttctttctagGGTACTGCACAAGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACAAGgtaggaggtgggcaaagagtcctctgtatgccttgcctccaagggctcag Alignment from GeneWise GGTACTGCCCAAGGAGAGCTCTTTCTAGATGATGGACACACCTTTAACTATCAGACTCGCCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACACT ggtgaacacaccccctcattggcttaggatgtctccttccttctttctagGGTACTGCACAAGGAGAGCTCTTCCTGGATGATGGCCACACCTTTAACTATCAGACTCGGCATGAGTTCCTGTTGCGGCGGTTCTCTTTCTCTGGCAGCACAAGgtaggaggtgggcaaagagtcctctgtatgccttgcctccaagggctcag #### Gbf1_ID9799_18 --> 1 - 0 Original Alignment c------ACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttattttgttctgattactagtGAATATACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGgtaagaaacactagagaattaattgtagtgtaagaaacactaacacagga Alignment from CESAR c------ACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttattttgttctgattactagtGAATATACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGgtaagaaacactagagaattaattgtagtgtaagaaacactaacacagga Alignment from Spaln_aa2Genome C------ACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAG ctgttcattgtttcaaacctccgcaagttttattttgttctgattactagTGAATATACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGgtaagaaacactagagaattaattgtagtgtaagaaacactaacacagga Alignment from Spaln_nt2Genome CACCTTCAGC------TTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttattttgttctgattactagTGAATATACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGgtaagaaacactagagaattaattgtagtgtaagaaacactaacacagga Alignment from Pairagon ------CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttattttgttctgattactagTGAATATACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGgtaagaaacactagagaattaattgtagtgtaagaaacactaacacagga Alignment from Exonerate_protein2genome C------ACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttattttgttctgattactagTGAATATACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGgtaagaaacactagagaattaattgtagtgtaagaaacactaacacagga Alignment from Exonerate_coding2genome C------ACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttattttgttctgattactagTGAATATACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGgtaagaaacactagagaattaattgtagtgtaagaaacactaacacagga Alignment from GeneWise ----AGCACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttattttgttctgattactagTGAATATACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGgtaagaaacactagagaattaattgtagtgtaagaaacactaacacagga #### Gbf1_ID9803_22 --> 1 - 0 Original Alignment gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG--- gacctggtggatgttcactgggtgtttctttgatgcttctctgccaccaggAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGCACgtaatgtggaacaggaaaactagttagaggacaatgaacctcttcctcca Alignment from CESAR gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG--- gacctggtggatgttcactgggtgtttctttgatgcttctctgccaccaggAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGCACgtaatgtggaacaggaaaactagttagaggacaatgaacctcttcctcca Alignment from Spaln_aa2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG--- gacctggtggatgttcactgggtgtttctttgatgcttctctgccaccagGAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGCACgtaatgtggaacaggaaaactagttagaggacaatgaacctcttcctcca Alignment from Spaln_nt2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG--- gacctggtggatgttcactgggtgtttctttgatgcttctctgccaccagGAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGCACgtaatgtggaacaggaaaactagttagaggacaatgaacctcttcctcca Alignment from Pairagon GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG--- gacctggtggatgttcactgggtgtttctttgatgcttctctgccaccagGAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGCACgtaatgtggaacaggaaaactagttagaggacaatgaacctcttcctcca Alignment from Exonerate_protein2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG--- gacctggtggatgttcactgggtgtttctttgatgcttctctgccaccagGAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGCACgtaatgtggaacaggaaaactagttagaggacaatgaacctcttcctcca Alignment from Exonerate_coding2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG--- gacctggtggatgttcactgggtgtttctttgatgcttctctgccaccagGAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGCACgtaatgtggaacaggaaaactagttagaggacaatgaacctcttcctcca Alignment from GeneWise GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGTCT gacctggtggatgttcactgggtgtttctttgatgcttctctgccaccagGAAGTGTGCCACGATCTCTGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGCACgtaatgtggaacaggaaaactagttagaggacaatgaacctcttcctcca #### Gbf1_ID9804_23 --> 0 - 0 Original Alignment TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG--------- gcttttcctgtatggaacctaccctgactgtcttatctcttttaaaatagTCTATTGAAAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAGGCTATGGTTGAGCCATTATCTgtaagtcctaatagatcagcattaaaatgttacagcctgatctgtcccac Alignment from CESAR TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG--------- gcttttcctgtatggaacctaccctgactgtcttatctcttttaaaatagTCTATTGAAAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAGGCTATGGTTGAGCCATTATCTgtaagtcctaatagatcagcattaaaatgttacagcctgatctgtcccac Alignment from Spaln_aa2Genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG--------- gcttttcctgtatggaacctaccctgactgtcttatctcttttaaaatagTCTATTGAAAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAGGCTATGGTTGAGCCATTATCTgtaagtcctaatagatcagcattaaaatgttacagcctgatctgtcccac Alignment from Spaln_nt2Genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG--------- gcttttcctgtatggaacctaccctgactgtcttatctcttttaaaatagTCTATTGAAAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAGGCTATGGTTGAGCCATTATCTgtaagtcctaatagatcagcattaaaatgttacagcctgatctgtcccac Alignment from Pairagon TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG--------- gcttttcctgtatggaacctaccctgactgtcttatctcttttaaaatagTCTATTGAAAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAGGCTATGGTTGAGCCATTATCTgtaagtcctaatagatcagcattaaaatgttacagcctgatctgtcccac Alignment from Exonerate_protein2genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG gcttttcctgtatggaacctaccctgactgtcttatctcttttaaaatagTCTATTGAAAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAGGCTATGGTTGAGccattatctgtaagtcctaatagatcagcattaaaatgttacagcctgatctgtcccac Alignment from Exonerate_coding2genome TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATGGTGGAG gcttttcctgtatggaacctaccctgactgtcttatctcttttaaaatagTCTATTGAAAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAGGCTATGGTTGAGccattatctgtaagtcctaatagatcagcattaaaatgttacagcctgatctgtcccac Alignment from GeneWise TCTATTGAGAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTCCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCCAAGGCTATG gcttttcctgtatggaacctaccctgactgtcttatctcttttaaaatagTCTATTGAAAACCTTCCCAGTGTATTTGGAAGCAACCCTAAAGCCCACATAGCAGCCAAGACAGTATTTCATTTGGCCCATCGTCATGGTGACATCCTTCGGGAGGGCTGGAAGAATATCATGGAGGCCATGTTGCAGCTTTTCCGAGCCCAACTTTTACCTAAGGCTATGgttgagccattatctgtaagtcctaatagatcagcattaaaatgttacagcctgatctgtcccac #### Gbf1_ID9806_25 --> 1 - 0 Original Alignment aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG------ taataagttgtcagaatgtcagtactcaacacacacctcatgtctgacagaGGAAAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACGGAGAACCAGGAGGCTAAAAGGGTGGCCTTAGACTGTATTAAGAGTTTTgtaagtcattgctctcccatgggaactcctaaagaagtgtgaccctatgt Alignment from CESAR aGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG------ taataagttgtcagaatgtcagtactcaacacacacctcatgtctgacagaGGAAAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACGGAGAACCAGGAGGCTAAAAGGGTGGCCTTAGACTGTATTAAGAGTTTTgtaagtcattgctctcccatgggaactcctaaagaagtgtgaccctatgt Alignment from Spaln_aa2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG------ taataagttgtcagaatgtcagtactcaacacacacctcatgtctgacagAGGAAAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACGGAGAACCAGGAGGCTAAAAGGGTGGCCTTAGACTGTATTAAGAGTTTTgtaagtcattgctctcccatgggaactcctaaagaagtgtgaccctatgt Alignment from Spaln_nt2Genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG- taataagttgtcagaatgtcagtactcaacacacacctcatgtctgacagAGGAAAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACGGAGAACCAGGAGGCTAAAAGGGTGGCCTTAGACTGTATTAAGAgttttgtaagtcattgctctcccatgggaactcctaaagaagtgtgaccctatgt Alignment from Pairagon AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG------ taataagttgtcagaatgtcagtactcaacacacacctcatgtctgacagAGGAAAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACGGAGAACCAGGAGGCTAAAAGGGTGGCCTTAGACTGTATTAAGAGTTTTgtaagtcattgctctcccatgggaactcctaaagaagtgtgaccctatgt Alignment from Exonerate_protein2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG taataagttgtcagaatgtcagtactcaacacacacctcatgtctgacagAGGAAAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACGGAGAACCAGGAGGCTAAAAGGGTGGCCTTAGACTGTATTAAGagttttgtaagtcattgctctcccatgggaactcctaaagaagtgtgaccctatgt Alignment from Exonerate_coding2genome AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG taataagttgtcagaatgtcagtactcaacacacacctcatgtctgacagAGGAAAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACGGAGAACCAGGAGGCTAAAAGGGTGGCCTTAGACTGTATTAAGagttttgtaagtcattgctctcccatgggaactcctaaagaagtgtgaccctatgt Alignment from GeneWise AGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG------ taataagttgtcagaatgtcagtactcaacacacacctcatgtctgacagAGGAAAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACGGAGAACCAGGAGGCTAAAAGGGTGGCCTTAGACTGTATTAAGAGTTTTgtaagtcattgctctcccatgggaactcctaaagaagtgtgaccctatgt #### Gbf1_ID9808_27 --> 0 - 2 Original Alignment GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAAC------ag aagagcacttgaatcctatctccttactggtattctttctcttctttcagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTTGAAATGCTGCTAAGGATTGTGCTGGAGAACGGGCCAaggtaagataaggcaggcctgcagaacccagaaggccctatactaggttccc Alignment from CESAR GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAAC------ag aagagcacttgaatcctatctccttactggtattctttctcttctttcagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTTGAAATGCTGCTAAGGATTGTGCTGGAGAACGGGCCAaggtaagataaggcaggcctgcagaacccagaaggccctatactaggttccc Alignment from Spaln_aa2Genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagagcacttgaatcctatctccttactggtattctttctcttctttcagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTTGAAATGCTGCTAAGGATTGTGCTGGAGAACGGgccaaggtaagataaggcaggcctgcagaacccagaaggccctatactaggttccc Alignment from Spaln_nt2Genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAGG----- aagagcacttgaatcctatctccttactggtattctttctcttctttcagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTTGAAATGCTGCTAAGGATTGTGCTGGAGAACGGGCCAAGgtaagataaggcaggcctgcagaacccagaaggccctatactaggttccc Alignment from Pairagon GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAAC------AG aagagcacttgaatcctatctccttactggtattctttctcttctttcagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTTGAAATGCTGCTAAGGATTGTGCTGGAGAACGGGCCAAGgtaagataaggcaggcctgcagaacccagaaggccctatactaggttccc Alignment from Exonerate_protein2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagagcacttgaatcctatctccttactggtattctttctcttctttcagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTTGAAATGCTGCTAAGGATTGTGCTGGAGAACGGgccaaggtaagataaggcaggcctgcagaacccagaaggccctatactaggttccc Alignment from Exonerate_coding2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG aagagcacttgaatcctatctccttactggtattctttctcttctttcagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTTGAAATGCTGCTAAGGATTGTGCTGGAGAACGGgccaaggtaagataaggcaggcctgcagaacccagaaggccctatactaggttccc Alignment from GeneWise GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAAC------AG aagagcacttgaatcctatctccttactggtattctttctcttctttcagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTTGAAATGCTGCTAAGGATTGTGCTGGAGAACGGGCCAAGgtaagataaggcaggcctgcagaacccagaaggccctatactaggttccc #### Gbf1_ID9812_31 --> 0 - 1 Original Alignment GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTg atgtctggtctggaaaatgggccctagccttttcttttttcttccaccagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTTCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCGGGGTCAAGACCCTCCGTATCTTTGTAGAAGCCAGTCTG------ggtaagacagctatatcttgagggtcaatcagggagtgggtcatgtgaggg Alignment from CESAR GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTg atgtctggtctggaaaatgggccctagccttttcttttttcttccaccagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTTCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCGGGGTCAAGACCCTCCGTATCTTTGTAGAAGCCAGTCTG------ggtaagacagctatatcttgagggtcaatcagggagtgggtcatgtgaggg Alignment from Spaln_aa2Genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTG- atgtctggtctggaaaatgggccctagccttttcttttttcttccaccagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTTCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCGGGGTCAAGACCCTCCGTATCTTTGTAGAAGCCAGTCTGGgtaagacagctatatcttgagggtcaatcagggagtgggtcatgtgaggg Alignment from Spaln_nt2Genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG atgtctggtctggaaaatgggccctagccttttcttttttcttccaccagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTTCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCGGGGTCAAGACCCTCCGTATCTTTGTAGAAGCCAGTCTG------Ggtaagacagctatatcttgagggtcaatcagggagtgggtcatgtgaggg Alignment from Pairagon GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG atgtctggtctggaaaatgggccctagccttttcttttttcttccaccagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTTCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCGGGGTCAAGACCCTCCGTATCTTTGTAGAAGCCAGTCTG------Ggtaagacagctatatcttgagggtcaatcagggagtgggtcatgtgaggg Alignment from Exonerate_protein2genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGT atgtctggtctggaaaatgggccctagccttttcttttttcttccaccagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTTCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCGGGGTCAAGACCCTCCGTATCTTTGTAGAAGCCAGTctgggtaagacagctatatcttgagggtcaatcagggagtgggtcatgtgaggg Alignment from Exonerate_coding2genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGT atgtctggtctggaaaatgggccctagccttttcttttttcttccaccagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTTCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCGGGGTCAAGACCCTCCGTATCTTTGTAGAAGCCAGTctgggtaagacagctatatcttgagggtcaatcagggagtgggtcatgtgaggg Alignment from GeneWise GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGA atgtctggtctggaaaatgggccctagccttttcttttttcttccaccagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTTCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCGGGGTCAAGACCCTCCGTATCTTTGTAGAAGCCAGTCTGGgtaagacagctatatcttgagggtcaatcagggagtgggtcatgtgaggg #### Gbf1_ID9816_35 --> 0 - 0 Original Alignment ------------------GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgataatattttttacattcatagGGCCTGGCTATTTACTCTGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTACTCTCAAAGgtgaggcttttccggtttgcacccatctctctacctcattccatctccca Alignment from CESAR ------------------GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgataatattttttacattcatagGGCCTGGCTATTTACTCTGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTACTCTCAAAGgtgaggcttttccggtttgcacccatctctctacctcattccatctccca Alignment from Spaln_aa2Genome ------------------GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAA cccatgcccaactggctgggttaatgtgataatattttttacattcatagGGCCTGGCTATTTACTCTGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTACTCTCAAAGgtgaggcttttccggtttgcacccatctctctacctcattccatctccca Alignment from Spaln_nt2Genome TTAACAAGGTGCTGTTT----------CCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgataatattttttacattcatagGGCCTGGCTATTTACTCTGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTACTCTCAAAGgtgaggcttttccggtttgcacccatctctctacctcattccatctccca Alignment from Pairagon ------------------GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgataatattttttacattcatagGGCCTGGCTATTTACTCTGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTACTCTCAAAGgtgaggcttttccggtttgcacccatctctctacctcattccatctccca Alignment from Exonerate_protein2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgataatattttttacattcatagggcctggctatttactctGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTACTCTCAAAGgtgaggcttttccggtttgcacccatctctctacctcattccatctccca Alignment from Exonerate_coding2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgataatattttttacattcatagggcctggctatttactctGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTACTCTCAAAGgtgaggcttttccggtttgcacccatctctctacctcattccatctccca Alignment from GeneWise ------------------GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgataatattttttacattcatagGGCCTGGCTATTTACTCTGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTACTCTCAAAGgtgaggcttttccggtttgcacccatctctctacctcattccatctccca #### Gldc_ID6402_13 --> 1 - 0 Original Alignment c---TATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG tgttaaggatttgcttaactcatctttatctttatttttgcgttgtgtagtTCATATCACTCAGAAACTAATCTTGTCCGTTACATGAAGAGACTGGAGAACCAAGACATCTCCCTTCTGCACAGTATGATCCCACTGgtaagaacgtgacatgctagccatatacactggtatgtctaatttgatgt Alignment from CESAR c---TATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG tgttaaggatttgcttaactcatctttatctttatttttgcgttgtgtagtTCATATCACTCAGAAACTAATCTTGTCCGTTACATGAAGAGACTGGAGAACCAAGACATCTCCCTTCTGCACAGTATGATCCCACTGgtaagaacgtgacatgctagccatatacactggtatgtctaatttgatgt Alignment from Spaln_aa2Genome CTATCAC---TCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG tgttaaggatttgcttaactcatctttatctttatttttgcgttgtgtagTTCATATCACTCAGAAACTAATCTTGTCCGTTACATGAAGAGACTGGAGAACCAAGACATCTCCCTTCTGCACAGTATGATCCCACTGgtaagaacgtgacatgctagccatatacactggtatgtctaatttgatgt Alignment from Spaln_nt2Genome CT---ATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG tgttaaggatttgcttaactcatctttatctttatttttgcgttgtgtagTTCATATCACTCAGAAACTAATCTTGTCCGTTACATGAAGAGACTGGAGAACCAAGACATCTCCCTTCTGCACAGTATGATCCCACTGgtaagaacgtgacatgctagccatatacactggtatgtctaatttgatgt Alignment from Pairagon ---CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG tgttaaggatttgcttaactcatctttatctttatttttgcgttgtgtagTTCATATCACTCAGAAACTAATCTTGTCCGTTACATGAAGAGACTGGAGAACCAAGACATCTCCCTTCTGCACAGTATGATCCCACTGgtaagaacgtgacatgctagccatatacactggtatgtctaatttgatgt Alignment from Exonerate_protein2genome C---TATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG tgttaaggatttgcttaactcatctttatctttatttttgcgttgtgtagTTCATATCACTCAGAAACTAATCTTGTCCGTTACATGAAGAGACTGGAGAACCAAGACATCTCCCTTCTGCACAGTATGATCCCACTGgtaagaacgtgacatgctagccatatacactggtatgtctaatttgatgt Alignment from Exonerate_coding2genome C---TATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG tgttaaggatttgcttaactcatctttatctttatttttgcgttgtgtagTTCATATCACTCAGAAACTAATCTTGTCCGTTACATGAAGAGACTGGAGAACCAAGACATCTCCCTTCTGCACAGTATGATCCCACTGgtaagaacgtgacatgctagccatatacactggtatgtctaatttgatgt Alignment from GeneWise -AGCTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG tgttaaggatttgcttaactcatctttatctttatttttgcgttgtgtagTTCATATCACTCAGAAACTAATCTTGTCCGTTACATGAAGAGACTGGAGAACCAAGACATCTCCCTTCTGCACAGTATGATCCCACTGgtaagaacgtgacatgctagccatatacactggtatgtctaatttgatgt #### Got1_ID8751_4 --> 2 - 0 Original Alignment agAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ctaatgggtatgccccagtatttatattgatgcagcctcttgtcctgtagag---CATAATGCTGTATTTTCTGCTGCTGGCTTCAAGGACATTCGGCCCTATTGCTACTGGGATGCAGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTGAATGATCTGGAGgtcagagatatagaagcacagggaattctgtttaggtgcagcaagagata Alignment from CESAR agAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ttcctaatgggtatgccccagtattattgatgcagcctcttgtcctgtagag---CATAATGCTGTATTTTCTGCTGCTGGCTTCAAGGACATTCGGCCCTATTGCTACTGGGATGCAGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTGAATGATCTGGAGgtcagagatatagaagcacagggaattctgtttaggtgcagcaagagata Alignment from Spaln_aa2Genome CATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ctaatgggtatgccccagtatttatattgatgcagcctcttgtcctgtagagCATAATGCTGTATTTTCTGCTGCTGGCTTCAAGGACATTCGGCCCTATTGCTACTGGGATGCAGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTGAATGATCTGGAGgtcagagatatagaagcacagggaattctgtttaggtgcagcaagagata Alignment from Spaln_nt2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ctaatgggtatgccccagtatttatattgatgcagcctcttgtcctgtagAG---CATAATGCTGTATTTTCTGCTGCTGGCTTCAAGGACATTCGGCCCTATTGCTACTGGGATGCAGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTGAATGATCTGGAGgtcagagatatagaagcacagggaattctgtttaggtgcagcaagagata Alignment from Pairagon AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ctaatgggtatgccccagtatttatattgatgcagcctcttgtcctgtagAG---CATAATGCTGTATTTTCTGCTGCTGGCTTCAAGGACATTCGGCCCTATTGCTACTGGGATGCAGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTGAATGATCTGGAGgtcagagatatagaagcacagggaattctgtttaggtgcagcaagagata Alignment from Exonerate_protein2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ctaatgggtatgccccagtatttatattgatgcagcctcttgtcctgtagAG---CATAATGCTGTATTTTCTGCTGCTGGCTTCAAGGACATTCGGCCCTATTGCTACTGGGATGCAGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTGAATGATCTGGAGgtcagagatatagaagcacagggaattctgtttaggtgcagcaagagata Alignment from Exonerate_coding2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ctaatgggtatgccccagtatttatattgatgcagcctcttgtcctgtagAG---CATAATGCTGTATTTTCTGCTGCTGGCTTCAAGGACATTCGGCCCTATTGCTACTGGGATGCAGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTGAATGATCTGGAGgtcagagatatagaagcacagggaattctgtttaggtgcagcaagagata Alignment from GeneWise AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG ctaatgggtatgccccagtatttatattgatgcagcctcttgtcctgtagAG---CATAATGCTGTATTTTCTGCTGCTGGCTTCAAGGACATTCGGCCCTATTGCTACTGGGATGCAGAGAAAAGAGGACTGGACCTTCAGGGTTTTCTGAATGATCTGGAGgtcagagatatagaagcacagggaattctgtttaggtgcagcaagagata #### Gpr137_ID1886_5 --> 0 - 0 Original Alignment GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tttgccattagcttctgtattgacaaactctgaaaccaaacctacttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTC---TTTTGGGAACTGCTGCCCACCACGTTGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAG------gtacggaaccgaacctcttgccacgacatgctaactcctctccatgtaat Alignment from CESAR GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tttgccattagcttctgtattgacaaactctgaaaccaaacctacttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAACTGCTGCCCACCACGTTGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAG------gtacggaaccgaacctcttgccacgacatgctaactcctctcca Alignment from Spaln_aa2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAG tttgccattagcttctgtattgacaaactctgaaaccaaacctacttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAACTGCTGCCCACCACGTTGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGgtacggaaccgaacctcttgccacgacatgctaactcctctccatgtaat Alignment from Spaln_nt2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAG tttgccattagcttctgtattgacaaactctgaaaccaaacctacttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTC---TCTTTTGGGAACTGCTGCCCACCACGTTGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGgtacggaaccgaacctcttgccacgacatgctaactcctctccatgtaat Alignment from Pairagon GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAG tttgccattagcttctgtattgacaaactctgaaaccaaacctacttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCT---TTTGGGAACTGCTGCCCACCACGTTGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGgtacggaaccgaacctcttgccacgacatgctaactcctctccatgtaat Alignment from Exonerate_protein2genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tttgccattagcttctgtattgacaaactctgaaaccaaacctacttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAACTGCTGCCCACCACGTTGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAG------gtacggaaccgaacctcttgccacgacatgctaactcctctcca Alignment from Exonerate_coding2genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tttgccattagcttctgtattgacaaactctgaaaccaaacctacttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAACTGCTGCCCACCACGTTGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAG------gtacggaaccgaacctcttgccacgacatgctaactcctctcca Alignment from GeneWise GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAG tttgccattagcttctgtattgacaaactctgaaaccaaacctacttcagGCAGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAACTGCTGCCCACCACGTTGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGgtacggaaccgaacctcttgccacgacatgctaactcctctccatgtaat #### Gpr137_ID1889_2 --> 0 - 2 Original Alignment GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt ggtaatctcacaggtccaaagatgcctcgtcggttctccctcctctttag------TTCAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGctgtaggaacaatagctcattggcagtgagtaagcccatggctgagataggg Alignment from CESAR GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt tagaagggtaatctcacaggtccaactcgtcggttctccctcctctttag------TTCAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGctgtaggaacaatagctcattggcagtgagtaagcccatggctgagataggg Alignment from Spaln_aa2Genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT ggtaatctcacaggtccaaagatgcctcgtcggttctccctcctctttag------TTCAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaggaacaatagctcattggcagtgagtaagcccatggctgagataggg Alignment from Spaln_nt2Genome TTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT ggtaatctcacaggtccaaagatgcctcgtcggttctccctcctctttagTTCAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaggaacaatagctcattggcagtgagtaagcccatggctgagataggg Alignment from Pairagon -------------------------------GGT---------------GTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT GGTAATCTCACAGGTCCAAAGATGCCTCGTCGGTTCTCCCTCCTCTTTAGTTCAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaggaacaatagctcattggcagtgagtaagcccatggctgagataggg Alignment from Exonerate_protein2genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT ggtaatctcacaggtccaaagatgcctcgtcggttctccctcctCTTTAGTTCAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaggaacaatagctcattggcagtgagtaagcccatggctgagataggg Alignment from Exonerate_coding2genome ggtaatctcacaggtccaaagatgcctcgtcggttctccctcctctttagttcaaggccaaagctaggcgtcgaccagcaatgagccgagggctgtaggaacaatagctcattggcagtgagtaagcccatggctgagataggg Alignment from GeneWise ggtaatctcacaggtccaaagatgcctcgtcggttctccctcctctttagttcaaggccaaagctaggcgtcgaccagcaatgagccgagggctgtaggaacaatagctcattggcagtgagtaagcccatggctgagataggg #### Hnrnpul2_ID2401_5 --> 0 - 1 Original Alignment GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTg tacttttagacctgcatttgtcataagagagtctttcctccttcccttagGTGACACAGAATCTTCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCA------ggtacggacatcatgattcagttaggtaaccctggcacttcttatttgtac Alignment from CESAR GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTg tacttttagacctgcatttgtcataagagagtctttcctccttcccttagGTGACACAGAATCTTCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCA------ggtacggacatcatgattcagttaggtaaccctggcacttcttatttgtac Alignment from Spaln_aa2Genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCA- tacttttagacctgcatttgtcataagagagtctttcctccttcccttagGTGACACAGAATCTTCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCAGgtacggacatcatgattcagttaggtaaccctggcacttcttatttgtac Alignment from Spaln_nt2Genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTG tacttttagacctgcatttgtcataagagagtctttcctccttcccttagGTGACACAGAATCTTCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCA------Ggtacggacatcatgattcagttaggtaaccctggcacttcttatttgtac Alignment from Pairagon GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTG tacttttagacctgcatttgtcataagagagtctttcctccttcccttagGTGACACAGAATCTTCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCA------Ggtacggacatcatgattcagttaggtaaccctggcacttcttatttgtac Alignment from Exonerate_protein2genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCAC tacttttagacctgcatttgtcataagagagtctttcctccttcccttagGTGACACAGAATCTTCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCAGgtacggacatcatgattcagttaggtaaccctggcacttcttatttgtac Alignment from Exonerate_coding2genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCAC tacttttagacctgcatttgtcataagagagtctttcctccttcccttagGTGACACAGAATCTTCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCAGgtacggacatcatgattcagttaggtaaccctggcacttcttatttgtac Alignment from GeneWise GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAG------------------------------------------------ tacttttagacctgcatttgtcataagagagtctttcctccttcccttagGTGACACAGAATCTTCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCAGGTACGGACATCATGATTCAGTTAGGTAACCCTGGCACTTCTTATTTGTAC #### Hnrnpul2_ID2409_13 --> 0 - 0 Original Alignment GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT tcttaaaggcccataaagcattgaatccatctctctgtctcttgctacag---TACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTATGAGTACAATAGATATAGGGGATATTACAGAGAATACAACCAAGATgtaagtatatgggatagagcggggaagaaaagtacacaatccactggatg Alignment from CESAR GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT tgatcttaaaggcccataaagcatttccatctctctgtctcttgctacag---TACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTATGAGTACAATAGATATAGGGGATATTACAGAGAATACAACCAAGATgtaagtatatgggatagagcggggaagaaaagtacacaatccactggatg Alignment from Spaln_aa2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT tcttaaaggcccataaagcattgaatccatctctctgtctcttgctacag---TACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTATGAGTACAATAGATATAGGGGATATTACAGAGAATACAACCAAGATgtaagtatatgggatagagcggggaagaaaagtacacaatccactggatg Alignment from Spaln_nt2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT tcttaaaggcccataaagcattgaatccatctctctgtctcttgctacag---TACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTATGAGTACAATAGATATAGGGGATATTACAGAGAATACAACCAAGATgtaagtatatgggatagagcggggaagaaaagtacacaatccactggatg Alignment from Pairagon GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT tcttaaaggcccataaagcattgaatccatctctctgtctcttgctacag---TACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTATGAGTACAATAGATATAGGGGATATTACAGAGAATACAACCAAGATgtaagtatatgggatagagcggggaagaaaagtacacaatccactggatg Alignment from Exonerate_protein2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT tcttaaaggcccataaagcattgaatccatctctctgtctcttgctaCAGTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTATGAGTACAATAGATATAGGGGATATTACAGAGAATACAACCAAGATgtaagtatatgggatagagcggggaagaaaagtacacaatccactggatg Alignment from Exonerate_coding2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT tcttaaaggcccataaagcattgaatccatctctctgtctcttgctaCAGTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTATGAGTACAATAGATATAGGGGATATTACAGAGAATACAACCAAGATgtaagtatatgggatagagcggggaagaaaagtacacaatccactggatg Alignment from GeneWise TACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT tcttaaaggcccataaagcattgaatccatctctctgtctcttgctacagTACCGCAATTTCTATGATCGATACAAAGGTGACTATGAACGATTCTATAGTCGGGATTATGAGTACAATAGATATAGGGGATATTACAGAGAATACAACCAAGATgtaagtatatgggatagagcggggaagaaaagtacacaatccactggatg #### Hps1_ID8614_14 --> 1 - 2 Original Alignment g------------------------GAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGtc catcaacaattgcccctgcctgagcttccttcctgcctctcttcctgtaggATCCGTCAGGCCCTGACAGGGCATGAGAGACTTTTGGACTGGAAGGACTTTTCCCTGGTGAATAGCTGGAGAAATGTCACCATGGTAgcgtatgttcttgatatatattcataggaataacccatggctatcggagagt Alignment from CESAR g------------------------GAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGtc catcaacaattgcccctgcctgagcttccttcctgcctctcttcctgtaggATCCGTCAGGCCCTGACAGGGCATGAGAGACTTTTGGACTGGAAGGACTTTTCCCTGGTGAATAGCTGGAGAAATGTCACCATGGTAgcgtatgttcttgatatatattcataggaataacccatggctatcggagagt Alignment from Spaln_aa2Genome AGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC catcaacaattgcccctgcctgagcttccttcctgcctctcttcctgtaggatccgtcaggccctgacagggcatgagAGACTTTTGGACTGGAAGGACTTTTCCCTGGTGAATAGCTGGAGAAATGTCACCATGGTAGCgtatgttcttgatatatattcataggaataacccatggctatcggagagt Alignment from Spaln_nt2Genome GGAGAGGCTTCTGG----ACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC catcaacaattgcccctgcctgagcttccttcctgcctctcttcctgtaggatccgtcaggccctgacagGGCATGAGAGACTTTTGGACTGGAAGGACTTTTCCCTGGTGAATAGCTGGAGAAATGTCACCATGGTAGCgtatgttcttgatatatattcataggaataacccatggctatcggagagt Alignment from Pairagon ---------------------------------------------------------------------------GAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC CATCAACAATTGCCCCTGCCTGAGCTTCCTTCCTGCCTCTCTTCCTGTAGGATCCGTCAGGCCCTGACAGGGCATGAGAGACTTTTGGACTGGAAGGACTTTTCCCTGGTGAATAGCTGGAGAAATGTCACCATGGTAGCgtatgttcttgatatatattcataggaataacccatggctatcggagagt Alignment from Exonerate_protein2genome AGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC catcaacaattgcccctgcctgagcttccttcctgcctctcttcctgtaggatccgtcaggccctgacagggcatgagAGACTTTTGGACTGGAAGGACTTTTCCCTGGTGAATAGCTGGAGAAATGTCACCATGGTAGCgtatgttcttgatatatattcataggaataacccatggctatcggagagt Alignment from Exonerate_coding2genome AGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC catcaacaattgcccctgcctgagcttccttcctgcctctcttcctgtaggatccgtcaggccctgacagggcatgagAGACTTTTGGACTGGAAGGACTTTTCCCTGGTGAATAGCTGGAGAAATGTCACCATGGTAGCgtatgttcttgatatatattcataggaataacccatggctatcggagagt Alignment from GeneWise AGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC catcaacaattgcccctgcctgagcttccttcctgcctctcttcctgtaggatccgtcaggccctgacagggcatgagAGACTTTTGGACTGGAAGGACTTTTCCCTGGTGAATAGCTGGAGAAATGTCACCATGGTAGCgtatgttcttgatatatattcataggaataacccatggctatcggagagt #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA catggagaggcactcgcgtcttaacctgaatatattatgtgttttaacag---------------------AACATACCAGTGCCACAAGCAAGGAGCCAGAGCACCTCGGTGCCTGCCAGGGGTTGTAGGGAGACAgtaggagctaggccctgttgacagaatagggtgtcaccatctaccttccc Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA ctgccattctattatgcacctcatgctgaatatattatgtgttttaacag---------------------AACATACCAGTGCCACAAGCAAGGAGCCAGAGCACCTCGGTGCCTGCCAGGGGTTGTAGGGAGACAgtaggagctaggccctgttgacagaatagggtgtcaccatctaccttccc Alignment from Spaln_aa2Genome AACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA catggagaggcactcgcgtcttaacctgaatatattatgtgttttaacagAACATACCAGTGCCACAAGCAAGGAGCCAGAGCACCTCGGTGCCTGCCAGGGGTTGTAGGGAGACAgtaggagctaggccctgttgacagaatagggtgtcaccatctaccttccc Alignment from Spaln_nt2Genome AACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA catggagaggcactcgcgtcttaacctgaatatattatgtgttttaacagAACATACCAGTGCCACAAGCAAGGAGCCAGAGCACCTCGGTGCCTGCCAGGGGTTGTAGGGAGACAgtaggagctaggccctgttgacagaatagggtgtcaccatctaccttccc Alignment from Pairagon AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA catggagaggcactcgcgtcttaacctgaatatattatgtgttttaacag---------------------AACATACCAGTGCCACAAGCAAGGAGCCAGAGCACCTCGGTGCCTGCCAGGGGTTGTAGGGAGACAgtaggagctaggccctgttgacagaatagggtgtcaccatctaccttccc Alignment from Exonerate_protein2genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA catggagaggcactcgcgtcttaacctgaATATATTATGTGTTTTAACAGAACATACCAGTGCCACAAGCAAGGAGCCAGAGCACCTCGGTGCCTGCCAGGGGTTGTAGGGAGACAgtaggagctaggccctgttgacagaatagggtgtcaccatctaccttccc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA catggagaggcactcgcgtcttaacctgaatatattatgtgttttaacagAACATACCAGTGCCACAAGCAAGGAGCCAGAGCACCTCGGTGCCTGCCAGGGGTTGTAGGGAGACAgtaggagctaggccctgttgacagaatagggtgtcaccatctaccttccc #### Incenp_ID2611_8 --> 1 - 0 Original Alignment g---AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacacatatttctcttttgactgcaggATGAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAAACACCTTCACCACCCTGCCCGCCCAACAAGgtatggaactgctcatgtttgatgcctttgttgtgcattctgtccaagcc Alignment from CESAR g---AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacacatatttctcttttgactgcaggATGAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAAACACCTTCACCACCCTGCCCGCCCAACAAGgtatggaactgctcatgtttgatgcctttgttgtgcattctgtccaagcc Alignment from Spaln_aa2Genome GAGGAAACGCAGT---TACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacacatatttctcttttgactgcagGATGAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAAACACCTTCACCACCCTGCCCGCCCAACAAGgtatggaactgctcatgtttgatgcctttgttgtgcattctgtccaagcc Alignment from Spaln_nt2Genome GAGGAAACGC---AGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacacatatttctcttttgactgcagGATGAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAAACACCTTCACCACCCTGCCCGCCCAACAAGgtatggaactgctcatgtttgatgcctttgttgtgcattctgtccaagcc Alignment from Pairagon ---GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacacatatttctcttttgactgcagGATGAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAAACACCTTCACCACCCTGCCCGCCCAACAAGgtatggaactgctcatgtttgatgcctttgttgtgcattctgtccaagcc Alignment from Exonerate_protein2genome G---AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacacatatttctcttttgactgcagGATGAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAAACACCTTCACCACCCTGCCCGCCCAACAAGgtatggaactgctcatgtttgatgcctttgttgtgcattctgtccaagcc Alignment from Exonerate_coding2genome G---AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacacatatttctcttttgactgcagGATGAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAAACACCTTCACCACCCTGCCCGCCCAACAAGgtatggaactgctcatgtttgatgcctttgttgtgcattctgtccaagcc Alignment from GeneWise -AGGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacacatatttctcttttgactgcagGATGAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAAACACCTTCACCACCCTGCCCGCCCAACAAGgtatggaactgctcatgtttgatgcctttgttgtgcattctgtccaagcc #### Jak2_ID6240_16 --> 0 - 1 Original Alignment AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCA------------------------------------------g ccagttgtgaagcaacctgcatctctaacgggtgtccatcttccttttagAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAACAGCCTGTTTACTCCTCTTGCTAAAGTTTATGAGCCTGTTTACACTGCCTTTCGGGAAggtaggtgctggtcagactcctctgaccactgatgatctatttatcttcct Alignment from CESAR AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAg ccagttgtgaagcaacctgcatctctaacgggtgtccatcttccttttagAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAACAGCCTGTTTACTCCTcttgctaaagtttatgagcctgtttacactgcctttcgggaaggtaggtgctggtcagactcctctgaccactgatgatctatttatcttcct Alignment from Spaln_aa2Genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCA------------G ccagttgtgaagcaacctgcatctctaacgggtgtccatcttccttttagAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAACAGCCTGTTTACTCCTCTTGCTAAAGTTTatgagcctgtttacactgcctttcgggaaggtaggtgctggtcagactcctctgaccactgatgatctatttatcttcct Alignment from Spaln_nt2Genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCC--------AG ccagttgtgaagcaacctgcatctctaacgggtgtccatcttccttttagAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAACAGCCTGTTTACTCCTCTTGCTAAAgtttatgagcctgtttacactgcctttcgggaaggtaggtgctggtcagactcctctgaccactgatgatctatttatcttcct Alignment from Pairagon AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCC------------------------------------------AG ccagttgtgaagcaacctgcatctctaacgggtgtccatcttccttttagAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAACAGCCTGTTTACTCCTCTTGCTAAAGTTTATGAGCCTGTTTACACTGCCTTTCGGGAAGgtaggtgctggtcagactcctctgaccactgatgatctatttatcttcct Alignment from Exonerate_protein2genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG ccagttgtgaagcaacctgcatctctaacgggtgtccatcttccttttagAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAACAGCCTGTTTACTCCTCttgctaaagtttatgagcctgtttacactgcctttcgggaaggtaggtgctggtcagactcctctgaccactgatgatctatttatcttcct Alignment from Exonerate_coding2genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG ccagttgtgaagcaacctgcatctctaacgggtgtccatcttccttttagAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAACAGCCTGTTTACTCCTCttgctaaagtttatgagcctgtttacactgcctttcgggaaggtaggtgctggtcagactcctctgaccactgatgatctatttatcttcct Alignment from GeneWise AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCA------------------------------------------G ccagttgtgaagcaacctgcatctctaacgggtgtccatcttccttttagAAACTGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAACAGCCTGTTTACTCCTCTTGCTAAAGTTTATGAGCCTGTTTACACTGCCTTTCGGGAAGgtaggtgctggtcagactcctctgaccactgatgatctatttatcttcct #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgtgtatccacaggtgacctaacttatcttttggtgatcctcgccagtGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAAT---------gtaagtgggcgctaacagcgtgactacaaggtgaggcgacatgctcaggg Alignment from CESAR tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgtgtatccacaggtgacctaacttatcttttggtgatcctcgccagtGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAAT---------gtaagtgggcgctaacagcgtgactacaaggtgaggcgaca Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAAT agatgtgtatccacaggtgacctaacttatcttttggtgatcctcgccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATgtaagtgggcgctaacagcgtgactacaaggtgaggcgacatgctcaggg Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAAT agatgtgtatccacaggtgacctaacttatcttttggtgatcctcgccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATgtaagtgggcgctaacagcgtgactacaaggtgaggcgacatgctcaggg Alignment from Pairagon TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAA---------------------TTACTACAAG agatgtgtatccacaggtgacctaacttatcttttggtgatcctcgccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAAGTGGGCGCTAACAGCGTGACTACAAGgtgaggcgacatgctcaggg Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAAT agatgtgtatccacaggtgacctaacttatcttttggtgatcctcgccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATgtaagtgggcgctaacagcgtgactacaaggtgaggcgacatgctcaggg Alignment from Exonerate_coding2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAAT agatgtgtatccacaggtgacctaacttatcttttggtgatcctcgccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATgtaagtgggcgctaacagcgtgactacaaggtgaggcgacatgctcaggg Alignment from GeneWise TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTAC- agatgtgtatccacaggtgacctaacttatcttttggtgatcctcgccagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAAgtgggcgctaacagcgtgactacaaggtgaggcgacatgctcaggg #### Kat5_ID1114_8 --> 0 - 0 Original Alignment GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG------ gcacaccccagttctcaactactaacatagtcaccctgttttcctcacagGATTCTCAGGACAGCTCAGATGGAATACCAACAGCTCCACGAATGACGGGCAGCCTAGTATCTGACCAGAGCCATGATGATATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCACCTTAAGCCATGGTATTTCTCCCCATACCCTCAAGAGCTCACCACCTTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTACGGCCATAGTCTCAAGTGTCTTAAACGCCACCTTATCATCgtaggaggtgtcttgggtgttggtctgtcctgagcaccctcattggtgac Alignment from CESAR GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG------ gcacaccccagttctcaactactaacatagtcaccctgttttcctcacagGATTCTCAGGACAGCTCAGATGGAATACCAACAGCTCCACGAATGACGGGCAGCCTAGTATCTGACCAGAGCCATGATGATATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCACCTTAAGCCATGGTATTTCTCCCCATACCCTCAAGAGCTCACCACCTTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTACGGCCATAGTCTCAAGTGTCTTAAACGCCACCTTATCATCgtaggaggtgtcttgggtgttggtctgtcctgagcaccctcattggtgac Alignment from Spaln_aa2Genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG------ gcacaccccagttctcaactactaacatagtcaccctgttttcctcacagGATTCTCAGGACAGCTCAGATGGAATACCAACAGCTCCACGAATGACGGGCAGCCTAGTATCTGACCAGAGCCATGATGATATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCACCTTAAGCCATGGTATTTCTCCCCATACCCTCAAGAGCTCACCACCTTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTACGGCCATAGTCTCAAGTGTCTTAAACGCCACCTTATCATCgtaggaggtgtcttgggtgttggtctgtcctgagcaccctcattggtgac Alignment from Spaln_nt2Genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTGA----- gcacaccccagttctcaactactaacatagtcaccctgttttcctcacagGATTCTCAGGACAGCTCAGATGGAATACCAACAGCTCCACGAATGACGGGCAGCCTAGTATCTGACCAGAGCCATGATGATATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCACCTTAAGCCATGGTATTTCTCCCCATACCCTCAAGAGCTCACCACCTTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTACGGCCATAGTCTCAAGTGTCTTAAACGCCACCTTATCATCgtaggaggtgtcttgggtgttggtctgtcctgagcaccctcattggtgac Alignment from Pairagon GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTT--------------------------------------------------------- gcacaccccagttctcaactactaacatagtcaccctgttttcctcacagGATTCTCAGGACAGCTCAGATGGAATACCAACAGCTCCACGAATGACGGGCAGCCTAGTATCTGACCAGAGCCATGATGATATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCACCTTAAGCCATGGTATTTCTCCCCATACCCTCAAGAGCTCACCACCTTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTACGGCCATAGTCTCAAGTGTCTTAAACGCCACCTTATCATCGTAGGAGGTGTCTTGGGTGTTGGTCTGTCCTGAGCACCCTCATTGGTGAC Alignment from Exonerate_protein2genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gcacaccccagttctcaactactaacatagtcaccctgttttcctcacagGATTCTCAGGACAGCTCAGATGGAATACCAACAGCTCCACGAATGACGGGCAGCCTAGTATCTGACCAGAGCCATGATGATATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCACCTTAAGCCATGGTATTTCTCCCCATACCCTCAAGAGCTCACCACCTTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTACGGCCATAGTCTCAAGTGTCTTAAACGCCACCTTatcatcgtaggaggtgtcttgggtgttggtctgtcctgagcaccctcattggtgac Alignment from Exonerate_coding2genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gcacaccccagttctcaactactaacatagtcaccctgttttcctcacagGATTCTCAGGACAGCTCAGATGGAATACCAACAGCTCCACGAATGACGGGCAGCCTAGTATCTGACCAGAGCCATGATGATATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCACCTTAAGCCATGGTATTTCTCCCCATACCCTCAAGAGCTCACCACCTTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTACGGCCATAGTCTCAAGTGTCTTAAACGCCACCTTatcatcgtaggaggtgtcttgggtgttggtctgtcctgagcaccctcattggtgac Alignment from GeneWise GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG------ gcacaccccagttctcaactactaacatagtcaccctgttttcctcacagGATTCTCAGGACAGCTCAGATGGAATACCAACAGCTCCACGAATGACGGGCAGCCTAGTATCTGACCAGAGCCATGATGATATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCACCTTAAGCCATGGTATTTCTCCCCATACCCTCAAGAGCTCACCACCTTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTACGGCCATAGTCTCAAGTGTCTTAAACGCCACCTTATCATCgtaggaggtgtcttgggtgttggtctgtcctgagcaccctcattggtgac #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--------- cagtttcctcctccagaacaatctcacatattttccttctttatggttagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGCCACCGTCTgtaaaaccccagccagggtggaagtaaaatctaactgcttgggcgctgat Alignment from CESAR AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--------- cagtttcctcctccagaacaatctcacatattttccttctttatggttagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGCCACCGTCTgtaaaaccccagccagggtggaagtaaaatctaactgcttgggcgctgat Alignment from Spaln_aa2Genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--------- cagtttcctcctccagaacaatctcacatattttccttctttatggttagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGCCACCGTCTgtaaaaccccagccagggtggaagtaaaatctaactgcttgggcgctgat Alignment from Spaln_nt2Genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG----- cagtttcctcctccagaacaatctcacatattttccttctttatggttagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGCCACCgtctgtaaaaccccagccagggtggaagtaaaatctaactgcttgggcgctgat Alignment from Pairagon AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--------- cagtttcctcctccagaacaatctcacatattttccttctttatggttagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGCCACCGTCTgtaaaaccccagccagggtggaagtaaaatctaactgcttgggcgctgat Alignment from Exonerate_protein2genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG cagtttcctcctccagaacaatctcacatattttccttctttatggttagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGccaccgtctgtaaaaccccagccagggtggaagtaaaatctaactgcttgggcgctgat Alignment from Exonerate_coding2genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG cagtttcctcctccagaacaatctcacatattttccttctttatggttagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGccaccgtctgtaaaaccccagccagggtggaagtaaaatctaactgcttgggcgctgat Alignment from GeneWise AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--------- cagtttcctcctccagaacaatctcacatattttccttctttatggttagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGCCACCGTCTgtaaaaccccagccagggtggaagtaaaatctaactgcttgggcgctgat #### Kat5_ID1116_6 --> 0 - 0 Original Alignment AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tacccacctcctgcgccctctaacctggttgacagcaggttctcttgcagAAACGGAAGGTTGAGGTGGTTTCACCAACAAGCCTGGTGCCCAGTGAGACAGCTGCAGTCTCAGTTTTC------gtatgatatgaccttcgactctttcttcaagtactgaaatgttttgtctt Alignment from CESAR AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG tacccacctcctgcgccctctaacctggttgacagcaggttctcttgcagAAACGGAAGGTTGAGGTGGTTTCACCAACAAGCCTGGTGCCCAGTGAGACAGCTGCAGTCTCAGTTTTC------gtatgatatgaccttcgactctttcttcaagtactgaaatgttt Alignment from Spaln_aa2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTC tacccacctcctgcgccctctaacctggttgacagcaggttctcttgcagAAACGGAAGGTTGAGGTGGTTTCACCAACAAGCCTGGTGCCCAGTGAGACAGCTGCAGTCTCAGTTTTCgtatgatatgaccttcgactctttcttcaagtactgaaatgttttgtctt Alignment from Spaln_nt2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTC tacccacctcctgcgccctctaacctggttgacagcaggttctcttgcagAAACGGAAGGTTGAGGTGGTTTCACCAACAAGCCTGGTGCCCAGTGAGACAGCTGCAGTCTCAGTTTTCgtatgatatgaccttcgactctttcttcaagtactgaaatgttttgtctt Alignment from Pairagon AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTC tacccacctcctgcgccctctaacctggttgacagcaggttctcttgcagAAACGGAAGGTTGAGGTGGTTTCACCAACAAGCCTGGTGCCCAGTGAGACAGCTGCAGTCTCAGTTTTCgtatgatatgaccttcgactctttcttcaagtactgaaatgttttgtctt Alignment from Exonerate_protein2genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCA tacccacctcctgcgccctctaacctggttgacagcaggttctcttgcagAAACGGAAGGTTGAGGTGGTTTCACCAACAAGCCTGGTGCCCAGTGAGACAGCTGCAGTCTCAGTTTTCGTATGatatgaccttcgactctttcttcaagtactgaaatgttttgtctt Alignment from Exonerate_coding2genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCA tacccacctcctgcgccctctaacctggttgacagcaggttctcttgcagAAACGGAAGGTTGAGGTGGTTTCACCAACAAGCCTGGTGCCCAGTGAGACAGCTGCAGTCTCAGTTTTCGTATGatatgaccttcgactctttcttcaagtactgaaatgttttgtctt Alignment from GeneWise AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTC tacccacctcctgcgccctctaacctggttgacagcaggttctcttgcagAAACGGAAGGTTGAGGTGGTTTCACCAACAAGCCTGGTGCCCAGTGAGACAGCTGCAGTCTCAGTTTTCgtatgatatgaccttcgactctttcttcaagtactgaaatgttttgtctt #### Kcnip2_ID9604_8 --> 0 - 0 Original Alignment GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ttaacctcaactagtttgctctttagagacattgtctttattatttttagGAAATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCAAGG------------------------gtgagcgggttgactttttgattagtcgtacgcgtggccctcatcaagat Alignment from CESAR GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ttaacctcaactagtttgctctttagagacattgtctttattatttttagGAAATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCAAGG------------------------gtgagcgggttgactttttgattagt Alignment from Spaln_aa2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAA----- ttaacctcaactagtttgctctttagagacattgtctttattatttttagGAAATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCAAGGGTGAGCGGgttgactttttgattagtcgtacgcgtggccctcatcaagat Alignment from Spaln_nt2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCT---TCCAG ttaacctcaactagtttgctctttagagacattgtctttattatttttagGAAATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCAAGGGTGAGCGGGTTGACTTTTTGATTAGTCgtacgcgtggccctcatcaagat Alignment from Pairagon GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG ttaacctcaactagtttgctctttagagacattgtctttattatttttagGAAATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCAAGGgtgagcgggttgactttttgattagtcgtacgcgtggccctcatcaagat Alignment from Exonerate_protein2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG ttaacctcaactagtttgctctttagagacattgtctttattatttttagGAAATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCAAGGgtgagcgggttgactttttgattagtcgtacgcgtggccctcatcaagat Alignment from Exonerate_coding2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGG ttaacctcaactagtttgctctttagagacattgtctttattatttttagGAAATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCAAGGgtgagcgggttgactttttgattagtcgtacgcgtggccctcatcaagat Alignment from GeneWise GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACAC-- ttaacctcaactagtttgctctttagagacattgtctttattatttttagGAAATGATTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCAAGGGTGAGCGGgttgactttttgattagtcgtacgcgtggccctcatcaagat #### Kcnip2_ID9606_6 --> 2 - 0 Original Alignment acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG--- ccggccaagggaaagtagatatgaaacctctactatttgtatgtgcttagacTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAGATgtattgcaggaaagatgatgcgctaaacaaactaagcctcttaacctgga Alignment from CESAR acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG--- ccggccaagggaaagtagatatgaaacctctactatttgtatgtgcttagacTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAGATgtattgcaggaaagatgatgcgctaaacaaactaagcctcttaacctgga Alignment from Spaln_aa2Genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG--- ccggccaagggaaagtagatatgaaacctctactatttgtatgtgcttagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAGATgtattgcaggaaagatgatgcgctaaacaaactaagcctcttaacctgga Alignment from Spaln_nt2Genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG--- ccggccaagggaaagtagatatgaaacctctactatttgtatgtgcttagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAGATgtattgcaggaaagatgatgcgctaaacaaactaagcctcttaacctgga Alignment from Pairagon ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG--- ccggccaagggaaagtagatatgaaacctctactatttgtatgtgcttagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAGATgtattgcaggaaagatgatgcgctaaacaaactaagcctcttaacctgga Alignment from Exonerate_protein2genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG ccggccaagggaaagtagatatgaaacctctactatttgtatgtgcttagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgatgtattgcaggaaagatgatgcgctaaacaaactaagcctcttaacctgga Alignment from Exonerate_coding2genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG ccggccaagggaaagtagatatgaaacctctactatttgtatgtgcttagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgatgtattgcaggaaagatgatgcgctaaacaaactaagcctcttaacctgga Alignment from GeneWise ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGGAC ccggccaagggaaagtagatatgaaacctctactatttgtatgtgcttagACTCCAGCAACTATGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAGATgtattgcaggaaagatgatgcgctaaacaaactaagcctcttaacctgga #### Kcnk4_ID1877_3 --> 2 - 0 Original Alignment TTTTCTCGGGGACCATCATCACTACCATCg gc------------------------------------TATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTG---CTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCAATCATCACTAACATgcgtaagcatgtctctatccaacctcctccccccacccccagctGACCGGCTTACTAAAAATGATGCTCTAGGGTACAACctgcttgctgttttccaggcTATGGAAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTATTTGGGATGTTGCTGCTTGTGGGAGTCGGGGACCAGCTGGGCTCCTCCCTACGCCGAGGCATCGGCCACATTGGAGCAATCTTCTCGgtgaggacta Alignment from CESAR cggtgtctgtgagtcttgtatatgctagttcgttccattgcttcagactga Alignment from Spaln_aa2Genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATG---CTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCAATCATCACTAACATGCgtaagcatgtctctatccaacctcctccccccacccccagctgaccggcttactaaaaatgatgctctagggtacaacctgcttgctgttttccagGCTATGGAAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTATTTGGGATGTTGCTGCTTGTGGGAGTCGGGGACCAGCTGGGCTCCTCCCTACGCCGAGGCATCGGCCACATTGGAGCAATCTTCTCGgtgaggacta Alignment from Spaln_nt2Genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTG---GCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCAATCATCACTAACATGCgtaagcatgtctctatccaacctcctccccccacccccagctgaccggcttactaaaaatgatgctctagggtacaacctgcttgctgttttccagGCTATGGAAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTATTTGGGATGTTGCTGCTTGTGGGAGTCGGGGACCAGCTGGGCTCCTCCCTACGCCGAGGCATCGGCCACATTGGAGCAATCTTCTCGgtgaggacta Alignment from Pairagon TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTG---GCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCAATCATCACTAACATGCgtaagcatgtctctatccaacctcctccccccacccccagctgaccggcttactaaaaatgatgctctagggtacaacctgcttgctgttttccagGCTATGGAAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTATTTGGGATGTTGCTGCTTGTGGGAGTCGGGGACCAGCTGGGCTCCTCCCTACGCCGAGGCATCGGCCACATTGGAGCAATCTTCTCGgtgaggacta Alignment from Exonerate_protein2genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATG---CTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCAATCATCACTAACATGCgtaagcatgtctctatccaacctcctccccccacccccagctgaccggcttactaaaaatgatgctctagggtacaacctgcttgctgttttccagGCTATGGAAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTATTTGGGATGTTGCTGCTTGTGGGAGTCGGGGACCAGCTGGGCTCCTCCCTACGCCGAGGCATCGGCCACATTGGAGCAATCTTCTCGgtgaggacta Alignment from Exonerate_coding2genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATG---CTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCAATCATCACTAACATGCgtaagcatgtctctatccaacctcctccccccacccccagctgaccggcttactaaaaatgatgctctagggtacaacctgcttgctgttttccagGCTATGGAAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTATTTGGGATGTTGCTGCTTGTGGGAGTCGGGGACCAGCTGGGCTCCTCCCTACGCCGAGGCATCGGCCACATTGGAGCAATCTTCTCGgtgaggacta Alignment from GeneWise TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTG---GCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTTCAATCATCACTAACATGCgtaagcatgtctctatccaacctcctccccccacccccagctgaccggcttactaaaaatgatgctctagggtacaacctgcttgctgttttccagGCTATGGAAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTATTTGGGATGTTGCTGCTTGTGGGAGTCGGGGACCAGCTGGGCTCCTCCCTACGCCGAGGCATCGGCCACATTGGAGCAATCTTCTCGgtgaggacta #### Kif20b_ID7005_10 --> 1 - 2 Original Alignment aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa gaaagtctttgcagtactgttggttttttgtccatactaaaccattacaga------CTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAGAATGAAGGTGAAAGGCTAAGAGAGGCTGGGAATATCAACACATCCTTATTGACCTTGGGAATGTGTGTCAATGTTTTAAAGAACAGTGAAAAGTCAaagtgagtgtccttagtgccattatgtaaatctaactttgtgtgcttttgaa Alignment from CESAR aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa tggaatgaaagtctttgcagtactgttttgtccatactaaaccattacaga------CTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAGAATGAAGGTGAAAGGCTAAGAGAGGCTGGGAATATCAACACATCCTTATTGACCTTGGGAATGTGTGTCAATGTTTTAAAGAACAGTGAAAAGTCAaagtgagtgtccttagtgccattatgtaaatctaactttgtgtgcttttgaa Alignment from Spaln_aa2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA gaaagtctttgcagtactgttggttttttgtccatactaaaccattacagA------CTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAGAATGAAGGTGAAAGGCTAAGAGAGGCTGGGAATATCAACACATCCTTATTGACCTTGGGAATGTGTGTCAATGTTTTAAAGAACAGTGAAAAGTCAAAgtgagtgtccttagtgccattatgtaaatctaactttgtgtgcttttgaa Alignment from Spaln_nt2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA gaaagtctttgcagtactgttggttttttgtccatactaaaccattacagA------CTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAGAATGAAGGTGAAAGGCTAAGAGAGGCTGGGAATATCAACACATCCTTATTGACCTTGGGAATGTGTGTCAATGTTTTAAAGAACAGTGAAAAGTCAAAgtgagtgtccttagtgccattatgtaaatctaactttgtgtgcttttgaa Alignment from Pairagon ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA gaaagtctttgcagtactgttggttttttgtccatactaaaccattacagA------CTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAGAATGAAGGTGAAAGGCTAAGAGAGGCTGGGAATATCAACACATCCTTATTGACCTTGGGAATGTGTGTCAATGTTTTAAAGAACAGTGAAAAGTCAAAgtgagtgtccttagtgccattatgtaaatctaactttgtgtgcttttgaa Alignment from Exonerate_protein2genome GTGAATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA gaaagtctttgcagtactgttggttttttgtccatactaaACCATTACAGACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAGAATGAAGGTGAAAGGCTAAGAGAGGCTGGGAATATCAACACATCCTTATTGACCTTGGGAATGTGTGTCAATGTTTTAAAGAACAGTGAAAAGTCAAAgtgagtgtccttagtgccattatgtaaatctaactttgtgtgcttttgaa Alignment from Exonerate_coding2genome GTGAATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA gaaagtctttgcagtactgttggttttttgtccatactaaACCATTACAGACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAGAATGAAGGTGAAAGGCTAAGAGAGGCTGGGAATATCAACACATCCTTATTGACCTTGGGAATGTGTGTCAATGTTTTAAAGAACAGTGAAAAGTCAAAgtgagtgtccttagtgccattatgtaaatctaactttgtgtgcttttgaa Alignment from GeneWise ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA gaaagtctttgcagtactgttggttttttgtccatactaaaccattacagACTA------TGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAGAATGAAGGTGAAAGGCTAAGAGAGGCTGGGAATATCAACACATCCTTATTGACCTTGGGAATGTGTGTCAATGTTTTAAAGAACAGTGAAAAGTCAAAgtgagtgtccttagtgccattatgtaaatctaactttgtgtgcttttgaa #### Kif20b_ID7006_11 --> 1 - 0 Original Alignment gGTTCAGCATGTGCCTTTCCGAGAAAGTAAA------------CTGACCCACTATTTCCAAAGTTTTTTCACTGGAAAAGGGAAAATATGCATGATCATCAATATTAGTCAGTCTTGCTCTGCCTATGATGAGACACTCAATGTCCTGAAGTTCTCAACCACTGCGCAAAGG------------------ tgccaacattaagatacggcttatcatagtgtatattttttattttttaggGTTCAGCATGTGCCTTTCCGTGAAAGTAACCGTGAAAGTAAGCTGACCCACTATTTTCAAAGTTTTTTCAATGGAAAAGGCAAAATATGCATGATTATAAATATTAGTCAGTCTTGCTCCGCCTATGATGAGACTCTCAATGTTCTCAAGTTCTCAATCACTGTCGAGAGGTTGTATAATACGTTCCTGgtaaaggttcttagatttatactaaagcattaaccgcttaggctgcaaga Alignment from CESAR gGTTCAGCATGTGCCTTTCCGAGAA------------AGTAAACTGACCCACTATTTCCAAAGTTTTTTCACTGGAAAAGGGAAAATATGCATGATCATCAATATTAGTCAGTCTTGCTCTGCCTATGATGAGACACTCAATGTCCTGAAGTTCTCAACCACTGCGCAAAGG------------------ tgccaacattaagatacggcttatcatagtgtatattttttattttttaggGTTCAGCATGTGCCTTTCCGTGAAAGTAACCGTGAAAGTAAGCTGACCCACTATTTTCAAAGTTTTTTCAATGGAAAAGGCAAAATATGCATGATTATAAATATTAGTCAGTCTTGCTCCGCCTATGATGAGACTCTCAATGTTCTCAAGTTCTCAATCACTGTCGAGAGGTTGTATAATACGTTCCTGgtaaaggttcttagatttatactaaagcattaaccgcttaggctgcaaga Alignment from Spaln_aa2Genome GGTTCAGCATGTGCCTTTC------------CGAGAAAGTAAACTGACCCACTATTTCCAAAGTTTTTTCACTGGAAAAGGGAAAATATGCATGATCATCAATATTAGTCAGTCTTGCTCTGCCTATGATGAGACACTCAATGTCCTGAAGTTCTCAACCACT tgccaacattaagatacggcttatcatagtgtatattttttattttttagGGTTCAGCATGTGCCTTTCCGTGAAAGTAACCGTGAAAGTAAGCTGACCCACTATTTTCAAAGTTTTTTCAATGGAAAAGGCAAAATATGCATGATTATAAATATTAGTCAGTCTTGCTCCGCCTATGATGAGACTCTCAATGTTCTCAAGTTCTCAATCACTgtcgagaggttgtataatacgttcctggtaaaggttcttagatttatactaaagcattaaccgcttaggctgcaaga Alignment from Spaln_nt2Genome GGTTCAGCATGTGCCTTT------------CCGAGAAAGTAAACTGACCCACTATTTCCAAAGTTTTTTCACTGGAAAAGGGAAAATATGCATGATCATCAATATTAGTCAGTCTTGCTCTGCCTATGATGAGACACTCAATGTCCTGAAGTTCTCAACCACTGCGCAAAG tgccaacattaagatacggcttatcatagtgtatattttttattttttagGGTTCAGCATGTGCCTTTCCGTGAAAGTAACCGTGAAAGTAAGCTGACCCACTATTTTCAAAGTTTTTTCAATGGAAAAGGCAAAATATGCATGATTATAAATATTAGTCAGTCTTGCTCCGCCTATGATGAGACTCTCAATGTTCTCAAGTTCTCAATCACTGTCGAGAGgttgtataatacgttcctggtaaaggttcttagatttatactaaagcattaaccgcttaggctgcaaga Alignment from Pairagon GGTTCAGCATGTGCCTTT------------CCGAGAAAGTAAACTGACCCACTATTTCCAAAGTTTTTTCACTGGAAAAGGGAAAATATGCATGATCATCAATATTAGTCAGTCTTGCTCTGCCTATGATGAGACACTCAATGTCCTGAAGTTCTCAACCACTGCGCAAAGG------------------ tgccaacattaagatacggcttatcatagtgtatattttttattttttagGGTTCAGCATGTGCCTTTCCGTGAAAGTAACCGTGAAAGTAAGCTGACCCACTATTTTCAAAGTTTTTTCAATGGAAAAGGCAAAATATGCATGATTATAAATATTAGTCAGTCTTGCTCCGCCTATGATGAGACTCTCAATGTTCTCAAGTTCTCAATCACTGTCGAGAGGTTGTATAATACGTTCCTGgtaaaggttcttagatttatactaaagcattaaccgcttaggctgcaaga Alignment from Exonerate_protein2genome GGTTCAGCATGTGCCTTTC------------CGAGAAAGTAAACTGACCCACTATTTCCAAAGTTTTTTCACTGGAAAAGGGAAAATATGCATGATCATCAATATTAGTCAGTCTTGCTCTGCCTATGATGAGACACTCAATGTCCTGAAGTTCTCAACCACTGCGCAAAGG tgccaacattaagatacggcttatcatagtgtatattttttattttttagGGTTCAGCATGTGCCTTTCCGTGAAAGTAACCGTGAAAGTAAGCTGACCCACTATTTTCAAAGTTTTTTCAATGGAAAAGGCAAAATATGCATGATTATAAATATTAGTCAGTCTTGCTCCGCCTATGATGAGACTCTCAATGTTCTCAAGTTCTCAATCACTGTCGAGAGGttgtataatacgttcctggtaaaggttcttagatttatactaaagcattaaccgcttaggctgcaaga Alignment from Exonerate_coding2genome GGTTCAGCATGTGCCTTTC------------CGAGAAAGTAAACTGACCCACTATTTCCAAAGTTTTTTCACTGGAAAAGGGAAAATATGCATGATCATCAATATTAGTCAGTCTTGCTCTGCCTATGATGAGACACTCAATGTCCTGAAGTTCTCAACCACTGCGCAAAGG tgccaacattaagatacggcttatcatagtgtatattttttattttttagGGTTCAGCATGTGCCTTTCCGTGAAAGTAACCGTGAAAGTAAGCTGACCCACTATTTTCAAAGTTTTTTCAATGGAAAAGGCAAAATATGCATGATTATAAATATTAGTCAGTCTTGCTCCGCCTATGATGAGACTCTCAATGTTCTCAAGTTCTCAATCACTGTCGAGAGGttgtataatacgttcctggtaaaggttcttagatttatactaaagcattaaccgcttaggctgcaaga Alignment from GeneWise GGTTCAGCATGTGCCTTTC------------CGAGAAAGTAAACTGACCCACTATTTCCAAAGTTTTTTCACTGGAAAAGGGAAAATATGCATGATCATCAATATTAGTCAGTCTTGCTCTGCCTATGATGAGACACTCAATGTCCTGAAGTTCTCAACCACTGCGCAAAGG-- tgccaacattaagatacggcttatcatagtgtatattttttattttttagGGTTCAGCATGTGCCTTTCCGTGAAAGTAACCGTGAAAGTAAGCTGACCCACTATTTTCAAAGTTTTTTCAATGGAAAAGGCAAAATATGCATGATTATAAATATTAGTCAGTCTTGCTCCGCCTATGATGAGACTCTCAATGTTCTCAAGTTCTCAATCACTGTCGAGAGGTTgtataatacgttcctggtaaaggttcttagatttatactaaagcattaaccgcttaggctgcaaga #### Kif20b_ID7009_14 --> 1 - 0 Original Alignment gGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGACATAGAACTTGAAACTGAA gtgatatttttgattaagtcatcttttagacagtgtgttcttgcccttaggGAGACAGTTATTCATCAGCGGGAAATATTGGAAGAAAATGCTGAACGTCGCTTGGCAATTTTTGAAGATCTGGCTGGGAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGATATAGAACTAGACACT---gtgagtatttgatgataacattaaaaatcttgatattttctcacgtgatc Alignment from CESAR gGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGACATAGAACTTGAAACTGAA gtgatatttttgattaagtcatcttttagacagtgtgttcttgcccttaggGAGACAGTTATTCATCAGCGGGAAATATTGGAAGAAAATGCTGAACGTCGCTTGGCAATTTTTGAAGATCTGGCTGGGAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGATATAGAACTAGACACT---gtgagtatttgatgataacattaaaaatcttgatattttctcacgtg Alignment from Spaln_aa2Genome GGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGACATAGAACTTGAAACT gtgatatttttgattaagtcatcttttagacagtgtgttcttgcccttagGGAGACAGTTATTCATCAGCGGGAAATATTGGAAGAAAATGCTGAACGTCGCTTGGCAATTTTTGAAGATCTGGCTGGGAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGATATAGAACTAGACACTgtgagtatttgatgataacattaaaaatcttgatattttctcacgtgatc Alignment from Spaln_nt2Genome GGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGACATAGAACTTGAAACT gtgatatttttgattaagtcatcttttagacagtgtgttcttgcccttagGGAGACAGTTATTCATCAGCGGGAAATATTGGAAGAAAATGCTGAACGTCGCTTGGCAATTTTTGAAGATCTGGCTGGGAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGATATAGAACTAGACACTgtgagtatttgatgataacattaaaaatcttgatattttctcacgtgatc Alignment from Pairagon GGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGACATAGAACTTGAAACT gtgatatttttgattaagtcatcttttagacagtgtgttcttgcccttagGGAGACAGTTATTCATCAGCGGGAAATATTGGAAGAAAATGCTGAACGTCGCTTGGCAATTTTTGAAGATCTGGCTGGGAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGATATAGAACTAGACACTgtgagtatttgatgataacattaaaaatcttgatattttctcacgtgatc Alignment from Exonerate_protein2genome GGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGACATAGAACTTGAAACT gtgatatttttgattaagtcatcttttagacagtgtgttcttgcccttagGGAGACAGTTATTCATCAGCGGGAAATATTGGAAGAAAATGCTGAACGTCGCTTGGCAATTTTTGAAGATCTGGCTGGGAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGATATAGAACTAGACACTgtgagtatttgatgataacattaaaaatcttgatattttctcacgtgatc Alignment from Exonerate_coding2genome GGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGACATAGAACTTGAAACT gtgatatttttgattaagtcatcttttagacagtgtgttcttgcccttagGGAGACAGTTATTCATCAGCGGGAAATATTGGAAGAAAATGCTGAACGTCGCTTGGCAATTTTTGAAGATCTGGCTGGGAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGATATAGAACTAGACACTgtgagtatttgatgataacattaaaaatcttgatattttctcacgtgatc Alignment from GeneWise GGAGACACTTCTTCATGAACGAGAGATATTAGAAGAAAACGCTGAACGTCGCTTGGCAATCTTCAAAGATTTGGTTGGAAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGACATAGAACTTGAAACT gtgatatttttgattaagtcatcttttagacagtgtgttcttgcccttagGGAGACAGTTATTCATCAGCGGGAAATATTGGAAGAAAATGCTGAACGTCGCTTGGCAATTTTTGAAGATCTGGCTGGGAAATGTGACAGTCAAGATGAACCAACAAATAGAATTTGTGATATAGAACTAGACACTgtgagtatttgatgataacattaaaaatcttgatattttctcacgtgatc #### Klc2_ID854_12 --> 0 - 0 Original Alignment ---GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tgcaagacttcatgtatacttttgtcgggcctgctgtgctttctccacagGGGGGCCTAGATCCTGCTAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACAAGGACACTGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTAGACCTGGAAGAGTCAGAGCCTGCAGCTGAGTGGAGCGGAgtgagggtgtaaccagaggtgagcggtaaggctaccatgaatggacgtgt Alignment from CESAR ---GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tgcaagacttcatgtatacttttgtcgggcctgctgtgctttctccacagGGGGGCCTAGATCCTGCTAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACAAGGACACTGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTAGACCTGGAAGAGTCAGAGCCTGCAGCTGAGTGGAGCGGAgtgagggtgtaaccagaggtgagcggtaaggctaccatgaatggattcct Alignment from Spaln_aa2Genome GGCCTGGATCCT---GCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tgcaagacttcatgtatacttttgtcgggcctgctgtgctttctccacagGGGGGCCTAGATCCTGCTAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACAAGGACACTGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTAGACCTGGAAGAGTCAGAGCCTGCAGCTGAGTGGAGCGGAgtgagggtgtaaccagaggtgagcggtaaggctaccatgaatggacgtgt Alignment from Spaln_nt2Genome --GGGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tgcaagacttcatgtatacttttgtcgggcctgctgtgctttctccacagGGGGGCCTAGATCCTGCTAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACAAGGACACTGCCGTGGCAGTAGAGATGTGGTTGGGCCTC---CTGAGTTAGACCTGGAAGAGTCAGAGCCTGCAGCTGAGTGGAGCGGAgtgagggtgtaaccagaggtgagcggtaaggctaccatgaatggacgtgt Alignment from Pairagon ----------------------------------------------------GGGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG TGCAAGACTTCATGTATACTTTTGTCGGGCCTGCTGTGCTTTCTCCACAGGGGGGCCTAGATCCTGCTAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACAAGGACACTGCCGTGGCAGTAGAGATGTGGTTGGGCCTC---CTGAGTTAGACCTGGAAGAGTCAGAGCCTGCAGCTGAGTGGAGCGGAgtgagggtgtaaccagaggtgagcggtaaggctaccatgaatggacgtgt Alignment from Exonerate_protein2genome CAGGGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tgcaagacttcatgtatacttttgtcgggcctgctgtgctttctccacagGGGGGCCTAGATCCTGCTAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACAAGGACACTGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTAGACCTGGAAGAGTCAGAGCCTGCAGCTGAGTGGAGCGGAgtgagggtgtaaccagaggtgagcggtaaggctaccatgaatggacgtgt Alignment from Exonerate_coding2genome CAGGGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tgcaagacttcatgtatacttttgtcgggcctgctgtgctttctccacagGGGGGCCTAGATCCTGCTAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACAAGGACACTGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTAGACCTGGAAGAGTCAGAGCCTGCAGCTGAGTGGAGCGGAgtgagggtgtaaccagaggtgagcggtaaggctaccatgaatggacgtgt Alignment from GeneWise ---GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tgcaagacttcatgtatacttttgtcgggcctgctgtgctttctccacagGGGGGCCTAGATCCTGCTAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACAAGGACACTGCCGTGGCAGTAGAGATGTGGTTGGGCCTCCT---GAGTTAGACCTGGAAGAGTCAGAGCCTGCAGCTGAGTGGAGCGGAgtgagggtgtaaccagaggtgagcggtaaggctaccatgaatggacgtgt #### Klc2_ID860_6 --> 0 - 0 Original Alignment GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG gattccttcagggccctgaatgaagacaacacctagtcctcgttctacagGTG------GCCCTCAATAATCTGGCTGTGCTTTATGGCAAACGAGGTAAGTACCAGGAAGCTGAGCCACTATGCAAAAGGGCACTTGAAATCCGA------gtaagtcaatgttcaggtacgacagcatggcatgagtgccaagcaagcag Alignment from CESAR GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG gattccttcagggccctgaatgaagacaacacctagtcctcgttctacagGTGGCC------CTCAATAATCTGGCTGTGCTTTATGGCAAACGAGGTAAGTACCAGGAAGCTGAGCCACTATGCAAAAGGGCACTTGAAATCCGA------gtaagtcaatgttcaggtacgacagcatggcatgagtgccaagc Alignment from Spaln_aa2Genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG gattccttcagggccctgaatgaagacaacacctagtcctcgttctacagGTGGCC------CTCAATAATCTGGCTGTGCTTTATGGCAAACGAGGTAAGTACCAGGAAGCTGAGCCACTATGCAAAAGGGCACTTGAAATCCGAgtaagtcaatgttcaggtacgacagcatggcatgagtgccaagcaagcag Alignment from Spaln_nt2Genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG gattccttcagggccctgaatgaagacaacacctagtcctcgttctacagGTGG------CCCTCAATAATCTGGCTGTGCTTTATGGCAAACGAGGTAAGTACCAGGAAGCTGAGCCACTATGCAAAAGGGCACTTGAAATCCGAgtaagtcaatgttcaggtacgacagcatggcatgagtgccaagcaagcag Alignment from Pairagon GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG gattccttcagggccctgaatgaagacaacacctagtcctcgttctacagGTGG------CCCTCAATAATCTGGCTGTGCTTTATGGCAAACGAGGTAAGTACCAGGAAGCTGAGCCACTATGCAAAAGGGCACTTGAAATCCGAgtaagtcaatgttcaggtacgacagcatggcatgagtgccaagcaagcag Alignment from Exonerate_protein2genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGG gattccttcagggccctgaatgaagacaacacctagtcctcgttctacagGTGGCC------CTCAATAATCTGGCTGTGCTTTATGGCAAACGAGGTAAGTACCAGGAAGCTGAGCCACTATGCAAAAGGGCACTTGAAATCCGAgtaagtcaatgttcaggtacgacagcatggcatgagtgccaagcaagcag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG gattccttcagggccctgaatgaagacaacacctagtcctcgttctacagGTGGCC------CTCAATAATCTGGCTGTGCTTTATGGCAAACGAGGTAAGTACCAGGAAGCTGAGCCACTATGCAAAAGGGCACTTGAAATC------CGAgtaagtcaatgttcaggtacgacagcatggcatgagtgccaagcaagcag #### Ldb1_ID9691_9 --> 0 - 1 Original Alignment CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg caatccttcctctgttttagaggccaattcacacaccctccttttcgcagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGTCTCTTCCAGAAGTGGCAGCGAATGGTA---------ggtaagacccccccctgtgttgactaatcctgctaaaatagttgtggtcca Alignment from CESAR CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTA------GCGCCTCCCg caatccttcctctgttttagaggccaattcacacaccctccttttcgcagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGTCTCTTCCAGAAGTGGCAGCGAATGGTAGGTAAGACCCCCCCCtgtgttgactaatcctgctaaaatagttgtggtcca Alignment from Spaln_aa2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTA------GCGCCTCCCG caatccttcctctgttttagaggccaattcacacaccctccttttcgcagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGTCTCTTCCAGAAGTGGCAGCGAATGGTAGGTAAGACCCCCCCCTgtgttgactaatcctgctaaaatagttgtggtcca Alignment from Spaln_nt2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAG caatccttcctctgttttagaggccaattcacacaccctccttttcgcagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGTCTCTTCCAGAAGTGGCAGCGAATGGTAGgtaagacccccccctgtgttgactaatcctgctaaaatagttgtggtcca Alignment from Pairagon CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAG caatccttcctctgttttagaggccaattcacacaccctccttttcgcagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGTCTCTTCCAGAAGTGGCAGCGAATGGTAGgtaagacccccccctgtgttgactaatcctgctaaaatagttgtggtcca Alignment from Exonerate_protein2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAG caatccttcctctgttttagaggccaattcacacaccctccttttcgcagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGTCTCTTCCAGAAGTGGCAGCGAATGGTAGgtaagacccccccctgtgttgactaatcctgctaaaatagttgtggtcca Alignment from Exonerate_coding2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAG caatccttcctctgttttagaggccaattcacacaccctccttttcgcagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGTCTCTTCCAGAAGTGGCAGCGAATGGTAGgtaagacccccccctgtgttgactaatcctgctaaaatagttgtggtcca Alignment from GeneWise CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCG------CCTCCCG caatccttcctctgttttagaggccaattcacacaccctccttttcgcagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGTCTCTTCCAGAAGTGGCAGCGAATGGTAGGTAAGACCCCCCCCTgtgttgactaatcctgctaaaatagttgtggtcca #### Ldb1_ID9694_6 --> 2 - 0 Original Alignment cc------ATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctacctgtcctgaatcctctgtgttcttctatgcagccATCTCAATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtgagtaagccataagcacagtgaaacccaatatgatggccctagtggga Alignment from CESAR cc------ATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctacctgtcctgaatcctctgtgttcttctatgcagccATCTCAATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtgagtaagccataagcacagtgaaacccaatatgatggccctagtggga Alignment from Spaln_aa2Genome CCATTGGCCGGACC------CTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctacctgtcctgaatcctctgtgttcttctatgcagCCATCTCAATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtgagtaagccataagcacagtgaaacccaatatgatggccctagtggga Alignment from Spaln_nt2Genome ATATACCA-TTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctacctgtcctgaatcctctgtgttcttctatgcagCCATCTCAATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtgagtaagccataagcacagtgaaacccaatatgatggccctagtggga Alignment from Pairagon CC------ATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctacctgtcctgaatcctctgtgttcttctatgcagCCATCTCAATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtgagtaagccataagcacagtgaaacccaatatgatggccctagtggga Alignment from Exonerate_protein2genome CC------ATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctacctgtcctgaatcctctgtgttcttctatgcagCCATCTCAATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtgagtaagccataagcacagtgaaacccaatatgatggccctagtggga Alignment from Exonerate_coding2genome CC------ATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctacctgtcctgaatcctctgtgttcttctatgcagCCATCTCAATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtgagtaagccataagcacagtgaaacccaatatgatggccctagtggga Alignment from GeneWise -----ACCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ttcacatgtgacctctacctgtcctgaatcctctgtgttcttctatgcagCCATCTCAATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtgagtaagccataagcacagtgaaacccaatatgatggccctagtggga #### Ldb1_ID9695_5 --> 0 - 1 Original Alignment ---GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa tgcctgggggacctcttatctaacccatactcagtgacatttatctccagCTGGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACCGAGTTCTTTGAAGATGATGCCATGCTCACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGGTACagtaaggtagctctatgggagacactgtcacaccttcgttatgtatttctt Alignment from CESAR ---GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa tgcctgggggacctcttatctaacccatactcagtgacatttatctccagCTGGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACCGAGTTCTTTGAAGATGATGCCATGCTCACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGGTACagtaaggtagctctatgggagacactgtcacaccttcgttatgtatttctt Alignment from Spaln_aa2Genome GAGTGTGAC---AATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA tgcctgggggacctcttatctaacccatactcagtgacatttatctccagCTGGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACCGAGTTCTTTGAAGATGATGCCATGCTCACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGGTACAgtaaggtagctctatgggagacactgtcacaccttcgttatgtatttctt Alignment from Spaln_nt2Genome GGAGTGTGA--CAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA tgcctgggggacctcttatctaacccatactcagtgacatttatctccagCTGGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACCGAGTTCTTTGAAGATGATGCCATGCTCACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGGTACAgtaaggtagctctatgggagacactgtcacaccttcgttatgtatttctt Alignment from Pairagon ----------------------------------------------------GGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA TGCCTGGGGGACCTCTTATCTAACCCATACTCAGTGACATTTATCTCCAGCTGGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACCGAGTTCTTTGAAGATGATGCCATGCTCACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGGTACAgtaaggtagctctatgggagacactgtcacaccttcgttatgtatttctt Alignment from Exonerate_protein2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA tgcctgggggacctcttatctaacccatactcagtgacatttatctccagctgGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACCGAGTTCTTTGAAGATGATGCCATGCTCACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGGTACAgtaaggtagctctatgggagacactgtcacaccttcgttatgtatttctt Alignment from Exonerate_coding2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA tgcctgggggacctcttatctaacccatactcagtgacatttatctccagctgGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACCGAGTTCTTTGAAGATGATGCCATGCTCACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGGTACAgtaaggtagctctatgggagacactgtcacaccttcgttatgtatttctt Alignment from GeneWise ---GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA tgcctgggggacctcttatctaacccatactcagtgacatttatctccagCTGGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACCGAGTTCTTTGAAGATGATGCCATGCTCACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGGTACAgtaaggtagctctatgggagacactgtcacaccttcgttatgtatttctt #### Ldb1_ID9697_3 --> 1 - 2 Original Alignment cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg tctgttccatggtcacactaacagcattttctctcctctgcaacctccagc---------ATGTACCCACCTACATACCTGGAGCCTGGGATTgggtaggtggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from CESAR cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg agtcagttctctgttccatggtcacattttctctcctctgcaacctccagc---------ATGTACCCACCTACATACCTGGAGCCTGGGATTgggtaggtggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Spaln_aa2Genome ----TACCCACCTACATACCTGGAGCCTGGGATCGG tctgttccatggtcacactaacagcattttctctcctctgcaacctccagCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaggtggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Spaln_nt2Genome CATGTACCCACCTACATACCTGGAGCCTGGGATCGG tctgttccatggtcacactaacagcattttctctcctctgcaacctccagCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaggtggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Pairagon CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG tctgttccatggtcacactaacagcattttctctcctctgcaacctccag---------CATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaggtggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Exonerate_protein2genome tctgttccatggtcacactaacagcattttctctcctctgcaacctccagcatgtacccacctacatacctggagcctgggattgggtaggtggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Exonerate_coding2genome tctgttccatggtcacactaacagcattttctctcctctgcaacctccagcatgtacccacctacatacctggagcctgggattgggtaggtggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from GeneWise CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG tctgttccatggtcacactaacagcattttctctcctctgcaacctccagC---------ATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaggtggactgcattataccattaagtcttgtctctacatcatctgtcc #### Ltbp3_ID1253_5 --> 2 - 1 Original Alignment atACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg cccagtgctcacccccatttgtcactatctgctgtgcctgcccaccgcagatACAGGAGTGCAGAAACCTGGACCCGTACGAGGGGAGGTGGGTGCTGACTGCCCCAAGGGCTATAAGAGGCTTAACAGCACC---------ggtgagtgttcagcagcgaacctggagatcctgttgactgttagatgggcc Alignment from CESAR atACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg cccagtgctcacccccatttgtcactatctgctgtgcctgcccaccgcagatACAGGAGTGCAGAAACCTGGACCCGTACGAGGGGAGGTGGGTGCTGACTGCCCCAAGGGCTATAAGAGGCTTAACAGCACC---------ggtgagtgttcagcagcgaacctggagatcctgttgactgttagatgggcc Alignment from Spaln_aa2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG cccagtgctcacccccatttgtcactatctgctgtgcctgcccaccgcagATACAGGAGTGCAGAAACCTGGACCCGTACGAGGGGAGGTGGGTGCTGACTGCCCCAAGGGCTATAAGAGGCTTAACAGCACC---GGTGAGTgttcagcagcgaacctggagatcctgttgactgttagatgggcc Alignment from Spaln_nt2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCC ACTG-CC cccagtgctcacccccatttgtcactatctgctgtgcctgcccaccgcagATACAGGAGTGCAGAAACCTGGACCCGTACGAGGGGAGGTGGGTGCTGACTGCCCCAAGGGCTATAAGAGGCTTAACAGCACCGgtgagtgttcagcagcgaacctggagatcctgttgactgttagATGGGCC Alignment from Pairagon ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG cccagtgctcacccccatttgtcactatctgctgtgcctgcccaccgcagATACAGGAGTGCAGAAACCTGGACCCGTACGAGGGGAGGTGGGTGCTGACTGCCCCAAGGGCTATAAGAGGCTTAACAGCACC---------Ggtgagtgttcagcagcgaacctggagatcctgttgactgttagatgggcc Alignment from Exonerate_protein2genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCC cccagtgctcacccccatttgtcactatctgctgtgcctgcccaccgcagATACAGGAGTGCAGAAACCTGGACCCGTACGAGGGGAGGTGGGTGCTGACTGCCCCAAGGGCTATAAGAGGCTTAACAGCACCGgtgagtgttcagcagcgaacctggagatcctgttgactgttagatgggcc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG cccagtgctcacccccatttgtcactatctgctgtgcctgcccaccgcagATACAGGAGTGCAGAAACCTGGACCCGTACGAGGGGAGGTGGGTGCTGACTGCCCCAAGGGCTATAAGAGGCTTAACAGCACCGGT---GAGTgttcagcagcgaacctggagatcctgttgactgttagatgg #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment at---------GTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg aatataacttacccagtccacccacatcgaaactcaccttgtgttgacagatTATGCCACGGTGAATGAGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCATTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGggtacaaacacatggctagcccacacctgggtgtgggctgttcctgttctt Alignment from CESAR at---------GTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg aatataacttacccagtccacccacatcgaaactcaccttgtgttgacagatTATGCCACGGTGAATGAGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCATTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGggtacaaacacatggctagcccacacctgggtgtgggctgttcctgttctt Alignment from Spaln_aa2Genome AT---------GTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aatataacttacccagtccacccacatcgaaactcaccttgtgttgacagATTATGCCACGGTGAATGAGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCATTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtacaaacacatggctagcccacacctgggtgtgggctgttcctgttctt Alignment from Spaln_nt2Genome AT---------GTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aatataacttacccagtccacccacatcgaaactcaccttgtgttgacagATTATGCCACGGTGAATGAGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCATTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtacaaacacatggctagcccacacctgggtgtgggctgttcctgttctt Alignment from Pairagon AT---------GTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aatataacttacccagtccacccacatcgaaactcaccttgtgttgacagATTATGCCACGGTGAATGAGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCATTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtacaaacacatggctagcccacacctgggtgtgggctgttcctgttctt Alignment from Exonerate_protein2genome AT---------GTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aatataacttacccagtccacccacatcgaaactcaccttgtgttgacagATTATGCCACGGTGAATGAGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCATTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtacaaacacatggctagcccacacctgggtgtgggctgttcctgttctt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --------GATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aatataacttacccagtccacccacatcgaaactcaccttgtgttgacagATTATGCCACGGTGAATGAGTGTGGGGCTGAGCCCTGTGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCATTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtacaaacacatggctagcccacacctgggtgtgggctgttcctgttctt #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg ttcctgttcttgaccccgccctctctttatcactgtgttctctgctgcagac------GAGTGCACGAAGCCTCATCTGTGTGGCGATGGTGGCTTTTGCATCAACTTCCCTGGCCACTACACGTGCAACTGTTATCCTGGCTACAGGCTCAAGGCCTCCAGACCACCCATCTGGGAAggtaagttgtcatcctattgaagcagcataattcccctccctggacttagg Alignment from CESAR acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg gggctgttcctgttcttgaccccgctttatcactgtgttctctgctgcagac------GAGTGCACGAAGCCTCATCTGTGTGGCGATGGTGGCTTTTGCATCAACTTCCCTGGCCACTACACGTGCAACTGTTATCCTGGCTACAGGCTCAAGGCCTCCAGACCACCCATCTGGGAAggtaagttgtcatcctattgaagcagcataattcccctccctggacttagg Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG ttcctgttcttgaccccgccctctctttatcactgtgttctctgctgcagAC------GAGTGCACGAAGCCTCATCTGTGTGGCGATGGTGGCTTTTGCATCAACTTCCCTGGCCACTACACGTGCAACTGTTATCCTGGCTACAGGCTCAAGGCCTCCAGACCACCCATCTGGGAAGgtaagttgtcatcctattgaagcagcataattcccctccctggacttagg Alignment from Spaln_nt2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG ttcctgttcttgaccccgccctctctttatcactgtgttctctgctgcag------ACGAGTGCACGAAGCCTCATCTGTGTGGCGATGGTGGCTTTTGCATCAACTTCCCTGGCCACTACACGTGCAACTGTTATCCTGGCTACAGGCTCAAGGCCTCCAGACCACCCATCTGGGAAGgtaagttgtcatcctattgaagcagcataattcccctccctggacttagg Alignment from Pairagon ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG ttcctgttcttgaccccgccctctctttatcactgtgttctctgctgcag------ACGAGTGCACGAAGCCTCATCTGTGTGGCGATGGTGGCTTTTGCATCAACTTCCCTGGCCACTACACGTGCAACTGTTATCCTGGCTACAGGCTCAAGGCCTCCAGACCACCCATCTGGGAAGgtaagttgtcatcctattgaagcagcataattcccctccctggacttagg Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG ttcctgttcttgaccccgccctctctttatcactgtgttctctgCTGCAGACGAGTGCACGAAGCCTCATCTGTGTGGCGATGGTGGCTTTTGCATCAACTTCCCTGGCCACTACACGTGCAACTGTTATCCTGGCTACAGGCTCAAGGCCTCCAGACCACCCATCTGGGAAGgtaagttgtcatcctattgaagcagcataattcccctccctggacttagg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG ttcctgttcttgaccccgccctctctttatcactgtgttctctgctgcagAC------GAGTGCACGAAGCCTCATCTGTGTGGCGATGGTGGCTTTTGCATCAACTTCCCTGGCCACTACACGTGCAACTGTTATCCTGGCTACAGGCTCAAGGCCTCCAGACCACCCATCTGGGAAGgtaagttgtcatcctattgaagcagcataattcccctccctggacttagg #### Ltbp3_ID1263_15 --> 2 - 1 Original Alignment ac------------------ATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg acaccagatttgagtattacaccacccttccccctctccaccctcttcagacATCGTTGCATTGGCCTCCATTGACGAGTGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAACAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTggtgagtcaggtctaattccccctaaaggggtggcctgtcctggatagggt Alignment from CESAR acATC------------------GACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTg acaccagatttgagtattacaccacccttccccctctccaccctcttcagacATCGTTGCATTGGCCTCCATTGACGAGTGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAACAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTggtgagtcaggtctaattccccctaaaggggtggcctgtcctggatagggt Alignment from Spaln_aa2Genome ACATCGACGAGTGT------------------CGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG acaccagatttgagtattacaccacccttccccctctccaccctcttcagACATCGTTGCATTGGCCTCCATTGACGAGTGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAACAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTGgtgagtcaggtctaattccccctaaaggggtggcctgtcctggatagggt Alignment from Spaln_nt2Genome TTGC------GAAGACATCGACGAGT----GTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG acaccagatttgagtattacaccacccttccccctctccaccctcttcagACATCGTTGCATTGGCCTCCATTGACGAGTGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAACAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTGgtgagtcaggtctaattccccctaaaggggtggcctgtcctggatagggt Alignment from Pairagon ACATC------------------GACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG acaccagatttgagtattacaccacccttccccctctccaccctcttcagACATCGTTGCATTGGCCTCCATTGACGAGTGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAACAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTGgtgagtcaggtctaattccccctaaaggggtggcctgtcctggatagggt Alignment from Exonerate_protein2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG acaccagatttgagtattacaccacccttccccctctccaccctcttcagacatcgttgcattggcctCCATTGACGAGTGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAACAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTGgtgagtcaggtctaattccccctaaaggggtggcctgtcctggatagggt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -----------------GACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGTG acaccagatttgagtattacaccacccttccccctctccaccctcttcagACATCGTTGCATTGGCCTCCATTGACGAGTGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAACAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTGgtgagtcaggtctaattccccctaaaggggtggcctgtcctggatagggt #### Ltbp3_ID1269_21 --> 2 - 1 Original Alignment ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg agatgggatagtataagtgaacccaccactacattttcttgtttttgaagctGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTACCCAC---ggtaagtggtaagctagtttagtttaagggttctggttgaggatgccattt Alignment from CESAR ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg agatgggatagtataagtgaacccaccactacattttcttgtttttgaagctGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTACCCAC---ggtaagtggtaagctagtttagtttaagggttctggttgaggatgccattt Alignment from Spaln_aa2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCAC- agatgggatagtataagtgaacccaccactacattttcttgtttttgaagCTGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTACCCACGgtaagtggtaagctagtttagtttaagggttctggttgaggatgccattt Alignment from Spaln_nt2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG agatgggatagtataagtgaacccaccactacattttcttgtttttgaagCTGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTACCCAC---Ggtaagtggtaagctagtttagtttaagggttctggttgaggatgccattt Alignment from Pairagon CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG agatgggatagtataagtgaacccaccactacattttcttgtttttgaagCTGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTACCCAC---Ggtaagtggtaagctagtttagtttaagggttctggttgaggatgccattt Alignment from Exonerate_protein2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG agatgggatagtataagtgaacccaccactacattttcttgtttttgaagCTGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTACCCAC---Ggtaagtggtaagctagtttagtttaagggttctggttgaggatgccattt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACC agatgggatagtataagtgaacccaccactacattttcttgtttttgaagCTGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTACCCACGgtaagtggtaagctagtttagtttaagggttctggttgaggatgccattt #### Ltbp3_ID1270_22 --> 2 - 1 Original Alignment ac---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGg caagtgatgtatagggccactgcgaacttttgttatttccttttttgcagacCAGATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTGCTAGAGTGCGTGggtgagttagattatagtgctactcaaggaacagctgaacttttatccctg Alignment from CESAR ac---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGg caagtgatgtatagggccactgcgaacttttgttatttccttttttgcagacCAGATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTGCTAGAGTGCGTGggtgagttagattatagtgctactcaaggaacagctgaacttgggtctgtt Alignment from Spaln_aa2Genome AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgtatagggccactgcgaacttttgttatttccttttttgcagACCAGATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTGCTAGAGTGCGTGGgtgagttagattatagtgctactcaaggaacagctgaacttttatccctg Alignment from Spaln_nt2Genome AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgtatagggccactgcgaacttttgttatttccttttttgcagACCAGATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTGCTAGAGTGCGTGGgtgagttagattatagtgctactcaaggaacagctgaacttttatccctg Alignment from Pairagon AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgtatagggccactgcgaacttttgttatttccttttttgcagACCAGATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTGCTAGAGTGCGTGGgtgagttagattatagtgctactcaaggaacagctgaacttttatccctg Alignment from Exonerate_protein2genome AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgtatagggccactgcgaacttttgttatttccttttttgcagACCAGATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTGCTAGAGTGCGTGGgtgagttagattatagtgctactcaaggaacagctgaacttttatccctg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --GACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTG--------------------------------------------------- caagtgatgtatagggccactgcgaacttttgttatttccttttttgcagACCAGATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTGCTAGAGTGCGTGGGTGAGTTAGATTATAGTGCTACTCAAGGAACAGCTGAACTTTTATCCCTG #### Ltbp3_ID1271_23 --> 2 - 1 Original Alignment acGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATG---g tagtgctactcaaggaacagctgaacttgggtctgtttttctcttcccagatTTAGATGAGTGTTTAGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACGCGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAATGTCTGAGTCCAGAGGAGATGAGAggtgaacgctagcgaaacagtttgctaaggcaggaactgccaaggggtgga Alignment from CESAR acGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATG---g tagtgctactcaaggaacagctgaacttgggtctgtttttctcttcccagatTTAGATGAGTGTTTAGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACGCGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAATGTCTGAGTCCAGAGGAGATGAGAggtgaacgctagcgaaacagtttgctaaggcaggaactgccaaggggtgga Alignment from Spaln_aa2Genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATG---G tagtgctactcaaggaacagctgaacttgggtctgtttttctcttcccagATTTAGATGAGTGTTTAGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACGCGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAATGTCTGAGTCCAGAGGAGATGAGAGgtgaacgctagcgaaacagtttgctaaggcaggaactgccaaggggtgga Alignment from Spaln_nt2Genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATG---G tagtgctactcaaggaacagctgaacttgggtctgtttttctcttcccagATTTAGATGAGTGTTTAGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACGCGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAATGTCTGAGTCCAGAGGAGATGAGAGgtgaacgctagcgaaacagtttgctaaggcaggaactgccaaggggtgga Alignment from Pairagon ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATG---G tagtgctactcaaggaacagctgaacttgggtctgtttttctcttcccagATTTAGATGAGTGTTTAGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACGCGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAATGTCTGAGTCCAGAGGAGATGAGAGgtgaacgctagcgaaacagtttgctaaggcaggaactgccaaggggtgga Alignment from Exonerate_protein2genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATG---G tagtgctactcaaggaacagctgaacttgggtctgtttttctcttcccagATTTAGATGAGTGTTTAGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACGCGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAATGTCTGAGTCCAGAGGAGATGAGAGgtgaacgctagcgaaacagtttgctaaggcaggaactgccaaggggtgga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -------------------------------------------------GACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGGAG- TAGTGCTACTCAAGGAACAGCTGAACTTGGGTCTGTTTTTCTCTTCCCAGATTTAGATGAGTGTTTAGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACGCGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAATGTCTGAGTCCAGAGGAGATGAGAGgtgaacgctagcgaaacagtttgctaaggcaggaactgccaaggggtgga #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment ag---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCC cgagcagcatattgctctggtctctttataatggtttctctctgtttcagagATGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTggtaagaaatcattgatggatgacctatgtgtgacccaccctcagggTCCC Alignment from CESAR ag---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCC cgagcagcatattgctctggtctctttataatggtttctctctgtttcagagATGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTggtaagaaatcattgatggatgattaactttctcctgtcttgtagggTCCC Alignment from Spaln_aa2Genome AG---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC cgagcagcatattgctctggtctctttataatggtttctctctgtttcagAGATGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtaagaaatcattgatggatgacctatgtgtgacccaccctcagGGTCCC Alignment from Spaln_nt2Genome AGCACGCCCCAG---AGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC cgagcagcatattgctctggtctctttataatggtttctctctgtttcagAGATGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtaagaaatcattgatggatgacctatgtgtgacccaccctcagGGTCCC Alignment from Pairagon A---GCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC cgagcagcatattgctctggtctctttataatggtttctctctgtttcagAGATGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtaagaaatcattgatggatgacctatgtgtgacccaccctcagGGTCCC Alignment from Exonerate_protein2genome AG---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC cgagcagcatattgctctggtctctttataatggtttctctctgtttcagAGATGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtaagaaatcattgatggatgacctatgtgtgacccaccctcagGGTCCC Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --GAGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC cgagcagcatattgctctggtctctttataatggtttctctctgtttcagAGATGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCCCCACGTGGTACTGgtaagaaatcattgatggatgacctatgtgtgacccaccctcagGGTCCC #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG---g cccaatgtatagaaatcctactatagattgtgtttctctctgtaatttagacGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGTGCCACGCCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTCGTGTAATGggtcagtatgacattggggactgagggacagagtgcactggtcacagactt Alignment from CESAR acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG---g cccaatgtatagaaatcctactatagattgtgtttctctctgtaatttagacGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGTGCCACGCCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTCGTGTAATGggtcagtatgacattggggactgagggacagagtgcactggtcacagactt Alignment from Spaln_aa2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG---G cccaatgtatagaaatcctactatagattgtgtttctctctgtaatttagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGTGCCACGCCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTCGTGTAATGGgtcagtatgacattggggactgagggacagagtgcactggtcacagactt Alignment from Spaln_nt2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGT---GG cccaatgtatagaaatcctactatagattgtgtttctctctgtaatttagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGTGCCACGCCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTCGTGTAATGGgtcagtatgacattggggactgagggacagagtgcactggtcacagactt Alignment from Pairagon ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCG---TGG cccaatgtatagaaatcctactatagattgtgtttctctctgtaatttagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGTGCCACGCCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTCGTGTAATGGgtcagtatgacattggggactgagggacagagtgcactggtcacagactt Alignment from Exonerate_protein2genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG---G cccaatgtatagaaatcctactatagattgtgtttctctctgtaatttagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGTGCCACGCCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTCGTGTAATGGgtcagtatgacattggggactgagggacagagtgcactggtcacagactt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --------------TCTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGC cccaatgtatagaaatcctactatagATTGTGTTTCTCTCTGTAATTTAGACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGTGCCACGCCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTCGTgtaatgggtcagtatgacattggggactgagggacagagtgcactggtcacagactt #### Macrod1_ID2051_6 --> 2 - 0 Original Alignment atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG tgattgaaggatattgaaattttcttaatgttttgtgttttcttccccagat---------ACAGTGGGGCTCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGTTGTGTCCAGTTgtaccgttcaagtggttgaagcgtcaactacaacataccagaatctctgg Alignment from CESAR atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG aaaagtgaatgattgaaggatattgtaatgttttgtgttttcttccccagat---------ACAGTGGGGCTCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGTTGTGTCCAGTTgtaccgttcaagtggttgaagcgtcaactacaacataccagaatctctgg Alignment from Spaln_aa2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG tgattgaaggatattgaaattttcttaatgttttgtgttttcttccccagAT---------ACAGTGGGGCTCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGTTGTGTCCAGTTgtaccgttcaagtggttgaagcgtcaactacaacataccagaatctctgg Alignment from Spaln_nt2Genome CCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG tgattgaaggatattgaaattttcttaatgttttgtgttttcttccccag--ATACAGTGGGGCTCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGTTGTGTCCAGTTgtaccgttcaagtggttgaagcgtcaactacaacataccagaatctctgg Alignment from Pairagon ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG tgattgaaggatattgaaattttcttaatgttttgtgttttcttccccagAT---------ACAGTGGGGCTCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGTTGTGTCCAGTTgtaccgttcaagtggttgaagcgtcaactacaacataccagaatctctgg Alignment from Exonerate_protein2genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG tgattgaaggatattgaaattttcttaatgttttgtgttttcttccccagAT---------ACAGTGGGGCTCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGTTGTGTCCAGTTgtaccgttcaagtggttgaagcgtcaactacaacataccagaatctctgg Alignment from Exonerate_coding2genome ATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTGGCTTTCCCGTGCATCTCCACAG tgattgaaggatattgaaattttcttaatgttttgtgttttcttccccagATA----CAGTGGGGCTCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGTTGTGTCCAGTTGTACCGTTCAAGTGGTTGAAGCgtcaactacaacataccagaatctctgg Alignment from GeneWise ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTGGCTTTCCCG tgattgaaggatattgaaattttcttaatgttttgtgttttcttccccagAT---------ACAGTGGGGCTCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGTTG------------TGTCCAgttgtaccgttcaagtggttgaagcgtcaactacaacataccagaatctctgg #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG------ tggggtggggtccaatatgaattcacagcttcttttttctttctatttaggcTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGAATCCAgtaaacccagacagacattacattatgggagcttgggtgccataaactaa Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG------ tggggtggggtccaatatgaattcacagcttcttttttctttctatttaggcTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGAATCCAgtaaacccagacagacattacattatgggagcttgggtgccataaactaa Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG------ tggggtggggtccaatatgaattcacagcttcttttttctttctatttagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGAATCCAgtaaacccagacagacattacattatgggagcttgggtgccataaactaa Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG------ tggggtggggtccaatatgaattcacagcttcttttttctttctatttagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGAATCCAgtaaacccagacagacattacattatgggagcttgggtgccataaactaa Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG------ tggggtggggtccaatatgaattcacagcttcttttttctttctatttagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGAATCCAgtaaacccagacagacattacattatgggagcttgggtgccataaactaa Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG tggggtggggtccaatatgaattcacagcttcttttttctttctatttagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGaatccagtaaacccagacagacattacattatgggagcttgggtgccataaactaa Alignment from Exonerate_coding2genome TGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG tggggtggggtccaatatgaattcacagCTTCTTTTTTCTTTCTATTTAGGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGaatccagtaaacccagacagacattacattatgggagcttgggtgccataaactaa Alignment from GeneWise TGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG------ tggggtggggtccaatatgaattcacagCTTCTTTTTTCTTTCTATTTAGGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGAATCCAgtaaacccagacagacattacattatgggagcttgggtgccataaactaa #### Macrod1_ID2054_9 --> 0 - 1 Original Alignment GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg gtaggccagttacagtccagcttaagctttctcccatctgcatcccacagGTGGATCGGCTCATCATCTGTGTGTTCTTGGAGAAGGATGAGGGCATTTACAGGGAACGCCTTCCCCATTATTTCCCA---ggtcagtagcacccattcctcctatgctcctggacactcactgttgctctt Alignment from CESAR GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg gtaggccagttacagtccagcttaagctttctcccatctgcatcccacagGTGGATCGGCTCATCATCTGTGTGTTCTTGGAGAAGGATGAGGGCATTTACAGGGAACGCCTTCCCCATTATTTCCCA---ggtcagtagcacccattcctcctatgctcctggtcttaattgtgtctgtct Alignment from Spaln_aa2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC gtaggccagttacagtccagcttaagctttctcccatctgcatcccacagGTGGATCGGCTCATCATCTGTGTGTTCTTGGAGAAGGATGAGGGCATTTACAGGGAACGCCTTCCCCATTATTTCCCAGGTCAGtagcacccattcctcctatgctcctggacactcactgttgctctt Alignment from Spaln_nt2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAG gtaggccagttacagtccagcttaagctttctcccatctgcatcccacagGTGGATCGGCTCATCATCTGTGTGTTCTTGGAGAAGGATGAGGGCATTTACAGGGAACGCCTTCCCCATTATTTCCCAGgtcagtagcacccattcctcctatgctcctggacactcactgttgctctt Alignment from Pairagon GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCC-----CAGTAGCC gtaggccagttacagtccagcttaagctttctcccatctgcatcccacagGTGGATCGGCTCATCATCTGTGTGTTCTTGGAGAAGGATGAGGGCATTTACAGGGAACGCCTTCCCCATTATTTCCCAGGTCAGTAGCAcccattcctcctatgctcctggacactcactgttgctctt Alignment from Exonerate_protein2genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCA gtaggccagttacagtccagcttaagctttctcccatctgcatcccacagGTGGATCGGCTCATCATCTGTGTGTTCTTGGAGAAGGATGAGGGCATTTACAGGGAACGCCTTCCCCATTATTTCCCAggtcagtagcacccattcctcctatgctcctggacactcactgttgctctt Alignment from Exonerate_coding2genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCA gtaggccagttacagtccagcttaagctttctcccatctgcatcccacagGTGGATCGGCTCATCATCTGTGTGTTCTTGGAGAAGGATGAGGGCATTTACAGGGAACGCCTTCCCCATTATTTCCCAggtcagtagcacccattcctcctatgctcctggacactcactgttgctctt Alignment from GeneWise GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC gtaggccagttacagtccagcttaagctttctcccatctgcatcccacagGTGGATCGGCTCATCATCTGTGTGTTCTTGGAGAAGGATGAGGGCATTTACAGGGAACGCCTTCCCCATTATTTCCCAGGTCAGtagcacccattcctcctatgctcctggacactcactgttgctctt #### Map3k11_ID1202_3 --> 1 - 1 Original Alignment c------TTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTg tagttcctcctgagttgtaggttcacattaaatttcttttatttctctagtGAGGATTTTGGAGTGTTGCTGTGGGAGCTGCTGACTGGGAAAGTGCCATACCGAGGCATCGACTGTCTTGCTGTAGTCTATGGTGTGGCTGTAAACAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTggtgagggagatgaggttgtggagatgaaaggcaagccccccaacctggtg Alignment from CESAR c------TTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTg tagttcctcctgagttgtaggttcacattaaatttcttttatttctctagtGAGGATTTTGGAGTGTTGCTGTGGGAGCTGCTGACTGGGAAAGTGCCATACCGAGGCATCGACTGTCTTGCTGTAGTCTATGGTGTGGCTGTAAACAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTggtgagggagatgaggttgtggagatgaaaggcaagccccccaacctggtg Alignment from Spaln_aa2Genome C------TTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG tagttcctcctgagttgtaggttcacattaaatttcttttatttctctagTGAGGATTTTGGAGTGTTGCTGTGGGAGCTGCTGACTGGGAAAGTGCCATACCGAGGCATCGACTGTCTTGCTGTAGTCTATGGTGTGGCTGTAAACAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtgagggagatgaggttgtggagatgaaaggcaagccccccaacctggtg Alignment from Spaln_nt2Genome CTTTGGAGTG------CTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG tagttcctcctgagttgtaggttcacattaaatttcttttatttctctagTGAGGATTTTGGAGTGTTGCTGTGGGAGCTGCTGACTGGGAAAGTGCCATACCGAGGCATCGACTGTCTTGCTGTAGTCTATGGTGTGGCTGTAAACAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtgagggagatgaggttgtggagatgaaaggcaagccccccaacctggtg Alignment from Pairagon ------CTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG tagttcctcctgagttgtaggttcacattaaatttcttttatttctctagTGAGGATTTTGGAGTGTTGCTGTGGGAGCTGCTGACTGGGAAAGTGCCATACCGAGGCATCGACTGTCTTGCTGTAGTCTATGGTGTGGCTGTAAACAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtgagggagatgaggttgtggagatgaaaggcaagccccccaacctggtg Alignment from Exonerate_protein2genome C------TTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG tagttcctcctgagttgtaggttcacattaaatttcttttatttctctagTGAGGATTTTGGAGTGTTGCTGTGGGAGCTGCTGACTGGGAAAGTGCCATACCGAGGCATCGACTGTCTTGCTGTAGTCTATGGTGTGGCTGTAAACAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtgagggagatgaggttgtggagatgaaaggcaagccccccaacctggtg Alignment from Exonerate_coding2genome C------TTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG tagttcctcctgagttgtaggttcacattaaatttcttttatttctctagTGAGGATTTTGGAGTGTTGCTGTGGGAGCTGCTGACTGGGAAAGTGCCATACCGAGGCATCGACTGTCTTGCTGTAGTCTATGGTGTGGCTGTAAACAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtgagggagatgaggttgtggagatgaaaggcaagccccccaacctggtg Alignment from GeneWise ----AGCTTTGGAGTGCTGCTGTGGGAACTGCTGACTGGGGAGGTGCCCTACCGTGGCATCGACTGTCTTGCCGTAGCCTATGGTGTGGCTGTAAACAAGTTAACGTTACCCATCCCATCTACCTGCCCTGAGCCCTTTGCACAACTCATGGCTG tagttcctcctgagttgtaggttcacattaaatttcttttatttctctagTGAGGATTTTGGAGTGTTGCTGTGGGAGCTGCTGACTGGGAAAGTGCCATACCGAGGCATCGACTGTCTTGCTGTAGTCTATGGTGTGGCTGTAAACAAATTAACATTACCCATTCCATCTACTTGTCCCGAGCCCTTCGCACAACTCATGGCTGgtgagggagatgaggttgtggagatgaaaggcaagccccccaacctggtg #### Map3k11_ID1205_6 --> 2 - 1 Original Alignment atTTCAAACACCGCATCACAGTGCAAGCCTCTCCTGGCCTGGATCGGAGGAGAAACGTGTTCGAGGTTGGGGCTGGGGACTCGCCCACCTTCCCTAGATTCCGAGCCATCCAGt cctggagttttgagtgtgccctccgaaatagactccatttatttttctagacTTCAAACATCGAATCACAGTACAGGCCGCTCCTGGCCTAGATCGCAGGAGAAATGTGTTTGAGGTTGGGGCTGGGGACTCACCGACTTTCCCTAGATTC------------tgtaacctgcttagggctagtgtcagccagccccctctttccaaccacaca Alignment from CESAR atTTCAAACACCGCATCACAGTGCAAGCCTCTCCTGGCCTGGATCGGAGGAGAAACGTGTTCGAGGTTGGGGCTGGGGACTCGCCCACCTTCCCTAGATTCCGAGCCATCCAGt cctggagttttgagtgtgccctccgaaatagactccatttatttttctagacTTCAAACATCGAATCACAGTACAGGCCGCTCCTGGCCTAGATCGCAGGAGAAATGTGTTTGAGGTTGGGGCTGGGGACTCACCGACTTTCCCTAGATTC------------tgtaacctgcttagggctagtgtcagccagccccctctttccaaccacaca Alignment from Spaln_aa2Genome ATTTCAAACACCGCATCACAGTGCAAGCCTCTCCTGGCCTGGATCGGAGGAGAAACGTGTTCGAGGTTGGGGCTGGGGACTCGCCCACCTTCCCTAGATTCCGAGCCATC------CAGT cctggagttttgagtgtgccctccgaaatagactccatttatttttctagACTTCAAACATCGAATCACAGTACAGGCCGCTCCTGGCCTAGATCGCAGGAGAAATGTGTTTGAGGTTGGGGCTGGGGACTCACCGACTTTCCCTAGATTCTGTAACCTGCTTAGGGCTAgtgtcagccagccccctctttccaaccacaca Alignment from Spaln_nt2Genome ATTTCAAACACCGCATCACAGTGCAAGCCTCTCCTGGCCTGGATCGGAGGAGAAACGTGTTCGAGGTTGGGGCTGGGGACTCGCCCACCTTCCCTAGATTCCGAGCCATCC--AGT cctggagttttgagtgtgccctccgaaatagactccatttatttttctagACTTCAAACATCGAATCACAGTACAGGCCGCTCCTGGCCTAGATCGCAGGAGAAATGTGTTTGAGGTTGGGGCTGGGGACTCACCGACTTTCCCTAGATTCTGTAACCTGCTTAGGgctagtgtcagccagccccctctttccaaccacaca Alignment from Pairagon ATTTCAAACACCGCATCACAGTGCAAGCCTCTCCTGGCCTGGATCGGAGGAGAAACGTGTTCGAGGTTGGGGCTGGGGACTCGCCCACCTTCCCTAGATTCCGAGCCATCCAGT cctggagttttgagtgtgccctccgaaatagactccatttatttttctagACTTCAAACATCGAATCACAGTACAGGCCGCTCCTGGCCTAGATCGCAGGAGAAATGTGTTTGAGGTTGGGGCTGGGGACTCACCGACTTTCCCTAGATTC------------Tgtaacctgcttagggctagtgtcagccagccccctctttccaaccacaca Alignment from Exonerate_protein2genome ATTTCAAACACCGCATCACAGTGCAAGCCTCTCCTGGCCTGGATCGGAGGAGAAACGTGTTCGAGGTTGGGGCTGGGGACTCGCCCACCTTCCCTAGATTCCGAGCCATCCAGT cctggagttttgagtgtgccctccgaaatagactccatttatttttctagACTTCAAACATCGAATCACAGTACAGGCCGCTCCTGGCCTAGATCGCAGGAGAAATGTGTTTGAGGTTGGGGCTGGGGACTCACCGACTTTCCCTAGATTCTGTAACCTGCTTAgggctagtgtcagccagccccctctttccaaccacaca Alignment from Exonerate_coding2genome ATTTCAAACACCGCATCACAGTGCAAGCCTCTCCTGGCCTGGATCGGAGGAGAAACGTGTTCGAGGTTGGGGCTGGGGACTCGCCCACCTTCCCTAGATTCCGAGCCATCCAGT cctggagttttgagtgtgccctccgaaatagactccatttatttttctagACTTCAAACATCGAATCACAGTACAGGCCGCTCCTGGCCTAGATCGCAGGAGAAATGTGTTTGAGGTTGGGGCTGGGGACTCACCGACTTTCCCTAGATTCTGTAACCTGCTTAgggctagtgtcagccagccccctctttccaaccacaca Alignment from GeneWise ATTTCAAACACCGCATCACAGTGCAAGCCTCTCCTGGCCTGGATCGGAGGAGAAACGTGTTCGAGGTTGGGGCTGGGGACTCGCCCACCTTCCCTAGATTC---CGAGCCATCCAGTTG- cctggagttttgagtgtgccctccgaaatagactccatttatttttctagACTTCAAACATCGAATCACAGTACAGGCCGCTCCTGGCCTAGATCGCAGGAGAAATGTGTTTGAGGTTGGGGCTGGGGACTCACCGACTTTCCCTAGATTCTGTAACCTGCTTAGGGCTAgtgtcagccagccccctctttccaaccacaca #### Map4k2_ID1629_8 --> 2 - 2 Original Alignment cgGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC---------tg gtgtgggaagcaaatgtggtcctgggtctttcctttcccctttatttcagcaGATTTTGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGGCATTCTTTCATTGGCACTCCATACATTGCTCATtggtgagttgttccacggcaatgggtgaagggcatatggagaagaccaccag Alignment from CESAR cgGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC---------tg gtgtgggaagcaaatgtggtcctgggtctttcctttcccctttatttcagcaGATTTTGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGGCATTCTTTCATTGGCACTCCATACATTGCTCATtggtgagttgttccacggcaatgggtgaagggcatatggagaagaccaccag Alignment from Spaln_aa2Genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTGG-------- gtgtgggaagcaaatgtggtcctgggtctttcctttcccctttatttcagCAGATTTTGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGGCATTCTTTCATTGGCACTCCATACATTGCTCATTGgtgagttgttccacggcaatgggtgaagggcatatggagaagaccaccag Alignment from Spaln_nt2Genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC---------TG gtgtgggaagcaaatgtggtcctgggtctttcctttcccctttatttcagCAGATTTTGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGGCATTCTTTCATTGGCACTCCATACATTGCTCATTGgtgagttgttccacggcaatgggtgaagggcatatggagaagaccaccag Alignment from Pairagon CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC---------TG gtgtgggaagcaaatgtggtcctgggtctttcctttcccctttatttcagCAGATTTTGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGGCATTCTTTCATTGGCACTCCATACATTGCTCATTGgtgagttgttccacggcaatgggtgaagggcatatggagaagaccaccag Alignment from Exonerate_protein2genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC------TGGAT gtgtgggaagcaaatgtggtcctgggtctttcctttcccctttatttcagCAGATTTTGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGGCATTCTTTCATTGGCACTCCATACATTGCTCATTGgtgagttgttccacggcaatgggtgaagggcatatggagaagaccaccag Alignment from Exonerate_coding2genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC------TGGAT gtgtgggaagcaaatgtggtcctgggtctttcctttcccctttatttcagCAGATTTTGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGGCATTCTTTCATTGGCACTCCATACATTGCTCATTGgtgagttgttccacggcaatgggtgaagggcatatggagaagaccaccag Alignment from GeneWise CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC---------TG gtgtgggaagcaaatgtggtcctgggtctttcctttcccctttatttcagCAGATTTTGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGGCATTCTTTCATTGGCACTCCATACATTGCTCATTGgtgagttgttccacggcaatgggtgaagggcatatggagaagaccaccag #### Map4k2_ID1630_9 --> 1 - 2 Original Alignment gATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGag gggcatatggagaagaccaccagatttctgctgtctcttgtcttttgcaggATGGCCCCGGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTATGGGCATTGGGTATCACTCCAATTGAATCGAGTGAGCTCCAACCTCCGCTACTCCACCTG---------aggtgggtttacccgacatcatacttgcctcttgcctgtccccctgatgagc Alignment from CESAR gATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGag gggcatatggagaagaccaccagatttctgctgtctcttgtcttttgcaggATGGCCCCGGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTATGGGCATTGGGTATCACTCCAATTGAATCGAGTGAGCTCCAACCTCCGCTACTCCACCTG---------aggtgggtttacccgacatcatacttgcctcttgcctgtccccctggactgt Alignment from Spaln_aa2Genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCA gggcatatggagaagaccaccagatttctgctgtctcttgtcttttgcagGATGGCCCCGGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTATGGGCATTGGGTATCACTCCAATTGAATCGAGTGAGCTCCAACCTCCGCTACTCCACCTGAGgtgggtttacccgacatcatacttgcctcttgcctgtccccctgatgagc Alignment from Spaln_nt2Genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAG gggcatatggagaagaccaccagatttctgctgtctcttgtcttttgcagGATGGCCCCGGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTATGGGCATTGGGTATCACTCCAATTGAATCGAGTGAGCTCCAACCTCCGCTACTCCACC---------TGAGgtgggtttacccgacatcatacttgcctcttgcctgtccccctgatgagc Alignment from Pairagon GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAG gggcatatggagaagaccaccagatttctgctgtctcttgtcttttgcagGATGGCCCCGGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTATGGGCATTGGGTATCACTCCAATTGAATCGAGTGAGCTCCAACCTCCGCTACTCCACC---------TGAGgtgggtttacccgacatcatacttgcctcttgcctgtccccctgatgagc Alignment from Exonerate_protein2genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCA gggcatatggagaagaccaccagatttctgctgtctcttgtcttttgcagGATGGCCCCGGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTATGGGCATTGGGTATCACTCCAATTGAATCGAGTGAGCTCCAACCTCCGCTACTCCACCTGAGgtgggtttacccgacatcatacttgcctcttgcctgtccccctgatgagc Alignment from Exonerate_coding2genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCA gggcatatggagaagaccaccagatttctgctgtctcttgtcttttgcagGATGGCCCCGGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTATGGGCATTGGGTATCACTCCAATTGAATCGAGTGAGCTCCAACCTCCGCTACTCCACCTGAGgtgggtttacccgacatcatacttgcctcttgcctgtccccctgatgagc Alignment from GeneWise GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTG---------CACCCC------------------------------------- gggcatatggagaagaccaccagatttctgctgtctcttgtcttttgcagGATGGCCCCGGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTATGGGCATTGGGTATCACTCCAATTGAATCGAGTGAGCTCCAACCTCCGCTACTCCACCTGAGGTGGGTTTACCCGACATCATACTTGCCTCTTGCCTGTCCCCCTGATGAGC #### Map4k2_ID1632_11 --> 1 - 0 Original Alignment gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gtgcctagtttgcatttgggtgggtcgcaactggcttttttctcctctagg---CAGAATTTCCACCACTTCCGCAAGCTAGCCCTGACCAAAAACCCAAAGAAGAGGCCCACAGCAGAGAGGCTTCTGCAAgtaggcagcagagaataactggtgacttgagcctttgaaaacatgacctg Alignment from CESAR gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tcagtgcctagtttgcatttgggtgcgcaactggcttttttctcctctagg---CAGAATTTCCACCACTTCCGCAAGCTAGCCCTGACCAAAAACCCAAAGAAGAGGCCCACAGCAGAGAGGCTTCTGCAAgtaggcagcagagaataactggtgacttgagcctttgaaaacatgacctg Alignment from Spaln_aa2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gtgcctagtttgcatttgggtgggtcgcaactggcttttttctcctctagG---CAGAATTTCCACCACTTCCGCAAGCTAGCCCTGACCAAAAACCCAAAGAAGAGGCCCACAGCAGAGAGGCTTCTGCAAgtaggcagcagagaataactggtgacttgagcctttgaaaacatgacctg Alignment from Spaln_nt2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gtgcctagtttgcatttgggtgggtcgcaactggcttttttctcctctagG---CAGAATTTCCACCACTTCCGCAAGCTAGCCCTGACCAAAAACCCAAAGAAGAGGCCCACAGCAGAGAGGCTTCTGCAAgtaggcagcagagaataactggtgacttgagcctttgaaaacatgacctg Alignment from Pairagon GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gtgcctagtttgcatttgggtgggtcgcaactggcttttttctcctctagG---CAGAATTTCCACCACTTCCGCAAGCTAGCCCTGACCAAAAACCCAAAGAAGAGGCCCACAGCAGAGAGGCTTCTGCAAgtaggcagcagagaataactggtgacttgagcctttgaaaacatgacctg Alignment from Exonerate_protein2genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gtgcctagtttgcatttgggtgggtcgcaactggcttttttctcctctagG---CAGAATTTCCACCACTTCCGCAAGCTAGCCCTGACCAAAAACCCAAAGAAGAGGCCCACAGCAGAGAGGCTTCTGCAAgtaggcagcagagaataactggtgacttgagcctttgaaaacatgacctg Alignment from Exonerate_coding2genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gtgcctagtttgcatttgggtgggtcgcaactggcttttttctcctctagG---CAGAATTTCCACCACTTCCGCAAGCTAGCCCTGACCAAAAACCCAAAGAAGAGGCCCACAGCAGAGAGGCTTCTGCAAgtaggcagcagagaataactggtgacttgagcctttgaaaacatgacctg Alignment from GeneWise GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gtgcctagtttgcatttgggtgggtcgcaactggcttttttctcctctagG---CAGAATTTCCACCACTTCCGCAAGCTAGCCCTGACCAAAAACCCAAAGAAGAGGCCCACAGCAGAGAGGCTTCTGCAAgtaggcagcagagaataactggtgacttgagcctttgaaaacatgacctg #### Map4k2_ID1633_12 --> 0 - 0 Original Alignment CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaaaacatgacctggagggcagccaactgcacactgcttcccacattcagCATCCATTCACAACCCAGCATCTCCCTCCAGCGCTTCTTACCCAACTCCTTGACAAGGCTAGTGACCCCCATCTAGGTACCCTCTCCCCTGAAGATAGTAAGCTT---gtaagaggagcaggcagggaaccaggttagctcagcttggtgggaaggtg Alignment from CESAR CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaaaacatgacctggagggcagccaactgcacactgcttcccacattcagCATCCATTCACAACCCAGCATCTCCCTCCAGCGCTTCTTACCCAACTCCTTGACAAGGCTAGTGACCCCCATCTAGGTACCCTCTCCCCTGAAGATAGTAAGCTT---gtaagaggagcaggcagggaaccaggttagctcagcttggtgggaag Alignment from Spaln_aa2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG gaaaacatgacctggagggcagccaactgcacactgcttcccacattcagCATCCATTCACAACCCAGCATCTCCCTCCAGCGCTTCTTACCCAACTCCTTGACAAGGCTAGTGACCCCCATCTAGGTACCCTCTCCCCTGAAGATAGTAAGCTTgtaagaggagcaggcagggaaccaggttagctcagcttggtgggaaggtg Alignment from Spaln_nt2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG GAG gaaaacatgacctggagggcagccaactgcacactgcttcccacattcagCATCCATTCACAACCCAGCATCTCCCTCCAGCGCTTCTTACCCAACTCCTTGACAAGGCTAGTGACCCCCATCTAGGTACCCTCTCCCCTGAAGATAGTAAGCTTgtaagaggagcaggcagggaaccaggttagctcagcttggtgggaagGTG Alignment from Pairagon CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG gaaaacatgacctggagggcagccaactgcacactgcttcccacattcagCATCCATTCACAACCCAGCATCTCCCTCCAGCGCTTCTTACCCAACTCCTTGACAAGGCTAGTGACCCCCATCTAGGTACCCTCTCCCCTGAAGATAGTAAGCTTgtaagaggagcaggcagggaaccaggttagctcagcttggtgggaaggtg Alignment from Exonerate_protein2genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaaaacatgacctggagggcagccaactgcacactgcttcccacattcagCATCCATTCACAACCCAGCATCTCCCTCCAGCGCTTCTTACCCAACTCCTTGACAAGGCTAGTGACCCCCATCTAGGTACCCTCTCCCCTGAAGATAGTAAGCTT---gtaagaggagcaggcagggaaccaggttagctcagcttggtgggaag Alignment from Exonerate_coding2genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gaaaacatgacctggagggcagccaactgcacactgcttcccacattcagCATCCATTCACAACCCAGCATCTCCCTCCAGCGCTTCTTACCCAACTCCTTGACAAGGCTAGTGACCCCCATCTAGGTACCCTCTCCCCTGAAGATAGTAAGCTT---gtaagaggagcaggcagggaaccaggttagctcagcttggtgggaag Alignment from GeneWise CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG gaaaacatgacctggagggcagccaactgcacactgcttcccacattcagCATCCATTCACAACCCAGCATCTCCCTCCAGCGCTTCTTACCCAACTCCTTGACAAGGCTAGTGACCCCCATCTAGGTACCCTCTCCCCTGAAGATAGTAAGCTTgtaagaggagcaggcagggaaccaggttagctcagcttggtgggaaggtg #### Map4k2_ID1635_14 --> 2 - 0 Original Alignment ttCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG agactcggaactcctattagtgctggcttttttttttttttttttggcagtt---------GAATTTGGAGCTCCTCATCGGAAGGAGACAGACCCTCTAAATGAACCAgtaagatgctgactaatatttgtgtagtggggtctaggggagggaggcct Alignment from CESAR ttCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG ctcattctgagactcggaactcctagcttttttttttttttttttggcagtt---------GAATTTGGAGCTCCTCATCGGAAGGAGACAGACCCTCTAAATGAACCAgtaagatgctgactaatatttgtgtagtggggtctaggggagggaggcct Alignment from Spaln_aa2Genome CAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG ctcggaactcctattagtgctggcttttttttttttttttttggca gTTGAATTTGGAGCTCCTCATCGGAAGGAGACAGACCCTCTAAATGAACCAgtaagatgctgactaatatttgtgtagtggggtctaggggagggaggcct Alignment from Spaln_nt2Genome GTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG agactcggaactcctattagtgctggcttttttttttttttttttggcagTTG-AATTTGGAGCTCCTCATCGGAAGGAGACAGACCCTCTAAATGAACCAgtaagatgctgactaatatttgtgtagtggggtctaggggagggaggcct Alignment from Pairagon TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG agactcggaactcctattagtgctggcttttttttttttttttttggcagTT---------GAATTTGGAGCTCCTCATCGGAAGGAGACAGACCCTCTAAATGAACCAgtaagatgctgactaatatttgtgtagtggggtctaggggagggaggcct Alignment from Exonerate_protein2genome AAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG agactcggaactcctattagtgctggcttttttttttttttttttggCAGTTGAATTTGGAGCTCCTCATCGGAAGGAGACAGACCCTCTAAATGAACCAgtaagatgctgactaatatttgtgtagtggggtctaggggagggaggcct Alignment from Exonerate_coding2genome AAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG agactcggaactcctattagtgctggcttttttttttttttttttggCAGTTGAATTTGGAGCTCCTCATCGGAAGGAGACAGACCCTCTAAATGAACCAgtaagatgctgactaatatttgtgtagtggggtctaggggagggaggcct Alignment from GeneWise --------------------TTTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG agactcggaactcctattagTGCTGGCTTTTTTTTTTTTTTTTTTGGCAGTTGAATTTGGAGCTCCTCATCGGAAGGAGACAGACCCTCTAAATGAACCAgtaagatgctgactaatatttgtgtagtggggtctaggggagggaggcct #### Map4k2_ID1636_15 --> 0 - 2 Original Alignment TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGT------gg cttcacattttgtgtctacttctcttcatgaccagtgcctgttgccacagTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTTCAATGgggtgagtgagtgtggttgggaaagcaggggtgcaggcagaaccctgtcgaa Alignment from CESAR TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGT------gg cttcacattttgtgtctacttctcttcatgaccagtgcctgttgccacagTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTTCAATGgggtgagtgagtgtggttgggaaagcaggggtgcaggcagaaccctgtcgaa Alignment from Spaln_aa2Genome TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGG----- cttcacattttgtgtctacttctcttcatgaccagtgcctgttgccacagTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTTCAATGGGgtgagtgagtgtggttgggaaagcaggggtgcaggcagaaccctgtcgaa Alignment from Spaln_nt2Genome TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGT------GG cttcacattttgtgtctacttctcttcatgaccagtgcctgttgccacagTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTTCAATGGGgtgagtgagtgtggttgggaaagcaggggtgcaggcagaaccctgtcgaa Alignment from Pairagon TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGT------GG cttcacattttgtgtctacttctcttcatgaccagtgcctgttgccacagTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTTCAATGGGgtgagtgagtgtggttgggaaagcaggggtgcaggcagaaccctgtcgaa Alignment from Exonerate_protein2genome TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGT------GG cttcacattttgtgtctacttctcttcatgaccagtgcctgttgccacagTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTTCAATGGGgtgagtgagtgtggttgggaaagcaggggtgcaggcagaaccctgtcgaa Alignment from Exonerate_coding2genome TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGT------GG cttcacattttgtgtctacttctcttcatgaccagtgcctgttgccacagTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTTCAATGGGgtgagtgagtgtggttgggaaagcaggggtgcaggcagaaccctgtcgaa Alignment from GeneWise TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGGAGCCT cttcacattttgtgtctacttctcttcatgaccagtgcctgttgccacagTGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTTCAATGGGgtgagtgagtgtggttgggaaagcaggggtgcaggcagaaccctgtcgaa #### Map4k2_ID1639_18 --> 0 - 1 Original Alignment ------------GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg ctacaggacaactgctaatgggaccaggtgacctttggctctgattatagCCACCCTTCACTGAGCTCGACTCCCCGGATGATGCCATTGGAACTATCAAGCGGGCTCCATTTTTGGGACTACCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGCTCCCCAggtgggaacagggactggtaagccacgtggtatgttggggtagtgccaggg Alignment from CESAR ------------GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg ctacaggacaactgctaatgggaccaggtgacctttggctctgattatagCCACCCTTCACTGAGCTCGACTCCCCGGATGATGCCATTGGAACTATCAAGCGGGCTCCATTTTTGGGACTACCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGCTCCCCAggtgggaacagggactggtaagccacgtggtatgttggggtagtgccaggg Alignment from Spaln_aa2Genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacaggacaactgctaatgggaccaggtgacctttggctctgattatagccacccttcactgagCTCGACTCC---CCGGATGATGCCATTGGAACTATCAAGCGGGCTCCATTTTTGGGACTACCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGCTCCCCAGgtgggaacagggactggtaagccacgtggtatgttggggtagtgccaggg Alignment from Spaln_nt2Genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacaggacaactgctaatgggaccaggtgacctttggctctgattatagccacccttcactgag---CTCGACTCCCCGGATGATGCCATTGGAACTATCAAGCGGGCTCCATTTTTGGGACTACCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGCTCCCCAGgtgggaacagggactggtaagccacgtggtatgttggggtagtgccaggg Alignment from Pairagon ------------GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacaggacaactgctaatgggaccaggtgacctttggctctgattatagCCACCCTTCACTGAGCTCGACTCCCCGGATGATGCCATTGGAACTATCAAGCGGGCTCCATTTTTGGGACTACCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGCTCCCCAGgtgggaacagggactggtaagccacgtggtatgttggggtagtgccaggg Alignment from Exonerate_protein2genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacaggacaactgctaatgggaccaggtgacctttggctctgattatagccacccttcactGAGCTCGACTCCCCGGATGATGCCATTGGAACTATCAAGCGGGCTCCATTTTTGGGACTACCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGCTCCCCAGgtgggaacagggactggtaagccacgtggtatgttggggtagtgccaggg Alignment from Exonerate_coding2genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacaggacaactgctaatgggaccaggtgacctttggctctgattatagccacccttcactGAGCTCGACTCCCCGGATGATGCCATTGGAACTATCAAGCGGGCTCCATTTTTGGGACTACCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGCTCCCCAGgtgggaacagggactggtaagccacgtggtatgttggggtagtgccaggg Alignment from GeneWise ------------GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAG ctacaggacaactgctaatgggaccaggtgacctttggctctgattatagCCACCCTTCACTGAGCTCGACTCCCCGGATGATGCCATTGGAACTATCAAGCGGGCTCCATTTTTGGGACTACCCCACACTGAGTCAACATCTGGTGATAATGCCCAGTCCTGCTCCCCAGgtgggaacagggactggtaagccacgtggtatgttggggtagtgccaggg #### Map4k2_ID1641_20 --> 0 - 0 Original Alignment CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gctgcaaggcgccacctgagacctgactgactgacctggatggccaccag---TCATCCTGCTATGGCCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggttgttcctaggccctagccctggccctgcatattgg Alignment from CESAR CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gatgctgcaaggcgccacctgagacactgactgacctggatggccaccag---TCATCCTGCTATGGCCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggttgttcctaggccctagccctggccctgcatattgg Alignment from Spaln_aa2Genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gctgcaaggcgccacctgagacctgactgactgacctggatggccaccagTCATCCTGCTATGGC---CTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggttgttcctaggccctagccctggccctgcatattgg Alignment from Spaln_nt2Genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gctgcaaggcgccacctgagacctgactgactgacctggatggccaccag---TCATCCTGCTATGGCCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggttgttcctaggccctagccctggccctgcatattgg Alignment from Pairagon CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gctgcaaggcgccacctgagacctgactgactgacctggatggccaccag---TCATCCTGCTATGGCCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggttgttcctaggccctagccctggccctgcatattgg Alignment from Exonerate_protein2genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gctgcaaggcgccacctgagacctgactgactgacctggatggccacCAGTCATCCTGCTATGGCCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggttgttcctaggccctagccctggccctgcatattgg Alignment from Exonerate_coding2genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gctgcaaggcgccacctgagacctgactgactgacctggatggccacCAGTCATCCTGCTATGGCCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggttgttcctaggccctagccctggccctgcatattgg Alignment from GeneWise CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gctgcaaggcgccacctgagacctgactgactgacctggatggccaccagTCATCC---TGCTATGGCCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggttgttcctaggccctagccctggccctgcatattgg #### Map4k2_ID1643_22 --> 2 - 0 Original Alignment acCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG CTCA ggctatatacagagggcagcatgacatgtgttcatacctttgacttgtagacCAGTTCCTGGTAGTAGGGGCTAAGGAGGGCTTCTATACCCTCAACCTGCACAAACTGCATGAGGAT------------gtaagggttgttgctgcagggcgggtgtcttttcttatcatcttagCTCA Alignment from CESAR acCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG ggctatatacagagggcagcatgacatgtgttcatacctttgacttgtagacCAGTTCCTGGTAGTAGGGGCTAAGGAGGGCTTCTATACCCTCAACCTGCACAAACTGCATGAGGAT------------gtaagggttgttgctgcagggtccttttgtcttgtttt Alignment from Spaln_aa2Genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG ggctatatacagagggcagcatgacatgtgttcatacctttgacttgtagACCAGTTCCTGGTAGTAGGGGCTAAGGAGGGCTTCTATACCCTCAACCTGCACAAACTGCATGAGGATGTA------AGGgttgttgctgcagggcgggtgtcttttcttatcatctt Alignment from Spaln_nt2Genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG CTC ggctatatacagagggcagcatgacatgtgttcatacctttgacttgtagACCAGTTCCTGGTAGTAGGGGCTAAGGAGGGCTTCTATACCCTCAACCTGCACAAACTGCATGAGG-----ATGTA-AGGgttgttgctgcagggcgggtgtcttttcttatcatcttagCTC Alignment from Pairagon ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGAC ACAA ggctatatacagagggcagcatgacatgtgttcatacctttgacttgtagACCAGTTCCTGGTAGTAGGGGCTAAGGAGGGCTTCTATACCCTCAACCTGCACAAACTGCATGAGGATgtaagggttgttgctgcagggcgggtgtcttttcttatcatcttag---- Alignment from Exonerate_protein2genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGG AGAAGCTCA ggctatatacagagggcagcatgacatgtgttcatacctttgacttgtagACCAGTTCCTGGTAGTAGGGGCTAAGGAGGGCTTCTATACCCTCAACCTGCACAAACTGCATGAGGATGTAAGGGttgttgctgcagggcgggtgtcttttcttatcatCTTAGCTCA Alignment from Exonerate_coding2genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGG AGAAGCTCA ggctatatacagagggcagcatgacatgtgttcatacctttgacttgtagACCAGTTCCTGGTAGTAGGGGCTAAGGAGGGCTTCTATACCCTCAACCTGCACAAACTGCATGAGGATGTAAGGGttgttgctgcagggcgggtgtcttttcttatcatCTTAGCTCA Alignment from GeneWise ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACA---------------------------------ATGGAG-AAGCTCA ggctatatacagagggcagcatgacatgtgttcatacctttgacttgtagACCAGTTCCTGGTAGTAGGGGCTAAGGAGGGCTTCTATACCCTCAACCTGCACAAACTGCATGAGGATGTAAGGGTTGTTGCTGCAGGGCGGGTGTCTTTTCTTATCATCTTAGCTCA #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtccctcccagctgtgtctctcggctctagtgCGAAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGATCTCCATGgtacaggactggaggaccattaaggaggaggggagccaacagactgagaa Alignment from CESAR ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtccctcccagctgtgtctctcggctctagtgCGAAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGATCTCCATGgtacaggactggaggaccattaaggaggaggggagccaacagactgagaa Alignment from Spaln_aa2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtccctcccagctgtgtctctcggctctagTGCGAAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGATCTCCATGgtacaggactggaggaccattaaggaggaggggagccaacagactgagaa Alignment from Spaln_nt2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtccctcccagctgtgtctctcggctctagTGCGAAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGATCTCCATGgtacaggactggaggaccattaaggaggaggggagccaacagactgagaa Alignment from Pairagon TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtccctcccagctgtgtctctcggctctagTGCGAAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGATCTCCATGgtacaggactggaggaccattaaggaggaggggagccaacagactgagaa Alignment from Exonerate_protein2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcagggatgctgtgaggctggtccctcccagctgtgtctctcggctctagTGCGAAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGatctccatggtacaggactggaggaccattaaggaggaggggagccaacagactgagaa Alignment from Exonerate_coding2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcagggatgctgtgaggctggtccctcccagctgtgtctctcggctctagTGCGAAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGatctccatggtacaggactggaggaccattaaggaggaggggagccaacagactgagaa Alignment from GeneWise TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtccctcccagctgtgtctctcggctctagTGCGAAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGATCTCCATGgtacaggactggaggaccattaaggaggaggggagccaacagactgagaa #### Map4k2_ID1649_28 --> 2 - 1 Original Alignment ag---GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAc ctagcatggacccacccagtgagaggccgctctgtctctggtctccacagagATAGGGATTCCAGGCCCTGCACAGCAAGTAATCCAGGTGGATCGGGACAAAGTCCTGGTCAGCTTTGAAcgtaagcacgtcagtgtcaaaagggggtcatagacagagtggtagtaaagc Alignment from CESAR ag---GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAc ctagcatggacccacccagtgagaggccgctctgtctctggtctccacagagATAGGGATTCCAGGCCCTGCACAGCAAGTAATCCAGGTGGATCGGGACAAAGTCCTGGTCAGCTTTGAAcgtaagcacgtcagtgtcaaaagggggtcatagacagagtggtagtaaagc Alignment from Spaln_aa2Genome AG---GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC ctagcatggacccacccagtgagaggccgctctgtctctggtctccacagAGATAGGGATTCCAGGCCCTGCACAGCAAGTAATCCAGGTGGATCGGGACAAAGTCCTGGTCAGCTTTGAACgtaagcacgtcagtgtcaaaagggggtcatagacagagtggtagtaaagc Alignment from Spaln_nt2Genome AG---GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC ctagcatggacccacccagtgagaggccgctctgtctctggtctccacagAGATAGGGATTCCAGGCCCTGCACAGCAAGTAATCCAGGTGGATCGGGACAAAGTCCTGGTCAGCTTTGAACgtaagcacgtcagtgtcaaaagggggtcatagacagagtggtagtaaagc Alignment from Pairagon AG---GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC ctagcatggacccacccagtgagaggccgctctgtctctggtctccacagAGATAGGGATTCCAGGCCCTGCACAGCAAGTAATCCAGGTGGATCGGGACAAAGTCCTGGTCAGCTTTGAACgtaagcacgtcagtgtcaaaagggggtcatagacagagtggtagtaaagc Alignment from Exonerate_protein2genome AG---GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC ctagcatggacccacccagtgagaggccgctctgtctctggtctccacagAGATAGGGATTCCAGGCCCTGCACAGCAAGTAATCCAGGTGGATCGGGACAAAGTCCTGGTCAGCTTTGAACgtaagcacgtcagtgtcaaaagggggtcatagacagagtggtagtaaagc Alignment from Exonerate_coding2genome AG---GGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC ctagcatggacccacccagtgagaggccgctctgtctctggtctccacagAGATAGGGATTCCAGGCCCTGCACAGCAAGTAATCCAGGTGGATCGGGACAAAGTCCTGGTCAGCTTTGAACgtaagcacgtcagtgtcaaaagggggtcatagacagagtggtagtaaagc Alignment from GeneWise --GAGGGGATCCCAGGTTCTGCACAGCAGGTGATCCAAGTGGACAGGGACACAGTCCTGGTCAGCTTTGAAC ctagcatggacccacccagtgagaggccgctctgtctctggtctccacagAGATAGGGATTCCAGGCCCTGCACAGCAAGTAATCCAGGTGGATCGGGACAAAGTCCTGGTCAGCTTTGAACgtaagcacgtcagtgtcaaaagggggtcatagacagagtggtagtaaagc #### Mark2_ID2107_14 --> 0 - 2 Original Alignment AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC---ag agcctaattggactacactagagtccatttcctttgttgttaaactatagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACGCTaggtaccataactggactgcttagcatagtcccaagggcggcttcaccaggg Alignment from CESAR AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC---ag agcctaattggactacactagagtccatttcctttgttgttaaactatagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACGCTaggtaccataactggactgcttagcatagtcccaagggcggcttcaccaggg Alignment from Spaln_aa2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAGC-- agcctaattggactacactagagtccatttcctttgttgttaaactatagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACGCTAGgtaccataactggactgcttagcatagtcccaagggcggcttcaccaggg Alignment from Spaln_nt2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC---AG agcctaattggactacactagagtccatttcctttgttgttaaactatagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACGCTAGgtaccataactggactgcttagcatagtcccaagggcggcttcaccaggg Alignment from Pairagon AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC---AG agcctaattggactacactagagtccatttcctttgttgttaaactatagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACGCTAGgtaccataactggactgcttagcatagtcccaagggcggcttcaccaggg Alignment from Exonerate_protein2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC---AG agcctaattggactacactagagtccatttcctttgttgttaaactatagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACGCTAGgtaccataactggactgcttagcatagtcccaagggcggcttcaccaggg Alignment from Exonerate_coding2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC---AG agcctaattggactacactagagtccatttcctttgttgttaaactatagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACGCTAGgtaccataactggactgcttagcatagtcccaagggcggcttcaccaggg Alignment from GeneWise AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAGC-- agcctaattggactacactagagtccatttcctttgttgttaaactatagAACGGTGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGATAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACGCTAGgtaccataactggactgcttagcatagtcccaagggcggcttcaccaggg #### Mark2_ID2114_7 --> 0 - 0 Original Alignment ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgttatgcctccttgtttcactctcagttttgtctttttgtgtccatagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGTACCTGTTTgtatgatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from CESAR ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgttatgcctccttgtttcactctcagttttgtctttttgtgtccatagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGTACCTGTTTgtatgatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from Spaln_aa2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgttatgcctccttgtttcactctcagttttgtctttttgtgtccatagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGTACCTGTTTgtatgatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from Spaln_nt2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAA ctgttatgcctccttgtttcactctcagttttgtctttttgtgtccatagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAgtacctgtttgtatgatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from Pairagon ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG---------------------------------------- ctgttatgcctccttgtttcactctcagttttgtctttttgtgtccatagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGTACCTGTTTGTATGATATGTTCCTGTCCCTATAACCTGCTgtgagtgggccaggtggcc Alignment from Exonerate_protein2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAA ctgttatgcctccttgtttcactctcagttttgtctttttgtgtccatagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAgtacctgtttgtatgatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from Exonerate_coding2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAA ctgttatgcctccttgtttcactctcagttttgtctttttgtgtccatagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAgtacctgtttgtatgatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from GeneWise ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgttatgcctccttgtttcactctcagttttgtctttttgtgtccatagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGTACCTGTTTgtatgatatgttcctgtccctataacctgctgtgagtgggccaggtggcc #### Mark2_ID2115_6 --> 2 - 0 Original Alignment ga---------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ccaaccctcacccattattctcacagtctgcactgggtctccttttctaggaGAGATCAGTGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtaagagtgtctccactcttggctttagatctaggatgaggatatggcac Alignment from CESAR ga---------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ccaaccctcacccattattctcacagtctgcactgggtctccttttctaggaGAGATCAGTGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtaagagtgtctccactcttggctttagatctaggatgaggatatggcac Alignment from Spaln_aa2Genome GAGAGGTGTTTGAT---------TACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ccaaccctcacccattattctcacagtctgcactgggtctccttttctagGAGAGATCAGTGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtaagagtgtctccactcttggctttagatctaggatgaggatatggcac Alignment from Spaln_nt2Genome GAGAG---------GTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ccaaccctcacccattattctcacagtctgcactgggtctccttttctagGAGAGATCAGTGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtaagagtgtctccactcttggctttagatctaggatgaggatatggcac Alignment from Pairagon GA---------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ccaaccctcacccattattctcacagtctgcactgggtctccttttctagGAGAGATCAGTGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtaagagtgtctccactcttggctttagatctaggatgaggatatggcac Alignment from Exonerate_protein2genome GA---------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ccaaccctcacccattattctcacagtctgcactgggtctccttttctagGAGAGATCAGTGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtaagagtgtctccactcttggctttagatctaggatgaggatatggcac Alignment from Exonerate_coding2genome GA---------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ccaaccctcacccattattctcacagtctgcactgggtctccttttctagGAGAGATCAGTGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtaagagtgtctccactcttggctttagatctaggatgaggatatggcac Alignment from GeneWise -GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ccaaccctcacccattattctcacagtctgcactgggtctccttttctaggagagatcagTGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtaagagtgtctccactcttggctttagatctaggatgaggatatggcac #### Mark2_ID2116_5 --> 2 - 1 Original Alignment ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCg aatctgcacacaggtgtgcctctgagcttgattctcacttcattccaaagttAAGTGGTTTGATGTCATTGATACTGAGAAGACACTCTACCTAGTTATGGAGTATGCC------ggtgcggataatactgaaattgtccccaatgcttgtcccttgcctttctgc Alignment from CESAR ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCg aatctgcacacaggtgtgcctctgagcttgattctcacttcattccaaagttAAGTGGTTTGATGTCATTGATACTGAGAAGACACTCTACCTAGTTATGGAGTATGCC------ggtgcggataatactgaaattgtccccaatgcttgtcccttgcctttctgc Alignment from Spaln_aa2Genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCC- aatctgcacacaggtgtgcctctgagcttgattctcacttcattccaaagTTAAGTGGTTTGATGTCATTGATACTGAGAAGACACTCTACCTAGTTATGGAGTATGCCGgtgcggataatactgaaattgtccccaatgcttgtcccttgcctttctgc Alignment from Spaln_nt2Genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG aatctgcacacaggtgtgcctctgagcttgattctcacttcattccaaagTTAAGTGGTTTGATGTCATTGATACTGAGAAGACACTCTACCTAGTTATGGAGTATGC------CGgtgcggataatactgaaattgtccccaatgcttgtcccttgcctttctgc Alignment from Pairagon TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG aatctgcacacaggtgtgcctctgagcttgattctcacttcattccaaagTTAAGTGGTTTGATGTCATTGATACTGAGAAGACACTCTACCTAGTTATGGAGTATGC------CGgtgcggataatactgaaattgtccccaatgcttgtcccttgcctttctgc Alignment from Exonerate_protein2genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG aatctgcacacaggtgtgcctctgagcttgattctcacttcattccaaagTTAAGTGGTTTGATGTCATTGATACTGAGAAGACACTCTACCTAGTTATGGAGTATGCCGGTGCGGataatactgaaattgtccccaatgcttgtcccttgcctttctgc Alignment from Exonerate_coding2genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG aatctgcacacaggtgtgcctctgagcttgattctcacttcattccaaagTTAAGTGGTTTGATGTCATTGATACTGAGAAGACACTCTACCTAGTTATGGAGTATGCCGGTGCGGataatactgaaattgtccccaatgcttgtcccttgcctttctgc Alignment from GeneWise TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCA aatctgcacacaggtgtgcctctgagcttgattctcacttcattccaaagTTAAGTGGTTTGATGTCATTGATACTGAGAAGACACTCTACCTAGTTATGGAGTATGCCGgtgcggataatactgaaattgtccccaatgcttgtcccttgcctttctgc #### Men1_ID1613_4 --> 0 - 0 Original Alignment AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG gaggtgcctgggagcaggccaagaccatactttctcccctgcccctcccaccacagAGCTGGCTGTACCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCTA---------gtgaggtgaacccgtcccctgccatagtctgggcacttccctcg Alignment from CESAR AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG gaggtgcctgggagcaggccaagaccatactttctcccctgcccctcccaccacagAGCTGGCTGTACCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCTA---------gtgaggtgaacccgtcccctgccatagtctgggcacttccc Alignment from Spaln_aa2Genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAA gaggtgcctgggagcaggccaagaccatactttctcccctgcccctcccaccacagAGCTGGCTGTACCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCTAgtgaggtgaacccgtcccctgccatagtctgggcacttccctcgcacctc Alignment from Spaln_nt2Genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG gaggtgcctgggagcaggccaagaccatactttctcccctgcccctcccaccacagAGCTGGCTGTACCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCTAGT----GAGgtgaacccgtcccctgccatagtctgggcacttccctcgca Alignment from Pairagon AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAA gaggtgcctgggagcaggccaagaccatactttctcccctgcccctcccaccacagAGCTGGCTGTACCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCTAgtgaggtgaacccgtcccctgccatagtctgggcacttccctcgcacctc Alignment from Exonerate_protein2genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACA gaggtgcctgggagcaggccaagaccatactttctcccctgcccctcccaccacagAGCTGGCTGTACCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCTAGTGAGgtgaacccgtcccctgccatagtctgggcacttccctcgcacctc Alignment from Exonerate_coding2genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACA gaggtgcctgggagcaggccaagaccatactttctcccctgcccctcccaccacagAGCTGGCTGTACCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCTAGTGAGgtgaacccgtcccctgccatagtctgggcacttccctcgcacctc Alignment from GeneWise AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG gaggtgcctgggagcaggccaagaccatactttctcccctgcccctcccaccacagAGCTGGCTGTACCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTG---------CTAgtgaggtgaacccgtcccctgccatagtctgggcacttccctcgcacctc #### Men1_ID1614_5 --> 0 - 2 Original Alignment AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAAag ctgggtcttcaccccttatttagtggtgttcatttctggcctccctgtttccacag---------TGGCTGCTGTATGACCTTGGACATCTGGAAaggtaaggagactatggtcagataaggttggggaattgaatgatat Alignment from CESAR AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAAag agagaactactgggtcttcaccccttatttaatttctggcctccctgtttccacag---------TGGCTGCTGTATGACCTTGGACATCTGGAAaggtaaggagactatggtcagataaggttggggaattgaatgatat Alignment from Spaln_aa2Genome AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAAAG ctgggtcttcaccccttatttagtggtgttcatttctggcctccctgtttccacag---------TGGCTGCTGTATGACCTTGGACATCTGGAAAGgtaaggagactatggtcagataaggttggggaattgaatgatat Alignment from Spaln_nt2Genome TGGCTGCTGTATGACCTCGGACATCTGGAAAG ctgggtcttcaccccttatttagtggtgttcatttctggcctccctgtttccacagTGGCTGCTGTATGACCTTGGACATCTGGAAAGgtaaggagactatggtcagataaggttggggaattgaatgatat Alignment from Pairagon AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAAAG ctgggtcttcaccccttatttagtggtgttcatttctggcctccctgtttccacag---------TGGCTGCTGTATGACCTTGGACATCTGGAAAGgtaaggagactatggtcagataaggttggggaattgaatgatat Alignment from Exonerate_protein2genome AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAAAG ctgggtcttcaccccttatttagtggtgttcatttctggcctccctgTTTCCACAGTGGCTGCTGTATGACCTTGGACATCTGGAAAGgtaaggagactatggtcagataaggttggggaattgaatgatat Alignment from Exonerate_coding2genome AAGCTGCTCTGGCTGCTGTATGACCTCGGACATCTGGAAAG ctgggtcttcaccccttatttagtggtgttcatttctggcctccctgTTTCCACAGTGGCTGCTGTATGACCTTGGACATCTGGAAAGgtaaggagactatggtcagataaggttggggaattgaatgatat Alignment from GeneWise ctgggtcttcaccccttatttagtggtgttcatttctggcctccctgtttccacagtggctgctgtatgaccttggacatctggaaaggtaaggagactatggtcagataaggttggggaattgaatgatat #### Men1_ID1618_9 --> 0 - 0 Original Alignment GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG gggaggtttgcaatccccgtgatcgccatgattctatacatttatttcttccctag------CAGGGACAAGGTTCTGCTCTCCAAGACCCTGAATGCTTTGCCCACTTGCTACGATTTTATGATGGCATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGAGAGACAGgtgggtgggggctttgcagagcacagggagaaccagaggtggca Alignment from CESAR GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG tagggggggaggtttgcaatccccgtgatcgttctatacatttatttcttccctag------CAGGGACAAGGTTCTGCTCTCCAAGACCCTGAATGCTTTGCCCACTTGCTACGATTTTATGATGGCATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGAGAGACAGgtgggtgggggctttgcagagcacagggagaaccagaggtggca Alignment from Spaln_aa2Genome GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG gggaggtttgcaatccccgtgatcgccatgattctatacatttatttcttccctag------CAGGGACAAGGTTCTGCTCTCCAAGACCCTGAATGCTTTGCCCACTTGCTACGATTTTATGATGGCATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGAGAGACAGgtgggtgggggctttgcagagcacagggagaaccagaggtggca Alignment from Spaln_nt2Genome GGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG gggaggtttgcaatccccgtgatcgccatgattctatacatttatttcttccctagcagGGACAAGGTTCTGCTCTCCAAGACCCTGAATGCTTTGCCCACTTGCTACGATTTTATGATGGCATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGAGAGACAGgtgggtgggggctttgcagagcacagggagaaccagaggtggca Alignment from Pairagon GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG gggaggtttgcaatccccgtgatcgccatgattctatacatttatttcttccctag------CAGGGACAAGGTTCTGCTCTCCAAGACCCTGAATGCTTTGCCCACTTGCTACGATTTTATGATGGCATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGAGAGACAGgtgggtgggggctttgcagagcacagggagaaccagaggtggca Alignment from Exonerate_protein2genome CAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG gggaggtttgcaatccccgtgatcgccatgattctatacatttatttcttccctagCAGGGACAAGGTTCTGCTCTCCAAGACCCTGAATGCTTTGCCCACTTGCTACGATTTTATGATGGCATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGAGAGACAGgtgggtgggggctttgcagagcacagggagaaccagaggtggca Alignment from Exonerate_coding2genome CAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG gggaggtttgcaatccccgtgatcgccatgattctatacatttatttcttccctagCAGGGACAAGGTTCTGCTCTCCAAGACCCTGAATGCTTTGCCCACTTGCTACGATTTTATGATGGCATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGAGAGACAGgtgggtgggggctttgcagagcacagggagaaccagaggtggca Alignment from GeneWise ---GGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG gggaggtttgcaatccccgtgatcgccatgattctatacatttatttcttccctagCAGGGACAAGGTTCTGCTCTCCAAGACCCTGAATGCTTTGCCCACTTGCTACGATTTTATGATGGCATATGCAAATGGGAGGAGGGTAGTCTCACTCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGAGAGACAGgtgggtgggggctttgcagagcacagggagaaccagaggtggca #### Mrpl11_ID767_2 --> 0 - 0 Original Alignment CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tcagctctcatacttaaccagacttctgaatgttgaccttgctcatttag---------TCAATTAACCAGTTCTGCAAAGAGTTCAATGAGAAGACAAAGGACATTAAAGAAGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtgagaagacccattcactgacatacttcattggccctagaatgtttgtc Alignment from CESAR CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tcaaaaatttcagctctcatacttactgaatgttgaccttgctcatttag---------TCAATTAACCAGTTCTGCAAAGAGTTCAATGAGAAGACAAAGGACATTAAAGAAGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtgagaagacccattcactgacatacttcattggccctagaatgtttgtc Alignment from Spaln_aa2Genome TCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tcagctctcatacttaaccagacttctgaatgttgaccttgctcatttagTCAATTAACCAGTTCTGCAAAGAGTTCAATGAGAAGACAAAGGACATTAAAGAAGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtgagaagacccattcactgacatacttcattggccctagaatgtttgtc Alignment from Spaln_nt2Genome TCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tcagctctcatacttaaccagacttctgaatgttgaccttgctcatttagTCAATTAACCAGTTCTGCAAAGAGTTCAATGAGAAGACAAAGGACATTAAAGAAGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtgagaagacccattcactgacatacttcattggccctagaatgtttgtc Alignment from Pairagon CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tcagctctcatacttaaccagacttctgaatgttgaccttgctcatttag---------TCAATTAACCAGTTCTGCAAAGAGTTCAATGAGAAGACAAAGGACATTAAAGAAGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtgagaagacccattcactgacatacttcattggccctagaatgtttgtc Alignment from Exonerate_protein2genome TCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tcagctctcatacttaaccagacttctgaatgttgaccttgctcatttagTCAATTAACCAGTTCTGCAAAGAGTTCAATGAGAAGACAAAGGACATTAAAGAAGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtgagaagacccattcactgacatacttcattggccctagaatgtttgtc Alignment from Exonerate_coding2genome TCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tcagctctcatacttaaccagacttctgaatgttgaccttgctcatttagTCAATTAACCAGTTCTGCAAAGAGTTCAATGAGAAGACAAAGGACATTAAAGAAGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtgagaagacccattcactgacatacttcattggccctagaatgtttgtc Alignment from GeneWise ---ATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tcagctctcatacttaaccagacttctgaatgttgaccttgctcatttagTCAATTAACCAGTTCTGCAAAGAGTTCAATGAGAAGACAAAGGACATTAAAGAAGGCATTCTTCTGGCTACAAAAATTTTCATAGAGgtgagaagacccattcactgacatacttcattggccctagaatgtttgtc #### Mrpl11_ID768_3 --> 0 - 1 Original Alignment CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg atgggaaatgaagagattccctccccattttcctttactggttcccccag---------ACTTTTGAACTCAAGATTGGGCAACCTACTGTTTCTTACTTGCTGAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAggtgagtacaagtttgacagctgggtgtgtgaggaatcaagaaatggaatg Alignment from CESAR CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ttgaactgtatgggaaatgaagagacattttcctttactggttcccccag---------ACTTTTGAACTCAAGATTGGGCAACCTACTGTTTCTTACTTGCTGAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAggtgagtacaagtttgacagctgggtgtgtgaggaatcaagaaatggaatg Alignment from Spaln_aa2Genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgaagagattccctccccattttcctttactggttcccccag---------ACTTTTGAACTCAAGATTGGGCAACCTACTGTTTCTTACTTGCTGAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgagtacaagtttgacagctgggtgtgtgaggaatcaagaaatggaatg Alignment from Spaln_nt2Genome ACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgaagagattccctccccattttcctttactggttcccccagACTTTTGAACTCAAGATTGGGCAACCTACTGTTTCTTACTTGCTGAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgagtacaagtttgacagctgggtgtgtgaggaatcaagaaatggaatg Alignment from Pairagon CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgaagagattccctccccattttcctttactggttcccccag---------ACTTTTGAACTCAAGATTGGGCAACCTACTGTTTCTTACTTGCTGAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgagtacaagtttgacagctgggtgtgtgaggaatcaagaaatggaatg Alignment from Exonerate_protein2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgaagagattccctccccattttcctttactggTTCCCCCAGACTTTTGAACTCAAGATTGGGCAACCTACTGTTTCTTACTTGCTGAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgagtacaagtttgacagctgggtgtgtgaggaatcaagaaatggaatg Alignment from Exonerate_coding2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgaagagattccctccccattttcctttactggTTCCCCCAGACTTTTGAACTCAAGATTGGGCAACCTACTGTTTCTTACTTGCTGAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgagtacaagtttgacagctgggtgtgtgaggaatcaagaaatggaatg Alignment from GeneWise ACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgaagagattccctccccattttcctttactggttcccccagACTTTTGAACTCAAGATTGGGCAACCTACTGTTTCTTACTTGCTGAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgagtacaagtttgacagctgggtgtgtgaggaatcaagaaatggaatg #### Ms4a2_ID3243_2 --> 1 - 0 Original Alignment tGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattagaatatgctaagaagcctttcccttgtgtgcctccagtGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTCTGAAGAAAGAATTGGAG---------gtgaaggtcgaagttcactggcttttattcccagacgaaagcgctgcccc Alignment from CESAR tGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattagaatatgctaagaagcctttcccttgtgtgcctccagtGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTCTGAAGAAAGAATTGGAG---------gtgaaggtcgaagttcactggcttttattcccagacgaaag Alignment from Spaln_aa2Genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattagaatatgctaagaagcctttcccttgtgtgcctccagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTCTGAAGAAAGAATTGGAG---GTGAAGgtcgaagttcactggcttttattcccagacgaaagcgctgc Alignment from Spaln_nt2Genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAG acacagaggattagaatatgctaagaagcctttcccttgtgtgcctccagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTCTGAAGAAAGAATTGGAGgtgaaggtcgaagttcactggcttttattcccagacgaaagcgctgcccc Alignment from Pairagon TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAG acacagaggattagaatatgctaagaagcctttcccttgtgtgcctccagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTCTGAAGAAAGAATTGGAGgtgaaggtcgaagttcactggcttttattcccagacgaaagcgctgcccc Alignment from Exonerate_protein2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattagaatatgctaagaagcctttcccttgtgtgcctccagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTCTGAAGAAAGAATTGGAGGTGAAGGTCgaagttcactggcttttattcccagacgaaagcgctgcccc Alignment from Exonerate_coding2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacagaggattagaatatgctaagaagcctttcccttgtgtgcctccagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTCTGAAGAAAGAATTGGAGGTGAAGGTCgaagttcactggcttttattcccagacgaaagcgctgcccc Alignment from GeneWise TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGAGCA acacagaggattagaatatgctaagaagcctttcccttgtgtgcctccagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTCTGAAGAAAGAATTGGAGGTGAAGGTCGAAgttcactggcttttattcccagacgaaagcgctgcccc #### Mta2_ID2532_5 --> 1 - 0 Original Alignment g---GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG atgactggtgttttctcatcccggattttcactctggccctgctccataggTGCGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtaggcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from CESAR g---GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG atgactggtgttttctcatcccggattttcactctggccctgctccataggTGCGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtaggcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Spaln_aa2Genome GGGGAAGTGCAGCGTGACTCTCTTGAAC---GAGACAGACATCTTAAACCAGTATCTAGACAAGGAG atgactggtgttttctcatcccggattttcactctggccctgctccatagGTGCGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtaggcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Spaln_nt2Genome GGGG---AAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG atgactggtgttttctcatcccggattttcactctggccctgctccatagGTGCGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtaggcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Pairagon ------------------------------------------------------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG ATGACTGGTGTTTTCTCATCCCGGATTTTCACTCTGGCCCTGCTCCATAGGTGCGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtaggcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Exonerate_protein2genome G---GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG atgactggtgttttctcatcccggattttcactctggccctgctccatagGTGCGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtaggcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Exonerate_coding2genome G---GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG atgactggtgttttctcatcccggattttcactctggccctgctccatagGTGCGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtaggcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from GeneWise -AGGGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG atgactggtgttttctcatcccggattttcactctggccctgctccatagGTGCGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtaggcacccattggcataagagggggggaggcccctggaggtaagtgag #### Mta2_ID2534_7 --> 2 - 2 Original Alignment gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCC---cg gtttctgacttatttccctttctcccacaccccactctgttgtattgcaggaGAATCAGATAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTAAAcggtgagaagatgttcagggaggtggcataggtgcattggattgaaatttgc Alignment from CESAR gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCC---cg gtttctgacttatttccctttctcccacaccccactctgttgtattgcaggaGAATCAGATAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTAAAcggtgagaagatgttcagggaggtggcataggtgcattggattgaaatttgc Alignment from Spaln_aa2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCGA-- gtttctgacttatttccctttctcccacaccccactctgttgtattgcagGAGAATCAGATAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTAAACGgtgagaagatgttcagggaggtggcataggtgcattggattgaaatttgc Alignment from Spaln_nt2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCC---CG gtttctgacttatttccctttctcccacaccccactctgttgtattgcagGAGAATCAGATAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTAAACGgtgagaagatgttcagggaggtggcataggtgcattggattgaaatttgc Alignment from Pairagon GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCC---CG gtttctgacttatttccctttctcccacaccccactctgttgtattgcagGAGAATCAGATAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTAAACGgtgagaagatgttcagggaggtggcataggtgcattggattgaaatttgc Alignment from Exonerate_protein2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCC---CG gtttctgacttatttccctttctcccacaccccactctgttgtattgcagGAGAATCAGATAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTAAACGgtgagaagatgttcagggaggtggcataggtgcattggattgaaatttgc Alignment from Exonerate_coding2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCC---CG gtttctgacttatttccctttctcccacaccccactctgttgtattgcagGAGAATCAGATAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTAAACGgtgagaagatgttcagggaggtggcataggtgcattggattgaaatttgc Alignment from GeneWise GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCGA-- gtttctgacttatttccctttctcccacaccccactctgttgtattgcagGAGAATCAGATAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTAAACGgtgagaagatgttcagggaggtggcataggtgcattggattgaaatttgc #### Mta2_ID2536_9 --> 0 - 0 Original Alignment TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT--------- ggctgaaaagagagtagcaagcccttacagatgaatcttgtcttccaaagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTCGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCCCAGCACCCgtatgtgatcaagaccaagaagggagagaacgatgaggagactgagaacg Alignment from CESAR TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT--------- ggctgaaaagagagtagcaagcccttacagatgaatcttgtcttccaaagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTCGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCCCAGCACCCgtatgtgatcaagaccaagaagggagagaacgatgaggagactgagaacg Alignment from Spaln_aa2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT--- ggctgaaaagagagtagcaagcccttacagatgaatcttgtcttccaaagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTCGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCCCAgcacccgtatgtgatcaagaccaagaagggagagaacgatgaggagactgagaacg Alignment from Spaln_nt2Genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT--------- ggctgaaaagagagtagcaagcccttacagatgaatcttgtcttccaaagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTCGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCCCAGCACCCgtatgtgatcaagaccaagaagggagagaacgatgaggagactgagaacg Alignment from Pairagon TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT--------- ggctgaaaagagagtagcaagcccttacagatgaatcttgtcttccaaagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTCGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCCCAGCACCCgtatgtgatcaagaccaagaagggagagaacgatgaggagactgagaacg Alignment from Exonerate_protein2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT---CTACCC ggctgaaaagagagtagcaagcccttacagatgaatcttgtcttccaaagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTCGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCCCAGCACCCgtatgtgatcaagaccaagaagggagagaacgatgaggagactgagaacg Alignment from Exonerate_coding2genome TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT---CTACCC ggctgaaaagagagtagcaagcccttacagatgaatcttgtcttccaaagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTCGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCCCAGCACCCgtatgtgatcaagaccaagaagggagagaacgatgaggagactgagaacg Alignment from GeneWise TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT--------- ggctgaaaagagagtagcaagcccttacagatgaatcttgtcttccaaagTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTCGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCCCAGCACCCgtatgtgatcaagaccaagaagggagagaacgatgaggagactgagaacg #### Mta2_ID2537_10 --> 0 - 0 Original Alignment CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG gactgagaacgcaggccaatttcacactcatgttttcgtcatgttttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATT------gtaagttaagacgtcaggtcaactgaagacctggaccagaggctatcgtg Alignment from CESAR CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG gactgagaacgcaggccaatttcacactcatgttttcgtcatgttttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATT------gtaagttaagacgtcaggtcaactgaagacctggaccagaggct Alignment from Spaln_aa2Genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATT gactgagaacgcaggccaatttcacactcatgttttcgtcatgttttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTgtaagttaagacgtcaggtcaactgaagacctggaccagaggctatcgtg Alignment from Spaln_nt2Genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTC------AGCAG gactgagaacgcaggccaatttcacactcatgttttcgtcatgttttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTGTAAGTTAAGACgtcaggtcaactgaagacctggaccagaggctatcgtg Alignment from Pairagon CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATT gactgagaacgcaggccaatttcacactcatgttttcgtcatgttttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTgtaagttaagacgtcaggtcaactgaagacctggaccagaggctatcgtg Alignment from Exonerate_protein2genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATT gactgagaacgcaggccaatttcacactcatgttttcgtcatgttttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTgtaagttaagacgtcaggtcaactgaagacctggaccagaggctatcgtg Alignment from Exonerate_coding2genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATT gactgagaacgcaggccaatttcacactcatgttttcgtcatgttttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTgtaagttaagacgtcaggtcaactgaagacctggaccagaggctatcgtg Alignment from GeneWise CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAG- gactgagaacgcaggccaatttcacactcatgttttcgtcatgttttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTGTAAgttaagacgtcaggtcaactgaagacctggaccagaggctatcgtg #### Mta2_ID2538_11 --> 0 - 2 Original Alignment AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT---ta tactgcctgagatgatttaaaatttatcactgtttgtgtctccttcccagAAAAGGTTAAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTGCCtagtatgtctgccagcattgcaaaacaagaacccctcattggccagggtgac Alignment from CESAR AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT---ta tactgcctgagatgatttaaaatttatcactgtttgtgtctccttcccagAAAAGGTTAAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTGCCtagtatgtctgccagcattgcaaaacaagaacccctcattggccagggtgac Alignment from Spaln_aa2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAT-- tactgcctgagatgatttaaaatttatcactgtttgtgtctccttcccagAAAAGGTTAAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTGCCTAgtatgtctgccagcattgcaaaacaagaacccctcattggccagggtgac Alignment from Spaln_nt2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT---TA tactgcctgagatgatttaaaatttatcactgtttgtgtctccttcccagAAAAGGTTAAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTGCCTAgtatgtctgccagcattgcaaaacaagaacccctcattggccagggtgac Alignment from Pairagon AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT---TA tactgcctgagatgatttaaaatttatcactgtttgtgtctccttcccagAAAAGGTTAAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTGCCTAgtatgtctgccagcattgcaaaacaagaacccctcattggccagggtgac Alignment from Exonerate_protein2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT---TA tactgcctgagatgatttaaaatttatcactgtttgtgtctccttcccagAAAAGGTTAAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTGCCTAgtatgtctgccagcattgcaaaacaagaacccctcattggccagggtgac Alignment from Exonerate_coding2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT---TA tactgcctgagatgatttaaaatttatcactgtttgtgtctccttcccagAAAAGGTTAAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTGCCTAgtatgtctgccagcattgcaaaacaagaacccctcattggccagggtgac Alignment from GeneWise AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAT-- tactgcctgagatgatttaaaatttatcactgtttgtgtctccttcccagAAAAGGTTAAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTGCCTAgtatgtctgccagcattgcaaaacaagaacccctcattggccagggtgac #### Mta2_ID2539_12 --> 1 - 1 Original Alignment tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa tatttcccttactgccatctttctcccaagtgtttatgtttcctctcaagt---AAGCCAAATCCCAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAGCTGTCACagtgagttggaagtgggaacatggttggttagcatggtcccagttggctta Alignment from CESAR tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa gcttatttcccttactgccatctttccaagtgtttatgtttcctctcaagt---AAGCCAAATCCCAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAGCTGTCACagtgagttggaagtgggaacatggttggttagcatggtcccagttggctta Alignment from Spaln_aa2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA tatttcccttactgccatctttctcccaagtgtttatgtttcctctcaagT---AAGCCAAATCCCAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAGCTGTCACAgtgagttggaagtgggaacatggttggttagcatggtcccagttggctta Alignment from Spaln_nt2Genome CAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA tatttcccttactgccatctttctcccaagtgtttatgtttcctctcaagTAAGCCAAATCCCAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAGCTGTCACAgtgagttggaagtgggaacatggttggttagcatggtcccagttggctta Alignment from Pairagon TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA tatttcccttactgccatctttctcccaagtgtttatgtttcctctcaagT---AAGCCAAATCCCAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAGCTGTCACAgtgagttggaagtgggaacatggttggttagcatggtcccagttggctta Alignment from Exonerate_protein2genome CAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA tatttcccttactgccatctttctcccaagtgtttatgtttcctctcaagTAAGCCAAATCCCAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAGCTGTCACAgtgagttggaagtgggaacatggttggttagcatggtcccagttggctta Alignment from Exonerate_coding2genome CAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA tatttcccttactgccatctttctcccaagtgtttatgtttcctctcaagTAAGCCAAATCCCAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAGCTGTCACAgtgagttggaagtgggaacatggttggttagcatggtcccagttggctta Alignment from GeneWise TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA tatttcccttactgccatctttctcccaagtgtttatgtttcctctcaagT---AAGCCAAATCCCAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAGCTGTCACAgtgagttggaagtgggaacatggttggttagcatggtcccagttggctta #### Mta2_ID2540_13 --> 2 - 0 Original Alignment ccACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA--------- aaggatcactgtagcgccagcataattcggacatgcttctatcttctcagcaACACAGTCTGCACAGTGGTATGCCTGGGGACCGCCTAACATGCAGTACCGACTTTGTGCTTCCTGTTGGGTTTATTGGAAAAAATATGGGGGCTTGAAGACCCCTACCCAACTAGAAGGAGCAGCTCGGAGCACCACAACAGAAAAAgtaagagtgagtgggttggaaaccagcatgggaactgagccagaggggga Alignment from CESAR ccACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA--------- aaggatcactgtagcgccagcataattcggacatgcttctatcttctcagcaACACAGTCTGCACAGTGGTATGCCTGGGGACCGCCTAACATGCAGTACCGACTTTGTGCTTCCTGTTGGGTTTATTGGAAAAAATATGGGGGCTTGAAGACCCCTACCCAACTAGAAGGAGCAGCTCGGAGCACCACAACAGAAAAAgtaagagtgagtgggttggaaaccagcatgggaactgagccagaggggga Alignment from Spaln_aa2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA--------- aaggatcactgtagcgccagcataattcggacatgcttctatcttctcagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCGCCTAACATGCAGTACCGACTTTGTGCTTCCTGTTGGGTTTATTGGAAAAAATATGGGGGCTTGAAGACCCCTACCCAACTAGAAGGAGCAGCTCGGAGCACCACAACAGAAAAAgtaagagtgagtgggttggaaaccagcatgggaactgagccagaggggga Alignment from Spaln_nt2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA--------- aaggatcactgtagcgccagcataattcggacatgcttctatcttctcagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCGCCTAACATGCAGTACCGACTTTGTGCTTCCTGTTGGGTTTATTGGAAAAAATATGGGGGCTTGAAGACCCCTACCCAACTAGAAGGAGCAGCTCGGAGCACCACAACAGAAAAAgtaagagtgagtgggttggaaaccagcatgggaactgagccagaggggga Alignment from Pairagon CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA--------------- aaggatcactgtagcgccagcataattcggacatgcttctatcttctcagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCGCCTAACATGCAGTACCGACTTTGTGCTTCCTGTTGGGTTTATTGGAAAAAATATGGGGGCTTGAAGACCCCTACCCAACTAGAAGGAGCAGCTCGGAGCACCACAACAGAAAAAGTAAGAgtgagtgggttggaaaccagcatgggaactgagccagaggggga Alignment from Exonerate_protein2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA aaggatcactgtagcgccagcataattcggacatgcttctatcttctcagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCGCCTAACATGCAGTACCGACTTTGTGCTTCCTGTTGGGTTTATTGGAAAAAATATGGGGGCTTGAAGACCCCTACCCAACTAGAAGGAGCAGCTCGGAGCACCACAacagaaaaagtaagagtgagtgggttggaaaccagcatgggaactgagccagaggggga Alignment from Exonerate_coding2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA aaggatcactgtagcgccagcataattcggacatgcttctatcttctcagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCGCCTAACATGCAGTACCGACTTTGTGCTTCCTGTTGGGTTTATTGGAAAAAATATGGGGGCTTGAAGACCCCTACCCAACTAGAAGGAGCAGCTCGGAGCACCACAacagaaaaagtaagagtgagtgggttggaaaccagcatgggaactgagccagaggggga Alignment from GeneWise CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA--------- aaggatcactgtagcgccagcataattcggacatgcttctatcttctcagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCGCCTAACATGCAGTACCGACTTTGTGCTTCCTGTTGGGTTTATTGGAAAAAATATGGGGGCTTGAAGACCCCTACCCAACTAGAAGGAGCAGCTCGGAGCACCACAACAGAAAAAgtaagagtgagtgggttggaaaccagcatgggaactgagccagaggggga #### Mta2_ID2542_15 --> 2 - 1 Original Alignment gcTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg gccaagcacccaggagatccttctctcatttctcccctttaaacccacaggcTCAATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGAT---ggtaagtagtaggatgacttttcaagctaggtcagatcttctatcacttcc Alignment from CESAR gcTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg gccaagcacccaggagatccttctctcatttctcccctttaaacccacaggcTCAATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGAT---ggtaagtagtaggatgacttttcaagctaggtcagatcttcctcgtcattc Alignment from Spaln_aa2Genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGAT- gccaagcacccaggagatccttctctcatttctcccctttaaacccacagGCTCAATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATGgtaagtagtaggatgacttttcaagctaggtcagatcttctatcacttcc Alignment from Spaln_nt2Genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGAT- gccaagcacccaggagatccttctctcatttctcccctttaaacccacagGCTCAATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATGgtaagtagtaggatgacttttcaagctaggtcagatcttctatcacttcc Alignment from Pairagon GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gccaagcacccaggagatccttctctcatttctcccctttaaacccacagGCTCAATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGAT---Ggtaagtagtaggatgacttttcaagctaggtcagatcttctatcacttcc Alignment from Exonerate_protein2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATC gccaagcacccaggagatccttctctcatttctcccctttaaacccacagGCTCAATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATGgtaagtagtaggatgacttttcaagctaggtcagatcttctatcacttcc Alignment from Exonerate_coding2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATC gccaagcacccaggagatccttctctcatttctcccctttaaacccacagGCTCAATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATGgtaagtagtaggatgacttttcaagctaggtcagatcttctatcacttcc Alignment from GeneWise GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATC gccaagcacccaggagatccttctctcatttctcccctttaaacccacagGCTCAATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATGgtaagtagtaggatgacttttcaagctaggtcagatcttctatcacttcc #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT--- tttcaagctaggtcagatcttctatctcgtcattcgtcttcgctgcccagtgGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTTTCgtaagttgagcagaataaaagcagagcaggttaattatttttttttttta Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT--- tttcaagctaggtcagatcttctatctcgtcattcgtcttcgctgcccagtgGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTTTCgtaagttgagcagaataaaagcagagcaggttaattatttttttttttta Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT--- tttcaagctaggtcagatcttctatctcgtcattcgtcttcgctgcccagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTTTCgtaagttgagcagaataaaagcagagcaggttaattatttttttttttta Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT--- tttcaagctaggtcagatcttctatctcgtcattcgtcttcgctgcccagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTTTCgtaagttgagcagaataaaagcagagcaggttaattatttttttttttta Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT--- tttcaagctaggtcagatcttctatctcgtcattcgtcttcgctgcccagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTTTCgtaagttgagcagaataaaagcagagcaggttaattatttttttttttta Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT--- tttcaagctaggtcagatcttctatctcgtcattcgtcttcgctgcccagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTTTCgtaagttgagcagaataaaagcagagcaggttaattatttttttttttta Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT--- tttcaagctaggtcagatcttctatctcgtcattcgtcttcgctgcccagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTTTCgtaagttgagcagaataaaagcagagcaggttaattatttttttttttta Alignment from GeneWise TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTATG tttcaagctaggtcagatcttctatctcgtcattcgtcttcgctgcccagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACTTTCgtaagttgagcagaataaaagcagagcaggttaattatttttttttttta #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------ag gggttctatgggcagtagtttctgcatttgaaccgctgcccctcttctagATGGCAGGCGCAGGGGTCCCTTTCTCTGCGAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCTGCAGCCAAGCGTCAGAAACTAAACCCTGCCGAGGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCTTAACAGAAaggtgagtagggagtccagtgtgagaggctgacgacatcaatgtatgtagga Alignment from CESAR ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------ag gggttctatgggcagtagtttctgcatttgaaccgctgcccctcttctagATGGCAGGCGCAGGGGTCCCTTTCTCTGCGAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCTGCAGCCAAGCGTCAGAAACTAAACCCTGCCGAGGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCTTAACAGAAaggtgagtagggagtccagtgtgagaggctgacgacatcaatgtatgtagga Alignment from Spaln_aa2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGG-------- gggttctatgggcagtagtttctgcatttgaaccgctgcccctcttctagATGGCAGGCGCAGGGGTCCCTTTCTCTGCGAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCTGCAGCCAAGCGTCAGAAACTAAACCCTGCCGAGGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCTTAACAGAAAGgtgagtagggagtccagtgtgagaggctgacgacatcaatgtatgtagga Alignment from Spaln_nt2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------AG gggttctatgggcagtagtttctgcatttgaaccgctgcccctcttctagATGGCAGGCGCAGGGGTCCCTTTCTCTGCGAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCTGCAGCCAAGCGTCAGAAACTAAACCCTGCCGAGGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCTTAACAGAAAGgtgagtagggagtccagtgtgagaggctgacgacatcaatgtatgtagga Alignment from Pairagon ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------AG gggttctatgggcagtagtttctgcatttgaaccgctgcccctcttctagATGGCAGGCGCAGGGGTCCCTTTCTCTGCGAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCTGCAGCCAAGCGTCAGAAACTAAACCCTGCCGAGGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCTTAACAGAAAGgtgagtagggagtccagtgtgagaggctgacgacatcaatgtatgtagga Alignment from Exonerate_protein2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGGGCTTTAAG gggttctatgggcagtagtttctgcatttgaaccgctgcccctcttctagATGGCAGGCGCAGGGGTCCCTTTCTCTGCGAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCTGCAGCCAAGCGTCAGAAACTAAACCCTGCCGAGGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCTTAACAGAAAGgtgagtagggagtccagtgtgagaggctgacgacatcaatgtatgtagga Alignment from Exonerate_coding2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGGGCTTTAAG gggttctatgggcagtagtttctgcatttgaaccgctgcccctcttctagATGGCAGGCGCAGGGGTCCCTTTCTCTGCGAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCTGCAGCCAAGCGTCAGAAACTAAACCCTGCCGAGGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCTTAACAGAAAGgtgagtagggagtccagtgtgagaggctgacgacatcaatgtatgtagga Alignment from GeneWise ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACC---------AG gggttctatgggcagtagtttctgcatttgaaccgctgcccctcttctagATGGCAGGCGCAGGGGTCCCTTTCTCTGCGAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCTGCAGCCAAGCGTCAGAAACTAAACCCTGCCGAGGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCTTAACAGAAAGgtgagtagggagtccagtgtgagaggctgacgacatcaatgtatgtagga #### Mus81_ID1042_14 --> 0 - 2 Original Alignment ------GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCag atgaattgaaaacatcacctttcacacatctaccctcctggtgagcacagCACTTAGCTCAGTCTGTGCGAGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGCGAGAAGGCAGCAGCTGTGGTGGATCGTTACAGCACCCCTGCCaggtagggtaccaatggcaaacatgaacctattctaccacagccagtggggc Alignment from CESAR ------GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCag atgaattgaaaacatcacctttcacacatctaccctcctggtgagcacagCACTTAGCTCAGTCTGTGCGAGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGCGAGAAGGCAGCAGCTGTGGTGGATCGTTACAGCACCCCTGCCaggtagggtaccaatggcaaacatgaacctattctaccacagccagtggggc Alignment from Spaln_aa2Genome GCCCAGTCTGTG------CGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaattgaaaacatcacctttcacacatctaccctcctggtgagcacagCACTTAGCTCAGTCTGTGCGAGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGCGAGAAGGCAGCAGCTGTGGTGGATCGTTACAGCACCCCTGCCAGgtagggtaccaatggcaaacatgaacctattctaccacagccagtggggc Alignment from Spaln_nt2Genome GGCCCAGTCTGT-----GCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaattgaaaacatcacctttcacacatctaccctcctggtgagcacagCACTTAGCTCAGTCTGTGCGAGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGCGAGAAGGCAGCAGCTGTGGTGGATCGTTACAGCACCCCTGCCAGgtagggtaccaatggcaaacatgaacctattctaccacagccagtggggc Alignment from Pairagon ------GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaattgaaaacatcacctttcacacatctaccctcctggtgagcacagCACTTAGCTCAGTCTGTGCGAGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGCGAGAAGGCAGCAGCTGTGGTGGATCGTTACAGCACCCCTGCCAGgtagggtaccaatggcaaacatgaacctattctaccacagccagtggggc Alignment from Exonerate_protein2genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaattgaaaacatcacctttcacacatctaccctcctggtgagcacagcacttaGCTCAGTCTGTGCGAGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGCGAGAAGGCAGCAGCTGTGGTGGATCGTTACAGCACCCCTGCCAGgtagggtaccaatggcaaacatgaacctattctaccacagccagtggggc Alignment from Exonerate_coding2genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaattgaaaacatcacctttcacacatctaccctcctggtgagcacagcacttaGCTCAGTCTGTGCGAGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGCGAGAAGGCAGCAGCTGTGGTGGATCGTTACAGCACCCCTGCCAGgtagggtaccaatggcaaacatgaacctattctaccacagccagtggggc Alignment from GeneWise ------GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaattgaaaacatcacctttcacacatctaccctcctggtgagcacagCACTTAGCTCAGTCTGTGCGAGAGGTATTTGCCCGACAGCTGATGCAGGTGCGTGGACTGAGTGGCGAGAAGGCAGCAGCTGTGGTGGATCGTTACAGCACCCCTGCCAGgtagggtaccaatggcaaacatgaacctattctaccacagccagtggggc #### Mus81_ID1043_13 --> 0 - 0 Original Alignment GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG tagggcttagccttcagagcctgcccaggaatcttctgttccctgtgcagGGCCATACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTC---------gtgagcaccctagaccggccacttcactcctgtttctgaatgacaccaat Alignment from CESAR GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG tagggcttagccttcagagcctgcccaggaatcttctgttccctgtgcagGGCCATACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTC---------gtgagcaccctagaccggccacttcactcctgtttctgaat Alignment from Spaln_aa2Genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTC tagggcttagccttcagagcctgcccaggaatcttctgttccctgtgcagGGCCATACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTCgtgagcaccctagaccggccacttcactcctgtttctgaatgacaccaat Alignment from Spaln_nt2Genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTC tagggcttagccttcagagcctgcccaggaatcttctgttccctgtgcagGGCCATACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTCgtgagcaccctagaccggccacttcactcctgtttctgaatgacaccaat Alignment from Pairagon GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTC tagggcttagccttcagagcctgcccaggaatcttctgttccctgtgcagGGCCATACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCgtgagcaccctagaccggccacttcactcctgtttctgaatgacaccaat Alignment from Exonerate_protein2genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG tagggcttagccttcagagcctgcccaggaatcttctgttccctgtgcagGGCCATACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCGTGAGCACCctagaccggccacttcactcctgtttctgaatgacaccaat Alignment from Exonerate_coding2genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG tagggcttagccttcagagcctgcccaggaatcttctgttccctgtgcagGGCCATACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCGTGAGCACCctagaccggccacttcactcctgtttctgaatgacaccaat Alignment from GeneWise GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTC tagggcttagccttcagagcctgcccaggaatcttctgttccctgtgcagGGCCATACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTCgtgagcaccctagaccggccacttcactcctgtttctgaatgacaccaat #### Mus81_ID1044_12 --> 0 - 0 Original Alignment GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gcagacaacggcacagcctagtggctcattgtctgtttctttggtcctagGTCATTGATGGATTTTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGCTACCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTG------gtgagtacaacgagatgcaaagccttgcctggcttttattgtagaagcaa Alignment from CESAR GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gcagacaacggcacagcctagtggctcattgtctgtttctttggtcctagGTCATTGATGGATTTTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGCTACCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTG------gtgagtacaacgagatgcaaagccttgcctggcttttattgtag Alignment from Spaln_aa2Genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTG gcagacaacggcacagcctagtggctcattgtctgtttctttggtcctagGTCATTGATGGATTTTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGCTACCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGgtgagtacaacgagatgcaaagccttgcctggcttttattgtagaagcaa Alignment from Spaln_nt2Genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAA gcagacaacggcacagcctagtggctcattgtctgtttctttggtcctagGTCATTGATGGATTTTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGCTACCTTTCACTTTTGACAAAGGGCCTGGAGCgtttggtgagtacaacgagatgcaaagccttgcctggcttttattgtagaagcaa Alignment from Pairagon GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAA------ gcagacaacggcacagcctagtggctcattgtctgtttctttggtcctagGTCATTGATGGATTTTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGCTACCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGgtgagtacaacgagatgcaaagccttgcctggcttttattgtagaagcaa Alignment from Exonerate_protein2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTG gcagacaacggcacagcctagtggctcattgtctgtttctttggtcctagGTCATTGATGGATTTTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGCTACCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGgtgagtacaacgagatgcaaagccttgcctggcttttattgtagaagcaa Alignment from Exonerate_coding2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTG gcagacaacggcacagcctagtggctcattgtctgtttctttggtcctagGTCATTGATGGATTTTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGCTACCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGgtgagtacaacgagatgcaaagccttgcctggcttttattgtagaagcaa Alignment from GeneWise GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTG gcagacaacggcacagcctagtggctcattgtctgtttctttggtcctagGTCATTGATGGATTTTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGCTACCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGgtgagtacaacgagatgcaaagccttgcctggcttttattgtagaagcaa #### Mus81_ID1047_9 --> 1 - 1 Original Alignment g---------GCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAg gtccctgtcgacaggctctctcacctcgggtcctctggcttctcccctagtGCCCAGGACGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCTAGAGACCCAggtaagctactccaagagtgatgagggaggtgagtattggaagaggcaggg Alignment from CESAR g---------GCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAg gtccctgtcgacaggctctctcacctcgggtcctctggcttctcccctagtGCCCAGGACGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCTAGAGACCCAggtaagctactccaagagtgatgagggaggtgagtattggaagaggcaggg Alignment from Spaln_aa2Genome GGCAGGACACAGG---------CCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtccctgtcgacaggctctctcacctcgggtcctctggcttctcccctagTGCCCAGGACGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCTAGAGACCCAGgtaagctactccaagagtgatgagggaggtgagtattggaagaggcaggg Alignment from Spaln_nt2Genome GGCAGGACACAG--GCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtccctgtcgacaggctctctcacctcgggtcctctggcttctcccctagtgcccagGACGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCTAGAGACCCAGgtaagctactccaagagtgatgagggaggtgagtattggaagaggcaggg Alignment from Pairagon G--GCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtccctgtcgacaggctctctcacctcgggtcctctggcttctcccctagtgcccagGACGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCTAGAGACCCAGgtaagctactccaagagtgatgagggaggtgagtattggaagaggcaggg Alignment from Exonerate_protein2genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtccctgtcgacaggctctctcacctcgggtcctctggcttctcccctagtgcccaggaCGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCTAGAGACCCAGgtaagctactccaagagtgatgagggaggtgagtattggaagaggcaggg Alignment from Exonerate_coding2genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtccctgtcgacaggctctctcacctcgggtcctctggcttctcccctagtgcccaggaCGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCTAGAGACCCAGgtaagctactccaagagtgatgagggaggtgagtattggaagaggcaggg Alignment from GeneWise -------GGGGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtccctgtcgacaggctctctcacctcgggtcctctggcttctcccctagTGCCCAGGACGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCTAGAGACCCAGgtaagctactccaagagtgatgagggaggtgagtattggaagaggcaggg #### Mus81_ID1051_5 --> 0 - 0 Original Alignment ---------AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gttacacagtcacgcatggagcctccactttctttctttttttttttcagAGGGATGAAAATTCTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtgagcttcatccaaaaggaagaaggtatatcccataacagctctccctc Alignment from CESAR ---------AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gttacacagtcacgcatggagcctccactttctttctttttttttttcagAGGGATGAAAATTCTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtgagcttcatccaaaaggaagaaggtatatcccataacagctctccctc Alignment from Spaln_aa2Genome AATTCTGATGGC---------CACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gttacacagtcacgcatggagcctccactttctttctttttttttttcagAGGGATGAAAATTCTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtgagcttcatccaaaaggaagaaggtatatcccataacagctctccctc Alignment from Spaln_nt2Genome AATTCTGAT---------GGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gttacacagtcacgcatggagcctccactttctttctttttttttttcagAGGGATGAAAATTCTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtgagcttcatccaaaaggaagaaggtatatcccataacagctctccctc Alignment from Pairagon ---------AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gttacacagtcacgcatggagcctccactttctttctttttttttttcagAGGGATGAAAATTCTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtgagcttcatccaaaaggaagaaggtatatcccataacagctctccctc Alignment from Exonerate_protein2genome ---------AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gttacacagtcacgcatggagcctccactttctttctttttttttttcagAGGGATGAAAATTCTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtgagcttcatccaaaaggaagaaggtatatcccataacagctctccctc Alignment from Exonerate_coding2genome ---------AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gttacacagtcacgcatggagcctccactttctttctttttttttttcagAGGGATGAAAATTCTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtgagcttcatccaaaaggaagaaggtatatcccataacagctctccctc Alignment from GeneWise ---------AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gttacacagtcacgcatggagcctccactttctttctttttttttttcagAGGGATGAAAATTCTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtgagcttcatccaaaaggaagaaggtatatcccataacagctctccctc #### Mus81_ID1054_2 --> 0 - 1 Original Alignment ---------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCg tgatgtgtggagcttaattagacaaactgtttgtctgtctgtttgtgcagGTGGACTTAGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGCATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTggtgagtgctccacagtggtctcctgactccctcaggtgcacactgtggct Alignment from CESAR ---------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCg tgatgtgtggagcttaattagacaaactgtttgtctgtctgtttgtgcagGTGGACTTAGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGCATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTggtgagtgctccacagtggtctcctgactccctcaggtgcacactgtggct Alignment from Spaln_aa2Genome -------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaactgtttgtctgtctgtttgtgcagGTGGACTTAGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGCATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgctccacagtggtctcctgactccctcaggtgcacactgtggct Alignment from Spaln_nt2Genome GC---------ATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaactgtttgtctgtctgtttgtgcagGTGGACTTAGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGCATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgctccacagtggtctcctgactccctcaggtgcacactgtggct Alignment from Pairagon ---------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaactgtttgtctgtctgtttgtgcagGTGGACTTAGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGCATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgctccacagtggtctcctgactccctcaggtgcacactgtggct Alignment from Exonerate_protein2genome ---------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaactgtttgtctgtctgtttgtgcagGTGGACTTAGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGCATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgctccacagtggtctcctgactccctcaggtgcacactgtggct Alignment from Exonerate_coding2genome ---------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaactgtttgtctgtctgtttgtgcagGTGGACTTAGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGCATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgctccacagtggtctcctgactccctcaggtgcacactgtggct Alignment from GeneWise --TTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaactgtttgtctgtctgtttgtgcaggtggacttagTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGCATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgctccacagtggtctcctgactccctcaggtgcacactgtggct #### Myof_ID7469_33 --> 0 - 0 Original Alignment ---------GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctgggacaatggatggctctccccacccccactccagGACAACTGGGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCACAAACAGACATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTGTTACGGCAGAGTTGATTTTGAGGAACAAGgtgtgctatattcatacttgtacacttcttagctaagtaaccaggtacac Alignment from CESAR ---------GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctgggacaatggatggctctccccacccccactccagGACAACTGGGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCACAAACAGACATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTGTTACGGCAGAGTTGATTTTGAGGAACAAGgtgtgctatattcatacttgtacacttcttagctaagtaaccaggtacac Alignment from Spaln_aa2Genome GGCAAAGATGAA---------TTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctgggacaatggatggctctccccacccccactccagGACAACTGGGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCACAAACAGACATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTGTTACGGCAGAGTTGATTTTGAGGAACAAGgtgtgctatattcatacttgtacacttcttagctaagtaaccaggtacac Alignment from Spaln_nt2Genome GGGCAAAGATGAA--------TTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctgggacaatggatggctctccccacccccactccagGACAACTGGGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCACAAACAGACATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTGTTACGGCAGAGTTGATTTTGAGGAACAAGgtgtgctatattcatacttgtacacttcttagctaagtaaccaggtacac Alignment from Pairagon ---------GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctgggacaatggatggctctccccacccccactccagGACAACTGGGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCACAAACAGACATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTGTTACGGCAGAGTTGATTTTGAGGAACAAGgtgtgctatattcatacttgtacacttcttagctaagtaaccaggtacac Alignment from Exonerate_protein2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctgggacaatggatggctctccccacccccactccaggacaactggGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCACAAACAGACATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTGTTACGGCAGAGTTGATTTTGAGGAACAAGgtgtgctatattcatacttgtacacttcttagctaagtaaccaggtacac Alignment from Exonerate_coding2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctgggacaatggatggctctccccacccccactccaggacaactggGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCACAAACAGACATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTGTTACGGCAGAGTTGATTTTGAGGAACAAGgtgtgctatattcatacttgtacacttcttagctaagtaaccaggtacac Alignment from GeneWise ---------GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctgggacaatggatggctctccccacccccactccagGACAACTGGGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCACAAACAGACATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTGTTACGGCAGAGTTGATTTTGAGGAACAAGgtgtgctatattcatacttgtacacttcttagctaagtaaccaggtacac #### Myof_ID7493_9 --> 0 - 0 Original Alignment GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG caagtgtccagaagcaaagaattttggcacaattttgtattttaaaaaagGTTTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGA---------gtatgggaccctgggttaacaaccattgtgttcaatgagataagaatgag Alignment from CESAR GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG taagggtccagaagcaaagaattttggcacaattttgtattttaaaaaagGTTTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGA---------gtatgggaccctgggttaacaaccattgtgttcaatgagat Alignment from Spaln_aa2Genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGG caagtgtccagaagcaaagaattttggcacaattttgtattttaaaaaagGTTTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAgtatgggaccctgggttaacaaccattgtgttcaatgagataagaatgag Alignment from Spaln_nt2Genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGG caagtgtccagaagcaaagaattttggcacaattttgtattttaaaaaagGTTTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAgtatgggaccctgggttaacaaccattgtgttcaatgagataagaatgag Alignment from Pairagon -------------------------------------------------GGTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGG CAAGTGTCCAGAAGCAAAGAATTTTGGCACAATTTTGTATTTTAAAAAAGGTTTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAgtatgggaccctgggttaacaaccattgtgttcaatgagataagaatgag Alignment from Exonerate_protein2genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAGA caagtgtccagaagcaaagaattttggcacaattttgtattttaaaaaagGTTTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGTATGGGACCctgggttaacaaccattgtgttcaatgagataagaatgag Alignment from Exonerate_coding2genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAGA caagtgtccagaagcaaagaattttggcacaattttgtattttaaaaaagGTTTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGTATGGGACCctgggttaacaaccattgtgttcaatgagataagaatgag Alignment from GeneWise --------------------------------------------------GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAGATT-- CAAGTGTCCAGAAGCAAAGAATTTTGGCACAATTTTGTATTTTAAAAAAGGTTTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGTATGGGACCCTGGgttaacaaccattgtgttcaatgagataagaatgag #### Myrf_ID2723_14 --> 2 - 0 Original Alignment gt------GTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagattcctggttccaagaccacacattaacgatcatatttcttacaggtATGCGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTGGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgtgacatataggatccaatgtggctctgggttcgagcatggcaagctgga Alignment from CESAR gt------GTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagattcctggttccaagaccacacattaacgatcatatttcttacaggtATGCGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTGGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgtgacatataggatccaatgtggctctgggttcgagcatggcaagctgga Alignment from Spaln_aa2Genome GTGTCATCGCCCAG------GAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagattcctggttccaagaccacacattaacgatcatatttcttacagGTATGCGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTGGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgtgacatataggatccaatgtggctctgggttcgagcatggcaagctgga Alignment from Spaln_nt2Genome GTGTCATCGCCCA------GGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagattcctggttccaagaccacacattaacgatcatatttcttacagGTATGCGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTGGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgtgacatataggatccaatgtggctctgggttcgagcatggcaagctgga Alignment from Pairagon ------GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagattcctggttccaagaccacacattaacgatcatatttcttacagGTATGCGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTGGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgtgacatataggatccaatgtggctctgggttcgagcatggcaagctgga Alignment from Exonerate_protein2genome GT------GTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagattcctggttccaagaccacacattaacgatcatatttcttacagGTATGCGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTGGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgtgacatataggatccaatgtggctctgggttcgagcatggcaagctgga Alignment from Exonerate_coding2genome GT------GTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagattcctggttccaagaccacacattaacgatcatatttcttacagGTATGCGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTGGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgtgacatataggatccaatgtggctctgggttcgagcatggcaagctgga Alignment from GeneWise -----GGTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagattcctggttccaagaccacacattaacgatcatatttcttacagGTATGCGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTGGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgtgacatataggatccaatgtggctctgggttcgagcatggcaagctgga #### Myrf_ID2724_13 --> 0 - 1 Original Alignment GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg gtgattacaggaggatgggaggattcagtcctgtctttccatctttgcagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGATGCGGTTAGTGCACTACAGGTACAAGCCTGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAG---ggtgaggcgagtgtgcgtctgaggggtccctagctatgcctgaatccatct Alignment from CESAR GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg gtgattacaggaggatgggaggattcagtcctgtctttccatctttgcagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGATGCGGTTAGTGCACTACAGGTACAAGCCTGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAG---ggtgaggcgagtgtgcgtctgaggggtccctagctatgcctgaatccatct Alignment from Spaln_aa2Genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgattacaggaggatgggaggattcagtcctgtctttccatctttgcagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGATGCGGTTAGTGCACTACAGGTACAAGCCTGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAG---Ggtgaggcgagtgtgcgtctgaggggtccctagctatgcctgaatccatct Alignment from Spaln_nt2Genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGAC--AG gtgattacaggaggatgggaggattcagtcctgtctttccatctttgcagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGATGCGGTTAGTGCACTACAGGTACAAGCCTGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGGGTGAGgcgagtgtgcgtctgaggggtccctagctatgcctgaatccatct Alignment from Pairagon GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgattacaggaggatgggaggattcagtcctgtctttccatctttgcagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGATGCGGTTAGTGCACTACAGGTACAAGCCTGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAG---Ggtgaggcgagtgtgcgtctgaggggtccctagctatgcctgaatccatct Alignment from Exonerate_protein2genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgattacaggaggatgggaggattcagtcctgtctttccatctttgcagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGATGCGGTTAGTGCACTACAGGTACAAGCCTGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAG---Ggtgaggcgagtgtgcgtctgaggggtccctagctatgcctgaatccatct Alignment from Exonerate_coding2genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgattacaggaggatgggaggattcagtcctgtctttccatctttgcagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGATGCGGTTAGTGCACTACAGGTACAAGCCTGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAG---Ggtgaggcgagtgtgcgtctgaggggtccctagctatgcctgaatccatct Alignment from GeneWise GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAG- gtgattacaggaggatgggaggattcagtcctgtctttccatctttgcagGTTGATACCACTGAACACCTAAAGAGGATCTCACGGATGCGGTTAGTGCACTACAGGTACAAGCCTGAGTTTGCTGCCAGTGCAGGCATTGAAGCCACTGCACCAGAGGgtgaggcgagtgtgcgtctgaggggtccctagctatgcctgaatccatct #### Myrf_ID2727_10 --> 1 - 2 Original Alignment gGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGag tgttggctgcttcctaggaaacactgctctctgatggtgtcttttcctagaGTCAATCTCCCCCCCGAGCAGGTTACACAAGTGACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAAGGCAAGCCCAAC---------aggtgagaaaggcaatctcattgactttgccccaggacccctctcacctact Alignment from CESAR gGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGag tgttggctgcttcctaggaaacactgctctctgatggtgtcttttcctagaGTCAATCTCCCCCCCGAGCAGGTTACACAAGTGACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAAGGCAAGCCCAAC---------aggtgagaaaggcaatctcattgactttgccccaggacccctctcacctact Alignment from Spaln_aa2Genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCC tgttggctgcttcctaggaaacactgctctctgatggtgtcttttcctagAGTCAATCTCCCCCCCGAGCAGGTTACACAAGTGACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAAGGCAAGCCCAACAGgtgagaaaggcaatctcattgactttgccccaggacccctctcacctact Alignment from Spaln_nt2Genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCC tgttggctgcttcctaggaaacactgctctctgatggtgtcttttcctagAGTCAATCTCCCCCCCGAGCAGGTTACACAAGTGACTGTGG---GGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAAGGCAAGCCCAACAGgtgagaaaggcaatctcattgactttgccccaggacccctctcacctact Alignment from Pairagon GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgttggctgcttcctaggaaacactgctctctgatggtgtcttttcctagAGTCAATCTCCCCCCCGAGCAGGTTACACAAGTGACTGTGG---GGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAAGGCAAGCCCAAC---------AGgtgagaaaggcaatctcattgactttgccccaggacccctctcacctact Alignment from Exonerate_protein2genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgttggctgcttcctaggaaacactgctctctgatggtgtcttttcctagAGTCAATCTCCCCCCCGAGCAGGTTACACAAGTGACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAAGGCAAGCCCAACAGGTGAGAAAGgcaatctcattgactttgccccaggacccctctcacctact Alignment from Exonerate_coding2genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgttggctgcttcctaggaaacactgctctctgatggtgtcttttcctagAGTCAATCTCCCCCCCGAGCAGGTTACACAAGTGACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAAGGCAAGCCCAACAGGTGAGAAAGgcaatctcattgactttgccccaggacccctctcacctact Alignment from GeneWise GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAAC-- tgttggctgcttcctaggaaacactgctctctgatggtgtcttttcctagAGTCAATCTCCCCCCCGAGCAGGTTACACAAGTGACTGTGGGG---CTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAAGGCAAGCCCAACAGgtgagaaaggcaatctcattgactttgccccaggacccctctcacctact #### Naa40_ID2073_7 --> 1 - 2 Original Alignment c---ACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGca aaagagcactggctatgtctctaaagtgttttctgctttgtgttttgcagcGACACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAACCATGGTGCCTATCAGTTCTTCCAGGAGACACTTcagtgaggaataagactcaggctaagggtccaaatgtagttaggagacccag Alignment from CESAR c---ACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGca aaagagcactggctatgtctctaaagtgttttctgctttgtgttttgcagcGACACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAACCATGGTGCCTATCAGTTCTTCCAGGAGACACTTcagtgaggaataagactcaggctaagggtccaaatgtagttaggagacccag Alignment from Spaln_aa2Genome C----ACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aaagagcactggctatgtctctaaagtgttttctgctttgtgttttgcagCGACACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAACCATGGTGCCTATCAGTTCTTCCAGGAGACACTTCAgtgaggaataagactcaggctaagggtccaaatgtagttaggagacccag Alignment from Spaln_nt2Genome CACACAGATGAAG---AAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aaagagcactggctatgtctctaaagtgttttctgctttgtgttttgcagCGACACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAACCATGGTGCCTATCAGTTCTTCCAGGAGACACTTCAgtgaggaataagactcaggctaagggtccaaatgtagttaggagacccag Alignment from Pairagon ---CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aaagagcactggctatgtctctaaagtgttttctgctttgtgttttgcagCGACACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAACCATGGTGCCTATCAGTTCTTCCAGGAGACACTTCAgtgaggaataagactcaggctaagggtccaaatgtagttaggagacccag Alignment from Exonerate_protein2genome C---ACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aaagagcactggctatgtctctaaagtgttttctgctttgtgttttgcagCGACACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAACCATGGTGCCTATCAGTTCTTCCAGGAGACACTTCAgtgaggaataagactcaggctaagggtccaaatgtagttaggagacccag Alignment from Exonerate_coding2genome C---ACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aaagagcactggctatgtctctaaagtgttttctgctttgtgttttgcagCGACACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAACCATGGTGCCTATCAGTTCTTCCAGGAGACACTTCAgtgaggaataagactcaggctaagggtccaaatgtagttaggagacccag Alignment from GeneWise -AGCACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aaagagcactggctatgtctctaaagtgttttctgctttgtgttttgcagCGACACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAACCATGGTGCCTATCAGTTCTTCCAGGAGACACTTCAgtgaggaataagactcaggctaagggtccaaatgtagttaggagacccag #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---------ag taggctcctctattgggtcaaagcactcctgactttttatttttaaaaagcTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACGATGTTATGaggtgcgtagcatttgtgggaatgggcttgctgggagaggtgggtcctaggc Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---------ag taggctcctctattgggtcaaagcactcctgactttttatttttaaaaagcTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACGATGTTATGaggtgcgtagcatttgtgggaatgggcttgctgggagaggtgggtcctaggc Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGC-------- taggctcctctattgggtcaaagcactcctgactttttatttttaaaaagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACGATGTTATGAGgtgcgtagcatttgtgggaatgggcttgctgggagaggtgggtcctaggc Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC-AG taggctcctctattgggtcaaagcactcctgactttttatttttaaaaagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACGATgttatgaggtgcgtagcatttgtgggaatgggcttgctgggagaggtgggtcctaggc Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---------AG taggctcctctattgggtcaaagcactcctgactttttatttttaaaaagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACGATGTTATGAGgtgcgtagcatttgtgggaatgggcttgctgggagaggtgggtcctaggc Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGCACACAGAT taggctcctctattgggtcaaagcactcctgactttttatttttaaaaagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACGATGTTATGAGgtgcgtagcatttgtgggaatgggcttgctgggagaggtgggtcctaggc Alignment from Exonerate_coding2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGCACACAGAT taggctcctctattgggtcaaagcactcctgactttttatttttaaaaagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACGATGTTATGAGgtgcgtagcatttgtgggaatgggcttgctgggagaggtgggtcctaggc Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGCACACAGAT taggctcctctattgggtcaaagcactcctgactttttatttttaaaaagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACGATGTTATGAGgtgcgtagcatttgtgggaatgggcttgctgggagaggtgggtcctaggc #### Naa40_ID2075_5 --> 1 - 2 Original Alignment gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTAC---------------------------tg atctggtactagagggcagtctactgatattccgtgaacatattttacaggTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGGTTTGATGTGGAGTGTGGGGATGAGGTCTTGTATGCTTTCCCATGCATCTCCACGGGTGTGtggtaataacttatgccttcagtataggcacttacgccattagtggaataga Alignment from CESAR gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg atctggtactagagggcagtctactgatattccgtgaacatattttacaggTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGGTTTGATGTGGAGTGTGGGGATGAGGTC------ttgtatgctttcccatgcatctccacgggtgtgtggtaataacttatgccttcagtataggcacttacgccattagtggaataga Alignment from Spaln_aa2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTGCTATGAAG atctggtactagagggcagtctactgatattccgtgaacatattttacagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGGTTTGATGTGGAGTGTGGGGATGAGGTCTTGTATGCTTTCCCATgcatctccacgggtgtgtggtaataacttatgccttcagtataggcacttacgccattagtggaataga Alignment from Spaln_nt2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCT atctggtactagagggcagtctactgatattccgtgaacatattttacagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGGTTTGATGTGGAGTGTGGGGATGAGGTCTTgtatgctttcccatgcatctccacgggtgtgtggtaataacttatgccttcagtataggcacttacgccattagtggaataga Alignment from Pairagon GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGT--------------------ACTG atctggtactagagggcagtctactgatattccgtgaacatattttacagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGGTTTGATGTGGAGTGTGGGGATGAGGTCTTGTATGCTTTCCCATGCATCTCCACGGgtgtgtggtaataacttatgccttcagtataggcacttacgccattagtggaataga Alignment from Exonerate_protein2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atctggtactagagggcagtctactgatattccgtgaacatattttacagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGGTTTGATGTGGAGTGTGGGGATGAGGTCTTGTATGCtttcccatgcatctccacgggtgtgtggtaataacttatgccttcagtataggcacttacgccattagtggaataga Alignment from Exonerate_coding2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atctggtactagagggcagtctactgatattccgtgaacatattttacagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGGTTTGATGTGGAGTGTGGGGATGAGGTCTTGTATGCtttcccatgcatctccacgggtgtgtggtaataacttatgccttcagtataggcacttacgccattagtggaataga Alignment from GeneWise GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTAC------------------------TG atctggtactagagggcagtctactgatattccgtgaacatattttacagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGGTTTGATGTGGAGTGTGGGGATGAGGTCTTGTATGCTTTCCCATGCATCTCCACGGGTGTgtggtaataacttatgccttcagtataggcacttacgccattagtggaataga #### Naaladl1_ID1448_7 --> 1 - 1 Original Alignment tGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTg tcaataattacactcaatttcaatccccttgtcatgttctgttcacacagt---GTAAAAGTGAGTGTCCACAACAGATTGGAGCTTAGGACCTCTACTAATGTGCTCGGCATCATCCAGGGGGCTGTGGAGCCTggtgagtccattctcactctaccccgccatcaggtttgcctgcggtctggt Alignment from CESAR tGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTg tactcaataattacactcaatttcacccttgtcatgttctgttcacacagt---GTAAAAGTGAGTGTCCACAACAGATTGGAGCTTAGGACCTCTACTAATGTGCTCGGCATCATCCAGGGGGCTGTGGAGCCTggtgagtccattctcactctaccccgccatcaggtttgcctgcggtctggt Alignment from Spaln_aa2Genome TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tcaataattacactcaatttcaatccccttgtcatgttctgttcacacagT---GTAAAAGTGAGTGTCCACAACAGATTGGAGCTTAGGACCTCTACTAATGTGCTCGGCATCATCCAGGGGGCTGTGGAGCCTGgtgagtccattctcactctaccccgccatcaggtttgcctgcggtctggt Alignment from Spaln_nt2Genome TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tcaataattacactcaatttcaatccccttgtcatgttctgttcacacagT---GTAAAAGTGAGTGTCCACAACAGATTGGAGCTTAGGACCTCTACTAATGTGCTCGGCATCATCCAGGGGGCTGTGGAGCCTGgtgagtccattctcactctaccccgccatcaggtttgcctgcggtctggt Alignment from Pairagon TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tcaataattacactcaatttcaatccccttgtcatgttctgttcacacagT---GTAAAAGTGAGTGTCCACAACAGATTGGAGCTTAGGACCTCTACTAATGTGCTCGGCATCATCCAGGGGGCTGTGGAGCCTGgtgagtccattctcactctaccccgccatcaggtttgcctgcggtctggt Alignment from Exonerate_protein2genome TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tcaataattacactcaatttcaatccccttgtcatgttctgttcacacagT---GTAAAAGTGAGTGTCCACAACAGATTGGAGCTTAGGACCTCTACTAATGTGCTCGGCATCATCCAGGGGGCTGTGGAGCCTGgtgagtccattctcactctaccccgccatcaggtttgcctgcggtctggt Alignment from Exonerate_coding2genome TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tcaataattacactcaatttcaatccccttgtcatgttctgttcacacagT---GTAAAAGTGAGTGTCCACAACAGATTGGAGCTTAGGACCTCTACTAATGTGCTCGGCATCATCCAGGGGGCTGTGGAGCCTGgtgagtccattctcactctaccccgccatcaggtttgcctgcggtctggt Alignment from GeneWise TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG tcaataattacactcaatttcaatccccttgtcatgttctgttcacacagT---GTAAAAGTGAGTGTCCACAACAGATTGGAGCTTAGGACCTCTACTAATGTGCTCGGCATCATCCAGGGGGCTGTGGAGCCTGgtgagtccattctcactctaccccgccatcaggtttgcctgcggtctggt #### Naaladl1_ID1451_10 --> 0 - 1 Original Alignment GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTC---------t aaaatccaaagcattcttatacaccaattcctttccctttttaattatagGAATCTCTCAGCAAACTGCAAGAGCGCACAGTGGACTATATCAATGTCGACATCTCTGTTTTTCAATGCTTCtgtaagctaaggttggccagctgagctcagaacaactctaaggttttggcc Alignment from CESAR GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTT---------TTCt aaaatccaaagcattcttatacaccaattcctttccctttttaattatagGAATCTCTCAGCAAACTGCAAGAGCGCACAGTGGACTATATCAATGTCGACATCTCTGTTTTTCAATGCTTCtgtaagctaaggttggccagctgagctcagaacaactctaaggttttggcc Alignment from Spaln_aa2Genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTC---T aaaatccaaagcattcttatacaccaattcctttccctttttaattatagGAATCTCTCAGCAAACTGCAAGAGCGCACAGTGGACTATATCAATGTCGACATCTCTGTTTTTCAATgcttctgtaagctaaggttggccagctgagctcagaacaactctaaggttttggcc Alignment from Spaln_nt2Genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTT---------CT aaaatccaaagcattcttatacaccaattcctttccctttttaattatagGAATCTCTCAGCAAACTGCAAGAGCGCACAGTGGACTATATCAATGTCGACATCTCTGTTTTTCAATGCTTCTgtaagctaaggttggccagctgagctcagaacaactctaaggttttggcc Alignment from Pairagon GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTT---------TTCT aaaatccaaagcattcttatacaccaattcctttccctttttaattatagGAATCTCTCAGCAAACTGCAAGAGCGCACAGTGGACTATATCAATGTCGACATCTCTGTTTTTCAATGCTTCTgtaagctaaggttggccagctgagctcagaacaactctaaggttttggcc Alignment from Exonerate_protein2genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCTCCAATGCTACCCTCCGG aaaatccaaagcattcttatacaccaattcctttccctttttaattatagGAATCTCTCAGCAAACTGCAAGAGCGCACAGTGGACTATATCAATGTCGACATCTCTGTTTTT---CAATGCTTCTGTAAGctaaggttggccagctgagctcagaacaactctaaggttttggcc Alignment from Exonerate_coding2genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCTCCAATGCTACCCTCCGG aaaatccaaagcattcttatacaccaattcctttccctttttaattatagGAATCTCTCAGCAAACTGCAAGAGCGCACAGTGGACTATATCAATGTCGACATCTCTGTTTTT---CAATGCTTCTGTAAGctaaggttggccagctgagctcagaacaactctaaggttttggcc Alignment from GeneWise GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTC---------T aaaatccaaagcattcttatacaccaattcctttccctttttaattatagGAATCTCTCAGCAAACTGCAAGAGCGCACAGTGGACTATATCAATGTCGACATCTCTGTTTTTCAATGCTTCTgtaagctaaggttggccagctgagctcagaacaactctaaggttttggcc #### Naaladl1_ID1453_12 --> 0 - 2 Original Alignment ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag ggtgttaaagcagggtttagcatgctatatttccctgctttttcctgtagATCAGTGCACCAGGGTCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTT---aggtaagtggctcagaatgaagtcaggtaggcctgttggcccagcatgtctt Alignment from CESAR ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag ggtgttaaagcagggtttagcatgctatatttccctgctttttcctgtagATCAGTGCACCAGGGTCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTT---aggtaagtggctcagaatgaagtcaggtaggcctgttggcccagcatcaccc Alignment from Spaln_aa2Genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGC ggtgttaaagcagggtttagcatgctatatttccctgctttttcctgtagATCAGTGCACCAGGGTCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTTAGg taagtggctcagaatgaagtcaggtaggcctgttggcccagcatgt Alignment from Spaln_nt2Genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCC-AG ggtgttaaagcagggtttagcatgctatatttccctgctttttcctgtagATCAGTGCACCAGGGTCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTTAGGTAAgtggctcagaatgaagtcaggtaggcctgttggcccagcatgtctt Alignment from Pairagon ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTT---------------------------------------------------- ggtgttaaagcagggtttagcatgctatatttccctgctttttcctgtagATCAGTGCACCAGGGTCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTTAGGTAAGTGGCTCAGAATGAAGTCAGGTAGGCCTGTTGGCCCAGCATGTCTT Alignment from Exonerate_protein2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagcagggtttagcatgctatatttccctgctttttcctgtagATCAGTGCACCAGGGTCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTT---AGgtaagtggctcagaatgaagtcaggtaggcctgttggcccagcatgtctt Alignment from Exonerate_coding2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagcagggtttagcatgctatatttccctgctttttcctgtagATCAGTGCACCAGGGTCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTT---AGgtaagtggctcagaatgaagtcaggtaggcctgttggcccagcatgtctt Alignment from GeneWise ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCC ggtgttaaagcagggtttagcatgctatatttccctgctttttcctgtagATCAGTGCACCAGGGTCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTTAGgtaagtggctcagaatgaagtcaggtaggcctgttggcccagcatgtctt #### Naaladl1_ID1457_16 --> 2 - 2 Original Alignment TGg ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga TGggtaagccacggagtccccaggcaggcagctctcatgtcaccctccagggCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCATTGGGAGAGCACATCCTGACCCTAGGGAAGAGC------gagcgagtctcttagccagcagagggcatgtgtcaccaggtatacatggaga Alignment from CESAR TGg ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga TGggtaagtcacggagtccccaggcaggcagctctcatgtcaccctccagggCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCATTGGGAGAGCACATCCTGACCCTAGGGAAGAGC------gagcgagtctcttagccagcagagggcatgtgtcaccaggtatacatggaga Alignment from Spaln_aa2Genome TGG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAG TGGgtaagccacggagtccccaggcaggcagctctcatgtcaccctccagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCATTGGGAGAGCACATCCTGACCCTAGGGAAGAGCGAgcgagtctcttagccagcagagggcatgtgtcaccaggtatacatggaga Alignment from Spaln_nt2Genome TGG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA TGGgtaagccacggagtccccaggcaggcagctctcatgtcaccctccagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCATTGGGAGAGCACATCCTGACCCTAGGGAAGAGCGAGC--GAgtctcttagccagcagagggcatgtgtcaccaggtatacatgga Alignment from Pairagon TGG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA TGGgtaagccacggagtccccaggcaggcagctctcatgtcaccctccagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCATTGGGAGAGCACATCCTGACCCTAGGGAAGAGC------GAgcgagtctcttagccagcagagggcatgtgtcaccaggtatacatggaga Alignment from Exonerate_protein2genome TGG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAG TGGgtaagccacggagtccccaggcaggcagctctcatgtcaccctccagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCATTGGGAGAGCACATCCTGACCCTAGGGAAGAGCGAgcgagtctcttagccagcagagggcatgtgtcaccaggtatacatggaga Alignment from Exonerate_coding2genome TGG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAG TGGgtaagccacggagtccccaggcaggcagctctcatgtcaccctccagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCATTGGGAGAGCACATCCTGACCCTAGGGAAGAGCGAgcgagtctcttagccagcagagggcatgtgtcaccaggtatacatggaga Alignment from GeneWise TGG GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCT TGGgtaagccacggagtccccaggcaggcagctctcatgtcaccctccagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCGGCTGCCTCATTGGGAGAGCACATCCTGACCCTAGGGAAGAGCGAGCGAgtctcttagccagcagagggcatgtgtcaccaggtatacatggaga #### Naaladl1_ID1458_17 --> 1 - 2 Original Alignment tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag atggtacctgagctgctggctgtcagtgttttctgctgttcctatattagtCCTCTGCAGGTCCAAATGGTTAATGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCAAGAGCTTTCCCAGAAGAG---------aggtaggtctatctaactggtgctgaaaccctgaggaaagggggtgtagtgg Alignment from CESAR tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag atggtacctgagctgctggctgtcagtgttttctgctgttcctatattagtCCTCTGCAGGTCCAAATGGTTAATGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCAAGAGCTTTCCCAGAAGAG---------aggtaggtctatctaactggtgctgaaaccctgaggaaagggggtgtagtgg Alignment from Spaln_aa2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG atggtacctgagctgctggctgtcagtgttttctgctgttcctatattagTCCTCTGCAGGTCCAAATGGTTAATGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCAAGAGCTTTCCCAGAAGAGAGgtaggtctatctaactggtgctgaaaccctgaggaaagggggtgtagtgg Alignment from Spaln_nt2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG atggtacctgagctgctggctgtcagtgttttctgctgttcctatattagTCCTCTGCAGGTCCAAATGGTTAATGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCAAGAGCTTTCCCAGAAGAGAGgtaggtctatctaactggtgctgaaaccctgaggaaagggggtgtagtgg Alignment from Pairagon TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG atggtacctgagctgctggctgtcagtgttttctgctgttcctatattagTCCTCTGCAGGTCCAAATGGTTAATGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCAAGAGCTTTCCCAGAAGAGAGgtaggtctatctaactggtgctgaaaccctgaggaaagggggtgtagtgg Alignment from Exonerate_protein2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG atggtacctgagctgctggctgtcagtgttttctgctgttcctatattagTCCTCTGCAGGTCCAAATGGTTAATGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCAAGAGCTTTCCCAGAAGAGAGgtaggtctatctaactggtgctgaaaccctgaggaaagggggtgtagtgg Alignment from Exonerate_coding2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG atggtacctgagctgctggctgtcagtgttttctgctgttcctatattagTCCTCTGCAGGTCCAAATGGTTAATGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCAAGAGCTTTCCCAGAAGAGAGgtaggtctatctaactggtgctgaaaccctgaggaaagggggtgtagtgg Alignment from GeneWise TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG atggtacctgagctgctggctgtcagtgttttctgctgttcctatattagTCCTCTGCAGGTCCAAATGGTTAATGACCAACTGATGCTCTTAGAGTGTGCATTTTTGAACCCAAGAGCTTTCCCAGAAGAGAGgtaggtctatctaactggtgctgaaaccctgaggaaagggggtgtagtgg #### Ndufs8_ID193_3 --> 2 - 1 Original Alignment agTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATT---CTGATGTGGACAGAACTCATCCGA------g ctaggcccctcatggttttgccactaacgcctgtgttcttttcctcctagagTATGTAAACAAGAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCTCAGATTCTGATGATGTGGACAGAACTAATCCGGCCCCTGggtgagtaccagcgaaaggccaaaagggagaatccaagcagcagtgtgtgg Alignment from CESAR agTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGA------g ctaggcccctcatggttttgccactaacgcctgtgttcttttcctcctagagTATGTAAACAAGAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCTCAGATTCTGATGATGTGGACAGAACTAATCCGGCCCCTGggtgagtaccagcgaaaggccaaaagggagaatccaagcagcagtgtgtgg Alignment from Spaln_aa2Genome AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGA------G ctaggcccctcatggttttgccactaacgcctgtgttcttttcctcctagAGTATGTAAACAAGAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCTCAGATTCTGATGATGTGGACAGAACTAATCCGGCCCCTGGgtgagtaccagcgaaaggccaaaagggagaatccaagcagcagtgtgtgg Alignment from Spaln_nt2Genome AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGA------G ctaggcccctcatggttttgccactaacgcctgtgttcttttcctcctagAGTATGTAAACAAGAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCTCAGATTCTGATGATGTGGACAGAACTAATCCGGCCCCTGGgtgagtaccagcgaaaggccaaaagggagaatccaagcagcagtgtgtgg Alignment from Pairagon AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTC---TGATGTGGACAGAACTCATCCG---------------------------------------------------------- ctaggcccctcatggttttgccactaacgcctgtgttcttttcctcctagAGTATGTAAACAAGAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCTCAGATTCTGATGATGTGGACAGAACTAATCCGGCCCCTGGGTGAGTACCAGCGAAAGGCCAAAAGGGAGAATCCAAGCAGCAGTGTGTGG Alignment from Exonerate_protein2genome AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGA------G ctaggcccctcatggttttgccactaacgcctgtgttcttttcctcctagAGTATGTAAACAAGAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCTCAGATTCTGATGATGTGGACAGAACTAATCCGGCCCCTGGgtgagtaccagcgaaaggccaaaagggagaatccaagcagcagtgtgtgg Alignment from Exonerate_coding2genome AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGA------G ctaggcccctcatggttttgccactaacgcctgtgttcttttcctcctagAGTATGTAAACAAGAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCTCAGATTCTGATGATGTGGACAGAACTAATCCGGCCCCTGGgtgagtaccagcgaaaggccaaaagggagaatccaagcagcagtgtgtgg Alignment from GeneWise AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAGGACTG- ctaggcccctcatggttttgccactaacgcctgtgttcttttcctcctagAGTATGTAAACAAGAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCTCAGATTCTGATGATGTGGACAGAACTAATCCGGCCCCTGGgtgagtaccagcgaaaggccaaaagggagaatccaagcagcagtgtgtgg #### Ndufv1_ID280_2 --> 0 - 2 Original Alignment ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGag aggaggccacatgctatacatactgattaccaggccttctctctctgtag---------------------------TCACTGAAGGATGACGACCGCATTTTTACCAATCTGTATGGGCGCCATGACTGGaggtgagccaaagccatgacctcggcacagaactgtatcttcttcacatttt Alignment from CESAR ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGag ccaacctcatggttgctaggtcttgattaccaggccttctctctctgtag---------------------------TCACTGAAGGATGACGACCGCATTTTTACCAATCTGTATGGGCGCCATGACTGGaggtgagccaaagccatgacctcggcacagaactactcactgtccttgccct Alignment from Spaln_aa2Genome TCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG aggaggccacatgctatacatactgattaccaggccttctctctctgtagTCACTGAAGGATGACGACCGCATTTTTACCAATCTGTATGGGCGCCATGACTGGAGgtgagccaaagccatgacctcggcacagaactgtatcttcttcacatttt Alignment from Spaln_nt2Genome GGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG aggaggccacatgctatacatactgattaccaggccttctctctctgtag---TCACTGAAGGATGACGACCGCATTTTTACCAATCTGTATGGGCGCCATGACTGGAGgtgagccaaagccatgacctcggcacagaactgtatcttcttcacatttt Alignment from Pairagon ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG aggaggccacatgctatacatactgattaccaggccttctctctctgtag---------------------------TCACTGAAGGATGACGACCGCATTTTTACCAATCTGTATGGGCGCCATGACTGGAGgtgagccaaagccatgacctcggcacagaactgtatcttcttcacatttt Alignment from Exonerate_protein2genome TCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG aggaggccacatgctatacatactgattaccaggccttctctctctgtagTCACTGAAGGATGACGACCGCATTTTTACCAATCTGTATGGGCGCCATGACTGGAGgtgagccaaagccatgacctcggcacagaactgtatcttcttcacatttt Alignment from Exonerate_coding2genome TCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG aggaggccacatgctatacatactgattaccaggccttctctctctgtagTCACTGAAGGATGACGACCGCATTTTTACCAATCTGTATGGGCGCCATGACTGGAGgtgagccaaagccatgacctcggcacagaactgtatcttcttcacatttt Alignment from GeneWise TCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG aggaggccacatgctatacatactgattaccaggccttctctctctgtagTCACTGAAGGATGACGACCGCATTTTTACCAATCTGTATGGGCGCCATGACTGGAGgtgagccaaagccatgacctcggcacagaactgtatcttcttcacatttt #### Nfkb2_ID9824_2 --> 0 - 1 Original Alignment ---GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg cattaagtggtcccttgatacagctaccttttatctgttttccatgttagCCTGGGCTGGATGGAATCCCGGATTATGAGGATTTTGAATTCAGCCCAACAATAGTGGAGCCTAATGATCCAGCCCCTGAAACAggtaagtaaatctatggaggaaatctatggtgtcactgcacttcagaacct Alignment from CESAR ---GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAg cattaagtggtcccttgatacagctaccttttatctgttttccatgttagCCTGGGCTGGATGGAATCCCGGATTATGAGGATTTTGAATTCAGCCCAACAATAGTGGAGCCTAATGATCCAGCCCCTGAAACAggtaagtaaatctatggaggaaatctatggtgtcactgcacttcagaacct Alignment from Spaln_aa2Genome CCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG cattaagtggtcccttgatacagctaccttttatctgttttccatgttagCCTGGGCTGGATGGAATCCCGGATTATGAGGATTTTGAATTCAGCCCAACAATAGTGGAGCCTAATGATCCAGCCCCTGAAACAGgtaagtaaatctatggaggaaatctatggtgtcactgcacttcagaacct Alignment from Spaln_nt2Genome TCCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG cattaagtggtcccttgatacagctaccttttatctgttttccatgttag-CCTGGGCTGGATGGAATCCCGGATTATGAGGATTTTGAATTCAGCCCAACAATAGTGGAGCCTAATGATCCAGCCCCTGAAACAGgtaagtaaatctatggaggaaatctatggtgtcactgcacttcagaacct Alignment from Pairagon ---GGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG cattaagtggtcccttgatacagctaccttttatctgttttccatgttagCCTGGGCTGGATGGAATCCCGGATTATGAGGATTTTGAATTCAGCCCAACAATAGTGGAGCCTAATGATCCAGCCCCTGAAACAGgtaagtaaatctatggaggaaatctatggtgtcactgcacttcagaacct Alignment from Exonerate_protein2genome CCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG cattaagtggtcccttgatacagctaccttttatctgttttccatgttagCCTGGGCTGGATGGAATCCCGGATTATGAGGATTTTGAATTCAGCCCAACAATAGTGGAGCCTAATGATCCAGCCCCTGAAACAGgtaagtaaatctatggaggaaatctatggtgtcactgcacttcagaacct Alignment from Exonerate_coding2genome CCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG cattaagtggtcccttgatacagctaccttttatctgttttccatgttagCCTGGGCTGGATGGAATCCCGGATTATGAGGATTTTGAATTCAGCCCAACAATAGTGGAGCCTAATGATCCAGCCCCTGAAACAGgtaagtaaatctatggaggaaatctatggtgtcactgcacttcagaacct Alignment from GeneWise GACAATTGCTACGATCCAGGCCTGGATGGCATCCCCGAATATGATGATTTTGAATTCAGCCCCTCCATCGTGGAGCCTAAGGATCCAGCCCCTGAGACAG cattaagtggtcccttgatacagctaccttttatctgttttccatgttag---------------CCTGGGCTGGATGGAATCCCGGATTATGAGGATTTTGAATTCAGCCCAACAATAGTGGAGCCTAATGATCCAGCCCCTGAAACAGgtaagtaaatctatggaggaaatctatggtgtcactgcacttcagaacct #### Nfkb2_ID9825_3 --> 2 - 0 Original Alignment ctGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaataaggtgtgtttgtctgtatctccagctGATGGCCCCTATCTTGTGATCGTGGAACAGACC------gtaagagtggtagtgcaatagagaaatgtgtcttcaccttcggggacagg Alignment from CESAR ctGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaataaggtgtgtttgtctgtatctccagctGATGGCCCCTATCTTGTGATCGTGGAACAGACC------gtaagagtggtagtgcaatagagaaatgtgtcttcaccttcggg Alignment from Spaln_aa2Genome CTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaataaggtgtgtttgtctgtatctccagCTGATGGCCCCTATCTTGTGATCGTGGAACAGACCGTAAGAgtggtagtgcaatagagaaatgtgtcttcaccttcggggacagg Alignment from Spaln_nt2Genome CTGATGGCCCCTATCTGGTGATTGTGGAACAG-CC actctaccaagaccaaaccaggaataaggtgtgtttgtctgtatctccagCTGATGGCCCCTATCTTGTGATCGTGGAACAGACCgtaagagtggtagtgcaatagagaaatgtgtcttcaccttcggggacagg Alignment from Pairagon CTGATGGCCCCTATCTGGTGATTGTGGAACAGCCC actctaccaagaccaaaccaggaataaggtgtgtttgtctgtatctccagCTGATGGCCCCTATCTTGTGATCGTGGAACAGACCgtaagagtggtagtgcaatagagaaatgtgtcttcaccttcggggacagg Alignment from Exonerate_protein2genome CTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaataaggtgtgtttgtctgtatctccagCTGATGGCCCCTATCTTGTGATCGTGGAACAGACCGTAAGAgtggtagtgcaatagagaaatgtgtcttcaccttcggggacagg Alignment from Exonerate_coding2genome CTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaataaggtgtgtttgtctgtatctccagCTGATGGCCCCTATCTTGTGATCGTGGAACAGACCGTAAGAgtggtagtgcaatagagaaatgtgtcttcaccttcggggacagg Alignment from GeneWise CTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaataaggtgtgtttgtctgtatctccagCTGATGGCCCCTATCTTGTGATCGTGGAACAGACCGTAAGAgtggtagtgcaatagagaaatgtgtcttcaccttcggggacagg #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca ggtgcatggaaggcaacataataaagaattgtctgggcccttgtgtccag------------------CCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTcagtatccgatgcttccctgtcctggagtggcatgattttctggatagcctc Alignment from CESAR ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca ggtgaccatgttctgtagggtgcatgaattgtctgggcccttgtgtccag------------------CCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTcagtatccgatgcttccctgtcctggagtggcatgattttctggatagcctc Alignment from Spaln_aa2Genome ATCTGT------AACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggtgcatggaaggcaacataataaagAATTGTCTGGGCCCTTGTGTCCAGCCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtatccgatgcttccctgtcctggagtggcatgattttctggatagcctc Alignment from Spaln_nt2Genome G ACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA Ggtgcatggaaggcaacataataaagaattgtctgggcccttgtgtccag-CCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtatccgatgcttccctgtcctggagtggcatgattttctggatagcctc Alignment from Pairagon ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggtgcatggaaggcaacataataaagaattgtctgggcccttgtgtccag------------------CCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtatccgatgcttccctgtcctggagtggcatgattttctggatagcctc Alignment from Exonerate_protein2genome CCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggtgcatggaaggcaacataataaagaattgtctgggcccttgtgtccagCCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtatccgatgcttccctgtcctggagtggcatgattttctggatagcctc Alignment from Exonerate_coding2genome CCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggtgcatggaaggcaacataataaagaattgtctgggcccttgtgtccagCCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtatccgatgcttccctgtcctggagtggcatgattttctggatagcctc Alignment from GeneWise ---------------TATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggtgcatggaaggcaacataataaagAATTGTCTGGGCCCTTGTGTCCAGCCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtatccgatgcttccctgtcctggagtggcatgattttctggatagcctc #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg gagacctcatgtcaagctgcatccagaataaatattgtattaaattttagaTTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTT---ggtacgcagacgatcaaaggtgtcctgggaggtgctcctaaaaaggccaaa Alignment from CESAR aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg gagacctcatgtcaagctgcatccagaataaatattgtattaaattttagaTTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTT---ggtacgcagacgatcaaaggtgtcctgggaggtgctcctaaaaaggccaaa Alignment from Spaln_aa2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTT- gagacctcatgtcaagctgcatccagaataaatattgtattaaattttagATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTTGgtacgcagacgatcaaaggtgtcctgggaggtgctcctaaaaaggccaaa Alignment from Spaln_nt2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTAC-AG gagacctcatgtcaagctgcatccagaataaatattgtattaaattttagATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTTGGTACgcagacgatcaaaggtgtcctgggaggtgctcctaaaaaggccaaa Alignment from Pairagon ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTA-------------------------------------------------- gagacctcatgtcaagctgcatccagaataaatattgtattaaattttagATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTTGGTACGCAGACGATCAAAGGTGTCCTGGGAGGTGCTCCTAAAAAGGCCAAA Alignment from Exonerate_protein2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gagacctcatgtcaagctgcatccagaataaatattgtattaaattttagATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTT---Ggtacgcagacgatcaaaggtgtcctgggaggtgctcctaaaaaggccaaa Alignment from Exonerate_coding2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gagacctcatgtcaagctgcatccagaataaatattgtattaaattttagATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTT---Ggtacgcagacgatcaaaggtgtcctgggaggtgctcctaaaaaggccaaa Alignment from GeneWise ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTA gagacctcatgtcaagctgcatccagaataaatattgtattaaattttagATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATACAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGCCTTGgtacgcagacgatcaaaggtgtcctgggaggtgctcctaaaaaggccaaa #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa cggccaaaaagaacagcttgacacttgcccacctcttcctctgtgaacagag------------------------------------------------ATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCagtaggaactctgcaggaggccaggtacacactgataagagttcagttgag Alignment from CESAR agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa aggccaaaaagaacagcttgacacttgcccacctcttcctctgtgaacagag------------------------------------------------ATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCagtaggaactctgcaggaggccaggtacacactgataagagttcagttgag Alignment from Spaln_aa2Genome AG TCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA CGgccaaaaagaacagcttgacacttgcccacctcttcctctgtgaacagAGATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCAgtaggaactctgcaggaggccaggtacacactgataagagttcagttgag Alignment from Spaln_nt2Genome AGCGGCGGGAG-CTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA caaaaagAACAGCTTGACACTTGCCCA----CCTCTTCCTCTGTGAACAGAGATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCAgtaggaactctgcaggaggccaggtacacactgataagagttcagttgag Alignment from Pairagon ----------------------------------------------ACAGAGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA CGGCCAAAAAGAACAGCTTGACACTTGCCCACCTCTTCCTCTGTGAACAGAG------------------------------------------------ATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCAgtaggaactctgcaggaggccaggtacacactgataagagttcagttgag Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA cgGCCAAAAAGAACAGCTTGACACTTGCCCACCTCTTCCTCTGTGAACAGAGATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCAgtaggaactctgcaggaggccaggtacacactgataagagttcagttgag Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA cgGCCAAAAAGAACAGCTTGACACTTGCCCACCTCTTCCTCTGTGAACAGAGATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCAgtaggaactctgcaggaggccaggtacacactgataagagttcagttgag Alignment from GeneWise AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA cggccaaaaagaacagcttgacacttgcccacctcttcctctgtgaacagAG------------------------------------------------ATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCCAGTGATGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCAgtaggaactctgcaggaggccaggtacacactgataagagttcagttgag #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment acGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- ggaaatcacttgccccctccatatggctttcctttcccctccacacccagatGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGCCTgtgggtagcagcctgagccttattccttctctttagcgaaaatatgctgg Alignment from CESAR acGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- ggaaatcacttgccccctccatatggctttcctttcccctccacacccagatGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGCCTgtgggtagcagcctgagccttattccttctctttagcgaaaatatgctgg Alignment from Spaln_aa2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- ggaaatcacttgccccctccatatggctttcctttcccctccacacccagATGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGCCTgtgggtagcagcctgagccttattccttctctttagcgaaaatatgctgg Alignment from Spaln_nt2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- ggaaatcacttgccccctccatatggctttcctttcccctccacacccagATGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGCCTgtgggtagcagcctgagccttattccttctctttagcgaaaatatgctgg Alignment from Pairagon ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- ggaaatcacttgccccctccatatggctttcctttcccctccacacccagATGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGCCTgtgggtagcagcctgagccttattccttctctttagcgaaaatatgctgg Alignment from Exonerate_protein2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGTAT ggaaatcacttgccccctccatatggctttcctttcccctccacacccagATGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGCCTgtgggtagcagcctgagccttattccttctctttagcgaaaatatgctgg Alignment from Exonerate_coding2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGTAT ggaaatcacttgccccctccatatggctttcctttcccctccacacccagATGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGCCTgtgggtagcagcctgagccttattccttctctttagcgaaaatatgctgg Alignment from GeneWise ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGTAT ggaaatcacttgccccctccatatggctttcctttcccctccacacccagATGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGCCTgtgggtagcagcctgagccttattccttctctttagcgaaaatatgctgg #### Nfkb2_ID9832_10 --> 0 - 1 Original Alignment TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTAC---CCTCTGGTGGAA---------g tatagacatacattgctggcgctaaatcgtttgttctctttgctcctcagTATGCCATTGTGTTCCAGACTCCACCTTATCACAAGATGAAGATTGAAAGGCCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGAGGATCTACggtgggtcagggttcagcatttctaaaagctagatggactcaagcctgtga Alignment from CESAR TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAA---------g tatagacatacattgctggcgctaaatcgtttgttctctttgctcctcagTATGCCATTGTGTTCCAGACTCCACCTTATCACAAGATGAAGATTGAAAGGCCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGAGGATCTACggtgggtcagggttcagcatttctaaaagctagatggactcaagcctgtga Alignment from Spaln_aa2Genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAA---------G tatagacatacattgctggcgctaaatcgtttgttctctttgctcctcagTATGCCATTGTGTTCCAGACTCCACCTTATCACAAGATGAAGATTGAAAGGCCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGAGGATCTACGgtgggtcagggttcagcatttctaaaagctagatggactcaagcctgtga Alignment from Spaln_nt2Genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTA---CCCTCTGGTGGAA---------G tatagacatacattgctggcgctaaatcgtttgttctctttgctcctcagTATGCCATTGTGTTCCAGACTCCACCTTATCACAAGATGAAGATTGAAAGGCCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGAGGATCTACGgtgggtcagggttcagcatttctaaaagctagatggactcaagcctgtga Alignment from Pairagon TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGA------------------------------------------------------------- tatagacatacattgctggcgctaaatcgtttgttctctttgctcctcagTATGCCATTGTGTTCCAGACTCCACCTTATCACAAGATGAAGATTGAAAGGCCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGAGGATCTACGGTGGGTCAGGGTTCAGCATTTCTAAAAGCTAGATGGACTCAAGCCTGTGA Alignment from Exonerate_protein2genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG tatagacatacattgctggcgctaaatcgtttgttctctttgctcctcagTATGCCATTGTGTTCCAGACTCCACCTTATCACAAGATGAAGATTGAAAGGCCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGAggatctacggtgggtcagggttcagcatttctaaaagctagatggactcaagcctgtga Alignment from Exonerate_coding2genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG tatagacatacattgctggcgctaaatcgtttgttctctttgctcctcagTATGCCATTGTGTTCCAGACTCCACCTTATCACAAGATGAAGATTGAAAGGCCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGAggatctacggtgggtcagggttcagcatttctaaaagctagatggactcaagcctgtga Alignment from GeneWise TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTAC---CCTCTGGTGGAA---------G tatagacatacattgctggcgctaaatcgtttgttctctttgctcctcagTATGCCATTGTGTTCCAGACTCCACCTTATCACAAGATGAAGATTGAAAGGCCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGAGGATCTACGgtgggtcagggttcagcatttctaaaagctagatggactcaagcctgtga #### Nfkb2_ID9836_14 --> 1 - 0 Original Alignment gCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ggggttataaggaacaagtgaagaacaacagataccatcttcttccacagcCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCAT---gtagacagaagaagttagagattgaaagcaagaagtctaaagctgtttct Alignment from CESAR gCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ggggttataaggaacaagtgaagaacaacagataccatcttcttccacagcCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCAT---gtagacagaagaagttagagattgaaagcaagaagtctaaaggcctt Alignment from Spaln_aa2Genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCAC ggggttataaggaacaagtgaagaacaacagataccatcttcttccacagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATgtagacagaagaagttagagattgaaagcaagaagtctaaagctgtttct Alignment from Spaln_nt2Genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCAC ggggttataaggaacaagtgaagaacaacagataccatcttcttccacagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATgtagacagaagaagttagagattgaaagcaagaagtctaaagctgtttct Alignment from Pairagon GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCAC-------------------------------------------------- ggggttataaggaacaagtgaagaacaacagataccatcttcttccacagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATGTAGACAGAAGAAGTTAGAGATTGAAAGCAAGAAGTCTAAAGCTGTTTCT Alignment from Exonerate_protein2genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ggggttataaggaacaagtgaagaacaacagataccatcttcttccacagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATGTAgacagaagaagttagagattgaaagcaagaagtctaaagctgtttct Alignment from Exonerate_coding2genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ggggttataaggaacaagtgaagaacaacagataccatcttcttccacagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATGTAgacagaagaagttagagattgaaagcaagaagtctaaagctgtttct Alignment from GeneWise GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCAC ggggttataaggaacaagtgaagaacaacagataccatcttcttccacagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATgtagacagaagaagttagagattgaaagcaagaagtctaaagctgtttct #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT---------------------------g agcttggttggttgtggccagactttgtcctcccaccccacccctaccagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGCTGATGACAACAACCTCAATTCCATCggtattgcttgccattagaatatggcgggccaggggaggaagtgggacagg Alignment from CESAR CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg agcttggttggttgtggccagactttgtcctcccaccccacccctaccagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTgctgatgacaacaacctcaattccatcggtattgcttgccattagaatatggcgggccaggggaggaagtgggacagg Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAG---GCTG agcttggttggttgtggccagactttgtcctcccaccccacccctaccagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGCTGatgacaacaacctcaattccatcggtattgcttgccattagaatatggcgggccaggggaggaagtgggacagg Alignment from Spaln_nt2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT agcttggttggttgtggccagactttgtcctcccaccccacccctaccagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTgctgatgacaacaacctcaattccatcggtattgcttgccattagaatatggcgggccaggggaggaagtgggacagg Alignment from Pairagon CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG--------------------------- agcttggttggttgtggccagactttgtcctcccaccccacccctaccagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGCTGATGACAACAACCTCAATTCCATCGgtattgcttgccattagaatatggcgggccaggggaggaagtgggacagg Alignment from Exonerate_protein2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG agcttggttggttgtggccagactttgtcctcccaccccacccctaccagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGctgatgacaacaacctcaattccatcggtattgcttgccattagaatatggcgggccaggggaggaagtgggacagg Alignment from Exonerate_coding2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG agcttggttggttgtggccagactttgtcctcccaccccacccctaccagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGctgatgacaacaacctcaattccatcggtattgcttgccattagaatatggcgggccaggggaggaagtgggacagg Alignment from GeneWise CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCT---------------------------G agcttggttggttgtggccagactttgtcctcccaccccacccctaccagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGCTGATGACAACAACCTCAATTCCATCGgtattgcttgccattagaatatggcgggccaggggaggaagtgggacagg #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagtttaggaaccttaactagtcttttcatgtgggatttgtgtttggcaggtGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACCTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACC---gtatttagtctacccttggagaagattggctgaggaacagggtctgctgc Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagtttaggaaccttaactagtcttttcatgtgggatttgtgtttggcaggtGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACCTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACC---gtatttagtctacccttggagaagattggctgaggaacagggtctgc Alignment from Spaln_aa2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACC cagtttaggaaccttaactagtcttttcatgtgggatttgtgtttggcagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACCTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCgtatttagtctacccttggagaagattggctgaggaacagggtctgctgc Alignment from Spaln_nt2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG---- cagtttaggaaccttaactagtcttttcatgtgggatttgtgtttggcagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACCTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCGTATTTAgtctacccttggagaagattggctgaggaacagggtctgctgc Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACC cagtttaggaaccttaactagtcttttcatgtgggatttgtgtttggcagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACCTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCgtatttagtctacccttggagaagattggctgaggaacagggtctgctgc Alignment from Exonerate_protein2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagtttaggaaccttaactagtcttttcatgtgggatttgtgtttggcagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACCTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCGTAtttagtctacccttggagaagattggctgaggaacagggtctgctgc Alignment from Exonerate_coding2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cagtttaggaaccttaactagtcttttcatgtgggatttgtgtttggcagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACCTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCGTAtttagtctacccttggagaagattggctgaggaacagggtctgctgc Alignment from GeneWise GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACC cagtttaggaaccttaactagtcttttcatgtgggatttgtgtttggcagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACCTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCgtatttagtctacccttggagaagattggctgaggaacagggtctgctgc #### Nfkb2_ID9842_20 --> 2 - 0 Original Alignment ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG cctgcacatatgtgaactagattactttaactggttggtgttcctcacaggg---GGGCTGTCCCTAGGGGATACAGCCCTACAGAACTTGCAACAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGACTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaagccagctagacactatgccgaagcctcaatcctttgcccttgtctt Alignment from CESAR ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG gctcctgcacatatgtgaactagattttaactggttggtgttcctcacaggg---GGGCTGTCCCTAGGGGATACAGCCCTACAGAACTTGCAACAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGACTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaagccagctagacactatgccgaagcctcaatcccctacaaatgtggc Alignment from Spaln_aa2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG cctgcacatatgtgaactagattactttaactggttggtgttcctcacagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAGAACTTGCAACAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGACTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaagccagctagacactatgccgaagcctcaatcctttgcccttgtctt Alignment from Spaln_nt2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG cctgcacatatgtgaactagattactttaactggttggtgttcctcacagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAGAACTTGCAACAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGACTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaagccagctagacactatgccgaagcctcaatcctttgcccttgtctt Alignment from Pairagon GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG cctgcacatatgtgaactagattactttaactggttggtgttcctcacagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAGAACTTGCAACAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGACTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaagccagctagacactatgccgaagcctcaatcctttgcccttgtctt Alignment from Exonerate_protein2genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG cctgcacatatgtgaactagattactttaactggttggtgttcctcacagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAGAACTTGCAACAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGACTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaagccagctagacactatgccgaagcctcaatcctttgcccttgtctt Alignment from Exonerate_coding2genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG cctgcacatatgtgaactagattactttaactggttggtgttcctcacagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAGAACTTGCAACAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGACTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaagccagctagacactatgccgaagcctcaatcctttgcccttgtctt Alignment from GeneWise GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG cctgcacatatgtgaactagattactttaactggttggtgttcctcacagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAGAACTTGCAACAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGACTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaagccagctagacactatgccgaagcctcaatcctttgcccttgtctt #### Noc3l_ID7659_16 --> 2 - 1 Original Alignment gt---------GATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg ttggtctccctttcacttaactaaatttgagaaatacttgtatattccaggaCTCGGGGCTGATGTTTTGAATATTGACCCCATGAAATTTTATACCCCTCTCTTCCAGACACTGTTTACGTTACATGCAggtatggcattgtggctgaaagcctttttgttcagagtagtagccaatgtg Alignment from CESAR gt---------GATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg ttggtctccctttcacttaactaaatttgagaaatacttgtatattccaggaCTCGGGGCTGATGTTTTGAATATTGACCCCATGAAATTTTATACCCCTCTCTTCCAGACACTGTTTACGTTACATGCAggtatggcattgtggctgaaagcctttttgttcagagtagtagccaatgtg Alignment from Spaln_aa2Genome GTGATGTTTTAAATATTGAC---------CCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcacttaactaaatttgagaaatacttgtatattccagGACTCGGGGCTGATGTTTTGAATATTGACCCCATGAAATTTTATACCCCTCTCTTCCAGACACTGTTTACGTTACATGCAGgtatggcattgtggctgaaagcctttttgttcagagtagtagccaatgtg Alignment from Spaln_nt2Genome GTGATGTTTTAAA---------TATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcacttaactaaatttgagaaatacttgtatattccagGACTCGGGGCTGATGTTTTGAATATTGACCCCATGAAATTTTATACCCCTCTCTTCCAGACACTGTTTACGTTACATGCAGgtatggcattgtggctgaaagcctttttgttcagagtagtagccaatgtg Alignment from Pairagon ------------------------------------------------------------TGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG TTGGTCTCCCTTTCACTTAACTAAATTTGAGAAATACTTGTATATTCCAGGACTCGGGGCTGATGTTTTGAATATTGACCCCATGAAATTTTATACCCCTCTCTTCCAGACACTGTTTACGTTACATGCAGgtatggcattgtggctgaaagcctttttgttcagagtagtagccaatgtg Alignment from Exonerate_protein2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcacttaactaaatttgagaaatacttgtatattccaggactcggggCTGATGTTTTGAATATTGACCCCATGAAATTTTATACCCCTCTCTTCCAGACACTGTTTACGTTACATGCAGgtatggcattgtggctgaaagcctttttgttcagagtagtagccaatgtg Alignment from Exonerate_coding2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcacttaactaaatttgagaaatacttgtatattccaggactcggggCTGATGTTTTGAATATTGACCCCATGAAATTTTATACCCCTCTCTTCCAGACACTGTTTACGTTACATGCAGgtatggcattgtggctgaaagcctttttgttcagagtagtagccaatgtg Alignment from GeneWise --------GGTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG ttggtctccctttcacttaactaaatttgagaaatacttgtatattccagGACTCGGGGCTGATGTTTTGAATATTGACCCCATGAAATTTTATACCCCTCTCTTCCAGACACTGTTTACGTTACATGCAGgtatggcattgtggctgaaagcctttttgttcagagtagtagccaatgtg #### Npas4_ID777_4 --> 2 - 2 Original Alignment atCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAag attaaaacccctccccactgccttaatttttttttttttttttttttaagac---------------------------------------CGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAATTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTCTGTGCACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCTGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCTAAGGACCTAGCCCTACTGGATGTTTCTGAAaggtaagtcctaagcaggaggcaggaaagaagggcacactagatttacaatc Alignment from CESAR atCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAag ccggtcttcaatccccactgccttaatttttttttttttttttttttaagac---------CGA------------------------------CGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAATTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTCTGTGCACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCTGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCTAAGGACCTAGCCCTACTGGATGTTTCTGAAaggtaagtcctaagcaggaggcaggaaagaagggcacactagatttacaatc Alignment from Spaln_aa2Genome TCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG attaaaacccctccccactgccttaatttttttttttttttttttttaagACCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAATTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTCTGTGCACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCTGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCTAAGGACCTAGCCCTACTGGATGTTTCTGAAAGgtaagtcctaagcaggaggcaggaaagaagggcacactagatttacaatc Alignment from Spaln_nt2Genome -CCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG attaaaacccctccccactgccttaatttttttttttttttttttttaagACCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAATTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTCTGTGCACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCTGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCTAAGGACCTAGCCCTACTGGATGTTTCTGAAAGgtaagtcctaagcaggaggcaggaaagaagggcacactagatttacaatc Alignment from Pairagon ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG attaaaacccctccccactgccttaatttttttttttttttttttttaagA---------------------------------------CCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAATTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTCTGTGCACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCTGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCTAAGGACCTAGCCCTACTGGATGTTTCTGAAAGgtaagtcctaagcaggaggcaggaaagaagggcacactagatttacaatc Alignment from Exonerate_protein2genome TCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG attaaaacccctccccactgCCTTAATTTTTTTTTTTTTTTTTTTTTAAGACCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAATTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTCTGTGCACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCTGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCTAAGGACCTAGCCCTACTGGATGTTTCTGAAAGgtaagtcctaagcaggaggcaggaaagaagggcacactagatttacaatc Alignment from Exonerate_coding2genome TCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG attaaaacccctccccactgCCTTAATTTTTTTTTTTTTTTTTTTTTAAGACCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAATTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTCTGTGCACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCTGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCTAAGGACCTAGCCCTACTGGATGTTTCTGAAAGgtaagtcctaagcaggaggcaggaaagaagggcacactagatttacaatc Alignment from GeneWise ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAG attaaaacccctccccactgccttaatttttttttttttttttttttaagACCGA---------------------------------------CGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAATTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTCTGTGCACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCTGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCTAAGGACCTAGCCCTACTGGATGTTTCTGAAAGgtaagtcctaagcaggaggcaggaaagaagggcacactagatttacaatc #### Npas4_ID778_3 --> 0 - 1 Original Alignment GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTg ccctctgggtgccgtcattccaaagccattttttttttcattttacacag---------GTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTATGCCAGCAACTCACCATGCCCTCTGCTCTCGATGCCggtaagtgtatcatgcacaaaggttccaaagcatttaaagcatttagagat Alignment from CESAR GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTg tttgtgatgccctctgggtgccgtcccattttttttttcattttacacagGTG---------GCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTATGCCAGCAACTCACCATGCCCTCTGCTCTCGATGCCggtaagtgtatcatgcacaaaggttccaaagcatttaaagcatttagagat Alignment from Spaln_aa2Genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ccctctgggtgccgtcattccaaagccattttttttttcattttacacag---------GTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTATGCCAGCAACTCACCATGCCCTCTGCTCTCGATGCCGgtaagtgtatcatgcacaaaggttccaaagcatttaaagcatttagagat Alignment from Spaln_nt2Genome GTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ccctctgggtgccgtcattccaaagccattttttttttcattttacacagGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTATGCCAGCAACTCACCATGCCCTCTGCTCTCGATGCCGgtaagtgtatcatgcacaaaggttccaaagcatttaaagcatttagagat Alignment from Pairagon GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ccctctgggtgccgtcattccaaagccattttttttttcattttacacagGTG---------GCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTATGCCAGCAACTCACCATGCCCTCTGCTCTCGATGCCGgtaagtgtatcatgcacaaaggttccaaagcatttaaagcatttagagat Alignment from Exonerate_protein2genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ccctctgggtgccgtcattccaaagccattttttttttcatTTTACACAGGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTATGCCAGCAACTCACCATGCCCTCTGCTCTCGATGCCGgtaagtgtatcatgcacaaaggttccaaagcatttaaagcatttagagat Alignment from Exonerate_coding2genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ccctctgggtgccgtcattccaaagccattttttttttcatTTTACACAGGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTATGCCAGCAACTCACCATGCCCTCTGCTCTCGATGCCGgtaagtgtatcatgcacaaaggttccaaagcatttaaagcatttagagat Alignment from GeneWise GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ccctctgggtgccgtcattccaaagccattttttttttcattttacacagGTG---------GCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTATGCCAGCAACTCACCATGCCCTCTGCTCTCGATGCCGgtaagtgtatcatgcacaaaggttccaaagcatttaaagcatttagagat #### Npm3_ID9577_3 --> 0 - 0 Original Alignment CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tttcctcagccaatcatcacctaaggcattgtgtgaccttcctgctctagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCGGTTCCTGTTGCAAACCTCAGGCTGTCTTGTCAGCCG---gtaagtagtttgagccattcagtcctgttgagccctaacaggattaataa Alignment from CESAR CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tttcctcagccaatcatcacctaaggcattgtgtgaccttcctgctctagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCGGTTCCTGTTGCAAACCTCAGGCTGTCTTGTCAGCCG---gtaagtagtttgagccattcagtcctgttgagccctaacaggattaa Alignment from Spaln_aa2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCC tttcctcagccaatcatcacctaaggcattgtgtgaccttcctgctctagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCGGTTCCTGTTGCAAACCTCAGGCTGTCTTGTCAGCCGgtaagtagtttgagccattcagtcctgttgagccctaacaggattaataa Alignment from Spaln_nt2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tttcctcagccaatcatcacctaaggcattgtgtgaccttcctgctctagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCGGTTCCTGTTGCAAACCTCAGGCTGTCTTGTCAGCC---Ggtaagtagtttgagccattcagtcctgttgagccctaacaggattaataa Alignment from Pairagon CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tttcctcagccaatcatcacctaaggcattgtgtgaccttcctgctctagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCGGTTCCTGTTGCAAACCTCAGGCTGTCTTGTCAGCC---Ggtaagtagtttgagccattcagtcctgttgagccctaacaggattaataa Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tttcctcagccaatcatcacctaaggcattgtgtgaccttcctgctctagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCGGTTCCTGTTGCAAACCTCAGGCTGTCTTGTCAGCCG---gtaagtagtttgagccattcagtcctgttgagccctaacaggattaa Alignment from Exonerate_coding2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tttcctcagccaatcatcacctaaggcattgtgtgaccttcctgctctagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCGGTTCCTGTTGCAAACCTCAGGCTGTCTTGTCAGCCG---gtaagtagtttgagccattcagtcctgttgagccctaacaggattaa Alignment from GeneWise CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCC tttcctcagccaatcatcacctaaggcattgtgtgaccttcctgctctagCTCTGCCTTACTGAGGCAGCCACAGATGAGTGTAATGTGATAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCGGTTCCTGTTGCAAACCTCAGGCTGTCTTGTCAGCCGgtaagtagtttgagccattcagtcctgttgagccctaacaggattaataa #### Nt5c2_ID10037_16 --> 1 - 0 Original Alignment g------------CACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacttagggaggtgtgttctcctagaccttagtgcctcttccaccttcaggTCACTGTGCTCCCATTTGGACAGCAGTAGCAATGAACACCCAGACATTAGTCCTATCCAGAGACAGATTAAGgtactcagatcgcatttggggagcaatatcaggagtaagttgtttcagta Alignment from CESAR g------------CACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacttagggaggtgtgttctcctagaccttagtgcctcttccaccttcaggTCACTGTGCTCCCATTTGGACAGCAGTAGCAATGAACACCCAGACATTAGTCCTATCCAGAGACAGATTAAGgtactcagatcgcatttggggagcaatatcaggagtaagttgtttcagta Alignment from Spaln_aa2Genome GCACCTGGAC------------AGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacttagggaggtgtgttctcctagaccttagtgcctcttccaccttcagGTCACTGTGCTCCCATTTGGACAGCAGTAGCAATGAACACCCAGACATTAGTCCTATCCAGAGACAGATTAAGgtactcagatcgcatttggggagcaatatcaggagtaagttgtttcagta Alignment from Spaln_nt2Genome GCACCTGGACAGCA------------GTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacttagggaggtgtgttctcctagaccttagtgcctcttccaccttcagGTCACTGTGCTCCCATTTGGACAGCAGTAGCAATGAACACCCAGACATTAGTCCTATCCAGAGACAGATTAAGgtactcagatcgcatttggggagcaatatcaggagtaagttgtttcagta Alignment from Pairagon ---------------------------------------------------------------CACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG GACTTAGGGAGGTGTGTTCTCCTAGACCTTAGTGCCTCTTCCACCTTCAGGTCACTGTGCTCCCATTTGGACAGCAGTAGCAATGAACACCCAGACATTAGTCCTATCCAGAGACAGATTAAGgtactcagatcgcatttggggagcaatatcaggagtaagttgtttcagta Alignment from Exonerate_protein2genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacttagggaggtgtgttctcctagaccttagtgcctcttccaccttcaggtcactgtgctcCCATTTGGACAGCAGTAGCAATGAACACCCAGACATTAGTCCTATCCAGAGACAGATTAAGgtactcagatcgcatttggggagcaatatcaggagtaagttgtttcagta Alignment from Exonerate_coding2genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacttagggaggtgtgttctcctagaccttagtgcctcttccaccttcaggtcactgtgctcCCATTTGGACAGCAGTAGCAATGAACACCCAGACATTAGTCCTATCCAGAGACAGATTAAGgtactcagatcgcatttggggagcaatatcaggagtaagttgtttcagta Alignment from GeneWise ----------AAGCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacttagggaggtgtgttctcctagaccttagtgcctcttccaccttcagGTCACTGTGCTCCCATTTGGACAGCAGTAGCAATGAACACCCAGACATTAGTCCTATCCAGAGACAGATTAAGgtactcagatcgcatttggggagcaatatcaggagtaagttgtttcagta #### Nxf1_ID2346_6 --> 0 - 0 Original Alignment ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtttttacattgtagccaattgtcttctaaccttttggatgtgtgttcagATATCAATCATCATTAATACATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGGGTGGCgtgagcctgggtctagtcagaggccctcaaccctcatcatagttatctaa Alignment from CESAR ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtttttacattgtagccaattgtcttctaaccttttggatgtgtgttcagATATCAATCATCATTAATACATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGGGTGGCgtgagcctgggtctagtcagaggccctcaaccctcatcatagttatctaa Alignment from Spaln_aa2Genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtttttacattgtagccaattgtcttctaaccttttggatgtgtgttcagATATCAATCATCATTAATACATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGGGTGGCgtgagcctgggtctagtcagaggccctcaaccctcatcatagttatctaa Alignment from Spaln_nt2Genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG- gtttttacattgtagccaattgtcttctaaccttttggatgtgtgttcagATATCAATCATCATTAATACATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGGgtggcgtgagcctgggtctagtcagaggccctcaaccctcatcatagttatctaa Alignment from Pairagon ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtttttacattgtagccaattgtcttctaaccttttggatgtgtgttcagATATCAATCATCATTAATACATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGGGTGGCgtgagcctgggtctagtcagaggccctcaaccctcatcatagttatctaa Alignment from Exonerate_protein2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gtttttacattgtagccaattgtcttctaaccttttggatgtgtgttcagATATCAATCATCATTAATACATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGggtggcgtgagcctgggtctagtcagaggccctcaaccctcatcatagttatctaa Alignment from Exonerate_coding2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gtttttacattgtagccaattgtcttctaaccttttggatgtgtgttcagATATCAATCATCATTAATACATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGggtggcgtgagcctgggtctagtcagaggccctcaaccctcatcatagttatctaa Alignment from GeneWise ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtttttacattgtagccaattgtcttctaaccttttggatgtgtgttcagATATCAATCATCATTAATACATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGGGTGGCgtgagcctgggtctagtcagaggccctcaaccctcatcatagttatctaa #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment at---TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcaccatttctgagacattccgttccttaacattgggccaaagatTCATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAAGAGAATATTCCTGAGgtaaaggttctctcttttatcgtctcaccattctaacttaattagctggt Alignment from CESAR at---TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcaccatttctgagacattccgttccttaacattgggccaaagatTCATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAAGAGAATATTCCTGAGgtaaaggttctctcttttatcgtctcaccattctaacttaattagctggt Alignment from Spaln_aa2Genome AT---TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcaccatttctgagacattccgttccttaacattgggccaaagATTCATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAAGAGAATATTCCTGAGgtaaaggttctctcttttatcgtctcaccattctaacttaattagctggt Alignment from Spaln_nt2Genome ATT---TGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcaccatttctgagacattccgttccttaacattgggccaaagATTCATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAAGAGAATATTCCTGAGgtaaaggttctctcttttatcgtctcaccattctaacttaattagctggt Alignment from Pairagon AT---TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcaccatttctgagacattccgttccttaacattgggccaaagATTCATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAAGAGAATATTCCTGAGgtaaaggttctctcttttatcgtctcaccattctaacttaattagctggt Alignment from Exonerate_protein2genome AT---TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcaccatttctgagacattccgttccttaacattgggccaaagATTCATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAAGAGAATATTCCTGAGgtaaaggttctctcttttatcgtctcaccattctaacttaattagctggt Alignment from Exonerate_coding2genome AT---TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcaccatttctgagacattccgttccttaacattgggccaaagATTCATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAAGAGAATATTCCTGAGgtaaaggttctctcttttatcgtctcaccattctaacttaattagctggt Alignment from GeneWise --GATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcaccatttctgagacattccgttccttaacattgggccaaagATTCATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCAACTGTCCGCACCATCAAAGAGAATATTCCTGAGgtaaaggttctctcttttatcgtctcaccattctaacttaattagctggt #### Nxf1_ID2352_12 --> 0 - 0 Original Alignment GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG--- aaatccagttcttattcagtttcttataccgtatctgttctttcttgaagGATGGCCATGAGCTACCCCCTCCAATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGCAAGGAGgtaagttgttgggtttgcattagaactctgatagaagagaacactggtcc Alignment from CESAR GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG--- aaatccagttcttattcagtttcttataccgtatctgttctttcttgaagGATGGCCATGAGCTACCCCCTCCAATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGCAAGGAGgtaagttgttgggtttgcattagaactctgatagaagagaacactggtcc Alignment from Spaln_aa2Genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG--- aaatccagttcttattcagtttcttataccgtatctgttctttcttgaagGATGGCCATGAGCTACCCCCTCCAATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGCAAGGAGgtaagttgttgggtttgcattagaactctgatagaagagaacactggtcc Alignment from Spaln_nt2Genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG--- aaatccagttcttattcagtttcttataccgtatctgttctttcttgaagGATGGCCATGAGCTACCCCCTCCAATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGCAAGGAGgtaagttgttgggtttgcattagaactctgatagaagagaacactggtcc Alignment from Pairagon GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG--- aaatccagttcttattcagtttcttataccgtatctgttctttcttgaagGATGGCCATGAGCTACCCCCTCCAATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGCAAGGAGgtaagttgttgggtttgcattagaactctgatagaagagaacactggtcc Alignment from Exonerate_protein2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG--- aaatccagttcttattcagtttcttataccgtatctgttctttcttgaagGATGGCCATGAGCTACCCCCTCCAATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGCAAGGAGgtaagttgttgggtttgcattagaactctgatagaagagaacactggtcc Alignment from Exonerate_coding2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG--- aaatccagttcttattcagtttcttataccgtatctgttctttcttgaagGATGGCCATGAGCTACCCCCTCCAATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGCAAGGAGgtaagttgttgggtttgcattagaactctgatagaagagaacactggtcc Alignment from GeneWise GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAGGGA aaatccagttcttattcagtttcttataccgtatctgttctttcttgaagGATGGCCATGAGCTACCCCCTCCAATTTCTTTTGATGTTGAAGCTCCTACAATGTTACCACCCTGCAAGGAGgtaagttgttgggtttgcattagaactctgatagaagagaacactggtcc #### Nxf1_ID2353_13 --> 0 - 2 Original Alignment GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGca gatagaagagaacactggtcctatgattaatatcctatttgattttctagGGAAGTTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCACTTC------cagtaagtcggtgggccccaggcacaatagtcctcagggtaacaactggact Alignment from CESAR GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGca gatagaagagaacactggtcctatgattaatatcctatttgattttctagGGAAGTTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCACTTC------cagtaagtcggtgggccccaggcacaatagtcctcagggtaacaactggact Alignment from Spaln_aa2Genome GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTT gatagaagagaacactggtcctatgattaatatcctatttgattttctagGGAAGTTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCACTTCCAgtaagtcggtgggccccaggcacaatagtcctcagggtaacaactggact Alignment from Spaln_nt2Genome GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA gatagaagagaacactggtcctatgattaatatcctatttgattttctagGGAAGTTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCACTTC------CAgtaagtcggtgggccccaggcacaatagtcctcagggtaacaactggact Alignment from Pairagon GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA gatagaagagaacactggtcctatgattaatatcctatttgattttctagGGAAGTTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCACTTC------CAgtaagtcggtgggccccaggcacaatagtcctcagggtaacaactggact Alignment from Exonerate_protein2genome GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA gatagaagagaacactggtcctatgattaatatcctatttgattttctagGGAAGTTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCACTTC------CAgtaagtcggtgggccccaggcacaatagtcctcagggtaacaactggact Alignment from Exonerate_coding2genome GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCA gatagaagagaacactggtcctatgattaatatcctatttgattttctagGGAAGTTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCACTTC------CAgtaagtcggtgggccccaggcacaatagtcctcagggtaacaactggact Alignment from GeneWise GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTT gatagaagagaacactggtcctatgattaatatcctatttgattttctagGGAAGTTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCACTTCCAgtaagtcggtgggccccaggcacaatagtcctcagggtaacaactggact #### Nxf1_ID2354_14 --> 1 - 2 Original Alignment gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg aacaactggactatgcatatttagtggttgaccactgtctgtcttcacaggTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGCGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---aggtgagcagcgtatatgtttgactctatctggaacctgtacaacccccaga Alignment from CESAR gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg aacaactggactatgcatatttagtggttgaccactgtctgtcttcacaggTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGCGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---aggtgagcagcgtatatgtttgactctatctggaacctgtacaacccccaga Alignment from Spaln_aa2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGT aacaactggactatgcatatttagtggttgaccactgtctgtcttcacagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGCGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTAGgtgagcagcgtatatgtttgactctatctggaacctgtacaacccccaga Alignment from Spaln_nt2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG aacaactggactatgcatatttagtggttgaccactgtctgtcttcacagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGCGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---AGgtgagcagcgtatatgtttgactctatctggaacctgtacaacccccaga Alignment from Pairagon GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG aacaactggactatgcatatttagtggttgaccactgtctgtcttcacagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGCGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTA---Ggtgagcagcgtatatgtttgactctatctggaacctgtacaacccccaga Alignment from Exonerate_protein2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG aacaactggactatgcatatttagtggttgaccactgtctgtcttcacagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGCGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---AGgtgagcagcgtatatgtttgactctatctggaacctgtacaacccccaga Alignment from Exonerate_coding2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG aacaactggactatgcatatttagtggttgaccactgtctgtcttcacagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGCGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---AGgtgagcagcgtatatgtttgactctatctggaacctgtacaacccccaga Alignment from GeneWise GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGT aacaactggactatgcatatttagtggttgaccactgtctgtcttcacagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCAGTATGCCTACCATGATGGCGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTAGgtgagcagcgtatatgtttgactctatctggaacctgtacaacccccaga #### Nxf1_ID2356_16 --> 2 - 0 Original Alignment cc---------CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctagttccaaagcctacatttggcttctccctttaattttgttagccTGCAGCCTGCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGCGTTACCCAAAACCCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACAgtctggatctgtttcatgaaacctagcagtggggtgaatattgcgctcag Alignment from CESAR cc---------CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctagttccaaagcctacatttggcttctccctttaattttgttagccTGCAGCCTGCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGCGTTACCCAAAACCCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACAgtctggatctgtttcatgaaacctagcagtggggtgaatattgcgctcag Alignment from Spaln_aa2Genome CCCAGCGGTTCCGACTC---------TTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctagttccaaagcctacatttggcttctccctttaattttgttagCCTGCAGCCTGCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGCGTTACCCAAAACCCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACAgtctggatctgtttcatgaaacctagcagtggggtgaatattgcgctcag Alignment from Spaln_nt2Genome CC--CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctagttccaaagcctacatttggcttctccctttaattttgttagcctgcagCCTGCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGCGTTACCCAAAACCCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACAgtctggatctgtttcatgaaacctagcagtggggtgaatattgcgctcag Alignment from Pairagon CC--CAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctagttccaaagcctacatttggcttctccctttaattttgttagcctgcagCCTGCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGCGTTACCCAAAACCCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACAgtctggatctgtttcatgaaacctagcagtggggtgaatattgcgctcag Alignment from Exonerate_protein2genome CGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTC gaaatctagttccaaagcctacatttggcttctccctttaattttgttagcctgcagcctgcagCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGCGTTACCCAAAACCCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACA---GTCTGGATCTGTTTCATGAAACCTAGCAGTGGGgtgaatattgcgct Alignment from Exonerate_coding2genome CGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctagttccaaagcctacatttggcttctccctttaattttgttagcctgcagcctgcagCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGCGTTACCCAAAACCCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACAgtctggatctgtttcatgaaacctagcagtggggtgaatattgcgctcag Alignment from GeneWise --------ACCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaaatctagttccaaagcctacatttggcttctccctttaattttgttagCCTGCAGCCTGCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGCGTTACCCAAAACCCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACAgtctggatctgtttcatgaaacctagcagtggggtgaatattgcgctcag #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tg------GATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg ggactccccggctcctcgagccatttgaccccctgtttatttccatccagtgGATGCTGATGGGAAGTCTCGAGACTCTTTACATGCTTTCACAAGGACATTCATTGCTGTTCCTGCAAGCAATACTgggtaagaagttccgattaggttgagtcctatcatgggtgtgggtggaaagt Alignment from CESAR tgGAT------GGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg ggactccccggctcctcgagccatttgaccccctgtttatttccatccagtgGATGCTGATGGGAAGTCTCGAGACTCTTTACATGCTTTCACAAGGACATTCATTGCTGTTCCTGCAAGCAATACTgggtaagaagttccgattaggttgagtcctatcatgggtgtgggtggaaagt Alignment from Spaln_aa2Genome TG------GATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ggactccccggctcctcgagccatttgaccccctgtttatttccatccagTGGATGCTGATGGGAAGTCTCGAGACTCTTTACATGCTTTCACAAGGACATTCATTGCTGTTCCTGCAAGCAATACTGGgtaagaagttccgattaggttgagtcctatcatgggtgtgggtggaaagt Alignment from Spaln_nt2Genome TGGATG------GGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ggactccccggctcctcgagccatttgaccccctgtttatttccatccagTGGATGCTGATGGGAAGTCTCGAGACTCTTTACATGCTTTCACAAGGACATTCATTGCTGTTCCTGCAAGCAATACTGGgtaagaagttccgattaggttgagtcctatcatgggtgtgggtggaaagt Alignment from Pairagon TG------GATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ggactccccggctcctcgagccatttgaccccctgtttatttccatccagTGGATGCTGATGGGAAGTCTCGAGACTCTTTACATGCTTTCACAAGGACATTCATTGCTGTTCCTGCAAGCAATACTGGgtaagaagttccgattaggttgagtcctatcatgggtgtgggtggaaagt Alignment from Exonerate_protein2genome TTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ggactccccggctcctcgagccatttgaccccctgtttatttccatCCAGTGGATGCTGATGGGAAGTCTCGAGACTCTTTACATGCTTTCACAAGGACATTCATTGCTGTTCCTGCAAGCAATACTGGgtaagaagttccgattaggttgagtcctatcatgggtgtgggtggaaagt Alignment from Exonerate_coding2genome TTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ggactccccggctcctcgagccatttgaccccctgtttatttccatCCAGTGGATGCTGATGGGAAGTCTCGAGACTCTTTACATGCTTTCACAAGGACATTCATTGCTGTTCCTGCAAGCAATACTGGgtaagaagttccgattaggttgagtcctatcatgggtgtgggtggaaagt Alignment from GeneWise TCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG ggactccccggctcctcgagccatttgaccccctgtttatttccatccagTG------GATGCTGATGGGAAGTCTCGAGACTCTTTACATGCTTTCACAAGGACATTCATTGCTGTTCCTGCAAGCAATACTGGgtaagaagttccgattaggttgagtcctatcatgggtgtgggtggaaagt #### Osbp_ID3347_6 --> 1 - 0 Original Alignment aCGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG tgtagctcttttgtgtgtgtgaactctcatgacatagttaatatgtttagaCGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGAT------gtaagcgcaggacactctttgcaaattggcacatttgaatggactgggag Alignment from CESAR aCGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG tgtagctcttttgtgtgtgtgaactctcatgacatagttaatatgtttagaCGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGAT------gtaagcgcaggacactctttgcaaattggcacatttgaatggac Alignment from Spaln_aa2Genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG tgtagctcttttgtgtgtgtgaactctcatgacatagttaatatgtttagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGTAAGCgcaggacactctttgcaaattggcacatttgaatggactgggag Alignment from Spaln_nt2Genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGAT tgtagctcttttgtgtgtgtgaactctcatgacatagttaatatgtttagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATgtaagcgcaggacactctttgcaaattggcacatttgaatggactgggag Alignment from Pairagon ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGAT tgtagctcttttgtgtgtgtgaactctcatgacatagttaatatgtttagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATgtaagcgcaggacactctttgcaaattggcacatttgaatggactgggag Alignment from Exonerate_protein2genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG tgtagctcttttgtgtgtgtgaactctcatgacatagttaatatgtttagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGTAAGCgcaggacactctttgcaaattggcacatttgaatggactgggag Alignment from Exonerate_coding2genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG tgtagctcttttgtgtgtgtgaactctcatgacatagttaatatgtttagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTTGATGTAAGCgcaggacactctttgcaaattggcacatttgaatggactgggag Alignment from GeneWise -CGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG tgtagctcttttgtgtgtgtgaactctcatgacatagttaatatgtttagACGTACTGGCAGCAATATCAGTGGGCCCAGCAGTGATGTCAGCCTT------GATgtaagcgcaggacactctttgcaaattggcacatttgaatggactgggag #### Pacs1_ID876_18 --> 2 - 2 Original Alignment agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt tctctgaggaacataatacttgaaaagctagggtaatgcttgtattttagag------GACGTGGTGGGTCGTGTGATGCTGTATATCAATGGAGCTATCACAACACACCAGCTTCCCGTCGCTGAAGCCATGTTGACCTGCAGGCATAAGttgtaatactaatatcagtagctttctggaattaggtagaacagagggagtt Alignment from CESAR agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt cggtgctctctgaggaacataatacagctagggtaatgcttgtattttagag------GACGTGGTGGGTCGTGTGATGCTGTATATCAATGGAGCTATCACAACACACCAGCTTCCCGTCGCTGAAGCCATGTTGACCTGCAGGCATAAGttgtaatactaatatcagtagctttctggaattaggtagaacagagggagtt Alignment from Spaln_aa2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tctctgaggaacataatacttgaaaagctagggtaatgcttgtattttagAG------GACGTGGTGGGTCGTGTGATGCTGTATATCAATGGAGCTATCACAACACACCAGCTTCCCGTCGCTGAAGCCATGTTGACCTGCAGGCATAAGTTgtaatactaatatcagtagctttctggaattaggtagaacagagggagtt Alignment from Spaln_nt2Genome ACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tctctgaggaacataatacttgaaaagctagggtaatgcttgtattttagA--GGACGTGGTGGGTCGTGTGATGCTGTATATCAATGGAGCTATCACAACACACCAGCTTCCCGTCGCTGAAGCCATGTTGACCTGCAGGCATAAGTTgtaatactaatatcagtagctttctggaattaggtagaacagagggagtt Alignment from Pairagon AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tctctgaggaacataatacttgaaaagctagggtaatgcttgtattttagA------GGACGTGGTGGGTCGTGTGATGCTGTATATCAATGGAGCTATCACAACACACCAGCTTCCCGTCGCTGAAGCCATGTTGACCTGCAGGCATAAGTTgtaatactaatatcagtagctttctggaattaggtagaacagagggagtt Alignment from Exonerate_protein2genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tctctgaggaacataatacttgaaaagctagggtaatgcttgtattttagAG------GACGTGGTGGGTCGTGTGATGCTGTATATCAATGGAGCTATCACAACACACCAGCTTCCCGTCGCTGAAGCCATGTTGACCTGCAGGCATAAGTTgtaatactaatatcagtagctttctggaattaggtagaacagagggagtt Alignment from Exonerate_coding2genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tctctgaggaacataatacttgaaaagctagggtaatgcttgtattttagAG------GACGTGGTGGGTCGTGTGATGCTGTATATCAATGGAGCTATCACAACACACCAGCTTCCCGTCGCTGAAGCCATGTTGACCTGCAGGCATAAGTTgtaatactaatatcagtagctttctggaattaggtagaacagagggagtt Alignment from GeneWise AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tctctgaggaacataatacttgaaaagctagggtaatgcttgtattttagAG------GACGTGGTGGGTCGTGTGATGCTGTATATCAATGGAGCTATCACAACACACCAGCTTCCCGTCGCTGAAGCCATGTTGACCTGCAGGCATAAGTTgtaatactaatatcagtagctttctggaattaggtagaacagagggagtt #### Pacs1_ID885_9 --> 0 - 2 Original Alignment GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCaa ctaagtgttgctggcgaggacccatagattttaattcccctaatggctagGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAGATTCGAGAAGTGGAGGAGGACTTGGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAA---aagtgagtagtccccaaagccctttccacccaagctccctattgcttctctt Alignment from CESAR GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCaa ctaagtgttgctggcgaggacccatagattttaattcccctaatggctagGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAGATTCGAGAAGTGGAGGAGGACTTGGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAA---aagtgagtagtccccaaagccctttccacccaagctccctattgcttctctt Alignment from Spaln_aa2Genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCT ctaagtgttgctggcgaggacccatagattttaattcccctaatggctagGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAGATTCGAGAAGTGGAGGAGGACTTGGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAAAAgtgagtagtccccaaagccctttccacccaagctccctattgcttctctt Alignment from Spaln_nt2Genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ctaagtgttgctggcgaggacccatagattttaattcccctaatggctagGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAGATTCGAGAAGTGGAGGAGGACTTGGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAA---AAAgtgagtagtccccaaagccctttccacccaagctccctattgcttctctt Alignment from Pairagon GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ctaagtgttgctggcgaggacccatagattttaattcccctaatggctagGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAGATTCGAGAAGTGGAGGAGGACTTGGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAA---AAgtgagtagtccccaaagccctttccacccaagctccctattgcttctctt Alignment from Exonerate_protein2genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ctaagtgttgctggcgaggacccatagattttaattcccctaatggctagGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAGATTCGAGAAGTGGAGGAGGACTTGGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAA---AAgtgagtagtccccaaagccctttccacccaagctccctattgcttctctt Alignment from Exonerate_coding2genome GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCTCAA ctaagtgttgctggcgaggacccatagattttaattcccctaatggctagGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAGATTCGAGAAGTGGAGGAGGACTTGGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAA---AAgtgagtagtccccaaagccctttccacccaagctccctattgcttctctt Alignment from GeneWise GTGGGCTTTGGGCTAGAACACGTGTCCCGGGAGCAGATTCGGGAAGTGGAGGAGGACTTGGATGAACTGTACGACAGTCTAGAGATGTACAACCCCAGCGACAGTGGCCCTGAGATGGAGGAAACAGAAAGCATCCTCAGCACCCCAAAGCCCAAGCT ctaagtgttgctggcgaggacccatagattttaattcccctaatggctagGTGGGTTTTGGGTTAGAACACGTGTCCCGGGAGCAGATTCGAGAAGTGGAGGAGGACTTGGATGAACTGTATGACAGTCTTGAGATGTACAACCCCAGTGACAGTGGTCCTGAGATGGAGGAAACAGAAAGCATTCTCAGCACCCCGAAGCCCAAAAAgtgagtagtccccaaagccctttccacccaagctccctattgcttctctt #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tatgtgagacatcatgccagctgccatgtatgtggttctatttgttccaggcAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGGGGTAGCCCCAAGTCT---gtaagtagcaacctgcggataaaggagcctccctgatcatgagctggatg Alignment from CESAR gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tatgtgagacatcatgccagctgccatgtatgtggttctatttgttccaggcAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGGGGTAGCCCCAAGTCT---gtaagtagcaacctgcggataaaggagcctccctgatcatgagctgg Alignment from Spaln_aa2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCT tatgtgagacatcatgccagctgccatgtatgtggttctatttgttccagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGGGGTAGCCCCAAGTCTgtaagtagcaacctgcggataaaggagcctccctgatcatgagctggatg Alignment from Spaln_nt2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCT tatgtgagacatcatgccagctgccatgtatgtggttctatttgttccagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGGGGTAGCCCCAAGTCTgtaagtagcaacctgcggataaaggagcctccctgatcatgagctggatg Alignment from Pairagon GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCT tatgtgagacatcatgccagctgccatgtatgtggttctatttgttccagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGGGGTAGCCCCAAGTCTgtaagtagcaacctgcggataaaggagcctccctgatcatgagctggatg Alignment from Exonerate_protein2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tatgtgagacatcatgccagctgccatgtatgtggttctatttgttccagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGGGGTAGCCCCAAGTCT---gtaagtagcaacctgcggataaaggagcctccctgatcatgagctgg Alignment from Exonerate_coding2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tatgtgagacatcatgccagctgccatgtatgtggttctatttgttccagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGGGGTAGCCCCAAGTCT---gtaagtagcaacctgcggataaaggagcctccctgatcatgagctgg Alignment from GeneWise GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tatgtgagacatcatgccagctgccatgtatgtggttctatttgttccagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCAAAAGGGGGTAGCCCCAAG---TCTgtaagtagcaacctgcggataaaggagcctccctgatcatgagctggatg #### Pcnxl3_ID1160_33 --> 1 - 1 Original Alignment aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA---------------g taaggcacataatgcctcaccatataccaatgtcttggtttgaatttcagaCTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACACCTGACAATGCGGCAGTGCTGAAGTCTACGggtatctgcaaggtttcagagaaattatatgtgagacatcatgccagctgc Alignment from CESAR aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA---------------g taaggcacataatgcctcaccatataccaatgtcttggtttgaatttcagaCTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACACCTGACAATGCGGCAGTGCTGAAGTCTACGggtatctgcaaggtttcagagaaattatatgtgagacatcatgccagctgc Alignment from Spaln_aa2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAGGCAGCAG taaggcacataatgcctcaccatataccaatgtcttggtttgaatttcagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACACCTGACAATGCGGCAGTGCTGAAgtctacgggtatctgcaaggtttcagagaaattatatgtgagacatcatgccagctgc Alignment from Spaln_nt2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA taaggcacataatgcctcaccatataccaatgtcttggtttgaatttcagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACACCTGACAATGCGGCAgtgctgaagtctacgggtatctgcaaggtttcagagaaattatatgtgagacatcatgccagctgc Alignment from Pairagon ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAG-------------------------------------------------------------------- taaggcacataatgcctcaccatataccaatgtcttggtttgaatttcagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACACCTGACAATGCGGCAGTGCTGAAGTCTACGGGTATCTGCAAGGTTTCAGAGAAATTATATGTGAGACATCATGCCAGCTGC Alignment from Exonerate_protein2genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG taaggcacataatgcctcaccatataccaatgtcttggtttgaatttcagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACACCTGACAATGCGGCAGtgctgaagtctacgggtatctgcaaggtttcagagaaattatatgtgagacatcatgccagctgc Alignment from Exonerate_coding2genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG taaggcacataatgcctcaccatataccaatgtcttggtttgaatttcagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACACCTGACAATGCGGCAGtgctgaagtctacgggtatctgcaaggtttcagagaaattatatgtgagacatcatgccagctgc Alignment from GeneWise ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAGGCAGCAG taaggcacataatgcctcaccatataccaatgtcttggtttgaatttcagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATCCTACACCTGACAATGCGGCAGTGCTGAAgtctacgggtatctgcaaggtttcagagaaattatatgtgagacatcatgccagctgc #### Pcnxl3_ID1168_25 --> 1 - 1 Original Alignment cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---g catctccgggatatgggaccagagaggatttgcgctgttttgtattccagcACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAGCTGGACCGGAACCCAATAggtgagctacagcttgcccaggtcttcataggaaggcaatgtttctacttg Alignment from CESAR cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---g catctccgggatatgggaccagagaggatttgcgctgttttgtattccagcACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAGCTGGACCGGAACCCAATAggtgagctacagcttgcccaggtcttcataggaaggcaatgtttctacttg Alignment from Spaln_aa2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAGGCG catctccgggatatgggaccagagaggatttgcgctgttttgtattccagCACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAGCTGGACCGGAACCCAATAGgtgagctacagcttgcccaggtcttcataggaaggcaatgtttctacttg Alignment from Spaln_nt2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---G catctccgggatatgggaccagagaggatttgcgctgttttgtattccagCACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAGCTGGACCGGAACCCAATAGgtgagctacagcttgcccaggtcttcataggaaggcaatgtttctacttg Alignment from Pairagon CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCC------------------------------------------------------- catctccgggatatgggaccagagaggatttgcgctgttttgtattccagCACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAGCTGGACCGGAACCCAATAGGTGAGCTACAGCTTGCCCAGGTCTTCATAGGAAGGCAATGTTTCTACTTG Alignment from Exonerate_protein2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAGGCG catctccgggatatgggaccagagaggatttgcgctgttttgtattccagCACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAGCTGGACCGGAACCCAATAGgtgagctacagcttgcccaggtcttcataggaaggcaatgtttctacttg Alignment from Exonerate_coding2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAGGCG catctccgggatatgggaccagagaggatttgcgctgttttgtattccagCACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAGCTGGACCGGAACCCAATAGgtgagctacagcttgcccaggtcttcataggaaggcaatgtttctacttg Alignment from GeneWise CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAGGCG catctccgggatatgggaccagagaggatttgcgctgttttgtattccagCACTAAACCTGTAGACCACTCTAACACTCGTCTAGTGACACAGCTGGACCGGAACCCAATAGgtgagctacagcttgcccaggtcttcataggaaggcaatgtttctacttg #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment ac---TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ggctacagaggagaggagagggaggcagtcccttggtccccttattgcagacACTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGGGACTACaagtaagtctgagaggaggtaatgagtaagcactgttgtcccagagagacct Alignment from CESAR ac---TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ggctacagaggagaggagagggaggcagtcccttggtccccttattgcagacACTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGGGACTACaagtaagtctgagaggaggtaatgagtaagcactgttgtcccagagagacct Alignment from Spaln_aa2Genome AC---TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcagtcccttggtccccttattgcagACACTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctgagaggaggtaatgagtaagcactgttgtcccagagagacct Alignment from Spaln_nt2Genome AC---TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcagtcccttggtccccttattgcagACACTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctgagaggaggtaatgagtaagcactgttgtcccagagagacct Alignment from Pairagon AC---TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcagtcccttggtccccttattgcagACACTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctgagaggaggtaatgagtaagcactgttgtcccagagagacct Alignment from Exonerate_protein2genome AC---TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcagtcccttggtccccttattgcagACACTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctgagaggaggtaatgagtaagcactgttgtcccagagagacct Alignment from Exonerate_coding2genome AC---TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcagtcccttggtccccttattgcagACACTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctgagaggaggtaatgagtaagcactgttgtcccagagagacct Alignment from GeneWise --CACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcagtcccttggtccccttattgcagACACTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGACCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctgagaggaggtaatgagtaagcactgttgtcccagagagacct #### Pcnxl3_ID1174_19 --> 0 - 0 Original Alignment CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG ctgtcacagtgctattggcagtcactgtaggtgtttggcccttccctcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGTACTGTGTTCATT---------gttagtgcacgtaccttggaatgggtacaccttttggcatagatcaggat Alignment from CESAR CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG ctgtcacagtgctattggcagtcactgtaggtgtttggcccttccctcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGTACTGTGTTCATT---------gttagtgcacgtaccttggaatgggtacaccttttggcata Alignment from Spaln_aa2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG ctgtcacagtgctattggcagtcactgtaggtgtttggcccttccctcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGTACTGTGTTCATT---GTTAGTgcacgtaccttggaatgggtacaccttttggcatagatcag Alignment from Spaln_nt2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCC-TGAAG ctgtcacagtgctattggcagtcactgtaggtgtttggcccttccctcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGTACTGTGTTCATTGTTAGTGCACgtaccttggaatgggtacaccttttggcatagatcaggat Alignment from Pairagon CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATT ctgtcacagtgctattggcagtcactgtaggtgtttggcccttccctcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGTACTGTGTTCATTgttagtgcacgtaccttggaatgggtacaccttttggcatagatcaggat Alignment from Exonerate_protein2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTG ctgtcacagtgctattggcagtcactgtaggtgtttggcccttccctcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGTACTGTGTTCATTGTTAGTgcacgtaccttggaatgggtacaccttttggcatagatcaggat Alignment from Exonerate_coding2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTG ctgtcacagtgctattggcagtcactgtaggtgtttggcccttccctcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGTACTGTGTTCATTGTTAGTgcacgtaccttggaatgggtacaccttttggcatagatcaggat Alignment from GeneWise CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATT ctgtcacagtgctattggcagtcactgtaggtgtttggcccttccctcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGTACTGTGTTCATTgttagtgcacgtaccttggaatgggtacaccttttggcatagatcaggat #### Pcnxl3_ID1188_5 --> 2 - 1 Original Alignment acATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa ccttgataggaagatgattgcttagtcttcaaattctcccctgaacctagacATCAAAGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCGGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAA---agtaagtagtggcaaactggcaagcagatgtgttgtgataacagtcatcct Alignment from CESAR acATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa ccttgataggaagatgattgcttagtcttcaaattctcccctgaacctagacATCAAAGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCGGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAA---agtaagtagtggcaaactggcaagcagatgtgttgtgataacagtcatcct Alignment from Spaln_aa2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccttgataggaagatgattgcttagtcttcaaattctcccctgaacctagACATCAAAGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCGGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAA---Agtaagtagtggcaaactggcaagcagatgtgttgtgataacagtcatcct Alignment from Spaln_nt2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccttgataggaagatgattgcttagtcttcaaattctcccctgaacctagACATCAAAGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCGGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAA---Agtaagtagtggcaaactggcaagcagatgtgttgtgataacagtcatcct Alignment from Pairagon ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccttgataggaagatgattgcttagtcttcaaattctcccctgaacctagACATCAAAGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCGGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAA---Agtaagtagtggcaaactggcaagcagatgtgttgtgataacagtcatcct Alignment from Exonerate_protein2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAAC ccttgataggaagatgattgcttagtcttcaaattctcccctgaacctagACATCAAAGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCGGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAAAgtaagtagtggcaaactggcaagcagatgtgttgtgataacagtcatcct Alignment from Exonerate_coding2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAAC ccttgataggaagatgattgcttagtcttcaaattctcccctgaacctagACATCAAAGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCGGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAAAgtaagtagtggcaaactggcaagcagatgtgttgtgataacagtcatcct Alignment from GeneWise ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAAC ccttgataggaagatgattgcttagtcttcaaattctcccctgaacctagACATCAAAGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCGGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAAAgtaagtagtggcaaactggcaagcagatgtgttgtgataacagtcatcct #### Pcnxl3_ID1191_2 --> 0 - 2 Original Alignment GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAag tcttgcaaccaatactgtgagaagggattccatttaatctatctttttagGTCCCGCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATCTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAG------------------aggtaaggaatcccaggctgcagattgtttgactgatatgtcagagtttgtc Alignment from CESAR GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAag tcttgcaaccaatactgtgagaagggattccatttaatctatctttttagGTCCCGCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATCTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAG------------------aggtaaggaatcccaggctgcagattgtttgactgatatgtcagagtttgtc Alignment from Spaln_aa2Genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGG tcttgcaaccaatactgtgagaagggattccatttaatctatctttttagGTCCCGCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATCTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGAGgtaaggaatcccaggctgcagattgtttgactgatatgtcagagtttgtc Alignment from Spaln_nt2Genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG tcttgcaaccaatactgtgagaagggattccatttaatctatctttttagGTCCCGCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATCTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGAGGTA-AGGAAT---CCCAGgctgcagattgtttgactgatatgtcagagtt Alignment from Pairagon GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG tcttgcaaccaatactgtgagaagggattccatttaatctatctttttagGTCCCGCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATCTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAG------------------AGgtaaggaatcccaggctgcagattgtttgactgatatgtcagagtttgtc Alignment from Exonerate_protein2genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGG tcttgcaaccaatactgtgagaagggattccatttaatctatctttttagGTCCCGCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATCTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGAGgtaaggaatcccaggctgcagattgtttgactgatatgtcagagtttgtc Alignment from Exonerate_coding2genome tcttgcaaccaatactgtgagaagggattccatttaatctatctttttaggtcccgccccccagtctcatggtggctggggtgtattgcctagtggtggctgttatctttgctaccatcaagactgtgaactatcgcctccatgccacatttgaccagggtgagatcgtggaaaaacgcaattccaccatgggggagaaagaagaagaggctgcccagaggtaaggaatcccaggctgcagattgtttgactgatatgtcagagtttgtc Alignment from GeneWise GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGG tcttgcaaccaatactgtgagaagggattccatttaatctatctttttagGTCCCGCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATCTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGAGgtaaggaatcccaggctgcagattgtttgactgatatgtcagagtttgtc #### Pcx_ID554_4 --> 0 - 1 Original Alignment GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg gactaaagagagtgaagaacatcagtagcgctctattttctttgccctagGAAAATGGTGAAGATGCAGTGCATCCCGGCTATGGATTTCTCTCAGAGCGGGCTGACTTTGCCCAGGCCTGCCAAGATACTGGAGTTCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCATAGAT---ggtaggcacctaagaaacacaccctgagccaggagagacagtacaggcatt Alignment from CESAR GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg gactaaagagagtgaagaacatcagtagcgctctattttctttgccctagGAAAATGGTGAAGATGCAGTGCATCCCGGCTATGGATTTCTCTCAGAGCGGGCTGACTTTGCCCAGGCCTGCCAAGATACTGGAGTTCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCATAGAT---ggtaggcacctaagaaacacaccctgagccaggagagacagtacaggcctg Alignment from Spaln_aa2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTG gactaaagagagtgaagaacatcagtagcgctctattttctttgccctagGAAAATGGTGAAGATGCAGTGCATCCCGGCTATGGATTTCTCTCAGAGCGGGCTGACTTTGCCCAGGCCTGCCAAGATACTGGAGTTCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCATAGATGgtaggcacctaagaaacacaccctgagccaggagagacagtacaggcatt Alignment from Spaln_nt2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTG gactaaagagagtgaagaacatcagtagcgctctattttctttgccctagGAAAATGGTGAAGATGCAGTGCATCCCGGCTATGGATTTCTCTCAGAGCGGGCTGACTTTGCCCAGGCCTGCCAAGATACTGGAGTTCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCATAGATGgtaggcacctaagaaacacaccctgagccaggagagacagtacaggcatt Alignment from Pairagon GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTG gactaaagagagtgaagaacatcagtagcgctctattttctttgccctagGAAAATGGTGAAGATGCAGTGCATCCCGGCTATGGATTTCTCTCAGAGCGGGCTGACTTTGCCCAGGCCTGCCAAGATACTGGAGTTCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCATAGATGgtaggcacctaagaaacacaccctgagccaggagagacagtacaggcatt Alignment from Exonerate_protein2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTG gactaaagagagtgaagaacatcagtagcgctctattttctttgccctagGAAAATGGTGAAGATGCAGTGCATCCCGGCTATGGATTTCTCTCAGAGCGGGCTGACTTTGCCCAGGCCTGCCAAGATACTGGAGTTCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCATAGATGgtaggcacctaagaaacacaccctgagccaggagagacagtacaggcatt Alignment from Exonerate_coding2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTG gactaaagagagtgaagaacatcagtagcgctctattttctttgccctagGAAAATGGTGAAGATGCAGTGCATCCCGGCTATGGATTTCTCTCAGAGCGGGCTGACTTTGCCCAGGCCTGCCAAGATACTGGAGTTCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCATAGATGgtaggcacctaagaaacacaccctgagccaggagagacagtacaggcatt Alignment from GeneWise GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTG gactaaagagagtgaagaacatcagtagcgctctattttctttgccctagGAAAATGGTGAAGATGCAGTGCATCCCGGCTATGGATTTCTCTCAGAGCGGGCTGACTTTGCCCAGGCCTGCCAAGATACTGGAGTTCGATTCATTGGTCCAAGCCCAGAGGTTGTACTTAAAATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCATAGATGgtaggcacctaagaaacacaccctgagccaggagagacagtacaggcatt #### Pcx_ID563_12 --> 2 - 1 Original Alignment gaCATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATA---g actctggactcctggaagcagccgtcactgtgttttttgttgttttgcaggaCATGTTATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGTCCCTATACACggtacggtatggtacatgtttacatcttaatgagaagatgtgggatggttt Alignment from CESAR gaCATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATA---g actctggactcctggaagcagccgtcactgtgttttttgttgttttgcaggaCATGTTATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGTCCCTATACACggtacggtatggtacatgtttacatcttaatgagaagatgtgggatggttt Alignment from Spaln_aa2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATA---G actctggactcctggaagcagccgtcactgtgttttttgttgttttgcagGACATGTTATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGTCCCTATACACGgtacggtatggtacatgtttacatcttaatgagaagatgtgggatggttt Alignment from Spaln_nt2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATA---G actctggactcctggaagcagccgtcactgtgttttttgttgttttgcagGACATGTTATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGTCCCTATACACGgtacggtatggtacatgtttacatcttaatgagaagatgtgggatggttt Alignment from Pairagon GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCAT------------------------------------------------------- actctggactcctggaagcagccgtcactgtgttttttgttgttttgcagGACATGTTATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGTCCCTATACACGGTACGGTATGGTACATGTTTACATCTTAATGAGAAGATGTGGGATGGTTT Alignment from Exonerate_protein2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATA---G actctggactcctggaagcagccgtcactgtgttttttgttgttttgcagGACATGTTATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGTCCCTATACACGgtacggtatggtacatgtttacatcttaatgagaagatgtgggatggttt Alignment from Exonerate_coding2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATA---G actctggactcctggaagcagccgtcactgtgttttttgttgttttgcagGACATGTTATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGTCCCTATACACGgtacggtatggtacatgtttacatcttaatgagaagatgtgggatggttt Alignment from GeneWise GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAGGC- actctggactcctggaagcagccgtcactgtgttttttgttgttttgcagGACATGTTATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGTCCCTATACACGgtacggtatggtacatgtttacatcttaatgagaagatgtgggatggttt #### Pcx_ID565_14 --> 1 - 0 Original Alignment gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG agagaattacaggagtcagaaacatatcaatacttcctgtgtacccacaggTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGGGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAAGCAGCGGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCCTACACTGGGGATGTGGCTGACCCTGGTCGCACCAACTACTCGCTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATCTTGTGCATT---gtaaataatgggccatacagtgtgtctctcttgatcataaagagctctgc Alignment from CESAR gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG agagaattacaggagtcagaaacatatcaatacttcctgtgtacccacaggTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGGGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAAGCAGCGGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCCTACACTGGGGATGTGGCTGACCCTGGTCGCACCAACTACTCGCTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATCTTGTGCATT---gtaaataatgggccatacagtgtgtctctcttgatcattcacttgta Alignment from Spaln_aa2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATT agagaattacaggagtcagaaacatatcaatacttcctgtgtacccacagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGGGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAAGCAGCGGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCCTACACTGGGGATGTGGCTGACCCTGGTCGCACCAACTACTCGCTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATCTTGTGCATTgtaaataatgggccatacagtgtgtctctcttgatcataaagagctctgc Alignment from Spaln_nt2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATT agagaattacaggagtcagaaacatatcaatacttcctgtgtacccacagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGGGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAAGCAGCGGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCCTACACTGGGGATGTGGCTGACCCTGGTCGCACCAACTACTCGCTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATCTTGTGCATTgtaaataatgggccatacagtgtgtctctcttgatcataaagagctctgc Alignment from Pairagon GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTA------------------------------------------------- agagaattacaggagtcagaaacatatcaatacttcctgtgtacccacagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGGGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAAGCAGCGGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCCTACACTGGGGATGTGGCTGACCCTGGTCGCACCAACTACTCGCTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATCTTGTGCATTGTAAATAATGGGCCATACAGTGTGTCTCTCTTGATCATAAAGAGCTCTGC Alignment from Exonerate_protein2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG agagaattacaggagtcagaaacatatcaatacttcctgtgtacccacagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGGGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAAGCAGCGGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCCTACACTGGGGATGTGGCTGACCCTGGTCGCACCAACTACTCGCTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATCTTGTGCATT---gtaaataatgggccatacagtgtgtctctcttgatcataaagagctc Alignment from Exonerate_coding2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG agagaattacaggagtcagaaacatatcaatacttcctgtgtacccacagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGGGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAAGCAGCGGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCCTACACTGGGGATGTGGCTGACCCTGGTCGCACCAACTACTCGCTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATCTTGTGCATT---gtaaataatgggccatacagtgtgtctctcttgatcataaagagctc Alignment from GeneWise GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATT ------ agagaattacaggagtcagaaacatatcaatacttcctgtgtacccacagGTTCTGTGAGGTGGCCAAAGAGAATGACATGGATGTCTTCCGGGTCTTTGACTCCCTCAACTATTTACCAAACATGCTGCTGGGTATGAAAGCAGCGGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCCTACACTGGGGATGTGGCTGACCCTGGTCGCACCAACTACTCGCTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGATCTCACATCTTGTGCATTgtaaataatgggccatacagtgtgtctctcttgatcataaagagCTCTGC #### Pcx_ID569_18 --> 0 - 0 Original Alignment GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG atggtggaaacagagcttagtatctttgataccaaattttcctcttgtag---------GACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGCTGGAGAAGGGCCTAATTGATAGACACGGGGAAGATGTTTCACAAGAGGAAGTCCTCTCTGCAGCCATGTACCCATATGTTTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATCGCAGAGGAATTTGAGgtgagtggcttctatgtttgtgtctactcatccccagggcctctagtaat Alignment from CESAR GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggtccatcatggtggaaacagagcttgataccaaattttcctcttgtag---------GACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGCTGGAGAAGGGCCTAATTGATAGACACGGGGAAGATGTTTCACAAGAGGAAGTCCTCTCTGCAGCCATGTACCCATATGTTTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATCGCAGAGGAATTTGAGgtgagtggcttctatgtttgtgtctactcatccccagggcctctagtaat Alignment from Spaln_aa2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG atggtggaaacagagcttagtatctttgataccaaattttcctcttgtag---------GACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGCTGGAGAAGGGCCTAATTGATAGACACGGGGAAGATGTTTCACAAGAGGAAGTCCTCTCTGCAGCCATGTACCCATATGTTTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATCGCAGAGGAATTTGAGgtgagtggcttctatgtttgtgtctactcatccccagggcctctagtaat Alignment from Spaln_nt2Genome AAG GACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG ATGgtggaaacagagcttagtatctttgataccaaattttcctcttgtagGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGCTGGAGAAGGGCCTAATTGATAGACACGGGGAAGATGTTTCACAAGAGGAAGTCCTCTCTGCAGCCATGTACCCATATGTTTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATCGCAGAGGAATTTGAGgtgagtggcttctatgtttgtgtctactcatccccagggcctctagtaat Alignment from Pairagon --GGTGCTAA--------------------------------------AGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG ATGGTGGAAACAGAGCTTAGTATCTTTGATACCAAATTTTCCTCTTGTAGGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGCTGGAGAAGGGCCTAATTGATAGACACGGGGAAGATGTTTCACAAGAGGAAGTCCTCTCTGCAGCCATGTACCCATATGTTTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATCGCAGAGGAATTTGAGgtgagtggcttctatgtttgtgtctactcatccccagggcctctagtaat Alignment from Exonerate_protein2genome AG GACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG ATggtggaaacagagcttagtatctttgataccaaattttcctcttgtagGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGCTGGAGAAGGGCCTAATTGATAGACACGGGGAAGATGTTTCACAAGAGGAAGTCCTCTCTGCAGCCATGTACCCATATGTTTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATCGCAGAGGAATTTGAGgtgagtggcttctatgtttgtgtctactcatccccagggcctctagtaat Alignment from Exonerate_coding2genome AG GACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG ATggtggaaacagagcttagtatctttgataccaaattttcctcttgtagGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGCTGGAGAAGGGCCTAATTGATAGACACGGGGAAGATGTTTCACAAGAGGAAGTCCTCTCTGCAGCCATGTACCCATATGTTTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATCGCAGAGGAATTTGAGgtgagtggcttctatgtttgtgtctactcatccccagggcctctagtaat Alignment from GeneWise GACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG atggtggaaacagagcttagtatctttgataccaaattttcctcttgtagGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGCTGGAGAAGGGCCTAATTGATAGACACGGGGAAGATGTTTCACAAGAGGAAGTCCTCTCTGCAGCCATGTACCCATATGTTTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATCGCAGAGGAATTTGAGgtgagtggcttctatgtttgtgtctactcatccccagggcctctagtaat #### Pdcd11_ID10116_10 --> 1 - 0 Original Alignment aTCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- agcagccctatccatacaccctgtagtctcttatcccctgacttctgtagaTCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGAACAGTAGTAAAGGAAgtaagtacagcggattcttttgataaacacattagctgtcagcttgtgag Alignment from CESAR aTCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- agcagccctatccatacaccctgtagtctcttatcccctgacttctgtagaTCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGAACAGTAGTAAAGGAAgtaagtacagcggattcttttgataaacacattagctgtcagcttgtgag Alignment from Spaln_aa2Genome ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- agcagccctatccatacaccctgtagtctcttatcccctgacttctgtagATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGAACAGTAGTAAAGGAAgtaagtacagcggattcttttgataaacacattagctgtcagcttgtgag Alignment from Spaln_nt2Genome ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- agcagccctatccatacaccctgtagtctcttatcccctgacttctgtagATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGAACAGTAGTAAAGGAAgtaagtacagcggattcttttgataaacacattagctgtcagcttgtgag Alignment from Pairagon ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG--- agcagccctatccatacaccctgtagtctcttatcccctgacttctgtagATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGAACAGTAGTAAAGGAAgtaagtacagcggattcttttgataaacacattagctgtcagcttgtgag Alignment from Exonerate_protein2genome ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG agcagccctatccatacaccctgtagtctcttatcccctgacttctgtagATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGAACAGTAGTAAAGgaagtaagtacagcggattcttttgataaacacattagctgtcagcttgtgag Alignment from Exonerate_coding2genome ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAG agcagccctatccatacaccctgtagtctcttatcccctgacttctgtagATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGAACAGTAGTAAAGgaagtaagtacagcggattcttttgataaacacattagctgtcagcttgtgag Alignment from GeneWise ATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGGACAGTAGTAAAGGGC agcagccctatccatacaccctgtagtctcttatcccctgacttctgtagATCAATTATTGCAGCTCCATTCCTTAGATATCATGACATCAAAATAGGAACAGTAGTAAAGGAAgtaagtacagcggattcttttgataaacacattagctgtcagcttgtgag #### Pdcd11_ID10136_30 --> 0 - 0 Original Alignment GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG ctggtgaggccagaacaacctcacgatggtggtatgttgaatcattctag---AAGAAGACGAAATCTACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTTCTCTGGGATGTGGGGCTTGATTCTCTCACCCCAGCCTTGCCACTCCGGGAAGAGAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaagcgtgttccaagccactgtatgtctcctaggaacacttattacca Alignment from CESAR GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG gggctggtgaggccagaacaacctcatggtggtatgttgaatcattctag---AAGAAGACGAAATCTACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTTCTCTGGGATGTGGGGCTTGATTCTCTCACCCCAGCCTTGCCACTCCGGGAAGAGAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaagcgtgttccaagccactgtatgtctcctaggaacacttattacca Alignment from Spaln_aa2Genome GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG ctggtgaggccagaacaacctcacgatggtggtatgttgaatcattctag---AAGAAGACGAAATCTACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTTCTCTGGGATGTGGGGCTTGATTCTCTCACCCCAGCCTTGCCACTCCGGGAAGAGAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaagcgtgttccaagccactgtatgtctcctaggaacacttattacca Alignment from Spaln_nt2Genome AAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG ctggtgaggccagaacaacctcacgatggtggtatgttgaatcattctagAAGAAGACGAAATCTACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTTCTCTGGGATGTGGGGCTTGATTCTCTCACCCCAGCCTTGCCACTCCGGGAAGAGAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaagcgtgttccaagccactgtatgtctcctaggaacacttattacca Alignment from Pairagon AAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG ctggtgaggccagaacaacctcacgatggtggtatgttgaatcattctagAAGAAGACGAAATCTACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTTCTCTGGGATGTGGGGCTTGATTCTCTCACCCCAGCCTTGCCACTCCGGGAAGAGAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaagcgtgttccaagccactgtatgtctcctaggaacacttattacca Alignment from Exonerate_protein2genome AAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG ctggtgaggccagaacaacctcacgatggtggtatgttgaatcattctagAAGAAGACGAAATCTACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTTCTCTGGGATGTGGGGCTTGATTCTCTCACCCCAGCCTTGCCACTCCGGGAAGAGAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaagcgtgttccaagccactgtatgtctcctaggaacacttattacca Alignment from Exonerate_coding2genome AAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG ctggtgaggccagaacaacctcacgatggtggtatgttgaatcattctagAAGAAGACGAAATCTACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTTCTCTGGGATGTGGGGCTTGATTCTCTCACCCCAGCCTTGCCACTCCGGGAAGAGAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaagcgtgttccaagccactgtatgtctcctaggaacacttattacca Alignment from GeneWise GGGAAGCAGACAAAATCCACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTCCTTTGGGATGTGGGGCTTGACTCTCTGACTCCAGCCTTGCCACTCCGAGAAGAGAGCTCAGACAGCGAGGATGAGCAGCCGCACCAAGCTAAG ctggtgaggccagaacaacctcacgatggtggtatgttgaatcattctagAAGAAG---ACGAAATCTACAGAGGTGCCCCGGCTGCATCTCTCTTCAGGCTTTCTCTGGGATGTGGGGCTTGATTCTCTCACCCCAGCCTTGCCACTCCGGGAAGAGAGCTCAGACAGTGAGGATGAGCAGCCACACCAGGCTAAGgtaaagcgtgttccaagccactgtatgtctcctaggaacacttattacca #### Pdcd4_ID11402_9 --> 0 - 0 Original Alignment GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA------ gatgagttgtttaccaaaggttgattcactttatgttttactttccatagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAATCTCTATGGAAGTCTTCTACAATCACTATAGACCAAATGAAACGATCACGGgtaagggttattctctagggagggatagttttattattaattaagatgtg Alignment from CESAR GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA------ gatgagttgtttaccaaaggttgattcactttatgttttactttccatagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAATCTCTATGGAAGTCTTCTACAATCACTATAGACCAAATGAAACGATCACGGgtaagggttattctctagggagggatagttttattattaattaagatgtg Alignment from Spaln_aa2Genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAA------AGA gatgagttgtttaccaaaggttgattcactttatgttttactttccatagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAATCTCTATGGAAGTCTTCTACAATCACTATAGACCAAATGAAACGATCACGGgtaagggttattctctagggagggatagttttattattaattaagatgtg Alignment from Spaln_nt2Genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA------ gatgagttgtttaccaaaggttgattcactttatgttttactttccatagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAATCTCTATGGAAGTCTTCTACAATCACTATAGACCAAATGAAACGATCACGGgtaagggttattctctagggagggatagttttattattaattaagatgtg Alignment from Pairagon GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA------ gatgagttgtttaccaaaggttgattcactttatgttttactttccatagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAATCTCTATGGAAGTCTTCTACAATCACTATAGACCAAATGAAACGATCACGGgtaagggttattctctagggagggatagttttattattaattaagatgtg Alignment from Exonerate_protein2genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAA------AGA gatgagttgtttaccaaaggttgattcactttatgttttactttccatagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAATCTCTATGGAAGTCTTCTACAATCACTATAGACCAAATGAAACGATCACGGgtaagggttattctctagggagggatagttttattattaattaagatgtg Alignment from Exonerate_coding2genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAA------AGA gatgagttgtttaccaaaggttgattcactttatgttttactttccatagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAATCTCTATGGAAGTCTTCTACAATCACTATAGACCAAATGAAACGATCACGGgtaagggttattctctagggagggatagttttattattaattaagatgtg Alignment from GeneWise GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA------ gatgagttgtttaccaaaggttgattcactttatgttttactttccatagGCCATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAATCTCTATGGAAGTCTTCTACAATCACTATAGACCAAATGAAACGATCACGGgtaagggttattctctagggagggatagttttattattaattaagatgtg #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment ---------GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgtgtgtcatctcaaggaatgacctctttgttgctgtatcccagTTTGGAATTATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAATGgtgcgtttagaagttgttataactctgaatgctactctcctacaaaatga Alignment from CESAR ---------GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgtgtgtcatctcaaggaatgacctctttgttgctgtatcccagTTTGGAATTATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAATGgtgcgtttagaagttgttataactctgaatgctactctcctacaaaatga Alignment from Spaln_aa2Genome GTTCTTACAAGGTGG---------ATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgtgtgtcatctcaaggaatgacctctttgttgctgtatcccagTTTGGAATTATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAATGgtgcgtttagaagttgttataactctgaatgctactctcctacaaaatga Alignment from Spaln_nt2Genome GTTCTTACAAG---------GTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgtgtgtcatctcaaggaatgacctctttgttgctgtatcccagTTTGGAATTATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAATGgtgcgtttagaagttgttataactctgaatgctactctcctacaaaatga Alignment from Pairagon ---------GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgtgtgtcatctcaaggaatgacctctttgttgctgtatcccagTTTGGAATTATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAATGgtgcgtttagaagttgttataactctgaatgctactctcctacaaaatga Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgtgtgtcatctcaaggaatgacctctttgttgctgtatcccagtttggaattATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAATGgtgcgtttagaagttgttataactctgaatgctactctcctacaaaatga Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgtgtgtcatctcaaggaatgacctctttgttgctgtatcccagtttggaattATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAATGgtgcgtttagaagttgttataactctgaatgctactctcctacaaaatga Alignment from GeneWise ---------GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tagtgttgtgtgtcatctcaaggaatgacctctttgttgctgtatcccagTTTGGAATTATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAATGgtgcgtttagaagttgttataactctgaatgctactctcctacaaaatga #### Peo1_ID9266_3 --> 1 - 2 Original Alignment g------------------TCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag ttcctcaatagtgtcccgatagtactaagcttttacccaactcccttcaggATTACATCCGCTGCTGCCTCTGTCATAGACACAATGCAACATGCAGTCTATGTCTATGACATCTGCCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTCTCCTCTGACaggtaagctgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from CESAR g------------------TCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag ttcctcaatagtgtcccgatagtactaagcttttacccaactcccttcaggATTACATCCGCTGCTGCCTCTGTCATAGACACAATGCAACATGCAGTCTATGTCTATGACATCTGCCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTCTCCTCTGACaggtaagctgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Spaln_aa2Genome GTCCGTCATAGACACAATG------------------CAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG ttcctcaatagtgtcccgatagtactaagcttttacccaactcccttcagGATTACATCCGCTGCTGCCTCTGTCATAGACACAATGCAACATGCAGTCTATGTCTATGACATCTGCCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTCTCCTCTGACAGgtaagctgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Spaln_nt2Genome CATCAG-----GTCCGTCATAGAC-------ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG ttcctcaatagtgtcccgatagtactaagcttttacccaactcccttcagGATTACATCCGCTGCTGCCTCTGTCATAGACACAATGCAACATGCAGTCTATGTCTATGACATCTGCCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTCTCCTCTGACAGgtaagctgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Pairagon G------------------TCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG ttcctcaatagtgtcccgatagtactaagcttttacccaactcccttcagGATTACATCCGCTGCTGCCTCTGTCATAGACACAATGCAACATGCAGTCTATGTCTATGACATCTGCCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTCTCCTCTGACAGgtaagctgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Exonerate_protein2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG ttcctcaatagtgtcccgatagtactaagcttttacccaactcccttcaggattacatccgctgctgcCTCTGTCATAGACACAATGCAACATGCAGTCTATGTCTATGACATCTGCCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTCTCCTCTGACAGgtaagctgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Exonerate_coding2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG ttcctcaatagtgtcccgatagtactaagcttttacccaactcccttcaggattacatccgctgctgcCTCTGTCATAGACACAATGCAACATGCAGTCTATGTCTATGACATCTGCCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTCTCCTCTGACAGgtaagctgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from GeneWise ----------------AGGTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG ttcctcaatagtgtcccgatagtactaagcttttacccaactcccttcagGATTACATCCGCTGCTGCCTCTGTCATAGACACAATGCAACATGCAGTCTATGTCTATGACATCTGCCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTCTCCTCTGACAGgtaagctgatgaattcatgggtctgactgacagatgttggctcactttaa #### Pitpnm1_ID306_3 --> 1 - 1 Original Alignment gTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG---------g gtcgaaacacacaaacttgagacctgaatcccccgacccctgaattccaggTACACCTGCCCCTTTGTTGAGAAGTTCTCCATTGAAATAGAGACCTACTACTTGCCAGATGGGGGGCAGCAACCTAATGTCTTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATCGTTGTCTCCATCggtaggtccttctgggtcactatgtttcagcactaagtgaacccagatcct Alignment from CESAR gTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG---------g gtcgaaacacacaaacttgagacctgaatcccccgacccctgaattccaggTACACCTGCCCCTTTGTTGAGAAGTTCTCCATTGAAATAGAGACCTACTACTTGCCAGATGGGGGGCAGCAACCTAATGTCTTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATCGTTGTCTCCATCggtaggtccttctgggtcactatgtttcagcactaagtgaacccagatcct Alignment from Spaln_aa2Genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG---------G gtcgaaacacacaaacttgagacctgaatcccccgacccctgaattccagGTACACCTGCCCCTTTGTTGAGAAGTTCTCCATTGAAATAGAGACCTACTACTTGCCAGATGGGGGGCAGCAACCTAATGTCTTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATCGTTGTCTCCATCGgtaggtccttctgggtcactatgtttcagcactaagtgaacccagatcct Alignment from Spaln_nt2Genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGGATACCATCG gtcgaaacacacaaacttgagacctgaatcccccgacccctgaattccagGTACACCTGCCCCTTTGTTGAGAAGTTCTCCATTGAAATAGAGACCTACTACTTGCCAGATGGGGGGCAGCAACCTAATGTCTTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATCGTTGTCTCCATCGgtaggtccttctgggtcactatgtttcagcactaagtgaacccagatcct Alignment from Pairagon GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTGG--------- gtcgaaacacacaaacttgagacctgaatcccccgacccctgaattccagGTACACCTGCCCCTTTGTTGAGAAGTTCTCCATTGAAATAGAGACCTACTACTTGCCAGATGGGGGGCAGCAACCTAATGTCTTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATCGTTGTCTCCATCGgtaggtccttctgggtcactatgtttcagcactaagtgaacccagatcct Alignment from Exonerate_protein2genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG gtcgaaacacacaaacttgagacctgaatcccccgacccctgaattccagGTACACCTGCCCCTTTGTTGAGAAGTTCTCCATTGAAATAGAGACCTACTACTTGCCAGATGGGGGGCAGCAACCTAATGTCTTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATCGTTgtctccatcggtaggtccttctgggtcactatgtttcagcactaagtgaacccagatcct Alignment from Exonerate_coding2genome GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG gtcgaaacacacaaacttgagacctgaatcccccgacccctgaattccagGTACACCTGCCCCTTTGTTGAGAAGTTCTCCATTGAAATAGAGACCTACTACTTGCCAGATGGGGGGCAGCAACCTAATGTCTTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATCGTTgtctccatcggtaggtccttctgggtcactatgtttcagcactaagtgaacccagatcct Alignment from GeneWise GTACACCTGCCCCTTTGTGGAGAAGTTCTCCATTGAGATAGAGACCTACTACTTGCCTGATGGGGGGCAGCAACCTAACGTCTTCAACCTGAGTGGGGCTGAGAGAAGACAGAGAATCGTG---------G gtcgaaacacacaaacttgagacctgaatcccccgacccctgaattccagGTACACCTGCCCCTTTGTTGAGAAGTTCTCCATTGAAATAGAGACCTACTACTTGCCAGATGGGGGGCAGCAACCTAATGTCTTCAAC---AGTGGGGCTGAGAGAAGACAGCGAATCGTTGTCTCCATCGgtaggtccttctgggtcactatgtttcagcactaagtgaacccagatcct #### Pitpnm1_ID312_9 --> 0 - 2 Original Alignment ------GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa aacagtaggggtccaaatgtactcatgtgacctgccctccttgcctgcagCACTTAGGACTAGATGGAGCTGGGGATCTAGTTGTTGAAGCATGCTCTGTGCATGACCTCTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAGGCCGATGTGCAAACACTGAGCACCACTTTTGAGGCTGTCACCCGAGTCCATTTCCCCAAGGCACTCGGTCATGTAGCACTGCGGCTGGTACCCTGTCCATCCATTTGTGCAGCTGCTTATGCCCTTGTCTCCaagtaggtgcagaaaggaaaatggagcaaacacagggcgagtaataatctat Alignment from CESAR ------GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCaa aacagtaggggtccaaatgtactcatgtgacctgccctccttgcctgcagCACTTAGGACTAGATGGAGCTGGGGATCTAGTTGTTGAAGCATGCTCTGTGCATGACCTCTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAGGCCGATGTGCAAACACTGAGCACCACTTTTGAGGCTGTCACCCGAGTCCATTTCCCCAAGGCACTCGGTCATGTAGCACTGCGGCTGGTACCCTGTCCATCCATTTGTGCAGCTGCTTATGCCCTTGTCTCCaagtaggtgcagaaaggaaaatggagcaaacacagggcgagtaataatctat Alignment from Spaln_aa2Genome ----GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacagtaggggtccaaatgtactcatgtgacctgccctccttgcctgcagCACTTAGGACTAGATGGAGCTGGGGATCTAGTTGTTGAAGCATGCTCTGTGCATGACCTCTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAGGCCGATGTGCAAACACTGAGCACCACTTTTGAGGCTGTCACCCGAGTCCATTTCCCCAAGGCACTCGGTCATGTAGCACTGCGGCTGGTACCCTGTCCATCCATTTGTGCAGCTGCTTATGCCCTTGTCTCCAAgtaggtgcagaaaggaaaatggagcaaacacagggcgagtaataatctat Alignment from Spaln_nt2Genome ------GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacagtaggggtccaaatgtactcatgtgacctgccctccttgcctgcagCACTTAGGACTAGATGGAGCTGGGGATCTAGTTGTTGAAGCATGCTCTGTGCATGACCTCTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAGGCCGATGTGCAAACACTGAGCACCACTTTTGAGGCTGTCACCCGAGTCCATTTCCCCAAGGCACTCGGTCATGTAGCACTGCGGCTGGTACCCTGTCCATCCATTTGTGCAGCTGCTTATGCCCTTGTCTCCAAgtaggtgcagaaaggaaaatggagcaaacacagggcgagtaataatctat Alignment from Pairagon ------GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacagtaggggtccaaatgtactcatgtgacctgccctccttgcctgcagCACTTAGGACTAGATGGAGCTGGGGATCTAGTTGTTGAAGCATGCTCTGTGCATGACCTCTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAGGCCGATGTGCAAACACTGAGCACCACTTTTGAGGCTGTCACCCGAGTCCATTTCCCCAAGGCACTCGGTCATGTAGCACTGCGGCTGGTACCCTGTCCATCCATTTGTGCAGCTGCTTATGCCCTTGTCTCCAAgtaggtgcagaaaggaaaatggagcaaacacagggcgagtaataatctat Alignment from Exonerate_protein2genome TCAGAGGGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacagtaggggtccaaatgtactcatgtgacctgccctccttgcctgcagCACTTAGGACTAGATGGAGCTGGGGATCTAGTTGTTGAAGCATGCTCTGTGCATGACCTCTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAGGCCGATGTGCAAACACTGAGCACCACTTTTGAGGCTGTCACCCGAGTCCATTTCCCCAAGGCACTCGGTCATGTAGCACTGCGGCTGGTACCCTGTCCATCCATTTGTGCAGCTGCTTATGCCCTTGTCTCCAAgtaggtgcagaaaggaaaatggagcaaacacagggcgagtaataatctat Alignment from Exonerate_coding2genome TCAGAGGGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacagtaggggtccaaatgtactcatgtgacctgccctccttgcctgcagCACTTAGGACTAGATGGAGCTGGGGATCTAGTTGTTGAAGCATGCTCTGTGCATGACCTCTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAGGCCGATGTGCAAACACTGAGCACCACTTTTGAGGCTGTCACCCGAGTCCATTTCCCCAAGGCACTCGGTCATGTAGCACTGCGGCTGGTACCCTGTCCATCCATTTGTGCAGCTGCTTATGCCCTTGTCTCCAAgtaggtgcagaaaggaaaatggagcaaacacagggcgagtaataatctat Alignment from GeneWise ------GGCCTAGATGGAGCGGGGGATCTAGTGGTCGAGGCGTGCTCTGTGCATGCCCTCTTCCTCATCCTGCACAGCGGCAGCATCCTGGACTCTGGCCCTGGAGACACCAACTCCAAGCAGGCCGACGTGCAAACGCTGAGCACAGCCTTTGAGGCCGTCACCCGAGTCCATTTCCCCGAGGCCCTGGGTCACGTGGCACTGCGGCTGGTGCCCTGTCCACCCATTTGCGCGGCTGCCTATGCTCTTGTCTCCAA aacagtaggggtccaaatgtactcatgtgacctgccctccttgcctgcagCACTTAGGACTAGATGGAGCTGGGGATCTAGTTGTTGAAGCATGCTCTGTGCATGACCTCTTCCTCATACTGCACAGTGGCAGCATTCCAGACCCTGGCCCTGGGGACACCAACTCTAAGCAGGCCGATGTGCAAACACTGAGCACCACTTTTGAGGCTGTCACCCGAGTCCATTTCCCCAAGGCACTCGGTCATGTAGCACTGCGGCTGGTACCCTGTCCATCCATTTGTGCAGCTGCTTATGCCCTTGTCTCCAAgtaggtgcagaaaggaaaatggagcaaacacagggcgagtaataatctat #### Pitpnm1_ID313_10 --> 1 - 0 Original Alignment cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG acacatatatgggggctgagttttacctgacagggttattcttcttccagt------------------------------CTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCAACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaagtggctgatcatgttcccaaaagttagccaatacctatgcctgcag Alignment from CESAR cCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggggtgttagacctgatatgttttacctgacagggttattcttcttccagt------------------------------CTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCAACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaagtggctgatcatgttcccaaaagttagccaatacctatgcctgcag Alignment from Spaln_aa2Genome AGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG acacatatatgggggctgagttttacctgacagGGTTATTCTTCTTCCAGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCAACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaagtggctgatcatgttcccaaaagttagccaatacctatgcctgcag Alignment from Spaln_nt2Genome CCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG acacatatatgggggctgagttttacctgacagggttattcttcttccagTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCAACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaagtggctgatcatgttcccaaaagttagccaatacctatgcctgcag Alignment from Pairagon CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG acacatatatgggggctgagttttacctgacagggttattcttcttccag------------------------------TCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCAACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaagtggctgatcatgttcccaaaagttagccaatacctatgcctgcag Alignment from Exonerate_protein2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG acacatatatgggggctgagTTTTACCTGACAGGGTTATTCTTCTTCCAGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCAACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaagtggctgatcatgttcccaaaagttagccaatacctatgcctgcag Alignment from Exonerate_coding2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG acacatatatgggggctgagTTTTACCTGACAGGGTTATTCTTCTTCCAGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCAACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaagtggctgatcatgttcccaaaagttagccaatacctatgcctgcag Alignment from GeneWise CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG acacatatatgggggctgagttttacctgacagggttattcttcttccagTCTATCC------------------------------CGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCAACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaagtggctgatcatgttcccaaaagttagccaatacctatgcctgcag #### Pitpnm1_ID318_15 --> 2 - 1 Original Alignment ctGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAG---------------a gcaaagaggcatgagggctgtttgatctgtgcttctctctctcttcttagctGAGACTTTCCCGACTCGCTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTACCCTCCACACCCTCCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAACCAGCCTCTCAGACAGCTGCTCCAAGTACCACCAGTGAGGTTGTCAACCCAAATAACTATCGGagtaggactgtcagcactgctttctactgtgttagtctacctgcaagcatg Alignment from CESAR ctGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTT---------------AAGa gcaaagaggcatgagggctgtttgatctgtgcttctctctctcttcttagctGAGACTTTCCCGACTCGCTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTACCCTCCACACCCTCCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAACCAGCCTCTCAGACAGCTGCTCCAAGTACCACCAGTGAGGTTGTCAACCCAAATAACTATCGGagtaggactgtcagcactgctttctactgtgttagtctacctgcaagcatg Alignment from Spaln_aa2Genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTT---------------AAGA gcaaagaggcatgagggctgtttgatctgtgcttctctctctcttcttagCTGAGACTTTCCCGACTCGCTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTACCCTCCACACCCTCCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAACCAGCCTCTCAGACAGCTGCTCCAAGTACCACCAGTGAGGTTGTCAACCCAAATAACTATCGGAgtaggactgtcagcactgctttctactgtgttagtctacctgcaagcatg Alignment from Spaln_nt2Genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTG---GTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTT GTTAAGA gcaaagaggcatgagggctgtttgatctgtgcttctctctctcttcttagCTGAGACTTTCCCGACTCGCTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTACCCTCCACACCCTCCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAACCAGCCTCTCAGACAGCTGCTCCAAGTACCACCAGTGAGGTTgtcaacccaaataactatcggagtaggactgtcagcactgctttctactgtgttagTCTACCTgcaagcatg Alignment from Pairagon CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTG---GTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAA---------------GA gcaaagaggcatgagggctgtttgatctgtgcttctctctctcttcttagCTGAGACTTTCCCGACTCGCTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTACCCTCCACACCCTCCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAACCAGCCTCTCAGACAGCTGCTCCAAGTACCACCAGTGAGGTTGTCAACCCAAATAACTATCGGAgtaggactgtcagcactgctttctactgtgttagtctacctgcaagcatg Alignment from Exonerate_protein2genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAG gcaaagaggcatgagggctgtttgatctgtgcttctctctctcttcttagCTGAGACTTTCCCGACTCGCTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTACCCTCCACACCCTCCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAACCAGCCTCTCAGACAGCTGCTCCAAGTACCACCAGTGAGgttgtcaacccaaataactatcggagtaggactgtcagcactgctttctactgtgttagtctacctgcaagcatg Alignment from Exonerate_coding2genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAG gcaaagaggcatgagggctgtttgatctgtgcttctctctctcttcttagCTGAGACTTTCCCGACTCGCTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTACCCTCCACACCCTCCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAACCAGCCTCTCAGACAGCTGCTCCAAGTACCACCAGTGAGgttgtcaacccaaataactatcggagtaggactgtcagcactgctttctactgtgttagtctacctgcaagcatg Alignment from GeneWise CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTT---------------AAGA gcaaagaggcatgagggctgtttgatctgtgcttctctctctcttcttagCTGAGACTTTCCCGACTCGCTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTACCCTCCACACCCTCCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAACCAGCCTCTCAGACAGCTGCTCCAAGTACCACCAGTGAGGTTGTCAACCCAAATAACTATCGGAgtaggactgtcagcactgctttctactgtgttagtctacctgcaagcatg #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tc------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gtggtggacagcagtctgcttttgactccttttctctcatcctgcctcagtcGGTCCACTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTTGCCTTCATTCTGCGCCAGgtattagaacccagggtgtgggcccaacactgagacaacaaggactatct Alignment from CESAR tc------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gtggtggacagcagtctgcttttgactccttttctctcatcctgcctcagtcGGTCCACTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTTGCCTTCATTCTGCGCCAGgtattagaacccagggtgtgggcccaacactgagacaacaaggactatct Alignment from Spaln_aa2Genome TC------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gtggtggacagcagtctgcttttgactccttttctctcatcctgcctcagTCGGTCCACTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTTGCCTTCATTCTGCGCCAGgtattagaacccagggtgtgggcccaacactgagacaacaaggactatct Alignment from Spaln_nt2Genome TC------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gtggtggacagcagtctgcttttgactccttttctctcatcctgcctcagTCGGTCCACTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTTGCCTTCATTCTGCGCCAGgtattagaacccagggtgtgggcccaacactgagacaacaaggactatct Alignment from Pairagon TC------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gtggtggacagcagtctgcttttgactccttttctctcatcctgcctcagTCGGTCCACTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTTGCCTTCATTCTGCGCCAGgtattagaacccagggtgtgggcccaacactgagacaacaaggactatct Alignment from Exonerate_protein2genome TC------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gtggtggacagcagtctgcttttgactccttttctctcatcctgcctcagTCGGTCCACTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTTGCCTTCATTCTGCGCCAGgtattagaacccagggtgtgggcccaacactgagacaacaaggactatct Alignment from Exonerate_coding2genome TC------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gtggtggacagcagtctgcttttgactccttttctctcatcctgcctcagTCGGTCCACTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTTGCCTTCATTCTGCGCCAGgtattagaacccagggtgtgggcccaacactgagacaacaaggactatct Alignment from GeneWise -----ATCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gtggtggacagcagtctgcttttgactccttttctctcatcctgcctcagTCGGTCCACTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAAGCACTTACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTTGCCTTCATTCTGCGCCAGgtattagaacccagggtgtgggcccaacactgagacaacaaggactatct #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTCACACTCACTGGAGAAGAGgtatgggtaattgcaatttaactagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGTTCTGGCCGTCTTACCTTCCCAGTGTCATCAGAACATGCGCTGGGCATT---------------------------aggtagggaagtcagcaagtagctcagctacgccagtaccgtgcggagatcg Alignment from CESAR TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTCACACTCACTGGAGAAGAGgtcttggtaattgcaatttaactagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGTTCTGGCCGTCTTACCTTCCCAGTGTCATCAGAACATGCGCTGGGCATT---------------------------aggtagggaagtcagcaagtagctcagctacgccagtaccgtgcggagatcg Alignment from Spaln_aa2Genome TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGG TGTAGTCACACTCACTGGAGAAGAGGTATGGGTAATTGCAATTTAACTAgGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGTTCTGGCCGTCTTACCTTCCCAGTGTCATCAGAACATGCGCTGGgcattaggtagggaagtcagcaagtagctcagctacgccagtaccgtgcggagatcg Alignment from Spaln_nt2Genome TGTGGTCACGCTCACTGGAGA-GA------------------------AGGTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATT-GGTGTCTACCCTGTGCGCATGGTGGTCAG---- TGTAGTCACACTCACTGGAGAAGAGGTATGGGTAATTGCAATTTAACTAGGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGTTCTGGCCGTCTTACCTTCCCAGTGTCATCAGAACATGCGCTGGGCATTAGGTAGGGA---AGTCAGCAAGTAGCTCAGCTACgccagtaccgtgcggaga Alignment from Pairagon TGTGGTCACGCTCACTGGAGAGAAGGTG-------------------------GATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTCACACTCACTGGAGAAGAGGTATGGGTAATTGCAATTTAACTAGGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGTTCTGGCCGTCTTACCTTCCCAGTGTCATCAGAACATGCGCTGGGCATT---------------------------AGgtagggaagtcagcaagtagctcagctacgccagtaccgtgcggagatcg Alignment from Exonerate_protein2genome CACGCTCACTGGAGAGAAGGTGGATGTCTACGTCATGACACAGCCACTGTC AGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGC CACACTCACTGGAGAA------GAGGTATGGGTAATTGCAATTTAACTAGGttgatgtctatgtcatgacacagcctctgtcaggcaagtggatccactttggcacagaggtcactaacagttctggccgtcttaccttcccagTGTCATCAGAACATGCGCTGGGCATTAGGTAGGGAAGTCAGCAAGTAGCTCAGCTACGCCAGTACCGTGCGGAGATCG Alignment from Exonerate_coding2genome CACGCTCACTGGAGAGAAGGTGGATGTCTACGTCATGACACAGCCACTGTC AGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGC CACACTCACTGGAGAA------GAGGTATGGGTAATTGCAATTTAACTAGGttgatgtctatgtcatgacacagcctctgtcaggcaagtggatccactttggcacagaggtcactaacagttctggccgtcttaccttcccagTGTCATCAGAACATGCGCTGGGCATTAGGTAGGGAAGTCAGCAAGTAGCTCAGCTACGCCAGTACCGTGCGGAGATCG Alignment from GeneWise TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTC---------------------------------------------- TGTAGTCACACTCACTGGAGAAGAGgtatgggtaattgcaatttaactagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGTTCTGGCCGTCTTACCTTCCCAGTGTCATCAGAACATGCGCTGGGCATTAG-GTAGGGAAGTCAGCAAGTAGCTCAGCTACGCCAGTACCGTGCGGAGATC #### Pitpnm1_ID324_21 --> 1 - 0 Original Alignment gCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG cgcaacttgtcttctgcgtggattggagctcttgtcatttctggggacaggCACTGGCAGGACTCTGACTACTTGATTGTCTATGTAACTGGCCGGCCAGATATGCAAAAACACCGTGTAGTGGCCTGGTTATCACAACACACCTTCCCCCATGGTGTTGACTCGTTCTGTGATGGCCTCATGCATGACCCATTGCGCCAGAAAGCCATGTTTCTGCAGAGCCTG---------gtactatgagtcaaaggccttgggtagggcctatcctgcttgggcctatc Alignment from CESAR gCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG cgcaacttgtcttctgcgtggattggagctcttgtcatttctggggacaggCACTGGCAGGACTCTGACTACTTGATTGTCTATGTAACTGGCCGGCCAGATATGCAAAAACACCGTGTAGTGGCCTGGTTATCACAACACACCTTCCCCCATGGTGTTGACTCGTTCTGTGATGGCCTCATGCATGACCCATTGCGCCAGAAAGCCATGTTTCTGCAGAGCCTGGTACTATGAgtcaaaggccttgggtagggcctatcctgcttgggcctatc Alignment from Spaln_aa2Genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTG cgcaacttgtcttctgcgtggattggagctcttgtcatttctggggacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGTAACTGGCCGGCCAGATATGCAAAAACACCGTGTAGTGGCCTGGTTATCACAACACACCTTCCCCCATGGTGTTGACTCGTTCTGTGATGGCCTCATGCATGACCCATTGCGCCAGAAAGCCATGTTTCTGCAGAGCCTGgtactatgagtcaaaggccttgggtagggcctatcctgcttgggcctatc Alignment from Spaln_nt2Genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAG-- cgcaacttgtcttctgcgtggattggagctcttgtcatttctggggacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGTAACTGGCCGGCCAGATATGCAAAAACACCGTGTAGTGGCCTGGTTATCACAACACACCTTCCCCCATGGTGTTGACTCGTTCTGTGATGGCCTCATGCATGACCCATTGCGCCAGAAAGCCATGTTTCTGCAGAGCCTGGTACTATGAgtcaaaggccttgggtagggcctatcctgcttgggcctatc Alignment from Pairagon GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTG cgcaacttgtcttctgcgtggattggagctcttgtcatttctggggacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGTAACTGGCCGGCCAGATATGCAAAAACACCGTGTAGTGGCCTGGTTATCACAACACACCTTCCCCCATGGTGTTGACTCGTTCTGTGATGGCCTCATGCATGACCCATTGCGCCAGAAAGCCATGTTTCTGCAGAGCCTGgtactatgagtcaaaggccttgggtagggcctatcctgcttgggcctatc Alignment from Exonerate_protein2genome cgcaacttgtcttctgcgtggattggagctcttgtcatttctggggacaggcactggcaggactctgactacttgattgtctatgtaactggccggccagatatgcaaaaacaccgtgtagtggcctggttatcacaacacaccttcccccatggtgttgactcgttctgtgatggcctcatgcatgacccattgcgccagaaagccatgtttctgcagagcctggtactatgagtcaaaggccttgggtagggcctatcctgcttgggcctatc Alignment from Exonerate_coding2genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG cgcaacttgtcttctgcgtggattggagctcttgtcatttctggggacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGTAACTGGCCGGCCAGATATGCAAAAACACCGTGTAGTGGCCTGGTTATCACAACACACCTTCCCCCATGGTGTTGACTCGTTCTGTGATGGCCTCATGCATGACCCATTGCGCCAGAAAGCCATGTTTCTGCAGAGCCTGGTACTATGAgtcaaaggccttgggtagggcctatcctgcttgggcctatc Alignment from GeneWise GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTG cgcaacttgtcttctgcgtggattggagctcttgtcatttctggggacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGTAACTGGCCGGCCAGATATGCAAAAACACCGTGTAGTGGCCTGGTTATCACAACACACCTTCCCCCATGGTGTTGACTCGTTCTGTGATGGCCTCATGCATGACCCATTGCGCCAGAAAGCCATGTTTCTGCAGAGCCTGgtactatgagtcaaaggccttgggtagggcctatcctgcttgggcctatc #### Pkd2l1_ID8954_14 --> 1 - 0 Original Alignment gCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG------ tatccagacatcaattttggtttccttgcatctgccacctctgtctacaggCTTACAAGGAGAGTATTGCAGCTGCAATGTATTTTGGAAGGAGTTGTTTCCCAGATTGATGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGGGCCGGgtaagggccctctggtttggcacacagagtcagctactactggagttcat Alignment from CESAR gCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG------ tatccagacatcaattttggtttccttgcatctgccacctctgtctacaggCTTACAAGGAGAGTATTGCAGCTGCAATGTATTTTGGAAGGAGTTGTTTCCCAGATTGATGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGGGCCGGgtaagggccctctggtttggcacacagagtcagctactactggagttcat Alignment from Spaln_aa2Genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG------ tatccagacatcaattttggtttccttgcatctgccacctctgtctacagGCTTACAAGGAGAGTATTGCAGCTGCAATGTATTTTGGAAGGAGTTGTTTCCCAGATTGATGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGGGCCGGgtaagggccctctggtttggcacacagagtcagctactactggagttcat Alignment from Spaln_nt2Genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATGGG---- tatccagacatcaattttggtttccttgcatctgccacctctgtctacagGCTTACAAGGAGAGTATTGCAGCTGCAATGTATTTTGGAAGGAGTTGTTTCCCAGATTGATGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGGGCCGGgtaagggccctctggtttggcacacagagtcagctactactggagttcat Alignment from Pairagon GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG------ tatccagacatcaattttggtttccttgcatctgccacctctgtctacagGCTTACAAGGAGAGTATTGCAGCTGCAATGTATTTTGGAAGGAGTTGTTTCCCAGATTGATGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGGGCCGGgtaagggccctctggtttggcacacagagtcagctactactggagttcat Alignment from Exonerate_protein2genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tatccagacatcaattttggtttccttgcatctgccacctctgtctacagGCTTACAAGGAGAGTATTGCAGCTGCAATGTATTTTGGAAGGAGTTGTTTCCCAGATTGATGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGggccgggtaagggccctctggtttggcacacagagtcagctactactggagttcat Alignment from Exonerate_coding2genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tatccagacatcaattttggtttccttgcatctgccacctctgtctacagGCTTACAAGGAGAGTATTGCAGCTGCAATGTATTTTGGAAGGAGTTGTTTCCCAGATTGATGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGggccgggtaagggccctctggtttggcacacagagtcagctactactggagttcat Alignment from GeneWise GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATGGGG--- tatccagacatcaattttggtttccttgcatctgccacctctgtctacagGCTTACAAGGAGAGTATTGCAGCTGCAATGTATTTTGGAAGGAGTTGTTTCCCAGATTGATGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGGGCCGGgtaagggccctctggtttggcacacagagtcagctactactggagttcat #### Pkd2l1_ID8955_13 --> 0 - 2 Original Alignment GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat tgactccccggactcagcctctcctgaggacatttttgcctctcttaaagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCCGGCGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAA---------atgtaaggtgaaatccgattggttagtataagtgatggctgactgtggcacc Alignment from CESAR GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat tgactccccggactcagcctctcctgaggacatttttgcctctcttaaagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCCGGCGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAA---------atgtaaggtgaaatccgattggttagtataagtgatggctgactgtggcacc Alignment from Spaln_aa2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGA tgactccccggactcagcctctcctgaggacatttttgcctctcttaaagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCCGGCGAACTGGAGGCT------GCAAGGGGAAAAAGCTGGGTTTCAGGAGAAATgtaaggtgaaatccgattggttagtataagtgatggctgactgtggcacc Alignment from Spaln_nt2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGA tgactccccggactcagcctctcctgaggacatttttgcctctcttaaagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCCGGCGAACT------GGAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAATgtaaggtgaaatccgattggttagtataagtgatggctgactgtggcacc Alignment from Pairagon GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccggactcagcctctcctgaggacatttttgcctctcttaaagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCCGGCGAACT------GGAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAA---------ATgtaaggtgaaatccgattggttagtataagtgatggctgactgtggcacc Alignment from Exonerate_protein2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCG tgactccccggactcagcctctcctgaggacatttttgcctctcttaaagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCCGGCGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAATGTAAGgtgaaatccgattggttagtataagtgatggctgactgtggcacc Alignment from Exonerate_coding2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCG tgactccccggactcagcctctcctgaggacatttttgcctctcttaaagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCCGGCGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAATGTAAGgtgaaatccgattggttagtataagtgatggctgactgtggcacc Alignment from GeneWise GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGA tgactccccggactcagcctctcctgaggacatttttgcctctcttaaagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCCGGCGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAATgtaaggtgaaatccgattggttagtataagtgatggctgactgtggcacc #### Pkd2l1_ID8958_10 --> 0 - 0 Original Alignment AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG cggatagcttcagagattgctgactctcagtcatttctcttattcctcag------TTCCTGGCCATTATCAATGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGgtaaaggccctagctctgcatagctgccatatagtatcctcagttttgga Alignment from CESAR AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gaagagcggatagcttcagagattgctcagtcatttctcttattcctcag------TTCCTGGCCATTATCAATGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGgtaaaggccctagctctgcatagctgccatatagtatcctcagttttgga Alignment from Spaln_aa2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG cggatagcttcagagattgctgactctcagtcatttctcttattcctcag------TTCCTGGCCATTATCAATGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGgtaaaggccctagctctgcatagctgccatatagtatcctcagttttgga Alignment from Spaln_nt2Genome TTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG cggatagcttcagagattgctgactctcagtcatttctcttattcctcagTTCCTGGCCATTATCAATGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGgtaaaggccctagctctgcatagctgccatatagtatcctcagttttgga Alignment from Pairagon AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG cggatagcttcagagattgctgactctcagtcatttctcttattcctcag------TTCCTGGCCATTATCAATGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGgtaaaggccctagctctgcatagctgccatatagtatcctcagttttgga Alignment from Exonerate_protein2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG cggatagcttcagagattgctgactctcagtcatttctcttattCCTCAGTTCCTGGCCATTATCAATGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGgtaaaggccctagctctgcatagctgccatatagtatcctcagttttgga Alignment from Exonerate_coding2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG cggatagcttcagagattgctgactctcagtcatttctcttattCCTCAGTTCCTGGCCATTATCAATGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGgtaaaggccctagctctgcatagctgccatatagtatcctcagttttgga Alignment from GeneWise TTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG cggatagcttcagagattgctgactctcagtcatttctcttattcctcagTTCCTGGCCATTATCAATGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGgtaaaggccctagctctgcatagctgccatatagtatcctcagttttgga #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ------------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat tctccctggagcagcctatcccttgactcctctctgacctgggtctgcagATAGAAGAATGGATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCatgtacgtatagctgtatcattgtagatcactcatttttcagatcccagcat Alignment from CESAR ATA------------TTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat tctccctggagcagcctatcccttgactcctctctgacctgggtctgcagATAGAAGAATGGATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCatgtacgtatagctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Spaln_aa2Genome ATATTCAAGTAT------------ATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tctccctggagcagcctatcccttgactcctctctgacctgggtctgcagATAGAAGAATGGATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtacgtatagctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Spaln_nt2Genome GATATTCAAGTA-----------TATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tctccctggagcagcctatcccttgactcctctctgacctgggtctgcagATAGAAGAATGGATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtacgtatagctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Pairagon ------------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tctccctggagcagcctatcccttgactcctctctgacctgggtctgcagATAGAAGAATGGATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtacgtatagctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Exonerate_protein2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tctccctggagcagcctatcccttgactcctctctgacctgggtctgcagatagaagaatggATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtacgtatagctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Exonerate_coding2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tctccctggagcagcctatcccttgactcctctctgacctgggtctgcagatagaagaatggATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtacgtatagctgtatcattgtagatcactcatttttcagatcccagcat Alignment from GeneWise ------------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tctccctggagcagcctatcccttgactcctctctgacctgggtctgcagATAGAAGAATGGATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtacgtatagctgtatcattgtagatcactcatttttcagatcccagcat #### Plcb3_ID1901_30 --> 0 - 0 Original Alignment CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG aagccttgctctgccctcagccatgttttgtgatttctcatccttgttag------GAGGCCCAGAAACAGCAGCATGAACGCCTAGTGGCAGGGCAACAGCAAGTCCTCCAGCAACTAGAGGAAGAGAAACCCAAGgtgagccctggaggaggtgcatatacaggtaataggggagctggtcaacc Alignment from CESAR CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG tatcccaagccttgctctgccctcattttgtgatttctcatccttgttag------GAGGCCCAGAAACAGCAGCATGAACGCCTAGTGGCAGGGCAACAGCAAGTCCTCCAGCAACTAGAGGAAGAGAAACCCAAGgtgagccctggaggaggtgcatatacaggtaataggggagctggtcaacc Alignment from Spaln_aa2Genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG aagccttgctctgccctcagccatgttttgtgatttctcatccttgttag------GAGGCCCAGAAACAGCAGCATGAACGCCTAGTGGCAGGGCAACAGCAAGTCCTCCAGCAACTAGAGGAAGAGAAACCCAAGgtgagccctggaggaggtgcatatacaggtaataggggagctggtcaacc Alignment from Spaln_nt2Genome GAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG aagccttgctctgccctcagccatgttttgtgatttctcatccttgttagGAGGCCCAGAAACAGCAGCATGAACGCCTAGTGGCAGGGCAACAGCAAGTCCTCCAGCAACTAGAGGAAGAGAAACCCAAGgtgagccctggaggaggtgcatatacaggtaataggggagctggtcaacc Alignment from Pairagon CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG aagccttgctctgccctcagccatgttttgtgatttctcatccttgttag------GAGGCCCAGAAACAGCAGCATGAACGCCTAGTGGCAGGGCAACAGCAAGTCCTCCAGCAACTAGAGGAAGAGAAACCCAAGgtgagccctggaggaggtgcatatacaggtaataggggagctggtcaacc Alignment from Exonerate_protein2genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG aagccttgctctgccctcagccatgttttgtgatttctcatcctTGTTAGGAGGCCCAGAAACAGCAGCATGAACGCCTAGTGGCAGGGCAACAGCAAGTCCTCCAGCAACTAGAGGAAGAGAAACCCAAGgtgagccctggaggaggtgcatatacaggtaataggggagctggtcaacc Alignment from Exonerate_coding2genome CTGGAAGAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG aagccttgctctgccctcagccatgttttgtgatttctcatcctTGTTAGGAGGCCCAGAAACAGCAGCATGAACGCCTAGTGGCAGGGCAACAGCAAGTCCTCCAGCAACTAGAGGAAGAGAAACCCAAGgtgagccctggaggaggtgcatatacaggtaataggggagctggtcaacc Alignment from GeneWise GAGGCCCAGAAGCAGCGCCATGAACGCCTGGTGGCAGGGCAACAGCAAGTCCTCCAGCAGCTAGAGGAAGAGGAACCCAAG aagccttgctctgccctcagccatgttttgtgatttctcatccttgttagGAGGCCCAGAAACAGCAGCATGAACGCCTAGTGGCAGGGCAACAGCAAGTCCTCCAGCAACTAGAGGAAGAGAAACCCAAGgtgagccctggaggaggtgcatatacaggtaataggggagctggtcaacc #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment g---------GAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------gt gactccctttacccaatgtctgagtctcctttattttttgtttcctttaggAAATCAGATGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAATAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTGTATGGCCACTGGgtgtaattgcactgagtcagtgggtgcagggaaatagcttagcgctgcccct Alignment from CESAR g---------GAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt gactccctttacccaatgtctgagtctcctttattttttgtttcctttaggAAATCAGATGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAATAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAgtgtatggccactgggtgtaattgcactgagtcagtgggtgcagggaaatagcttagcctcattttg Alignment from Spaln_aa2Genome GGAGAAGAAG---------GAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gactccctttacccaatgtctgagtctcctttattttttgtttcctttagGAAATCAGATGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAATAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaattgcactgagtcagtgggtgcagggaaatagcttagcgctgcccct Alignment from Spaln_nt2Genome GGAGAAGAAG---------GAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gactccctttacccaatgtctgagtctcctttattttttgtttcctttagGAAATCAGATGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAATAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaattgcactgagtcagtgggtgcagggaaatagcttagcgctgcccct Alignment from Pairagon ------------------------------------------------------------GAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT GACTCCCTTTACCCAATGTCTGAGTCTCCTTTATTTTTTGTTTCCTTTAGGAAATCAGATGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAATAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaattgcactgagtcagtgggtgcagggaaatagcttagcgctgcccct Alignment from Exonerate_protein2genome GAATGAAAGGGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gactccctttacccaatgtctgagtctcctttattttttgtttcctttagGAAATCAGATGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAATAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaattgcactgagtcagtgggtgcagggaaatagcttagcgctgcccct Alignment from Exonerate_coding2genome GAATGAAAGGGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gactccctttacccaatgtctgagtctcctttattttttgtttcctttagGAAATCAGATGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAATAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaattgcactgagtcagtgggtgcagggaaatagcttagcgctgcccct Alignment from GeneWise -------AGGGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gactccctttacccaatgtctgagtctcctttattttttgtttcctttagGAAATCAGATGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAATAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaattgcactgagtcagtgggtgcagggaaatagcttagcgctgcccct #### Plcb3_ID1904_27 --> 0 - 2 Original Alignment GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag aacacatcagccccatatcacctgcaatgtgatttatttcatttttgtag---CATCAGTGGGTCAAGGAAGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAATTGAAAGAAaggttggtacagatagaaggtcagtgggactccctttacccaatgtctgagt Alignment from CESAR GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag gctaacacatcagccccatatcaccaatgtgatttatttcatttttgtag---CATCAGTGGGTCAAGGAAGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAATTGAAAGAAaggttggtacagatagaaggtcagtgggactccctttacccaatgtctgagt Alignment from Spaln_aa2Genome GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG aacacatcagccccatatcacctgcaatgtgatttatttcatttttgtag---CATCAGTGGGTCAAGGAAGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAATTGAAAGAAAGgttggtacagatagaaggtcagtgggactccctttacccaatgtctgagt Alignment from Spaln_nt2Genome GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG aacacatcagccccatatcacctgcaatgtgatttatttcatttttgtag---CATCAGTGGGTCAAGGAAGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAATTGAAAGAAAGgttggtacagatagaaggtcagtgggactccctttacccaatgtctgagt Alignment from Pairagon GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG aacacatcagccccatatcacctgcaatgtgatttatttcatttttgtag---CATCAGTGGGTCAAGGAAGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAATTGAAAGAAAGgttggtacagatagaaggtcagtgggactccctttacccaatgtctgagt Alignment from Exonerate_protein2genome CATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG aacacatcagccccatatcacctgcaatgtgatttatttcatttttgtagCATCAGTGGGTCAAGGAAGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAATTGAAAGAAAGgttggtacagatagaaggtcagtgggactccctttacccaatgtctgagt Alignment from Exonerate_coding2genome CATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG aacacatcagccccatatcacctgcaatgtgatttatttcatttttgtagCATCAGTGGGTCAAGGAAGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAATTGAAAGAAAGgttggtacagatagaaggtcagtgggactccctttacccaatgtctgagt Alignment from GeneWise CATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAA---------------------------------------------------- aacacatcagccccatatcacctgcaatgtgatttatttcatttttgtagCATCAGTGGGTCAAGGAAGTTGTCCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAATTGAAAGAAAGGTTGGTACAGATAGAAGGTCAGTGGGACTCCCTTTACCCAATGTCTGAGT #### Plcb3_ID1913_18 --> 2 - 0 Original Alignment atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tcctggatctatgatctctggctgcctcatgtcggccattctcgttgcagat---CCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCAAGgtaagggggcaagggttttggcatagggtgttttgaagaagatacaacag Alignment from CESAR atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tggtcctggatctatgatctctggcctcatgtcggccattctcgttgcagat---CCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCAAGgtaagggggcaagggttttggcatagggtgttttgaagaagatacaacag Alignment from Spaln_aa2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tcctggatctatgatctctggctgcctcatgtcggccattctcgttgcagAT---CCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCAAGgtaagggggcaagggttttggcatagggtgttttgaagaagatacaacag Alignment from Spaln_nt2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tcctggatctatgatctctggctgcctcatgtcggccattctcgttgcagAT---CCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCAAGgtaagggggcaagggttttggcatagggtgttttgaagaagatacaacag Alignment from Pairagon ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tcctggatctatgatctctggctgcctcatgtcggccattctcgttgcagAT---CCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCAAGgtaagggggcaagggttttggcatagggtgttttgaagaagatacaacag Alignment from Exonerate_protein2genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tcctggatctatgatctctggctgcctcatgtcggccattctcgttgcagAT---CCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCAAGgtaagggggcaagggttttggcatagggtgttttgaagaagatacaacag Alignment from Exonerate_coding2genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tcctggatctatgatctctggctgcctcatgtcggccattctcgttgcagAT---CCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCAAGgtaagggggcaagggttttggcatagggtgttttgaagaagatacaacag Alignment from GeneWise ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tcctggatctatgatctctggctgcctcatgtcggccattctcgttgcagAT---CCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCAAGgtaagggggcaagggttttggcatagggtgttttgaagaagatacaacag #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment a---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg gtacaagatgatgcttcttttttgatgacctatgtgttctgctatgacagaTTTTACAACAGACAACAGCTCAGCCGGATTTACACTAAGGGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCCTGggtaaacgagctctagccctagcttagggatttttgccaagtaaagtaatt Alignment from CESAR a---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg gtacaagatgatgcttcttttttgatgacctatgtgttctgctatgacagaTTTTACAACAGACAACAGCTCAGCCGGATTTACACTAAGGGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCCTGggtaaacgagctctagccctagcttagggatttttgccaagtaaagtaatt Alignment from Spaln_aa2Genome ATACAACAAACAG---CAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gtacaagatgatgcttcttttttgatgacctatgtgttctgctatgacagATTTTACAACAGACAACAGCTCAGCCGGATTTACACTAAGGGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCCTGGgtaaacgagctctagccctagcttagggatttttgccaagtaaagtaatt Alignment from Spaln_nt2Genome AT---ACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gtacaagatgatgcttcttttttgatgacctatgtgttctgctatgacagATTTTACAACAGACAACAGCTCAGCCGGATTTACACTAAGGGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCCTGGgtaaacgagctctagccctagcttagggatttttgccaagtaaagtaatt Alignment from Pairagon A---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gtacaagatgatgcttcttttttgatgacctatgtgttctgctatgacagATTTTACAACAGACAACAGCTCAGCCGGATTTACACTAAGGGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCCTGGgtaaacgagctctagccctagcttagggatttttgccaagtaaagtaatt Alignment from Exonerate_protein2genome A---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gtacaagatgatgcttcttttttgatgacctatgtgttctgctatgacagATTTTACAACAGACAACAGCTCAGCCGGATTTACACTAAGGGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCCTGGgtaaacgagctctagccctagcttagggatttttgccaagtaaagtaatt Alignment from Exonerate_coding2genome A---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gtacaagatgatgcttcttttttgatgacctatgtgttctgctatgacagATTTTACAACAGACAACAGCTCAGCCGGATTTACACTAAGGGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCCTGGgtaaacgagctctagccctagcttagggatttttgccaagtaaagtaatt Alignment from GeneWise -GAATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gtacaagatgatgcttcttttttgatgacctatgtgttctgctatgacagATTTTACAACAGACAACAGCTCAGCCGGATTTACACTAAGGGCAAACAGGTGGACTCTTCAAACTACATGCCTTACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCCTGGgtaaacgagctctagccctagcttagggatttttgccaagtaaagtaatt #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aa---AGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga cagggagatgggtctgccaggccatggccggctaacttcatgtccatcagaaCGCAGGAACAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTCGTGgagtgtgttcaccaataccatggctagtgcggggccaggagtcctacctcgt Alignment from CESAR aa---AGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga cagggagatgggtctgccaggccatggccggctaacttcatgtccatcagaaCGCAGGAACAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTCGTGgagtgtgttcaccaataccatggctagtgcggggccaggagtcctacctcgt Alignment from Spaln_aa2Genome AAAGGAACAAG---TGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA cagggagatgggtctgccaggccatggccggctaacttcatgtccatcagAACGCAGGAACAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTCGTGGAgtgtgttcaccaataccatggctagtgcggggccaggagtcctacctcgt Alignment from Spaln_nt2Genome AA---AGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA cagggagatgggtctgccaggccatggccggctaacttcatgtccatcagAACGCAGGAACAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTCGTGGAgtgtgttcaccaataccatggctagtgcggggccaggagtcctacctcgt Alignment from Pairagon AA---AGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA cagggagatgggtctgccaggccatggccggctaacttcatgtccatcagAACGCAGGAACAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTCGTGGAgtgtgttcaccaataccatggctagtgcggggccaggagtcctacctcgt Alignment from Exonerate_protein2genome AA---AGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA cagggagatgggtctgccaggccatggccggctaacttcatgtccatcagAACGCAGGAACAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTCGTGGAgtgtgttcaccaataccatggctagtgcggggccaggagtcctacctcgt Alignment from Exonerate_coding2genome AA---AGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA cagggagatgggtctgccaggccatggccggctaacttcatgtccatcagAACGCAGGAACAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTCGTGGAgtgtgttcaccaataccatggctagtgcggggccaggagtcctacctcgt Alignment from GeneWise --AAAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA cagggagatgggtctgccaggccatggccggctaacttcatgtccatcagAACGCAGGAACAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTCGTGGAgtgtgttcaccaataccatggctagtgcggggccaggagtcctacctcgt #### Plcb3_ID1919_12 --> 1 - 0 Original Alignment g---------GCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG attggccctagacccctgcagagcggtgaacattgttctgctctggacagaGGAAAAAACGCAAAGCAGCAC---AAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTTATTGACCCTCTTGACAAATACCCAgtgagtgaaagtttggactggatccaggtgtatgaaggtgaggggggctc Alignment from CESAR gGCAAAG------CAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG attggccctagacccctgcagagcggtgaacattgttctgctctggacagaGGAAAAAACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTTATTGACCCTCTTGACAAATACCCAgtgagtgaaagtttggactggatccaggtgtatgaaggtgaggggggctc Alignment from Spaln_aa2Genome GGCAAAG------CAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG attggccctagacccctgcagagcggtgaacattgttctgctctggacagAGGAAAAAACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTTATTGACCCTCTTGACAAATACCCAgtgagtgaaagtttggactggatccaggtgtatgaaggtgaggggggctc Alignment from Spaln_nt2Genome GGCAAA----GCA--GCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG attggccctagacccctgcagagcggtgaacattgttctgctctggacagAGGAAAAAACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTTATTGACCCTCTTGACAAATACCCAgtgagtgaaagtttggactggatccaggtgtatgaaggtgaggggggctc Alignment from Pairagon --------------------------------------GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG attggccctagacccctgcagAGCGGTGAACATTGTTCTGCTCTGGACAGAGGAAAAAACGCAAAGCAGCA---CAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTTATTGACCCTCTTGACAAATACCCAgtgagtgaaagtttggactggatccaggtgtatgaaggtgaggggggctc Alignment from Exonerate_protein2genome GGCAAAG------CAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG attggccctagacccctgcagagcggtgaacattgttctgctctggacagAGGAAAAAACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTTATTGACCCTCTTGACAAATACCCAgtgagtgaaagtttggactggatccaggtgtatgaaggtgaggggggctc Alignment from Exonerate_coding2genome GGCAAAG------CAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG attggccctagacccctgcagagcggtgaacattgttctgctctggacagAGGAAAAAACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTTATTGACCCTCTTGACAAATACCCAgtgagtgaaagtttggactggatccaggtgtatgaaggtgaggggggctc Alignment from GeneWise -------TCGGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG attggccctagacccctgcagagcggtgaacattgttctgctctggacagAGGAAAAAACGCAAAGCAGCAC---AAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTTATTGACCCTCTTGACAAATACCCAgtgagtgaaagtttggactggatccaggtgtatgaaggtgaggggggctc #### Plcb3_ID1923_8 --> 1 - 2 Original Alignment tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG---------------------at tttggaactggctgaccaagattctcacactttgtcctcttattatttagtGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATCCTGCTGGAGGTAACATCAAAACAGATGGCAatgtaagaaacttggaaatggattccatagggtggactctgtctccggtgca Alignment from CESAR tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG---------------------at tttggaactggctgaccaagattctcacactttgtcctcttattatttagtGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATCCTGCTGGAGGTAACATCAAAACAGATGGCAatgtaagaaacttggaaatggattccatagggtggactctgtctccggtgca Alignment from Spaln_aa2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGATAGGTGCCAAGGGCAAG tttggaactggctgaccaagattctcacactttgtcctcttattatttagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATCCTGCTGGAGGTAACATCAAAACAGATGgcaatgtaagaaacttggaaatggattccatagggtggactctgtctccggtgca Alignment from Spaln_nt2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG tttggaactggctgaccaagattctcacactttgtcctcttattatttagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATCCTGCTGGAGgtaacatcaaaacagatggcaatgtaagaaacttggaaatggattccatagggtggactctgtctccggtgca Alignment from Pairagon TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG---------------------AT tttggaactggctgaccaagattctcacactttgtcctcttattatttagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATCCTGCTGGAGGTAACATCAAAACAGATGGCAATgtaagaaacttggaaatggattccatagggtggactctgtctccggtgca Alignment from Exonerate_protein2genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGATAGGTGCCAAGGGCAAGCCGTA tttggaactggctgaccaagattctcacactttgtcctcttattatttagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATCCTGCTGGAGGTAACATCAAAACAGATGGCAATgtaagaaacttggaaatggattccatagggtggactctgtctccggtgca Alignment from Exonerate_coding2genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGATAGGTGCCAAGGGCAAGCCGTA tttggaactggctgaccaagattctcacactttgtcctcttattatttagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATCCTGCTGGAGGTAACATCAAAACAGATGGCAATgtaagaaacttggaaatggattccatagggtggactctgtctccggtgca Alignment from GeneWise TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAG tttggaactggctgaccaagattctcacactttgtcctcttattatttagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGACCAGATATTGACAAGATCCTGCTGGAGgtaacatcaaaacagatggcaatgtaagaaacttggaaatggattccatagggtggactctgtctccggtgca #### Plcb3_ID1925_6 --> 1 - 2 Original Alignment a---------TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGaa tttgtttcactgacaagacccaaggaccttgttaacatttgtattcccagaTTACGACTGTACACAAAGCTGAAGCTGCAGGTCAATCAGGACGGGCGGATTCCAGTCAAGaagtgagctcccatgccccgtagcatcttccctgctgccctgacaccggtga Alignment from CESAR a---------TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGaa tttgtttcactgacaagacccaaggaccttgttaacatttgtattcccagaTTACGACTGTACACAAAGCTGAAGCTGCAGGTCAATCAGGACGGGCGGATTCCAGTCAAGaagtgagctcccatgccccgtagcatcttccctgctgccctgacaccggtga Alignment from Spaln_aa2Genome ATACACGAAG---------CTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtttcactgacaagacccaaggaccttgttaacatttgtattcccagATTACGACTGTACACAAAGCTGAAGCTGCAGGTCAATCAGGACGGGCGGATTCCAGTCAAGAAgtgagctcccatgccccgtagcatcttccctgctgccctgacaccggtga Alignment from Spaln_nt2Genome ATACACGAAGCT---------GAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtttcactgacaagacccaaggaccttgttaacatttgtattcccagATTACGACTGTACACAAAGCTGAAGCTGCAGGTCAATCAGGACGGGCGGATTCCAGTCAAGAAgtgagctcccatgccccgtagcatcttccctgctgccctgacaccggtga Alignment from Pairagon A---------TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtttcactgacaagacccaaggaccttgttaacatttgtattcccagATTACGACTGTACACAAAGCTGAAGCTGCAGGTCAATCAGGACGGGCGGATTCCAGTCAAGAAgtgagctcccatgccccgtagcatcttccctgctgccctgacaccggtga Alignment from Exonerate_protein2genome G---AAAGCATACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtttcactgacaagacccaaggaccttgttaacatttgtattcccagATTACGACTGTACACAAAGCTGAAGCTGCAGGTCAATCAGGACGGGCGGATTCCAGTCAAGAAgtgagctcccatgccccgtagcatcttccctgctgccctgacaccggtga Alignment from Exonerate_coding2genome G---AAAGCATACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtttcactgacaagacccaaggaccttgttaacatttgtattcccagATTACGACTGTACACAAAGCTGAAGCTGCAGGTCAATCAGGACGGGCGGATTCCAGTCAAGAAgtgagctcccatgccccgtagcatcttccctgctgccctgacaccggtga Alignment from GeneWise -------GCATACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA tttgtttcactgacaagacccaaggaccttgttaacatttgtattcccagATTACGACTGTACACAAAGCTGAAGCTGCAGGTCAATCAGGACGGGCGGATTCCAGTCAAGAAgtgagctcccatgccccgtagcatcttccctgctgccctgacaccggtga #### Pnliprp1_ID12765_2 --> 2 - 0 Original Alignment gg------------------------------------AAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagccttttatggtttatatttcagggCTTAAAAGGGAGGGCGATCTGTATCAAAATCCCTTAAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGCACAGCCATTAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGgtaaagcttcatgagccctaggaacactttgtagtctactgacccattct Alignment from CESAR aatgacttaaaaagacccgtgtatgtcagtagcacattttaggctaccaat Alignment from Spaln_aa2Genome AGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagccttttatggtttatatttcagggcttaaaagggagggcgatctgtatcaaaatcccttaaaagAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGCACAGCCATTAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGgtaaagcttcatgagccctaggaacactttgtagtctactgacccattct Alignment from Spaln_nt2Genome AGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagccttttatggtttatatttcagggcttaaaagggagggcgatctgtatcaaaatcccttaaaagAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGCACAGCCATTAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGgtaaagcttcatgagccctaggaacactttgtagtctactgacccattct Alignment from Pairagon GG------------------------------------AAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagccttttatggtttatatttcagGGCTTAAAAGGGAGGGCGATCTGTATCAAAATCCCTTAAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGCACAGCCATTAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGgtaaagcttcatgagccctaggaacactttgtagtctactgacccattct Alignment from Exonerate_protein2genome AGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagccttttatggtttatatttcagggcttaaaagggagggcgatctgtatcaaaatcccttaaaagAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGCACAGCCATTAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGgtaaagcttcatgagccctaggaacactttgtagtctactgacccattct Alignment from Exonerate_coding2genome AGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagccttttatggtttatatttcagggcttaaaagggagggcgatctgtatcaaaatcccttaaaagAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGCACAGCCATTAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGgtaaagcttcatgagccctaggaacactttgtagtctactgacccattct Alignment from GeneWise -----TGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagccttttatggtttatatttcagggcttaaaagggagggcgatctgtatcaaaatcccttaaaagAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGCACAGCCATTAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGgtaaagcttcatgagccctaggaacactttgtagtctactgacccattct #### Pola2_ID1324_16 --> 1 - 2 Original Alignment cTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAag gcactgattagtaacctgtcttatccccacaatactttgtcttttcttagcTCTTTAGGGACACCAGATAGATTCAGCAGAGTCCTTAAGCACATTCTGACACAG---aggtaagcggggatgtccttccaaccacaagaggaatggaccatatttacta Alignment from CESAR cTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAag gcactgattagtaacctgtcttatccccacaatactttgtcttttcttagcTCTTTAGGGACACCAGATAGATTCAGCAGAGTCCTTAAGCACATTCTGACACAG---aggtaagcggggatgtccttccaaccacaagaggaatggaccatatttacta Alignment from Spaln_aa2Genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAGT gcactgattagtaacctgtcttatccccacaatactttgtcttttcttagCTCTTTAGGGACACCAGATAGATTCAGCAGAGTCCTTAAGCACATTCTGACACAGAGg taagcggggatgtccttccaaccacaagaggaatggaccatattta Alignment from Spaln_nt2Genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAG gcactgattagtaacctgtcttatccccacaatactttgtcttttcttagCTCTTTAGGGACACCAGATAGATTCAGCAGAGTCCTTAAGCACATTCTGACACAGAGgtaagcggggatgtccttccaaccacaagaggaatggaccatatttacta Alignment from Pairagon CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAG gcactgattagtaacctgtcttatccccacaatactttgtcttttcttagCTCTTTAGGGACACCAGATAGATTCAGCAGAGTCCTTAAGCACATTCTGACACAGAGgtaagcggggatgtccttccaaccacaagaggaatggaccatatttacta Alignment from Exonerate_protein2genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG gcactgattagtaacctgtcttatccccacaatactttgtcttttcttagCTCTTTAGGGACACCAGATAGATTCAGCAGAGTCCTTAAGCACATTCTGACACAG---AGgtaagcggggatgtccttccaaccacaagaggaatggaccatatttacta Alignment from Exonerate_coding2genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG gcactgattagtaacctgtcttatccccacaatactttgtcttttcttagCTCTTTAGGGACACCAGATAGATTCAGCAGAGTCCTTAAGCACATTCTGACACAG---AGgtaagcggggatgtccttccaaccacaagaggaatggaccatatttacta Alignment from GeneWise CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAG gcactgattagtaacctgtcttatccccacaatactttgtcttttcttagCTCTTTAGGGACACCAGATAGATTCAGCAGAGTCCTTAAGCACATTCTGACACAGAGgtaagcggggatgtccttccaaccacaagaggaatggaccatatttacta #### Pold4_ID437_2 --> 2 - 1 Original Alignment ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg gtagtacaaaggcttagatgagcaggggtacaagtttcccctctgcccagggGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACCTGGCAGTATGGGCCT------ggtgaggagaccgatcccctgtaaccacccttgaatcagtctttcatgaag Alignment from CESAR ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg gtagtacaaaggcttagatgagcaggggtacaagtttcccctctgcccagggGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACCTGGCAGTATGGGCCT------ggtgaggagaccgatcccctgtaaccacccttgaatcagtctttcatgaag Alignment from Spaln_aa2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCT- gtagtacaaaggcttagatgagcaggggtacaagtttcccctctgcccagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACCTGGCAGTATGGGCCTGgtgaggagaccgatcccctgtaaccacccttgaatcagtctttcatgaag Alignment from Spaln_nt2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gtagtacaaaggcttagatgagcaggggtacaagtttcccctctgcccagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACCTGGCAGTATGGGCCT------Ggtgaggagaccgatcccctgtaaccacccttgaatcagtctttcatgaag Alignment from Pairagon GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG gtagtacaaaggcttagatgagcaggggtacaagtttcccctctgcccagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACCTGGCAGTATGGGCCT------Ggtgaggagaccgatcccctgtaaccacccttgaatcagtctttcatgaag Alignment from Exonerate_protein2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTT gtagtacaaaggcttagatgagcaggggtacaagtttcccctctgcccagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACCTGGCAGTATGGGCCTGgtgaggagaccgatcccctgtaaccacccttgaatcagtctttcatgaag Alignment from Exonerate_coding2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTT gtagtacaaaggcttagatgagcaggggtacaagtttcccctctgcccagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACCTGGCAGTATGGGCCTGgtgaggagaccgatcccctgtaaccacccttgaatcagtctttcatgaag Alignment from GeneWise GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTT gtagtacaaaggcttagatgagcaggggtacaagtttcccctctgcccagGGGAAGACACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACCTGGCAGTATGGGCCTGgtgaggagaccgatcccctgtaaccacccttgaatcagtctttcatgaag #### Pold4_ID438_3 --> 2 - 2 Original Alignment gt---------ATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag catgccactaccaccccctgcctgtcacccccttgttctctctcaatcaggtGCCACATTCATCACTAGGCTGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCaggtgagtatagacccagacagcttcctcctggttatgtaggagctcacctg Alignment from CESAR gt---------ATCACAAGGCTG---CAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag catgccactaccaccccctgcctgtcacccccttgttctctctcaatcaggtGCCACATTCATCACTAGGCTGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCaggtgagtatagacccagacagcttcctcctggttatgtaggagctcacctg Alignment from Spaln_aa2Genome GT---------ATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcctgtcacccccttgttctctctcaatcagGTGCCACATTCATCACTAGGCTGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCAGgtgagtatagacccagacagcttcctcctggttatgtaggagctcacctg Alignment from Spaln_nt2Genome GT---------ATCACAAGGCTGC---AGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcctgtcacccccttgttctctctcaatcagGTGCCACATTCATCACTAGGCTGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCAGgtgagtatagacccagacagcttcctcctggttatgtaggagctcacctg Alignment from Pairagon GT---------ATCACAAG---GCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcctgtcacccccttgttctctctcaatcagGTGCCACATTCATCACTAGGCTGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCAGgtgagtatagacccagacagcttcctcctggttatgtaggagctcacctg Alignment from Exonerate_protein2genome GTATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcctgtcacccccttgttctctctcaatcaggtgccacatTCATCACTAGGCTGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCAGgtgagtatagacccagacagcttcctcctggttatgtaggagctcacctg Alignment from Exonerate_coding2genome GTATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG catgccactaccaccccctgcctgtcacccccttgttctctctcaatcaggtgccacatTCATCACTAGGCTGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCAGgtgagtatagacccagacagcttcctcctggttatgtaggagctcacctg Alignment from GeneWise ----CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGC catgccactaccaccccctgcctgtcacccccttgttctctctcaatcaggtgccacattcatcactagGCTGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCaggtgagtatagacccagacagcttcctcctggttatgtaggagctcacctg #### Polr2g_ID2378_5 --> 0 - 0 Original Alignment TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG gcctggttcctggaagtcactgatccggggtctgtctcctcccgttccag---------TCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATAAGACCATGGATGAAgtactggagcatggaggagagggagagatgaagggtgaggaaagcaacac Alignment from CESAR TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG gtctagagttcctggttcctggaagcggggtctgtctcctcccgttccag---------TCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATAAGACCATGGATGAAgtactggagcatggaggagagggagagatgaagggtgaggaaagcaacac Alignment from Spaln_aa2Genome TCCCT TCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG GCCTGgttcctggaagtcactgatccggggtctgtctcctcccgttccagTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATAAGACCATGGATGAAgtactggagcatggaggagagggagagatgaagggtgaggaaagcaacac Alignment from Spaln_nt2Genome TCCCT TCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG GCCTGgttcctggaagtcactgatccggggtctgtctcctcccgttccagTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATAAGACCATGGATGAAgtactggagcatggaggagagggagagatgaagggtgaggaaagcaacac Alignment from Pairagon TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG gcctggttcctggaagtcactgatccggggtctgtctcctcccgttccag---------TCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATAAGACCATGGATGAAgtactggagcatggaggagagggagagatgaagggtgaggaaagcaacac Alignment from Exonerate_protein2genome TCCCT TCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG GCCTGgttcctggaagtcactgatccggggtctgtctcctcccgttccagTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATAAGACCATGGATGAAgtactggagcatggaggagagggagagatgaagggtgaggaaagcaacac Alignment from Exonerate_coding2genome TCCCT TCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG GCCTGgttcctggaagtcactgatccggggtctgtctcctcccgttccagTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATAAGACCATGGATGAAgtactggagcatggaggagagggagagatgaagggtgaggaaagcaacac Alignment from GeneWise TCCCT TCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG GCCTGgttcctggaagtcactgatccggggtctgtctcctcccgttccagTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATAAGACCATGGATGAAgtactggagcatggaggagagggagagatgaagggtgaggaaagcaacac #### Polr2g_ID2381_2 --> 0 - 2 Original Alignment ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGG---------aa tcctgtcccccgtgcagctggctaaggtcgtttctgtctgtctcatacagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCGTTTACTGAGGTGGAGGGGACCTGCACTGGGAAGGTATATaagtaggtctcctcttcacagcaggttctgttgaatgcgtcaataatgacac Alignment from CESAR ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGG---------aa tcctgtcccccgtgcagctggctaaggtcgtttctgtctgtctcatacagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCGTTTACTGAGGTGGAGGGGACCTGCACTGGGAAGGTATATaagtaggtctcctcttcacagcaggttctgttgaatgcgtcaataatgacac Alignment from Spaln_aa2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAAA-------- tcctgtcccccgtgcagctggctaaggtcgtttctgtctgtctcatacagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCGTTTACTGAGGTGGAGGGGACCTGCACTGGGAAGGTATATAAgtaggtctcctcttcacagcaggttctgttgaatgcgtcaataatgacac Alignment from Spaln_nt2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA- tcctgtcccccgtgcagctggctaaggtcgtttctgtctgtctcatacagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCGTTTACTGAGGTGGAGGGGACCTGCACTGGGAAGgtatataagtaggtctcctcttcacagcaggttctgttgaatgcgtcaataatgacac Alignment from Pairagon CACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA--------- tcctgtcccccgtgcagctggctaaggtcgtttctgtctgtctcataCAGATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCGTTTACTGAGGTGGAGGGGACCTGCACTGGGAAGGTATATAAgtaggtctcctcttcacagcaggttctgttgaatgcgtcaataatgacac Alignment from Exonerate_protein2genome CACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtcccccgtgcagctggctaaggtcgtttctgtctgtctcataCAGATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCGTTTACTGAGGTGGAGGGGACCTGCACTGGGAAggtatataagtaggtctcctcttcacagcaggttctgttgaatgcgtcaataatgacac Alignment from Exonerate_coding2genome CACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtcccccgtgcagctggctaaggtcgtttctgtctgtctcataCAGATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCGTTTACTGAGGTGGAGGGGACCTGCACTGGGAAggtatataagtaggtctcctcttcacagcaggttctgttgaatgcgtcaataatgacac Alignment from GeneWise TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAAA tcctgtcccccgtgcagctggctaaggtcgtttctgtctgtCTCATACAGATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCGTTTACTGAGGTGGAGGGGACCTGCACTGGGAAGgtatataagtaggtctcctcttcacagcaggttctgttgaatgcgtcaataatgacac #### Ppp1ca_ID409_3 --> 2 - 1 Original Alignment gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAA---------t cacccagtttacttaatatacttccttatctgcctttctcccttggacaggtGACATCCAGGGACAGTACTATGACCTTCTACACCTGTTTGAATATGGTGGCTTCCCACCAGAGAGCAACTACCTCTTCCTGGGGGATTATTTAGACCGCGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACCTAGAGAATTTCTATGTACTTCGTGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCAGACGGACACtgtgagagatttgaactctgacatcttcctggctcatttgtggctgttagg Alignment from CESAR gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAA---------t cacccagtttacttaatatacttccttatctgcctttctcccttggacaggtGACATCCAGGGACAGTACTATGACCTTCTACACCTGTTTGAATATGGTGGCTTCCCACCAGAGAGCAACTACCTCTTCCTGGGGGATTATTTAGACCGCGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACCTAGAGAATTTCTATGTACTTCGTGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCAGACGGACACtgtgagagatttgaactctgacatcttcctggctcatttgtggctgttagg Alignment from Spaln_aa2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAA---------T cacccagtttacttaatatacttccttatctgcctttctcccttggacagGTGACATCCAGGGACAGTACTATGACCTTCTACACCTGTTTGAATATGGTGGCTTCCCACCAGAGAGCAACTACCTCTTCCTGGGGGATTATTTAGACCGCGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACCTAGAGAATTTCTATGTACTTCGTGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCAGACGGACACTgtgagagatttgaactctgacatcttcctggctcatttgtggctgttagg Alignment from Spaln_nt2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAA---------T cacccagtttacttaatatacttccttatctgcctttctcccttggacagGTGACATCCAGGGACAGTACTATGACCTTCTACACCTGTTTGAATATGGTGGCTTCCCACCAGAGAGCAACTACCTCTTCCTGGGGGATTATTTAGACCGCGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACCTAGAGAATTTCTATGTACTTCGTGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCAGACGGACACTgtgagagatttgaactctgacatcttcctggctcatttgtggctgttagg Alignment from Pairagon GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATG---------AAT cacccagtttacttaatatacttccttatctgcctttctcccttggacagGTGACATCCAGGGACAGTACTATGACCTTCTACACCTGTTTGAATATGGTGGCTTCCCACCAGAGAGCAACTACCTCTTCCTGGGGGATTATTTAGACCGCGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACCTAGAGAATTTCTATGTACTTCGTGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCAGACGGACACTgtgagagatttgaactctgacatcttcctggctcatttgtggctgttagg Alignment from Exonerate_protein2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT cacccagtttacttaatatacttccttatctgcctttctcccttggacagGTGACATCCAGGGACAGTACTATGACCTTCTACACCTGTTTGAATATGGTGGCTTCCCACCAGAGAGCAACTACCTCTTCCTGGGGGATTATTTAGACCGCGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACCTAGAGAATTTCTATGTACTTCGTGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCAGacggacactgtgagagatttgaactctgacatcttcctggctcatttgtggctgttagg Alignment from Exonerate_coding2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT cacccagtttacttaatatacttccttatctgcctttctcccttggacagGTGACATCCAGGGACAGTACTATGACCTTCTACACCTGTTTGAATATGGTGGCTTCCCACCAGAGAGCAACTACCTCTTCCTGGGGGATTATTTAGACCGCGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACCTAGAGAATTTCTATGTACTTCGTGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCAGacggacactgtgagagatttgaactctgacatcttcctggctcatttgtggctgttagg Alignment from GeneWise GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAA---------T cacccagtttacttaatatacttccttatctgcctttctcccttggacagGTGACATCCAGGGACAGTACTATGACCTTCTACACCTGTTTGAATATGGTGGCTTCCCACCAGAGAGCAACTACCTCTTCCTGGGGGATTATTTAGACCGCGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACCTAGAGAATTTCTATGTACTTCGTGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCAGACGGACACTgtgagagatttgaactctgacatcttcctggctcatttgtggctgttagg #### Ppp1ca_ID412_6 --> 0 - 0 Original Alignment GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG catggtctcatgcctaacttaaagagtaggttttgtctgatctgattcagGTTGTA---GGTGGATATGAGTTCTTTGCAAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAACTACTGTGGAGAGTTTGAAAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATATGCTCCAGAGCT------gtgagctaagctgtggggaatagcctgtccttagaatctggctcaacctt Alignment from CESAR GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG catggtctcatgcctaacttaaagagtaggttttgtctgatctgattcagGTTGTA---GGTGGATATGAGTTCTTTGCAAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAACTACTGTGGAGAGTTTGAAAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATATGCTCCAGAGCTgtgagctaagctgtggggaatagcctgtccttagaatctggctcaaccct Alignment from Spaln_aa2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG catggtctcatgcctaacttaaagagtaggttttgtctgatctgattcagGTTGTA---GGTGGATATGAGTTCTTTGCAAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAACTACTGTGGAGAGTTTGAAAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATATGCTCCAGAGCTgtgagctaagctgtggggaatagcctgtccttagaatctggctcaacctt Alignment from Spaln_nt2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG catggtctcatgcctaacttaaagagtaggttttgtctgatctgattcagGTTGT---AGGTGGATATGAGTTCTTTGCAAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAACTACTGTGGAGAGTTTGAAAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATATGCTCCAGAGCTgtgagctaagctgtggggaatagcctgtccttagaatctggctcaacctt Alignment from Pairagon GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC-------------------------------------------------------- catggtctcatgcctaacttaaagagtaggttttgtctgatctgattcagGTTGT---AGGTGGATATGAGTTCTTTGCAAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAACTACTGTGGAGAGTTTGAAAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATATGCTCCAGAGCTGTGAGCTAAGCTGTGGGGAATAGCCTGTCCTTAGAATCTGGCTCAACCTT Alignment from Exonerate_protein2genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG catggtctcatgcctaacttaaagagtaggttttgtctgatctgattcagGTTGTA---GGTGGATATGAGTTCTTTGCAAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAACTACTGTGGAGAGTTTGAAAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATATGCTCCAGAGCTgtgagctaagctgtggggaatagcctgtccttagaatctggctcaacctt Alignment from Exonerate_coding2genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG catggtctcatgcctaacttaaagagtaggttttgtctgatctgattcagGTTGTA---GGTGGATATGAGTTCTTTGCAAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAACTACTGTGGAGAGTTTGAAAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATATGCTCCAGAGCTgtgagctaagctgtggggaatagcctgtccttagaatctggctcaacctt Alignment from GeneWise GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG catggtctcatgcctaacttaaagagtaggttttgtctgatctgattcagGTTGTA---GGTGGATATGAGTTCTTTGCAAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAACTACTGTGGAGAGTTTGAAAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATATGCTCCAGAGCTgtgagctaagctgtggggaatagcctgtccttagaatctggctcaacctt #### Ppp1r32_ID2844_7 --> 0 - 0 Original Alignment GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG tgcaacacacatctactctctactgttttggcctcttctttctctcccag---CTTCATCCAGGTCGAAGTATCACCAAGTCAGACTACCTTCCTCTAACTCACCCTCAGgtaagtactgctccgctaaggggacagggctgcctatgggtacaactatg Alignment from CESAR GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG gtctgcaacacacatctactctctattttggcctcttctttctctcccag---CTTCATCCAGGTCGAAGTATCACCAAGTCAGACTACCTTCCTCTAACTCACCCTCAGgtaagtactgctccgctaaggggacagggctgcctatgggtacaactatg Alignment from Spaln_aa2Genome GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG tgcaacacacatctactctctactgttttggcctcttctttctctcccagCTTCATCCA---GGTCGAAGTATCACCAAGTCAGACTACCTTCCTCTAACTCACCCTCAGgtaagtactgctccgctaaggggacagggctgcctatgggtacaactatg Alignment from Spaln_nt2Genome CTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG tgcaacacacatctactctctactgttttggcctcttctttctctcccagCTTCATCCAGGTCGAAGTATCACCAAGTCAGACTACCTTCCTCTAACTCACCCTCAGgtaagtactgctccgctaaggggacagggctgcctatgggtacaactatg Alignment from Pairagon GTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG tgcaacacacatctactctctactgttttggcctcttctttctctcccag---CTTCATCCAGGTCGAAGTATCACCAAGTCAGACTACCTTCCTCTAACTCACCCTCAGgtaagtactgctccgctaaggggacagggctgcctatgggtacaactatg Alignment from Exonerate_protein2genome CTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG tgcaacacacatctactctctactgttttggcctcttctttctctcccagCTTCATCCAGGTCGAAGTATCACCAAGTCAGACTACCTTCCTCTAACTCACCCTCAGgtaagtactgctccgctaaggggacagggctgcctatgggtacaactatg Alignment from Exonerate_coding2genome CTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG tgcaacacacatctactctctactgttttggcctcttctttctctcccagCTTCATCCAGGTCGAAGTATCACCAAGTCAGACTACCTTCCTCTAACTCACCCTCAGgtaagtactgctccgctaaggggacagggctgcctatgggtacaactatg Alignment from GeneWise CTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAACTCACCCTCAG tgcaacacacatctactctctactgttttggcctcttctttctctcccagCTTCATCCAGGTCGAAGTATCACCAAGTCAGACTACCTTCCTCTAACTCACCCTCAGgtaagtactgctccgctaaggggacagggctgcctatgggtacaactatg #### Ppp1r32_ID2845_6 --> 2 - 0 Original Alignment atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT catgggatgaaggatggagacctgaagctcagtgtttctatctcttacagatCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCT---------gtaagagtgacacggtagaatgtttaagggtccaacttgacagttcacaa Alignment from CESAR atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT catgggatgaaggatggagacctgaagctcagtgtttctatctcttacagatCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTC---------CCTgtaagagtgacacggtagaatgtttaagggtccaacttgacagttcacaa Alignment from Spaln_aa2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT catgggatgaaggatggagacctgaagctcagtgtttctatctcttacagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGTA---AGAgtgacacggtagaatgtttaagggtccaacttgacagttca Alignment from Spaln_nt2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTG-----GGGACCCT catgggatgaaggatggagacctgaagctcagtgtttctatctcttacagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGTAAGAGTGACACGgtagaatgtttaagggtccaacttgacagttcacaa Alignment from Pairagon ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT catgggatgaaggatggagacctgaagctcagtgtttctatctcttacagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTT---------CCCTgtaagagtgacacggtagaatgtttaagggtccaacttgacagttcacaa Alignment from Exonerate_protein2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT catgggatgaaggatggagacctgaagctcagtgtttctatctcttacagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGTAAGAGTGacacggtagaatgtttaagggtccaacttgacagttcacaa Alignment from Exonerate_coding2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT catgggatgaaggatggagacctgaagctcagtgtttctatctcttacagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGTAAGAGTGacacggtagaatgtttaagggtccaacttgacagttcacaa Alignment from GeneWise ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT catgggatgaaggatggagacctgaagctcagtgtttctatctcttacagATCTCTTGCTCAAGAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTC---------CCTgtaagagtgacacggtagaatgtttaagggtccaacttgacagttcacaa #### Pprc1_ID9716_4 --> 0 - 0 Original Alignment CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG--- CAGCTCGAGAGAGTTCATCTgttagtaatactcccccactcgcccaccagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAACGCGATCTTATCACCCCGATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAAAgtaagagatctaggaaccttctgacagagggcgagggcgtggataggcag Alignment from CESAR CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG--- CAGCTCGAGAGAGTTCATCTgtatgtaatactcccccactcgcccaccagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAACGCGATCTTATCACCCCGATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAAAgtaagagatctaggaaccttctgacagagggcgagggcgtggataggcag Alignment from Spaln_aa2Genome CCCCTCGGGAGAGCTCCTCT------------------------------CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG--- CAGCTCGAGAGAGTTCATCTGTTAGTAATACTCCCCCACTCGCCCACCAGTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAACGCGATCTTATCACCCCGATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAAAgtaagagatctaggaaccttctgacagagggcgagggcgtggataggcag Alignment from Spaln_nt2Genome CCCCTCGGGAGA GCTCCTCTCTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGG CAGCTCGAGAGAgttcatctgttagtaatactcccccactcgcccaccag--------TTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAACGCGATCTTATCACCCCGATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTG-gtaaagtaagagatctaggaaccttctgacagagggcgagggcgtggataggcag Alignment from Pairagon CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGG------------------------------------------------------ CAGCTCGAGAGAGTTCATCTgttagtaatactcccccactcgcccaccagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAACGCGATCTTATCACCCCGATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAAAGTAAGAGATCTAGGAACCTTCTGACAGAGGGCGAGGGCGTGGATAGGCAG Alignment from Exonerate_protein2genome CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG--- CAGCTCGAGAGAGTTCATCTgttagtaatactcccccactcgcccaccagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAACGCGATCTTATCACCCCGATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAAAgtaagagatctaggaaccttctgacagagggcgagggcgtggataggcag Alignment from Exonerate_coding2genome CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG--- CAGCTCGAGAGAGTTCATCTgttagtaatactcccccactcgcccaccagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAACGCGATCTTATCACCCCGATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAAAgtaagagatctaggaaccttctgacagagggcgagggcgtggataggcag Alignment from GeneWise CCCCTCGGGAGAGCTCCTCT------------------------------CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGGGTT CAGCTCGAGAGAGTTCATCTGTTAGTAATACTCCCCCACTCGCCCACCAGTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAACGCGATCTTATCACCCCGATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAAAgtaagagatctaggaaccttctgacagagggcgagggcgtggataggcag #### Pprc1_ID9724_12 --> 0 - 2 Original Alignment GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAgg gtagatgcagcttgaagtccatactaaagtccctcttcctttccttttag---------AGGGTGGTCTTCATTGGGAAAATACCTGGCCGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCATTTTAGGGTGCAAgggtgaggcataaaggcaggttctctctgttgcgttttcctgttgaaattta Alignment from CESAR GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAgg tcaacagctgtagatgcagcttgaaaaagtccctcttcctttccttttag---------AGGGTGGTCTTCATTGGGAAAATACCTGGCCGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCATTTTAGGGTGCAAgggtgaggcataaaggcaggttctctctgttgcgttttcctgttgaaattta Alignment from Spaln_aa2Genome AGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gtagatgcagcttgaagtccatactaaagtccctcttcctttccttttagAGGGTGGTCTTCATTGGGAAAATACCTGGCCGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCATTTTAGGGTGCAAGGgtgaggcataaaggcaggttctctctgttgcgttttcctgttgaaattta Alignment from Spaln_nt2Genome AGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gtagatgcagcttgaagtccatactaaagtccctcttcctttccttttagAGGGTGGTCTTCATTGGGAAAATACCTGGCCGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCATTTTAGGGTGCAAGGgtgaggcataaaggcaggttctctctgttgcgttttcctgttgaaattta Alignment from Pairagon GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gtagatgcagcttgaagtccatactaaagtccctcttcctttccttttag---------AGGGTGGTCTTCATTGGGAAAATACCTGGCCGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCATTTTAGGGTGCAAGGgtgaggcataaaggcaggttctctctgttgcgttttcctgttgaaattta Alignment from Exonerate_protein2genome GGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gtagatgcagcttgaagtccatactaaagtccctcttcctttccttttagagGGTGGTCTTCATTGGGAAAATACCTGGCCGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCATTTTAGGGTGCAAGGgtgaggcataaaggcaggttctctctgttgcgttttcctgttgaaattta Alignment from Exonerate_coding2genome GGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gtagatgcagcttgaagtccatactaaagtccctcttcctttccttttagagGGTGGTCTTCATTGGGAAAATACCTGGCCGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCATTTTAGGGTGCAAGGgtgaggcataaaggcaggttctctctgttgcgttttcctgttgaaattta Alignment from GeneWise AGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGG gtagatgcagcttgaagtccatactaaagtccctcttcctttccttttagAGGGTGGTCTTCATTGGGAAAATACCTGGCCGGATGACTCGGTCAGAGCTTAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATCCATTTTAGGGTGCAAGGgtgaggcataaaggcaggttctctctgttgcgttttcctgttgaaattta #### Prdx5_ID1852_5 --> 0 - 2 Original Alignment GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---------------ag ccgcaaataataggaccgtccttgtgccctggcttctcctgaccttgcagGTGACAGACCTATTATTGGATGATTCGCTGGTTTCTCTCTGTGGGAACCATTGGCTGAAAGACGTACAATTATATaggtaagagagacctctccacctcagcctcccccccataccgactggtggta Alignment from CESAR GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---------------ag ccgcaaataataggaccgtccttgtgccctggcttctcctgaccttgcagGTGACAGACCTATTATTGGATGATTCGCTGGTTTCTCTCTGTGGGAACCATTGGCTGAAAGACGTACAATTATATaggtaagagagacctctccacctcagcctcccccccataccgactggtggta Alignment from Spaln_aa2Genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAGG-------------- ccgcaaataataggaccgtccttgtgccctggcttctcctgaccttgcagGTGACAGACCTATTATTGGATGATTCGCTGGTTTCTCTCTGTGGGAACCATTGGCTGAAAGACGTACAATTATATAGgtaagagagacctctccacctcagcctcccccccataccgactggtggta Alignment from Spaln_nt2Genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA-AG ccgcaaataataggaccgtccttgtgccctggcttctcctgaccttgcagGTGACAGACCTATTATTGGATGATTCGCTGGTTTCTCTCTGTGGGAACCATTGGCTGAAAGACgtacaattatataggtaagagagacctctccacctcagcctcccccccataccgactggtggta Alignment from Pairagon GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---------------AG ccgcaaataataggaccgtccttgtgccctggcttctcctgaccttgcagGTGACAGACCTATTATTGGATGATTCGCTGGTTTCTCTCTGTGGGAACCATTGGCTGAAAGACGTACAATTATATAGgtaagagagacctctccacctcagcctcccccccataccgactggtggta Alignment from Exonerate_protein2genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAGG ccgcaaataataggaccgtccttgtgccctggcttctcctgaccttgcagGTGACAGACCTATTATTGGATGATTCGCTGGTTTCTCTCTGTGGGAACCATTGGCTGAAAGACgtacaattatataggtaagagagacctctccacctcagcctcccccccataccgactggtggta Alignment from Exonerate_coding2genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAGG ccgcaaataataggaccgtccttgtgccctggcttctcctgaccttgcagGTGACAGACCTATTATTGGATGATTCGCTGGTTTCTCTCTGTGGGAACCATTGGCTGAAAGACgtacaattatataggtaagagagacctctccacctcagcctcccccccataccgactggtggta Alignment from GeneWise GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---------------AG ccgcaaataataggaccgtccttgtgccctggcttctcctgaccttgcagGTGACAGACCTATTATTGGATGATTCGCTGGTTTCTCTCTGTGGGAACCATTGGCTGAAAGACGTACAATTATATAGgtaagagagacctctccacctcagcctcccccccataccgactggtggta #### Prdx5_ID1853_4 --> 0 - 0 Original Alignment ------GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG ctgagagtcggcacctccactcaccaagcccgcatggctcccatttccagGAATTAGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagagtaccttgccatgcaatcagtctttgaaggacacatatacaggg Alignment from CESAR ------GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG ctgagagtcggcacctccactcaccaagcccgcatggctcccatttccagGAATTAGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagagtaccttgccatgcaatcagtctttgaaggacacatatacaggg Alignment from Spaln_aa2Genome GTTCGGCTCCTGGCT------GACCCCACTGGAGCCTTTGGGAAG ctgagagtcggcacctccactcaccaagcccgcatggctcccatttccagGAATTAGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagagtaccttgccatgcaatcagtctttgaaggacacatatacaggg Alignment from Spaln_nt2Genome GCAAGGTTCGGCTCCT-GGCTGACCCCACTGGAGCCTTTGGGAAG ctgagagtcggcacctccactcaccaagcccgcatggctcccatttccagGAATTAGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagagtaccttgccatgcaatcagtctttgaaggacacatatacaggg Alignment from Pairagon ------GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG ctgagagtcggcacctccactcaccaagcccgcatggctcccatttccagGAATTAGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagagtaccttgccatgcaatcagtctttgaaggacacatatacaggg Alignment from Exonerate_protein2genome ------GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG ctgagagtcggcacctccactcaccaagcccgcatggctcccatttccagGAATTAGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagagtaccttgccatgcaatcagtctttgaaggacacatatacaggg Alignment from Exonerate_coding2genome ------GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG ctgagagtcggcacctccactcaccaagcccgcatggctcccatttccagGAATTAGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagagtaccttgccatgcaatcagtctttgaaggacacatatacaggg Alignment from GeneWise ------GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG ctgagagtcggcacctccactcaccaagcccgcatggctcccatttccagGAATTAGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagagtaccttgccatgcaatcagtctttgaaggacacatatacaggg #### Prpf19_ID3043_2 --> 2 - 1 Original Alignment tcTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAg gatatagcttttctcctgtatacaccctaaaaaaatttcctatgttttagtcTCCAATGAAGTGCCAGAGCACCCATGCGTGTCACCTGTCTCTAACCATGTGTATGAGCAGCGACTTATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGAC------ggtaagtgagagggcctgctgcaggttcactgccagtgccactcagcctcc Alignment from CESAR tcTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAg gatatagcttttctcctgtatacaccctaaaaaaatttcctatgttttagtcTCCAATGAAGTGCCAGAGCACCCATGCGTGTCACCTGTCTCTAACCATGTGTATGAGCAGCGACTTATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGAC------ggtaagtgagagggcctgctgcaggttcactgccagtgccactcagcctcc Alignment from Spaln_aa2Genome TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGAC- gatatagcttttctcctgtatacaccctaaaaaaatttcctatgttttagTCTCCAATGAAGTGCCAGAGCACCCATGCGTGTCACCTGTCTCTAACCATGTGTATGAGCAGCGACTTATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACGgtaagtgagagggcctgctgcaggttcactgccagtgccactcagcctcc Alignment from Spaln_nt2Genome TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACA gatatagcttttctcctgtatacaccctaaaaaaatttcctatgttttagTCTCCAATGAAGTGCCAGAGCACCCATGCGTGTCACCTGTCTCTAACCATGTGTATGAGCAGCGACTTATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACGgtaagtgagagggcctgctgcaggttcactgccagtgccactcagcctcc Alignment from Pairagon TCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACATCAAAG gatatagcttttctcctgtatacaccctaaaaaaatttcctatgttttagTCTCCAATGAAGTGCCAGAGCACCCATGCGTGTCACCTGTCTCTAACCATGTGTATGAGCAGCGACTTATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGAC------Ggtaagtgagagggcctgctgcaggttcactgccagtgccactcagcctcc Alignment from Exonerate_protein2genome ATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACA gatatagcttttctcctgtatacaccctaaaaaaatttcctatgttttaGTCTCCAATGAAGTGCCAGAGCACCCATGCGTGTCACCTGTCTCTAACCATGTGTATGAGCAGCGACTTATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACGgtaagtgagagggcctgctgcaggttcactgccagtgccactcagcctcc Alignment from Exonerate_coding2genome ATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACA gatatagcttttctcctgtatacaccctaaaaaaatttcctatgttttaGTCTCCAATGAAGTGCCAGAGCACCCATGCGTGTCACCTGTCTCTAACCATGTGTATGAGCAGCGACTTATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACGgtaagtgagagggcctgctgcaggttcactgccagtgccactcagcctcc Alignment from GeneWise TCCCTGATCTGCTCGATCTCCAATGAAGTGCCAGAGCACCCGTGCGTGTCCCCTGTCTCTAATCATGTGTATGAGCGGCGACTCATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGAGCAGCTCATCGACA atagcttttctcctgtatacaccctaaaaaaattTCCTATGTTTTA---GTCTCCAATGAAGTGCCAGAGCACCCATGCGTGTCACCTGTCTCTAACCATGTGTATGAGCAGCGACTTATTGAGAAGTACATTGCAGAGAATGGCACAGATCCTATCAACAACCAGCCTCTCTCAGAGGGGCAGCTCATTGACGgtaagtgagagggcctgctgcaggttcactgccagtgccactcagcctcc #### Prpf19_ID3046_5 --> 2 - 0 Original Alignment ctCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--------------------- gggtcatatttcattgtaaagtccctatcaacctcctttcccattcccagccCTGGCCACTCTAAAACCACAAGCTGGCCTTATTGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGAAGGATTCTACGAAGGACCCTgtacgtcttccaccctcagggccctaccagcaaatgacacttcacaagag Alignment from CESAR ctCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG aagtcatatttcattgtaaagtccctatcaacctcctttcccattcccagccCTGGCCACTCTAAAACCACAAGCTGGCCTTATTGTACCTCAAGCTGTGCCAAGCTCACCACCCAGT---GTAgtgaaggattctacgaaggaccctgtacgtcttccaccctcagggccctaccagcaaatgacacttcacaagag Alignment from Spaln_aa2Genome CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTT gggtcatatttcattgtaaagtccctatcaacctcctttcccattcccagCCCTGGCCACTCTAAAACCACAAGCTGGCCTTATTGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAgtgaaggattctacgaaggaccctgtacgtcttccaccctcagggccctaccagcaaatgacacttcacaagag Alignment from Spaln_nt2Genome CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG---GGTGC-----AGGA---- gggtcatatttcattgtaaagtccctatcaacctcctttcccattcccagCCCTGGCCACTCTAAAACCACAAGCTGGCCTTATTGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGAAGGATTCTACGAAGGACCCTgtacgtcttccaccctcagggccctaccagcaaatgacacttcacaagag Alignment from Pairagon CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--------------------- gggtcatatttcattgtaaagtccctatcaacctcctttcccattcccagCCCTGGCCACTCTAAAACCACAAGCTGGCCTTATTGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGAAGGATTCTACGAAGGACCCTgtacgtcttccaccctcagggccctaccagcaaatgacacttcacaagag Alignment from Exonerate_protein2genome CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG gggtcatatttcattgtaaagtccctatcaacctcctttcccattcccagCCCTGGCCACTCTAAAACCACAAGCTGGCCTTATTGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGaaggattctacgaaggaccctgtacgtcttccaccctcagggccctaccagcaaatgacacttcacaagag Alignment from Exonerate_coding2genome CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG gggtcatatttcattgtaaagtccctatcaacctcctttcccattcccagCCCTGGCCACTCTAAAACCACAAGCTGGCCTTATTGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGaaggattctacgaaggaccctgtacgtcttccaccctcagggccctaccagcaaatgacacttcacaagag Alignment from GeneWise CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG gggtcatatttcattgtaaagtccctatcaacctcctttcccattcccagCCCTGGCCACTCTAAAACCACAAGCTGGCCTTATTGTACCTCAAGCTGTGCCAAGCTCACCACCCAGT---GTAgtgaaggattctacgaaggaccctgtacgtcttccaccctcagggccctaccagcaaatgacacttcacaagag #### Prpf19_ID3049_8 --> 0 - 0 Original Alignment ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgttgcttggggttttttaatctttcttccactttcagTCAAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctaaaggagtcccactgttccccaaacaacatggatgggtgag Alignment from CESAR ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgttgcttggggttttttaatctttcttccactttcagTCAAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctaaaggagtcccactgttccccaaacaacatggatgggtgag Alignment from Spaln_aa2Genome AGAGGAAAGACT---GTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgttgcttggggttttttaatctttcttccactttcagTCAAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctaaaggagtcccactgttccccaaacaacatggatgggtgag Alignment from Spaln_nt2Genome ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgttgcttggggttttttaatctttcttccactttcagTCAAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctaaaggagtcccactgttccccaaacaacatggatgggtgag Alignment from Pairagon ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgttgcttggggttttttaatctttcttccactttcagTCAAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctaaaggagtcccactgttccccaaacaacatggatgggtgag Alignment from Exonerate_protein2genome ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgttgcttggggttttttaatctttcttccactttcagTCAAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctaaaggagtcccactgttccccaaacaacatggatgggtgag Alignment from Exonerate_coding2genome ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgttgcttggggttttttaatctttcttccactttcagTCAAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctaaaggagtcccactgttccccaaacaacatggatgggtgag Alignment from GeneWise ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgttgcttggggttttttaatctttcttccactttcagTCAAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtgagtgctaaaggagtcccactgttccccaaacaacatggatgggtgag #### Prpf19_ID3050_9 --> 0 - 1 Original Alignment GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACT------g ctgggaggcaattaggcatgaacaggtcatatcatttccttctgtcacagGGTCTACACAGTGCTAGTATTCCCGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTCCAGATggtaagggtaggcctgactaaaacaattataatgaactatgggccctgcat Alignment from CESAR GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACT------g ctgggaggcaattaggcatgaacaggtcatatcatttccttctgtcacagGGTCTACACAGTGCTAGTATTCCCGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTCCAGATggtaagggtaggcctgactaaaacaattataatgaactatgggccctgcat Alignment from Spaln_aa2Genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACT------G ctgggaggcaattaggcatgaacaggtcatatcatttccttctgtcacagGGTCTACACAGTGCTAGTATTCCCGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTCCAGATGgtaagggtaggcctgactaaaacaattataatgaactatgggccctgcat Alignment from Spaln_nt2Genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACT------G ctgggaggcaattaggcatgaacaggtcatatcatttccttctgtcacagGGTCTACACAGTGCTAGTATTCCCGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTCCAGATGgtaagggtaggcctgactaaaacaattataatgaactatgggccctgcat Alignment from Pairagon GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCAC------TG ctgggaggcaattaggcatgaacaggtcatatcatttccttctgtcacagGGTCTACACAGTGCTAGTATTCCCGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTCCAGATGgtaagggtaggcctgactaaaacaattataatgaactatgggccctgcat Alignment from Exonerate_protein2genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACT------G ctgggaggcaattaggcatgaacaggtcatatcatttccttctgtcacagGGTCTACACAGTGCTAGTATTCCCGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTCCAGATGgtaagggtaggcctgactaaaacaattataatgaactatgggccctgcat Alignment from Exonerate_coding2genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACT------G ctgggaggcaattaggcatgaacaggtcatatcatttccttctgtcacagGGTCTACACAGTGCTAGTATTCCCGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTCCAGATGgtaagggtaggcctgactaaaacaattataatgaactatgggccctgcat Alignment from GeneWise GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACT------G ctgggaggcaattaggcatgaacaggtcatatcatttccttctgtcacagGGTCTACACAGTGCTAGTATTCCCGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTCCAGATGgtaagggtaggcctgactaaaacaattataatgaactatgggccctgcat #### Prpf19_ID3054_13 --> 2 - 0 Original Alignment ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cctgtagaccactgattatactacatgtcccttcttgttccggttctcagcc---ACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACTGGAACCATGGACTCCCAAATTAAGATTTGGGACCTAAAGgtaagtggacatatagacgcaaccggagggagtagtgggggggaattgat Alignment from CESAR ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG ggccctgtagaccactgattatacttgtcccttcttgttccggttctcagcc---ACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACTGGAACCATGGACTCCCAAATTAAGATTTGGGACCTAAAGgtaagtggacatatagacgcaaccggagggagtagtgggggggaattgat Alignment from Spaln_aa2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cctgtagaccactgattatactacatgtcccttcttgttccggttctcagCC---ACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACTGGAACCATGGACTCCCAAATTAAGATTTGGGACCTAAAGgtaagtggacatatagacgcaaccggagggagtagtgggggggaattgat Alignment from Spaln_nt2Genome CTT --ACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG CCTgtagaccactgattatactacatgtcccttcttgttccggttctcagCCACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACTGGAACCATGGACTCCCAAATTAAGATTTGGGACCTAAAGgtaagtggacatatagacgcaaccggagggagtagtgggggggaattgat Alignment from Pairagon CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cctgtagaccactgattatactacatgtcccttcttgttccggttctcagC---CACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACTGGAACCATGGACTCCCAAATTAAGATTTGGGACCTAAAGgtaagtggacatatagacgcaaccggagggagtagtgggggggaattgat Alignment from Exonerate_protein2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cctgtagaccactgattatactacatgtcccttcttgttccggttctcagCC---ACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACTGGAACCATGGACTCCCAAATTAAGATTTGGGACCTAAAGgtaagtggacatatagacgcaaccggagggagtagtgggggggaattgat Alignment from Exonerate_coding2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cctgtagaccactgattatactacatgtcccttcttgttccggttctcagCC---ACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACTGGAACCATGGACTCCCAAATTAAGATTTGGGACCTAAAGgtaagtggacatatagacgcaaccggagggagtagtgggggggaattgat Alignment from GeneWise CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cctgtagaccactgattatactacatgtcccttcttgttccggttctcagCC---ACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACTGGAACCATGGACTCCCAAATTAAGATTTGGGACCTAAAGgtaagtggacatatagacgcaaccggagggagtagtgggggggaattgat #### Prpf19_ID3055_14 --> 0 - 0 Original Alignment GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcttttcctcattaagtcagtcgattgagtaccccatatccgctcaatag---CATACTAATGTGGCGAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGTGTTCTCTGAGAATGGGTACTACTTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGTTGGACAACAACTTTGAGgtgagttattccccatttctactgctgtggttgagctatcacttgtgatg Alignment from CESAR GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcagcttttcctcattaagtcagtctgagtaccccatatccgctcaatag---CATACTAATGTGGCGAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGTGTTCTCTGAGAATGGGTACTACTTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGTTGGACAACAACTTTGAGgtgagttattccccatttctactgctgtggttgagctatcacttgtgatg Alignment from Spaln_aa2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcttttcctcattaagtcagtcgattgagtaccccatatccgctcaatag---CATACTAATGTGGCGAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGTGTTCTCTGAGAATGGGTACTACTTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGTTGGACAACAACTTTGAGgtgagttattccccatttctactgctgtggttgagctatcacttgtgatg Alignment from Spaln_nt2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcttttcctcattaagtcagtcgattgagtaccccatatccgctcaatag---CATACTAATGTGGCGAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGTGTTCTCTGAGAATGGGTACTACTTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGTTGGACAACAACTTTGAGgtgagttattccccatttctactgctgtggttgagctatcacttgtgatg Alignment from Pairagon GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcttttcctcattaagtcagtcgattgagtaccccatatccgctcaatag---CATACTAATGTGGCGAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGTGTTCTCTGAGAATGGGTACTACTTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGTTGGACAACAACTTTGAGgtgagttattccccatttctactgctgtggttgagctatcacttgtgatg Alignment from Exonerate_protein2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcttttcctcattaagtcagtcgattgagtaccccatatccgctcaaTAGCATACTAATGTGGCGAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGTGTTCTCTGAGAATGGGTACTACTTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGTTGGACAACAACTTTGAGgtgagttattccccatttctactgctgtggttgagctatcacttgtgatg Alignment from Exonerate_coding2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcttttcctcattaagtcagtcgattgagtaccccatatccgctcaaTAGCATACTAATGTGGCGAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGTGTTCTCTGAGAATGGGTACTACTTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGTTGGACAACAACTTTGAGgtgagttattccccatttctactgctgtggttgagctatcacttgtgatg Alignment from GeneWise GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG gcttttcctcattaagtcagtcgattgagtaccccatatccgctcaatagCAT---ACTAATGTGGCGAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGTGTTCTCTGAGAATGGGTACTACTTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGTTGGACAACAACTTTGAGgtgagttattccccatttctactgctgtggttgagctatcacttgtgatg #### Pygm_ID1679_3 --> 0 - 1 Original Alignment CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA---g gtcttgttatgttagcacttgggcttcattttttttttttttttttaaagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTTGCAACAggtaagaccatagcttgcagaggtgtggtatttactcactttgggtttatg Alignment from CESAR CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA---g gtcttgttatgttagcacttgggcttcattttttttttttttttttaaagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTTGCAACAggtaagaccatagcttgcagaggtgtggtatttactcactttgggtttatg Alignment from Spaln_aa2Genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA---G gtcttgttatgttagcacttgggcttcattttttttttttttttttaaagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTTGCAACAGgtaagaccatagcttgcagaggtgtggtatttactcactttgggtttatg Alignment from Spaln_nt2Genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA---G gtcttgttatgttagcacttgggcttcattttttttttttttttttaaagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTTGCAACAGgtaagaccatagcttgcagaggtgtggtatttactcactttgggtttatg Alignment from Pairagon CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGG-------------------------------------------------------- gtcttgttatgttagcacttgggcttcattttttttttttttttttaaagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTTGCAACAGGTAAGACCATAGCTTGCAGAGGTGTGGTATTTACTCACTTTGGGTTTATG Alignment from Exonerate_protein2genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA---G gtcttgttatgttagcacttgggcttcattttttttttttttttttaaagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTTGCAACAGgtaagaccatagcttgcagaggtgtggtatttactcactttgggtttatg Alignment from Exonerate_coding2genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA---G gtcttgttatgttagcacttgggcttcattttttttttttttttttaaagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTTGCAACAGgtaagaccatagcttgcagaggtgtggtatttactcactttgggtttatg Alignment from GeneWise CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAGCT- gtcttgttatgttagcacttgggcttcattttttttttttttttttaaagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTTGCAACAGgtaagaccatagcttgcagaggtgtggtatttactcactttgggtttatg #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ct---------TGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG tttactcactttgggtttatgcagatgttttaattatcaattgcttatagctATCAGAAGCTGCTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaatcctgaccctaaccttttggtgtttagtcgcaataaaaagac Alignment from CESAR ct---------TGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG tttactcactttgggtttatgcagatgttttaattatcaattgcttatagctATCAGAAGCTGCTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaatcctgaccctaaccttttggtgtttagtcgcaataaaaagac Alignment from Spaln_aa2Genome CT---------TGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG tttactcactttgggtttatgcagatgttttaattatcaattgcttatagCTATCAGAAGCTGCTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaatcctgaccctaaccttttggtgtttagtcgcaataaaaagac Alignment from Spaln_nt2Genome CT---------TGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG tttactcactttgggtttatgcagatgttttaattatcaattgcttatagCTATCAGAAGCTGCTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaatcctgaccctaaccttttggtgtttagtcgcaataaaaagac Alignment from Pairagon CT---------TGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG tttactcactttgggtttatgcagatgttttaattatcaattgcttatagCTATCAGAAGCTGCTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaatcctgaccctaaccttttggtgtttagtcgcaataaaaagac Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGGCT tttactcactttgggtttatgcagatgttttaattatcaattgcttatagctatcagaaGCTGCTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGGTAAGTAATCCTGACCCTAACCTtttggtgtttagtcgcaataaaaagac Alignment from Exonerate_coding2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGGCT tttactcactttgggtttatgcagatgttttaattatcaattgcttatagctatcagaaGCTGCTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGGTAAGTAATCCTGACCCTAACCTtttggtgtttagtcgcaataaaaagac Alignment from GeneWise --------GCTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG tttactcactttgggtttatgcagatgttttaattatcaattgcttatagCTATCAGAAGCTGCTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtaagtaatcctgaccctaaccttttggtgtttagtcgcaataaaaagac #### Pygm_ID1686_10 --> 0 - 0 Original Alignment GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaagatgtgtgaaggtcaactgaaatgaccttctgtccccacccacagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCTGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGT---------gcatgttagcgaattactggacaatgagagaggagccccagcatgaggga Alignment from CESAR GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaagatgtgtgaaggtcaactgaaatgaccttctgtccccacccacagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCTGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGT---------gcatgttagcgaattactggacaatgagagaggagccccag Alignment from Spaln_aa2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGT gcaaagatgtgtgaaggtcaactgaaatgaccttctgtccccacccacagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCTGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTgcatgttagcgaattactggacaatgagagaggagccccagcatgaggga Alignment from Spaln_nt2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTT gcaaagatgtgtgaaggtcaactgaaatgaccttctgtccccacccacagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCTGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCA--GTGTGCATgttagcgaattactggacaatgagagaggagccccagcatgaggga Alignment from Pairagon GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCA gcaaagatgtgtgaaggtcaactgaaatgaccttctgtccccacccacagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCTGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAgtgtgcatgttagcgaattactggacaatgagagaggagccccagcatgaggga Alignment from Exonerate_protein2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaagatgtgtgaaggtcaactgaaatgaccttctgtccccacccacagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCTGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTGCATGTTAGcgaattactggacaatgagagaggagccccagcatgaggga Alignment from Exonerate_coding2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaagatgtgtgaaggtcaactgaaatgaccttctgtccccacccacagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCTGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTGCATGTTAGcgaattactggacaatgagagaggagccccagcatgaggga Alignment from GeneWise GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAG- gcaaagatgtgtgaaggtcaactgaaatgaccttctgtccccacccacagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCTGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTgtgcatgttagcgaattactggacaatgagagaggagccccagcatgaggga #### Pygm_ID1695_19 --> 1 - 0 Original Alignment g---TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcctttcctgttacagagctgcgacactatggtcccctccacagaCACTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTATACAATgtacagtagtgttcagcaaccaggggtgggaagacccttggctcttgtgg Alignment from CESAR g---TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcctttcctgttacagagctgcgacactatggtcccctccacagaCACTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTATACAATgtacagtagtgttcagcaaccaggggtgggaagacccttggctcttgtgg Alignment from Spaln_aa2Genome GTTTAAAGTC---TTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcctttcctgttacagagctgcgacactatggtcccctccacagACACTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTATACAATgtacagtagtgttcagcaaccaggggtgggaagacccttggctcttgtgg Alignment from Spaln_nt2Genome GTTTAAAGTCT---TTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcctttcctgttacagagctgcgacactatggtcccctccacagACACTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTATACAATgtacagtagtgttcagcaaccaggggtgggaagacccttggctcttgtgg Alignment from Pairagon ------------------------------------------------------TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG AACCTAGCCTTTCCTGTTACAGAGCTGCGACACTATGGTCCCCTCCACAGACACTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTATACAATgtacagtagtgttcagcaaccaggggtgggaagacccttggctcttgtgg Alignment from Exonerate_protein2genome G---TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcctttcctgttacagagctgcgacactatggtcccctccacagACACTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTATACAATgtacagtagtgttcagcaaccaggggtgggaagacccttggctcttgtgg Alignment from Exonerate_coding2genome G---TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcctttcctgttacagagctgcgacactatggtcccctccacagACACTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTATACAATgtacagtagtgttcagcaaccaggggtgggaagacccttggctcttgtgg Alignment from GeneWise -CGGTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcctttcctgttacagagctgcgacactatggtcccctccacagACACTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTATACAATgtacagtagtgttcagcaaccaggggtgggaagacccttggctcttgtgg #### Rab1b_ID845_3 --> 0 - 0 Original Alignment ------GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT ctgtatgtcagttttgttgcctactcagttcttcctccttattttaatagGAATATGATGATACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTTAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCgtaggcttaagcctgttccagccgcctgttcgagacagctgactgaggtc Alignment from CESAR ------GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT ctgtatgtcagttttgttgcctactcagttcttcctccttattttaatagGAATATGATGATACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTTAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCgtaggcttaagcctgttccagccgcctgttcgagacagctgactgaggtc Alignment from Spaln_aa2Genome ------GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGAT ctgtatgtcagttttgttgcctactcagttcttcctccttattttaatagGAATATGATGATACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTTAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCgtaggcttaagcctgttccagccgcctgttcgagacagctgactgaggtc Alignment from Spaln_nt2Genome GA------TGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT ctgtatgtcagttttgttgcctactcagttcttcctccttattttaatagGAATATGATGATACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTTAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCgtaggcttaagcctgttccagccgcctgttcgagacagctgactgaggtc Alignment from Pairagon ------GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT ctgtatgtcagttttgttgcctactcagttcttcctccttattttaatagGAATATGATGATACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTTAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCgtaggcttaagcctgttccagccgcctgttcgagacagctgactgaggtc Alignment from Exonerate_protein2genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT ctgtatgtcagttttgttgcctactcagttcttcctccttattttaataggaatatGATGATACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTTAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCgtaggcttaagcctgttccagccgcctgttcgagacagctgactgaggtc Alignment from Exonerate_coding2genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT ctgtatgtcagttttgttgcctactcagttcttcctccttattttaataggaatatGATGATACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTTAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCgtaggcttaagcctgttccagccgcctgttcgagacagctgactgaggtc Alignment from GeneWise ------GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT ctgtatgtcagttttgttgcctactcagttcttcctccttattttaatagGAATATGATGATACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTTAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTGCAGATCgtaggcttaagcctgttccagccgcctgttcgagacagctgactgaggtc #### Rab3il1_ID2652_7 --> 0 - 2 Original Alignment CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---------aa tctgatagtgatctgtcaccatctcaatgtctttctctcttccctcttagCTTTCAGCTCTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATCGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAACAACACCCGCGCGCTGaagtatctttaactgtctgggccatcaggctcaggggggcagtggaggtggg Alignment from CESAR CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---------aa tctgatagtgatctgtcaccatctcaatgtctttctctcttccctcttagCTTTCAGCTCTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATCGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAACAACACCCGCGCGCTGaagtatctttaactgtctgggccatcaggctcaggggggcagtggaggtggg Alignment from Spaln_aa2Genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAAC-------- tctgatagtgatctgtcaccatctcaatgtctttctctcttccctcttagCTTTCAGCTCTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATCGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAACAACACCCGCGCGCTGAAgtatctttaactgtctgggccatcaggctcaggggggcagtggaggtggg Alignment from Spaln_nt2Genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCA tctgatagtgatctgtcaccatctcaatgtctttctctcttccctcttagCTTTCAGCTCTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATCGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAACAACACCCgcgcgctgaagtatctttaactgtctgggccatcaggctcaggggggcagtggaggtggg Alignment from Pairagon CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---------AA tctgatagtgatctgtcaccatctcaatgtctttctctcttccctcttagCTTTCAGCTCTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATCGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAACAACACCCGCGCGCTGAAgtatctttaactgtctgggccatcaggctcaggggggcagtggaggtggg Alignment from Exonerate_protein2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA tctgatagtgatctgtcaccatctcaatgtctttctctcttccctcttagCTTTCAGCTCTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATCGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAACAACACCCGcgcgctgaagtatctttaactgtctgggccatcaggctcaggggggcagtggaggtggg Alignment from Exonerate_coding2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAA tctgatagtgatctgtcaccatctcaatgtctttctctcttccctcttagCTTTCAGCTCTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATCGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAACAACACCCGcgcgctgaagtatctttaactgtctgggccatcaggctcaggggggcagtggaggtggg Alignment from GeneWise CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACC---------AA tctgatagtgatctgtcaccatctcaatgtctttctctcttccctcttagCTTTCAGCTCTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATCGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAACAACACCCGCGCGCTGAAgtatctttaactgtctgggccatcaggctcaggggggcagtggaggtggg #### Rasgrp2_ID1703_2 --> 2 - 2 Original Alignment at---GACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt gctgtgcccccagatcaaagctccaagatagcatttcctttttgttatagatAAAGATTCTGGAAAGGTGCAAGATTCACAGCTAGTGCGTATGTTTCTCATGATGTATCCATGGTACATACCTTCCACTCAGCTGGCTTCAAAACTGCTCCACttgtagctttggtggcccataacgttgggtatctggtttcaaaccattctgc Alignment from CESAR at---GACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt gctgtgcccccagatcaaagctccaagatagcatttcctttttgttatagatAAAGATTCTGGAAAGGTGCAAGATTCACAGCTAGTGCGTATGTTTCTCATGATGTATCCATGGTACATACCTTCCACTCAGCTGGCTTCAAAACTGCTCCACttgtagctttggtggcccataacgttgggtatctggtttcaaaccattctgc Alignment from Spaln_aa2Genome AT---GACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT gctgtgcccccagatcaaagctccaagatagcatttcctttttgttatagATAAAGATTCTGGAAAGGTGCAAGATTCACAGCTAGTGCGTATGTTTCTCATGATGTATCCATGGTACATACCTTCCACTCAGCTGGCTTCAAAACTGCTCCACTTgtagctttggtggcccataacgttgggtatctggtttcaaaccattctgc Alignment from Spaln_nt2Genome AT---GACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT gctgtgcccccagatcaaagctccaagatagcatttcctttttgttatagATAAAGATTCTGGAAAGGTGCAAGATTCACAGCTAGTGCGTATGTTTCTCATGATGTATCCATGGTACATACCTTCCACTCAGCTGGCTTCAAAACTGCTCCACTTgtagctttggtggcccataacgttgggtatctggtttcaaaccattctgc Alignment from Pairagon AT---GACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT gctgtgcccccagatcaaagctccaagatagcatttcctttttgttatagATAAAGATTCTGGAAAGGTGCAAGATTCACAGCTAGTGCGTATGTTTCTCATGATGTATCCATGGTACATACCTTCCACTCAGCTGGCTTCAAAACTGCTCCACTTgtagctttggtggcccataacgttgggtatctggtttcaaaccattctgc Alignment from Exonerate_protein2genome AT---GACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT gctgtgcccccagatcaaagctccaagatagcatttcctttttgttatagATAAAGATTCTGGAAAGGTGCAAGATTCACAGCTAGTGCGTATGTTTCTCATGATGTATCCATGGTACATACCTTCCACTCAGCTGGCTTCAAAACTGCTCCACTTgtagctttggtggcccataacgttgggtatctggtttcaaaccattctgc Alignment from Exonerate_coding2genome AT---GACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT gctgtgcccccagatcaaagctccaagatagcatttcctttttgttatagATAAAGATTCTGGAAAGGTGCAAGATTCACAGCTAGTGCGTATGTTTCTCATGATGTATCCATGGTACATACCTTCCACTCAGCTGGCTTCAAAACTGCTCCACTTgtagctttggtggcccataacgttgggtatctggtttcaaaccattctgc Alignment from GeneWise --GATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT gctgtgcccccagatcaaagctccaagatagcatttcctttttgttatagATAAAGATTCTGGAAAGGTGCAAGATTCACAGCTAGTGCGTATGTTTCTCATGATGTATCCATGGTACATACCTTCCACTCAGCTGGCTTCAAAACTGCTCCACTTgtagctttggtggcccataacgttgggtatctggtttcaaaccattctgc #### Rasgrp2_ID1704_3 --> 1 - 2 Original Alignment cTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCag ttgtagccttaatcaaaaatgcccatctggcaacccctcctctcttgaagcTATCAGCAATCCCGGAAGGATAACTCTAATTCTCTACAGATGAAAACGTGT---------aggtaaggtggtatcttatagtcttgactcgtcccttgctacctttttgaaa Alignment from CESAR cTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCag ttgtagccttaatcaaaaatgcccatctggcaacccctcctctcttgaagcTATCAGCAATCCCGGAAGGATAACTCTAATTCTCTACAGATGAAAACGTGT---------aggtaaggtggtatcttatagtcttgactcgtcccttgctacctttttgaaa Alignment from Spaln_aa2Genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCA ttgtagccttaatcaaaaatgcccatctggcaacccctcctctcttgaagCTATCAGCAATCCCGGAAGGATAACTCTAATTCTCTACAGATGAAAACGTGTAGgtaaggtggtatcttatagtcttgactcgtcccttgctacctttttgaaa Alignment from Spaln_nt2Genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCAG ttgtagccttaatcaaaaatgcccatctggcaacccctcctctcttgaagCTATCAGCAATCCCGGAAGGATAACTCTAATTCTCTACAGATGAAAACGTG----TAGGTAAGgtggtatcttatagtcttgactcgtcccttgctacctttttgaaa Alignment from Pairagon CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCAG ttgtagccttaatcaaaaatgcccatctggcaacccctcctctcttgaagCTATCAGCAATCCCGGAAGGATAACTCTAATTCTCTACAGATGAAAACGTGT---------AGgtaaggtggtatcttatagtcttgactcgtcccttgctacctttttgaaa Alignment from Exonerate_protein2genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCA ttgtagccttaatcaaaaatgcccatctggcaacccctcctctcttgaagCTATCAGCAATCCCGGAAGGATAACTCTAATTCTCTACAGATGAAAACGTGTAGgtaaggtggtatcttatagtcttgactcgtcccttgctacctttttgaaa Alignment from Exonerate_coding2genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCA ttgtagccttaatcaaaaatgcccatctggcaacccctcctctcttgaagCTATCAGCAATCCCGGAAGGATAACTCTAATTCTCTACAGATGAAAACGTGTAGgtaaggtggtatcttatagtcttgactcgtcccttgctacctttttgaaa Alignment from GeneWise CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCA ttgtagccttaatcaaaaatgcccatctggcaacccctcctctcttgaagCTATCAGCAATCCCGGAAGGATAACTCTAATTCTCTACAGATGAAAACGTGTAGgtaaggtggtatcttatagtcttgactcgtcccttgctacctttttgaaa #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agggttaggaaattggccaacagttgctacttgctttcctcttcccttagTTTCATGACTATCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACAGCCACACAGCAGGCACTGGTCATTACCCACTTTGTGCATGTG------gtaagtgaaccgacctttccattgtgtccagaccagattctatgtacaca Alignment from CESAR TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agggttaggaaattggccaacagttgctacttgctttcctcttcccttagTTTCATGACTATCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACAGCCACACAGCAGGCACTGGTCATTACCCACTTTGTGCATGTG------gtaagtgaaccgacctttccattgtgtccagaccagattctatg Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTG agggttaggaaattggccaacagttgctacttgctttcctcttcccttagTTTCATGACTATCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACAGCCACACAGCAGGCACTGGTCATTACCCACTTTGTGCATGTGgtaagtgaaccgacctttccattgtgtccagaccagattctatgtacaca Alignment from Spaln_nt2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTG agggttaggaaattggccaacagttgctacttgctttcctcttcccttagTTTCATGACTATCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACAGCCACACAGCAGGCACTGGTCATTACCCACTTTGTGCATGTGgtaagtgaaccgacctttccattgtgtccagaccagattctatgtacaca Alignment from Pairagon TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTG agggttaggaaattggccaacagttgctacttgctttcctcttcccttagTTTCATGACTATCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACAGCCACACAGCAGGCACTGGTCATTACCCACTTTGTGCATGTGgtaagtgaaccgacctttccattgtgtccagaccagattctatgtacaca Alignment from Exonerate_protein2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agggttaggaaattggccaacagttgctacttgctttcctcttcccttagTTTCATGACTATCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACAGCCACACAGCAGGCACTGGTCATTACCCACTTTGTGCATGTGGTAAGTgaaccgacctttccattgtgtccagaccagattctatgtacaca Alignment from Exonerate_coding2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG agggttaggaaattggccaacagttgctacttgctttcctcttcccttagTTTCATGACTATCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACAGCCACACAGCAGGCACTGGTCATTACCCACTTTGTGCATGTGGTAAGTgaaccgacctttccattgtgtccagaccagattctatgtacaca Alignment from GeneWise TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTG agggttaggaaattggccaacagttgctacttgctttcctcttcccttagTTTCATGACTATCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTTATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGATAATGATCCTCAGCAAGCCAACAGCCACACAGCAGGCACTGGTCATTACCCACTTTGTGCATGTGgtaagtgaaccgacctttccattgtgtccagaccagattctatgtacaca #### Rbp4_ID7525_2 --> 0 - 0 Original Alignment GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT------------ aggtggccctggccctttgcccctgggtgttaacctacatttctaaccagGGCAGTCTCCGAGGTGAAATGGCATGGGTGTGGGCACTTGTGCTCCTGTCAGCTCTGGGAGGTGGCAGTGCAGAGCATGAC------TTGAGCAGCTTTCGAGTTAAAGAAAACTTTGACAAGGCTCATTGGGACCTTCCAgtatgtatcagcccatttttcccaactttgcaggtgggaggtgaacctag Alignment from CESAR GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT------------ aggtggccctggccctttgcccctgggtgttaacctacatttctaaccagGGCAGTCTCCGAGGTGAAATGGCATGGGTGTGGGCACTTGTGCTCCTGTCAGCTCTGGGAGGTGGCAGTGCAGAGCATGAC------TTGAGCAGCTTTCGAGTTAAAGAAAACTTTGACAAGGCTCATTGGGACCTTCCAgtatgtatcagcccatttttcccaactttgcaggtgggaggtgaacctag Alignment from Spaln_aa2Genome GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT------------ aggtggccctggccctttgcccctgggtgttaacctacatttctaaccagGGCAGTCTCCGAGGTGAAATGGCATGGGTGTGGGCACTTGTGCTCCTGTCAGCTCTGGGAGGTGGCAGTGCAGAGCATGAC------TTGAGCAGCTTTCGAGTTAAAGAAAACTTTGACAAGGCTCATTGGGACCTTCCAgtatgtatcagcccatttttcccaactttgcaggtgggaggtgaacctag Alignment from Spaln_nt2Genome GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTT----------- aggtggccctggccctttgcccctgggtgttaacctacatttctaaccagGGCAGTCTCCGAGGTGAAATGGCATGGGTGTGGGCACTTGTGCTCCTGTCAGCTCTGGGAGGTGGCAGTGCAGAGCATGACT------TGAGCAGCTTTCGAGTTAAAGAAAACTTTGACAAGGCTCATTGGGACCTTCCAgtatgtatcagcccatttttcccaactttgcaggtgggaggtgaacctag Alignment from Pairagon GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT------------ aggtggccctggccctttgcccctgggtgttaacctacatttctaaccagGGCAGTCTCCGAGGTGAAATGGCATGGGTGTGGGCACTTGTGCTCCTGTCAGCTCTGGGAGGTGGCAGTGCAGAGCATGACT------TGAGCAGCTTTCGAGTTAAAGAAAACTTTGACAAGGCTCATTGGGACCTTCCAgtatgtatcagcccatttttcccaactttgcaggtgggaggtgaacctag Alignment from Exonerate_protein2genome GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccctggccctttgcccctgggtgttaacctacatttctaaccagGGCAGTCTCCGAGGTGAAATGGCATGGGTGTGGGCACTTGTGCTCCTGTCAGCTCTGGGAGGTGGCAGTGCAGAGCATGAC------TTGAGCAGCTTTCGAGTTAAAGAAAACTTTGACAAGGCTCATtgggaccttccagtatgtatcagcccatttttcccaactttgcaggtgggaggtgaacctag Alignment from Exonerate_coding2genome aggtggccctggccctttgcccctgggtgttaacctacatttctaaccagggcagtctccgaggtgaaatggcatgggtgtgggcacttgtgctcctgtcagctctgggaggtggcagtgcagagcatgacttgagcagctttcgagttaaagaaaactttgacaaggctcattgggaccttccagtatgtatcagcccatttttcccaactttgcaggtgggaggtgaacctag Alignment from GeneWise GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT------------ aggtggccctggccctttgcccctgggtgttaacctacatttctaaccagGGCAGTCTCCGAGGTGAAATGGCATGGGTGTGGGCACTTGTGCTCCTGTCAGCTCTGGGAGGTGGCAGTGCAGAGCATGAC------TTGAGCAGCTTTCGAGTTAAAGAAAACTTTGACAAGGCTCATTGGGACCTTCCAgtatgtatcagcccatttttcccaactttgcaggtgggaggtgaacctag #### Rce1_ID575_7 --> 2 - 1 Original Alignment cg---------TTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg ttgagggtatgtgggtgtgatcttgtggctttctgtgtcctcactttcagcgCCTCTGCCATTTCAGTTCTCCTACACTGCTGTCTTTGGTGCTTATACAGCCTTCCTCTTCATTCGCACAggtaagtcaccatctcatcatggaacaaggcaaaggtttgatcaccatctt Alignment from CESAR cg---------TTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg ttgagggtatgtgggtgtgatcttgtggctttctgtgtcctcactttcagcgCCTCTGCCATTTCAGTTCTCCTACACTGCTGTCTTTGGTGCTTATACAGCCTTCCTCTTCATTCGCACAggtaagtcaccatctcatcatggaacaaggcaaaggtttgatcaccatctt Alignment from Spaln_aa2Genome CG---------TTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ttgagggtatgtgggtgtgatcttgtggctttctgtgtcctcactttcagCGCCTCTGCCATTTCAGTTCTCCTACACTGCTGTCTTTGGTGCTTATACAGCCTTCCTCTTCATTCGCACAGgtaagtcaccatctcatcatggaacaaggcaaaggtttgatcaccatctt Alignment from Spaln_nt2Genome CG---------TTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ttgagggtatgtgggtgtgatcttgtggctttctgtgtcctcactttcagCGCCTCTGCCATTTCAGTTCTCCTACACTGCTGTCTTTGGTGCTTATACAGCCTTCCTCTTCATTCGCACAGgtaagtcaccatctcatcatggaacaaggcaaaggtttgatcaccatctt Alignment from Pairagon CG---------TTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ttgagggtatgtgggtgtgatcttgtggctttctgtgtcctcactttcagCGCCTCTGCCATTTCAGTTCTCCTACACTGCTGTCTTTGGTGCTTATACAGCCTTCCTCTTCATTCGCACAGgtaagtcaccatctcatcatggaacaaggcaaaggtttgatcaccatctt Alignment from Exonerate_protein2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ttgagggtatgtgggtgtgatcttgtggctttctgtgtcctcactttcagcgcctctgcCATTTCAGTTCTCCTACACTGCTGTCTTTGGTGCTTATACAGCCTTCCTCTTCATTCGCACAGgtaagtcaccatctcatcatggaacaaggcaaaggtttgatcaccatctt Alignment from Exonerate_coding2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ttgagggtatgtgggtgtgatcttgtggctttctgtgtcctcactttcagcgcctctgcCATTTCAGTTCTCCTACACTGCTGTCTTTGGTGCTTATACAGCCTTCCTCTTCATTCGCACAGgtaagtcaccatctcatcatggaacaaggcaaaggtttgatcaccatctt Alignment from GeneWise --------GCGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG ttgagggtatgtgggtgtgatcttgtggctttctgtgtcctcactttcagCGCCTCTGCCATTTCAGTTCTCCTACACTGCTGTCTTTGGTGCTTATACAGCCTTCCTCTTCATTCGCACAGgtaagtcaccatctcatcatggaacaaggcaaaggtttgatcaccatctt #### Rce1_ID576_6 --> 2 - 1 Original Alignment CCCACTCTTTTTTGGAGTCg ccCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CCCACTCTTTTTTGGGGTTggtgagttgtccctgatatggcatattttagcc---TTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAggtaggtccctggaaatatactcagttgactaaggggacaaagggtagggt Alignment from CESAR CCCACTCTTTTTTGGAGTCg ccCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg CCCACTCTTTTTTGGGGTTggtgagttgtccctgatatggcatattttagcc---TTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAggtaggtccctggaaatatactcagttgactaaggggacaaagggtagggt Alignment from Spaln_aa2Genome CCCACTCTTTTTTGGAGTCGCCCAT---------------------------TTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTCTTTTTTGGGGTTGGTGAGTTGTCCCTGATATGGCATATTTTAGCCTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggtccctggaaatatactcagttgactaaggggacaaagggtagggt Alignment from Spaln_nt2Genome CTCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CTCTTTTTTGG----GgttggtgagttgtccctgatatggcatattttagCC---TTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggtccctggaaatatactcagttgactaaggggacaaagggtagggt Alignment from Pairagon CCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTCTTTTTTGGGGTTGgtgagttgtccctgatatggcatattttagCC---TTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggtccctggaaatatactcagttgactaaggggacaaagggtagggt Alignment from Exonerate_protein2genome CCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTCTTTTTTGGGGTTGgtgagttgtccctgatatggcatattttagCC---TTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggtccctggaaatatactcagttgactaaggggacaaagggtagggt Alignment from Exonerate_coding2genome CCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTCTTTTTTGGGGTTGgtgagttgtccctgatatggcatattttagCC---TTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggtccctggaaatatactcagttgactaaggggacaaagggtagggt Alignment from GeneWise CCCACTCTTTTTTGGAGTCGCCCAT---------------------------TTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG CCCACTCTTTTTTGGGGTTGGTGAGTTGTCCCTGATATGGCATATTTTAGCCTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGCATCTTTGTGTCTACAGgtaggtccctggaaatatactcagttgactaaggggacaaagggtagggt #### Rce1_ID577_5 --> 2 - 1 Original Alignment ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------g ccCATTTTCACCACATTATT aatagatatggaagtcagggctagcctactcttgctggtcctaaccgtagccCCTTGTTCGTGGGCTCGCTGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACAGGGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGACCTTggtgtgtctacaccctctcttccctctacagccCATTTTCACCACATTATT Alignment from CESAR ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------g ccCATTTTCACCACATTATT aatagatatggaagtcagggctagcctactcttgctggtcctaaccgtagccCCTTGTTCGTGGGCTCGCTGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACAGGGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGACCTTggtgtgcctttgttgttttttcctatcacagccCATTTTCACCACATTATT Alignment from Spaln_aa2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------------------------------------GCCCATTTTCACCACATTATT aatagatatggaagtcagggctagcctactcttgctggtcctaaccgtagCCCCTTGTTCGTGGGCTCGCTGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACAGGGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGACCTTGGTGTGTCTACACCCTCTCTTCCCTCTACAGCCCATTTTCACCACATTATT Alignment from Spaln_nt2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATT aatagatatggaagtcagggctagcctactcttgctggtcctaaccgtagCCCCTTGTTCGTGGGCTCGCTGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACAGGGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGG----GgttgaccttggtgtgtctacaccctctcttccctctacagCCCATTTTCACCACATTATT Alignment from Pairagon CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------------------------------------GCCCATTTTCACCACATTATT aatagatatggaagtcagggctagcctactcttgctggtcctaaccgtagCCCCTTGTTCGTGGGCTCGCTGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACAGGGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGACCTTGGTGTGTCTACACCCTCTCTTCCCTCTACAGCCCATTTTCACCACATTATT Alignment from Exonerate_protein2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------G CCCATTTTCACCACATTATT aatagatatggaagtcagggctagcctactcttgctggtcctaaccgtagCCCCTTGTTCGTGGGCTCGCTGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACAGGGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGACCTTGgtgtgtctacaccctctcttccctctacagCCCATTTTCACCACATTATT Alignment from Exonerate_coding2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------G CCCATTTTCACCACATTATT aatagatatggaagtcagggctagcctactcttgctggtcctaaccgtagCCCCTTGTTCGTGGGCTCGCTGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACAGGGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGACCTTGgtgtgtctacaccctctcttccctctacagCCCATTTTCACCACATTATT Alignment from GeneWise CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------------------------------------GCCCATTTTCACCACATTATT aatagatatggaagtcagggctagcctactcttgctggtcctaaccgtagCCCCTTGTTCGTGGGCTCGCTGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACAGGGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGACCTTGGTGTGTCTACACCCTCTCTTCCCTCTACAGCCCATTTTCACCACATTATT #### Rce1_ID578_4 --> 0 - 1 Original Alignment ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTG------------------------g gaattgtgataagtacttcaccttgtgtcaccctgtccgtctgtttgcagATCCTTTTCCCAGGTCCACTGATGCAGCTTTCTATGGATTGCCCTTGTGACCTAACAGATGGACTGAAAGTTGTTCTAGGGGAAGCATTAATCATGGGAGCCggtgaggcccaatgactgtgaaaatggaatgcacaagcagccttgaacatg Alignment from CESAR ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTG------------------------g gaattgtgataagtacttcaccttgtgtcaccctgtccgtctgtttgcagATCCTTTTCCCAGGTCCACTGATGCAGCTTTCTATGGATTGCCCTTGTGACCTAACAGATGGACTGAAAGTTGTTCTAGGGGAAGCATTAATCATGGGAGCCggtgaggcccaatgactgtgaaaatggaatgcacaagcagccttgaacatg Alignment from Spaln_aa2Genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAG gaattgtgataagtacttcaccttgtgtcaccctgtccgtctgtttgcagATCCTTTTCCCAGGTCCACTGATGCAGCTTTCTATGGATTGCCCTTGTGACCTAACAGATGGACTGAAAgttgttctaggggaagcattaatcatgggagccggtgaggcccaatgactgtgaaaatggaatgcacaagcagccttgaacatg Alignment from Spaln_nt2Genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAG gaattgtgataagtacttcaccttgtgtcaccctgtccgtctgtttgcagATCCTTTTCCCAGGTCCACTGATGCAGCTTTCTATGGATTGCCCTTGTGACCTAACAGATGGACTGAAAgttgttctaggggaagcattaatcatgggagccggtgaggcccaatgactgtgaaaatggaatgcacaagcagccttgaacatg Alignment from Pairagon ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGG------------------------ gaattgtgataagtacttcaccttgtgtcaccctgtccgtctgtttgcagATCCTTTTCCCAGGTCCACTGATGCAGCTTTCTATGGATTGCCCTTGTGACCTAACAGATGGACTGAAAGTTGTTCTAGGGGAAGCATTAATCATGGGAGCCGgtgaggcccaatgactgtgaaaatggaatgcacaagcagccttgaacatg Alignment from Exonerate_protein2genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGG gaattgtgataagtacttcaccttgtgtcaccctgtccgtctgtttgcagATCCTTTTCCCAGGTCCACTGATGCAGCTTTCTATGGATTGCCCTTGTGACCTAACAGATGGACTGAAAGTTGTTCTAGgggaagcattaatcatgggagccggtgaggcccaatgactgtgaaaatggaatgcacaagcagccttgaacatg Alignment from Exonerate_coding2genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGG gaattgtgataagtacttcaccttgtgtcaccctgtccgtctgtttgcagATCCTTTTCCCAGGTCCACTGATGCAGCTTTCTATGGATTGCCCTTGTGACCTAACAGATGGACTGAAAGTTGTTCTAGgggaagcattaatcatgggagccggtgaggcccaatgactgtgaaaatggaatgcacaagcagccttgaacatg Alignment from GeneWise ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTG---------------------GCC- gaattgtgataagtacttcaccttgtgtcaccctgtccgtctgtttgcagATCCTTTTCCCAGGTCCACTGATGCAGCTTTCTATGGATTGCCCTTGTGACCTAACAGATGGACTGAAAGTTGTTCTAGGGGAAGCATTAATCATGGGAGCCGgtgaggcccaatgactgtgaaaatggaatgcacaagcagccttgaacatg #### Rce1_ID579_3 --> 0 - 0 Original Alignment ------CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgctcgcaaaagcataaccaatgcgcctctcatttgctttcagTTTCTTCCTGGAACATCACTGCTCACCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCGCTGCTGCTAACTATGgtgagtcatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from CESAR ------CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgctcgcaaaagcataaccaatgcgcctctcatttgctttcagTTTCTTCCTGGAACATCACTGCTCACCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCGCTGCTGCTAACTATGgtgagtcatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Spaln_aa2Genome CCAGGCACATCA------CTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgctcgcaaaagcataaccaatgcgcctctcatttgctttcagTTTCTTCCTGGAACATCACTGCTCACCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCGCTGCTGCTAACTATGgtgagtcatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Spaln_nt2Genome CCAGGCACATCAC------TGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgctcgcaaaagcataaccaatgcgcctctcatttgctttcagTTTCTTCCTGGAACATCACTGCTCACCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCGCTGCTGCTAACTATGgtgagtcatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Pairagon ------CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgctcgcaaaagcataaccaatgcgcctctcatttgctttcagTTTCTTCCTGGAACATCACTGCTCACCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCGCTGCTGCTAACTATGgtgagtcatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Exonerate_protein2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgctcgcaaaagcataaccaatgcgcctctcatttgctttcagtttcttCCTGGAACATCACTGCTCACCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCGCTGCTGCTAACTATGgtgagtcatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Exonerate_coding2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgctcgcaaaagcataaccaatgcgcctctcatttgctttcagtttcttCCTGGAACATCACTGCTCACCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCGCTGCTGCTAACTATGgtgagtcatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from GeneWise ------CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgctcgcaaaagcataaccaatgcgcctctcatttgctttcagTTTCTTCCTGGAACATCACTGCTCACCTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCGCTGCTGCTAACTATGgtgagtcatgcttgatattttcactactctattgtaactagtgtaatgga #### Rce1_ID580_2 --> 1 - 0 Original Alignment gGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG tcacaagtacctcccagtgtcttgtgctcttaagggtcctctctccacagg------CCCTCTGTTATCAAGCGGCATTTTACTAGTGTTCTTATCGTGTCTAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagaaggatgagggtgaggaactaggcagcaaaggaagagtctagaat Alignment from CESAR gGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG ccttaatcacaagtacctcccagtggctcttaagggtcctctctccacagg------CCCTCTGTTATCAAGCGGCATTTTACTAGTGTTCTTATCGTGTCTAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagaaggatgagggtgaggaactaggcagcaaaggaagagtctagaat Alignment from Spaln_aa2Genome GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG tcacaagtacctcccagtgtcttgtgctcttaagggtcctctctccacagG------CCCTCTGTTATCAAGCGGCATTTTACTAGTGTTCTTATCGTGTCTAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagaaggatgagggtgaggaactaggcagcaaaggaagagtctagaat Alignment from Spaln_nt2Genome CCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG tcacaagtacctcccagtgtcttgtgctcttaagggtcctctctccacagGCCCTCTGTTATCAAGCGGCATTTTACTAGTGTTCTTATCGTGTCTAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagaaggatgagggtgaggaactaggcagcaaaggaagagtctagaat Alignment from Pairagon GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG tcacaagtacctcccagtgtcttgtgctcttaagggtcctctctccacagG------CCCTCTGTTATCAAGCGGCATTTTACTAGTGTTCTTATCGTGTCTAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagaaggatgagggtgaggaactaggcagcaaaggaagagtctagaat Alignment from Exonerate_protein2genome CACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG tcacaagtacctcccagtgtcttgtgctcttaagggtcctctctccacAGGCCCTCTGTTATCAAGCGGCATTTTACTAGTGTTCTTATCGTGTCTAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagaaggatgagggtgaggaactaggcagcaaaggaagagtctagaat Alignment from Exonerate_coding2genome CACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG tcacaagtacctcccagtgtcttgtgctcttaagggtcctctctccacAGGCCCTCTGTTATCAAGCGGCATTTTACTAGTGTTCTTATCGTGTCTAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagaaggatgagggtgaggaactaggcagcaaaggaagagtctagaat Alignment from GeneWise GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG tcacaagtacctcccagtgtcttgtgctcttaagggtcctctctccacagG------CCCTCTGTTATCAAGCGGCATTTTACTAGTGTTCTTATCGTGTCTAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagaaggatgagggtgaggaactaggcagcaaaggaagagtctagaat #### Rcor2_ID2092_3 --> 2 - 0 Original Alignment tt------------GACAAGTACATTGCAATGGCCAAGGAGAAGCATGGCTATAACATTGAGCAG gacttcaatagtagttggatggatgccttaaaatctgcttatgttttcagttATTAAGAATCATGACAAGTACATTGCAATGGCCAAAGAGAAGCGTGGCTATAACATTGAGCAGgtaggtaagattttgagagatccttacgggtggaagtggggcctaccagg Alignment from CESAR tt------------GACAAGTACATTGCAATGGCCAAGGAGAAGCATGGCTATAACATTGAGCAG gacttcaatagtagttggatggatgccttaaaatctgcttatgttttcagttATTAAGAATCATGACAAGTACATTGCAATGGCCAAAGAGAAGCGTGGCTATAACATTGAGCAGgtaggtaagattttgagagatccttacgggtggaagtggggcctaccagg Alignment from Spaln_aa2Genome TT------------GACAAGTACATTGCAATGGCCAAGGAGAAGCATGGCTATAACATTGAGCAG gacttcaatagtagttggatggatgccttaaaatctgcttatgttttcagTTATTAAGAATCATGACAAGTACATTGCAATGGCCAAAGAGAAGCGTGGCTATAACATTGAGCAGgtaggtaagattttgagagatccttacgggtggaagtggggcctaccagg Alignment from Spaln_nt2Genome CTTGACAAGTA---CATTGCAATGGCCAAGGAGAAGCATGGCTATAACATTGAGCAG gacttcaatagtagttggatggatgccttaaaatctgcttatgttttcagttattaagAATCATGACAAGTACATTGCAATGGCCAAAGAGAAGCGTGGCTATAACATTGAGCAGgtaggtaagattttgagagatccttacgggtggaagtggggcctaccagg Alignment from Pairagon T------------TGACAAGTACATTGCAATGGCCAAGGAGAAGCATGGCTATAACATTGAGCAG gacttcaatagtagttggatggatgccttaaaatctgcttatgttttcagTTATTAAGAATCATGACAAGTACATTGCAATGGCCAAAGAGAAGCGTGGCTATAACATTGAGCAGgtaggtaagattttgagagatccttacgggtggaagtggggcctaccagg Alignment from Exonerate_protein2genome TTGACAAGTACATTGCAATGGCCAAGGAGAAGCATGGCTATAACATTGAGCAG gacttcaatagtagttggatggatgccttaaaatctgcttatgttttcagttattaagaatcATGACAAGTACATTGCAATGGCCAAAGAGAAGCGTGGCTATAACATTGAGCAGgtaggtaagattttgagagatccttacgggtggaagtggggcctaccagg Alignment from Exonerate_coding2genome TTGACAAGTACATTGCAATGGCCAAGGAGAAGCATGGCTATAACATTGAGCAG gacttcaatagtagttggatggatgccttaaaatctgcttatgttttcagttattaagaatcATGACAAGTACATTGCAATGGCCAAAGAGAAGCGTGGCTATAACATTGAGCAGgtaggtaagattttgagagatccttacgggtggaagtggggcctaccagg Alignment from GeneWise -----------CTTGACAAGTACATTGCAATGGCCAAGGAGAAGCATGGCTATAACATTGAGCAG gacttcaatagtagttggatggatgccttaaaatctgcttatgttttcagTTATTAAGAATCATGACAAGTACATTGCAATGGCCAAAGAGAAGCGTGGCTATAACATTGAGCAGgtaggtaagattttgagagatccttacgggtggaagtggggcctaccagg #### Rcor2_ID2093_4 --> 0 - 0 Original Alignment GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatgtagcactggcatggccaatgcttatttttggggggcttgttttagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTAGAAGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAG---gtgcgtaggctgtaattggggccccttgaatactcctcagccctttagtc Alignment from CESAR GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatgtagcactggcatggccaatgcttatttttggggggcttgttttagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTAGAAGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAG---gtgcgtaggctgtaattggggccccttgaatactcctcagcccttta Alignment from Spaln_aa2Genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAG taatgtagcactggcatggccaatgcttatttttggggggcttgttttagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTAGAAGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGgtgcgtaggctgtaattggggccccttgaatactcctcagccctttagtc Alignment from Spaln_nt2Genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG- taatgtagcactggcatggccaatgcttatttttggggggcttgttttagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTAGAAGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGGTGCgtaggctgtaattggggccccttgaatactcctcagccctttagtc Alignment from Pairagon GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAG taatgtagcactggcatggccaatgcttatttttggggggcttgttttagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTAGAAGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGgtgcgtaggctgtaattggggccccttgaatactcctcagccctttagtc Alignment from Exonerate_protein2genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatgtagcactggcatggccaatgcttatttttggggggcttgttttagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTAGAAGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAG---gtgcgtaggctgtaattggggccccttgaatactcctcagcccttta Alignment from Exonerate_coding2genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatgtagcactggcatggccaatgcttatttttggggggcttgttttagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTAGAAGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAG---gtgcgtaggctgtaattggggccccttgaatactcctcagcccttta Alignment from GeneWise GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAG taatgtagcactggcatggccaatgcttatttttggggggcttgttttagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTAGAAGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGgtgcgtaggctgtaattggggccccttgaatactcctcagccctttagtc #### Rela_ID1126_3 --> 2 - 0 Original Alignment agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gaacacctgatggctcactgtatcacccattctgctttgtcttttgacagaaCCAGCCCAGGCTTCTGGCCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGC---CGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATC---gtacagaccaagggccttgcagggctgccaagcaaacatgctcccaggtc Alignment from CESAR agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gaacacctgatggctcactgtatcacccattctgctttgtcttttgacagaaCCAGCCCAGGCTTCTGGCCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGC---CGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATC---gtacagaccaagggccttgcagggctgccaagcaaacatgctcccag Alignment from Spaln_aa2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATC gaacacctgatggctcactgtatcacccattctgctttgtcttttgacagAACCAGCCCAGGCTTCTGGCCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGC---CGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCgtacagaccaagggccttgcagggctgccaagcaaacatgctcccaggtc Alignment from Spaln_nt2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATC----------AAG gaacacctgatggctcactgtatcacccattctgctttgtcttttgacagAACCAGCCCAGGCTTCTGGCCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGC---CGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCGTACAGACCAAGGgccttgcagggctgccaagcaaacatgctcccaggtc Alignment from Pairagon AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCA------------------------------------------------- gaacacctgatggctcactgtatcacccattctgctttgtcttttgacagAACCAGCCCAGGCTTCTGGCCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGC---CGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCGTACAGACCAAGGGCCTTGCAGGGCTGCCAAGCAAACATGCTCCCAGGTC Alignment from Exonerate_protein2genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gaacacctgatggctcactgtatcacccattctgctttgtcttttgacagAACCAGCCCAGGCTTCTGGCCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGC---CGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCGTAcagaccaagggccttgcagggctgccaagcaaacatgctcccaggtc Alignment from Exonerate_coding2genome CTCATCTTTCCCTCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gaacacctgatggctcactgtatcacccattctgCTTTGTCTTTTGACAGAACCAGCCCAGGCTTCTGGCCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGC---CGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCGTAcagaccaagggccttgcagggctgccaagcaaacatgctcccaggtc Alignment from GeneWise GACGATCTGTTTCCCCTCATCTTTCCCTCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAGATC cacctgatggctcactgta---TCACCCATTCTGCTTTGTCTTTTGACAGAACCAGCCCAGGCTTCTGGCCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGC---CGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACT------ATCgtacagaccaagggccttgcagggctgccaagcaaacatgctcccaggtc #### Rela_ID1129_6 --> 2 - 1 Original Alignment tt------CCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACc ttaccacagtgttctgtgtgttcttttttgttctgtttgcttcctcacagttTCAGGACCCATGGAGGAGCAGCATGGGGACTATGACTTAAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGTGGGCCACTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACcgtatggggctagctgagtagggatgcaggaagtcaaagtatttcttctcg Alignment from CESAR ttCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACc ttccttttaccacagtgttctgtgtgttctttctgtttgcttcctcacagtttcaggaCCCATGGAGGAGCAGCATGGGGACTATGACTTAAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGTGGGCCACTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACcgtatggggctagctgagtagggatgcaggaagtcaaagtatttcttctcg Alignment from Spaln_aa2Genome TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagtgttctgtgtgttcttttttgttctgtttgcttcctcacagtttcagGACCCATGGAGGAGCAGCATGGGGACTATGACTTAAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGTGGGCCACTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACCgtatggggctagctgagtagggatgcaggaagtcaaagtatttcttctcg Alignment from Spaln_nt2Genome TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagtgttctgtgtgttcttttttgttctgtttgcttcctcacagtttcagGACCCATGGAGGAGCAGCATGGGGACTATGACTTAAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGTGGGCCACTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACCgtatggggctagctgagtagggatgcaggaagtcaaagtatttcttctcg Alignment from Pairagon TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagtgttctgtgtgttcttttttgttctgtttgcttcctcacagtttcagGACCCATGGAGGAGCAGCATGGGGACTATGACTTAAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGTGGGCCACTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACCgtatggggctagctgagtagggatgcaggaagtcaaagtatttcttctcg Alignment from Exonerate_protein2genome TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagtgttctgtgtgttcttttttgttctgtttgcttcctcacagtttcagGACCCATGGAGGAGCAGCATGGGGACTATGACTTAAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGTGGGCCACTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACCgtatggggctagctgagtagggatgcaggaagtcaaagtatttcttctcg Alignment from Exonerate_coding2genome TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagtgttctgtgtgttcttttttgttctgtttgcttcctcacagtttcagGACCCATGGAGGAGCAGCATGGGGACTATGACTTAAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGTGGGCCACTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACCgtatggggctagctgagtagggatgcaggaagtcaaagtatttcttctcg Alignment from GeneWise TTCCTATAGAGGAGCAGCGCGGGGACTATGACTTGAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGCAGGCCCCTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACC ttaccacagtgttctgtgtgttcttttttgttctgtttgcttcctcacagtttcagGACCCATGGAGGAGCAGCATGGGGACTATGACTTAAATGCAGTGCGCCTCTGCTTCCAGGTGACAGTGCGGGACCCAGCAGGTGGGCCACTCCTCCTGACCCCTGTCCTCTCACATCCGATTTTTGATAACCgtatggggctagctgagtagggatgcaggaagtcaaagtatttcttctcg #### Rela_ID1130_7 --> 2 - 1 Original Alignment ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------g tggtgggggctagagcccctataggtaccttgacccgatgtttcattcagggGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGAGGGGATGAGATATTCCTACTGTGTGACAGGGTGCAAAAGGACCGAggtaagaagtgaactacgcatagagaggggaggcggaaattggggtcaagg Alignment from CESAR ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------g tggtgggggctagagcccctataggtaccttgacccgatgtttcattcagggGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGAGGGGATGAGATATTCCTACTGTGTGACAGGGTGCAAAAGGACCGAggtaagaagtgaactacgcatagagaggggaggcggaaattggggtcaagg Alignment from Spaln_aa2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------G tggtgggggctagagcccctataggtaccttgacccgatgtttcattcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGAGGGGATGAGATATTCCTACTGTGTGACAGGGTGCAAAAGGACCGAGgtaagaagtgaactacgcatagagaggggaggcggaaattggggtcaagg Alignment from Spaln_nt2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAA------AG tggtgggggctagagcccctataggtaccttgacccgatgtttcattcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGAGGGGATGAGATATTCCTACTGTGTGACAGGGTGCAAAAGGACCGAGgtaagaagtgaactacgcatagagaggggaggcggaaattggggtcaagg Alignment from Pairagon GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAA------AG tggtgggggctagagcccctataggtaccttgacccgatgtttcattcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGAGGGGATGAGATATTCCTACTGTGTGACAGGGTGCAAAAGGACCGAGgtaagaagtgaactacgcatagagaggggaggcggaaattggggtcaagg Alignment from Exonerate_protein2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------G tggtgggggctagagcccctataggtaccttgacccgatgtttcattcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGAGGGGATGAGATATTCCTACTGTGTGACAGGGTGCAAAAGGACCGAGgtaagaagtgaactacgcatagagaggggaggcggaaattggggtcaagg Alignment from Exonerate_coding2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------G tggtgggggctagagcccctataggtaccttgacccgatgtttcattcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGAGGGGATGAGATATTCCTACTGTGTGACAGGGTGCAAAAGGACCGAGgtaagaagtgaactacgcatagagaggggaggcggaaattggggtcaagg Alignment from GeneWise GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAGAAGAC- tggtgggggctagagcccctataggtaccttgacccgatgtttcattcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGAGGGGATGAGATATTCCTACTGTGTGACAGGGTGCAAAAGGACCGAGgtaagaagtgaactacgcatagagaggggaggcggaaattggggtcaagg #### Rin1_ID809_4 --> 2 - 2 Original Alignment gtGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tacatgaatggggacctcaatgagatagggcattctttactgtttgacaggtATCTCTTTGGAGGTCTCGGAA------------------------------------------------aggtaagcctacctgtgggcacctgccgagctttcaagcccactcactgccg Alignment from CESAR gtGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tacatgaatggggacctcaatgagatagggcattctttactgtttgacaggtATCTCTTTGGAGGTCTCGGAA------------------------------------------------aggtaagcctacctgtgggcacctgccgagctttcaagcccactcactgccg Alignment from Spaln_aa2Genome GTGTCTCTTTGGAGGGCTCAGAGCT tacatgaatggggacctcaatgagatagggcattctttactgtttgacagGTATCTCTTTGGAGGTCTCGGAAAGgtaagcctacctgtgggcacctgccgagctttcaagcccactcactgccg Alignment from Spaln_nt2Genome GTGTCTCTTTGGAGGGCTCAGAGCT tacatgaatggggacctcaatgagatagggcattctttactgtttgacagGTATCTCTTTGGAGGTCTCGGAAAGgtaagcctacctgtgggcacctgccgagctttcaagcccactcactgccg Alignment from Pairagon GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tacatgaatggggacctcaatgagatagggcattctttactgtttgacagGTATCTCTTTGGAGGTCTCGGAA------------------------------------------------AGgtaagcctacctgtgggcacctgccgagctttcaagcccactcactgccg Alignment from Exonerate_protein2genome tacatgaatggggacctcaatgagatagggcattctttactgtttgacaggtatctctttggaggtctcggaaaggtaagcctacctgtgggcacctgccgagctttcaagcccactcactgccg Alignment from Exonerate_coding2genome tacatgaatggggacctcaatgagatagggcattctttactgtttgacaggtatctctttggaggtctcggaaaggtaagcctacctgtgggcacctgccgagctttcaagcccactcactgccg Alignment from GeneWise tacatgaatggggacctcaatgagatagggcattctttactgtttgacaggtatctctttggaggtctcggaaaggtaagcctacctgtgggcacctgccgagctttcaagcccactcactgccg #### Rin1_ID810_5 --> 1 - 1 Original Alignment aGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg atcatagacgaactgatggtacctaggcgcaattttttaaacctttcaaga---------------------------GAGCTAGAGGCTATCTCCCATCTGGGCATGggtgagcgtatcctgtagccttttatataagacatgcggaggttaattggt Alignment from CESAR aGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg cttgctccctggagccatttcattaggcgcaattttttaaacctttcaaga---------------------------GAGCTAGAGGCTATCTCCCATCTGGGCATGggtgagcgtatcctgtagccttttatataagacatgcggaggttaattggt Alignment from Spaln_aa2Genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG atagacgaactgatggtacctagGCGCAATTTTTTAAACCTTTCA---AGAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcgtatcctgtagccttttatataagacatgcggaggttaattggt Alignment from Spaln_nt2Genome A-GCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tagacgaactgatggtacctagGCGCAATTTTTTA---AACCTTTCA-AGAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcgtatcctgtagccttttatataagacatgcggaggttaattggt Alignment from Pairagon AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG atcatagacgaactgatggtacctaggcgcaattttttaaacctttcaag---------------------------AGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcgtatcctgtagccttttatataagacatgcggaggttaattggt Alignment from Exonerate_protein2genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG atagacgaactgatggtacctagGCGC---AATTTTTTAAACCTTTCAAGAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcgtatcctgtagccttttatataagacatgcggaggttaattggt Alignment from Exonerate_coding2genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG atagacgaactgatggtacctagGCGC---AATTTTTTAAACCTTTCAAGAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcgtatcctgtagccttttatataagacatgcggaggttaattggt Alignment from GeneWise -AGAGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG gacgaactgatggtacctagGCGCAATTTTTTAAACCTTTCA------AGAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcgtatcctgtagccttttatataagacatgcggaggttaattggt #### Rin1_ID811_6 --> 2 - 1 Original Alignment agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg aaaatcaactatgagcacccctcccacttctctccttctgtcctgggcagag---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTTCTGAAGCCTCACCCATCCCTCAGCTGAAGGCTCGCTCCCCTCAGGACCTGGCCCAGGGGTCTGGGGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGGGATCTGGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCAACTGATACCTCCAGCCCCCTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTTCCAGGGACATCTTCCAGCCAAACGGAACGACTACCC---CAACAGTTGCAGCAGAGGGAAGGCTCAGTGGGGTATCATGTGCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCGCTGCCATCCCTTCAGGAAGTGGACTGTTGCTCTCCTAGCAGTTCAGAAGAGGAAGGCTCTTCAGGAAGCCCTACAACCTCACCACGCCTAAGCCGACCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTGGGCCGGGCAGCCACAACGCTAATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACCCAAGTTCAGGCGGGACCTGAGCCCAGGGAATTCCAGGGCATCCGAGAGGCCCTAAGTCGGGCACGAGCCATGCTGAGTGCAGAGCTGGGGCCCGAGAAGCTACTGCCGCCAGAGTGGCTTggtaggtcctttcaagggtatggtttcgcacaaactcccctaatgaagttc Alignment from CESAR agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg cctaaaatcaactatgagcacccctacttctctccttctgtcctgggcagag---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTTCTGAAGCCTCACCCATCCCTCAGCTGAAGGCTCGCTCCCCTCAGGACCTGGCCCAGGGGTCTGGGGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGGGATCTGGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCAACTGATACCTCCAGCCCCCTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTTCCAGGGACATCTTCCAGCCAAACGGAACGACTACCC---CAACAGTTGCAGCAGAGGGAAGGCTCAGTGGGGTATCATGTGCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCGCTGCCATCCCTTCAGGAAGTGGACTGTTGCTCTCCTAGCAGTTCAGAAGAGGAAGGCTCTTCAGGAAGCCCTACAACCTCACCACGCCTAAGCCGACCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTGGGCCGGGCAGCCACAACGCTAATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACCCAAGTTCAGGCGGGACCTGAGCCCAGGGAATTCCAGGGCATCCGAGAGGCCCTAAGTCGGGCACGAGCCATGCTGAGTGCAGAGCTGGGGCCCGAGAAGCTACTGCCGCCAGAGTGGCTTggtaggtcctttcaagggtatggtttcgcacaaactcccctaactttatgc Alignment from Spaln_aa2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG aaaatcaactatgagcacccctcccacttctctccttctgtcctgggcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTTCTGAAGCCTCACCCATCCCTCAGCTGAAGGCTCGCTCCCCTCAGGACCTGGCCCAGGGGTCTGGGGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGGGATCTGGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCAACTGATACCTCCAGCCCCCTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTTCCAGGGACATCTTCCAGCCAAACGGAACGACTA---CCCCAACAGTTGCAGCAGAGGGAAGGCTCAGTGGGGTATCATGTGCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCGCTGCCATCCCTTCAGGAAGTGGACTGTTGCTCTCCTAGCAGTTCAGAAGAGGAAGGCTCTTCAGGAAGCCCTACAACCTCACCACGCCTAAGCCGACCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTGGGCCGGGCAGCCACAACGCTAATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACCCAAGTTCAGGCGGGACCTGAGCCCAGGGAATTCCAGGGCATCCGAGAGGCCCTAAGTCGGGCACGAGCCATGCTGAGTGCAGAGCTGGGGCCCGAGAAGCTACTGCCGCCAGAGTGGCTTGgtaggtcctttcaagggtatggtttcgcacaaactcccctaatgaagttc Alignment from Spaln_nt2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG aaaatcaactatgagcacccctcccacttctctccttctgtcctgggcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTTCTGAAGCCTCACCCATCCCTCAGCTGAAGGCTCGCTCCCCTCAGGACCTGGCCCAGGGGTCTGGGGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGGGATCTGGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCAACTGATACCTCCAGCCCCCTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTTCCAGGGACATCTTCCAGCCAAACGGAACGACTACCC---CAACAGTTGCAGCAGAGGGAAGGCTCAGTGGGGTATCATGTGCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCGCTGCCATCCCTTCAGGAAGTGGACTGTTGCTCTCCTAGCAGTTCAGAAGAGGAAGGCTCTTCAGGAAGCCCTACAACCTCACCACGCCTAAGCCGACCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTGGGCCGGGCAGCCACAACGCTAATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACCCAAGTTCAGGCGGGACCTGAGCCCAGGGAATTCCAGGGCATCCGAGAGGCCCTAAGTCGGGCACGAGCCATGCTGAGTGCAGAGCTGGGGCCCGAGAAGCTACTGCCGCCAGAGTGGCTTGgtaggtcctttcaagggtatggtttcgcacaaactcccctaatgaagttc Alignment from Pairagon AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG aaaatcaactatgagcacccctcccacttctctccttctgtcctgggcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTTCTGAAGCCTCACCCATCCCTCAGCTGAAGGCTCGCTCCCCTCAGGACCTGGCCCAGGGGTCTGGGGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGGGATCTGGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCAACTGATACCTCCAGCCCCCTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTTCCAGGGACATCTTCCAGCCAAACGGAACGACTACCC---CAACAGTTGCAGCAGAGGGAAGGCTCAGTGGGGTATCATGTGCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCGCTGCCATCCCTTCAGGAAGTGGACTGTTGCTCTCCTAGCAGTTCAGAAGAGGAAGGCTCTTCAGGAAGCCCTACAACCTCACCACGCCTAAGCCGACCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTGGGCCGGGCAGCCACAACGCTAATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACCCAAGTTCAGGCGGGACCTGAGCCCAGGGAATTCCAGGGCATCCGAGAGGCCCTAAGTCGGGCACGAGCCATGCTGAGTGCAGAGCTGGGGCCCGAGAAGCTACTGCCGCCAGAGTGGCTTGgtaggtcctttcaagggtatggtttcgcacaaactcccctaatgaagttc Alignment from Exonerate_protein2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG aaaatcaactatgagcacccctcccacttctctccttctgtcctgggcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTTCTGAAGCCTCACCCATCCCTCAGCTGAAGGCTCGCTCCCCTCAGGACCTGGCCCAGGGGTCTGGGGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGGGATCTGGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCAACTGATACCTCCAGCCCCCTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTTCCAGGGACATCTTCCAGCCAAACGGAACGACTA---CCCCAACAGTTGCAGCAGAGGGAAGGCTCAGTGGGGTATCATGTGCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCGCTGCCATCCCTTCAGGAAGTGGACTGTTGCTCTCCTAGCAGTTCAGAAGAGGAAGGCTCTTCAGGAAGCCCTACAACCTCACCACGCCTAAGCCGACCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTGGGCCGGGCAGCCACAACGCTAATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACCCAAGTTCAGGCGGGACCTGAGCCCAGGGAATTCCAGGGCATCCGAGAGGCCCTAAGTCGGGCACGAGCCATGCTGAGTGCAGAGCTGGGGCCCGAGAAGCTACTGCCGCCAGAGTGGCTTGgtaggtcctttcaagggtatggtttcgcacaaactcccctaatgaagttc Alignment from Exonerate_coding2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG aaaatcaactatgagcacccctcccacttctctccttctgtcctgggcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTTCTGAAGCCTCACCCATCCCTCAGCTGAAGGCTCGCTCCCCTCAGGACCTGGCCCAGGGGTCTGGGGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGGGATCTGGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCAACTGATACCTCCAGCCCCCTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTTCCAGGGACATCTTCCAGCCAAACGGAACGACTA---CCCCAACAGTTGCAGCAGAGGGAAGGCTCAGTGGGGTATCATGTGCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCGCTGCCATCCCTTCAGGAAGTGGACTGTTGCTCTCCTAGCAGTTCAGAAGAGGAAGGCTCTTCAGGAAGCCCTACAACCTCACCACGCCTAAGCCGACCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTGGGCCGGGCAGCCACAACGCTAATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACCCAAGTTCAGGCGGGACCTGAGCCCAGGGAATTCCAGGGCATCCGAGAGGCCCTAAGTCGGGCACGAGCCATGCTGAGTGCAGAGCTGGGGCCCGAGAAGCTACTGCCGCCAGAGTGGCTTGgtaggtcctttcaagggtatggtttcgcacaaactcccctaatgaagttc Alignment from GeneWise AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG aaaatcaactatgagcacccctcccacttctctccttctgtcctgggcagAG---TGGAGCTCTTCACTGAATACCAAGGACCAACAGAGACCTTCTGAAGCCTCACCCATCCCTCAGCTGAAGGCTCGCTCCCCTCAGGACCTGGCCCAGGGGTCTGGGGCTGCCCTCTGCTTCTTCAACCCTCTCTTATCAGGGGATCTGGGCCCCACTAGACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCAACTGATACCTCCAGCCCCCTGTCCCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTTCCAGGGACATCTTCCAGCCAAACGGAACGACTACCC---CAACAGTTGCAGCAGAGGGAAGGCTCAGTGGGGTATCATGTGCCAGGAAGTGCTGCCAGCCCATGTCTTCCTCCGCTGCCATCCCTTCAGGAAGTGGACTGTTGCTCTCCTAGCAGTTCAGAAGAGGAAGGCTCTTCAGGAAGCCCTACAACCTCACCACGCCTAAGCCGACCAAGGCAGCGGCAACCTCTACTCAGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTAATACCAGAACGGCAGGTGGGCCGGGCAGCCACAACGCTAATGCAAAACCGATGCACAGTTGTGGGTCAGCTGGTTCAAGACACCCTGACCCAAGTTCAGGCGGGACCTGAGCCCAGGGAATTCCAGGGCATCCGAGAGGCCCTAAGTCGGGCACGAGCCATGCTGAGTGCAGAGCTGGGGCCCGAGAAGCTACTGCCGCCAGAGTGGCTTGgtaggtcctttcaagggtatggtttcgcacaaactcccctaatgaagttc #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gggtatggtttcgcacaaactcccctaactttatgcgttctcttttccagaaTTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCTCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGGGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTTCTACAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTTAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTG------------ggtaggtgccgccaacatcagagcccatcttctcctgtaccactctgctag Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gggtatggtttcgcacaaactcccctaactttatgcgttctcttttccagaaTTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCTCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGGGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTTCTACAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTTAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTG------------ggtaggtgccgccaacatcagagcccatcttctcctgtaccactctgctag Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gggtatggtttcgcacaaactcccctaactttatgcgttctcttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCTCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGGGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTTCTACAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTTAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTG---GGTAGGTGCCgccaacatcagagcccatcttctcctgtaccactctgctag Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGA gggtatggtttcgcacaaactcccctaactttatgcgttctcttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCTCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGGGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTTCTACAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTTAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGGgtaggtgccgccaacatcagagcccatcttctcctgtaccactctgctag Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gggtatggtttcgcacaaactcccctaactttatgcgttctcttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCTCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGGGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTTCTACAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTTAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTG------------Ggtaggtgccgccaacatcagagcccatcttctcctgtaccactctgctag Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAG gggtatggtttcgcacaaactcccctaactttatgcgttctcttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCTCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGGGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTTCTACAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTTAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGGGTAGgtgccgccaacatcagagcccatcttctcctgtaccactctgctag Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAG gggtatggtttcgcacaaactcccctaactttatgcgttctcttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCTCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGGGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTTCTACAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTTAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGGGTAGgtgccgccaacatcagagcccatcttctcctgtaccactctgctag Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAG-- gggtatggtttcgcacaaactcccctaactttatgcgttctcttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCTCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGGGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTTCTACAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTTAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGGGTAGgtgccgccaacatcagagcccatcttctcctgtaccactctgctag #### Rom1_ID2497_2 --> 1 - 0 Original Alignment cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG cttttacactgcatctcatcatcttttggtggacccctgcctttctctagt------CCAAGCAATGTAGAAGGCTTATACCTGATTGATGGGGTCCCCTTCTCCTGCTGTAATCCCCACTCACCT------TGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACACCTGCAGGGTTTATCCGGAACATTGGGGAGTATTCTGGTGATAACTTTATTGCTGCAGgtacggcattaaggtccctaactcccacattcagttttgtgaccttaaaa Alignment from CESAR cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tcaatgcttttacactgcatctcatttggtggacccctgcctttctctagt------CCAAGCAATGTAGAAGGCTTATACCTGATTGATGGGGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACACCTGCAGGGTTTATCCGGAACATTGGGGAGTATTCTGGTGATAACTTTATTGCTGCAGgtacggcattaaggtccctaactcccacattcagttttgtgaccttaaaa Alignment from Spaln_aa2Genome CCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG cttttacactgcatctcatcatcttttggtggacccctgcctttctctagTCCAAGCAATGTAGAAGGCTTATACCTGATTGATGGGGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACACCTGCAGGGTTTATCCGGAACATTGGGGAGTATTCTGGTGATAACTTTATTGCTGCAGgtacggcattaaggtccctaactcccacattcagttttgtgaccttaaaa Alignment from Spaln_nt2Genome CCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG cttttacactgcatctcatcatcttttggtggacccctgcctttctctagTCCAAGCAATGTAGAAGGCTTATACCTGATTGATGGGGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCT---TCCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACACCTGCAGGGTTTATCCGGAACATTGGGGAGTATTCTGGTGATAACTTTATTGCTGCAGgtacggcattaaggtccctaactcccacattcagttttgtgaccttaaaa Alignment from Pairagon CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG cttttacactgcatctcatcatcttttggtggacccctgcctttctctag-----TCCA-AGCAATGTAGAAGGCTTATACCTGATTGATGGGGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCT---TCCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACACCTGCAGGGTTTATCCGGAACATTGGGGAGTATTCTGGTGATAACTTTATTGCTGCAGgtacggcattaaggtccctaactcccacattcagttttgtgaccttaaaa Alignment from Exonerate_protein2genome CCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG cttttacactgcatctcatcatcttttggtggacccctgcctttctctagTCCAAGCAATGTAGAAGGCTTATACCTGATTGATGGGGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACACCTGCAGGGTTTATCCGGAACATTGGGGAGTATTCTGGTGATAACTTTATTGCTGCAGgtacggcattaaggtccctaactcccacattcagttttgtgaccttaaaa Alignment from Exonerate_coding2genome CCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG cttttacactgcatctcatcatcttttggtggacccctgcctttctctagTCCAAGCAATGTAGAAGGCTTATACCTGATTGATGGGGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACACCTGCAGGGTTTATCCGGAACATTGGGGAGTATTCTGGTGATAACTTTATTGCTGCAGgtacggcattaaggtccctaactcccacattcagttttgtgaccttaaaa Alignment from GeneWise CCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG cttttacactgcatctcatcatcttttggtggacccctgcctttctctagTCCAAGCAATGTAGAAGGCTTATACCTGATTGATGGGGTCCCCTTCTCCTGCTGTAATCCCCACTCACCT------TGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCACAAAGTGCTGTTGGAACACCTGCAGGGTTTATCCGGAACATTGGGGAGTATTCTGGTGATAACTTTATTGCTGCAGgtacggcattaaggtccctaactcccacattcagttttgtgaccttaaaa #### Rpp30_ID7088_8 --> 0 - 0 Original Alignment ---AATGTAATTCTGTCCAGTGCTGCAGAAAGG atgctattgatcatctaagattttcccttacattttgttctccattgcagTGGAATGTAATTCTGTCAAGTACTGCAGAGAGAgtaagtatatggcaactcttatagctgcggttaggtttcctaaggtgtaa Alignment from CESAR ---AATGTAATTCTGTCCAGTGCTGCAGAAAGG atgctattgatcatctaagattttcccttacattttgttctccattgcagTGGAATGTAATTCTGTCAAGTACTGCAGAGAGAgtaagtatatggcaactcttatagctgcggttaggtttcctaaggtgtaa Alignment from Spaln_aa2Genome ---AATGTAATTCTGTCCAGTGCTGCAGAAAG atgctattgatcatctaagattttcccttacattttgttctccattgcagTGGAATGTAATTCTGTCAAGTACTGCAGAGAGAgtaagtatatggcaactcttatagctgcggttaggtttcctaaggtgtaa Alignment from Spaln_nt2Genome GAATGTAATT--CTGTCCAGTGCTGCAGAAAGG atgctattgatcatctaagattttcccttacattttgttctccattgcagTGGAATGTAATTCTGTCAAGTACTGCAGAGAGAgtaagtatatggcaactcttatagctgcggttaggtttcctaaggtgtaa Alignment from Pairagon ---AATGTAATTCTGTCCAGTGCTGCAGAAAGG atgctattgatcatctaagattttcccttacattttgttctccattgcagTGGAATGTAATTCTGTCAAGTACTGCAGAGAGAgtaagtatatggcaactcttatagctgcggttaggtttcctaaggtgtaa Alignment from Exonerate_protein2genome AATGTAATTCTGTCCAGTGCTGCAGAAAGG atgctattgatcatctaagattttcccttacattttgttctccattgcagtggAATGTAATTCTGTCAAGTACTGCAGAGAGAgtaagtatatggcaactcttatagctgcggttaggtttcctaaggtgtaa Alignment from Exonerate_coding2genome atgctattgatcatctaagattttcccttacattttgttctccattgcagtggaatgtaattctgtcaagtactgcagagagagtaagtatatggcaactcttatagctgcggttaggtttcctaaggtgtaa Alignment from GeneWise atgctattgatcatctaagattttcccttacattttgttctccattgcagtggaatgtaattctgtcaagtactgcagagagagtaagtatatggcaactcttatagctgcggttaggtttcctaaggtgtaa #### Rps6ka4_ID1807_13 --> 0 - 0 Original Alignment CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagcacactatgcagttgtccccttgggtgacttttctacctttcag---------TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaagtggaggaattaggaagtggagcagaacaactcggtatatttgatg Alignment from CESAR CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG acatgaatacctgagcacactatgccttgggtgacttttctacctttcag---------TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaagtggaggaattaggaagtggagcagaacaactcggtatatttgatg Alignment from Spaln_aa2Genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagcacactatgcagttgtccccttgggtgacttttctacctttcag---------TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaagtggaggaattaggaagtggagcagaacaactcggtatatttgatg Alignment from Spaln_nt2Genome TTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagcacactatgcagttgtccccttgggtgacttttctacctttcag-TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaagtggaggaattaggaagtggagcagaacaactcggtatatttgatg Alignment from Pairagon CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagcacactatgcagttgtccccttgggtgacttttctacctttcag---------TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaagtggaggaattaggaagtggagcagaacaactcggtatatttgatg Alignment from Exonerate_protein2genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagcacactatgcagttgtccccttgggtgacttttctACCTTTCAGTACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaagtggaggaattaggaagtggagcagaacaactcggtatatttgatg Alignment from Exonerate_coding2genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagcacactatgcagttgtccccttgggtgacttttctACCTTTCAGTACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaagtggaggaattaggaagtggagcagaacaactcggtatatttgatg Alignment from GeneWise TACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagcacactatgcagttgtccccttgggtgacttttctacctttcagTACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaagtggaggaattaggaagtggagcagaacaactcggtatatttgatg #### Rps6ka4_ID1809_11 --> 0 - 2 Original Alignment GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCag gctttgacttgtgtgagtgtaaaaatctgtctcttctctttgttccttagGACTCACCCTTGTTTCAGCAGTACGAGCTTGACCTTCGGGAGCCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATT---------aggtgagtgcccttaccttaacctctatgggcagaggcctccaaagaggacc Alignment from CESAR GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCag gctttgacttgtgtgagtgtaaaaatctgtctcttctctttgttccttagGACTCACCCTTGTTTCAGCAGTACGAGCTTGACCTTCGGGAGCCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATT---------aggtgagtgcccttaccttaacctctatgggcagaggcctccaaagaggacc Alignment from Spaln_aa2Genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCT gctttgacttgtgtgagtgtaaaaatctgtctcttctctttgttccttagGACTCACCCTTGTTTCAGCAGTACGAGCTTGACCTTCGGGAGCCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTAGgtgagtgcccttaccttaacctctatgggcagaggcctccaaagaggacc Alignment from Spaln_nt2Genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCA gctttgacttgtgtgagtgtaaaaatctgtctcttctctttgttccttagGACTCACCCTTGTTTCAGCAGTACGAGCTTGACCTTCGGGAGCCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGAT--TAGgtgagtgcccttaccttaacctctatgggcagaggcctccaaagaggacc Alignment from Pairagon GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCAG gctttgacttgtgtgagtgtaaaaatctgtctcttctctttgttccttagGACTCACCCTTGTTTCAGCAGTACGAGCTTGACCTTCGGGAGCCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGAT---------TAGgtgagtgcccttaccttaacctctatgggcagaggcctccaaagaggacc Alignment from Exonerate_protein2genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCAG gctttgacttgtgtgagtgtaaaaatctgtctcttctctttgttccttagGACTCACCCTTGTTTCAGCAGTACGAGCTTGACCTTCGGGAGCCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATT---------AGgtgagtgcccttaccttaacctctatgggcagaggcctccaaagaggacc Alignment from Exonerate_coding2genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCAG gctttgacttgtgtgagtgtaaaaatctgtctcttctctttgttccttagGACTCACCCTTGTTTCAGCAGTACGAGCTTGACCTTCGGGAGCCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATT---------AGgtgagtgcccttaccttaacctctatgggcagaggcctccaaagaggacc Alignment from GeneWise GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCT gctttgacttgtgtgagtgtaaaaatctgtctcttctctttgttccttagGACTCACCCTTGTTTCAGCAGTACGAGCTTGACCTTCGGGAGCCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTAGgtgagtgcccttaccttaacctctatgggcagaggcctccaaagaggacc #### Rps6ka4_ID1813_7 --> 0 - 2 Original Alignment GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCcg acagtaaggctgaatgtgtacaaggtctctggcctttttgctcctcacag------------------------------------GGGTTGCTGACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTcggttagttggatttgtcattgaggttgccagatttaatatagcagtgctgg Alignment from CESAR GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCcg tggtgggcagaggttgtgtacaaggtctctggcctttttgctcctcacag---------------------GGG---------------TTGCTGACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTcggttagttggatttgtcattgaggttgccagatttaatatagcagtgctct Alignment from Spaln_aa2Genome GCAAGGCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCGACGG aatgtgtacaagGT------------CTCTGGCCTTTTTGCTCCTCACAG---GGGTTGCTGACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCGGTTAgttggatttgtcattgaggttgccagatttaatatagcagtgctgg Alignment from Spaln_nt2Genome CCT GGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCG ACAgtaaggctgaatgtgtacaaggtctctggcctttttgctcctcacagGGGT----------------TGCTGACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCGgttagttggatttgtcattgaggttgccagatttaatatagcagtgctgg Alignment from Pairagon GCAAGGCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCG acagtaaggctgaatgtgtacaaggtctctggcctttttgctcctcacag-----------------------------------------GGGTTGCTGACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCGgttagttggatttgtcattgaggttgccagatttaatatagcagtgctgg Alignment from Exonerate_protein2genome GAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCG acagtaaggctgaatgtgtacaaggtctctggcctttttgctcctcacagGGGTTGCTGACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCGgttagttggatttgtcattgaggttgccagatttaatatagcagtgctgg Alignment from Exonerate_coding2genome GAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCG acagtaaggctgaatgtgtacaaggtctctggcctttttgctcctcacagGGGTTGCTGACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCGgttagttggatttgtcattgaggttgccagatttaatatagcagtgctgg Alignment from GeneWise GGAGC---------------CTGGGTATCCTGCTCTTC------------GAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCGACGG ACAGTAAGGCTGAATGTGTACAAGGTCTCTGGCCTTTTTGCTCCTCACAGGGGTTGCTGACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCGGTTAgttggatttgtcattgaggttgccagatttaatatagcagtgctgg #### Rps6ka4_ID1817_3 --> 2 - 1 Original Alignment ccTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTG------g tttcaacccacccagttcactattcgacaacacagattctttcctttcagccTATGGAAAGGTGTTTCTTGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTATGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGTACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCAAGCTCCACCTCATCCTACCCCGAggtgagtgagttggattaagcatccttataggaactataccttccggatga Alignment from CESAR ccTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTG------g tttcaacccacccagttcactattcgacaacacagattctttcctttcagccTATGGAAAGGTGTTTCTTGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTATGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGTACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCAAGCTCCACCTCATCCTACCCCGAggtgagtgagttggattaagcatccttataggaactataccttccggatga Alignment from Spaln_aa2Genome CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTG------G tttcaacccacccagttcactattcgacaacacagattctttcctttcagCCTATGGAAAGGTGTTTCTTGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTATGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGTACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCAAGCTCCACCTCATCCTACCCCGAGgtgagtgagttggattaagcatccttataggaactataccttccggatga Alignment from Spaln_nt2Genome CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTG------G tttcaacccacccagttcactattcgacaacacagattctttcctttcagCCTATGGAAAGGTGTTTCTTGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTATGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGTACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCAAGCTCCACCTCATCCTACCCCGAGgtgagtgagttggattaagcatccttataggaactataccttccggatga Alignment from Pairagon CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCT------GG tttcaacccacccagttcactattcgacaacacagattctttcctttcagCCTATGGAAAGGTGTTTCTTGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTATGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGTACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCAAGCTCCACCTCATCCTACCCCGAGgtgagtgagttggattaagcatccttataggaactataccttccggatga Alignment from Exonerate_protein2genome CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTG------G tttcaacccacccagttcactattcgacaacacagattctttcctttcagCCTATGGAAAGGTGTTTCTTGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTATGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGTACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCAAGCTCCACCTCATCCTACCCCGAGgtgagtgagttggattaagcatccttataggaactataccttccggatga Alignment from Exonerate_coding2genome CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTG------G tttcaacccacccagttcactattcgacaacacagattctttcctttcagCCTATGGAAAGGTGTTTCTTGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTATGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGTACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCAAGCTCCACCTCATCCTACCCCGAGgtgagtgagttggattaagcatccttataggaactataccttccggatga Alignment from GeneWise CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTG------G tttcaacccacccagttcactattcgacaacacagattctttcctttcagCCTATGGAAAGGTGTTTCTTGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTATGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGTACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCAAGCTCCACCTCATCCTACCCCGAGgtgagtgagttggattaagcatccttataggaactataccttccggatga #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment ---GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag ccaagggattggcaatacctgcattactatggctctgtcttctgcctcagTCTGGTTTTACATATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACACCCATCaggtaaggggcagggcagatagatgtttagtcaagcactcccaaacatggat Alignment from CESAR ---GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag ccaagggattggcaatacctgcattactatggctctgtcttctgcctcagTCTGGTTTTACATATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACACCCATCaggtaaggggcagggcagatagatgtttagtcaagcactcccaaacatggat Alignment from Spaln_aa2Genome GGCTTTACATAT---GTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ccaagggattggcaatacctgcattactatggctctgtcttctgcctcagTCTGGTTTTACATATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACACCCATCAGgtaaggggcagggcagatagatgtttagtcaagcactcccaaacatggat Alignment from Spaln_nt2Genome GGCTTTACATAT---GTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ccaagggattggcaatacctgcattactatggctctgtcttctgcctcagTCTGGTTTTACATATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACACCCATCAGgtaaggggcagggcagatagatgtttagtcaagcactcccaaacatggat Alignment from Pairagon ---GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ccaagggattggcaatacctgcattactatggctctgtcttctgcctcagTCTGGTTTTACATATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACACCCATCAGgtaaggggcagggcagatagatgtttagtcaagcactcccaaacatggat Alignment from Exonerate_protein2genome ---GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ccaagggattggcaatacctgcattactatggctctgtcttctgcctcagTCTGGTTTTACATATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACACCCATCAGgtaaggggcagggcagatagatgtttagtcaagcactcccaaacatggat Alignment from Exonerate_coding2genome ---GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ccaagggattggcaatacctgcattactatggctctgtcttctgcctcagTCTGGTTTTACATATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACACCCATCAGgtaaggggcagggcagatagatgtttagtcaagcactcccaaacatggat Alignment from GeneWise ---GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG ccaagggattggcaatacctgcattactatggctctgtcttctgcctcagTCTGGTTTTACATATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACACCCATCAGgtaaggggcagggcagatagatgtttagtcaagcactcccaaacatggat #### Rps6kb2_ID373_9 --> 1 - 0 Original Alignment gGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG cacaaagggcctacacttatattcctgaactaactgtcattgcttttcagg------GAGATTCTATTGCGCACAGGTCATAATCGGGCAGTGGACTGGTGGAGCCTTGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaatttcacttcactggtggtgttaaggagataatgtagggagctcttt Alignment from CESAR gGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG gagtaccacaaagggcctacacttatgaactaactgtcattgcttttcagg------GAGATTCTATTGCGCACAGGTCATAATCGGGCAGTGGACTGGTGGAGCCTTGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaatttcacttcactggtggtgttaaggagataatgtagggagctcttt Alignment from Spaln_aa2Genome GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG cacaaagggcctacacttatattcctgaactaactgtcattgcttttcagG------GAGATTCTATTGCGCACAGGTCATAATCGGGCAGTGGACTGGTGGAGCCTTGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaatttcacttcactggtggtgttaaggagataatgtagggagctcttt Alignment from Spaln_nt2Genome GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG cacaaagggcctacacttatattcctgaactaactgtcattgcttttcagG------GAGATTCTATTGCGCACAGGTCATAATCGGGCAGTGGACTGGTGGAGCCTTGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaatttcacttcactggtggtgttaaggagataatgtagggagctcttt Alignment from Pairagon GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG cacaaagggcctacacttatattcctgaactaactgtcattgcttttcagG------GAGATTCTATTGCGCACAGGTCATAATCGGGCAGTGGACTGGTGGAGCCTTGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaatttcacttcactggtggtgttaaggagataatgtagggagctcttt Alignment from Exonerate_protein2genome GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG cacaaagggcctacacttatattcctgaactaactgtcattgcttttcagG------GAGATTCTATTGCGCACAGGTCATAATCGGGCAGTGGACTGGTGGAGCCTTGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaatttcacttcactggtggtgttaaggagataatgtagggagctcttt Alignment from Exonerate_coding2genome GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG cacaaagggcctacacttatattcctgaactaactgtcattgcttttcagG------GAGATTCTATTGCGCACAGGTCATAATCGGGCAGTGGACTGGTGGAGCCTTGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaatttcacttcactggtggtgttaaggagataatgtagggagctcttt Alignment from GeneWise GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG cacaaagggcctacacttatattcctgaactaactgtcattgcttttcagG------GAGATTCTATTGCGCACAGGTCATAATCGGGCAGTGGACTGGTGGAGCCTTGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaatttcacttcactggtggtgttaaggagataatgtagggagctcttt #### Rps6kb2_ID379_3 --> 1 - 0 Original Alignment gACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG ggctttggagtacataagatcttttccccctccctttttcctttcctcaggACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGTGTGAACCTTGGTCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGCTAT------gtgagtaaacggatatcttactccctctggcagcttcagcccgagtgcaa Alignment from CESAR gACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG ggctttggagtacataagatcttttccccctccctttttcctttcctcaggACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGTGTGAACCTTGGTCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGCTAT------gtgagtaaacggatatcttactccctctggcagcttcagcccga Alignment from Spaln_aa2Genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTAT ggctttggagtacataagatcttttccccctccctttttcctttcctcagGACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGTGTGAACCTTGGTCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGCTATgtgagtaaacggatatcttactccctctggcagcttcagcccgagtgcaa Alignment from Spaln_nt2Genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCA ggctttggagtacataagatcttttccccctccctttttcctttcctcagGACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGTGTGAACCTTGGTCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGCTATGTGAgtaaacggatatcttactccctctggcagcttcagcccgagtgcaa Alignment from Pairagon GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTAT ggctttggagtacataagatcttttccccctccctttttcctttcctcagGACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGTGTGAACCTTGGTCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGCTATgtgagtaaacggatatcttactccctctggcagcttcagcccgagtgcaa Alignment from Exonerate_protein2genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCA ggctttggagtacataagatcttttccccctccctttttcctttcctcagGACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGTGTGAACCTTGGTCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGCTATGTGAgtaaacggatatcttactccctctggcagcttcagcccgagtgcaa Alignment from Exonerate_coding2genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCA ggctttggagtacataagatcttttccccctccctttttcctttcctcagGACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGTGTGAACCTTGGTCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGCTATGTGAgtaaacggatatcttactccctctggcagcttcagcccgagtgcaa Alignment from GeneWise GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTAT ggctttggagtacataagatcttttccccctccctttttcctttcctcagGACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGTGTGAACCTTGGTCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGCTATgtgagtaaacggatatcttactccctctggcagcttcagcccgagtgcaa #### Rps6kb2_ID380_2 --> 0 - 2 Original Alignment ---------GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGga gagcctatgttaggaggatgtatacttccataccttctctctcctgacagGACCTCACCGATGTGTGTCCCCTTGGCAAATTAAGGGCTGCTGGCCTGgagtgggtgggggtctagcttagaggctaggggtctaaagaaggctttggag Alignment from CESAR GAC---------GTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGga gagcctatgttaggaggatgtatacttccataccttctctctcctgacagGACCTCACCGATGTGTGTCCCCTTGGCAAATTAAGGGCTGCTGGCCTGgagtgggtgggggtctagcttagaggctaggggtctaaagaaggctttggag Alignment from Spaln_aa2Genome GACGTGTGT---------CCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagcctatgttaggaggatgtatacttccataccttctctctcctgacagGACCTCACCGATGTGTGTCCCCTTGGCAAATTAAGGGCTGCTGGCCTGGAgtgggtgggggtctagcttagaggctaggggtctaaagaaggctttggag Alignment from Spaln_nt2Genome GCCCTG-CGGACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagcctatgttaggaggatgtatacttccataccttctctctcctgacagGACCTCACCGATGTGTGTCCCCTTGGCAAATTAAGGGCTGCTGGCCTGGAgtgggtgggggtctagcttagaggctaggggtctaaagaaggctttggag Alignment from Pairagon GAC---------GTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagcctatgttaggaggatgtatacttccataccttctctctcctgacagGACCTCACCGATGTGTGTCCCCTTGGCAAATTAAGGGCTGCTGGCCTGGAgtgggtgggggtctagcttagaggctaggggtctaaagaaggctttggag Alignment from Exonerate_protein2genome ACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagcctatgttaggaggatgtatacttccataccttctctctcctgacaggacctcaccgATGTGTGTCCCCTTGGCAAATTAAGGGCTGCTGGCCTGGAgtgggtgggggtctagcttagaggctaggggtctaaagaaggctttggag Alignment from Exonerate_coding2genome ACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagcctatgttaggaggatgtatacttccataccttctctctcctgacaggacctcaccgATGTGTGTCCCCTTGGCAAATTAAGGGCTGCTGGCCTGGAgtgggtgggggtctagcttagaggctaggggtctaaagaaggctttggag Alignment from GeneWise ---------GACGTGTGTCCCCTTGGCGAATTAAGGGCTGCTGGCCTGGA gagcctatgttaggaggatgtatacttccataccttctctctcctgacagGACCTCACCGATGTGTGTCCCCTTGGCAAATTAAGGGCTGCTGGCCTGGAgtgggtgggggtctagcttagaggctaggggtctaaagaaggctttggag #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTT---g agctggggttagatagccttattgtttgacttaacttttttcttttccagcATCGAGGAAATTTCGGCTGATTCAGAGGATGAGTTCGAGGAGGAACAAAGAGGCCGGGGCAAAGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGGGCGTGG---AAGGATGGTGGCGGTGACGGGCCTCTCAACTTC------CCAAAGGTTGCACATCGTGTCCGGGCCggtaagaaaggaaagctgaccagggaaaagttacccccccctgttgttgga Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTC---CTTg agctggggttagatagccttattgtttgacttaacttttttcttttccagcATCGAGGAAATTTCGGCTGATTCAGAGGATGAGTTCGAGGAGGAACAAAGAGGCCGGGGCAAAGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGGGCGTGG---AAGGATGGTGGCGGTGACGGGCCTCTCAACTTC------CCAAAGGTTGCACATCGTGTCCGGGCCggtaagaaaggaaagctgaccagggaaaagttacccccccctgttgttgga Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTC---CTTG agctggggttagatagccttattgtttgacttaacttttttcttttccagCATCGAGGAAATTTCGGCTGATTCAGAGGATGAGTTCGAGGAGGAACAAAGAGGCCGGGGCAAAGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGGGCGTGG---AAGGATGGTGGCGGTGACGGGCCTCTCAACTTC------CCAAAGGTTGCACATCGTGTCCGGGCCGgtaagaaaggaaagctgaccagggaaaagttacccccccctgttgttgga Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTGCC- agctggggttagatagccttattgtttgacttaacttttttcttttccagCATCGAGGAAATTTCGGCTGATTCAGAGGATGAGTTCGAGGAGGAACAAAGAGGCCGGGGCAAAGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGGGCGTG---GAAGGATGGTGGCGGTGACGGGCCTCTCAACTTC------CCAAAGGTTGCACATCGTGTCCGGGCCGgtaagaaaggaaagctgaccagggaaaagttacccccccctgttgttgga Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG--- agctggggttagatagccttattgtttgacttaacttttttcttttccagCATCGAGGAAATTTCGGCTGATTCAGAGGATGAGTTCGAGGAGGAACAAAGAGGCCGGGGCAAAGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGGGCGTG---GAAGGATGGTGGCGGTGACGGGCCTCTCAACTTC------CCAAAGGTTGCACATCGTGTCCGGGCCGgtaagaaaggaaagctgaccagggaaaagttacccccccctgttgttgga Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTC---CTTG agctggggttagatagccttattgtttgacttaacttttttcttttccagCATCGAGGAAATTTCGGCTGATTCAGAGGATGAGTTCGAGGAGGAACAAAGAGGCCGGGGCAAAGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGGGCGTGG---AAGGATGGTGGCGGTGACGGGCCTCTCAACTTC------CCAAAGGTTGCACATCGTGTCCGGGCCGgtaagaaaggaaagctgaccagggaaaagttacccccccctgttgttgga Alignment from Exonerate_coding2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTC---CTTG agctggggttagatagccttattgtttgacttaacttttttcttttccagCATCGAGGAAATTTCGGCTGATTCAGAGGATGAGTTCGAGGAGGAACAAAGAGGCCGGGGCAAAGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGGGCGTGG---AAGGATGGTGGCGGTGACGGGCCTCTCAACTTC------CCAAAGGTTGCACATCGTGTCCGGGCCGgtaagaaaggaaagctgaccagggaaaagttacccccccctgttgttgga Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTGCC- agctggggttagatagccttattgtttgacttaacttttttcttttccagCATCGAGGAAATTTCGGCTGATTCAGAGGATGAGTTCGAGGAGGAACAAAGAGGCCGGGGCAAAGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGGGCGTGG---AAGGATGGTGGCGGTGACGGGCCTCTCAACTTC------CCAAAGGTTGCACATCGTGTCCGGGCCGgtaagaaaggaaagctgaccagggaaaagttacccccccctgttgttgga #### Rrp12_ID8296_27 --> 1 - 2 Original Alignment aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag gatgaggggttcttggtaacgtcaagactataccttttccatctccacaggTTTGAGTTGGTGAAGGGCTTGTTACCTGCAGAGTACCACAAAGTACTGATTAACATAAGGAAAGCAGAGACCCGAGCAAAGAAATATCGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAGGAAGTTGAAGAAGAG------------------------------aggtttgtcatgactcttctcagcaatgagttgctcagctactatgcccggt Alignment from CESAR aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag gatgaggggttcttggtaacgtcaagactataccttttccatctccacaggTTTGAGTTGGTGAAGGGCTTGTTACCTGCAGAGTACCACAAAGTACTGATTAACATAAGGAAAGCAGAGACCCGAGCAAAGAAATATCGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAGGAAGTTGAAGAAGAG------------------------------aggtttgtcatgactcttctcagcaatgagttgctcagctactatgcccggt Alignment from Spaln_aa2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG gatgaggggttcttggtaacgtcaagactataccttttccatctccacagGTTTGAGTTGGTGAAGGGCTTGTTACCTGCAGAGTACCACAAAGTACTGATTAACATAAGGAAAGCAGAGACCCGAGCAAAGAAATATCGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAGGAAGTTGAAGAAGAGAGGTTTGTCATGACTCTTCTCAGCAATGAGTTgctcagctactatgcccggt Alignment from Spaln_nt2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGA---GCCTGTCCAGAGCAAAGGTGA gatgaggggttcttggtaacgtcaagactataccttttccatctccacagGTTTGAGTTGGTGAAGGGCTTGTTACCTGCAGAGTACCACAAAGTACTGATTAACATAAGGAAAGCAGAGACCCGAGCAAAGAAATATCGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAGGAAGTTGAAGAAGAGAGGTTTGTCATGACTCTTCTCAGCAA---TGAgttgctcagctactatgccc Alignment from Pairagon ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG gatgaggggttcttggtaacgtcaagactataccttttccatctccacagGTTTGAGTTGGTGAAGGGCTTGTTACCTGCAGAGTACCACAAAGTACTGATTAACATAAGGAAAGCAGAGACCCGAGCAAAGAAATATCGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAGGAAGTTGAAGAAGAG------------------------------AGgtttgtcatgactcttctcagcaatgagttgctcagctactatgcccggt Alignment from Exonerate_protein2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGA gatgaggggttcttggtaacgtcaagactataccttttccatctccacagGTTTGAGTTGGTGAAGGGCTTGTTACCTGCAGAGTACCACAAAGTACTGATTAACATAAGGAAAGCAGAGACCCGAGCAAAGAAATATCGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAGGAAGTTGAAGAAGAGAGGTTTGTCATGACTCTTCTCAGCAATGAgttgctcagctactatgcccggt Alignment from Exonerate_coding2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGA gatgaggggttcttggtaacgtcaagactataccttttccatctccacagGTTTGAGTTGGTGAAGGGCTTGTTACCTGCAGAGTACCACAAAGTACTGATTAACATAAGGAAAGCAGAGACCCGAGCAAAGAAATATCGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAGGAAGTTGAAGAAGAGAGGTTTGTCATGACTCTTCTCAGCAATGAgttgctcagctactatgcccggt Alignment from GeneWise ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAG------------------------------------------------GAAG gatgaggggttcttggtaacgtcaagactataccttttccatctccacagGTTTGAGTTGGTGAAGGGCTTGTTACCTGCAGAGTACCACAAAGTACTGATTAACATAAGGAAAGCAGAGACCCGAGCAAAGAAATATCGGGCCTTGAGTCAGGCTGCTGTAGAGGAGGAGGAAGTTGAAGAAGAGAGGTTTGTCATGACTCTTCTCAGCAATGAGTTGCTCAGCTACTATGCCCGGT #### Sart1_ID957_18 --> 0 - 0 Original Alignment GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG tgaggcctggattacagccttgcacccagttgctgcacatcttttcttagGCATTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAG------gtgagtggctgtcttggaagcaaggtggccactctccattcctatgaaat Alignment from CESAR GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG tgaggcctggattacagccttgcacccagttgctgcacatcttttcttagGCATTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAG------gtgagtggctgtcttggaagcaaggtggccactctccattccta Alignment from Spaln_aa2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAG tgaggcctggattacagccttgcacccagttgctgcacatcttttcttagGCATTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGgtgagtggctgtcttggaagcaaggtggccactctccattcctatgaaat Alignment from Spaln_nt2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAG tgaggcctggattacagccttgcacccagttgctgcacatcttttcttagGCATTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGgtgagtggctgtcttggaagcaaggtggccactctccattcctatgaaat Alignment from Pairagon GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAG tgaggcctggattacagccttgcacccagttgctgcacatcttttcttagGCATTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGgtgagtggctgtcttggaagcaaggtggccactctccattcctatgaaat Alignment from Exonerate_protein2genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAG tgaggcctggattacagccttgcacccagttgctgcacatcttttcttagGCATTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGgtgagtggctgtcttggaagcaaggtggccactctccattcctatgaaat Alignment from Exonerate_coding2genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAG tgaggcctggattacagccttgcacccagttgctgcacatcttttcttagGCATTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGgtgagtggctgtcttggaagcaaggtggccactctccattcctatgaaat Alignment from GeneWise GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG tgaggcctggattacagccttgcacccagttgctgcacatcttttcttagGCATTCCGGCAACTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGAT------GAGgtgagtggctgtcttggaagcaaggtggccactctccattcctatgaaat #### Sart1_ID961_14 --> 0 - 0 Original Alignment GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tagcaggtagggtggagtccgtccatgaactccttctcttctggttttagGACTTTGAGAGGGATGAGGAGCACTCAGCCAATGGTGGCTCTGAATCGGATGGGGAAGAGAACATTGGCTGGAGCACAGTCAACCTGGATGATGAGAAGCAACCTCAG---gtatgtcttactgatggccatgggtgaaggggatccagggtgactgttca Alignment from CESAR GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tagcaggtagggtggagtccgtccatgaactccttctcttctggttttagGACTTTGAGAGGGATGAGGAGCACTCAGCCAATGGTGGCTCTGAATCGGATGGGGAAGAGAACATTGGCTGGAGCACAGTCAACCTGGATGATGAGAAGCAACCTCAG---gtatgtcttactgatggccatgggtgaaggggatccagggtgactgt Alignment from Spaln_aa2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAG tagcaggtagggtggagtccgtccatgaactccttctcttctggttttagGACTTTGAGAGGGATGAGGAGCACTCAGCCAATGGTGGCTCTGAATCGGATGGGGAAGAGAACATTGGCTGGAGCACAGTCAACCTGGATGATGAGAAGCAACCTCAGgtatgtcttactgatggccatgggtgaaggggatccagggtgactgttca Alignment from Spaln_nt2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAG tagcaggtagggtggagtccgtccatgaactccttctcttctggttttagGACTTTGAGAGGGATGAGGAGCACTCAGCCAATGGTGGCTCTGAATCGGATGGGGAAGAGAACATTGGCTGGAGCACAGTCAACCTGGATGATGAGAAGCAACCTCAGgtatgtcttactgatggccatgggtgaaggggatccagggtgactgttca Alignment from Pairagon GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAG tagcaggtagggtggagtccgtccatgaactccttctcttctggttttagGACTTTGAGAGGGATGAGGAGCACTCAGCCAATGGTGGCTCTGAATCGGATGGGGAAGAGAACATTGGCTGGAGCACAGTCAACCTGGATGATGAGAAGCAACCTCAGgtatgtcttactgatggccatgggtgaaggggatccagggtgactgttca Alignment from Exonerate_protein2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAG tagcaggtagggtggagtccgtccatgaactccttctcttctggttttagGACTTTGAGAGGGATGAGGAGCACTCAGCCAATGGTGGCTCTGAATCGGATGGGGAAGAGAACATTGGCTGGAGCACAGTCAACCTGGATGATGAGAAGCAACCTCAGgtatgtcttactgatggccatgggtgaaggggatccagggtgactgttca Alignment from Exonerate_coding2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAG tagcaggtagggtggagtccgtccatgaactccttctcttctggttttagGACTTTGAGAGGGATGAGGAGCACTCAGCCAATGGTGGCTCTGAATCGGATGGGGAAGAGAACATTGGCTGGAGCACAGTCAACCTGGATGATGAGAAGCAACCTCAGgtatgtcttactgatggccatgggtgaaggggatccagggtgactgttca Alignment from GeneWise GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tagcaggtagggtggagtccgtccatgaactccttctcttctggttttagGACTTTGAGAGGGATGAGGAGCACTCAGCCAATGGTGGCTCTGAATCGGATGGGGAAGAGAACATTGGCTGGAGCACAGTCAACCTGGATGATGAGAAGCAA---CCTCAGgtatgtcttactgatggccatgggtgaaggggatccagggtgactgttca #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgtgaactcaggatctgcccacagctcttgtgttctctttgatccacag---CTGGAGATTGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTGTTCAATGCCACCTCGGAATTCTGCTGTACACTAGGGGAGTCTCCCACCTATGGGTTGGCAGGTAACCGTGAGGGGCAGGAGGAGCTGATGgtaaggcaagagtttcctggcttttattgttaggctgatgatgcttctag Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG atcctgtgaactcaggatctgcccactcttgtgttctctttgatccacag---CTGGAGATTGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTGTTCAATGCCACCTCGGAATTCTGCTGTACACTAGGGGAGTCTCCCACCTATGGGTTGGCAGGTAACCGTGAGGGGCAGGAGGAGCTGATGgtaaggcaagagtttcctggcttttattgttaggctgatgatgcttctag Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgtgaactcaggatctgcccacagctcttgtgttctctttgatccacagCTGGAGATTGTG---AAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTGTTCAATGCCACCTCGGAATTCTGCTGTACACTAGGGGAGTCTCCCACCTATGGGTTGGCAGGTAACCGTGAGGGGCAGGAGGAGCTGATGgtaaggcaagagtttcctggcttttattgttaggctgatgatgcttctag Alignment from Spaln_nt2Genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgtgaactcaggatctgcccacagctcttgtgttctctttgatccacagCTGGAGATTGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTGTTCAATGCCACCTCGGAATTCTGCTGTACACTAGGGGAGTCTCCCACCTATGGGTTGGCAGGTAACCGTGAGGGGCAGGAGGAGCTGATGgtaaggcaagagtttcctggcttttattgttaggctgatgatgcttctag Alignment from Pairagon CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgtgaactcaggatctgcccacagctcttgtgttctctttgatccacagCTGGAGATTGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTGTTCAATGCCACCTCGGAATTCTGCTGTACACTAGGGGAGTCTCCCACCTATGGGTTGGCAGGTAACCGTGAGGGGCAGGAGGAGCTGATGgtaaggcaagagtttcctggcttttattgttaggctgatgatgcttctag Alignment from Exonerate_protein2genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgtgaactcaggatctgcccacagctcttgtgttctctttgatccacagCTGGAGATTGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTGTTCAATGCCACCTCGGAATTCTGCTGTACACTAGGGGAGTCTCCCACCTATGGGTTGGCAGGTAACCGTGAGGGGCAGGAGGAGCTGATGgtaaggcaagagtttcctggcttttattgttaggctgatgatgcttctag Alignment from Exonerate_coding2genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgtgaactcaggatctgcccacagctcttgtgttctctttgatccacagCTGGAGATTGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTGTTCAATGCCACCTCGGAATTCTGCTGTACACTAGGGGAGTCTCCCACCTATGGGTTGGCAGGTAACCGTGAGGGGCAGGAGGAGCTGATGgtaaggcaagagtttcctggcttttattgttaggctgatgatgcttctag Alignment from GeneWise CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgtgaactcaggatctgcccacagctcttgtgttctctttgatccacagCTGGAGATTGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTGTTCAATGCCACCTCGGAATTCTGCTGTACACTAGGGGAGTCTCCCACCTATGGGTTGGCAGGTAACCGTGAGGGGCAGGAGGAGCTGATGgtaaggcaagagtttcctggcttttattgttaggctgatgatgcttctag #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG------------------ ggagatgtgacatgacaaatggtgtctggatgtttcatgcctccctgcagggGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTAGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCTGATTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGTCCAGGGTTGTACTGTGGgtaagactgttgagtctgggagatatccactggggctgatggtgcttgct Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG------------------ ggagatgtgacatgacaaatggtgtctggatgtttcatgcctccctgcagggGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTAGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCTGATTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGTCCAGGGTTGTACTGTGGgtaagactgttgagtctgggagatatccactggggctgatggtgcttgct Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG------ ggagatgtgacatgacaaatggtgtctggatgtttcatgcctccctgcagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTAGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCTGATTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGTCCAGGgttgtactgtgggtaagactgttgagtctgggagatatccactggggctgatggtgcttgct Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACA ggagatgtgacatgacaaatggtgtctggatgtttcatgcctccctgcagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTAGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCTGATTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAgtccagggttgtactgtgggtaagactgttgagtctgggagatatccactggggctgatggtgcttgct Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG------------------ ggagatgtgacatgacaaatggtgtctggatgtttcatgcctccctgcagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTAGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCTGATTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGTCCAGGGTTGTACTGTGGgtaagactgttgagtctgggagatatccactggggctgatggtgcttgct Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggagatgtgacatgacaaatggtgtctggatgtttcatgcctccctgcagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTAGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCTGATTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGtccagggttgtactgtgggtaagactgttgagtctgggagatatccactggggctgatggtgcttgct Alignment from Exonerate_coding2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG ggagatgtgacatgacaaatggtgtctggatgtttcatgcctccctgcagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTAGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCTGATTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGtccagggttgtactgtgggtaagactgttgagtctgggagatatccactggggctgatggtgcttgct Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG------ ggagatgtgacatgacaaatggtgtctggatgtttcatgcctccctgcagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTAGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCTGATTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGTCCAGGgttgtactgtgggtaagactgttgagtctgggagatatccactggggctgatggtgcttgct #### Sart1_ID968_7 --> 0 - 1 Original Alignment GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAA---g cccggattcagctggtacctggcttttgctcatgtgtgcttgcccaccagGACCTGTACAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACATGCTATTGATTCTTTTCAAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAAAAggtaagtggtatctggtaaccctgcttaggctagaatacaatggagatgtg Alignment from CESAR GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGAC---AAAg cccggattcagctggtacctggcttttgctcatgtgtgcttgcccaccagGACCTGTACAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACATGCTATTGATTCTTTTCAAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAAAAggtaagtggtatctggtaaccctgcttaggctagaatacaatggagatgtg Alignment from Spaln_aa2Genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAA---G cccggattcagctggtacctggcttttgctcatgtgtgcttgcccaccagGACCTGTACAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACATGCTATTGATTCTTTTCAAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAAAAGgtaagtggtatctggtaaccctgcttaggctagaatacaatggagatgtg Alignment from Spaln_nt2Genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAA---G cccggattcagctggtacctggcttttgctcatgtgtgcttgcccaccagGACCTGTACAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACATGCTATTGATTCTTTTCAAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAAAAGgtaagtggtatctggtaaccctgcttaggctagaatacaatggagatgtg Alignment from Pairagon GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAA------------------------------------------------------- cccggattcagctggtacctggcttttgctcatgtgtgcttgcccaccagGACCTGTACAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACATGCTATTGATTCTTTTCAAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAAAAGGTAAGTGGTATCTGGTAACCCTGCTTAGGCTAGAATACAATGGAGATGTG Alignment from Exonerate_protein2genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGAC---AAAG cccggattcagctggtacctggcttttgctcatgtgtgcttgcccaccagGACCTGTACAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACATGCTATTGATTCTTTTCAAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAAAAGgtaagtggtatctggtaaccctgcttaggctagaatacaatggagatgtg Alignment from Exonerate_coding2genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGAC---AAAG cccggattcagctggtacctggcttttgctcatgtgtgcttgcccaccagGACCTGTACAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACATGCTATTGATTCTTTTCAAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAAAAGgtaagtggtatctggtaaccctgcttaggctagaatacaatggagatgtg Alignment from GeneWise GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAGGG- cccggattcagctggtacctggcttttgctcatgtgtgcttgcccaccagGACCTGTACAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACATGCTATTGATTCTTTTCAAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAAAAGgtaagtggtatctggtaaccctgcttaggctagaatacaatggagatgtg #### Sec31b_ID9028_24 --> 0 - 0 Original Alignment ---------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagccaatattaggaccacttttgctgttaaacttttcagACCATCTCAAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtctgtcctctgtgcaggggacctacacttctacctagttccaaggagat Alignment from CESAR ---------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagccaatattaggaccacttttgctgttaaacttttcagACCATCTCAAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtctgtcctctgtgcaggggacctacacttctacctagttccaaggagat Alignment from Spaln_aa2Genome AAAACAAAAAGGAAGCTG---------GAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagccaatattaggaccacttttgctgttaaacttttcagACCATCTCAAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtctgtcctctgtgcaggggacctacacttctacctagttccaaggagat Alignment from Spaln_nt2Genome A---------AAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagccaatattaggaccacttttgctgttaaacttttcagACCATCTCAAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtctgtcctctgtgcaggggacctacacttctacctagttccaaggagat Alignment from Pairagon ---------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagccaatattaggaccacttttgctgttaaacttttcagACCATCTCAAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtctgtcctctgtgcaggggacctacacttctacctagttccaaggagat Alignment from Exonerate_protein2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagccaatattaggaccacttttgctgttaaacttttcagaccatctcaAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtctgtcctctgtgcaggggacctacacttctacctagttccaaggagat Alignment from Exonerate_coding2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagccaatattaggaccacttttgctgttaaacttttcagaccatctcaAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtctgtcctctgtgcaggggacctacacttctacctagttccaaggagat Alignment from GeneWise ---------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagccaatattaggaccacttttgctgttaaacttttcagACCATCTCAAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtctgtcctctgtgcaggggacctacacttctacctagttccaaggagat #### Sec31b_ID9029_23 --> 0 - 0 Original Alignment ---------CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT gcatagtgggatttccattaggtcgggatttggtaaattgactgtttaagTATCACACGCAACTACAGCCATTGCCTCCTGAGAGGACAGAGAAAGAGTCGCCCGCAGAGCATCAGTGTGTTAAGGACAGTTTCGATGCACTCCTCCAGCACTGCTCCTTGACTGCAACTAGCCTTgtaagtacaagtcttcatttcctcaagctctgaactgttcagggccacag Alignment from CESAR ---------CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT gcatagtgggatttccattaggtcgggatttggtaaattgactgtttaagTATCACACGCAACTACAGCCATTGCCTCCTGAGAGGACAGAGAAAGAGTCGCCCGCAGAGCATCAGTGTGTTAAGGACAGTTTCGATGCACTCCTCCAGCACTGCTCCTTGACTGCAACTAGCCTTgtaagtacaagtcttcatttcctcaagctctgaactgttcagggccacag Alignment from Spaln_aa2Genome CAACTCCAGCCA---------CTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT gcatagtgggatttccattaggtcgggatttggtaaattgactgtttaagTATCACACGCAACTACAGCCATTGCCTCCTGAGAGGACAGAGAAAGAGTCGCCCGCAGAGCATCAGTGTGTTAAGGACAGTTTCGATGCACTCCTCCAGCACTGCTCCTTGACTGCAACTAGCCTTgtaagtacaagtcttcatttcctcaagctctgaactgttcagggccacag Alignment from Spaln_nt2Genome GCAACTCCAGC--------CACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT gcatagtgggatttccattaggtcgggatttggtaaattgactgtttaagTATCACACGCAACTACAGCCATTGCCTCCTGAGAGGACAGAGAAAGAGTCGCCCGCAGAGCATCAGTGTGTTAAGGACAGTTTCGATGCACTCCTCCAGCACTGCTCCTTGACTGCAACTAGCCTTgtaagtacaagtcttcatttcctcaagctctgaactgttcagggccacag Alignment from Pairagon ---------CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT gcatagtgggatttccattaggtcgggatttggtaaattgactgtttaagTATCACACGCAACTACAGCCATTGCCTCCTGAGAGGACAGAGAAAGAGTCGCCCGCAGAGCATCAGTGTGTTAAGGACAGTTTCGATGCACTCCTCCAGCACTGCTCCTTGACTGCAACTAGCCTTgtaagtacaagtcttcatttcctcaagctctgaactgttcagggccacag Alignment from Exonerate_protein2genome CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT gcatagtgggatttccattaggtcgggatttggtaaattgactgtttaagtatcacacgCAACTACAGCCATTGCCTCCTGAGAGGACAGAGAAAGAGTCGCCCGCAGAGCATCAGTGTGTTAAGGACAGTTTCGATGCACTCCTCCAGCACTGCTCCTTGACTGCAACTAGCCTTgtaagtacaagtcttcatttcctcaagctctgaactgttcagggccacag Alignment from Exonerate_coding2genome CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT gcatagtgggatttccattaggtcgggatttggtaaattgactgtttaagtatcacacgCAACTACAGCCATTGCCTCCTGAGAGGACAGAGAAAGAGTCGCCCGCAGAGCATCAGTGTGTTAAGGACAGTTTCGATGCACTCCTCCAGCACTGCTCCTTGACTGCAACTAGCCTTgtaagtacaagtcttcatttcctcaagctctgaactgttcagggccacag Alignment from GeneWise ---------CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT gcatagtgggatttccattaggtcgggatttggtaaattgactgtttaagTATCACACGCAACTACAGCCATTGCCTCCTGAGAGGACAGAGAAAGAGTCGCCCGCAGAGCATCAGTGTGTTAAGGACAGTTTCGATGCACTCCTCCAGCACTGCTCCTTGACTGCAACTAGCCTTgtaagtacaagtcttcatttcctcaagctctgaactgttcagggccacag #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment ---------------------------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cctgtggttgtctagatggttgccccctgtccttgttttgtttttcgtagCCTTTGAACCACTCTCCTTCTGACGAACTGCCCGAGGCGTTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCCGAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtgactgtcagcccctcccctgatgccacaaaaaaggtggggttac Alignment from CESAR ---------------------------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cctgtggttgtctagatggttgccccctgtccttgttttgtttttcgtagCCTTTGAACCACTCTCCTTCTGACGAACTGCCCGAGGCGTTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCCGAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtgactgtcagcccctcccctgatgccacaaaaaaggtggggttac Alignment from Spaln_aa2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cctgtggttgtctagatggttgccccctgtccttgttttgtttttcgtagcctttgaaccactctccttctgacGAACTGCCCGAGGCGTTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCCGAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtgactgtcagcccctcccctgatgccacaaaaaaggtggggttac Alignment from Spaln_nt2Genome ACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cctgtggttgtctagatggttgccccctgtccttgttttgtttttcgtagcctttgaaccactctccttctgacgaactgcccgagGCGTTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCCGAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtgactgtcagcccctcccctgatgccacaaaaaaggtggggttac Alignment from Pairagon ---------------------------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cctgtggttgtctagatggttgccccctgtccttgttttgtttttcgtagCCTTTGAACCACTCTCCTTCTGACGAACTGCCCGAGGCGTTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCCGAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtgactgtcagcccctcccctgatgccacaaaaaaggtggggttac Alignment from Exonerate_protein2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cctgtggttgtctagatggttgccccctgtccttgttttgtttttcgtagcctttgaaccactctccttctgacgaaCTGCCCGAGGCGTTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCCGAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtgactgtcagcccctcccctgatgccacaaaaaaggtggggttac Alignment from Exonerate_coding2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cctgtggttgtctagatggttgccccctgtccttgttttgtttttcgtagcctttgaaccactctccttctgacgaaCTGCCCGAGGCGTTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCCGAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtgactgtcagcccctcccctgatgccacaaaaaaggtggggttac Alignment from GeneWise ---------------------------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG cctgtggttgtctagatggttgccccctgtccttgttttgtttttcgtagCCTTTGAACCACTCTCCTTCTGACGAACTGCCCGAGGCGTTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCCTGGGCCGGACTCACAACAGGCCCTGCTATCCGAACCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtgactgtcagcccctcccctgatgccacaaaaaaggtggggttac #### Sec31b_ID9044_8 --> 0 - 0 Original Alignment GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gctggtggcccctgacatctgttccttactgacccctacccctctcacagGTAGTCTACAAGTTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCATATGAGGCAGGCT------gtaagccgtatgagcaattgtttgagagtgttgggggggggagctgttta Alignment from CESAR GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gctggtggcccctgacatctgttccttactgacccctacccctctcacagGTAGTCTACAAGTTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCATATGAGGCAGGCT------gtaagccgtatgagcaattgtttgagagtgttgggggggggagc Alignment from Spaln_aa2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCT gctggtggcccctgacatctgttccttactgacccctacccctctcacagGTAGTCTACAAGTTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCATATGAGGCAGGCTgtaagccgtatgagcaattgtttgagagtgttgggggggggagctgttta Alignment from Spaln_nt2Genome AGGTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCT gctggtggcccctgacatctgttccttactgacccctacccctctcacAGGTAGTCTACAAGTTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCATATGAGGCAGGCTgtaagccgtatgagcaattgtttgagagtgttgggggggggagctgttta Alignment from Pairagon GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCT gctggtggcccctgacatctgttccttactgacccctacccctctcacagGTAGTCTACAAGTTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCATATGAGGCAGGCTgtaagccgtatgagcaattgtttgagagtgttgggggggggagctgttta Alignment from Exonerate_protein2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAGGTG gctggtggcccctgacatctgttccttactgacccctacccctctcacagGTAGTCTACAAGTTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCATATGAGGCAGGCTGTAAGCCGTatgagcaattgtttgagagtgttgggggggggagctgttta Alignment from Exonerate_coding2genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAGGTG gctggtggcccctgacatctgttccttactgacccctacccctctcacagGTAGTCTACAAGTTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCATATGAGGCAGGCTGTAAGCCGTatgagcaattgtttgagagtgttgggggggggagctgttta Alignment from GeneWise GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCT gctggtggcccctgacatctgttccttactgacccctacccctctcacagGTAGTCTACAAGTTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCATATGAGGCAGGCTgtaagccgtatgagcaattgtttgagagtgttgggggggggagctgttta #### Sec31b_ID9047_5 --> 0 - 0 Original Alignment AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG gattggtgggacaatatggtcagtgttcctctcattaatgttggttctagAACCCCCCGGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATAAAGGTCAGTAGTCACAGT------gtaacaactccaaatgggtgagcaatgacagccattggctgtcaaagtga Alignment from CESAR AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG gattggtgggacaatatggtcagtgttcctctcattaatgttggttctagAACCCCCCGGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATAAAGGTCAGTAGTCACAGT------gtaacaactccaaatgggtgagcaatgacagccattggctgtca Alignment from Spaln_aa2Genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGC gattggtgggacaatatggtcagtgttcctctcattaatgttggttctagAACCCCCCGGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATAAAGGTCAGTAGTCACAGTgtaacaactccaaatgggtgagcaatgacagccattggctgtcaaagtga Alignment from Spaln_nt2Genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGC gattggtgggacaatatggtcagtgttcctctcattaatgttggttctagAACCCCCCGGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATAAAGGTCAGTAGTCACAGTgtaacaactccaaatgggtgagcaatgacagccattggctgtcaaagtga Alignment from Pairagon AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGC gattggtgggacaatatggtcagtgttcctctcattaatgttggttctagAACCCCCCGGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATAAAGGTCAGTAGTCACAGTgtaacaactccaaatgggtgagcaatgacagccattggctgtcaaagtga Alignment from Exonerate_protein2genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGC gattggtgggacaatatggtcagtgttcctctcattaatgttggttctagAACCCCCCGGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATAAAGGTCAGTAGTCACAGTgtaacaactccaaatgggtgagcaatgacagccattggctgtcaaagtga Alignment from Exonerate_coding2genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGC gattggtgggacaatatggtcagtgttcctctcattaatgttggttctagAACCCCCCGGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATAAAGGTCAGTAGTCACAGTgtaacaactccaaatgggtgagcaatgacagccattggctgtcaaagtga Alignment from GeneWise AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG gattggtgggacaatatggtcagtgttcctctcattaatgttggttctagAACCCCCCGGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATAAAGGTCAGTAGTCAC------AGTgtaacaactccaaatgggtgagcaatgacagccattggctgtcaaagtga #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment ag---------------------------CTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gggcataataaagtatttcccagctggctattcttcatctttctgaccagagAGGTTTTGCTTCTGTCAGTACCCATTTGTATCACAGGTACAACACTTCAAGGGTCAGGCCCAAAATTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCACTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtaagtcactgatgtttggtcttacgggatctctagctatggcaccagga Alignment from CESAR ag---------------------------CTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gggcataataaagtatttcccagctggctattcttcatctttctgaccagagAGGTTTTGCTTCTGTCAGTACCCATTTGTATCACAGGTACAACACTTCAAGGGTCAGGCCCAAAATTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCACTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtaagtcactgatgtttggtcttacgggatctctagctatggcaccagga Alignment from Spaln_aa2Genome ATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gggcataataaagtatttcccagctggctattcttcatctttctgaccagagaggttttgcttctgtcagtacccatttgtatcacagGTACAACACTTCAAGGGTCAGGCCCAAAATTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCACTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtaagtcactgatgtttggtcttacgggatctctagctatggcaccagga Alignment from Spaln_nt2Genome AGCTC-------TCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gggcataataaagtatttcccagctggctattcttcatctttctgaccagagaggttttgcttctgtcagTACCCATTTGTATCACAGGTACAACACTTCAAGGGTCAGGCCCAAAATTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCACTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtaagtcactgatgtttggtcttacgggatctctagctatggcaccagga Alignment from Pairagon ------CACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gggcataataaagtatttcccagctggctattcttcatctttctgaccagagaggttttgcttctgtcagtacccatttgtatcacagGTACAACACTTCAAGGGTCAGGCCCAAAATTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCACTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtaagtcactgatgtttggtcttacgggatctctagctatggcaccagga Alignment from Exonerate_protein2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gggcataataaagtatttcccagctggctattcttcatctttctgaccagagaggttttgcttctgtcagtacccatTTGTATCACAGGTACAACACTTCAAGGGTCAGGCCCAAAATTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCACTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtaagtcactgatgtttggtcttacgggatctctagctatggcaccagga Alignment from Exonerate_coding2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gggcataataaagtatttcccagctggctattcttcatctttctgaccagagaggttttgcttctgtcagtacccatTTGTATCACAGGTACAACACTTCAAGGGTCAGGCCCAAAATTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCACTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtaagtcactgatgtttggtcttacgggatctctagctatggcaccagga Alignment from GeneWise ATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gggcataataaagtatttcccagctggctattcttcatctttctgaccagagaggttttgcttctgtcagtacccatttgtatcacagGTACAACACTTCAAGGGTCAGGCCCAAAATTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCACTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtaagtcactgatgtttggtcttacgggatctctagctatggcaccagga #### Sema4g_ID9247_5 --> 0 - 1 Original Alignment ---------GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg aagccttgttgcccctcatgtaccattaaattgacaatgctttttactagGTCCTTGCAGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAAGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTggtttgtatagtgtaaccaggcccccagccccacaattctgtgacctgaat Alignment from CESAR ---------GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg aagccttgttgcccctcatgtaccattaaattgacaatgctttttactagGTCCTTGCAGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAAGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTggtttgtatagtgtaaccaggcccccagccccacaattctgtgacctgaat Alignment from Spaln_aa2Genome GCAGCTATTGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG aagccttgttgcccctcatgtaccattaaattgacaatgctttttactagGTCCTTGCAGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAAGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGgtttgtatagtgtaaccaggcccccagccccacaattctgtgacctgaat Alignment from Spaln_nt2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG aagccttgttgcccctcatgtaccattaaattgacaatgctttttactaggtccttgcagATGCTGAAA-CCTTCATCTTGCCTACTAGTTTTGAAGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGgtttgtatagtgtaaccaggcccccagccccacaattctgtgacctgaat Alignment from Pairagon ATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG aagccttgttgcccctcatgtaccattaaattgacaatgctttttactaggtccttgcagATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAAGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGgtttgtatagtgtaaccaggcccccagccccacaattctgtgacctgaat Alignment from Exonerate_protein2genome ATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG aagccttgttgcccctcatgtaccattaaattgacaatgctttttactaggtccttgcagATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAAGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGgtttgtatagtgtaaccaggcccccagccccacaattctgtgacctgaat Alignment from Exonerate_coding2genome ATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG aagccttgttgcccctcatgtaccattaaattgacaatgctttttactaggtccttgcagATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAAGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGgtttgtatagtgtaaccaggcccccagccccacaattctgtgacctgaat Alignment from GeneWise ---------GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG aagccttgttgcccctcatgtaccattaaattgacaatgctttttactagGTCCTTGCAGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAAGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGgtttgtatagtgtaaccaggcccccagccccacaattctgtgacctgaat #### Sema4g_ID9249_7 --> 2 - 0 Original Alignment at------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG tcgggcttgacccgtttcataaatcagccttaatatagattatttgctagatGATGAAGCAGAGTTTGTGTTCTCCGTGCTGGTACGACAGAGCAAGACAAGCACTGTGGGTGGTGACGACAGGATTTATTTCTTCTTCAAGGAGCGTGAGGAAGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtgagactgatgcactacaagtctggggtaatgcaaaggccagacctctg Alignment from CESAR at------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG tcgggcttgacccgtttcataaatcagccttaatatagattatttgctagatGATGAAGCAGAGTTTGTGTTCTCCGTGCTGGTACGACAGAGCAAGACAAGCACTGTGGGTGGTGACGACAGGATTTATTTCTTCTTCAAGGAGCGTGAGGAAGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtgagactgatgcactacaagtctggggtaatgcaaaggccagacctctg Alignment from Spaln_aa2Genome ATGCTGAGTTT------GTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG tcgggcttgacccgtttcataaatcagccttaatatagattatttgctagATGATGAAGCAGAGTTTGTGTTCTCCGTGCTGGTACGACAGAGCAAGACAAGCACTGTGGGTGGTGACGACAGGATTTATTTCTTCTTCAAGGAGCGTGAGGAAGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtgagactgatgcactacaagtctggggtaatgcaaaggccagacctctg Alignment from Spaln_nt2Genome ATGCTGAGTTTGT------GTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG tcgggcttgacccgtttcataaatcagccttaatatagattatttgctagATGATGAAGCAGAGTTTGTGTTCTCCGTGCTGGTACGACAGAGCAAGACAAGCACTGTGGGTGGTGACGACAGGATTTATTTCTTCTTCAAGGAGCGTGAGGAAGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtgagactgatgcactacaagtctggggtaatgcaaaggccagacctctg Alignment from Pairagon AT------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG tcgggcttgacccgtttcataaatcagccttaatatagattatttgctagATGATGAAGCAGAGTTTGTGTTCTCCGTGCTGGTACGACAGAGCAAGACAAGCACTGTGGGTGGTGACGACAGGATTTATTTCTTCTTCAAGGAGCGTGAGGAAGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtgagactgatgcactacaagtctggggtaatgcaaaggccagacctctg Alignment from Exonerate_protein2genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG tcgggcttgacccgtttcataaatcagccttaatatagattatttgctagatgatgAAGCAGAGTTTGTGTTCTCCGTGCTGGTACGACAGAGCAAGACAAGCACTGTGGGTGGTGACGACAGGATTTATTTCTTCTTCAAGGAGCGTGAGGAAGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtgagactgatgcactacaagtctggggtaatgcaaaggccagacctctg Alignment from Exonerate_coding2genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG tcgggcttgacccgtttcataaatcagccttaatatagattatttgctagatgatgAAGCAGAGTTTGTGTTCTCCGTGCTGGTACGACAGAGCAAGACAAGCACTGTGGGTGGTGACGACAGGATTTATTTCTTCTTCAAGGAGCGTGAGGAAGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtgagactgatgcactacaagtctggggtaatgcaaaggccagacctctg Alignment from GeneWise -----GATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG tcgggcttgacccgtttcataaatcagccttaatatagattatttgctagATGATGAAGCAGAGTTTGTGTTCTCCGTGCTGGTACGACAGAGCAAGACAAGCACTGTGGGTGGTGACGACAGGATTTATTTCTTCTTCAAGGAGCGTGAGGAAGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtgagactgatgcactacaagtctggggtaatgcaaaggccagacctctg #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment g------AAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggtctggagctgggggcattcaattttctctattttcccacctccaggTCTCCCAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAAGCTGTCTTT---AGCCCTTTTATGGAGTACCAGGATGGTGCCCGGTGTTGGGGCTGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGgtgagtactccaggtctggaccttacattaattggacaaagggaaggaaa Alignment from CESAR g------AAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggtctggagctgggggcattcaattttctctattttcccacctccaggTCTCCCAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAAGCTGTCTTT---AGCCCTTTTATGGAGTACCAGGATGGTGCCCGGTGTTGGGGCTGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGgtgagtactccaggtctggaccttacattaattggacaaagggaaggaaa Alignment from Spaln_aa2Genome G------AAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTC acaggtctggagctgggggcattcaattttctctattttcccacctccagGTCTCCCAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAAGCTGTCTTTAGC---CCTTTTATGGAGTACCAGGATGGTGCCCGGTGTTGGGGCTGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGgtgagtactccaggtctggaccttacattaattggacaaagggaaggaaa Alignment from Spaln_nt2Genome GAAGACGCTGGAGG------CTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggtctggagctgggggcattcaattttctctattttcccacctccagGTCTCCCAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAAGCTGTCTTTA---GCCCTTTTATGGAGTACCAGGATGGTGCCCGGTGTTGGGGCTGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGgtgagtactccaggtctggaccttacattaattggacaaagggaaggaaa Alignment from Pairagon G------AAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggtctggagctgggggcattcaattttctctattttcccacctccagGTCTCCCAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAAGCTGTCTTTA---GCCCTTTTATGGAGTACCAGGATGGTGCCCGGTGTTGGGGCTGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGgtgagtactccaggtctggaccttacattaattggacaaagggaaggaaa Alignment from Exonerate_protein2genome G------AAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggtctggagctgggggcattcaattttctctattttcccacctccagGTCTCCCAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAAGCTGTCTTTAGC---CCTTTTATGGAGTACCAGGATGGTGCCCGGTGTTGGGGCTGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGgtgagtactccaggtctggaccttacattaattggacaaagggaaggaaa Alignment from Exonerate_coding2genome G------AAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggtctggagctgggggcattcaattttctctattttcccacctccagGTCTCCCAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAAGCTGTCTTTAGC---CCTTTTATGGAGTACCAGGATGGTGCCCGGTGTTGGGGCTGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGgtgagtactccaggtctggaccttacattaattggacaaagggaaggaaa Alignment from GeneWise ----TGGAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggtctggagctgggggcattcaattttctctattttcccacctccagGTCTCCCAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAAGCTGTCTTTAGC---CCTTTTATGGAGTACCAGGATGGTGCCCGGTGTTGGGGCTGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGgtgagtactccaggtctggaccttacattaattggacaaagggaaggaaa #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---ag ggggtggctgcgagagacatgacttgtctcctgttatttccactgtttagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAGCCAACCTTaggtaagagggtgctggatgagagacagggtagataggtgcctgtggaggag Alignment from CESAR CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---ag ggggtggctgcgagagacatgacttgtctcctgttatttccactgtttagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAGCCAACCTTaggtaagagggtgctggatgagagacagggtagataggtgcctgtggaggag Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAGG-- ggggtggctgcgagagacatgacttgtctcctgttatttccactgtttagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAGCCAACCTTAGgtaagagggtgctggatgagagacagggtagataggtgcctgtggaggag Alignment from Spaln_nt2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---AG ggggtggctgcgagagacatgacttgtctcctgttatttccactgtttagCATAGCCTATATGTGGGGGCTGCTAGTGGA---ATTCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAGCCAACCTTAGgtaagagggtgctggatgagagacagggtagataggtgcctgtggaggag Alignment from Pairagon CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---AG ggggtggctgcgagagacatgacttgtctcctgttatttccactgtttagCATAGCCTATATGTGGGGGCTGCTAGTGGAA---TTCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAGCCAACCTTAGgtaagagggtgctggatgagagacagggtagataggtgcctgtggaggag Alignment from Exonerate_protein2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---AG ggggtggctgcgagagacatgacttgtctcctgttatttccactgtttagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAGCCAACCTTAGgtaagagggtgctggatgagagacagggtagataggtgcctgtggaggag Alignment from Exonerate_coding2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAAC---AG ggggtggctgcgagagacatgacttgtctcctgttatttccactgtttagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAGCCAACCTTAGgtaagagggtgctggatgagagacagggtagataggtgcctgtggaggag Alignment from GeneWise CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAGG-- ggggtggctgcgagagacatgacttgtctcctgttatttccactgtttagCATAGCCTATATGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAGCCAACCTTAGgtaagagggtgctggatgagagacagggtagataggtgcctgtggaggag #### Sf1_ID1667_8 --> 1 - 2 Original Alignment gATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGag gttttattgaagggggatggggtctctggaactttgtccttgccttctagaATCTTAAGGCCCTGGCAGAGCTCAGAGACACGAAGTATTACCAATACTACTGTGTGTACCAAATGTGGAGGGGCTGGTCATATTGCCTCTGATTGC---------aggtagtgccactagggtcaacctagaaaagctgattgctgcacaggttcat Alignment from CESAR gATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGag gttttattgaagggggatggggtctctggaactttgtccttgccttctagaATCTTAAGGCCCTGGCAGAGCTCAGAGACACGAAGTATTACCAATACTACTGTGTGTACCAAATGTGGAGGGGCTGGTCATATTGCCTCTGATTGC---------aggtagtgccactagggtcaacctagaaaagctgattgctgcacaggttcat Alignment from Spaln_aa2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAA gttttattgaagggggatggggtctctggaactttgtccttgccttctagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGAAGTATTACCAATACTACTGTGTGTACCAAATGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAGgtagtgccactagggtcaacctagaaaagctgattgctgcacaggttcat Alignment from Spaln_nt2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAA gttttattgaagggggatggggtctctggaactttgtccttgccttctagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGAAGTATTACCAATACTACTGTGTGTACCAAATGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAGgtagtgccactagggtcaacctagaaaagctgattgctgcacaggttcat Alignment from Pairagon GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG gttttattgaagggggatggggtctctggaactttgtccttgccttctagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGAAGTATTACCAATACTACTGTGTGTACCAAATGTGGAGGGGCTGGTCATATTGCCTCTGATTGC---------AGgtagtgccactagggtcaacctagaaaagctgattgctgcacaggttcat Alignment from Exonerate_protein2genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG gttttattgaagggggatggggtctctggaactttgtccttgccttctagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGAAGTATTACCAATACTACTGTGTGTACCAAATGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAGGTAGTGCCActagggtcaacctagaaaagctgattgctgcacaggttcat Alignment from Exonerate_coding2genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG gttttattgaagggggatggggtctctggaactttgtccttgccttctagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGAAGTATTACCAATACTACTGTGTGTACCAAATGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAGGTAGTGCCActagggtcaacctagaaaagctgattgctgcacaggttcat Alignment from GeneWise GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAA-- gttttattgaagggggatggggtctctggaactttgtccttgccttctagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGAAGTATTACCAATACTACTGTGTGTACCAAATGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAGGTAgtgccactagggtcaacctagaaaagctgattgctgcacaggttcat #### Sf1_ID1669_10 --> 0 - 1 Original Alignment TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATG------------------g gttgatacatacaccactggtggacactattcttcctattccttgctcagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTTACAGGTGGGCATGGTGGGCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGATGATGATAGGGGTGTTTggtaagtaaggtgaccaataacccatagggcttgggcacatgggcagggac Alignment from CESAR TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATG------------------g gttgatacatacaccactggtggacactattcttcctattccttgctcagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTTACAGGTGGGCATGGTGGGCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGATGATGATAGGGGTGTTTggtaagtaaggtgaccaataacccatagggcttgggcacatgggcagggac Alignment from Spaln_aa2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATG------------------G gttgatacatacaccactggtggacactattcttcctattccttgctcagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTTACAGGTGGGCATGGTGGGCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGATGATGATAGGGGTGTTTGgtaagtaaggtgaccaataacccatagggcttgggcacatgggcagggac Alignment from Spaln_nt2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATG-----------G gttgatacatacaccactggtggacactattcttcctattccttgctcagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTTACAGGTGGGCATGGTGGGCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGATGATGATAGGGgtgtttggtaagtaaggtgaccaataacccatagggcttgggcacatgggcagggac Alignment from Pairagon TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATG------------------G gttgatacatacaccactggtggacactattcttcctattccttgctcagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTTACAGGTGGGCATGGTGGGCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGATGATGATAGGGGTGTTTGgtaagtaaggtgaccaataacccatagggcttgggcacatgggcagggac Alignment from Exonerate_protein2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGGATCAG gttgatacatacaccactggtggacactattcttcctattccttgctcagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTTACAGGTGGGCATGGTGGGCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGATGATGataggggtgtttggtaagtaaggtgaccaataacccatagggcttgggcacatgggcagggac Alignment from Exonerate_coding2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGGATCAG gttgatacatacaccactggtggacactattcttcctattccttgctcagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTTACAGGTGGGCATGGTGGGCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGATGATGataggggtgtttggtaagtaaggtgaccaataacccatagggcttgggcacatgggcagggac Alignment from GeneWise TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATG------------------G gttgatacatacaccactggtggacactattcttcctattccttgctcagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTTACAGGTGGGCATGGTGGGCACCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGGCCCTCCTCCAATGATGATGATAGGGGTGTTTGgtaagtaaggtgaccaataacccatagggcttgggcacatgggcagggac #### Sf1_ID1670_11 --> 2 - 1 Original Alignment atCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg ccgctggcatgatcgtcgatctaatttctaaatatgtgtgacttctgcagat------------------------------GGGGTCTATCGCCTGCATCAAGGAAAAggtgagaccattactttcttgggaggtctctctgggctgggctcaaatggt Alignment from CESAR atCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg aggccagttcaaatgtcctactaatttctaaatatgtgtgacttctgcagat------------------------------GGGGTCTATCGCCTGCATCAAGGAAAAggtgagaccattactttcttgggaggtctctctgggctgggctcaaatggt Alignment from Spaln_aa2Genome CTGGGGTCTATCGCCTGCATCAAGGAAAAG ccgctggcatgatcgtcgatctaatttctaaatatgtgtgacttctgcagATGGGGTCTATCGCCTGCATCAAGGAAAAGgtgagaccattactttcttgggaggtctctctgggctgggctcaaatggt Alignment from Spaln_nt2Genome CTGGGGTCTATCGCCTGCATCAAGGAAAAG ccgctggcatgatcgtcgatctaatttctaaatatgtgtgacttctgcagATGGGGTCTATCGCCTGCATCAAGGAAAAGgtgagaccattactttcttgggaggtctctctgggctgggctcaaatggt Alignment from Pairagon ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG ccgctggcatgatcgtcgatctaatttctaaatatgtgtgacttctgcagA------------------------------TGGGGTCTATCGCCTGCATCAAGGAAAAGgtgagaccattactttcttgggaggtctctctgggctgggctcaaatggt Alignment from Exonerate_protein2genome CTGGGGTCTATCGCCTGCATCAAGGAAAAG ccgctggcatgatcgtcgatctaatttctaaatatgtgtgacttctgcagATGGGGTCTATCGCCTGCATCAAGGAAAAGgtgagaccattactttcttgggaggtctctctgggctgggctcaaatggt Alignment from Exonerate_coding2genome CTGGGGTCTATCGCCTGCATCAAGGAAAAG ccgctggcatgatcgtcgatctaatttctaaatatgtgtgacttctgcagATGGGGTCTATCGCCTGCATCAAGGAAAAGgtgagaccattactttcttgggaggtctctctgggctgggctcaaatggt Alignment from GeneWise CTGGGGTCTATCGCCTGCATCAAGGAAAAG ccgctggcatgatcgtcgatctaatttctaaatatgtgtgacttctgcagATGGGGTCTATCGCCTGCATCAAGGAAAAGgtgagaccattactttcttgggaggtctctctgggctgggctcaaatggt #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG------------------------------ tgaggcccccatctctaggacctcagagctgtttcctgttcctctactagGTTATGAGCCAGAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCATTGGCGCCTGAGGAATTGGACTTGGATCCTATGGCTACAATGCAGAAGTATGAGGAGCATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGACTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAGAATCTATGGGCTCTACTCCTAATGGAGACgtactggtgattggtatatttagcatgagggctattctctctggtgggaa Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG tgaggcccccatctctaggacctcagagctgtttcctgttcctctactagGTTATGAGCCAGAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCATTGGCGCCTGAGGAATTGGACTTGGATCCTATGGCTACAATGCAGAAGTATGAGGAGCATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGACTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgaatctatgggctctactcctaatggagacgtactggtgattggtatatttagcatgagggctattctctctggtgggaa Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAA GCAGAAG tgaggcccccatctctaggacctcagagctgtttcctgttcctctactagGTTATGAGCCAGAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCATTGGCGCCTGAGGAATTGGACTTGGATCCTATGGCTACAATGCAGAAGTATGAGGAGCATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGACTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAgcataaagaatctatgggctctactcctaatggagacgtactggtgattggtatatttagCATGAGGgctattctctctggtgggaa Alignment from Spaln_nt2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAA GCAGAAG tgaggcccccatctctaggacctcagagctgtttcctgttcctctactagGTTATGAGCCAGAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCATTGGCGCCTGAGGAATTGGACTTGGATCCTATGGCTACAATGCAGAAGTATGAGGAGCATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGACTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAgcataaagaatctatgggctctactcctaatggagacgtactggtgattggtatatttagCATGAGGgctattctctctggtgggaa Alignment from Pairagon GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAA------------------------------------G tgaggcccccatctctaggacctcagagctgtttcctgttcctctactagGTTATGAGCCAGAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCATTGGCGCCTGAGGAATTGGACTTGGATCCTATGGCTACAATGCAGAAGTATGAGGAGCATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGACTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAGAATCTATGGGCTCTACTCCTAATGGAGACGTACTGgtgattggtatatttagcatgagggctattctctctggtgggaa Alignment from Exonerate_protein2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgaggcccccatctctaggacctcagagctgtttcctgttcctctactagGTTATGAGCCAGAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCATTGGCGCCTGAGGAATTGGACTTGGATCCTATGGCTACAATGCAGAAGTATGAGGAGCATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGACTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgaatctatgggctctactcctaatggagacgtactggtgattggtatatttagcatgagggctattctctctggtgggaa Alignment from Exonerate_coding2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgaggcccccatctctaggacctcagagctgtttcctgttcctctactagGTTATGAGCCAGAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCATTGGCGCCTGAGGAATTGGACTTGGATCCTATGGCTACAATGCAGAAGTATGAGGAGCATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGACTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAgaatctatgggctctactcctaatggagacgtactggtgattggtatatttagcatgagggctattctctctggtgggaa Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAGCAA--------------------------- tgaggcccccatctctaggacctcagagctgtttcctgttcctctactagGTTATGAGCCAGAAGGGTGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCATTGGCGCCTGAGGAATTGGACTTGGATCCTATGGCTACAATGCAGAAGTATGAGGAGCATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGACTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAAGAATCTATGGGCTCTACTCCTAATGGAGACgtactggtgattggtatatttagcatgagggctattctctctggtgggaa #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--- tcggactgcatcacctgatgacacctaatctctctctctttcccccaaagAAGAAGAAGCCAGAAGCCCCCAAACTGTCACGAAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTGAAGCAGGATgtaaggtctgggaaggtcaagtcagctcctccagttctgctgggcattca Alignment from CESAR GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--- tcggactgcatcacctgatgacacctaatctctctctctttcccccaaagAAGAAGAAGCCAGAAGCCCCCAAACTGTCACGAAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTGAAGCAGGATgtaaggtctgggaaggtcaagtcagctcctccagttctgctgggcattca Alignment from Spaln_aa2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--- tcggactgcatcacctgatgacacctaatctctctctctttcccccaaagAAGAAGAAGCCAGAAGCCCCCAAACTGTCACGAAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTGAAGCAGGATgtaaggtctgggaaggtcaagtcagctcctccagttctgctgggcattca Alignment from Spaln_nt2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--- tcggactgcatcacctgatgacacctaatctctctctctttcccccaaagAAGAAGAAGCCAGAAGCCCCCAAACTGTCACGAAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTGAAGCAGGATgtaaggtctgggaaggtcaagtcagctcctccagttctgctgggcattca Alignment from Pairagon GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAG------ tcggactgcatcacctgatgacacctaatctctctctctttcccccaaagAAGAAGAAGCCAGAAGCCCCCAAACTGTCACGAAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTGAAGCAGGATgtaaggtctgggaaggtcaagtcagctcctccagttctgctgggcattca Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAA tcggactgcatcacctgatgacacctaatctctctctctttcccccaaagAAGAAGAAGCCAGAAGCCCCCAAACTGTCACGAAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTGAAgcaggatgtaaggtctgggaaggtcaagtcagctcctccagttctgctgggcattca Alignment from Exonerate_coding2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAA tcggactgcatcacctgatgacacctaatctctctctctttcccccaaagAAGAAGAAGCCAGAAGCCCCCAAACTGTCACGAAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTGAAgcaggatgtaaggtctgggaaggtcaagtcagctcctccagttctgctgggcattca Alignment from GeneWise GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAGCTG tcggactgcatcacctgatgacacctaatctctctctctttcccccaaagAAGAAGAAGCCAGAAGCCCCCAAACTGTCACGAAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTGAAGCAGGATgtaaggtctgggaaggtcaagtcagctcctccagttctgctgggcattca #### Sfxn2_ID9969_7 --> 0 - 1 Original Alignment AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCT---GGCATGa cctggacagctgaagcatgatccctggctttcctctccctttcgttccagAGAGCAGCAACCGTGGGCATCACACAAGTGGTTATCTCT------------------------------agtaagattgattgaaaacacttcatacagacatgcgacggggccgttcgt Alignment from CESAR AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGa cctggacagctgaagcatgatccctggctttcctctccctttcgttccagAGAGCAGCAACCGTGGGCATCACACAAGTGGTTATCTCT---------------------------agtaagattgattgaaaacacttcatacagacatgcgacggggccgttcgt Alignment from Spaln_aa2Genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTC cctggacagctgaagcatgatccctggctttcctctccctttcgttccagAGAGCAGCAACCGTGGGCATCACACAAGTGGTTATCTCTAgtaagattgattgaaaacacttcatacagacatgcgacggggccgttcgt Alignment from Spaln_nt2Genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTC cctggacagctgaagcatgatccctggctttcctctccctttcgttccagAGAGCAGCAACCGTGGGCATCACACAAGTGGTTATCTCTAgtaagattgattgaaaacacttcatacagacatgcgacggggccgttcgt Alignment from Pairagon AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGA cctggacagctgaagcatgatccctggctttcctctccctttcgttccagAGAGCAGCAACCGTGGGCATCACACAAGTGGTTATCTCT---------------------------Agtaagattgattgaaaacacttcatacagacatgcgacggggccgttcgt Alignment from Exonerate_protein2genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTC cctggacagctgaagcatgatccctggctttcctctccctttcgttccagAGAGCAGCAACCGTGGGCATCACACAAGTGGTTATCTCTAgtaagattgattgaaaacacttcatacagacatgcgacggggccgttcgt Alignment from Exonerate_coding2genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTC cctggacagctgaagcatgatccctggctttcctctccctttcgttccagAGAGCAGCAACCGTGGGCATCACACAAGTGGTTATCTCTAgtaagattgattgaaaacacttcatacagacatgcgacggggccgttcgt Alignment from GeneWise cctggacagctgaagcatgatccctggctttcctctccctttcgttccagagagcagcaaccgtgggcatcacacaagtggttatctctagtaagattgattgaaaacacttcatacagacatgcgacggggccgttcgt #### Sfxn2_ID9970_8 --> 2 - 0 Original Alignment tcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG acttaggtcgacccgcggtattcgccccaggttattgtctctctattcagcc------------------GAAAGACTAGAGAGACTACATCTGATGAAGgtcagtcgttctgctctccctgtaattcccacacacttcttctgtctgct Alignment from CESAR tcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG cttcttggtcagcagcatacttaggcccaggttattgtctctctattcagcc------------------GAAAGACTAGAGAGACTACATCTGATGAAGgtcagtcgttctgctctccctgtaattcccacacacttcttctgtctgct Alignment from Spaln_aa2Genome -ATCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG acttaggtcgacccgcggtattcgccccagGTTATTGTCTCTCTATTCAGCCGAAAGACTAGAGAGACTACATCTGATGAAGgtcagtcgttctgctctccctgtaattcccacacacttcttctgtctgct Alignment from Spaln_nt2Genome CCTGTTGCCTGTCA--TCATG-GAGAGGCTGGAGAGACTACACCTGATGAAG acttaggtcgacccgcggtattcgccccagGTTATTGTCTCTCTATTCAGCCGAAAGACTAGAGAGACTACATCTGATGAAGgtcagtcgttctgctctccctgtaattcccacacacttcttctgtctgct Alignment from Pairagon TGGAGAGGCTGGAGAGACTACACCTGATGAAG acttaggtcgacccgcggtattcgccccaggttattgtctctctattcagCCGAAAGACTAGAGAGACTACATCTGATGAAGgtcagtcgttctgctctccctgtaattcccacacacttcttctgtctgct Alignment from Exonerate_protein2genome TGGAGAGGCTGGAGAGACTACACCTGATGAAG acttaggtcgacccgcggtattcgccccaggttattgtctctctattcagCCGAAAGACTAGAGAGACTACATCTGATGAAGgtcagtcgttctgctctccctgtaattcccacacacttcttctgtctgct Alignment from Exonerate_coding2genome acttaggtcgacccgcggtattcgccccaggttattgtctctctattcagccgaaagactagagagactacatctgatgaaggtcagtcgttctgctctccctgtaattcccacacacttcttctgtctgct Alignment from GeneWise acttaggtcgacccgcggtattcgccccaggttattgtctctctattcagccgaaagactagagagactacatctgatgaaggtcagtcgttctgctctccctgtaattcccacacacttcttctgtctgct #### Sfxn3_ID9285_3 --> 1 - 2 Original Alignment gAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGca ggatgagtggactgggtatgggggtatactggcaagggtttcttttgcagaAAGACTCCGACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAATTACTCTAATCGGAGCGGAGATGCTCCC---------aggtgagtcacattgggagtcctcatccacaggcattcctggtccccatggc Alignment from CESAR gAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGca ggatgagtggactgggtatgggggtatactggcaagggtttcttttgcagaAAGACTCCGACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAATTACTCTAATCGGAGCGGAGATGCTCCC---------aggtgagtcacattgggagtcctcatccacaggcattcctggtccccatggc Alignment from Spaln_aa2Genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCAT ggatgagtggactgggtatgggggtatactggcaagggtttcttttgcagAAAGACTCCGACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAATTACTCTAATCGGAGCGGAGATGCTCCCAGgtgagtcacattgggagtcctcatccacaggcattcctggtccccatggc Alignment from Spaln_nt2Genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCAT ggatgagtggactgggtatgggggtatactggcaagggtttcttttgcagAAAGACTCCGACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAATTACTCTAATCGGAGCGGAGATGCTCCCAGgtgagtcacattgggagtcctcatccacaggcattcctggtccccatggc Alignment from Pairagon GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCAT ggatgagtggactgggtatgggggtatactggcaagggtttcttttgcagAAAGACTCCGACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAATTACTCTAATCGGAGCGGAGATGCTCCCAGgtgagtcacattgggagtcctcatccacaggcattcctggtccccatggc Alignment from Exonerate_protein2genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCAT ggatgagtggactgggtatgggggtatactggcaagggtttcttttgcagAAAGACTCCGACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAATTACTCTAATCGGAGCGGAGATGCTCCCAGgtgagtcacattgggagtcctcatccacaggcattcctggtccccatggc Alignment from Exonerate_coding2genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCAT ggatgagtggactgggtatgggggtatactggcaagggtttcttttgcagAAAGACTCCGACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAATTACTCTAATCGGAGCGGAGATGCTCCCAGgtgagtcacattgggagtcctcatccacaggcattcctggtccccatggc Alignment from GeneWise GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCAT ggatgagtggactgggtatgggggtatactggcaagggtttcttttgcagAAAGACTCCGACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAATTACTCTAATCGGAGCGGAGATGCTCCCAGgtgagtcacattgggagtcctcatccacaggcattcctggtccccatggc #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ggacttcacttcgaagctcatcagtcggcacctcttccctcttcttccagg---------------------AGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtaagttctccctccactataagcctttcctgaattctttaccccttgtc Alignment from CESAR gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaatttttgggcactacggaccggcacctcttccctcttcttccagg---------------------AGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtaagttctccctccactataagcctttcctgaattctttaccccttgtc Alignment from Spaln_aa2Genome TGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ggacttcacttcgaagctcatcagtcggcacctcttccctcttcttccaggagTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtaagttctccctccactataagcctttcctgaattctttaccccttgtc Alignment from Spaln_nt2Genome TGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ggacttcacttcgaagctcatcagtcggcacctcttccctcttcttccag-GAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtaagttctccctccactataagcctttcctgaattctttaccccttgtc Alignment from Pairagon GTGCAGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ggacttcacttcgaagctcatcagtcggcacctcttccctcttcttccag--------------------------GAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtaagttctccctccactataagcctttcctgaattctttaccccttgtc Alignment from Exonerate_protein2genome GAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ggacttcacttcgaagctcatcagtcggcacctcttccctcttcttccagGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtaagttctccctccactataagcctttcctgaattctttaccccttgtc Alignment from Exonerate_coding2genome GAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ggacttcacttcgaagctcatcagtcggcacctcttccctcttcttccagGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtaagttctccctccactataagcctttcctgaattctttaccccttgtc Alignment from GeneWise TGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG ggacttcacttcgaagctcatcagtcggcacctcttccctcttcttccaggagTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtaagttctccctccactataagcctttcctgaattctttaccccttgtc #### Sipa1_ID1145_7 --> 1 - 0 Original Alignment g---GTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gctggctcctccgacccctctttccctcatctactcctgtctccactcaggGGAGTGGCAGTGAGTCGAACCAAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGAGCCTTCCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTTGCTGGACTTGGCCTCACGGTTCGGCTTACCATCTCTAGGTGGTAGACGCCATTCAAACCCACGGAGTTCTGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCAGGGGCACGGGTTGCAGCAGGGGCCGAAACAAGAGGTCCAGAGGATACTGAGGTGCCTTGCTTATTGGGCATCTCAGCTGAAACGCTAGTGCTGGTGGCACCTTGTGATGGTCATGTGGTCTTTAACTGTGCCTGCCGTGATGTATTGGCCTGGACCTTTTCTGAGCACCAACTTGACCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTTGTGGCACGTCTGCAGgtaaactacaatcacacagtgtgatccttgattttgtgtgcaacaggggc Alignment from CESAR g---GTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gctggctcctccgacccctctttccctcatctactcctgtctccactcaggGGAGTGGCAGTGAGTCGAACCAAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGAGCCTTCCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTTGCTGGACTTGGCCTCACGGTTCGGCTTACCATCTCTAGGTGGTAGACGCCATTCAAACCCACGGAGTTCTGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCAGGGGCACGGGTTGCAGCAGGGGCCGAAACAAGAGGTCCAGAGGATACTGAGGTGCCTTGCTTATTGGGCATCTCAGCTGAAACGCTAGTGCTGGTGGCACCTTGTGATGGTCATGTGGTCTTTAACTGTGCCTGCCGTGATGTATTGGCCTGGACCTTTTCTGAGCACCAACTTGACCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTTGTGGCACGTCTGCAGgtaaactacaatcacacagtgtgatccttgattttgtgtgcaacaggggc Alignment from Spaln_aa2Genome GGTGGCAGTGAGCCGC---ACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gctggctcctccgacccctctttccctcatctactcctgtctccactcagGGGAGTGGCAGTGAGTCGAACCAAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGAGCCTTCCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTTGCTGGACTTGGCCTCACGGTTCGGCTTACCATCTCTAGGTGGTAGACGCCATTCAAACCCACGGAGTTCTGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCAGGGGCACGGGTTGCAGCAGGGGCCGAAACAAGAGGTCCAGAGGATACTGAGGTGCCTTGCTTATTGGGCATCTCAGCTGAAACGCTAGTGCTGGTGGCACCTTGTGATGGTCATGTGGTCTTTAACTGTGCCTGCCGTGATGTATTGGCCTGGACCTTTTCTGAGCACCAACTTGACCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTTGTGGCACGTCTGCAGgtaaactacaatcacacagtgtgatccttgattttgtgtgcaacaggggc Alignment from Spaln_nt2Genome GGTGGCAGTG---AGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gctggctcctccgacccctctttccctcatctactcctgtctccactcagGGGAGTGGCAGTGAGTCGAACCAAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGAGCCTTCCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTTGCTGGACTTGGCCTCACGGTTCGGCTTACCATCTCTAGGTGGTAGACGCCATTCAAACCCACGGAGTTCTGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCAGGGGCACGGGTTGCAGCAGGGGCCGAAACAAGAGGTCCAGAGGATACTGAGGTGCCTTGCTTATTGGGCATCTCAGCTGAAACGCTAGTGCTGGTGGCACCTTGTGATGGTCATGTGGTCTTTAACTGTGCCTGCCGTGATGTATTGGCCTGGACCTTTTCTGAGCACCAACTTGACCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTTGTGGCACGTCTGCAGgtaaactacaatcacacagtgtgatccttgattttgtgtgcaacaggggc Alignment from Pairagon G---GTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gctggctcctccgacccctctttccctcatctactcctgtctccactcagGGGAGTGGCAGTGAGTCGAACCAAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGAGCCTTCCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTTGCTGGACTTGGCCTCACGGTTCGGCTTACCATCTCTAGGTGGTAGACGCCATTCAAACCCACGGAGTTCTGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCAGGGGCACGGGTTGCAGCAGGGGCCGAAACAAGAGGTCCAGAGGATACTGAGGTGCCTTGCTTATTGGGCATCTCAGCTGAAACGCTAGTGCTGGTGGCACCTTGTGATGGTCATGTGGTCTTTAACTGTGCCTGCCGTGATGTATTGGCCTGGACCTTTTCTGAGCACCAACTTGACCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTTGTGGCACGTCTGCAGgtaaactacaatcacacagtgtgatccttgattttgtgtgcaacaggggc Alignment from Exonerate_protein2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gctggctcctccgacccctctttccctcatctactcctgtctccactcaggggAGTGGCAGTGAGTCGAACCAAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGAGCCTTCCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTTGCTGGACTTGGCCTCACGGTTCGGCTTACCATCTCTAGGTGGTAGACGCCATTCAAACCCACGGAGTTCTGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCAGGGGCACGGGTTGCAGCAGGGGCCGAAACAAGAGGTCCAGAGGATACTGAGGTGCCTTGCTTATTGGGCATCTCAGCTGAAACGCTAGTGCTGGTGGCACCTTGTGATGGTCATGTGGTCTTTAACTGTGCCTGCCGTGATGTATTGGCCTGGACCTTTTCTGAGCACCAACTTGACCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTTGTGGCACGTCTGCAGgtaaactacaatcacacagtgtgatccttgattttgtgtgcaacaggggc Alignment from Exonerate_coding2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gctggctcctccgacccctctttccctcatctactcctgtctccactcaggggAGTGGCAGTGAGTCGAACCAAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGAGCCTTCCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTTGCTGGACTTGGCCTCACGGTTCGGCTTACCATCTCTAGGTGGTAGACGCCATTCAAACCCACGGAGTTCTGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCAGGGGCACGGGTTGCAGCAGGGGCCGAAACAAGAGGTCCAGAGGATACTGAGGTGCCTTGCTTATTGGGCATCTCAGCTGAAACGCTAGTGCTGGTGGCACCTTGTGATGGTCATGTGGTCTTTAACTGTGCCTGCCGTGATGTATTGGCCTGGACCTTTTCTGAGCACCAACTTGACCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTTGTGGCACGTCTGCAGgtaaactacaatcacacagtgtgatccttgattttgtgtgcaacaggggc Alignment from GeneWise -AGGGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gctggctcctccgacccctctttccctcatctactcctgtctccactcagGGGAGTGGCAGTGAGTCGAACCAAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGAGCCTTCCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTTGCTGGACTTGGCCTCACGGTTCGGCTTACCATCTCTAGGTGGTAGACGCCATTCAAACCCACGGAGTTCTGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCAGGGGCACGGGTTGCAGCAGGGGCCGAAACAAGAGGTCCAGAGGATACTGAGGTGCCTTGCTTATTGGGCATCTCAGCTGAAACGCTAGTGCTGGTGGCACCTTGTGATGGTCATGTGGTCTTTAACTGTGCCTGCCGTGATGTATTGGCCTGGACCTTTTCTGAGCACCAACTTGACCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTTGTGGCACGTCTGCAGgtaaactacaatcacacagtgtgatccttgattttgtgtgcaacaggggc #### Sipa1_ID1147_5 --> 2 - 0 Original Alignment cg---GATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tctccatgcccacactctcttctctctgtttcatttttctttttgaaaagcgGAGGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACACCTAATAACCAGCAACAGgtaagcgaagactttgagaagccaagcccagcaagagactattgggaagc Alignment from CESAR cg---GATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tctccatgcccacactctcttctctctgtttcatttttctttttgaaaagcgGAGGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACACCTAATAACCAGCAACAGgtaagcgaagactttgagaagccaagcccagcaagagactattgggaagc Alignment from Spaln_aa2Genome CG---GATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tctccatgcccacactctcttctctctgtttcatttttctttttgaaaagCGGAGGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACACCTAATAACCAGCAACAGgtaagcgaagactttgagaagccaagcccagcaagagactattgggaagc Alignment from Spaln_nt2Genome CGGA---TTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tctccatgcccacactctcttctctctgtttcatttttctttttgaaaagCGGAGGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACACCTAATAACCAGCAACAGgtaagcgaagactttgagaagccaagcccagcaagagactattgggaagc Alignment from Pairagon AACGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tctccatgcccacactctcttctctctgtttcatttttctttttgaaaagcggag----GATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACACCTAATAACCAGCAACAGgtaagcgaagactttgagaagccaagcccagcaagagactattgggaagc Alignment from Exonerate_protein2genome CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tctccatgcccacactctcttctctctgtttcatttttctttttgaaaagcggAGGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACACCTAATAACCAGCAACAGgtaagcgaagactttgagaagccaagcccagcaagagactattgggaagc Alignment from Exonerate_coding2genome CGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tctccatgcccacactctcttctctctgtttcatttttctttttgaaaagcggAGGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACACCTAATAACCAGCAACAGgtaagcgaagactttgagaagccaagcccagcaagagactattgggaagc Alignment from GeneWise --ACGGATTCCACGGGCACACACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACGCCTAATAACCAGCAACAG tctccatgcccacactctcttctctctgtttcatttttctttttgaaaagCGGAGGATTCCACGGGCACCCACTCACTCTACACCACCTACCAAGACCATGAGATCATGTTTCACGTGTCCACGATGCTGCCTTACACACCTAATAACCAGCAACAGgtaagcgaagactttgagaagccaagcccagcaagagactattgggaagc #### Sipa1_ID1150_2 --> 2 - 0 Original Alignment aaCACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agagccactctccaaccaaccaacaacactcctgccccgttctcttccagaaCATCAGAACTTCTTTGGGCTAGACGAGGCACTGGGCCCCGTGGCTCTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGAGTCATTGTGCGAACCATG---gtactaagggaagatcacagggtgcaatagcctatgtcatttttttctgt Alignment from CESAR aaCACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agagccactctccaaccaaccaacaacactcctgccccgttctcttccagaaCATCAGAACTTCTTTGGGCTAGACGAGGCACTGGGCCCCGTGGCTCTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGAGTCATTGTGCGAACCATG---gtactaagggaagatcacagggtgcaatagccactctctttctgcct Alignment from Spaln_aa2Genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACG agagccactctccaaccaaccaacaacactcctgccccgttctcttccagAACATCAGAACTTCTTTGGGCTAGACGAGGCACTGGGCCCCGTGGCTCTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGAGTCATTGTGCGAACCATGgtactaagggaagatcacagggtgcaatagcctatgtcatttttttctgt Alignment from Spaln_nt2Genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACG agagccactctccaaccaaccaacaacactcctgccccgttctcttccagAACATCAGAACTTCTTTGGGCTAGACGAGGCACTGGGCCCCGTGGCTCTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGAGTCATTGTGCGAACCATGgtactaagggaagatcacagggtgcaatagcctatgtcatttttttctgt Alignment from Pairagon AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACG-------------------------------------------------- agagccactctccaaccaaccaacaacactcctgccccgttctcttccagAACATCAGAACTTCTTTGGGCTAGACGAGGCACTGGGCCCCGTGGCTCTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGAGTCATTGTGCGAACCATGGTACTAAGGGAAGATCACAGGGTGCAATAGCCTATGTCATTTTTTTCTGT Alignment from Exonerate_protein2genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agagccactctccaaccaaccaacaacactcctgccccgttctcttccagAACATCAGAACTTCTTTGGGCTAGACGAGGCACTGGGCCCCGTGGCTCTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGAGTCATTGTGCGAACCATGGTActaagggaagatcacagggtgcaatagcctatgtcatttttttctgt Alignment from Exonerate_coding2genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agagccactctccaaccaaccaacaacactcctgccccgttctcttccagAACATCAGAACTTCTTTGGGCTAGACGAGGCACTGGGCCCCGTGGCTCTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGAGTCATTGTGCGAACCATGGTActaagggaagatcacagggtgcaatagcctatgtcatttttttctgt Alignment from GeneWise AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG agagccactctccaaccaaccaacaacactcctgccccgttctcttccagAACATCAGAACTTCTTTGGGCTAGACGAGGCACTGGGCCCCGTGGCTCTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGAGTCATTGTGCGAACC---ATGgtactaagggaagatcacagggtgcaatagcctatgtcatttttttctgt #### Slc15a3_ID3029_4 --> 0 - 0 Original Alignment ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctacctcactatgtctcctaggtaaaatctgtgctcttctagATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGAT---------------gtaaccgagtaatgcacgaagttgacgcggtatgctggctccatcttgac Alignment from CESAR ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ttagggctctacctcactatgtctcctaggtaaaatctgtgctcttctagATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGAT---------------gtaaccgagtaatgcacgaagttgacgcggtatgc Alignment from Spaln_aa2Genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAA ttagggctctacctcactatgtctcctaggtaaaatctgtgctcttctagATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATGTAACCGAgtaatgcacgaagttgacgcggtatgctggctccatcttgac Alignment from Spaln_nt2Genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACT-A ttagggctctacctcactatgtctcctaggtaaaatctgtgctcttctagATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGAT----GTAACCGAgtaatgcacgaagttgacgcggtatgctggctccatct Alignment from Pairagon ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGAT ttagggctctacctcactatgtctcctaggtaaaatctgtgctcttctagATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATgtaaccgagtaatgcacgaagttgacgcggtatgctggctccatcttgac Alignment from Exonerate_protein2genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTA ttagggctctacctcactatgtctcctaggtaaaatctgtgctcttctagATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATGTAACCGAGTAatgcacgaagttgacgcggtatgctggctccatcttgac Alignment from Exonerate_coding2genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTA ttagggctctacctcactatgtctcctaggtaaaatctgtgctcttctagATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATGTAACCGAGTAatgcacgaagttgacgcggtatgctggctccatcttgac Alignment from GeneWise ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGAT ttagggctctacctcactatgtctcctaggtaaaatctgtgctcttctagATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATgtaaccgagtaatgcacgaagttgacgcggtatgctggctccatcttgac #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tgTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg gatatgtcggtcctattgacaagggcaatcatcgcgtcttctccccgcagtgTTTGCATTTTCTAGTAGTTATGCCTTTCTGCTGATTGCCAAGTCACTGCAGGGAATTGGTTCA------------------ggtttagttaaaattcagtcaacgtgcctccttgtttgtatggatagatga Alignment from CESAR tgTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg gatatgtcggtcctattgacaagggcaatcatcgcgtcttctccccgcagtgTTTGCATTTTCTAGTAGTTATGCCTTTCTGCTGATTGCCAAGTCACTGCAGGGAATTGGTTCA------------------ggtttagttaaaattcagtcaacgtgcctccttgtttgtatggatagatga Alignment from Spaln_aa2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTG------GCTG gatatgtcggtcctattgacaagggcaatcatcgcgtcttctccccgcagTGTTTGCATTTTCTAGTAGTTATGCCTTTCTGCTGATTGCCAAGTCACTGCAGGGAATTGGTTCAGGTTTAGTTAAAATTCAGTCAACGTgcctccttgtttgtatggatagatga Alignment from Spaln_nt2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCT gatatgtcggtcctattgacaagggcaatcatcgcgtcttctccccgcagTGTTTGCATTTTCTAGTAGTTATGCCTTTCTGCTGATTGCCAAGTCACTGCAGGGAATTGGTTCAGgtttagttaaaattcagtcaacgtgcctccttgtttgtatggatagatga Alignment from Pairagon TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gatatgtcggtcctattgacaagggcaatcatcgcgtcttctccccgcagTGTTTGCATTTTCTAGTAGTTATGCCTTTCTGCTGATTGCCAAGTCACTGCAGGGAAT------------------------TGgttcaggtttagttaaaattcagtcaacgtgcctccttgtttgtatggatagatga Alignment from Exonerate_protein2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTC gatatgtcggtcctattgacaagggcaatcatcgcgtcttctccccgcagTGTTTGCATTTTCTAGTAGTTATGCCTTTCTGCTGATTGCCAAGTCACTGCAGGGAATTGGTTCAGGtttagttaaaattcagtcaacgtgcctccttgtttgtatggatagatga Alignment from Exonerate_coding2genome gatatgtcggtcctattgacaagggcaatcatcgcgtcttctccccgcagtgtttgcattttctagtagttatgcctttctgctgattgccaagtcactgcagggaattggttcaggtttagttaaaattcagtcaacgtgcctccttgtttgtatggatagatga Alignment from GeneWise TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCT gatatgtcggtcctattgacaagggcaatcatcgcgtcttctccccgcagTGTTTGCATTTTCTAGTAGTTATGCCTTTCTGCTGATTGCCAAGTCACTGCAGGGAATTGGTTCAGgtttagttaaaattcagtcaacgtgcctccttgtttgtatggatagatga #### Slc18a2_ID12939_7 --> 2 - 0 Original Alignment ctATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gtattgtgtactgccaggcatgggaacttgtcacttgcttttgttcctagct---CAGCTCTTTGTAATTCAA---TCCTGTGTACTACCAGACgtgggtagctggtagtggggataagggccaacaatgggtaagtttctcac Alignment from CESAR ctATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ccagtattgtgtactgccaggcatgacttgtcacttgcttttgttcctagct---CAGCTCTTTGTAATTCAA---TCCTGTGTACTACCAGACgtgggtagctggtagtggggataagggccaacaatgggtaagtttctgta Alignment from Spaln_aa2Genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gtattgtgtactgccaggcatgggaacttgtcacttgcttttgttcctagCT---CAGCTCTTTGTAATTCAA---TCCTGTGTACTACCAGACgtgggtagctggtagtggggataagggccaacaatgggtaagtttctcac Alignment from Spaln_nt2Genome CTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gtattgtgtactgccaggcatgggaacttgtcacttgcttttgttcctagctcagCTCTTTGTAATTCA---ATCCTGTGTACTACCAGACgtgggtagctggtagtggggataagggccaacaatgggtaagtttctcac Alignment from Pairagon gtattgtgtactgccaggcatgggaacttgtcacttgcttttgttcctagctcagctctttgtaattcaatcctgtgtactaccagacgtgggtagctggtagtggggataagggccaacaatgggtaagtttctcac Alignment from Exonerate_protein2genome CTATTCAGCTCTTTGTGCTCCAGCC gtattgtgtactgccaggcatgggaacttgtcacttgcttttgttcctagctcagctctttgtaattcaatcctgtgtactaccagacgtgggtagctggtagtggggataagGGCCAACAATGGGTAAGTTTCTCAC Alignment from Exonerate_coding2genome CTATTCAGCTCTTTGTGCTCCAGCC gtattgtgtactgccaggcatgggaacttgtcacttgcttttgttcctagctcagctctttgtaattcaatcctgtgtactaccagacgtgggtagctggtagtggggataagGGCCAACAATGGGTAAGTTTCTCAC Alignment from GeneWise CTATTCAGCTCTTTGTGCTCCAGCC gtattgtgtactgccaggcatgggaacttgtcacttgcttttgttcctagctcagctctttgtaattcaatcctgtgtactaccagacgtgggtagctggtagtggggataagGGCCAACAATGGGTAAGTTTCTCAC #### Slc18a2_ID12944_11 --> 1 - 0 Original Alignment gTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT catggagcaagtattcactcacctaacatcaatttttctccctttcctaga------TGTGCTCTTCTGGGAATGATAGTAGTAGGCATCAGCATTTTATGCgtaggtcaggatggctagagacaggaggcagtttccttggttccgaatgt Alignment from CESAR gTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT caaacacatggagcaagtattcactacatcaatttttctccctttcctaga------TGTGCTCTTCTGGGAATGATAGTAGTAGGCATCAGCATTTTATGCgtaggtcaggatggctagagacaggaggcagtttccttggttccgaatgt Alignment from Spaln_aa2Genome GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT catggagcaagtattcactcacctaacatcaatttttctccctttcctagA------TGTGCTCTTCTGGGAATGATAGTAGTAGGCATCAGCATTTTATGCgtaggtcaggatggctagagacaggaggcagtttccttggttccgaatgt Alignment from Spaln_nt2Genome GTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT catggagcaagtattcactcacctaacatcaatttttctccctttcctagATGTGCTCTTCTGGGAATGATAGTAGTAGGCATCAGCATTTTATGCgtaggtcaggatggctagagacaggaggcagtttccttggttccgaatgt Alignment from Pairagon GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT catggagcaagtattcactcacctaacatcaatttttctccctttcctag------ATGTGCTCTTCTGGGAATGATAGTAGTAGGCATCAGCATTTTATGCgtaggtcaggatggctagagacaggaggcagtttccttggttccgaatgt Alignment from Exonerate_protein2genome GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT catggagcaagtattcactcacctaacatcaatttttctccctttcctagA------TGTGCTCTTCTGGGAATGATAGTAGTAGGCATCAGCATTTTATGCgtaggtcaggatggctagagacaggaggcagtttccttggttccgaatgt Alignment from Exonerate_coding2genome GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT catggagcaagtattcactcacctaacatcaatttttctccctttcctagA------TGTGCTCTTCTGGGAATGATAGTAGTAGGCATCAGCATTTTATGCgtaggtcaggatggctagagacaggaggcagtttccttggttccgaatgt Alignment from GeneWise GTGGCTGTGTGCTCTTCTGGGAATGATAGTTGTTGGGATCAGCATTTTATGT catggagcaagtattcactcacctaacatcaatttttctccctttcctagA------TGTGCTCTTCTGGGAATGATAGTAGTAGGCATCAGCATTTTATGCgtaggtcaggatggctagagacaggaggcagtttccttggttccgaatgt #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag gggaatgccacacccctcactgaacctctggcttcttgtttaatttttagcg------GTCCTTCGCTCGGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGCGCCTTCACCTGCATCACCATTTTCTCTAGTGAGCTCTTCCCCACTGTCATCaggtatgtgtcattagcccaaggatcacacctccagattagaaatgggcacc Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag catgaagggaatgccacacccctcactctggcttcttgtttaatttttagcg------GTCCTTCGCTCGGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGCGCCTTCACCTGCATCACCATTTTCTCTAGTGAGCTCTTCCCCACTGTCATCaggtatgtgtcattagcccaaggatcacacctccagattagaaatgggcacc Alignment from Spaln_aa2Genome GGGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gccacacccctcactgaacctctggcttcttgtttaattttta gCGGTCCTTCGCTCGGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGCGCCTTCACCTGCATCACCATTTTCTCTAGTGAGCTCTTCCCCACTGTCATCAGgtatgtgtcattagcccaaggatcacacctccagattagaaatgggcacc Alignment from Spaln_nt2Genome GGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gggaatgccacacccctcactgaacctctggcttcttgtttaatttttagCGGTCCTTCGCTCGGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGCGCCTTCACCTGCATCACCATTTTCTCTAGTGAGCTCTTCCCCACTGTCATCAGgtatgtgtcattagcccaaggatcacacctccagattagaaatgggcacc Alignment from Pairagon GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gggaatgccacacccctcactgaacctctggcttcttgtttaatttttag------CGGTCCTTCGCTCGGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGCGCCTTCACCTGCATCACCATTTTCTCTAGTGAGCTCTTCCCCACTGTCATCAGgtatgtgtcattagcccaaggatcacacctccagattagaaatgggcacc Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gggaatgccacacccctcactgaacctctggcttcttgtttaatTTTTAGCGGTCCTTCGCTCGGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGCGCCTTCACCTGCATCACCATTTTCTCTAGTGAGCTCTTCCCCACTGTCATCAGgtatgtgtcattagcccaaggatcacacctccagattagaaatgggcacc Alignment from Exonerate_coding2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gggaatgccacacccctcactgaacctctggcttcttgtttaatTTTTAGCGGTCCTTCGCTCGGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGCGCCTTCACCTGCATCACCATTTTCTCTAGTGAGCTCTTCCCCACTGTCATCAGgtatgtgtcattagcccaaggatcacacctccagattagaaatgggcacc Alignment from GeneWise GGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG gggaatgccacacccctcactgaacctctggcttcttgtttaatttttagCGGTCCTTCGCTCGGCTCTGGCTGTGCTAGGATTGGGCTGCCTAGGTGGCGCCTTCACCTGCATCACCATTTTCTCTAGTGAGCTCTTCCCCACTGTCATCAGgtatgtgtcattagcccaaggatcacacctccagattagaaatgggcacc #### Slc22a12_ID1790_7 --> 1 - 1 Original Alignment gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg acccaggctagtctgtctaccaaatgcgtttctgtttcacacctttccagg---------GGCTTCACCTTTTATGGCCTAGCCATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAGTCAATCATTGGGATAGTGGATTTCCCAGTAAAGACAGGCAGCTTGCTCTTGATCACCCGTTTGGGCCAACACCTTTGTCAGGTCAGCTTTCTGGTGCTCCCTGGACTATGTGTCCTTTCCAATATACTGGTGCCCCATggtgagacacctcttgctgagggtgagcgtacagacacaaaacttgtaatg Alignment from CESAR gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg gagcaattgacccaggctagtctgtgcgtttctgtttcacacctttccagg---------GGCTTCACCTTTTATGGCCTAGCCATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAGTCAATCATTGGGATAGTGGATTTCCCAGTAAAGACAGGCAGCTTGCTCTTGATCACCCGTTTGGGCCAACACCTTTGTCAGGTCAGCTTTCTGGTGCTCCCTGGACTATGTGTCCTTTCCAATATACTGGTGCCCCATggtgagacacctcttgctgagggtgagcgtacagacacaaaacttgtaatg Alignment from Spaln_aa2Genome TGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG acccaggctagtctgtctaccaaatgcgtttctgtttcacacctttccagGGGCTTCACCTTTTATGGCCTAGCCATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAGTCAATCATTGGGATAGTGGATTTCCCAGTAAAGACAGGCAGCTTGCTCTTGATCACCCGTTTGGGCCAACACCTTTGTCAGGTCAGCTTTCTGGTGCTCCCTGGACTATGTGTCCTTTCCAATATACTGGTGCCCCATGgtgagacacctcttgctgagggtgagcgtacagacacaaaacttgtaatg Alignment from Spaln_nt2Genome TGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG acccaggctagtctgtctaccaaatgcgtttctgtttcacacctttccagGGGCTTCACCTTTTATGGCCTAGCCATTGA---------CCTTGGAAGCAATATATTCCTCCTCCAGTCAATCATTGGGATAGTGGATTTCCCAGTAAAGACAGGCAGCTTGCTCTTGATCACCCGTTTGGGCCAACACCTTTGTCAGGTCAGCTTTCTGGTGCTCCCTGGACTATGTGTCCTTTCCAATATACTGGTGCCCCATGgtgagacacctcttgctgagggtgagcgtacagacacaaaacttgtaatg Alignment from Pairagon ---------------------------------------------------GGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ACCCAGGCTAGTCTGTCTACCAAATGCGTTTCTGTTTCACACCTTTCCAGGGGCTTCACCTTTTATGGCCTAGCCATTGA---------CCTTGGAAGCAATATATTCCTCCTCCAGTCAATCATTGGGATAGTGGATTTCCCAGTAAAGACAGGCAGCTTGCTCTTGATCACCCGTTTGGGCCAACACCTTTGTCAGGTCAGCTTTCTGGTGCTCCCTGGACTATGTGTCCTTTCCAATATACTGGTGCCCCATGgtgagacacctcttgctgagggtgagcgtacagacacaaaacttgtaatg Alignment from Exonerate_protein2genome TGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG acccaggctagtctgtctaccaaatgcgtttctgtttcacacctttccagGGGCTTCACCTTTTATGGCCTAGCCATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAGTCAATCATTGGGATAGTGGATTTCCCAGTAAAGACAGGCAGCTTGCTCTTGATCACCCGTTTGGGCCAACACCTTTGTCAGGTCAGCTTTCTGGTGCTCCCTGGACTATGTGTCCTTTCCAATATACTGGTGCCCCATGgtgagacacctcttgctgagggtgagcgtacagacacaaaacttgtaatg Alignment from Exonerate_coding2genome TGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG acccaggctagtctgtctaccaaatgcgtttctgtttcacacctttccagGGGCTTCACCTTTTATGGCCTAGCCATTGAC---------CTTGGAAGCAATATATTCCTCCTCCAGTCAATCATTGGGATAGTGGATTTCCCAGTAAAGACAGGCAGCTTGCTCTTGATCACCCGTTTGGGCCAACACCTTTGTCAGGTCAGCTTTCTGGTGCTCCCTGGACTATGTGTCCTTTCCAATATACTGGTGCCCCATGgtgagacacctcttgctgagggtgagcgtacagacacaaaacttgtaatg Alignment from GeneWise TGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG acccaggctagtctgtctaccaaatgcgtttctgtttcacacctttccagGGGCTTCACCTTTTATGGCCTAGCCATTGACCTT---------GGAAGCAATATATTCCTCCTCCAGTCAATCATTGGGATAGTGGATTTCCCAGTAAAGACAGGCAGCTTGCTCTTGATCACCCGTTTGGGCCAACACCTTTGTCAGGTCAGCTTTCTGGTGCTCCCTGGACTATGTGTCCTTTCCAATATACTGGTGCCCCATGgtgagacacctcttgctgagggtgagcgtacagacacaaaacttgtaatg #### Slc22a6_ID2284_5 --> 1 - 0 Original Alignment gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG------ gaatttaaagagagaccctaccaacatcaactgtatatattatcatgtaggTTCTTCATTGAATCGGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGTATCAATGCAAAACAAGAAGAGGGGCCTAAACTGTGTATAGAGCACCGGgtaagctctatttattcctagacactgcctgaaatctgacccaggtcctc Alignment from CESAR gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG------ gaatttaaagagagaccctaccaacatcaactgtatatattatcatgtaggTTCTTCATTGAATCGGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGTATCAATGCAAAACAAGAAGAGGGGCCTAAACTGTGTATAGAGCACCGGgtaagctctatttattcctagacactgcctgaaatctgacccaggtcctc Alignment from Spaln_aa2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG------ gaatttaaagagagaccctaccaacatcaactgtatatattatcatgtagGTTCTTCATTGAATCGGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGTATCAATGCAAAACAAGAAGAGGGGCCTAAACTGTGTATAGAGCACCGGgtaagctctatttattcctagacactgcctgaaatctgacccaggtcctc Alignment from Spaln_nt2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG------ gaatttaaagagagaccctaccaacatcaactgtatatattatcatgtagGTTCTTCATTGAATCGGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGTATCAATGCAAAACAAGAAGAGGGGCCTAAACTGTGTATAGAGCACCGGgtaagctctatttattcctagacactgcctgaaatctgacccaggtcctc Alignment from Pairagon GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG------ gaatttaaagagagaccctaccaacatcaactgtatatattatcatgtagGTTCTTCATTGAATCGGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGTATCAATGCAAAACAAGAAGAGGGGCCTAAACTGTGTATAGAGCACCGGgtaagctctatttattcctagacactgcctgaaatctgacccaggtcctc Alignment from Exonerate_protein2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG------ gaatttaaagagagaccctaccaacatcaactgtatatattatcatgtagGTTCTTCATTGAATCGGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGTATCAATGCAAAACAAGAAGAGGGGCCTAAACTGTGTATAGAGCACCGGgtaagctctatttattcctagacactgcctgaaatctgacccaggtcctc Alignment from Exonerate_coding2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG------ gaatttaaagagagaccctaccaacatcaactgtatatattatcatgtagGTTCTTCATTGAATCGGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGTATCAATGCAAAACAAGAAGAGGGGCCTAAACTGTGTATAGAGCACCGGgtaagctctatttattcctagacactgcctgaaatctgacccaggtcctc Alignment from GeneWise GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTG- gaatttaaagagagaccctaccaacatcaactgtatatattatcatgtagGTTCTTCATTGAATCGGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGTATCAATGCAAAACAAGAAGAGGGGCCTAAACTGTgtatagagcaccgggtaagctctatttattcctagacactgcctgaaatctgacccaggtcctc #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag cacctagcaaatttacatgcagaggtccaagtttgtccttatttctttagag---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCCGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCaggtaagcggtgcacctgggtcaggagtccatctaaagaactgaattttcaa Alignment from CESAR aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag cgtcacctagcaaatttacatgcagtccaagtttgtccttatttctttagag---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCCGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCaggtaagcggtgcacctgggtcaggagtccatctaaagaactgaattttcaa Alignment from Spaln_aa2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG cacctagcaaatttacatgcagaggtccaagtttgtccttatttctttagAG---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCCGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtaagcggtgcacctgggtcaggagtccatctaaagaactgaattttcaa Alignment from Spaln_nt2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG cacctagcaaatttacatgcagaggtccaagtttgtccttatttctttagA---GGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCCGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtaagcggtgcacctgggtcaggagtccatctaaagaactgaattttcaa Alignment from Pairagon AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG cacctagcaaatttacatgcagaggtccaagtttgtccttatttctttagA---GGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCCGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtaagcggtgcacctgggtcaggagtccatctaaagaactgaattttcaa Alignment from Exonerate_protein2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG cacctagcaaatttacatgcagaggtccaagtttgtccttatttctttagAG---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCCGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtaagcggtgcacctgggtcaggagtccatctaaagaactgaattttcaa Alignment from Exonerate_coding2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG cacctagcaaatttacatgcagaggtccaagtttgtccttatttctttagAG---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCCGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtaagcggtgcacctgggtcaggagtccatctaaagaactgaattttcaa Alignment from GeneWise ------GTGTCTTCAGAAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG cacctagcaaatttacatgcagaggtccaagTTTGTCCTTATTTCTTTAGAGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCCGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtaagcggtgcacctgggtcaggagtccatctaaagaactgaattttcaa #### Slc25a45_ID1291_2 --> 2 - 0 Original Alignment gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG tggacgtgttacttggacttggcatcttaattctttctgatttgttttaggaGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTA---gtcagtagggataaacatgctgggatgagagccagtcttgcaaaatttgg Alignment from CESAR gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG tggacgtgttacttggacttggcatcttaattctttctgatttgttttaggaGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTA---gtcagtagggataaacatgctgggatgagagccagtcttgcaaaatt Alignment from Spaln_aa2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTA tggacgtgttacttggacttggcatcttaattctttctgatttgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAgtcagtagggataaacatgctgggatgagagccagtcttgcaaaatttgg Alignment from Spaln_nt2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG- tggacgtgttacttggacttggcatcttaattctttctgatttgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAGTCAgtagggataaacatgctgggatgagagccagtcttgcaaaatttgg Alignment from Pairagon GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTA tggacgtgttacttggacttggcatcttaattctttctgatttgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAgtcagtagggataaacatgctgggatgagagccagtcttgcaaaatttgg Alignment from Exonerate_protein2genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTA tggacgtgttacttggacttggcatcttaattctttctgatttgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAgtcagtagggataaacatgctgggatgagagccagtcttgcaaaatttgg Alignment from Exonerate_coding2genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTA tggacgtgttacttggacttggcatcttaattctttctgatttgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAgtcagtagggataaacatgctgggatgagagccagtcttgcaaaatttgg Alignment from GeneWise tggacgtgttacttggacttggcatcttaattctttctgatttgttttaggagctgtgggcctggtcctggggcacccatttgacactgtagtcagtagggataaacatgctgggatgagagccagtcttgcaaaatttgg #### Slc25a45_ID1293_4 --> 0 - 0 Original Alignment GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttcggacacaaaggtttgtgtttatttctcccagGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACATCTCATCAGGAGCGCCAGGCCCAGCCCCCGAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCGT---gtttgttgcgtatcattgttgctggataattgaaatacttttagttcatt Alignment from CESAR GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttcggacacaaaggtttgtgtttatttctcccagGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACATCTCATCAGGAGCGCCAGGCCCAGCCCCCGAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTC---CGTgtttgttgcgtatcattgttgctggataattgaaatacttttagttcatt Alignment from Spaln_aa2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttcggacacaaaggtttgtgtttatttctcccagGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACATCTCATCAGGAGCGCCAGGCCCAGCCCCCGAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGC---CTCCGTgtttgttgcgtatcattgttgctggataattgaaatacttttagttcatt Alignment from Spaln_nt2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCC ctcactagagctagatttcggacacaaaggtttgtgtttatttctcccagGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACATCTCATCAGGAGCGCCAGGCCCAGCCCCCGAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCgtgtttgttgcgtatcattgttgctggataattgaaatacttttagttcatt Alignment from Pairagon GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCC ctcactagagctagatttcggacacaaaggtttgtgtttatttctcccagGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACATCTCATCAGGAGCGCCAGGCCCAGCCCCCGAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCgtgtttgttgcgtatcattgttgctggataattgaaatacttttagttcatt Alignment from Exonerate_protein2genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCC ctcactagagctagatttcggacacaaaggtttgtgtttatttctcccagGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACATCTCATCAGGAGCGCCAGGCCCAGCCCCCGAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCgtgtttgttgcgtatcattgttgctggataattgaaatacttttagttcatt Alignment from Exonerate_coding2genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCC ctcactagagctagatttcggacacaaaggtttgtgtttatttctcccagGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACATCTCATCAGGAGCGCCAGGCCCAGCCCCCGAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCgtgtttgttgcgtatcattgttgctggataattgaaatacttttagttcatt Alignment from GeneWise GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttcggacacaaaggtttgtgtttatttctcccagGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACATCTCATCAGGAGCGCCAGGCCCAGCCCCCGAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTC---CGTgtttgttgcgtatcattgttgctggataattgaaatacttttagttcatt #### Slc29a2_ID792_6 --> 2 - 0 Original Alignment gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG ctacgaaggagcagcattgggagacttgcttttgtgttccctccctacaggtGGTGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTG---------gtaagctgcgaacaggagtgcatagtttaggttatgcaccattttaacat Alignment from CESAR gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG ctacgaaggagcagcattgggagacttgcttttgtgttccctccctacaggtGGTGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGC---------CTGgtaagctgcgaacaggagtgcatagtttaggttatgcaccattttaacat Alignment from Spaln_aa2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTG ctacgaaggagcagcattgggagacttgcttttgtgttccctccctacagGTGGTGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGgtaagctgcgaacaggagtgcatagtttaggttatgcaccattttaacat Alignment from Spaln_nt2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTG ctacgaaggagcagcattgggagacttgcttttgtgttccctccctacagGTGGTGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGgtaagctgcgaacaggagtgcatagtttaggttatgcaccattttaacat Alignment from Pairagon GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTG ctacgaaggagcagcattgggagacttgcttttgtgttccctccctacagGTGGTGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGgtaagctgcgaacaggagtgcatagtttaggttatgcaccattttaacat Alignment from Exonerate_protein2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTG ctacgaaggagcagcattgggagacttgcttttgtgttccctccctacagGTGGTGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGgtaagctgcgaacaggagtgcatagtttaggttatgcaccattttaacat Alignment from Exonerate_coding2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTG ctacgaaggagcagcattgggagacttgcttttgtgttccctccctacagGTGGTGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGgtaagctgcgaacaggagtgcatagtttaggttatgcaccattttaacat Alignment from GeneWise GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG ctacgaaggagcagcattgggagacttgcttttgtgttccctccctacagGTGGTGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGC---------CTGgtaagctgcgaacaggagtgcatagtttaggttatgcaccattttaacat #### Slc3a2_ID2301_8 --> 0 - 0 Original Alignment GTGTCGCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gtaggtaggagggggcaggtgttttcctttcatgcttctctctgcttcag------CAGGCAGGACTTCTTGCAGACTTTATACCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTTACCCTTCCAGGGACTCCTGTTTTCAGCTATGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgaggactcacttactgtgttgcatggaaataatgtatatgttatggca Alignment from CESAR GTGTCGCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG ggaagtgtaggtaggagggggcaggcctttcatgcttctctctgcttcag------CAGGCAGGACTTCTTGCAGACTTTATACCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTTACCCTTCCAGGGACTCCTGTTTTCAGCTATGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgaggactcacttactgtgttgcatggaaataatgtatatgttatggca Alignment from Spaln_aa2Genome GCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gtaggtaggagggggcaggtgttttcctttcatgcttctctctgcttcagcagGCAGGACTTCTTGCAGACTTTATACCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTTACCCTTCCAGGGACTCCTGTTTTCAGCTATGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgaggactcacttactgtgttgcatggaaataatgtatatgttatggca Alignment from Spaln_nt2Genome CGCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gtaggtaggagggggcaggtgttttcctttcatgcttctctctgcttcag--CAGGCAGGACTTCTTGCAGACTTTATACCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTTACCCTTCCAGGGACTCCTGTTTTCAGCTATGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgaggactcacttactgtgttgcatggaaataatgtatatgttatggca Alignment from Pairagon GTGTCGCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gtaggtaggagggggcaggtgttttcctttcatgcttctctctgcttcag------CAGGCAGGACTTCTTGCAGACTTTATACCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTTACCCTTCCAGGGACTCCTGTTTTCAGCTATGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgaggactcacttactgtgttgcatggaaataatgtatatgttatggca Alignment from Exonerate_protein2genome GCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gtaggtaggagggggcaggtgttttcctttcatgcttctctctgcttcagcagGCAGGACTTCTTGCAGACTTTATACCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTTACCCTTCCAGGGACTCCTGTTTTCAGCTATGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgaggactcacttactgtgttgcatggaaataatgtatatgttatggca Alignment from Exonerate_coding2genome GCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gtaggtaggagggggcaggtgttttcctttcatgcttctctctgcttcagcagGCAGGACTTCTTGCAGACTTTATACCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTTACCCTTCCAGGGACTCCTGTTTTCAGCTATGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgaggactcacttactgtgttgcatggaaataatgtatatgttatggca Alignment from GeneWise ---GCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gtaggtaggagggggcaggtgttttcctttcatgcttctctctgcttcagCAGGCAGGACTTCTTGCAGACTTTATACCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTTACCCTTCCAGGGACTCCTGTTTTCAGCTATGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAAgtgaggactcacttactgtgttgcatggaaataatgtatatgttatggca #### Slc3a2_ID2303_6 --> 0 - 2 Original Alignment AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACag ccttggtaggttcatgttctgtgtgcaattttcttggactttctttgtagAATGCACCTTTGTACTTAGCAGAATGGCAGAACATCTCCAAGAACCTT---GAA---aggtgagcagtactcagcagtccatcctggctcaactccttgtgagcgctct Alignment from CESAR AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACag ccttggtaggttcatgttctgtgtgcaattttcttggactttctttgtagAATGCACCTTTGTACTTAGCAGAATGGCAGAACATCTCCAAGAACCTT------GAAaggtgagcagtactcagcagtccatcctggctcaactccttgtgagcgctct Alignment from Spaln_aa2Genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG ccttggtaggttcatgttctgtgtgcaattttcttggactttctttgtagAATGCACCTTTGTACTTAGCAGAATGGCAGAACATCTCCAAGAACCTT------GAAAGgtgagcagtactcagcagtccatcctggctcaactccttgtgagcgctct Alignment from Spaln_nt2Genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG ccttggtaggttcatgttctgtgtgcaattttcttggactttctttgtagAATGCACCTTTGTACTTAGCAGAATGGCAGAACATCTCCAAGAACCT------TGAAAGgtgagcagtactcagcagtccatcctggctcaactccttgtgagcgctct Alignment from Pairagon AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG ccttggtaggttcatgttctgtgtgcaattttcttggactttctttgtagAATGCACCTTTGTACTTAGCAGAATGGCAGAACATCTCCAAGAACCT------TGAAAGgtgagcagtactcagcagtccatcctggctcaactccttgtgagcgctct Alignment from Exonerate_protein2genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG ccttggtaggttcatgttctgtgtgcaattttcttggactttctttgtagAATGCACCTTTGTACTTAGCAGAATGGCAGAACATCTCCAAGAACCTT------GAAAGgtgagcagtactcagcagtccatcctggctcaactccttgtgagcgctct Alignment from Exonerate_coding2genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG ccttggtaggttcatgttctgtgtgcaattttcttggactttctttgtagAATGCACCTTTGTACTTAGCAGAATGGCAGAACATCTCCAAGAACCTT------GAAAGgtgagcagtactcagcagtccatcctggctcaactccttgtgagcgctct Alignment from GeneWise AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG ccttggtaggttcatgttctgtgtgcaattttcttggactttctttgtagAATGCACCTTTGTACTTAGCAGAATGGCAGAACATCTCCAAGAACCTT------GAAAGgtgagcagtactcagcagtccatcctggctcaactccttgtgagcgctct #### Smc3_ID11328_16 --> 0 - 2 Original Alignment ---------------GCCATTTTAAATGGAATAGATAGCATTAACAAAGTGCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACCATGGCATCGTAATGAATAACTTTGAGTGTGAACCAGCTTTCTATACTTGTGTGGAAGTCACTGCTGGTAACag gacttgctgcttgtgttcattagatcttgtctctttggtcttcgttgtagATTCAAACATCAGCTGCCATTTTAAAAGGTATAGATAGCATTAACAAGGTTCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACTATGGCATTGTAATGAATAACTTTGAGTGTGAAGCAGCCTTCTATACTTGTGTGGAAGTCACTGCTGGTAACaggtgagctcggggttgggtggaactttagggggtaggggttgtgcctcatt Alignment from CESAR ---------------GCCATTTTAAATGGAATAGATAGCATTAACAAAGTGCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACCATGGCATCGTAATGAATAACTTTGAGTGTGAACCAGCTTTCTATACTTGTGTGGAAGTCACTGCTGGTAACag gacttgctgcttgtgttcattagatcttgtctctttggtcttcgttgtagATTCAAACATCAGCTGCCATTTTAAAAGGTATAGATAGCATTAACAAGGTTCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACTATGGCATTGTAATGAATAACTTTGAGTGTGAAGCAGCCTTCTATACTTGTGTGGAAGTCACTGCTGGTAACaggtgagctcggggttgggtggaactttagggggtaggggttgtgcctcatt Alignment from Spaln_aa2Genome GCCATTTTAAATGGAATA---------------GATAGCATTAACAAAGTGCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACCATGGCATCGTAATGAATAACTTTGAGTGTGAACCAGCTTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAG gacttgctgcttgtgttcattagatcttgtctctttggtcttcgttgtagATTCAAACATCAGCTGCCATTTTAAAAGGTATAGATAGCATTAACAAGGTTCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACTATGGCATTGTAATGAATAACTTTGAGTGTGAAGCAGCCTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAGgtgagctcggggttgggtggaactttagggggtaggggttgtgcctcatt Alignment from Spaln_nt2Genome GCCATTTTAA--ATGGAATAGATAGCATTAACAAAGTGCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACCATGGCATCGTAATGAATAACTTTGAGTGTGAACCAGCTTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAG gacttgctgcttgtgttcattagatcttgtctctttggtcttcgttgtagattcaaacatcagCTGCCATTTTAAAAGGTATAGATAGCATTAACAAGGTTCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACTATGGCATTGTAATGAATAACTTTGAGTGTGAAGCAGCCTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAGgtgagctcggggttgggtggaactttagggggtaggggttgtgcctcatt Alignment from Pairagon ---------------GCCATTTTAAATGGAATAGATAGCATTAACAAAGTGCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACCATGGCATCGTAATGAATAACTTTGAGTGTGAACCAGCTTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAG gacttgctgcttgtgttcattagatcttgtctctttggtcttcgttgtagATTCAAACATCAGCTGCCATTTTAAAAGGTATAGATAGCATTAACAAGGTTCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACTATGGCATTGTAATGAATAACTTTGAGTGTGAAGCAGCCTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAGgtgagctcggggttgggtggaactttagggggtaggggttgtgcctcatt Alignment from Exonerate_protein2genome GCCATTTTAAATGGAATAGATAGCATTAACAAAGTGCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACCATGGCATCGTAATGAATAACTTTGAGTGTGAACCAGCTTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAG gacttgctgcttgtgttcattagatcttgtctctttggtcttcgttgtagattcaaacatcagctGCCATTTTAAAAGGTATAGATAGCATTAACAAGGTTCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACTATGGCATTGTAATGAATAACTTTGAGTGTGAAGCAGCCTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAGgtgagctcggggttgggtggaactttagggggtaggggttgtgcctcatt Alignment from Exonerate_coding2genome GCCATTTTAAATGGAATAGATAGCATTAACAAAGTGCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACCATGGCATCGTAATGAATAACTTTGAGTGTGAACCAGCTTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAG gacttgctgcttgtgttcattagatcttgtctctttggtcttcgttgtagattcaaacatcagctGCCATTTTAAAAGGTATAGATAGCATTAACAAGGTTCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACTATGGCATTGTAATGAATAACTTTGAGTGTGAAGCAGCCTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAGgtgagctcggggttgggtggaactttagggggtaggggttgtgcctcatt Alignment from GeneWise ---------------GCCATTTTAAATGGAATAGATAGCATTAACAAAGTGCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACCATGGCATCGTAATGAATAACTTTGAGTGTGAACCAGCTTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAG gacttgctgcttgtgttcattagatcttgtctctttggtcttcgttgtagATTCAAACATCAGCTGCCATTTTAAAAGGTATAGATAGCATTAACAAGGTTCTAGAACATTTTCGGCGAAAAGGTATAAACCAGCATGTTCAAAATGGCTACTATGGCATTGTAATGAATAACTTTGAGTGTGAAGCAGCCTTCTATACTTGTGTGGAAGTCACTGCTGGTAACAGgtgagctcggggttgggtggaactttagggggtaggggttgtgcctcatt #### Smc5_ID5113_20 --> 0 - 0 Original Alignment GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atactagtactctcatcacctttcatgatgagcaccacctctctttgcagGCGTTTCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAAT------gtaagtctttctcaccatatctttgctatccacccactgtttccatactg Alignment from CESAR GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atactagtactctcatcacctttcatgatgagcaccacctctctttgcagGCGTTTCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAAT------gtaagtctttctcaccatatctttgctatccacccactgtttcc Alignment from Spaln_aa2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAAT atactagtactctcatcacctttcatgatgagcaccacctctctttgcagGCGTTTCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATgtaagtctttctcaccatatctttgctatccacccactgtttccatactg Alignment from Spaln_nt2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAAT atactagtactctcatcacctttcatgatgagcaccacctctctttgcagGCGTTTCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATgtaagtctttctcaccatatctttgctatccacccactgtttccatactg Alignment from Pairagon GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAAT atactagtactctcatcacctttcatgatgagcaccacctctctttgcagGCGTTTCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATgtaagtctttctcaccatatctttgctatccacccactgtttccatactg Alignment from Exonerate_protein2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atactagtactctcatcacctttcatgatgagcaccacctctctttgcagGCGTTTCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATGTAAGTctttctcaccatatctttgctatccacccactgtttccatactg Alignment from Exonerate_coding2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atactagtactctcatcacctttcatgatgagcaccacctctctttgcagGCGTTTCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATGTAAGTctttctcaccatatctttgctatccacccactgtttccatactg Alignment from GeneWise GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atactagtactctcatcacctttcatgatgagcaccacctctctttgcagGCGTTTCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTG------AATgtaagtctttctcaccatatctttgctatccacccactgtttccatactg #### Snx15_ID1467_5 --> 0 - 1 Original Alignment GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCA---------------------------------------------------g ctccccggccagccagatcccttctctgctctgctcacggtgtactgtagGGTGGGGAGGTAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCAACAATGCCTCCGGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCATCTGATGTCGTATATATTTACATGAACAAATTCTTGCCTCTCGAAGAATTGggtcagcctaggtcaggcaaggagctgagactgccaattgtaacccttgct Alignment from CESAR GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAg ctccccggccagccagatcccttctctgctctgctcacggtgtactgtagGGTGGGGAGGTAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCAACAATGCCTCCGGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAtctgatgtcgtatatatttacatgaacaaattcttgcctctcgaagaattgggtcagcctaggtcaggcaaggagctgagactgccaattgtaacccttgct Alignment from Spaln_aa2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAGTGGAT ctccccggccagccagatcccttctctgctctgctcacggtgtactgtagGGTGGGGAGGTAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCAACAATGCCTCCGGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCATCTGATgtcgtatatatttacatgaacaaattcttgcctctcgaagaattgggtcagcctaggtcaggcaaggagctgagactgccaattgtaacccttgct Alignment from Spaln_nt2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAG ctccccggccagccagatcccttctctgctctgctcacggtgtactgtagGGTGGGGAGGTAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCAACAATGCCTCCGGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAgttccatctgatgtcgtatatatttacatgaacaaattcttgcctctcgaagaattgggtcagcctaggtcaggcaaggagctgagactgccaattgtaacccttgct Alignment from Pairagon GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG-------- ctccccggccagccagatcccttctctgctctgctcacggtgtactgtagGGTGGGGAGGTAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCAACAATGCCTCCGGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCATCTGATGTCgtatatatttacatgaacaaattcttgcctctcgaagaattgggtcagcctaggtcaggcaaggagctgagactgccaattgtaacccttgct Alignment from Exonerate_protein2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ctccccggccagccagatcccttctctgctctgctcacggtgtactgtagGGTGGGGAGGTAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCAACAATGCCTCCGGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCATctgatgtcgtatatatttacatgaacaaattcttgcctctcgaagaattgggtcagcctaggtcaggcaaggagctgagactgccaattgtaacccttgct Alignment from Exonerate_coding2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAG ctccccggccagccagatcccttctctgctctgctcacggtgtactgtagGGTGGGGAGGTAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCAACAATGCCTCCGGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCATctgatgtcgtatatatttacatgaacaaattcttgcctctcgaagaattgggtcagcctaggtcaggcaaggagctgagactgccaattgtaacccttgct Alignment from GeneWise GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAG ctccccggccagccagatcccttctctgctctgctcacggtgtactgtagGGTGGGGAGGTAACACGCCCCTCTGAGGTGTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCAACAATGCCTCCGGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAgttccatctgatgtcgtatatatttacatgaacaaattcttgcctctcgaagaattgggtcagcctaggtcaggcaaggagctgagactgccaattgtaacccttgct #### Snx15_ID1469_3 --> 0 - 1 Original Alignment ------GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg ggtgtcttacccagctcacactcaggtccttcttttctttgtgtgcacagGTTGTGGTAGTAGTCTGGAAGCAGTACAGCGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCGGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCCAGGTGTTTggtaagttttggactctgtacctctccagctcagggcatcaggaatttggc Alignment from CESAR ------GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg ggtgtcttacccagctcacactcaggtccttcttttctttgtgtgcacagGTTGTGGTAGTAGTCTGGAAGCAGTACAGCGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCGGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCCAGGTGTTTggtaagttttggactctgtacctctccagctcagggcatcaggaatttggc Alignment from Spaln_aa2Genome ----GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG ggtgtcttacccagctcacactcaggtccttcttttctttgtgtgcacagGTTGTGGTAGTAGTCTGGAAGCAGTACAGCGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCGGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCCAGGTGTTTGgtaagttttggactctgtacctctccagctcagggcatcaggaatttggc Alignment from Spaln_nt2Genome -----GGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG ggtgtcttacccagctcacactcaggtccttcttttctttgtgtgcacagGTTGTGGTAGTAGTCTGGAAGCAGTACAGCGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCGGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCCAGGTGTTTGgtaagttttggactctgtacctctccagctcagggcatcaggaatttggc Alignment from Pairagon -------------------------------------------------------GGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG GGTGTCTTACCCAGCTCACACTCAGGTCCTTCTTTTCTTTGTGTGCACAGGTTGTGGTAGTAGTCTGGAAGCAGTACAGCGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCGGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCCAGGTGTTTGgtaagttttggactctgtacctctccagctcagggcatcaggaatttggc Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG ggtgtcttacccagctcacactcaggtccttcttttctttgtgtgcacaggttgtgGTAGTAGTCTGGAAGCAGTACAGCGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCGGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCCAGGTGTTTGgtaagttttggactctgtacctctccagctcagggcatcaggaatttggc Alignment from Exonerate_coding2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG ggtgtcttacccagctcacactcaggtccttcttttctttgtgtgcacaggttgtgGTAGTAGTCTGGAAGCAGTACAGCGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCGGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCCAGGTGTTTGgtaagttttggactctgtacctctccagctcagggcatcaggaatttggc Alignment from GeneWise ------GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG ggtgtcttacccagctcacactcaggtccttcttttctttgtgtgcacagGTTGTGGTAGTAGTCTGGAAGCAGTACAGCGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCGGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCCAGGTGTTTGgtaagttttggactctgtacctctccagctcagggcatcaggaatttggc #### Snx32_ID1067_11 --> 0 - 1 Original Alignment GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg gcaacatccatgataaaattgttttgctttattcctctctctcctcatagGATCTATTGTACCGGCGGCTCCGGGCACTGGCTGAGTATGAGAATGCTAACAAAGCTCTTGACAAAGCTCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCGCCAGCAACTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGCCAAA---ggtaagtagccctgaaggattgcaacactccacccaacaccccattatcga Alignment from CESAR GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAG---CGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg gcaacatccatgataaaattgttttgctttattcctctctctcctcatagGATCTATTGTACCGGCGGCTCCGGGCACTGGCTGAGTATGAGAATGCTAACAAAGCTCTTGACAAAGCTCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCGCCAGCAACTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGCCAAA---ggtaagtagccctgaaggattgcaacactccacccaacaccccattatcgt Alignment from Spaln_aa2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAA- gcaacatccatgataaaattgttttgctttattcctctctctcctcatagGATCTATTGTACCGGCGGCTCCGGGCACTGGCTGAGTATGAGAATGCTAACAAAGCTCTTGACAAAGCTCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCGCCAGCAACTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGCCAAAGgtaagtagccctgaaggattgcaacactccacccaacaccccattatcga Alignment from Spaln_nt2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCC---AGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG gcaacatccatgataaaattgttttgctttattcctctctctcctcatagGATCTATTGTACCGGCGGCTCCGGGCACTGGCTGAGTATGAGAATGCTAACAAAGCTCTTGACAAAGCTCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCGCCAGCAACTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGCCA---AAGgtaagtagccctgaaggattgcaacactccacccaacaccccattatcga Alignment from Pairagon GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAAC-------------------------------------------------- gcaacatccatgataaaattgttttgctttattcctctctctcctcatagGATCTATTGTACCGGCGGCTCCGGGCACTGGCTGAGTATGAGAATGCTAACAAAGCTCTTGACAAAGCTCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCGCCAGCAACTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGCCAAAGGTAAGTAGCCCTGAAGGATTGCAACACTCCACCCAACACCCCATTATCGA Alignment from Exonerate_protein2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAAC gcaacatccatgataaaattgttttgctttattcctctctctcctcatagGATCTATTGTACCGGCGGCTCCGGGCACTGGCTGAGTATGAGAATGCTAACAAAGCTCTTGACAAAGCTCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCGCCAGCAACTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGCCAAAGgtaagtagccctgaaggattgcaacactccacccaacaccccattatcga Alignment from Exonerate_coding2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAAC gcaacatccatgataaaattgttttgctttattcctctctctcctcatagGATCTATTGTACCGGCGGCTCCGGGCACTGGCTGAGTATGAGAATGCTAACAAAGCTCTTGACAAAGCTCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCGCCAGCAACTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGCCAAAGgtaagtagccctgaaggattgcaacactccacccaacaccccattatcga Alignment from GeneWise GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAG---CGCTTCGAGCGCCTCTCTGACTCCGCCAAAC gcaacatccatgataaaattgttttgctttattcctctctctcctcatagGATCTATTGTACCGGCGGCTCCGGGCACTGGCTGAGTATGAGAATGCTAACAAAGCTCTTGACAAAGCTCGGACAAGGAACCATGAAGTATGGTCAGCAGAGAGCCGCCAGCAACTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGCCAAAGgtaagtagccctgaaggattgcaacactccacccaacaccccattatcga #### Snx32_ID1069_9 --> 1 - 0 Original Alignment g---------AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgagggaacccttgagccccaggaccttcttcttctgattttaggATGCAGGCCAGCTTTCTAAAGCTGGCAGAACTGTTTGAACGGCTGAGGgtgggtactaccttcaacactaggtcttctcaagtattgccaaggtgtac Alignment from CESAR g---------AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgagggaacccttgagccccaggaccttcttcttctgattttaggATGCAGGCCAGCTTTCTAAAGCTGGCAGAACTGTTTGAACGGCTGAGGgtgggtactaccttcaacactaggtcttctcaagtattgccaaggtgtac Alignment from Spaln_aa2Genome GAGCTTCCTGAAG---------CTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgagggaacccttgagccccaggaccttcttcttctgattttagGATGCAGGCCAGCTTTCTAAAGCTGGCAGAACTGTTTGAACGGCTGAGGgtgggtactaccttcaacactaggtcttctcaagtattgccaaggtgtac Alignment from Spaln_nt2Genome G--AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgagggaacccttgagccccaggaccttcttcttctgattttaggatgcagGCCAGCTTTCTAAAGCTGGCAGAACTGTTTGAACGGCTGAGGgtgggtactaccttcaacactaggtcttctcaagtattgccaaggtgtac Alignment from Pairagon G---------AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgagggaacccttgagccccaggaccttcttcttctgattttagGATGCAGGCCAGCTTTCTAAAGCTGGCAGAACTGTTTGAACGGCTGAGGgtgggtactaccttcaacactaggtcttctcaagtattgccaaggtgtac Alignment from Exonerate_protein2genome AGGAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgagggaacccttgagccccaggaccttcttcttctgattttaggatgcagGCCAGCTTTCTAAAGCTGGCAGAACTGTTTGAACGGCTGAGGgtgggtactaccttcaacactaggtcttctcaagtattgccaaggtgtac Alignment from Exonerate_coding2genome AGGAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgagggaacccttgagccccaggaccttcttcttctgattttaggatgcagGCCAGCTTTCTAAAGCTGGCAGAACTGTTTGAACGGCTGAGGgtgggtactaccttcaacactaggtcttctcaagtattgccaaggtgtac Alignment from GeneWise -TTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgagggaacccttgagccccaggaccttcttcttctgattttaggatgcaggccagCTTTCTAAAGCTGGCAGAACTGTTTGAACGGCTGAGGgtgggtactaccttcaacactaggtcttctcaagtattgccaaggtgtac #### Snx32_ID1070_8 --> 2 - 2 Original Alignment gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag actgcccggctcccttcattgccacgtcttctttattactcttttcttaggc---------------------ATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTGAAGaggtaagtgtcatgctattgctgcattcacctcactcttgcaccattactgt Alignment from CESAR gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag gcgcacattcatccaattaagactggtcttctttattactcttttcttaggc---------------------ATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTGAAGaggtaagtgtcatgctattgctgcattcacctcactcttgcaccattactgt Alignment from Spaln_aa2Genome CTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG actgcccggctcccttcattgccacgtcttctttattactcttttcttagGCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTGAAGAGgtaagtgtcatgctattgctgcattcacctcactcttgcaccattactgt Alignment from Spaln_nt2Genome ACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG actgcccggctcccttcattgccacgtcttctttattactcttttcttagGC---------ATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTGAAGAGgtaagtgtcatgctattgctgcattcacctcactcttgcaccattactgt Alignment from Pairagon GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG actgcccggctcccttcattgccacgtcttctttattactcttttcttagGC---------------------ATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTGAAGAGgtaagtgtcatgctattgctgcattcacctcactcttgcaccattactgt Alignment from Exonerate_protein2genome GACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG actgcccggctcccttcattgccacgtcttctttattACTCTTTTCTTAGGCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTGAAGAGgtaagtgtcatgctattgctgcattcacctcactcttgcaccattactgt Alignment from Exonerate_coding2genome GACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG actgcccggctcccttcattgccacgtcttctttattACTCTTTTCTTAGGCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTGAAGAGgtaagtgtcatgctattgctgcattcacctcactcttgcaccattactgt Alignment from GeneWise -------------------------------CTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG ACTGCCCGGCTCCCTTCATTGCCACGTCTTCTTTATTACTCTTTTCTTAGGCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACCAACTGAAGAGgtaagtgtcatgctattgctgcattcacctcactcttgcaccattactgt #### Snx32_ID1074_4 --> 0 - 2 Original Alignment ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aagggtgggtgttgcgtcaaccctttgggactgctgtcttgtctccttagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTA---gcgtgagttggatctccttcaccactcctgatttctctagggtctcctgaga Alignment from CESAR ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aagggtgggtgttgcgtcaaccctttgggactgctgtcttgtctccttagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTA---gcgtgagttggatctccttcaccactcctgatttctctagggtctcctgaga Alignment from Spaln_aa2Genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGA aagggtgggtgttgcgtcaaccctttgggactgctgtcttgtctccttagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGCgtgagttggatctccttcaccactcctgatttctctagggtctcctgaga Alignment from Spaln_nt2Genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aagggtgggtgttgcgtcaaccctttgggactgctgtcttgtctccttagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCT---AGCgtgagttggatctccttcaccactcctgatttctctagggtctcctgaga Alignment from Pairagon ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aagggtgggtgttgcgtcaaccctttgggactgctgtcttgtctccttagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCT---AGCgtgagttggatctccttcaccactcctgatttctctagggtctcctgaga Alignment from Exonerate_protein2genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGA aagggtgggtgttgcgtcaaccctttgggactgctgtcttgtctccttagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGCgtgagttggatctccttcaccactcctgatttctctagggtctcctgaga Alignment from Exonerate_coding2genome ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGA aagggtgggtgttgcgtcaaccctttgggactgctgtcttgtctccttagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGCgtgagttggatctccttcaccactcctgatttctctagggtctcctgaga Alignment from GeneWise ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGA aagggtgggtgttgcgtcaaccctttgggactgctgtcttgtctccttagCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGCgtgagttggatctccttcaccactcctgatttctctagggtctcctgaga #### Snx32_ID1075_3 --> 0 - 0 Original Alignment AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gctttgggtaagaagggatcgctggaaccctgtggtggtgtctgttgtag------CTGCCTCACTCTGCCCAGTCTGAATTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTGCATGACACCTATGTAGAAAATGAAGAGTATGAATACACTAGCCTCGTTgtttgtagtagtagggcagagttggagtgttaagaatgtacataagggtg Alignment from CESAR AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAG------TACGCCGGCCTCATC aaggtagctttgggtaagaagggataaccctgtggtggtgtctgttgtag------CTGCCTCACTCTGCCCAGTCTGAATTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTGCATGACACCTATGTAGAAAATGAAGAGTATGAATACACTAGCCTCGTTgtttgtagtagtagggcagagttggagtgttaagaatgtacataagggtg Alignment from Spaln_aa2Genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gctttgggtaagaagggatcgctggaaccctgtggtggtgtctgttgtag------CTGCCTCACTCTGCCCAGTCTGAATTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTGCATGACACCTATGTAGAAAATGAAGAGTATGAATACACTAGCCTCGTTgtttgtagtagtagggcagagttggagtgttaagaatgtacataagggtg Alignment from Spaln_nt2Genome AGTGGC CTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACG------CCGGCCTCATC gCTTTGGgtaagaagggatcgctggaaccctgtggtggtgtctgttgtagCTGCCTCACTCTGCCCAGTCTGAATTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTGCATGACACCTATGTAGAAAATGAAGAGTATGAATACACTAGCCTCGTTgtttgtagtagtagggcagagttggagtgttaagaatgtacataagggtg Alignment from Pairagon AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGA gctttgggtaagaagggatcgctggaaccctgtggtggtgtctgttgtag------CTGCCTCACTCTGCCCAGTCTGAATTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTGCATGACACCTATGTAGAAAATGAAGAgtatgaatacactagcctcgttgtttgtagtagtagggcagagttggagtgttaagaatgtacataagggtg Alignment from Exonerate_protein2genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gctttgggtaagaagggatcgctggaaccctgtggtggtgtctgTTGTAGCTGCCTCACTCTGCCCAGTCTGAATTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTGCATGACACCTATGTAGAAAATGAAGAGTATGAATACACTAGCCTCGTTgtttgtagtagtagggcagagttggagtgttaagaatgtacataagggtg Alignment from Exonerate_coding2genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gctttgggtaagaagggatcgctggaaccctgtggtggtgtctgTTGTAGCTGCCTCACTCTGCCCAGTCTGAATTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTGCATGACACCTATGTAGAAAATGAAGAGTATGAATACACTAGCCTCGTTgtttgtagtagtagggcagagttggagtgttaagaatgtacataagggtg Alignment from GeneWise AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC gctttgggtaagaagggatcgctggaaccctgtggtggtgtctgttgtagCTG------CCTCACTCTGCCCAGTCTGAATTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTGCATGACACCTATGTAGAAAATGAAGAGTATGAATACACTAGCCTCGTTgtttgtagtagtagggcagagttggagtgttaagaatgtacataagggtg #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg tccagtccttatatggcaaagcattcacgtgtgtgtgtttcccccatcagaTACCCCAATGTCAATGTGCATAACTTTACCACCAGCTGGAGAGATGGGCTG---------------------------cggtgagcaggtggggttcatgactcagatcatacgctatcttggaaagcaa Alignment from CESAR aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg tccagtccttatatggcaaagcattcacgtgtgtgtgtttcccccatcagaTACCCCAATGTCAATGTGCATAACTTTACCACCAGCTGGAGAGATGGGCTG---------------------------cggtgagcaggtggggttcatgactcagatcatacgctatcttggaaagcaa Alignment from Spaln_aa2Genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGC tccagtccttatatggcaaagcattcacgtgtgtgtgtttcccccatcagATACCCCAATGTCAATGTGCATAACTTTACCACCAGCTGGAGAGATGGGCTGCGgtgagcaggtggggttcatgactcagatcatacgctatcttggaaagcaa Alignment from Spaln_nt2Genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTG-G tccagtccttatatggcaaagcattcacgtgtgtgtgtttcccccatcagATACCCCAATGTCAATGTGCATAACTTTACCACCAGCTGGAGAGATGGGCTGCGgtgagcaggtggggttcatgactcagatcatacgctatcttggaaagcaa Alignment from Pairagon ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tccagtccttatatggcaaagcattcacgtgtgtgtgtttcccccatcagATACCCCAATGTCAATGTGCATAACTTTACCACCAGCTGGAGAGATGGGCTG---------------------------CGgtgagcaggtggggttcatgactcagatcatacgctatcttggaaagcaa Alignment from Exonerate_protein2genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATG tccagtccttatatggcaaagcattcacgtgtgtgtgtttcccccatcagATACCCCAATGTCAATGTGCATAACTTTACCACCAGCTGGAGAGATGGGCTGCGGTGAGCAGgtggggttcatgactcagatcatacgctatcttggaaagcaa Alignment from Exonerate_coding2genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATG tccagtccttatatggcaaagcattcacgtgtgtgtgtttcccccatcagATACCCCAATGTCAATGTGCATAACTTTACCACCAGCTGGAGAGATGGGCTGCGGTGAGCAGgtggggttcatgactcagatcatacgctatcttggaaagcaa Alignment from GeneWise ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGC tccagtccttatatggcaaagcattcacgtgtgtgtgtttcccccatcagATACCCCAATGTCAATGTGCATAACTTTACCACCAGCTGGAGAGATGGGCTGCGgtgagcaggtggggttcatgactcagatcatacgctatcttggaaagcaa #### Sptbn2_ID629_24 --> 1 - 0 Original Alignment c---ACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT tgagtgcatgtatgtgacacatagcaagtgctcttccccttgtgttgtagcTTAACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATCAGCGCCTGCAGGAGCACCTCCGGCCGTGCCAGCTCCGAAGAGAGCTAGATGATCTGGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGATTATGAACATGTGACTgtaagactacagtctcacaaataggatcaagatgtgtgaggtgacaaagg Alignment from CESAR c---ACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT tccgcgcatgtatgtgacacatagcaagtgctcttccccttgtgttgtagcTTAACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATCAGCGCCTGCAGGAGCACCTCCGGCCGTGCCAGCTCCGAAGAGAGCTAGATGATCTGGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGATTATGAACATGTGACTgtaagactacagtctcacaaataggatcaagatgtgtgaggtgacaaagg Alignment from Spaln_aa2Genome C---ACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT tgagtgcatgtatgtgacacatagcaagtgctcttccccttgtgttgtagCTTAACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATCAGCGCCTGCAGGAGCACCTCCGGCCGTGCCAGCTCCGAAGAGAGCTAGATGATCTGGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGATTATGAACATGTGACTgtaagactacagtctcacaaataggatcaagatgtgtgaggtgacaaagg Alignment from Spaln_nt2Genome CACAAGACTA---ACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT tgagtgcatgtatgtgacacatagcaagtgctcttccccttgtgttgtagCTTAACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATCAGCGCCTGCAGGAGCACCTCCGGCCGTGCCAGCTCCGAAGAGAGCTAGATGATCTGGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGATTATGAACATGTGACTgtaagactacagtctcacaaataggatcaagatgtgtgaggtgacaaagg Alignment from Pairagon C---ACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT tgagtgcatgtatgtgacacatagcaagtgctcttccccttgtgttgtagCTTAACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATCAGCGCCTGCAGGAGCACCTCCGGCCGTGCCAGCTCCGAAGAGAGCTAGATGATCTGGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGATTATGAACATGTGACTgtaagactacagtctcacaaataggatcaagatgtgtgaggtgacaaagg Alignment from Exonerate_protein2genome C---ACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT tgagtgcatgtatgtgacacatagcaagtgctcttccccttgtgttgtagCTTAACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATCAGCGCCTGCAGGAGCACCTCCGGCCGTGCCAGCTCCGAAGAGAGCTAGATGATCTGGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGATTATGAACATGTGACTgtaagactacagtctcacaaataggatcaagatgtgtgaggtgacaaagg Alignment from Exonerate_coding2genome C---ACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT tgagtgcatgtatgtgacacatagcaagtgctcttccccttgtgttgtagCTTAACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATCAGCGCCTGCAGGAGCACCTCCGGCCGTGCCAGCTCCGAAGAGAGCTAGATGATCTGGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGATTATGAACATGTGACTgtaagactacagtctcacaaataggatcaagatgtgtgaggtgacaaagg Alignment from GeneWise -AGCACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT tgagtgcatgtatgtgacacatagcaagtgctcttccccttgtgttgtagCTTAACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATCAGCGCCTGCAGGAGCACCTCCGGCCGTGCCAGCTCCGAAGAGAGCTAGATGATCTGGAACAGTGGATACAGGAGCATGAGGTTGTTGCAGCCTCCCATGAGTTGGGCCAAGATTATGAACATGTGACTgtaagactacagtctcacaaataggatcaagatgtgtgaggtgacaaagg #### Sptbn2_ID633_28 --> 0 - 1 Original Alignment ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg atggtcaagtcccaatactcatggaccttactgtgactttcattttatag------GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACCGCTGACAAGTGGCAGGAGAAGATGGACTGGTTACAACTTggtaaattatttagcaatatcacaggaggtaggggttatgggagggtgtac Alignment from CESAR ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg gtcatcatggtcaagtcccaatactccttactgtgactttcattttatag------GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACCGCTGACAAGTGGCAGGAGAAGATGGACTGGTTACAACTTggtaaattatttagcaatatcacaggaggtaggggttatgggagggtgtac Alignment from Spaln_aa2Genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG atggtcaagtcccaatactcatggaccttactgtgactttcattttatag------GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACCGCTGACAAGTGGCAGGAGAAGATGGACTGGTTACAACTTGgtaaattatttagcaatatcacaggaggtaggggttatgggagggtgtac Alignment from Spaln_nt2Genome AGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG atggtcaagtcccaatactcatggaccttactgtgactttcattttatag-GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACCGCTGACAAGTGGCAGGAGAAGATGGACTGGTTACAACTTGgtaaattatttagcaatatcacaggaggtaggggttatgggagggtgtac Alignment from Pairagon GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG atggtcaagtcccaatactcatggaccttactgtgactttcattttatagGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACCGCTGACAAGTGGCAGGAGAAGATGGACTGGTTACAACTTGgtaaattatttagcaatatcacaggaggtaggggttatgggagggtgtac Alignment from Exonerate_protein2genome GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG atggtcaagtcccaatactcatggaccttactgtgactttcattttatagGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACCGCTGACAAGTGGCAGGAGAAGATGGACTGGTTACAACTTGgtaaattatttagcaatatcacaggaggtaggggttatgggagggtgtac Alignment from Exonerate_coding2genome GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG atggtcaagtcccaatactcatggaccttactgtgactttcattttatagGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACCGCTGACAAGTGGCAGGAGAAGATGGACTGGTTACAACTTGgtaaattatttagcaatatcacaggaggtaggggttatgggagggtgtac Alignment from GeneWise GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG atggtcaagtcccaatactcatggaccttactgtgactttcattttatagGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACCGCTGACAAGTGGCAGGAGAAGATGGACTGGTTACAACTTGgtaaattatttagcaatatcacaggaggtaggggttatgggagggtgtac #### Sptbn2_ID637_32 --> 0 - 0 Original Alignment CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT aactcagccaacatttggatctgtatcggttttttcacaatctttcccag------TTGGAACAGCAGAGACTTGAACAGGGCAATGTGCCTGAGGGACCTgtaattttagctaagggcttaagtacggatatcaaaagatgatgatgcaa Alignment from CESAR CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT ccttgcaactcagccaacatttggatcggttttttcacaatctttcccag------TTGGAACAGCAGAGACTTGAACAGGGCAATGTGCCTGAGGGACCTgtaattttagctaagggcttaagtacggatatcaaaagatgatgatgcaa Alignment from Spaln_aa2Genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT aactcagccaacatttggatctgtatcggttttttcacaatctttcccag------TTGGAACAGCAGAGACTTGAACAGGGCAATGTGCCTGAGGGACCTgtaattttagctaagggcttaagtacggatatcaaaagatgatgatgcaa Alignment from Spaln_nt2Genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT aactcagccaacatttggatctgtatcggttttttcacaatctttcccag------TTGGAACAGCAGAGACTTGAACAGGGCAATGTGCCTGAGGGACCTgtaattttagctaagggcttaagtacggatatcaaaagatgatgatgcaa Alignment from Pairagon CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT aactcagccaacatttggatctgtatcggttttttcacaatctttcccag------TTGGAACAGCAGAGACTTGAACAGGGCAATGTGCCTGAGGGACCTgtaattttagctaagggcttaagtacggatatcaaaagatgatgatgcaa Alignment from Exonerate_protein2genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT aactcagccaacatttggatctgtatcggttttttcacaatcttTCCCAGTTGGAACAGCAGAGACTTGAACAGGGCAATGTGCCTGAGGGACCTgtaattttagctaagggcttaagtacggatatcaaaagatgatgatgcaa Alignment from Exonerate_coding2genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT aactcagccaacatttggatctgtatcggttttttcacaatcttTCCCAGTTGGAACAGCAGAGACTTGAACAGGGCAATGTGCCTGAGGGACCTgtaattttagctaagggcttaagtacggatatcaaaagatgatgatgcaa Alignment from GeneWise TTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT aactcagccaacatttggatctgtatcggttttttcacaatctttcccagTTGGAACAGCAGAGACTTGAACAGGGCAATGTGCCTGAGGGACCTgtaattttagctaagggcttaagtacggatatcaaaagatgatgatgcaa #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC---ag aagaaggatacaattgatgtcattgtttctgctttgctgtttgtccccagGGCTCTGGTATGGGAGATGAGTCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCCCTGCTCCTTCTCCTATGCCACAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTCAACAAGAAAGCTGCCAACTCTaggtaagtatcatgcctactgatgcctgtgcctctctgactctggcctctga Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC---ag aagaaggatacaattgatgtcattgtttctgctttgctgtttgtccccagGGCTCTGGTATGGGAGATGAGTCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCCCTGCTCCTTCTCCTATGCCACAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTCAACAAGAAAGCTGCCAACTCTaggtaagtatcatgcctactgatgcctgtgcctctctgactctggcctctga Alignment from Spaln_aa2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAGG-- aagaaggatacaattgatgtcattgtttctgctttgctgtttgtccccagGGCTCTGGTATGGGAGATGAGTCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCCCTGCTCCTTCTCCTATGCCACAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTCAACAAGAAAGCTGCCAACTCTAGgtaagtatcatgcctactgatgcctgtgcctctctgactctggcctctga Alignment from Spaln_nt2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGC---CCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC---AG aagaaggatacaattgatgtcattgtttctgctttgctgtttgtccccagGGCTCTGGTATGGGAGATGAGTCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCCCTGCTCCTTCTCCTATGCCACAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTCAACAAGAAAGCTGCCAACTCTAGgtaagtatcatgcctactgatgcctgtgcctctctgactctggcctctga Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC---AG aagaaggatacaattgatgtcattgtttctgctttgctgtttgtccccagGGCTCTGGTATGGGAGATGAGTCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCCCTGCTCCTTCTCCTATGCCACAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTCAACAAGAAAGCTGCCAACTCTAGgtaagtatcatgcctactgatgcctgtgcctctctgactctggcctctga Alignment from Exonerate_protein2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC---AG aagaaggatacaattgatgtcattgtttctgctttgctgtttgtccccagGGCTCTGGTATGGGAGATGAGTCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCCCTGCTCCTTCTCCTATGCCACAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTCAACAAGAAAGCTGCCAACTCTAGgtaagtatcatgcctactgatgcctgtgcctctctgactctggcctctga Alignment from Exonerate_coding2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC---CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC---AG aagaaggatacaattgatgtcattgtttctgctttgctgtttgtccccagGGCTCTGGTATGGGAGATGAGTCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCCCTGCTCCTTCTCCTATGCCACAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTCAACAAGAAAGCTGCCAACTCTAGgtaagtatcatgcctactgatgcctgtgcctctctgactctggcctctga Alignment from GeneWise GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAGG-- aagaaggatacaattgatgtcattgtttctgctttgctgtttgtccccagGGCTCTGGTATGGGAGATGAGTCCCGTGGGCCCCAGGGTGAGAGACAGACCCTGCTGCCACGTGGCCCTGCTCCTTCTCCTATGCCACAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCTTACCTACACGAGGTCCAGAGCTCTCTGCACAGGAACAGATGGAAGGGATGCTGTGCCGTGAACAAGACATGGAAGCGTTCAACAAGAAAGCTGCCAACTCTAGgtaagtatcatgcctactgatgcctgtgcctctctgactctggcctctga #### Ssh3_ID445_11 --> 1 - 2 Original Alignment aGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCag tgagagagtcattagtggttcctcatcgaaaccttcttcctctcctgcagaGTAAGTCACATCTTGAACATGGCCCGGGAGATCGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAG------aggtatgacccctactgctcccaggtttgatgccccatccactagtacagac Alignment from CESAR aGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCag tgagagagtcattagtggttcctcatcgaaaccttcttcctctcctgcagaGTAAGTCACATCTTGAACATGGCCCGGGAGATCGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAG------aggtatgacccctactgctcccaggtttgatgccccatccactagtacagac Alignment from Spaln_aa2Genome AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGA tgagagagtcattagtggttcctcatcgaaaccttcttcctctcctgcagAGTAAGTCACATCTTGAACATGGCCCGGGAGATCGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGAGgtatgacccctactgctcccaggtttgatgccccatccactagtacagac Alignment from Spaln_nt2Genome AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG tgagagagtcattagtggttcctcatcgaaaccttcttcctctcctgcagAGTAAGTCACATCTTGAACATGGCCCGGGAGATCGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAG------AGgtatgacccctactgctcccaggtttgatgccccatccactagtacagac Alignment from Pairagon AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG tgagagagtcattagtggttcctcatcgaaaccttcttcctctcctgcagAGTAAGTCACATCTTGAACATGGCCCGGGAGATCGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAG------AGgtatgacccctactgctcccaggtttgatgccccatccactagtacagac Alignment from Exonerate_protein2genome AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGA tgagagagtcattagtggttcctcatcgaaaccttcttcctctcctgcagAGTAAGTCACATCTTGAACATGGCCCGGGAGATCGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGAGgtatgacccctactgctcccaggtttgatgccccatccactagtacagac Alignment from Exonerate_coding2genome AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGA tgagagagtcattagtggttcctcatcgaaaccttcttcctctcctgcagAGTAAGTCACATCTTGAACATGGCCCGGGAGATCGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGAGgtatgacccctactgctcccaggtttgatgccccatccactagtacagac Alignment from GeneWise AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAG-- tgagagagtcattagtggttcctcatcgaaaccttcttcctctcctgcagAGTAAGTCACATCTTGAACATGGCCCGGGAGATCGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGAGgtatgacccctactgctcccaggtttgatgccccatccactagtacagac #### Ssh3_ID446_10 --> 0 - 2 Original Alignment CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAAC------ag CACACCTCTACTTGgtaggtggtcctttggctccatctctctgtccccagGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACCAATTGaggtgagctttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from CESAR CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAAC------ag CACACCTCTACTTGgtaaggggtcctttggctccatctctctgtccccagGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACCAATTGaggtgagctttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Spaln_aa2Genome CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAGA----- CACACCTCTACTTGgtaggtggtcctttggctccatctctctgtccccagGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACCAATTGAGgtgagctttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Spaln_nt2Genome CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAAC------AG CACACCTCTACTTGgtaggtggtcctttggctccatctctctgtccccagGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACCAATTGAGgtgagctttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Pairagon CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAAC------AG CACACCTCTACTTGgtaggtggtcctttggctccatctctctgtccccagGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACCAATTGAGgtgagctttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Exonerate_protein2genome CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAAC------AG CACACCTCTACTTGgtaggtggtcctttggctccatctctctgtccccagGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACCAATTGAGgtgagctttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Exonerate_coding2genome CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAAC------AG CACACCTCTACTTGgtaggtggtcctttggctccatctctctgtccccagGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACCAATTGAGgtgagctttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from GeneWise CCCACCTCTACTTG------------------------------------GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAGAGTAAG CACACCTCTACTTGGTAGGTGGTCCTTTGGCTCCATCTCTCTGTCCCCAGGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACCAATTGAGgtgagctttctggctgtgggtgcctcttttttctcccagcctctctgtgg #### Ssh3_ID447_9 --> 0 - 0 Original Alignment ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAA acaggtcatggtaggcctgttctttaccagcccagcactcgtgtccctagCTCCATCAGGCCCTGGAACTACACCTTGGATGTCCTCTA------TACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCAGACATCTCGCATCTTCCCACACCTCTACTTGGACgtaaggggtccttttctggccggtctttttttccagGGCTCTGAATGGAA Alignment from CESAR ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAA acaggtcatggtaggcctgttctttaccagcccagcactcgtgtccctagCTCCATCAGGCCCTGGAACTACACCTTGGATGTCCTCTA------TACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCAGACATCTCGCATCTTCCCACACCTCTACTTGGACgtaaggggtcctttggctccatctctctgtccccagGGCTCTGAATGGAA Alignment from Spaln_aa2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAA acaggtcatggtaggcctgttctttaccagcccagcactcgtgtccctagCTCCATCAGGCCCTGGAACTACACCTTGGATGTCCTCTA------TACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCAGACATCTCGCATCTTCCCACACCTCTACTTGGACgtaaggggtccttttctggccggtctttttttccagGGCTCTGAATGGAA Alignment from Spaln_nt2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAA acaggtcatggtaggcctgttctttaccagcccagcactcgtgtccctagCTCCATCAGGCCCTGGAACTACACCTTGGATGTCCTCT------ATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCAGACATCTCGCATCTTCCCACACCTCTACTTGGACgtaaggggtccttttctggccggtctttttttccagGGCTCTGAATGGAA Alignment from Pairagon ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTT---------------------------------------GGGCTCTGAGTGGAA acaggtcatggtaggcctgttctttaccagcccagcactcgtgtccctagCTCCATCAGGCCCTGGAACTACACCTTGGATGTCCTCT------ATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCAGACATCTCGCATCTTCCCACACCTCTACTTGGACGTAAGGGGTCCTTTTCTGGCCGGTCTTTTTTTCCAGGGCTCTGAATGGAA Alignment from Exonerate_protein2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAA acaggtcatggtaggcctgttctttaccagcccagcactcgtgtccctagCTCCATCAGGCCCTGGAACTACACCTTGGATGTCCTCTA------TACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCAGACATCTCGCATCTTCCCACACCTCTACTTGGACgtaaggggtccttttctggccggtctttttttccagGGCTCTGAATGGAA Alignment from Exonerate_coding2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAA acaggtcatggtaggcctgttctttaccagcccagcactcgtgtccctagCTCCATCAGGCCCTGGAACTACACCTTGGATGTCCTCTA------TACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCAGACATCTCGCATCTTCCCACACCTCTACTTGGACgtaaggggtccttttctggccggtctttttttccagGGCTCTGAATGGAA Alignment from GeneWise ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG---------------------------------------GGCTCTGAGTGGAA acaggtcatggtaggcctgttctttaccagcccagcactcgtgtccctagCTCCATCAGGCCCTGGAACTACACCTTGGATGTCCTCTA------TACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCAGACATCTCGCATCTTCCCACACCTCTACTTGGACGTAAGGGGTCCTTTTCTGGCCGGTCTTTTTTTCCAGGGCTCTGAATGGAA #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- ttgctgctggtaactaagtgagatgtacacccgcgtccgggcgcgcgcaggGCCTCAGAGCAGGAAAAGACGGAACAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTCACTTCCAAAGAGCTTgtaaacgatgaccaggatgaccaggctggctggtggttgccttcctttgt Alignment from CESAR gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- ttgctgctggtaactaagtgagatgtacacccgcgtccgggcgcgcgcaggGCCTCAGAGCAGGAAAAGACGGAACAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTCACTTCCAAAGAGCTTgtaaacgatgaccaggatgaccaggctggctggtggttgccttcctttgt Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- ttgctgctggtaactaagtgagatgtacacccgcgtccgggcgcgcgcagGGCCTCAGAGCAGGAAAAGACGGAACAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTCACTTCCAAAGAGCTTgtaaacgatgaccaggatgaccaggctggctggtggttgccttcctttgt Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAGAT- ttgctgctggtaactaagtgagatgtacacccgcgtccgggcgcgcgcagGGCCTCAGAGCAGGAAAAGACGGAACAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTCACTTCCAAAGAGCTTgtaaacgatgaccaggatgaccaggctggctggtggttgccttcctttgt Alignment from Pairagon GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG--- ttgctgctggtaactaagtgagatgtacacccgcgtccgggcgcgcgcagGGCCTCAGAGCAGGAAAAGACGGAACAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTCACTTCCAAAGAGCTTgtaaacgatgaccaggatgaccaggctggctggtggttgccttcctttgt Alignment from Exonerate_protein2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ttgctgctggtaactaagtgagatgtacacccgcgtccgggcgcgcgcagGGCCTCAGAGCAGGAAAAGACGGAACAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTCACTTCCAAAGAGcttgtaaacgatgaccaggatgaccaggctggctggtggttgccttcctttgt Alignment from Exonerate_coding2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ttgctgctggtaactaagtgagatgtacacccgcgtccgggcgcgcgcagGGCCTCAGAGCAGGAAAAGACGGAACAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTCACTTCCAAAGAGcttgtaaacgatgaccaggatgaccaggctggctggtggttgccttcctttgt Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAGATC ttgctgctggtaactaagtgagatgtacacccgcgtccgggcgcgcgcagGGCCTCAGAGCAGGAAAAGACGGAACAGGCAATCCTGGTAGAATTGTGGCAGGTGTTAGATACTAGTGATCTGGAGAGTGTCACTTCCAAAGAGCTTgtaaacgatgaccaggatgaccaggctggctggtggttgccttcctttgt #### Ssh3_ID451_5 --> 1 - 2 Original Alignment t---------TCCCAC---------AGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATgg gcccaggctgcaatgtgctggggaacaaatcagtattttgtttgaactagtCTGGAACCTTGCCACAGCTGCACCAGCTGCACACTAGGTCTTGTCCTGCCCCTCTGGAGTGATACCCAAGTATACCTGGATGGGGATgggtaaggggctcctctctgtaggaacaagagggggttgacaagaatgggta Alignment from CESAR tTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATgg ccagagaaaaagagttaggcccaggctgcaatgtgctggggaagaactagtctggaaccttgccacagcTGCACCAGCTGCACACTAGGTCTTGTCCTGCCCCTCTGGAGTGATACCCAAGTATACCTGGATGGGGATgggtaaggggctcctctctgtaggaacaagagggggttgacaagaatgggta Alignment from Spaln_aa2Genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG gcccaggctgcaatgtgctggggaacaaatcagtattttgtttgaactagtctggaaccttgccacagCTGCACCAGCTGCACACTAGGTCTTGTCCTGCCCCTCTGGAGTGATACCCAAGTATACCTGGATGGGGATGGgtaaggggctcctctctgtaggaacaagagggggttgacaagaatgggta Alignment from Spaln_nt2Genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG gcccaggctgcaatgtgctggggaacaaatcagtattttgtttgaactagtctggaaccttgccacagCTGCACCAGCTGCACACTAGGTCTTGTCCTGCCCCTCTGGAGTGATACCCAAGTATACCTGGATGGGGATGGgtaaggggctcctctctgtaggaacaagagggggttgacaagaatgggta Alignment from Pairagon TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG gcccaggctgcaatgtgctggggaacaaatcagtattttgtttgaactagtctggaaccttgccacagCTGCACCAGCTGCACACTAGGTCTTGTCCTGCCCCTCTGGAGTGATACCCAAGTATACCTGGATGGGGATGGgtaaggggctcctctctgtaggaacaagagggggttgacaagaatgggta Alignment from Exonerate_protein2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG gcccaggctgcaatgtgctggggaacaaatcagtattttgtttgaactagtctggaaccttgccacagCTGCACCAGCTGCACACTAGGTCTTGTCCTGCCCCTCTGGAGTGATACCCAAGTATACCTGGATGGGGATGGgtaaggggctcctctctgtaggaacaagagggggttgacaagaatgggta Alignment from Exonerate_coding2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG gcccaggctgcaatgtgctggggaacaaatcagtattttgtttgaactagtctggaaccttgccacagCTGCACCAGCTGCACACTAGGTCTTGTCCTGCCCCTCTGGAGTGATACCCAAGTATACCTGGATGGGGATGGgtaaggggctcctctctgtaggaacaagagggggttgacaagaatgggta Alignment from GeneWise TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG gcccaggctgcaatgtgctggggaacaaatcagtattttgtttgaactagtctggaaccttgccacagCTGCACCAGCTGCACACTAGGTCTTGTCCTGCCCCTCTGGAGTGATACCCAAGTATACCTGGATGGGGATGGgtaaggggctcctctctgtaggaacaagagggggttgacaagaatgggta #### Stip1_ID1988_13 --> 0 - 2 Original Alignment GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCT------------GAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---ga atgacacatgtagtgttgatgtgcccccattttgtggtttgttttctcagGAAGCAGCAGACGGATACCGACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACG------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGTCCCgagtggggtaaatgggagagagaattttattttcattcaataaacaatttgg Alignment from CESAR GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGAT------------AGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---ga atgacacatgtagtgttgatgtgcccccattttgtggtttgttttctcagGAAGCAGCAGACGGATACCGACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACG------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGTCCCgagtggggtaaatgggagagagaattttattttcattcaataaacaatttgg Alignment from Spaln_aa2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGAA-- atgacacatgtagtgttgatgtgcccccattttgtggtttgttttctcagGAAGCAGCAGACGGATACCGACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACG------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGTCCCGAgtggggtaaatgggagagagaattttattttcattcaataaacaatttgg Alignment from Spaln_nt2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGAC-CCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAG---CGA atgacacatgtagtgttgatgtgcccccattttgtggtttgttttctcagGAAGCAGCAGACGGATACCGACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGA----CAGCCCTGAGGAA---GTGACGCCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGTCCCGAgtggggtaaatgggagagagaattttattttcattcaataaacaatttgg Alignment from Pairagon GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAG------------ACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAG---CGA atgacacatgtagtgttgatgtgcccccattttgtggtttgttttctcagGAAGCAGCAGACGGATACCGACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACG------------------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGTCCCGAgtggggtaaatgggagagagaattttattttcattcaataaacaatttgg Alignment from Exonerate_protein2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---GA atgacacatgtagtgttgatgtgcccccattttgtggtttgttttctcagGAAGCAGCAGACGGATACCGACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAA------GTGACGCCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGTCCCGAgtggggtaaatgggagagagaattttattttcattcaataaacaatttgg Alignment from Exonerate_coding2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---GA atgacacatgtagtgttgatgtgcccccattttgtggtttgttttctcagGAAGCAGCAGACGGATACCGACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAA------GTGACGCCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGTCCCGAgtggggtaaatgggagagagaattttattttcattcaataaacaatttgg Alignment from GeneWise GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGAA-- atgacacatgtagtgttgatgtgcccccattttgtggtttgttttctcagGAAGCAGCAGACGGATACCGACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCACATGACAGCCCTGAGGAAGTGACG------CCTGAGGTTCAGCAAATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGTCCCGAgtggggtaaatgggagagagaattttattttcattcaataaacaatttgg #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gaggattgagggtagtaggaccagcgagcgtttctgcttttctccttcagac---GGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGCAC------CAAAAGGCATTAGACCTGGACTCCAGTTGTAAAgtgagttgctgctagcttatacacacatccctgcttacttcccctaggat Alignment from CESAR tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagaggattgagggtagtaggaccgagcgtttctgcttttctccttcagac---GGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAgtgagttgctgctagcttatacacacatccctgcttacttcccctaggat Alignment from Spaln_aa2Genome AGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gaggattgagggtagtaggaccagcgagcgtttctgcttttctccttcagACGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAgtgagttgctgctagcttatacacacatccctgcttacttcccctaggat Alignment from Spaln_nt2Genome AGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gaggattgagggtagtaggaccagcgagcgtttctgcttttctccttcagACGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCA------TGCACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAgtgagttgctgctagcttatacacacatccctgcttacttcccctaggat Alignment from Pairagon TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gaggattgagggtagtaggaccagcgagcgtttctgcttttctccttcag---ACGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCA------TGCACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAgtgagttgctgctagcttatacacacatccctgcttacttcccctaggat Alignment from Exonerate_protein2genome AGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gaggattgagggtagtaggaccagcgagcgtttctgcttttctccttcagACGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAgtgagttgctgctagcttatacacacatccctgcttacttcccctaggat Alignment from Exonerate_coding2genome AGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gaggattgagggtagtaggaccagcgagcgtttctgcttttctccttcagACGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAgtgagttgctgctagcttatacacacatccctgcttacttcccctaggat Alignment from GeneWise TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG gaggattgagggtagtaggaccagcgagcgtttctgcttttctccttcagAC---GGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAgtgagttgctgctagcttatacacacatccctgcttacttcccctaggat #### Stip1_ID1994_7 --> 2 - 2 Original Alignment ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCaa tctggtttatatatttaactttaaattttggggtttttttgttttacaagct---------GAAAAGGGTGATTATAACGAATGCCGGGAACTCTGTGAGAAGGCTATAGAAGTTGGAAGAGAGAACCGAGAGGACTACCGGCAGATTGCTaagtagaacataaaacccaaatgctaggacttgacgcctttcttgagtgcca Alignment from CESAR ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCaa cttgacttgtctggtttatatatttttttggggtttttttgttttacaagct---------GAAAAGGGTGATTATAACGAATGCCGGGAACTCTGTGAGAAGGCTATAGAAGTTGGAAGAGAGAACCGAGAGGACTACCGGCAGATTGCTaagtagaacataaaacccaaatgctaggacttgacgcctttcttgagtgcca Alignment from Spaln_aa2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA tctggtttatatatttaactttaaattttggggtttttttgttttacaagCT---------GAAAAGGGTGATTATAACGAATGCCGGGAACTCTGTGAGAAGGCTATAGAAGTTGGAAGAGAGAACCGAGAGGACTACCGGCAGATTGCTAAgtagaacataaaacccaaatgctaggacttgacgcctttcttgagtgcca Alignment from Spaln_nt2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA tctggtttatatatttaactttaaattttggggtttttttgttttacaagC---------TGAAAAGGGTGATTATAACGAATGCCGGGAACTCTGTGAGAAGGCTATAGAAGTTGGAAGAGAGAACCGAGAGGACTACCGGCAGATTGCTAAgtagaacataaaacccaaatgctaggacttgacgcctttcttgagtgcca Alignment from Pairagon CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA tctggtttatatatttaactttaaattttggggtttttttgttttacaagC---------TGAAAAGGGTGATTATAACGAATGCCGGGAACTCTGTGAGAAGGCTATAGAAGTTGGAAGAGAGAACCGAGAGGACTACCGGCAGATTGCTAAgtagaacataaaacccaaatgctaggacttgacgcctttcttgagtgcca Alignment from Exonerate_protein2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA tctggtttatatatttaactttaaattttggggtttttttgTTTTACAAGCTGAAAAGGGTGATTATAACGAATGCCGGGAACTCTGTGAGAAGGCTATAGAAGTTGGAAGAGAGAACCGAGAGGACTACCGGCAGATTGCTAAgtagaacataaaacccaaatgctaggacttgacgcctttcttgagtgcca Alignment from Exonerate_coding2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA tctggtttatatatttaactttaaattttggggtttttttgTTTTACAAGCTGAAAAGGGTGATTATAACGAATGCCGGGAACTCTGTGAGAAGGCTATAGAAGTTGGAAGAGAGAACCGAGAGGACTACCGGCAGATTGCTAAgtagaacataaaacccaaatgctaggacttgacgcctttcttgagtgcca Alignment from GeneWise CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA tctggtttatatatttaactttaaattttggggtttttttgttttacaagCT---------GAAAAGGGTGATTATAACGAATGCCGGGAACTCTGTGAGAAGGCTATAGAAGTTGGAAGAGAGAACCGAGAGGACTACCGGCAGATTGCTAAgtagaacataaaacccaaatgctaggacttgacgcctttcttgagtgcca #### Stx5a_ID2331_3 --> 1 - 1 Original Alignment gCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCt gtaaggtcatggcatctgcatccaggatttttctcctttctctaatctagg------GGGAAAGATCTGAGTAATACGTTTGCCAAACTGGAGAAGTTAACAATCtgtaagtatctgagaggcctttccaggtgagtcttaaaaccctgcacccta Alignment from CESAR gCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCt aaatttgtaaggtcatggcatctgcgatttttctcctttctctaatctagg------GGGAAAGATCTGAGTAATACGTTTGCCAAACTGGAGAAGTTAACAATCtgtaagtatctgagaggcctttccaggtgagtcttaaaaccctgcacccta Alignment from Spaln_aa2Genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT gtaaggtcatggcatctgcatccaggatttttctcctttctctaatctagG------GGGAAAGATCTGAGTAATACGTTTGCCAAACTGGAGAAGTTAACAATCTgtaagtatctgagaggcctttccaggtgagtcttaaaaccctgcacccta Alignment from Spaln_nt2Genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT gtaaggtcatggcatctgcatccaggatttttctcctttctctaatctagG------GGGAAAGATCTGAGTAATACGTTTGCCAAACTGGAGAAGTTAACAATCTgtaagtatctgagaggcctttccaggtgagtcttaaaaccctgcacccta Alignment from Pairagon GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT gtaaggtcatggcatctgcatccaggatttttctcctttctctaatctagG------GGGAAAGATCTGAGTAATACGTTTGCCAAACTGGAGAAGTTAACAATCTgtaagtatctgagaggcctttccaggtgagtcttaaaaccctgcacccta Alignment from Exonerate_protein2genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT gtaaggtcatggcatctgcatccaggatttttctcctttctctaATCTAGGGGGAAAGATCTGAGTAATACGTTTGCCAAACTGGAGAAGTTAACAATCTgtaagtatctgagaggcctttccaggtgagtcttaaaaccctgcacccta Alignment from Exonerate_coding2genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT gtaaggtcatggcatctgcatccaggatttttctcctttctctaATCTAGGGGGAAAGATCTGAGTAATACGTTTGCCAAACTGGAGAAGTTAACAATCTgtaagtatctgagaggcctttccaggtgagtcttaaaaccctgcacccta Alignment from GeneWise GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT gtaaggtcatggcatctgcatccaggatttttctcctttctctaatctagG------GGGAAAGATCTGAGTAATACGTTTGCCAAACTGGAGAAGTTAACAATCTgtaagtatctgagaggcctttccaggtgagtcttaaaaccctgcacccta #### Stx5a_ID2334_6 --> 0 - 0 Original Alignment TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG gggggggaaagcaaaataaattctctgttttatgatgctgttgtttttagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGG------gtaagcatccgcgggataagtagtagggttaaggagtttttgtagggtac Alignment from CESAR TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG gggggggaaagcaaaataaattctctgttttatgatgctgttgtttttagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGG------gtaagcatccgcgggataagtagtagggttaaggagtttttgta Alignment from Spaln_aa2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGG gggggggaaagcaaaataaattctctgttttatgatgctgttgtttttagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGgtaagcatccgcgggataagtagtagggttaaggagtttttgtagggtac Alignment from Spaln_nt2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGG gggggggaaagcaaaataaattctctgttttatgatgctgttgtttttagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGgtaagcatccgcgggataagtagtagggttaaggagtttttgtagggtac Alignment from Pairagon TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGG gggggggaaagcaaaataaattctctgttttatgatgctgttgtttttagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGgtaagcatccgcgggataagtagtagggttaaggagtttttgtagggtac Alignment from Exonerate_protein2genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG gggggggaaagcaaaataaattctctgttttatgatgctgttgtttttagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGGTAAGCatccgcgggataagtagtagggttaaggagtttttgtagggtac Alignment from Exonerate_coding2genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG gggggggaaagcaaaataaattctctgttttatgatgctgttgtttttagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGGTAAGCatccgcgggataagtagtagggttaaggagtttttgtagggtac Alignment from GeneWise TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG gggggggaaagcaaaataaattctctgttttatgatgctgttgtttttagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTG------AGGgtaagcatccgcgggataagtagtagggttaaggagtttttgtagggtac #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG ctcaaaacaatccatggtggatgggctggattctcttggtttatttgtag---------------------GTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCACCAGAGATGGAGgtgcttgaaaggcagggttcagggcaaggtgtctgaatgctgtttcatga Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggtaatttgacagtaacctcactggattctcttggtttatttgtag---------------------GTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCACCAGAGATGGAGgtgcttgaaaggcagggttcagggcaaggtgtctgaatgctgtttcatgc Alignment from Spaln_aa2Genome GTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG ctcaaaacaatccatggtggatgggctggattctcttggtttatttgtagGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCACCAGAGATGGAGgtgcttgaaaggcagggttcagggcaaggtgtctgaatgctgtttcatga Alignment from Spaln_nt2Genome GTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG ctcaaaacaatccatggtggatgggctggattctcttggtttatttgtagGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCACCAGAGATGGAGgtgcttgaaaggcagggttcagggcaaggtgtctgaatgctgtttcatga Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG ctcaaaacaatccatggtggatgggctggattctcttggtttatttgtag---------------------GTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCACCAGAGATGGAGgtgcttgaaaggcagggttcagggcaaggtgtctgaatgctgtttcatga Alignment from Exonerate_protein2genome GTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG ctcaaaacaatccatggtggatgggctggattctcttggtttatttgtagGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCACCAGAGATGGAGgtgcttgaaaggcagggttcagggcaaggtgtctgaatgctgtttcatga Alignment from Exonerate_coding2genome GTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG ctcaaaacaatccatggtggatgggctggattctcttggtttatttgtagGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCACCAGAGATGGAGgtgcttgaaaggcagggttcagggcaaggtgtctgaatgctgtttcatga Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG ctcaaaacaatccatggtggatgggctggattctcttggtttatttgtagGTCCTT---------------------GTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCACCAGAGATGGAGgtgcttgaaaggcagggttcagggcaaggtgtctgaatgctgtttcatga #### Syvn1_ID1384_3 --> 0 - 0 Original Alignment CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gggcaaggtgtctgaatgctgtttcatgcttgctgccctccaaccctcagCACCTCCTGGAACGGTCCTGGTATGCTGTTACTGAAACTTGTTTGGCCTTTACTGTTATTCGAGACGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAATGTTTCCAGTGGCTAGCTGAAGACCAT---------gtagtctcatattgataggatttgctgatgaacatgtgggtgtatcgtgc Alignment from CESAR CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gggcaaggtgtctgaatgctgtttcatgcttgctgccctccaaccctcagCACCTCCTGGAACGGTCCTGGTATGCTGTTACTGAAACTTGTTTGGCCTTTACTGTTATTCGAGACGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAATGTTTCCAGTGGCTAGCTGAAGACCAT---------gtagtctcatattgataggatttgctgatgaacatgtgggt Alignment from Spaln_aa2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTG gggcaaggtgtctgaatgctgtttcatgcttgctgccctccaaccctcagCACCTCCTGGAACGGTCCTGGTATGCTGTTACTGAAACTTGTTTGGCCTTTACTGTTATTCGAGACGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAATGTTTCCAGTGGCTAGCTGAAGACCATGTAgtctcatattgataggatttgctgatgaacatgtgggtgtatcgtgc Alignment from Spaln_nt2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTG gggcaaggtgtctgaatgctgtttcatgcttgctgccctccaaccctcagCACCTCCTGGAACGGTCCTGGTATGCTGTTACTGAAACTTGTTTGGCCTTTACTGTTATTCGAGACGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAATGTTTCCAGTGGCTAGCTGAAGACCATGTAgtctcatattgataggatttgctgatgaacatgtgggtgtatcgtgc Alignment from Pairagon CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGT gggcaaggtgtctgaatgctgtttcatgcttgctgccctccaaccctcagCACCTCCTGGAACGGTCCTGGTATGCTGTTACTGAAACTTGTTTGGCCTTTACTGTTATTCGAGACGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAATGTTTCCAGTGGCTAGCTGAAGACCATgtagtctcatattgataggatttgctgatgaacatgtgggtgtatcgtgc Alignment from Exonerate_protein2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGT gggcaaggtgtctgaatgctgtttcatgcttgctgccctccaaccctcagCACCTCCTGGAACGGTCCTGGTATGCTGTTACTGAAACTTGTTTGGCCTTTACTGTTATTCGAGACGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAATGTTTCCAGTGGCTAGCTGAAGACCATgtagtctcatattgataggatttgctgatgaacatgtgggtgtatcgtgc Alignment from Exonerate_coding2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGT gggcaaggtgtctgaatgctgtttcatgcttgctgccctccaaccctcagCACCTCCTGGAACGGTCCTGGTATGCTGTTACTGAAACTTGTTTGGCCTTTACTGTTATTCGAGACGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAATGTTTCCAGTGGCTAGCTGAAGACCATgtagtctcatattgataggatttgctgatgaacatgtgggtgtatcgtgc Alignment from GeneWise CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gggcaaggtgtctgaatgctgtttcatgcttgctgccctccaaccctcagCACCTCCTGGAACGGTCCTGGTATGCTGTTACTGAAACTTGTTTGGCCTTTACTGTTATTCGAGACGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAATGTTTCCAGTGGCTAGCTGAAGACCAT------GTAgtctcatattgataggatttgctgatgaacatgtgggtgta #### Syvn1_ID1385_4 --> 0 - 1 Original Alignment ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCt ggtgtatcgtgtgggacctttcacaccttgaagtgctatgtgtttttcag---------AGCCCCAACATTTCCTGGCTCTTCCACTGCCGGATTGTCtgtatcggaaacttgatacattagaggggtgtgtatagtctgtttgagggt Alignment from CESAR ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCt gaacatgtgggtgtatcgtgtgggaccttgaagtgctatgtgtttttcag---------AGCCCCAACATTTCCTGGCTCTTCCACTGCCGGATTGTCtgtatcggaaacttgatacattagaggggtgtgtatagtctgtttgagggt Alignment from Spaln_aa2Genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggtgtatcgtgtgggacctttcacaccttgaagtgctatgtgtttttcag---------AGCCCCAACATTTCCTGGCTCTTCCACTGCCGGATTGTCTgtatcggaaacttgatacattagaggggtgtgtatagtctgtttgagggt Alignment from Spaln_nt2Genome AGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggtgtatcgtgtgggacctttcacaccttgaagtgctatgtgtttttcagAGCCCCAACATTTCCTGGCTCTTCCACTGCCGGATTGTCTgtatcggaaacttgatacattagaggggtgtgtatagtctgtttgagggt Alignment from Pairagon ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggtgtatcgtgtgggacctttcacaccttgaagtgctatgtgtttttcag---------AGCCCCAACATTTCCTGGCTCTTCCACTGCCGGATTGTCTgtatcggaaacttgatacattagaggggtgtgtatagtctgtttgagggt Alignment from Exonerate_protein2genome AGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggtgtatcgtgtgggacctttcacaccttgaagtgctatgtgtttttcagAGCCCCAACATTTCCTGGCTCTTCCACTGCCGGATTGTCTgtatcggaaacttgatacattagaggggtgtgtatagtctgtttgagggt Alignment from Exonerate_coding2genome AGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggtgtatcgtgtgggacctttcacaccttgaagtgctatgtgtttttcagAGCCCCAACATTTCCTGGCTCTTCCACTGCCGGATTGTCTgtatcggaaacttgatacattagaggggtgtgtatagtctgtttgagggt Alignment from GeneWise ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggtgtatcgtgtgggacctttcacaccttgaagtgctatgtgtttttcagAGC---------CCCAACATTTCCTGGCTCTTCCACTGCCGGATTGTCTgtatcggaaacttgatacattagaggggtgtgtatagtctgtttgagggt #### Syvn1_ID1386_5 --> 2 - 0 Original Alignment ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcagaccagtggaggctttgagtgcgtgccccttccacacagctCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT---gtatgtagtctgacctatggaatggtgacctatgtgtgctttgagtccct Alignment from CESAR ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcagaccagtggaggctttgagtgcgtgccccttccacacagctCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT---gtatgtagtctgacctatggaatggtgacctatgtgtgctttgagtc Alignment from Spaln_aa2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT tcaggccgtcagaccagtggaggctttgagtgcgtgccccttccacacagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTgtatgtagtctgacctatggaatggtgacctatgtgtgctttgagtccct Alignment from Spaln_nt2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTG-AG tcaggccgtcagaccagtggaggctttgagtgcgtgccccttccacacagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTATgtagtctgacctatggaatggtgacctatgtgtgctttgagtccct Alignment from Pairagon CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT tcaggccgtcagaccagtggaggctttgagtgcgtgccccttccacacagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTgtatgtagtctgacctatggaatggtgacctatgtgtgctttgagtccct Alignment from Exonerate_protein2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcagaccagtggaggctttgagtgcgtgccccttccacacagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT---gtatgtagtctgacctatggaatggtgacctatgtgtgctttgagtc Alignment from Exonerate_coding2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcagaccagtggaggctttgagtgcgtgccccttccacacagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT---gtatgtagtctgacctatggaatggtgacctatgtgtgctttgagtc Alignment from GeneWise CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTT tcaggccgtcagaccagtggaggctttgagtgcgtgccccttccacacagCTCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTgtatgtagtctgacctatggaatggtgacctatgtgtgctttgagtccct #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG------ag ggtgtatctgccagccctgcagttggcttctttgttttactaaaaaataggcTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGGTTCGGaggtaagatgggccttgtctttgtcactccgatattcgtcttcatgtcacac Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG------ag ggtgtatctgccagccctgcagttggcttctttgttttactaaaaaataggcTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGGTTCGGaggtaagatgggccttgtctttgtcactccgatattcgtcttcatgtcacac Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAGG----- ggtgtatctgccagccctgcagttggcttctttgttttactaaaaaatagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGGTTCGGAGgtaagatgggccttgtctttgtcactccgatattcgtcttcatgtcacac Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG------AG ggtgtatctgccagccctgcagttggcttctttgttttactaaaaaatagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGGTTCGGAGgtaagatgggccttgtctttgtcactccgatattcgtcttcatgtcacac Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG---------------------------------------------------------- ggtgtatctgccagccctgcagttggcttctttgttttactaaaaaatagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGGTTCGGAGGTAAGATGGGCCTTGTCTTTGTCACTCCGATATTCGTCTTCATGTCACAC Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG------AG ggtgtatctgccagccctgcagttggcttctttgttttactaaaaaatagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGGTTCGGAGgtaagatgggccttgtctttgtcactccgatattcgtcttcatgtcacac Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG------AG ggtgtatctgccagccctgcagttggcttctttgttttactaaaaaatagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGGTTCGGAGgtaagatgggccttgtctttgtcactccgatattcgtcttcatgtcacac Alignment from GeneWise GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAGGCAG-- ggtgtatctgccagccctgcagttggcttctttgttttactaaaaaatagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGGTTCGGAGgtaagatgggccttgtctttgtcactccgatattcgtcttcatgtcacac #### Syvn1_ID1392_11 --> 2 - 1 Original Alignment tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACA------g gtggtactgacagctgagctttgttctcgcttaccagaccctctctgcagtcCCCCAGGGCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCAAGTTCTGGAAAGGCTGCTGCGGCTCCACCCACCAGTACAGTGGCCggtgagctctgtgcatgccagggtagatagtggtggccagcaacatctgga Alignment from CESAR tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACA------g gtggtactgacagctgagctttgttctcgcttaccagaccctctctgcagtcCCCCAGGGCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCAAGTTCTGGAAAGGCTGCTGCGGCTCCACCCACCAGTACAGTGGCCggtgagctctgtgcatgccagggtagatagtggtggccagcaacatctgga Alignment from Spaln_aa2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACA------G gtggtactgacagctgagctttgttctcgcttaccagaccctctctgcagTCCCCCAGGGCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCAAGTTCTGGAAAGGCTGCTGCGGCTCCACCCACCAGTACAGTGGCCGgtgagctctgtgcatgccagggtagatagtggtggccagcaacatctgga Alignment from Spaln_nt2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG------ gtggtactgacagctgagctttgttctcgcttaccagaccctctctgcagTCCCCCAGGGCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCAAGTTCTGGAAAGGCTGCTGCGGCTCCACCCACCAGTACAGTGGCCGgtgagctctgtgcatgccagggtagatagtggtggccagcaacatctgga Alignment from Pairagon TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGT------------------------------------------------------------ gtggtactgacagctgagctttgttctcgcttaccagaccctctctgcagTCCCCCAGGGCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCAAGTTCTGGAAAGGCTGCTGCGGCTCCACCCACCAGTACAGTGGCCGGTGAGCTCTGTGCATGCCAGGGTAGATAGTGGTGGCCAGCAACATCTGGA Alignment from Exonerate_protein2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG gtggtactgacagctgagctttgttctcgcttaccagaccctctctgcagTCCCCCAGGGCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCAAGTTCTGGAAAGGCTGCTGCGGCTCCACCCACCAGTACAGtggccggtgagctctgtgcatgccagggtagatagtggtggccagcaacatctgga Alignment from Exonerate_coding2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG gtggtactgacagctgagctttgttctcgcttaccagaccctctctgcagTCCCCCAGGGCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCAAGTTCTGGAAAGGCTGCTGCGGCTCCACCCACCAGTACAGtggccggtgagctctgtgcatgccagggtagatagtggtggccagcaacatctgga Alignment from GeneWise TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAGCCGTT- gtggtactgacagctgagctttgttctcgcttaccagaccctctctgcagTCCCCCAGGGCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCAAGTTCTGGAAAGGCTGCTGCGGCTCCACCCACCAGTACAGTGGCCGgtgagctctgtgcatgccagggtagatagtggtggccagcaacatctgga #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg ttgatccactcccaatttacctctgatccttgttccgtggccctccttagct------CAGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCCGGCCCAGAGGCTGGTCCTGCCCCTGACTTCCCTTTCCCCCCTCCCTGGATGGGTATGCCTCTACCTCCACCATTTggtaagatgcccatcacctaccctcttggacatgatgtggaatactgaggc Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg aggtaattgatccactcccaatttaatccttgttccgtggccctccttagct------CAGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCCGGCCCAGAGGCTGGTCCTGCCCCTGACTTCCCTTTCCCCCCTCCCTGGATGGGTATGCCTCTACCTCCACCATTTggtaagatgcccatcacctaccctcttggacatgatgtggaatactgaggc Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG ttgatccactcccaatttacctctgatccttgttccgtggccctccttagCT------CAGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCCGGCCCAGAGGCTGGTCCTGCCCCTGACTTCCCTTTCCCCCCTCCCTGGATGGGTATGCCTCTACCTCCACCATTTGgtaagatgcccatcacctaccctcttggacatgatgtggaatactgaggc Alignment from Spaln_nt2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG ttgatccactcccaatttacctctgatccttgttccgtggccctccttag------CTCAGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCCGGCCCAGAGGCTGGTCCTGCCCCTGACTTCCCTTTCCCCCCTCCCTGGATGGGTATGCCTCTACCTCCACCATTTGgtaagatgcccatcacctaccctcttggacatgatgtggaatactgaggc Alignment from Pairagon CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG ttgatccactcccaatttacctctgatccttgttccgtggccctccttag------CTCAGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCCGGCCCAGAGGCTGGTCCTGCCCCTGACTTCCCTTTCCCCCCTCCCTGGATGGGTATGCCTCTACCTCCACCATTTGgtaagatgcccatcacctaccctcttggacatgatgtggaatactgaggc Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG ttgatccactcccaatttacctctgatccttgttccgtggccctCCTTAGCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCCGGCCCAGAGGCTGGTCCTGCCCCTGACTTCCCTTTCCCCCCTCCCTGGATGGGTATGCCTCTACCTCCACCATTTGgtaagatgcccatcacctaccctcttggacatgatgtggaatactgaggc Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG ttgatccactcccaatttacctctgatccttgttccgtggccctCCTTAGCTCAGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCCGGCCCAGAGGCTGGTCCTGCCCCTGACTTCCCTTTCCCCCCTCCCTGGATGGGTATGCCTCTACCTCCACCATTTGgtaagatgcccatcacctaccctcttggacatgatgtggaatactgaggc Alignment from GeneWise CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG ttgatccactcccaatttacctctgatccttgttccgtggccctccttagCT------CAGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCCGGCCCAGAGGCTGGTCCTGCCCCTGACTTCCCTTTCCCCCCTCCCTGGATGGGTATGCCTCTACCTCCACCATTTGgtaagatgcccatcacctaccctcttggacatgatgtggaatactgaggc #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTG------gg gatgtggaatactgaggcccaggtagctctagcagcctacctttttacagccTTCCCCCCAATGCCAGTGCCACCTGCAGGATTTGCTGGTCTAACGCCGGAGGAGTTGCGAGCACTAGAAGGCCATGAGCGGCAAGACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCCTCCCTGAATGCCgggtaatcaagtatattcaattgcacattctcctgtaaccagaccacctatc Alignment from CESAR ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTG------gg gatgtggaatactgaggcccaggtagctctagcagcctacctttttacagccTTCCCCCCAATGCCAGTGCCACCTGCAGGATTTGCTGGTCTAACGCCGGAGGAGTTGCGAGCACTAGAAGGCCATGAGCGGCAAGACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCCTCCCTGAATGCCgggtaatcaagtatattcaattgcacattctcctgtaaccagaccacctatc Alignment from Spaln_aa2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGGG----- gatgtggaatactgaggcccaggtagctctagcagcctacctttttacagCCTTCCCCCCAATGCCAGTGCCACCTGCAGGATTTGCTGGTCTAACGCCGGAGGAGTTGCGAGCACTAGAAGGCCATGAGCGGCAAGACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCCTCCCTGAATGCCGGgtaatcaagtatattcaattgcacattctcctgtaaccagaccacctatc Alignment from Spaln_nt2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTG------GG gatgtggaatactgaggcccaggtagctctagcagcctacctttttacagCCTTCCCCCCAATGCCAGTGCCACCTGCAGGATTTGCTGGTCTAACGCCGGAGGAGTTGCGAGCACTAGAAGGCCATGAGCGGCAAGACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCCTCCCTGAATGCCGGgtaatcaagtatattcaattgcacattctcctgtaaccagaccacctatc Alignment from Pairagon CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTG------GG gatgtggaatactgaggcccaggtagctctagcagcctacctttttacagCCTTCCCCCCAATGCCAGTGCCACCTGCAGGATTTGCTGGTCTAACGCCGGAGGAGTTGCGAGCACTAGAAGGCCATGAGCGGCAAGACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCCTCCCTGAATGCCGGgtaatcaagtatattcaattgcacattctcctgtaaccagaccacctatc Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTG------GG gatgtggaatactgaggcccaggtagctctagcagcctacctttttacagCCTTCCCCCCAATGCCAGTGCCACCTGCAGGATTTGCTGGTCTAACGCCGGAGGAGTTGCGAGCACTAGAAGGCCATGAGCGGCAAGACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCCTCCCTGAATGCCGGgtaatcaagtatattcaattgcacattctcctgtaaccagaccacctatc Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTG------GG gatgtggaatactgaggcccaggtagctctagcagcctacctttttacagCCTTCCCCCCAATGCCAGTGCCACCTGCAGGATTTGCTGGTCTAACGCCGGAGGAGTTGCGAGCACTAGAAGGCCATGAGCGGCAAGACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCCTCCCTGAATGCCGGgtaatcaagtatattcaattgcacattctcctgtaaccagaccacctatc Alignment from GeneWise CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTG------GG gatgtggaatactgaggcccaggtagctctagcagcctacctttttacagCCTTCCCCCCAATGCCAGTGCCACCTGCAGGATTTGCTGGTCTAACGCCGGAGGAGTTGCGAGCACTAGAAGGCCATGAGCGGCAAGACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCCTCCCTGAATGCCGGgtaatcaagtatattcaattgcacattctcctgtaaccagaccacctatc #### Syvn1_ID1395_14 --> 1 - 1 Original Alignment gCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCT---g cagcaatcccagaaggccaaggttgggacccgtgtgtttatcctccacaggCCCCCAAGGCCAGCCACCTCTGTGAACCACACTGAAGAAACTGCATCTACTGTGGTATCTGCTGCACCTTCCAGTAGTGCTCCAAGCTCCGAGGCTCCAACTCCCTCCCCGGGAGCATCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTAAAggtaagttagaagaagaataggcctgcacaatctaggtggcattatggctt Alignment from CESAR gCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCT---g cagcaatcccagaaggccaaggttgggacccgtgtgtttatcctccacaggCCCCCAAGGCCAGCCACCTCTGTGAACCACACTGAAGAAACTGCATCTACTGTGGTATCTGCTGCACCTTCCAGTAGTGCTCCAAGCTCCGAGGCTCCAACTCCCTCCCCGGGAGCATCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTAAAggtaagttagaagaagaataggcctgcacaatctaggtggcattatggctt Alignment from Spaln_aa2Genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCT---G cagcaatcccagaaggccaaggttgggacccgtgtgtttatcctccacagGCCCCCAAGGCCAGCCACCTCTGTGAACCACACTGAAGAAACTGCATCTACTGTGGTATCTGCTGCACCTTCCAGTAGTGCTCCAAGCTCCGAGGCTCCAACTCCCTCCCCGGGAGCATCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTAAAGgtaagttagaagaagaataggcctgcacaatctaggtggcattatggctt Alignment from Spaln_nt2Genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCT---G cagcaatcccagaaggccaaggttgggacccgtgtgtttatcctccacagGCCCCCAAGGCCAGCCACCTCTGTGAACCACACTGAAGAAACTGCATCTACTGTGGTATCTGCTGCACCTTCCAGTAGTGCTCCAAGCTCCGAGGCTCCAACTCCCTCCCCGGGAGCATCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTAAAGgtaagttagaagaagaataggcctgcacaatctaggtggcattatggctt Alignment from Pairagon GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCT---G cagcaatcccagaaggccaaggttgggacccgtgtgtttatcctccacagGCCCCCAAGGCCAGCCACCTCTGTGAACCACACTGAAGAAACTGCATCTACTGTGGTATCTGCTGCACCTTCCAGTAGTGCTCCAAGCTCCGAGGCTCCAACTCCCTCCCCGGGAGCATCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTAAAGgtaagttagaagaagaataggcctgcacaatctaggtggcattatggctt Alignment from Exonerate_protein2genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCT---G cagcaatcccagaaggccaaggttgggacccgtgtgtttatcctccacagGCCCCCAAGGCCAGCCACCTCTGTGAACCACACTGAAGAAACTGCATCTACTGTGGTATCTGCTGCACCTTCCAGTAGTGCTCCAAGCTCCGAGGCTCCAACTCCCTCCCCGGGAGCATCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTAAAGgtaagttagaagaagaataggcctgcacaatctaggtggcattatggctt Alignment from Exonerate_coding2genome GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCT---G cagcaatcccagaaggccaaggttgggacccgtgtgtttatcctccacagGCCCCCAAGGCCAGCCACCTCTGTGAACCACACTGAAGAAACTGCATCTACTGTGGTATCTGCTGCACCTTCCAGTAGTGCTCCAAGCTCCGAGGCTCCAACTCCCTCCCCGGGAGCATCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTAAAGgtaagttagaagaagaataggcctgcacaatctaggtggcattatggctt Alignment from GeneWise GCCCCCCAGGCCAGCTACTTCAGTGAACCCCACTGAAGAGACTGCCTCTACAGTGGTATCTGCTGCCCCTTCCACCAGCGCCCCCAGCTCTGAGGCTCCTACCCCGTCTCCGGGAGCTTCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTGCT- cagcaatcccagaaggccaaggttgggacccgtgtgtttatcctccacagGCCCCCAAGGCCAGCCACCTCTGTGAACCACACTGAAGAAACTGCATCTACTGTGGTATCTGCTGCACCTTCCAGTAGTGCTCCAAGCTCCGAGGCTCCAACTCCCTCCCCGGGAGCATCCCCACCAATTCCTGAAGCAGAAAAGCCTCCTAAAGgtaagttagaagaagaataggcctgcacaatctaggtggcattatggctt #### Taf5_ID10096_4 --> 0 - 2 Original Alignment ------GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACag caatgagcaaaccgaaaacagtttaggaaaaatacttttatatcttacagTGTGTCGTGTTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCGAATGCCCCACCTCAAAACaggtatgtagtatataaaggttaaagctatggcgggaggactgaagtgggtc Alignment from CESAR ------GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACag caatgagcaaaccgaaaacagtttaggaaaaatacttttatatcttacagTGTGTCGTGTTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCGAATGCCCCACCTCAAAACaggtatgtagtatataaaggttaaagctatggcgggaggactgaagtgggtc Alignment from Spaln_aa2Genome GTATTTTTTGGT------TTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG caatgagcaaaccgaaaacagtttaggaaaaatacttttatatcttacagTGTGTCGTGTTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCGAATGCCCCACCTCAAAACAGgtatgtagtatataaaggttaaagctatggcgggaggactgaagtgggtc Alignment from Spaln_nt2Genome GTATTTTTTGGTTT------ACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG caatgagcaaaccgaaaacagtttaggaaaaatacttttatatcttacagTGTGTCGTGTTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCGAATGCCCCACCTCAAAACAGgtatgtagtatataaaggttaaagctatggcgggaggactgaagtgggtc Alignment from Pairagon ------GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG caatgagcaaaccgaaaacagtttaggaaaaatacttttatatcttacagTGTGTCGTGTTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCGAATGCCCCACCTCAAAACAGgtatgtagtatataaaggttaaagctatggcgggaggactgaagtgggtc Alignment from Exonerate_protein2genome ------GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG caatgagcaaaccgaaaacagtttaggaaaaatacttttatatcttacagTGTGTCGTGTTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCGAATGCCCCACCTCAAAACAGgtatgtagtatataaaggttaaagctatggcgggaggactgaagtgggtc Alignment from Exonerate_coding2genome ------GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG caatgagcaaaccgaaaacagtttaggaaaaatacttttatatcttacagTGTGTCGTGTTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCGAATGCCCCACCTCAAAACAGgtatgtagtatataaaggttaaagctatggcgggaggactgaagtgggtc Alignment from GeneWise ------GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG caatgagcaaaccgaaaacagtttaggaaaaatacttttatatcttacagTGTGTCGTGTTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCGAATGCCCCACCTCAAAACAGgtatgtagtatataaaggttaaagctatggcgggaggactgaagtgggtc #### Tbc1d10c_ID399_5 --> 1 - 0 Original Alignment gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG------ agatgggaggatgccagggtggctagatattcccatctccgcccttccaggCAGCAGGGGCTACTGCAGGTTATGAAAGCTTACAACCTACACCGCCCAGAACAAGGATATTGTCACTGTCAGGCCCAGGGACCTGTAGCTGCTGTGCTTCTCATGCATCTACCACCAGAGATTGATgttagtaaccctggacctgatctgagaccctcaatccctaatgatgcaca Alignment from CESAR gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC------CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG------ agatgggaggatgccagggtggctagatattcccatctccgcccttccaggCAGCAGGGGCTACTGCAGGTTATGAAAGCTTACAACCTACACCGCCCAGAACAAGGATATTGTCACTGTCAGGCCCAGGGACCTGTAGCTGCTGTGCTTCTCATGCATCTACCACCAGAGATTGATgttagtaaccctggacctgatctgagaccctcaatccctaatgatgcaca Alignment from Spaln_aa2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG------ agatgggaggatgccagggtggctagatattcccatctccgcccttccagGCAGCAGGGGCTACTGCAGGTTATGAAAGCTTACAACCTACACCGCCCAGAACAAGGATATTGTCACTGTCAGGCCCAGGGACCTGTAGCTGCTGTGCTTCTCATGCATCTACCACCAGAGATTGATgttagtaaccctggacctgatctgagaccctcaatccctaatgatgcaca Alignment from Spaln_nt2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATA------CTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG------ agatgggaggatgccagggtggctagatattcccatctccgcccttccagGCAGCAGGGGCTACTGCAGGTTATGAAAGCTTACAACCTACACCGCCCAGAACAAGGATATTGTCACTGTCAGGCCCAGGGACCTGTAGCTGCTGTGCTTCTCATGCATCTACCACCAGAGATTGATgttagtaaccctggacctgatctgagaccctcaatccctaatgatgcaca Alignment from Pairagon GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGAT------ACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG------ agatgggaggatgccagggtggctagatattcccatctccgcccttccagGCAGCAGGGGCTACTGCAGGTTATGAAAGCTTACAACCTACACCGCCCAGAACAAGGATATTGTCACTGTCAGGCCCAGGGACCTGTAGCTGCTGTGCTTCTCATGCATCTACCACCAGAGATTGATgttagtaaccctggacctgatctgagaccctcaatccctaatgatgcaca Alignment from Exonerate_protein2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG agatgggaggatgccagggtggctagatattcccatctccgcccttccagGCAGCAGGGGCTACTGCAGGTTATGAAAGCTTACAACCTACACCGCCCAGAACAAGGATATTGTCACTGTCAGGCCCAGGGACCTGTAGCTGCTGTGCTTCTCATGCATCTACCACCAGAGattgatgttagtaaccctggacctgatctgagaccctcaatccctaatgatgcaca Alignment from Exonerate_coding2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG agatgggaggatgccagggtggctagatattcccatctccgcccttccagGCAGCAGGGGCTACTGCAGGTTATGAAAGCTTACAACCTACACCGCCCAGAACAAGGATATTGTCACTGTCAGGCCCAGGGACCTGTAGCTGCTGTGCTTCTCATGCATCTACCACCAGAGattgatgttagtaaccctggacctgatctgagaccctcaatccctaatgatgcaca Alignment from GeneWise GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGC------CAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG------ agatgggaggatgccagggtggctagatattcccatctccgcccttccagGCAGCAGGGGCTACTGCAGGTTATGAAAGCTTACAACCTACACCGCCCAGAACAAGGATATTGTCACTGTCAGGCCCAGGGACCTGTAGCTGCTGTGCTTCTCATGCATCTACCACCAGAGATTGATgttagtaaccctggacctgatctgagaccctcaatccctaatgatgcaca #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment ---GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG cagagtgtgagagcagaggaacccctgaatcaaagcctctctcccaccagATCGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTGTGTGGCGCCCGGATGTGTCAGAAGAATAACCCTGGCACATATCAGgtaaggaagctaggaggtgcccttcaagaagtctatttatggagagcacc Alignment from CESAR ---GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG cagagtgtgagagcagaggaacccctgaatcaaagcctctctcccaccagATCGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTGTGTGGCGCCCGGATGTGTCAGAAGAATAACCCTGGCACATATCAGgtaaggaagctaggaggtgcccttcaagaagtctatttatggagagcacc Alignment from Spaln_aa2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG cagagtgtgagagcagaggaacccctgaatcaaagcctctctcccaccagATCGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTGTGTGGCGCCCGGATGTGTCAGAAGAATAACCCTGGCACATATCAGgtaaggaagctaggaggtgcccttcaagaagtctatttatggagagcacc Alignment from Spaln_nt2Genome GTAAAGATCCAGTGC---CGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG cagagtgtgagagcagaggaacccctgaatcaaagcctctctcccaccagATCGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTGTGTGGCGCCCGGATGTGTCAGAAGAATAACCCTGGCACATATCAGgtaaggaagctaggaggtgcccttcaagaagtctatttatggagagcacc Alignment from Pairagon ---GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG cagagtgtgagagcagaggaacccctgaatcaaagcctctctcccaccagATCGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTGTGTGGCGCCCGGATGTGTCAGAAGAATAACCCTGGCACATATCAGgtaaggaagctaggaggtgcccttcaagaagtctatttatggagagcacc Alignment from Exonerate_protein2genome ---GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG cagagtgtgagagcagaggaacccctgaatcaaagcctctctcccaccagATCGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTGTGTGGCGCCCGGATGTGTCAGAAGAATAACCCTGGCACATATCAGgtaaggaagctaggaggtgcccttcaagaagtctatttatggagagcacc Alignment from Exonerate_coding2genome ---GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG cagagtgtgagagcagaggaacccctgaatcaaagcctctctcccaccagATCGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTGTGTGGCGCCCGGATGTGTCAGAAGAATAACCCTGGCACATATCAGgtaaggaagctaggaggtgcccttcaagaagtctatttatggagagcacc Alignment from GeneWise ---GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG cagagtgtgagagcagaggaacccctgaatcaaagcctctctcccaccagATCGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTGCGTGCCCGGTGCTGGCCCCTCCTGTGTGGCGCCCGGATGTGTCAGAAGAATAACCCTGGCACATATCAGgtaaggaagctaggaggtgcccttcaagaagtctatttatggagagcacc #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCAC---tg gtgagggtagtgacaggcattctcaagttgtctcttttttttcttctcagagCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTTGtggtatgtgcctatgtagtgggatttggcagggaacatgggtggatttgtcc Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg gtgagggtagtgacaggcattctcaagttgtctcttttttttcttctcagagCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATttgtggtatgtgcctatgtagtgggatttggcagggaacatgggtggatttgtcc Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG gtgagggtagtgacaggcattctcaagttgtctcttttttttcttctcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTTgtggtatgtgcctatgtagtgggatttggcagggaacatgggtggatttgtcc Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACT---G gtgagggtagtgacaggcattctcaagttgtctcttttttttcttctcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTTGTGgtatgtgcctatgtagtgggatttggcagggaacatgggtggatttgtcc Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACT------------------------------------------------------ gtgagggtagtgacaggcattctcaagttgtctcttttttttcttctcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTTGTGGTATGTGCCTATGTAGTGGGATTTGGCAGGGAACATGGGTGGATTTGTCC Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG gtgagggtagtgacaggcattctcaagttgtctcttttttttcttctcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTTgtggtatgtgcctatgtagtgggatttggcagggaacatgggtggatttgtcc Alignment from Exonerate_coding2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG gtgagggtagtgacaggcattctcaagttgtctcttttttttcttctcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTTgtggtatgtgcctatgtagtgggatttggcagggaacatgggtggatttgtcc Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG gtgagggtagtgacaggcattctcaagttgtctcttttttttcttctcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTTgtggtatgtgcctatgtagtgggatttggcagggaacatgggtggatttgtcc #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gcacaatgtaactcccattcactgtgcagggtttgtctcatttctttcagGAAGTGGTACAGTATGTCCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTGCTGCTGGGCACGCCCTTGTACCTCCTACGTGAGCACCGACACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAA---gtatatagcacatagggattggactaagtggtgacgcatgtaacctcttc Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gcacaatgtaactcccattcactgtgcagggtttgtctcatttctttcagGAAGTGGTACAGTATGTCCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTGCTGCTGGGCACGCCCTTGTACCTCCTACGTGAGCACCGACACAGAAGAAACTCCCAAAGAAGA---GCAGGC---CAAgtatatagcacatagggattggactaagtggtgacgcatgtaacctcttc Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gcacaatgtaactcccattcactgtgcagggtttgtctcatttctttcagGAAGTGGTACAGTATGTCCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTGCTGCTGGGCACGCCCTTGTACCTCCTACGTGAGCACCGACACAGAAGAAACTCCCAAAGAAGAGCAGGC------CAAgtatatagcacatagggattggactaagtggtgacgcatgtaacctcttc Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAG gcacaatgtaactcccattcactgtgcagggtttgtctcatttctttcagGAAGTGGTACAGTATGTCCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTGCTGCTGGGCACGCCCTTGTACCTCCTACGTGAGCACCGACACAGAAGAAACTCCCAAAGAAG---AGCAGGCCAAgtatatagcacatagggattggactaagtggtgacgcatgtaacctcttc Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAG gcacaatgtaactcccattcactgtgcagggtttgtctcatttctttcagGAAGTGGTACAGTATGTCCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTGCTGCTGGGCACGCCCTTGTACCTCCTACGTGAGCACCGACACAGAAGAAACTCCCAAAGAAG---AGCAGGCCAAgtatatagcacatagggattggactaagtggtgacgcatgtaacctcttc Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAG gcacaatgtaactcccattcactgtgcagggtttgtctcatttctttcagGAAGTGGTACAGTATGTCCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTGCTGCTGGGCACGCCCTTGTACCTCCTACGTGAGCACCGACACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAAgtatatagcacatagggattggactaagtggtgacgcatgtaacctcttc Alignment from Exonerate_coding2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAG gcacaatgtaactcccattcactgtgcagggtttgtctcatttctttcagGAAGTGGTACAGTATGTCCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTGCTGCTGGGCACGCCCTTGTACCTCCTACGTGAGCACCGACACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAAgtatatagcacatagggattggactaagtggtgacgcatgtaacctcttc Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAG gcacaatgtaactcccattcactgtgcagggtttgtctcatttctttcagGAAGTGGTACAGTATGTCCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTGCTGCTGGGCACGCCCTTGTACCTCCTACGTGAGCACCGACACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAAgtatatagcacatagggattggactaagtggtgacgcatgtaacctcttc #### Tcirg1_ID174_13 --> 0 - 2 Original Alignment ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCAC---------gt ggcaggatccagcatgttgccaagtgttatgttttgaattgtgcaagcagCTCTGGAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCAGTCATCCTAGGGGTCACACACATGGCCTTTGGGGTTTTCCTCAGCATCTTCAATCATGTCCTTGCAgtgtaagttaaggggtgtatgcatgggtagtatgtgcccagacttgcctcat Alignment from CESAR ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCAC---------gt ggcaggatccagcatgttgccaagtgttatgttttgaattgtgcaagcagCTCTGGAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCAGTCATCCTAGGGGTCACACACATGGCCTTTGGGGTTTTCCTCAGCATCTTCAATCATGTCCTTGCAgtgtaagttaaggggtgtatgcatgggtagtatgtgcccagacttgcctcat Alignment from Spaln_aa2Genome CCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGTG-------- ggcaggatccagcatgttgccaagtgttatgttttgaattgtgcaagcagctctggagTCTGGCCACAAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCAGTCATCCTAGGGGTCACACACATGGCCTTTGGGGTTTTCCTCAGCATCTTCAATCATGTCCTTGCAGTgtaagttaaggggtgtatgcatgggtagtatgtgcccagacttgcctcat Alignment from Spaln_nt2Genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT ggcaggatccagcatgttgccaagtgttatgttttgaattgtgcaagcagCTCTGGAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCAGTCATCCTAGGGGTCACACACATGGCCTTTGGGGTTTTCCTCAGCATCTTCAATCA--Tgtccttgcagtgtaagttaaggggtgtatgcatgggtagtatgtgcccagacttgcctcat Alignment from Pairagon ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGT--------- ggcaggatccagcatgttgccaagtgttatgttttgaattgtgcaagcagCTCTGGAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCAGTCATCCTAGGGGTCACACACATGGCCTTTGGGGTTTTCCTCAGCATCTTCAATCATGTCCTTGCAGTgtaagttaaggggtgtatgcatgggtagtatgtgcccagacttgcctcat Alignment from Exonerate_protein2genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCAC ggcaggatccagcatgttgccaagtgttatgttttgaattgtgcaagcagCTCTGGAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCAGTCATCCTAGGGGTCACACACATGGCCTTTGGGGTTTTCCTCAGCATCTTCAATCATgtccttgcagtgtaagttaaggggtgtatgcatgggtagtatgtgcccagacttgcctcat Alignment from Exonerate_coding2genome ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCAC ggcaggatccagcatgttgccaagtgttatgttttgaattgtgcaagcagCTCTGGAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCAGTCATCCTAGGGGTCACACACATGGCCTTTGGGGTTTTCCTCAGCATCTTCAATCATgtccttgcagtgtaagttaaggggtgtatgcatgggtagtatgtgcccagacttgcctcat Alignment from GeneWise ATCTGGAGCCTGGCCACGAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCTGTCATCCTTGGGGTCACGCACATGGCCTTTGGGGTGTTCCTCAGCATCTTCAACCACGTG-------- ggcaggatccagcatgttgccaagtgttatgttttgaattgtgcaagcagCTCTGGAGTCTGGCCACAAACCACCTGAGCTTTCTCAACTCCTTCAAGATGAAGATGTCAGTCATCCTAGGGGTCACACACATGGCCTTTGGGGTTTTCCTCAGCATCTTCAATCATGTCCTTGCAGTgtaagttaaggggtgtatgcatgggtagtatgtgcccagacttgcctcat #### Tcirg1_ID181_6 --> 0 - 2 Original Alignment CCAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACtg CCAGTGACAgtaagcctaaagggaagactaacttccgttttcttcctaagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAAAAGATCCGAAAG---------tggtaagcaatgattcatccgaatcctcattacccagtacaagatgagacca Alignment from CESAR CCAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACtg CCAGTGACAgtgaggctaaagggaagactaacttccgttttcttcctaagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAAAAGATCCGAAAG---------tggtaagcaatgattcatccgaatcctcattacccagtacaagatgagacca Alignment from Spaln_aa2Genome CCAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGAT CCAGTGACAgtaagcctaaagggaagactaacttccgttttcttcctaagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAAAAGATCCGAAAGTGgtaagcaatgattcatccgaatcctcattacccagtacaagatgagacca Alignment from Spaln_nt2Genome CCAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CCAGTGACAgtaagcctaaagggaagactaacttccgttttcttcctaagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAAAAGATCCGAAAG---------TGgtaagcaatgattcatccgaatcctcattacccagtacaagatgagacca Alignment from Pairagon CCAGTGAC-----------------------------------------GGGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGATCACAGACTG CCAGTGACAGTAAGCCTAAAGGGAAGACTAACTTCCGTTTTCTTCCTAAGGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAAAAGATCCGAAAG---------TGgtaagcaatgattcatccgaatcctcattacccagtacaagatgagacca Alignment from Exonerate_protein2genome CCAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGAT CCAGTGACAgtaagcctaaagggaagactaacttccgttttcttcctaagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAAAAGATCCGAAAGTGgtaagcaatgattcatccgaatcctcattacccagtacaagatgagacca Alignment from Exonerate_coding2genome CCAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGAT CCAGTGACAgtaagcctaaagggaagactaacttccgttttcttcctaagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAAAAGATCCGAAAGTGgtaagcaatgattcatccgaatcctcattacccagtacaagatgagacca Alignment from GeneWise CCAGTGACG GGTGAGCCTGCAACTTGGATGACCTTTGTCATCTCCTACTGGGGTGAGCAGATCGGACAGAAGATCCGAAAGAT CCAGTGACAgtaagcctaaagggaagactaacttccgttttcttcctaagGGTGAGCCTGCAACCTGGATGACCTTTATCATATCCTACTGGGGTGAGCAGATTGGTCAAAAGATCCGAAAGTGgtaagcaatgattcatccgaatcctcattacccagtacaagatgagacca #### Tcirg1_ID184_3 --> 2 - 0 Original Alignment ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cataaccctgtggaatttcttccagcccattttctccctgttgttctcagccTTCTTGAGAGAAGAAGTGCCATGGGCAGGTCTAACACTTGCCCCACCTGAGGGGACACTACCAGCACCACCTCCGCGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGCAATCAGGAGGCACTGCGGGCCCAGCTGCACCACCTACGACTATACTCAGCTGTGCTGGGCCAGAGCCAC---------gtgagatccgaatatagctagccagagcaaaaagcaggtataggacctca Alignment from CESAR ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cataaccctgtggaatttcttccagcccattttctccctgttgttctcagccTTCTTGAGAGAAGAAGTGCCATGGGCAGGTCTAACACTTGCCCCACCTGAGGGGACACTACCAGCACCACCTCCGCGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGCAATCAGGAGGCACTGCGGGCCCAGCTGCACCACCTACGACTATACTCAGCTGTGCTGGGCCAGAGCCAC---------gtgagatccgaatatagctagccagagcaaaaagcaggtat Alignment from Spaln_aa2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCAC cataaccctgtggaatttcttccagcccattttctccctgttgttctcagCCTTCTTGAGAGAAGAAGTGCCATGGGCAGGTCTAACACTTGCCCCACCTGAGGGGACACTACCAGCACCACCTCCGCGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGCAATCAGGAGGCACTGCGGGCCCAGCTGCACCACCTACGACTATACTCAGCTGTGCTGGGCCAGAGCCACgtgagatccgaatatagctagccagagcaaaaagcaggtataggacctca Alignment from Spaln_nt2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCAC cataaccctgtggaatttcttccagcccattttctccctgttgttctcagCCTTCTTGAGAGAAGAAGTGCCATGGGCAGGTCTAACACTTGCCCCACCTGAGGGGACACTACCAGCACCACCTCCGCGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGCAATCAGGAGGCACTGCGGGCCCAGCTGCACCACCTACGACTATACTCAGCTGTGCTGGGCCAGAGCCACgtgagatccgaatatagctagccagagcaaaaagcaggtataggacctca Alignment from Pairagon CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCAC cataaccctgtggaatttcttccagcccattttctccctgttgttctcagCCTTCTTGAGAGAAGAAGTGCCATGGGCAGGTCTAACACTTGCCCCACCTGAGGGGACACTACCAGCACCACCTCCGCGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGCAATCAGGAGGCACTGCGGGCCCAGCTGCACCACCTACGACTATACTCAGCTGTGCTGGGCCAGAGCCACgtgagatccgaatatagctagccagagcaaaaagcaggtataggacctca Alignment from Exonerate_protein2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cataaccctgtggaatttcttccagcccattttctccctgttgttctcagCCTTCTTGAGAGAAGAAGTGCCATGGGCAGGTCTAACACTTGCCCCACCTGAGGGGACACTACCAGCACCACCTCCGCGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGCAATCAGGAGGCACTGCGGGCCCAGCTGCACCACCTACGACTATACTCAGCTGTGCTGGGCCAGAGCCACGTGAGATCCgaatatagctagccagagcaaaaagcaggtataggacctca Alignment from Exonerate_coding2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cataaccctgtggaatttcttccagcccattttctccctgttgttctcagCCTTCTTGAGAGAAGAAGTGCCATGGGCAGGTCTAACACTTGCCCCACCTGAGGGGACACTACCAGCACCACCTCCGCGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGCAATCAGGAGGCACTGCGGGCCCAGCTGCACCACCTACGACTATACTCAGCTGTGCTGGGCCAGAGCCACGTGAGATCCgaatatagctagccagagcaaaaagcaggtataggacctca Alignment from GeneWise CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCAC cataaccctgtggaatttcttccagcccattttctccctgttgttctcagCCTTCTTGAGAGAAGAAGTGCCATGGGCAGGTCTAACACTTGCCCCACCTGAGGGGACACTACCAGCACCACCTCCGCGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTCCATGGCAATCAGGAGGCACTGCGGGCCCAGCTGCACCACCTACGACTATACTCAGCTGTGCTGGGCCAGAGCCACgtgagatccgaatatagctagccagagcaaaaagcaggtataggacctca #### Tctn3_ID7996_5 --> 0 - 1 Original Alignment GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---g actacttaaggctactattgtttctgttacctcctgtgctcttcgcgcagGCTGGGGATCCCATCCTGACCTACTACCCAAGTTGGTCTGTGGTGAGCTTACTGAGGCAACCTGCAGCTGTGGGAGCTGGGGGACTTTGTGCAGAGAGCAACCCTGCATTAggtgagtccagtgcaggtgtgcactggccccttgccttcttttgtgagttt Alignment from CESAR GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---g actacttaaggctactattgtttctgttacctcctgtgctcttcgcgcagGCTGGGGATCCCATCCTGACCTACTACCCAAGTTGGTCTGTGGTGAGCTTACTGAGGCAACCTGCAGCTGTGGGAGCTGGGGGACTTTGTGCAGAGAGCAACCCTGCATTAggtgagtccagtgcaggtgtgcactggccccttgccttcttttgtgagttt Alignment from Spaln_aa2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---G actacttaaggctactattgtttctgttacctcctgtgctcttcgcgcagGCTGGGGATCCCATCCTGACCTACTACCCAAGTTGGTCTGTGGTGAGCTTACTGAGGCAACCTGCAGCTGTGGGAGCTGGGGGACTTTGTGCAGAGAGCAACCCTGCATTAGgtgagtccagtgcaggtgtgcactggccccttgccttcttttgtgagttt Alignment from Spaln_nt2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---G actacttaaggctactattgtttctgttacctcctgtgctcttcgcgcagGCTGGGGATCCCATCCTGACCTACTACCCAAGTTGGTCTGTGGTGAGCTTACTGAGGCAACCTGCAGCTGTGGGAGCTGGGGGACTTTGTGCAGAGAGCAACCCTGCATTAGgtgagtccagtgcaggtgtgcactggccccttgccttcttttgtgagttt Alignment from Pairagon GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGC---AG actacttaaggctactattgtttctgttacctcctgtgctcttcgcgcagGCTGGGGATCCCATCCTGACCTACTACCCAAGTTGGTCTGTGGTGAGCTTACTGAGGCAACCTGCAGCTGTGGGAGCTGGGGGACTTTGTGCAGAGAGCAACCCTGCATTAGgtgagtccagtgcaggtgtgcactggccccttgccttcttttgtgagttt Alignment from Exonerate_protein2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---G actacttaaggctactattgtttctgttacctcctgtgctcttcgcgcagGCTGGGGATCCCATCCTGACCTACTACCCAAGTTGGTCTGTGGTGAGCTTACTGAGGCAACCTGCAGCTGTGGGAGCTGGGGGACTTTGTGCAGAGAGCAACCCTGCATTAGgtgagtccagtgcaggtgtgcactggccccttgccttcttttgtgagttt Alignment from Exonerate_coding2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA---G actacttaaggctactattgtttctgttacctcctgtgctcttcgcgcagGCTGGGGATCCCATCCTGACCTACTACCCAAGTTGGTCTGTGGTGAGCTTACTGAGGCAACCTGCAGCTGTGGGAGCTGGGGGACTTTGTGCAGAGAGCAACCCTGCATTAGgtgagtccagtgcaggtgtgcactggccccttgccttcttttgtgagttt Alignment from GeneWise GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGT- actacttaaggctactattgtttctgttacctcctgtgctcttcgcgcagGCTGGGGATCCCATCCTGACCTACTACCCAAGTTGGTCTGTGGTGAGCTTACTGAGGCAACCTGCAGCTGTGGGAGCTGGGGGACTTTGTGCAGAGAGCAACCCTGCATTAGgtgagtccagtgcaggtgtgcactggccccttgccttcttttgtgagttt #### Tctn3_ID7999_2 --> 2 - 2 Original Alignment ctTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAag cagtacaggcagacttcgaataagttcctctttgctggtgtctttttcagctTTACCGATTTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGT------aggtacccgttccctgtagcacccctccagcagaggagtgaaaattctgtgc Alignment from CESAR ctTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAag cagtacaggcagacttcgaataagttcctctttgctggtgtctttttcagctTTACCGATTTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGT------aggtacccgttccctgtagcacccctccagcagaggagtgaaaattctgtgc Alignment from Spaln_aa2Genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG cagtacaggcagacttcgaataagttcctctttgctggtgtctttttcagCTTTACCGATTTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGGTACCCgttccctgtagcacccctccagcagaggagtgaaaattctgtgc Alignment from Spaln_nt2Genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAG cagtacaggcagacttcgaataagttcctctttgctggtgtctttttcagCTTTACCGATTTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGgtacccgttccctgtagcacccctccagcagaggagtgaaaattctgtgc Alignment from Pairagon CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAG cagtacaggcagacttcgaataagttcctctttgctggtgtctttttcagCTTTACCGATTTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGgtacccgttccctgtagcacccctccagcagaggagtgaaaattctgtgc Alignment from Exonerate_protein2genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAG cagtacaggcagacttcgaataagttcctctttgctggtgtctttttcagCTTTACCGATTTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGgtacccgttccctgtagcacccctccagcagaggagtgaaaattctgtgc Alignment from Exonerate_coding2genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAG cagtacaggcagacttcgaataagttcctctttgctggtgtctttttcagCTTTACCGATTTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGgtacccgttccctgtagcacccctccagcagaggagtgaaaattctgtgc Alignment from GeneWise CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG cagtacaggcagacttcgaataagttcctctttgctggtgtctttttcagCTTTACCGATTTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGGTACCCgttccctgtagcacccctccagcagaggagtgaaaattctgtgc #### Tdrd1_ID12205_6 --> 0 - 0 Original Alignment ---------GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gacacatgggagctgggctgcctcaagcacttaccatcttttttacctagATTACCTGCGTTGATTGCCCCCCAGGAGTTACTAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtaagtggatttgcctcccacttgcctcccacatgtgatcccactgaaat Alignment from CESAR ---------GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gacacatgggagctgggctgcctcaagcacttaccatcttttttacctagATTACCTGCGTTGATTGCCCCCCAGGAGTTACTAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtaagtggatttgcctcccacttgcctcccacatgtgatcccactgaaat Alignment from Spaln_aa2Genome GTTGACTGTCCC---------CCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gacacatgggagctgggctgcctcaagcacttaccatcttttttacctagATTACCTGCGTTGATTGCCCCCCAGGAGTTACTAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtaagtggatttgcctcccacttgcctcccacatgtgatcccactgaaat Alignment from Spaln_nt2Genome GTTGACTGTCCCCCGGG---------AGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gacacatgggagctgggctgcctcaagcacttaccatcttttttacctagATTACCTGCGTTGATTGCCCCCCAGGAGTTACTAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtaagtggatttgcctcccacttgcctcccacatgtgatcccactgaaat Alignment from Pairagon ---------GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gacacatgggagctgggctgcctcaagcacttaccatcttttttacctagATTACCTGCGTTGATTGCCCCCCAGGAGTTACTAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtaagtggatttgcctcccacttgcctcccacatgtgatcccactgaaat Alignment from Exonerate_protein2genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gacacatgggagctgggctgcctcaagcacttaccatcttttttacctagattacctgcGTTGATTGCCCCCCAGGAGTTACTAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtaagtggatttgcctcccacttgcctcccacatgtgatcccactgaaat Alignment from Exonerate_coding2genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gacacatgggagctgggctgcctcaagcacttaccatcttttttacctagattacctgcGTTGATTGCCCCCCAGGAGTTACTAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtaagtggatttgcctcccacttgcctcccacatgtgatcccactgaaat Alignment from GeneWise ---------GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG gacacatgggagctgggctgcctcaagcacttaccatcttttttacctagATTACCTGCGTTGATTGCCCCCCAGGAGTTACTAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtaagtggatttgcctcccacttgcctcccacatgtgatcccactgaaat #### Tex40_ID1868_4 --> 0 - 1 Original Alignment CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCa atgacttcagctccatgggattggttgatgcttagttcctttttcaacagCTGCCCCTCCCCCTCATGGAGTTCATGGAGAGTGAAGTGTTGTATATCCTCAAAAAAGCC------agtgagtaccgatactataccctacccctagcctccacaaacaactctgtg Alignment from CESAR CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCa atgacttcagctccatgggattggttgatgcttagttcctttttcaacagCTGCCCCTCCCCCTCATGGAGTTCATGGAGAGTGAAGTGTTGTATATCCTCAAAAAAGCC------agtgagtaccgatactataccctacccctagcctccacaaacaactctgtg Alignment from Spaln_aa2Genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCC- atgacttcagctccatgggattggttgatgcttagttcctttttcaacagCTGCCCCTCCCCCTCATGGAGTTCATGGAGAGTGAAGTGTTGTATATCCTCAAAAAAGCCAgtgagtaccgatactataccctacccctagcctccacaaacaactctgtg Alignment from Spaln_nt2Genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCC atgacttcagctccatgggattggttgatgcttagttcctttttcaacagCTGCCCCTCCCCCTCATGGAGTTCATGGAGAGTGAAGTGTTGTATATCCTCAAAAAAGCCAgtgagtaccgatactataccctacccctagcctccacaaacaactctgtg Alignment from Pairagon CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA atgacttcagctccatgggattggttgatgcttagttcctttttcaacagCTGCCCCTCCCCCTCATGGAGTTCATGGAGAGTGAAGTGTTGTATATCCTCAAAAAAGC------CAgtgagtaccgatactataccctacccctagcctccacaaacaactctgtg Alignment from Exonerate_protein2genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA atgacttcagctccatgggattggttgatgcttagttcctttttcaacagCTGCCCCTCCCCCTCATGGAGTTCATGGAGAGTGAAGTGTTGTATATCCTCAAAAAAGCC------Agtgagtaccgatactataccctacccctagcctccacaaacaactctgtg Alignment from Exonerate_coding2genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA atgacttcagctccatgggattggttgatgcttagttcctttttcaacagCTGCCCCTCCCCCTCATGGAGTTCATGGAGAGTGAAGTGTTGTATATCCTCAAAAAAGCC------Agtgagtaccgatactataccctacccctagcctccacaaacaactctgtg Alignment from GeneWise CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCC atgacttcagctccatgggattggttgatgcttagttcctttttcaacagCTGCCCCTCCCCCTCATGGAGTTCATGGAGAGTGAAGTGTTGTATATCCTCAAAAAAGCCAgtgagtaccgatactataccctacccctagcctccacaaacaactctgtg #### Tm7sf2_ID1412_8 --> 2 - 1 Original Alignment ttATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTg aaggcttggaattctaccccaccatctcattgaatctttcttgttcacagttATTGGTTATTATATCTTCCGAGGGGCCAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCCGAGCCC---------ggtaggctggagatatggggtttgtcagagcttatgcctaagtgaacctga Alignment from CESAR ttATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTg aaggcttggaattctaccccaccatctcattgaatctttcttgttcacagttATTGGTTATTATATCTTCCGAGGGGCCAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCCGAGCCC---------ggtaggctggagatatggggtttgtcagagcttatgcctaagtgaacctga Alignment from Spaln_aa2Genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCC- aaggcttggaattctaccccaccatctcattgaatctttcttgttcacagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCCGAGCCCGgtaggctggagatatggggtttgtcagagcttatgcctaagtgaacctga Alignment from Spaln_nt2Genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG aaggcttggaattctaccccaccatctcattgaatctttcttgttcacagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCCGAGCCC---------Ggtaggctggagatatggggtttgtcagagcttatgcctaagtgaacctga Alignment from Pairagon TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG aaggcttggaattctaccccaccatctcattgaatctttcttgttcacagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCCGAGCCC---------Ggtaggctggagatatggggtttgtcagagcttatgcctaagtgaacctga Alignment from Exonerate_protein2genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG aaggcttggaattctaccccaccatctcattgaatctttcttgttcacagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCCGAGCCCGGTAGGCTGGagatatggggtttgtcagagcttatgcctaagtgaacctga Alignment from Exonerate_coding2genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG aaggcttggaattctaccccaccatctcattgaatctttcttgttcacagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCCGAGCCCGGTAGGCTGGagatatggggtttgtcagagcttatgcctaagtgaacctga Alignment from GeneWise TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCC- --------- aaggcttggaattctaccccaccatctcattgaatctttcttgttcacagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCTGAGAAAAACACTTTCAGGCAGAATCCTTCCGAGCCCGgtaggctggagatatggggtttgtcagagcttatgcctaagTGAACCTGA #### Tm7sf2_ID1413_7 --> 0 - 1 Original Alignment ---GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg tgtgaggacatcaactgtactaagtcaaatctttgcttttctcccccaagACGGAGTCTGTCCTCACCACCATGGATATCATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATTTAGCCTGGATACCACTTACCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCACAACCCCTGGGGTTCCCAATGGCCTTACTCATCTGCCTGCTTCGGggtaagtattagataccctcaatgccccatccccttccatccatgttgtat Alignment from CESAR ---GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg tgtgaggacatcaactgtactaagtcaaatctttgcttttctcccccaagACGGAGTCTGTCCTCACCACCATGGATATCATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATTTAGCCTGGATACCACTTACCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCACAACCCCTGGGGTTCCCAATGGCCTTACTCATCTGCCTGCTTCGGggtaagtattagataccctcaatgccccatccccttccatccatgttgtat Alignment from Spaln_aa2Genome GAGTCTGTCCTCACCACCATGGAC---ATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgaggacatcaactgtactaagtcaaatctttgcttttctcccccaagACGGAGTCTGTCCTCACCACCATGGATATCATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATTTAGCCTGGATACCACTTACCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCACAACCCCTGGGGTTCCCAATGGCCTTACTCATCTGCCTGCTTCGGGgtaagtattagataccctcaatgccccatccccttccatccatgttgtat Alignment from Spaln_nt2Genome GGAGTCTGTCC--TCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgaggacatcaactgtactaagtcaaatctttgcttttctcccccaagACGGAGTCTGTCCTCACCACCATGGATATCATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATTTAGCCTGGATACCACTTACCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCACAACCCCTGGGGTTCCCAATGGCCTTACTCATCTGCCTGCTTCGGGgtaagtattagataccctcaatgccccatccccttccatccatgttgtat Alignment from Pairagon ----------------------------------------------------GGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG TGTGAGGACATCAACTGTACTAAGTCAAATCTTTGCTTTTCTCCCCCAAGACGGAGTCTGTCCTCACCACCATGGATATCATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATTTAGCCTGGATACCACTTACCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCACAACCCCTGGGGTTCCCAATGGCCTTACTCATCTGCCTGCTTCGGGgtaagtattagataccctcaatgccccatccccttccatccatgttgtat Alignment from Exonerate_protein2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgaggacatcaactgtactaagtcaaatctttgcttttctcccccaagacgGAGTCTGTCCTCACCACCATGGATATCATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATTTAGCCTGGATACCACTTACCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCACAACCCCTGGGGTTCCCAATGGCCTTACTCATCTGCCTGCTTCGGGgtaagtattagataccctcaatgccccatccccttccatccatgttgtat Alignment from Exonerate_coding2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgaggacatcaactgtactaagtcaaatctttgcttttctcccccaagacgGAGTCTGTCCTCACCACCATGGATATCATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATTTAGCCTGGATACCACTTACCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCACAACCCCTGGGGTTCCCAATGGCCTTACTCATCTGCCTGCTTCGGGgtaagtattagataccctcaatgccccatccccttccatccatgttgtat Alignment from GeneWise ---GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG tgtgaggacatcaactgtactaagtcaaatctttgcttttctcccccaagACGGAGTCTGTCCTCACCACCATGGATATCATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATTTAGCCTGGATACCACTTACCTACAGCCTGCAGGCCCAGTTCCTTTTATACCATCCACAACCCCTGGGGTTCCCAATGGCCTTACTCATCTGCCTGCTTCGGGgtaagtattagataccctcaatgccccatccccttccatccatgttgtat #### Tm7sf2_ID1417_3 --> 0 - 1 Original Alignment GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATg gctgtgaaatgatccatgccctgttctgccttatgttctgttctttccag---GCTGAAGGCGTGGAACTGAAGGATAAGAGTCGCTTGCGTTACCCTATTAATggtaggtgagtaccccctccctccataaatcaactccctccataaatcaaa Alignment from CESAR GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATg tatgctgtgaaatgatccatgccctctgccttatgttctgttctttccag---GCTGAAGGCGTGGAACTGAAGGATAAGAGTCGCTTGCGTTACCCTATTAATggtaggtgagtaccccctccctccataaatcaactccctccataaatcaaa Alignment from Spaln_aa2Genome GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG gctgtgaaatgatccatgccctgttctgccttatgttctgttctttccagGCTGAAGGCGTGGAA---CTGAAGGATAAGAGTCGCTTGCGTTACCCTATTAATGgtaggtgagtaccccctccctccataaatcaactccctccataaatcaaa Alignment from Spaln_nt2Genome GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG gctgtgaaatgatccatgccctgttctgccttatgttctgttctttccag---GCTGAAGGCGTGGAACTGAAGGATAAGAGTCGCTTGCGTTACCCTATTAATGgtaggtgagtaccccctccctccataaatcaactccctccataaatcaaa Alignment from Pairagon -------------------------------------------------GGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG GCTGTGAAATGATCCATGCCCTGTTCTGCCTTATGTTCTGTTCTTTCCAGGCTGAAGGCGTGGAACTGAAGGATAAGAGTCGCTTGCGTTACCCTATTAATGgtaggtgagtaccccctccctccataaatcaactccctccataaatcaaa Alignment from Exonerate_protein2genome GCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG gctgtgaaatgatccatgccctgttctgccttatgttctgttctttccagGCTGAAGGCGTGGAACTGAAGGATAAGAGTCGCTTGCGTTACCCTATTAATGgtaggtgagtaccccctccctccataaatcaactccctccataaatcaaa Alignment from Exonerate_coding2genome GCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG gctgtgaaatgatccatgccctgttctgccttatgttctgttctttccagGCTGAAGGCGTGGAACTGAAGGATAAGAGTCGCTTGCGTTACCCTATTAATGgtaggtgagtaccccctccctccataaatcaactccctccataaatcaaa Alignment from GeneWise GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG gctgtgaaatgatccatgccctgttctgccttatgttctgttctttccagGCT---GAAGGCGTGGAACTGAAGGATAAGAGTCGCTTGCGTTACCCTATTAATGgtaggtgagtaccccctccctccataaatcaactccctccataaatcaaa #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment c---------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccattcttcctatgcttgtcaccacctgtaacaatatatctgtcacaaagcTCACATCTGTGCTCCGAAGCACAGAAGACTGCATGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtgagttgcaggtatatatcaagattaagcaacaagcttaagtttgccca Alignment from CESAR c---------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccattcttcctatgcttgtcaccacctgtaacaatatatctgtcacaaagcTCACATCTGTGCTCCGAAGCACAGAAGACTGCATGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtgagttgcaggtatatatcaagattaagcaacaagcttaagtttgccca Alignment from Spaln_aa2Genome C---------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccattcttcctatgcttgtcaccacctgtaacaatatatctgtcacaaagCTCACATCTGTGCTCCGAAGCACAGAAGACTGCATGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtgagttgcaggtatatatcaagattaagcaacaagcttaagtttgccca Alignment from Spaln_nt2Genome CTGCTCTGAAGC---------CCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccattcttcctatgcttgtcaccacctgtaacaatatatctgtcacaaagCTCACATCTGTGCTCCGAAGCACAGAAGACTGCATGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtgagttgcaggtatatatcaagattaagcaacaagcttaagtttgccca Alignment from Pairagon C---------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccattcttcctatgcttgtcaccacctgtaacaatatatctgtcacaaagCTCACATCTGTGCTCCGAAGCACAGAAGACTGCATGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtgagttgcaggtatatatcaagattaagcaacaagcttaagtttgccca Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccattcttcctatgcttgtcaccacctgtaacaatatatctgtcacaaagctcacatctGTGCTCCGAAGCACAGAAGACTGCATGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtgagttgcaggtatatatcaagattaagcaacaagcttaagtttgccca Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccattcttcctatgcttgtcaccacctgtaacaatatatctgtcacaaagctcacatctGTGCTCCGAAGCACAGAAGACTGCATGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtgagttgcaggtatatatcaagattaagcaacaagcttaagtttgccca Alignment from GeneWise -------AGCTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccattcttcctatgcttgtcaccacctgtaacaatatatctgtcacaaagCTCACATCTGTGCTCCGAAGCACAGAAGACTGCATGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtgagttgcaggtatatatcaagattaagcaacaagcttaagtttgccca #### Trmt112_ID1861_2 --> 0 - 0 Original Alignment GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC atgtagacctaacctcactgaatgttttagtgtccccctacttctcccagGCCACTGAAGTCTGTATCAACCCTGTGGAATTTAACCCAGAGTTAGTAGCTCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCT---------gtaaatgcccgccctcacttgttcttcccatcgtatcttaggggtatggt Alignment from CESAR GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC atgtagacctaacctcactgaatgttttagtgtccccctacttctcccagGCCACTGAAGTCTGTATCAACCCTGTGGAATTTAACCCAGAGTTAGTAGCTCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCT---------gtaaatgcccgccctcacttgttcttcccatcgtatcttag Alignment from Spaln_aa2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGAC atgtagacctaacctcactgaatgttttagtgtccccctacttctcccagGCCACTGAAGTCTGTATCAACCCTGTGGAATTTAACCCAGAGTTAGTAGCTCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTGTAAATgcccgccctcacttgttcttcccatcgtatcttaggggtatggt Alignment from Spaln_nt2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCA GCGGACA atgtagacctaacctcactgaatgttttagtgtccccctacttctcccagGCCACTGAAGTCTGTATCAACCCTGTGGAATTTAACCCAGAGTTAGTAGCTCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTgtaaatgcccgccctcacttgttcttcccatcgtatcttagGGGTATGgt Alignment from Pairagon GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCA atgtagacctaacctcactgaatgttttagtgtccccctacttctcccagGCCACTGAAGTCTGTATCAACCCTGTGGAATTTAACCCAGAGTTAGTAGCTCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTgtaaatgcccgccctcacttgttcttcccatcgtatcttaggggtatggt Alignment from Exonerate_protein2genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGG atgtagacctaacctcactgaatgttttagtgtccccctacttctcccagGCCACTGAAGTCTGTATCAACCCTGTGGAATTTAACCCAGAGTTAGTAGCTCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTGTAAatgcccgccctcacttgttcttcccatcgtatcttaggggtatggt Alignment from Exonerate_coding2genome CCGCTGCGCCTGCAGGCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGG atgtagacctaacctcactgaatgttttagtgtccCCCTACTTCTCCCAGGCCACTGAAGTCTGTATCAACCCTGTGGAATTTAACCCAGAGTTAGTAGCTCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTGTAAatgcccgccctcacttgttcttcccatcgtatcttaggggtatggt Alignment from GeneWise GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC atgtagacctaacctcactgaatgttttagtgtccccctacttctcccagGCCACTGAAGTCTGTATCAACCCTGTGGAATTTAACCCAGAGTTAGTAGCTCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGG---------GCTgtaaatgcccgccctcacttgttcttcccatcgtatcttaggggtatggt #### Trmt112_ID1862_3 --> 0 - 0 Original Alignment TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aagtccgggtgctcgagtgcatcctgattattaataattatttcaaatagTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAGACGTTTTTGAGGGAGATGCATCATGTG---------gtaagtaacgtatcatgactggatcatcgtgcctaggtgtccatggttgt Alignment from CESAR TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aagtccgggtgctcgagtgcatcctgattattaataattatttcaaatagTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAGACGTTTTTGAGGGAGATGCATCATGTG---------gtaagtaacgtatcatgactggatcatcgtgcctaggtgtc Alignment from Spaln_aa2Genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aagtccgggtgctcgagtgcatcctgattattaataattatttcaaatagTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAGACGTTTTTGAGGGAGATGCATCATGTGGTAAGTAACgtatcatgactggatcatcgtgcctaggtgtccatggttgt Alignment from Spaln_nt2Genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aagtccgggtgctcgagtgcatcctgattattaataattatttcaaatagTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAGACGTTTTTGAGGGAGATGCATCATGTGGTAAGTAACgtatcatgactggatcatcgtgcctaggtgtccatggttgt Alignment from Pairagon TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTG aagtccgggtgctcgagtgcatcctgattattaataattatttcaaatagTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAGACGTTTTTGAGGGAGATGCATCATGTGgtaagtaacgtatcatgactggatcatcgtgcctaggtgtccatggttgt Alignment from Exonerate_protein2genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aagtccgggtgctcgagtgcatcctgattattaataattatttcaaatagTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAGACGTTTTTGAGGGAGATGCATCATGTGGTAAGTAACgtatcatgactggatcatcgtgcctaggtgtccatggttgt Alignment from Exonerate_coding2genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aagtccgggtgctcgagtgcatcctgattattaataattatttcaaatagTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAGACGTTTTTGAGGGAGATGCATCATGTGGTAAGTAACgtatcatgactggatcatcgtgcctaggtgtccatggttgt Alignment from GeneWise TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aagtccgggtgctcgagtgcatcctgattattaataattatttcaaatagTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAGACGTTTTTGAGGGAGATGCATCATGTGGTAAGTAACgtatcatgactggatcatcgtgcctaggtgtccatggttgt #### Trpt1_ID1979_2 --> 0 - 1 Original Alignment GACCGAAATGTGCAGCTGTCTAAGGCTCTGTCCTATGCCCTTCGCCACGGGGCCTTGAAGCTGGGACTTCCCATGCGAGCTg aacattcattgctgactactaatttttactagttgctctgttacttgcagGACCGAAACGTGCAGCTGTCTAAGGCTCTGGCCTATGCCCTTCGGCATGGAGGTTTGGAGCTGGGACTTCCCATGCAA---ggtaggcggtaaacatgttggaactgagagtccaactggagcctccatctc Alignment from CESAR GACCGAAATGTGCAGCTGTCTAAGGCTCTGTCCTATGCCCTTCGCCACGGGGCCTTGAAGCTGGGACTTCCCATGCGAGCTg aacattcattgctgactactaatttttactagttgctctgttacttgcagGACCGAAACGTGCAGCTGTCTAAGGCTCTGGCCTATGCCCTTCGGCATGGAGGTTTGGAGCTGGGACTTCCCATGCAA---ggtaggcggtaaacatgttggaactgagagtccaactggagcctccatctc Alignment from Spaln_aa2Genome GACCGAAATGTGCAGCTGTCTAAGGCTCTGTCCTATGCCCTTCGCCACGGGGCCTTGAAGCTGGGACTTCCCATGCGA- aacattcattgctgactactaatttttactagttgctctgttacttgcagGACCGAAACGTGCAGCTGTCTAAGGCTCTGGCCTATGCCCTTCGGCATGGAGGTTTGGAGCTGGGACTTCCCATGCAAGgtaggcggtaaacatgttggaactgagagtccaactggagcctccatctc Alignment from Spaln_nt2Genome GACCGAAATGTGCAGCTGTCTAAGGCTCTGTCCTATGCCCTTCGCCACGGGGCCTTGAAGCTGGGACTTCCCATGCGAG aacattcattgctgactactaatttttactagttgctctgttacttgcagGACCGAAACGTGCAGCTGTCTAAGGCTCTGGCCTATGCCCTTCGGCATGGAGGTTTGGAGCTGGGACTTCCCATGCAAGgtaggcggtaaacatgttggaactgagagtccaactggagcctccatctc Alignment from Pairagon GACCGAAATGTGCAGCTGTCTAAGGCTCTGTCCTATGCCCTTCGCCACGGGGCCTTGAAGCTGGGACTTCCCATGCGAG aacattcattgctgactactaatttttactagttgctctgttacttgcagGACCGAAACGTGCAGCTGTCTAAGGCTCTGGCCTATGCCCTTCGGCATGGAGGTTTGGAGCTGGGACTTCCCATGCAAGgtaggcggtaaacatgttggaactgagagtccaactggagcctccatctc Alignment from Exonerate_protein2genome GACCGAAATGTGCAGCTGTCTAAGGCTCTGTCCTATGCCCTTCGCCACGGGGCCTTGAAGCTGGGACTTCCCATGCGAG aacattcattgctgactactaatttttactagttgctctgttacttgcagGACCGAAACGTGCAGCTGTCTAAGGCTCTGGCCTATGCCCTTCGGCATGGAGGTTTGGAGCTGGGACTTCCCATGCAAGgtaggcggtaaacatgttggaactgagagtccaactggagcctccatctc Alignment from Exonerate_coding2genome GACCGAAATGTGCAGCTGTCTAAGGCTCTGTCCTATGCCCTTCGCCACGGGGCCTTGAAGCTGGGACTTCCCATGCGAG aacattcattgctgactactaatttttactagttgctctgttacttgcagGACCGAAACGTGCAGCTGTCTAAGGCTCTGGCCTATGCCCTTCGGCATGGAGGTTTGGAGCTGGGACTTCCCATGCAAGgtaggcggtaaacatgttggaactgagagtccaactggagcctccatctc Alignment from GeneWise GACCGAAATGTGCAGCTGTCTAAGGCTCTGTCCTATGCCCTTCGCCACGGGGCCTTGAAGCTGGGACTTCCCATGCGAG aacattcattgctgactactaatttttactagttgctctgttacttgcagGACCGAAACGTGCAGCTGTCTAAGGCTCTGGCCTATGCCCTTCGGCATGGAGGTTTGGAGCTGGGACTTCCCATGCAAGgtaggcggtaaacatgttggaactgagagtccaactggagcctccatctc #### Trpt1_ID1980_3 --> 2 - 0 Original Alignment atGGCTTTGTGCCCCTGCAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTCGTGGTCAATACCAACGAAAAGCAGCGGTTTACCCTGCAGCCAGGCGAGCCGAGCACTGGGCTCCTCATCAGGGCCAATCAGGGCCACTCCCTACAA------------------------------ ccctctctcctcagcattttatcagcagtacacgctgtgtccttccacagatGGATTCGTGCCCCTACAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTTGTGGCAAATACCAATGAGAAGCAGCGATTTACTCTACAGCCAGGCAAGCCAAGTACTGGGCTCCTCATCAGGGCAAATCAGGGACACTCCCTACAAGACATGGGTCTCGAGAGGGAGGATGGCGAGgtaagtggcaatatgtgggtgaggagtcagatcttgtttgaatgcatgaa Alignment from CESAR atGGCTTTGTGCCCCTGCAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTCGTGGTCAATACCAACGAAAAGCAGCGGTTTACCCTGCAGCCAGGCGAGCCGAGCACTGGGCTCCTCATCAGGGCCAATCAGGGCCACTCCCTACAA------------------------------ ccctctctcctcagcattttatcagcagtacacgctgtgtccttccacagatGGATTCGTGCCCCTACAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTTGTGGCAAATACCAATGAGAAGCAGCGATTTACTCTACAGCCAGGCAAGCCAAGTACTGGGCTCCTCATCAGGGCAAATCAGGGACACTCCCTACAAGACATGGGTCTCGAGAGGGAGGATGGCGAGgtaagtggcaatatgtgggtgaggagtcagatcttgtttgaatgcatgaa Alignment from Spaln_aa2Genome ATGGCTTTGTGCCCCTGCAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTCGTGGTCAATACCAACGAAAAGCAGCGGTTTACCCTGCAGCCAGGCGAGCCGAGCACTGGGCTCCTCATCAGGGCCAATCAGGGCCACTCCCTACAA--- ccctctctcctcagcattttatcagcagtacacgctgtgtccttccacagATGGATTCGTGCCCCTACAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTTGTGGCAAATACCAATGAGAAGCAGCGATTTACTCTACAGCCAGGCAAGCCAAGTACTGGGCTCCTCATCAGGGCAAATCAGGGACACTCCCTACAAGACatgggtctcgagagggaggatggcgaggtaagtggcaatatgtgggtgaggagtcagatcttgtttgaatgcatgaa Alignment from Spaln_nt2Genome ATGGCTTTGTGCCCCTGCAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTCGTGGTCAATACCAACGAAAAGCAGCGGTTTACCCTGCAGCCAGGCGAGCCGAGCACTGGGCTCCTCATCAGGGCCAATCAGGGCCACTCCCTACAA------- ccctctctcctcagcattttatcagcagtacacgctgtgtccttccacagATGGATTCGTGCCCCTACAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTTGTGGCAAATACCAATGAGAAGCAGCGATTTACTCTACAGCCAGGCAAGCCAAGTACTGGGCTCCTCATCAGGGCAAATCAGGGACACTCCCTACAAGACATGGgtctcgagagggaggatggcgaggtaagtggcaatatgtgggtgaggagtcagatcttgtttgaatgcatgaa Alignment from Pairagon ATGGCTTTGTGCCCCTGCAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTCGTGGTCAATACCAACGAAAAGCAGCGGTTTACCCTGCAGCCAGGCGAGCCGAGCACTGGGCTCCTCATCAGGGCCAATCAGGGCCACTCCCTACAA------------------------------ ccctctctcctcagcattttatcagcagtacacgctgtgtccttccacagATGGATTCGTGCCCCTACAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTTGTGGCAAATACCAATGAGAAGCAGCGATTTACTCTACAGCCAGGCAAGCCAAGTACTGGGCTCCTCATCAGGGCAAATCAGGGACACTCCCTACAAGACATGGGTCTCGAGAGGGAGGATGGCGAGgtaagtggcaatatgtgggtgaggagtcagatcttgtttgaatgcatgaa Alignment from Exonerate_protein2genome ATGGCTTTGTGCCCCTGCAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTCGTGGTCAATACCAACGAAAAGCAGCGGTTTACCCTGCAGCCAGGCGAGCCGAGCACTGGGCTCCTCATCAGGGCCAATCAGGGCCACTCCCTACAA ccctctctcctcagcattttatcagcagtacacgctgtgtccttccacagATGGATTCGTGCCCCTACAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTTGTGGCAAATACCAATGAGAAGCAGCGATTTACTCTACAGCCAGGCAAGCCAAGTACTGGGCTCCTCATCAGGGCAAATCAGGGACACTCCCTACAAgacatgggtctcgagagggaggatggcgaggtaagtggcaatatgtgggtgaggagtcagatcttgtttgaatgcatgaa Alignment from Exonerate_coding2genome ATGGCTTTGTGCCCCTGCAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTCGTGGTCAATACCAACGAAAAGCAGCGGTTTACCCTGCAGCCAGGCGAGCCGAGCACTGGGCTCCTCATCAGGGCCAATCAGGGCCACTCCCTACAA ccctctctcctcagcattttatcagcagtacacgctgtgtccttccacagATGGATTCGTGCCCCTACAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTTGTGGCAAATACCAATGAGAAGCAGCGATTTACTCTACAGCCAGGCAAGCCAAGTACTGGGCTCCTCATCAGGGCAAATCAGGGACACTCCCTACAAgacatgggtctcgagagggaggatggcgaggtaagtggcaatatgtgggtgaggagtcagatcttgtttgaatgcatgaa Alignment from GeneWise ATGGCTTTGTGCCCCTGCAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTCGTGGTCAATACCAACGAAAAGCAGCGGTTTACCCTGCAGCCAGGCGAGCCGAGCACTGGGCTCCTCATCAGGGCCAATCAGGGCCACTCCCTACAA------------------------------ ccctctctcctcagcattttatcagcagtacacgctgtgtccttccacagATGGATTCGTGCCCCTACAAGCCCTCCTGCAGCTGCCCCAGTTCCACAGCTTTTCCATTGAAGATGTGCAGCTTGTGGCAAATACCAATGAGAAGCAGCGATTTACTCTACAGCCAGGCAAGCCAAGTACTGGGCTCCTCATCAGGGCAAATCAGGGACACTCCCTACAAGACATGGGTCTCGAGAGGGAGGATGGCGAGgtaagtggcaatatgtgggtgaggagtcagatcttgtttgaatgcatgaa #### Trpt1_ID1982_5 --> 2 - 1 Original Alignment gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---------g tccatagctatgcaggggaagagagagccctttccccctttaacttgcaggcATTCGACCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCACTAGCCCTCACACTTGACCAGggtaagaattgccccacagggctggctgcatcactcatgcctgtcatagaa Alignment from CESAR gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---------g tccatagctatgcaggggaagagagagccctttccccctttaacttgcaggcATTCGACCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCACTAGCCCTCACACTTGACCAGggtaagaattgccccacagggctggctgcatcactcatgcctgtcatagaa Alignment from Spaln_aa2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---------G tccatagctatgcaggggaagagagagccctttccccctttaacttgcagGCATTCGACCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCACTAGCCCTCACACTTGACCAGGgtaagaattgccccacagggctggctgcatcactcatgcctgtcatagaa Alignment from Spaln_nt2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---------G tccatagctatgcaggggaagagagagccctttccccctttaacttgcagGCATTCGACCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCACTAGCCCTCACACTTGACCAGGgtaagaattgccccacagggctggctgcatcactcatgcctgtcatagaa Alignment from Pairagon GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCT---------------------------------------------------------------- tccatagctatgcaggggaagagagagccctttccccctttaacttgcagGCATTCGACCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCACTAGCCCTCACACTTGACCAGGGTAAGAATTGCCCCACAGGGCTGGCTGCATCACTCATGCCTGTCATAGAA Alignment from Exonerate_protein2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG tccatagctatgcaggggaagagagagccctttccccctttaacttgcagGCATTCGACCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCACTAGCCCTCACACttgaccagggtaagaattgccccacagggctggctgcatcactcatgcctgtcatagaa Alignment from Exonerate_coding2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG tccatagctatgcaggggaagagagagccctttccccctttaacttgcagGCATTCGACCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCACTAGCCCTCACACttgaccagggtaagaattgccccacagggctggctgcatcactcatgcctgtcatagaa Alignment from GeneWise GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACA---------G tccatagctatgcaggggaagagagagccctttccccctttaacttgcagGCATTCGACCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCACTAGCCCTCACACTTGACCAGGgtaagaattgccccacagggctggctgcatcactcatgcctgtcatagaa #### Tsga10ip_ID978_2 --> 0 - 2 Original Alignment ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCAC---------ag aaccccagcccttgggaagagtaggaattttgtctcattttaccttctagACTAATGCCCGACTAACAGGAAATCGGCGCTTCTCCCAGGTTTTATCTGCACTGGGGGTAGATGAAGACCAGCTGCTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCGGAAGCACACCCTTATCaggtaagggggacaaggtgatctggtcttcccatgtcatacctgtgtattgt Alignment from CESAR ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCAC---------ag aaccccagcccttgggaagagtaggaattttgtctcattttaccttctagACTAATGCCCGACTAACAGGAAATCGGCGCTTCTCCCAGGTTTTATCTGCACTGGGGGTAGATGAAGACCAGCTGCTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCGGAAGCACACCCTTATCaggtaagggggacaaggtgatctggtcttcccatgtcatacctgtgtattgt Alignment from Spaln_aa2Genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAGG-------- aaccccagcccttgggaagagtaggaattttgtctcattttaccttctagACTAATGCCCGACTAACAGGAAATCGGCGCTTCTCCCAGGTTTTATCTGCACTGGGGGTAGATGAAGACCAGCTGCTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCGGAAGCACACCCTTATCAGgtaagggggacaaggtgatctggtcttcccatgtcatacctgtgtattgt Alignment from Spaln_nt2Genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACA---------G aaccccagcccttgggaagagtaggaattttgtctcattttaccttctagACTAATGCCCGACTAACAGGAAATCGGCGCTTCTCCCAGGTTTTATCTGCACTGGGGGTAGATGAAGACCAGCTGCTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCGGAAGCACACCCTTATCAGgtaagggggacaaggtgatctggtcttcccatgtcatacctgtgtattgt Alignment from Pairagon CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCA---------CAG aaccccagcccttgggaagagtaggaattttgtctcattttaccttcTAGACTAATGCCCGACTAACAGGAAATCGGCGCTTCTCCCAGGTTTTATCTGCACTGGGGGTAGATGAAGACCAGCTGCTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCGGAAGCACACCCTTATCAGgtaagggggacaaggtgatctggtcttcccatgtcatacctgtgtattgt Alignment from Exonerate_protein2genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAGGAGCAACCG aaccccagcccttgggaagagtaggaattttgtctcattttaccttctagACTAATGCCCGACTAACAGGAAATCGGCGCTTCTCCCAGGTTTTATCTGCACTGGGGGTAGATGAAGACCAGCTGCTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCGGAAGCACACCCTTATCAGgtaagggggacaaggtgatctggtcttcccatgtcatacctgtgtattgt Alignment from Exonerate_coding2genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAGGAGCAACCG aaccccagcccttgggaagagtaggaattttgtctcattttaccttctagACTAATGCCCGACTAACAGGAAATCGGCGCTTCTCCCAGGTTTTATCTGCACTGGGGGTAGATGAAGACCAGCTGCTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCGGAAGCACACCCTTATCAGgtaagggggacaaggtgatctggtcttcccatgtcatacctgtgtattgt Alignment from GeneWise CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCAC---------AG aaccccagcccttgggaagagtaggaattttgtctcattttaccttctag---ACTAATGCCCGACTAACAGGAAATCGGCGCTTCTCCCAGGTTTTATCTGCACTGGGGGTAGATGAAGACCAGCTGCTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCGGAAGCACACCCTTATCAGgtaagggggacaaggtgatctggtcttcccatgtcatacctgtgtattgt #### Tut1_ID2554_7 --> 2 - 1 Original Alignment gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg tggtcttgtaaatagctactttccaactttgcccatctcttgtgctgtaggaGGTGGCCCCCTCCTCAATAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTTCCTACTGTGGCCCAGCTAACCCAGAGG---ggtgagtagtaatggcctctacaatccggatcacagcttcactctggcaat Alignment from CESAR gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg tggtcttgtaaatagctactttccaactttgcccatctcttgtgctgtaggaGGTGGCCCCCTCCTCAATAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTTCCTACTGTGGCCCAGCTAACCCAGAGG---ggtgagtagtaatggcctctacaatccggatcacagcttcactctggcaat Alignment from Spaln_aa2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGA- tggtcttgtaaatagctactttccaactttgcccatctcttgtgctgtagGAGGTGGCCCCCTCCTCAATAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTTCCTACTGTGGCCCAGCTAACCCAGAGGGgtgagtagtaatggcctctacaatccggatcacagcttcactctggcaat Alignment from Spaln_nt2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAG tggtcttgtaaatagctactttccaactttgcccatctcttgtgctgtagGAGGTGGCCCCCTCCTCAATAACTATG---TAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTTCCTACTGTGGCCCAGCTAACCCAGAGGGgtgagtagtaatggcctctacaatccggatcacagcttcactctggcaat Alignment from Pairagon GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAG tggtcttgtaaatagctactttccaactttgcccatctcttgtgctgtagGAGGTGGCCCCCTCCTCAATAACTATG---TAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTTCCTACTGTGGCCCAGCTAACCCAGAGGGgtgagtagtaatggcctctacaatccggatcacagcttcactctggcaat Alignment from Exonerate_protein2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAG tggtcttgtaaatagctactttccaactttgcccatctcttgtgctgtagGAGGTGGCCCCCTCCTCAATAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTTCCTACTGTGGCCCAGCTAACCCAGAGGGgtgagtagtaatggcctctacaatccggatcacagcttcactctggcaat Alignment from Exonerate_coding2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAG tggtcttgtaaatagctactttccaactttgcccatctcttgtgctgtagGAGGTGGCCCCCTCCTCAATAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTTCCTACTGTGGCCCAGCTAACCCAGAGGGgtgagtagtaatggcctctacaatccggatcacagcttcactctggcaat Alignment from GeneWise GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAG tggtcttgtaaatagctactttccaactttgcccatctcttgtgctgtagGAGGTGGCCCCCTCCTCAATAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTTCCTACTGTGGCCCAGCTAACCCAGAGGGgtgagtagtaatggcctctacaatccggatcacagcttcactctggcaat #### Ubxn1_ID2438_2 --> 1 - 2 Original Alignment gGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATtg tgagcataaggggtgcgcaatatccttccttccctcttatatctccacagg------GCTCTTGCCCTCACAGGAAACCATGGCATCGAGGCTGCGATGGCTtggtaatcagacaatctgcacatttggtgggtaatggagccaatccacaagg Alignment from CESAR gGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATtg ttgtattgagcataaggggtgcgcattccttccctcttatatctccacagg------GCTCTTGCCCTCACAGGAAACCATGGCATCGAGGCTGCGATGGCTtggtaatcagacaatctgcacatttggtgggtaatggagccaatccacaagg Alignment from Spaln_aa2Genome GGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tgagcataaggggtgcgcaatatccttccttccctcttatatctccacagG------GCTCTTGCCCTCACAGGAAACCATGGCATCGAGGCTGCGATGGCTTGgtaatcagacaatctgcacatttggtgggtaatggagccaatccacaagg Alignment from Spaln_nt2Genome GGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tgagcataaggggtgcgcaatatccttccttccctcttatatctccacag------GGCTCTTGCCCTCACAGGAAACCATGGCATCGAGGCTGCGATGGCTTGgtaatcagacaatctgcacatttggtgggtaatggagccaatccacaagg Alignment from Pairagon GGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tgagcataaggggtgcgcaatatccttccttccctcttatatctccacag------GGCTCTTGCCCTCACAGGAAACCATGGCATCGAGGCTGCGATGGCTTGgtaatcagacaatctgcacatttggtgggtaatggagccaatccacaagg Alignment from Exonerate_protein2genome GGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tgagcataaggggtgcgcaatatccttccttccctcttatatctCCACAGGGCTCTTGCCCTCACAGGAAACCATGGCATCGAGGCTGCGATGGCTTGgtaatcagacaatctgcacatttggtgggtaatggagccaatccacaagg Alignment from Exonerate_coding2genome GGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tgagcataaggggtgcgcaatatccttccttccctcttatatctCCACAGGGCTCTTGCCCTCACAGGAAACCATGGCATCGAGGCTGCGATGGCTTGgtaatcagacaatctgcacatttggtgggtaatggagccaatccacaagg Alignment from GeneWise GGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tgagcataaggggtgcgcaatatccttccttccctcttatatctccacagG------GCTCTTGCCCTCACAGGAAACCATGGCATCGAGGCTGCGATGGCTTGgtaatcagacaatctgcacatttggtgggtaatggagccaatccacaagg #### Unc93b1_ID214_5 --> 1 - 0 Original Alignment gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC--------- tgagaagaagtgtggtagcaggcaggcttccctacccatttggcttgtaggATGTCCCAGAAGTACTATGAATATTCACATTACAAGGAGCAAGATGACCAAGGACCTCAACAACGCCCACCACGAGGACCCCACACACCTTTTCTCCTGGTTTTCCAGGCCAACTTTTATAGCTTCTCGCACTTTCTCCAGgtgagagtgctacaggaagccttgtgggggatgggaggcgggtatagcct Alignment from CESAR gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC--------- tgagaagaagtgtggtagcaggcaggcttccctacccatttggcttgtaggATGTCCCAGAAGTACTATGAATATTCACATTACAAGGAGCAAGATGACCAAGGACCTCAACAACGCCCACCACGAGGACCCCACACACCTTTTCTCCTGGTTTTCCAGGCCAACTTTTATAGCTTCTCGCACTTTCTCCAGgtgagagtgctacaggaagccttgtgggggatgggaggcgggtatagcct Alignment from Spaln_aa2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC--------- tgagaagaagtgtggtagcaggcaggcttccctacccatttggcttgtagGATGTCCCAGAAGTACTATGAATATTCACATTACAAGGAGCAAGATGACCAAGGACCTCAACAACGCCCACCACGAGGACCCCACACACCTTTTCTCCTGGTTTTCCAGGCCAACTTTTATAGCTTCTCGCACTTTCTCCAGgtgagagtgctacaggaagccttgtgggggatgggaggcgggtatagcct Alignment from Spaln_nt2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCT---------TCCAC tgagaagaagtgtggtagcaggcaggcttccctacccatttggcttgtagGATGTCCCAGAAGTACTATGAATATTCACATTACAAGGAGCAAGATGACCAAGGACCTCAACAACGCCCACCACGAGGACCCCACACACCTTTTCTCCTGGTTTTCCAGGCCAACTTTTATAGCTTCTCGCACTTTCTCCAGgtgagagtgctacaggaagccttgtgggggatgggaggcgggtatagcct Alignment from Pairagon GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCT---------TCCAC tgagaagaagtgtggtagcaggcaggcttccctacccatttggcttgtagGATGTCCCAGAAGTACTATGAATATTCACATTACAAGGAGCAAGATGACCAAGGACCTCAACAACGCCCACCACGAGGACCCCACACACCTTTTCTCCTGGTTTTCCAGGCCAACTTTTATAGCTTCTCGCACTTTCTCCAGgtgagagtgctacaggaagccttgtgggggatgggaggcgggtatagcct Alignment from Exonerate_protein2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC tgagaagaagtgtggtagcaggcaggcttccctacccatttggcttgtagGATGTCCCAGAAGTACTATGAATATTCACATTACAAGGAGCAAGATGACCAAGGACCTCAACAACGCCCACCACGAGGACCCCACACACCTTTTCTCCTGGTTTTCCAGGCCAACTTTTATAGCTTCTCGCACtttctccaggtgagagtgctacaggaagccttgtgggggatgggaggcgggtatagcct Alignment from Exonerate_coding2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC tgagaagaagtgtggtagcaggcaggcttccctacccatttggcttgtagGATGTCCCAGAAGTACTATGAATATTCACATTACAAGGAGCAAGATGACCAAGGACCTCAACAACGCCCACCACGAGGACCCCACACACCTTTTCTCCTGGTTTTCCAGGCCAACTTTTATAGCTTCTCGCACtttctccaggtgagagtgctacaggaagccttgtgggggatgggaggcgggtatagcct Alignment from GeneWise GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC--------- tgagaagaagtgtggtagcaggcaggcttccctacccatttggcttgtagGATGTCCCAGAAGTACTATGAATATTCACATTACAAGGAGCAAGATGACCAAGGACCTCAACAACGCCCACCACGAGGACCCCACACACCTTTTCTCCTGGTTTTCCAGGCCAACTTTTATAGCTTCTCGCACTTTCTCCAGgtgagagtgctacaggaagccttgtgggggatgggaggcgggtatagcct #### Unc93b1_ID215_6 --> 0 - 1 Original Alignment ---------------------------TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCg tgcagtgaaagtatggtgtaggcttcaaacacaggtctgtgtccctgcagGCTGAACACGGGGATATTTACGCTGAATTGAGCTTCACATGTGCTCAGCTGCCAATGATTTACTTCCTCAACAACTATCTGTATGACTTGAACCATACACTCATCAATGTACAGATATGTggtaggtctgtgggacctagaagcttggccttcgtttcttacacaattaat Alignment from CESAR tgggtatccattataggccgtgtcaaggcctatgttttttaacggaagtat Alignment from Spaln_aa2Genome -TTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG tgcagtgaaagtatggtgtaggcttcaaacacaggtctgtgtccctgcaggctgaacacggggatatttacgctgaattgagCTTCACATGTGCTCAGCTGCCAATGATTTACTTCCTCAACAACTATCTGTATGACTTGAACCATACACTCATCAATGTACAGATATGTGgtaggtctgtgggacctagaagcttggccttcgtttcttacacaattaat Alignment from Spaln_nt2Genome CTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG tgcagtgaaagtatggtgtaggcttcaaacacaggtctgtgtccctgcaggctgaacacggggatatttacgctgaattgagCTTCACATGTGCTCAGCTGCCAATGATTTACTTCCTCAACAACTATCTGTATGACTTGAACCATACACTCATCAATGTACAGATATGTGgtaggtctgtgggacctagaagcttggccttcgtttcttacacaattaat Alignment from Pairagon ---------------------------TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG tgcagtgaaagtatggtgtaggcttcaaacacaggtctgtgtccctgcagGCTGAACACGGGGATATTTACGCTGAATTGAGCTTCACATGTGCTCAGCTGCCAATGATTTACTTCCTCAACAACTATCTGTATGACTTGAACCATACACTCATCAATGTACAGATATGTGgtaggtctgtgggacctagaagcttggccttcgtttcttacacaattaat Alignment from Exonerate_protein2genome TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG tgcagtgaaagtatggtgtaggcttcaaacacaggtctgtgtccctgcaggctgaacacggggatatttacgctgaaTTGAGCTTCACATGTGCTCAGCTGCCAATGATTTACTTCCTCAACAACTATCTGTATGACTTGAACCATACACTCATCAATGTACAGATATGTGgtaggtctgtgggacctagaagcttggccttcgtttcttacacaattaat Alignment from Exonerate_coding2genome TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG tgcagtgaaagtatggtgtaggcttcaaacacaggtctgtgtccctgcaggctgaacacggggatatttacgctgaaTTGAGCTTCACATGTGCTCAGCTGCCAATGATTTACTTCCTCAACAACTATCTGTATGACTTGAACCATACACTCATCAATGTACAGATATGTGgtaggtctgtgggacctagaagcttggccttcgtttcttacacaattaat Alignment from GeneWise ---------------------------TTGAGCTTCGCGTGTGCCCAGCTGCCCATGATTTACTTCCTCAACAACTACCTGTATGACCTGAACCACACACTGATCAACGTGCAGAGCTGCG tgcagtgaaagtatggtgtaggcttcaaacacaggtctgtgtccctgcagGCTGAACACGGGGATATTTACGCTGAATTGAGCTTCACATGTGCTCAGCTGCCAATGATTTACTTCCTCAACAACTATCTGTATGACTTGAACCATACACTCATCAATGTACAGATATGTGgtaggtctgtgggacctagaagcttggccttcgtttcttacacaattaat #### Vegfb_ID1957_3 --> 2 - 0 Original Alignment tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gaaatgaaaagatggaaaggtttcaaggtttgtacatgctttgtgtgcagtgGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTC---------gtaagtgatcttcgtgaacaagtatgagtgcaagtactaagaagtacggg Alignment from CESAR tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gaaatgaaaagatggaaaggtttcaaggtttgtacatgctttgtgtgcagtgGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTC---------gtaagtgatcttcgtgaacaagtatgagtgcaagtactaag Alignment from Spaln_aa2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTC------------CGAATGCAG gaaatgaaaagatggaaaggtttcaaggtttgtacatgctttgtgtgcagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCGTAAGTGATCTTCGTGAACAAgtatgagtgcaagtactaagaagtacggg Alignment from Spaln_nt2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAA gaaatgaaaagatggaaaggtttcaaggtttgtacatgctttgtgtgcagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCGTAAgtgatcttcgtgaacaagtatgagtgcaagtactaagaagtacggg Alignment from Pairagon TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTC gaaatgaaaagatggaaaggtttcaaggtttgtacatgctttgtgtgcagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCgtaagtgatcttcgtgaacaagtatgagtgcaagtactaagaagtacggg Alignment from Exonerate_protein2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gaaatgaaaagatggaaaggtttcaaggtttgtacatgctttgtgtgcagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCGTAAGTGATcttcgtgaacaagtatgagtgcaagtactaagaagtacggg Alignment from Exonerate_coding2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gaaatgaaaagatggaaaggtttcaaggtttgtacatgctttgtgtgcagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCGTAAGTGATcttcgtgaacaagtatgagtgcaagtactaagaagtacggg Alignment from GeneWise TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTC------------CGAATGCAG gaaatgaaaagatggaaaggtttcaaggtttgtacatgctttgtgtgcagTGGTGCCATGGATAGATGTCTATGCACGTGCTGCATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCGTAAGTGATCTTCGTGAACAAgtatgagtgcaagtactaagaagtacggg #### Vldlr_ID5807_6 --> 2 - 1 Original Alignment ctTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACg cgggcacttgcctccttctttccctgtctttcttttccctccccacacagct------ACCTGCAGACCTGATCATTTTGAATGTGAAGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGCATCCAGGACTGTGTTGATGGATCTGATGAAGTAAACTGTAGAAACagtcatcgtctctttttgattgagtggggctgcacctctgtcagaagagca Alignment from CESAR ctTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACg cagaagcgggcacttgcctccttctgtctttcttttccctccccacacagct------ACCTGCAGACCTGATCATTTTGAATGTGAAGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGCATCCAGGACTGTGTTGATGGATCTGATGAAGTAAACTGTAGAAACagtcatcgtctctttttgattgagtggggctgcacctctgtcagaagagca Alignment from Spaln_aa2Genome GAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cgggcacttgcctccttctttccctgtctttcttttccctccccacacagCTACCTGCAGACCTGATCATTTTGAATGTGAAGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGCATCCAGGACTGTGTTGATGGATCTGATGAAGTAAACTGTAGAAACAgtcatcgtctctttttgattgagtggggctgcacctctgtcagaagagca Alignment from Spaln_nt2Genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cgggcacttgcctccttctttccctgtctttcttttccctccccacacagCT------ACCTGCAGACCTGATCATTTTGAATGTGAAGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGCATCCAGGACTGTGTTGATGGATCTGATGAAGTAAACTGTAGAAACAgtcatcgtctctttttgattgagtggggctgcacctctgtcagaagagca Alignment from Pairagon CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cgggcacttgcctccttctttccctgtctttcttttccctccccacacagCT------ACCTGCAGACCTGATCATTTTGAATGTGAAGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGCATCCAGGACTGTGTTGATGGATCTGATGAAGTAAACTGTAGAAACAgtcatcgtctctttttgattgagtggggctgcacctctgtcagaagagca Alignment from Exonerate_protein2genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cgggcacttgcctccttctttccctgtctttcttttccctccccACACAGCTACCTGCAGACCTGATCATTTTGAATGTGAAGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGCATCCAGGACTGTGTTGATGGATCTGATGAAGTAAACTGTAGAAACAgtcatcgtctctttttgattgagtggggctgcacctctgtcagaagagca Alignment from Exonerate_coding2genome CTTCTCGAACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cgggcacttgcctccttctttccctgtctttcttttccctccccACACAGCTACCTGCAGACCTGATCATTTTGAATGTGAAGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGCATCCAGGACTGTGTTGATGGATCTGATGAAGTAAACTGTAGAAACAgtcatcgtctctttttgattgagtggggctgcacctctgtcagaagagca Alignment from GeneWise --ACCTGCCGACCTGACCAGTTTGAATGTGAAGATGGTAGCTGTATCCACGGCAGCAGGCAATGCAATGGCATCCGAGACTGTGTTGATGGCTCTGATGAAGTCAACTGCAAAAACG cgggcacttgcctccttctttccctgtctttcttttccctccccacacagCTACCTGCAGACCTGATCATTTTGAATGTGAAGATGGTACTTGCATCCATGGTAGCAGACAATGCAATGGCATCCAGGACTGTGTTGATGGATCTGATGAAGTAAACTGTAGAAACAgtcatcgtctctttttgattgagtggggctgcacctctgtcagaagagca #### Vldlr_ID5811_10 --> 2 - 2 Original Alignment gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag caacagaatttgcctacaagcaaaaacaacatttttttctactttgacaggcAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTTTTT------------------------------aggtttgttccatctgcctccctaatgtctggcaagcaatctcatctaagtg Alignment from CESAR gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag caacagaatttgcctacaagcaaaaacaacatttttttctactttgacaggcAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTTTTT------------------------------aggtttgttccatctgcctccctaatgtctggcaagcaatctcatctaagtg Alignment from Spaln_aa2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCT caacagaatttgcctacaagcaaaaacaacatttttttctactttgacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTTTTTAGGTTTgttccatctgcctccctaatgtctggcaagcaatctcatctaagtg Alignment from Spaln_nt2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTG caacagaatttgcctacaagcaaaaacaacatttttttctactttgacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTTTTTAGgtttgttccatctgcctccctaatgtctggcaagcaatctcatctaagtg Alignment from Pairagon GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG caacagaatttgcctacaagcaaaaacaacatttttttctactttgacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTTTTT------------------------------AGgtttgttccatctgcctccctaatgtctggcaagcaatctcatctaagtg Alignment from Exonerate_protein2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAG caacagaatttgcctacaagcaaaaacaacatttttttctactttgacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTTTTTAGGTTTGTTCCATCTGCCTCCctaatgtctggcaagcaatctcatctaagtg Alignment from Exonerate_coding2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAG caacagaatttgcctacaagcaaaaacaacatttttttctactttgacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTTTTTAGGTTTGTTCCATCTGCCTCCctaatgtctggcaagcaatctcatctaagtg Alignment from GeneWise GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTT-- caacagaatttgcctacaagcaaaaacaacatttttttctactttgacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTTTTTAGgtttgttccatctgcctccctaatgtctggcaagcaatctcatctaagtg #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------- gcacaagtgtgaggagaaagtagctaaaaacttattctttctttttttagacCTGGTGAAAAGCCGTCTCTATTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATTGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGCGACTGAACgtgagtcttatgctatatgtgcatgtatgaaccagttctagggaagagag Alignment from CESAR acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------- gcacaagtgtgaggagaaagtagctaaaaacttattctttctttttttagacCTGGTGAAAAGCCGTCTCTATTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATTGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGCGACTGAACgtgagtcttatgctatatgtgcatgtatgaaccagttctagggaagagag Alignment from Spaln_aa2Genome CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------- caagtgtgaggagaaagtagctaaaaacttattctttcttttttta gACCTGGTGAAAAGCCGTCTCTATTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATTGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGCGACTGAACgtgagtcttatgctatatgtgcatgtatgaaccagttctagggaagagag Alignment from Spaln_nt2Genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------- gcacaagtgtgaggagaaagtagctaaaaacttattctttctttttttagACCTGGTGAAAAGCCGTCTCTATTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATTGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGCGACTGAACgtgagtcttatgctatatgtgcatgtatgaaccagttctagggaagagag Alignment from Pairagon ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------- gcacaagtgtgaggagaaagtagctaaaaacttattctttctttttttagACCTGGTGAAAAGCCGTCTCTATTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATTGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGCGACTGAACgtgagtcttatgctatatgtgcatgtatgaaccagttctagggaagagag Alignment from Exonerate_protein2genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATAT gcacaagtgtgaggagaaagtagctaaaaacttattctttctttttttagACCTGGTGAAAAGCCGTCTCTATTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATTGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATttgagcgactgaacgtgagtcttatgctatatgtgcatgtatgaaccagttctagggaagagag Alignment from Exonerate_coding2genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATAT gcacaagtgtgaggagaaagtagctaaaaacttattctttctttttttagACCTGGTGAAAAGCCGTCTCTATTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATTGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATttgagcgactgaacgtgagtcttatgctatatgtgcatgtatgaaccagttctagggaagagag Alignment from GeneWise -----------------------CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------- gcacaagtgtgaggagaaagtagCTAAAAACTTATTCTTTCTTTTTTTAGACCTGGTGAAAAGCCGTCTCTATTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATTGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCCCTCACTATATTTGAGCGACTGAACgtgagtcttatgctatatgtgcatgtatgaaccagttctagggaagagag #### Vldlr_ID5818_17 --> 2 - 1 Original Alignment ggATCAATGTGACCACAGCAGTATCAGAAGTCAGTGTTCCCCCAAAAGGGACTTCAGCTGCCTGGGCCATCCTTCCTCTC---------t ctgctattagtccataaccctaggaatcattttattcttttgtattgcagggATTAATGTTACCACAGCAGTATCAGAAGTGAGCGTTCCCCCAAAAGGGACTTCAGCCGCCTGGGCCATCCTTCCTCTCGGCGTCTTTtgtaagtatatatgttaagaactcaatctacacaagagcacctcatcagcc Alignment from CESAR ggATCAATGTGACCACAGCAGTATCAGAAGTCAGTGTTCCCCCAAAAGGGACTTCAGCTGCCTGGGCCATCCTTCCTCTC---------t ctgctattagtccataaccctaggaatcattttattcttttgtattgcagggATTAATGTTACCACAGCAGTATCAGAAGTGAGCGTTCCCCCAAAAGGGACTTCAGCCGCCTGGGCCATCCTTCCTCTCGGCGTCTTTtgtaagtatatatgttaagaactcaatctacacaagagcacctcatcagcc Alignment from Spaln_aa2Genome GGATCAATGTGACCACAGCAGTATCAGAAGTCAGTGTTCCCCCAAAAGGGACTTCAGCTGCCTGGGCCATCCTTCCTCTCT ctgctattagtccataaccctaggaatcattttattcttttgtattgcagGGATTAATGTTACCACAGCAGTATCAGAAGTGAGCGTTCCCCCAAAAGGGACTTCAGCCGCCTGGGCCATCCTTCCTCTCGgcgtcttttgtaagtatatatgttaagaactcaatctacacaagagcacctcatcagcc Alignment from Spaln_nt2Genome GGATCAATGTGACCACAGCAGTATCAGAAGTCAGTGTTCCCCCAAAAGGGACTTCAGCTGCCTGGGCCATCCTTCCTCTC---------T ctgctattagtccataaccctaggaatcattttattcttttgtattgcagGGATTAATGTTACCACAGCAGTATCAGAAGTGAGCGTTCCCCCAAAAGGGACTTCAGCCGCCTGGGCCATCCTTCCTCTCGGCGTCTTTTgtaagtatatatgttaagaactcaatctacacaagagcacctcatcagcc Alignment from Pairagon GGATCAATGTGACCACAGCAGTATCAGAAGTCAGTGTTCCCCCAAAAGGGACTTCAGCTGCCTGGGCCATCCTTCCTCTC---------T ctgctattagtccataaccctaggaatcattttattcttttgtattgcagGGATTAATGTTACCACAGCAGTATCAGAAGTGAGCGTTCCCCCAAAAGGGACTTCAGCCGCCTGGGCCATCCTTCCTCTCGGCGTCTTTTgtaagtatatatgttaagaactcaatctacacaagagcacctcatcagcc Alignment from Exonerate_protein2genome GGATCAATGTGACCACAGCAGTATCAGAAGTCAGTGTTCCCCCAAAAGGGACTTCAGCTGCCTGGGCCATCCTTCCTCTCTTGCTCTTAG ctgctattagtccataaccctaggaatcattttattcttttgtattgcagGGATTAATGTTACCACAGCAGTATCAGAAGTGAGCGTTCCCCCAAAAGGGACTTCAGCCGCCTGGGCCATCCTTCCTCTCGGCGTCTTTTgtaagtatatatgttaagaactcaatctacacaagagcacctcatcagcc Alignment from Exonerate_coding2genome GGATCAATGTGACCACAGCAGTATCAGAAGTCAGTGTTCCCCCAAAAGGGACTTCAGCTGCCTGGGCCATCCTTCCTCTCTTGCTCTTAG ctgctattagtccataaccctaggaatcattttattcttttgtattgcagGGATTAATGTTACCACAGCAGTATCAGAAGTGAGCGTTCCCCCAAAAGGGACTTCAGCCGCCTGGGCCATCCTTCCTCTCGGCGTCTTTTgtaagtatatatgttaagaactcaatctacacaagagcacctcatcagcc Alignment from GeneWise GGATCAATGTGACCACAGCAGTATCAGAAGTCAGTGTTCCCCCAAAAGGGACTTCAGCTGCCTGGGCCATCCTTCCTCTC---------T ctgctattagtccataaccctaggaatcattttattcttttgtattgcagGGATTAATGTTACCACAGCAGTATCAGAAGTGAGCGTTCCCCCAAAAGGGACTTCAGCCGCCTGGGCCATCCTTCCTCTCGGCGTCTTTTgtaagtatatatgttaagaactcaatctacacaagagcacctcatcagcc #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT caccagtgatgactgggccattgtctgagtccatattttgttcactacaggtGGGCTAGCTAGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGA------------------------------------gtatgtttcccctgagtttgggactgcagcagcagactctcgttacgacc Alignment from CESAR gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT caccagtgatgactgggccattgtctgagtccatattttgttcactacaggtGGGCTAGCTAGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGA------------------------------------gtatgtttcccctg Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGA caccagtgatgactgggccattgtctgagtccatattttgttcactacagGTGGGCTAGCTAGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAgtatgtttcccctgagtttgggactgcagcagcagactctcgttacgacc Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGA caccagtgatgactgggccattgtctgagtccatattttgttcactacagGTGGGCTAGCTAGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGTATGTTTCCCCTGAgtttgggactgcagcagcagactctcgttacgacc Alignment from Pairagon GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGA caccagtgatgactgggccattgtctgagtccatattttgttcactacagGTGGGCTAGCTAGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAgtatgtttcccctgagtttgggactgcagcagcagactctcgttacgacc Alignment from Exonerate_protein2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGA caccagtgatgactgggccattgtctgagtccatattttgttcactacagGTGGGCTAGCTAGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAgtatgtttcccctgagtttgggactgcagcagcagactctcgttacgacc Alignment from Exonerate_coding2genome GTTGGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT caccagtgatgactgggccattgtctgagtccatattttgttcactacag----GTGGGCTAGCTAGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGTATGTTTCCCCTGAGTTTGGGACTGCAGCAGCAGActctcgttacgacc Alignment from GeneWise GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT caccagtgatgactgggccattgtctgagtccatattttgttcactacagGTGGGCTAGCTAGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTA------------------------------------CGAgtatgtttcccctgagtttgggactgcagcagcagactctcgttacgacc #### Vps13a_ID4059_64 --> 0 - 1 Original Alignment GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg cacagtgatgtcactccaggtctttattcctcactctgcctcccccgcagGGGGCTATCCAAGGTCCTGAAGAATTTGTGGCGGGAATGGCATTAGGATTAAAAGCACTAGTTGGTGGAGCC---ggtctgtagcagcaagagaactagtgacactagtcacaccagtgatgactg Alignment from CESAR GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg cacagtgatgtcactccaggtctttattcctcactctgcctcccccgcagGGGGCTATCCAAGGTCCTGAAGAATTTGTGGCGGGAATGGCATTAGGATTAAAAGCACTAGTTGGTGGAGCC---ggtctgtagcagcaagagaactagtgacactagtcacaccagtgatgactg Alignment from Spaln_aa2Genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCC- cacagtgatgtcactccaggtctttattcctcactctgcctcccccgcagGGGGCTATCCAAGGTCCTGAAGAATTTGTGGCGGGAATGGCATTAGGATTAAAAGCACTAGTTGGTGGAGCCGgtctgtagcagcaagagaactagtgacactagtcacaccagtgatgactg Alignment from Spaln_nt2Genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCG cacagtgatgtcactccaggtctttattcctcactctgcctcccccgcagGGGGCTATCCAAGGTCCTGAAGAATTTGTGGCGGGAATGGCATTAGGATTAAAAGCACTAGTTGGTGGAGCCGgtctgtagcagcaagagaactagtgacactagtcacaccagtgatgactg Alignment from Pairagon GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTT------------------------------------------------ cacagtgatgtcactccaggtctttattcctcactctgcctcccccgcagGGGGCTATCCAAGGTCCTGAAGAATTTGTGGCGGGAATGGCATTAGGATTAAAAGCACTAGTTGGTGGAGCCGGTCTGTAGCAGCAAGAGAACTAGTGACACTAGTCACACCAGTGATGACTG Alignment from Exonerate_protein2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG cacagtgatgtcactccaggtctttattcctcactctgcctcccccgcagGGGGCTATCCAAGGTCCTGAAGAATTTGTGGCGGGAATGGCATTAGGATTAAAAGCACTAGTTGGTGGAGCC---Ggtctgtagcagcaagagaactagtgacactagtcacaccagtgatgactg Alignment from Exonerate_coding2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG cacagtgatgtcactccaggtctttattcctcactctgcctcccccgcagGGGGCTATCCAAGGTCCTGAAGAATTTGTGGCGGGAATGGCATTAGGATTAAAAGCACTAGTTGGTGGAGCC---Ggtctgtagcagcaagagaactagtgacactagtcacaccagtgatgactg Alignment from GeneWise GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCG cacagtgatgtcactccaggtctttattcctcactctgcctcccccgcagGGGGCTATCCAAGGTCCTGAAGAATTTGTGGCGGGAATGGCATTAGGATTAAAAGCACTAGTTGGTGGAGCCGgtctgtagcagcaagagaactagtgacactagtcacaccagtgatgactg #### Vps13a_ID4074_49 --> 0 - 0 Original Alignment ---------GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA tagaaatattttattcattaattgtaggcctgtctcacatcctgtttcagTTAACAGAAGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGTAAAGGTCTGAAAATGGAATACCAAgtaagtttctcctgtgccttaaggaacttctggatacagtatagctacca Alignment from CESAR ---------GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA tagaaatattttattcattaattgtaggcctgtctcacatcctgtttcagTTAACAGAAGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGTAAAGGTCTGAAAATGGAATACCAAgtaagtttctcctgtgccttaaggaacttctggatacagtatagctacca Alignment from Spaln_aa2Genome GTTCAGCTTATGGTA---------ACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA tagaaatattttattcattaattgtaggcctgtctcacatcctgtttcagTTAACAGAAGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGTAAAGGTCTGAAAATGGAATACCAAgtaagtttctcctgtgccttaaggaacttctggatacagtatagctacca Alignment from Spaln_nt2Genome AGGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA tagaaatattttattcattaattgtaggcctgtctcacatcctgtttcagttaacagAAGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGTAAAGGTCTGAAAATGGAATACCAAgtaagtttctcctgtgccttaaggaacttctggatacagtatagctacca Alignment from Pairagon ---------GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA tagaaatattttattcattaattgtaggcctgtctcacatcctgtttcagTTAACAGAAGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGTAAAGGTCTGAAAATGGAATACCAAgtaagtttctcctgtgccttaaggaacttctggatacagtatagctacca Alignment from Exonerate_protein2genome GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA tagaaatattttattcattaattgtaggcctgtctcacatcctgtttcagttaacagaaGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGTAAAGGTCTGAAAATGGAATACCAAgtaagtttctcctgtgccttaaggaacttctggatacagtatagctacca Alignment from Exonerate_coding2genome GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA tagaaatattttattcattaattgtaggcctgtctcacatcctgtttcagttaacagaaGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGTAAAGGTCTGAAAATGGAATACCAAgtaagtttctcctgtgccttaaggaacttctggatacagtatagctacca Alignment from GeneWise ---------GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA tagaaatattttattcattaattgtaggcctgtctcacatcctgtttcagTTAACAGAAGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGTAAAGGTCTGAAAATGGAATACCAAgtaagtttctcctgtgccttaaggaacttctggatacagtatagctacca #### Vps13a_ID4119_4 --> 2 - 1 Original Alignment gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCT---------a ctcccttcataaaaacccagaaagtattatttgtgtctgcccgtctctaggtAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTGGAAAAAACagtaaggcacttaaagttaataatatagcttattcccagatttaaaatttg Alignment from CESAR gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCT---------a ctcccttcataaaaacccagaaagtattatttgtgtctgcccgtctctaggtAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTGGAAAAAACagtaaggcacttaaagttaataatatagcttattcccagatttaaaatttg Alignment from Spaln_aa2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCT---------A ctcccttcataaaaacccagaaagtattatttgtgtctgcccgtctctagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTGGAAAAAACAgtaaggcacttaaagttaataatatagcttattcccagatttaaaatttg Alignment from Spaln_nt2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCT---------A ctcccttcataaaaacccagaaagtattatttgtgtctgcccgtctctagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTGGAAAAAACAgtaaggcacttaaagttaataatatagcttattcccagatttaaaatttg Alignment from Pairagon GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCT---------A ctcccttcataaaaacccagaaagtattatttgtgtctgcccgtctctagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTGGAAAAAACAgtaaggcacttaaagttaataatatagcttattcccagatttaaaatttg Alignment from Exonerate_protein2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ctcccttcataaaaacccagaaagtattatttgtgtctgcccgtctctagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTGgaaaaaacagtaaggcacttaaagttaataatatagcttattcccagatttaaaatttg Alignment from Exonerate_coding2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ctcccttcataaaaacccagaaagtattatttgtgtctgcccgtctctagGTAGCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTGgaaaaaacagtaaggcacttaaagttaataatatagcttattcccagatttaaaatttg Alignment from GeneWise TCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCT---------A ctcccttcataaaaacccagaaagtattatttgtgtctgcccgtctctaggtagCCTTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTGGAAAAAACAgtaaggcacttaaagttaataatatagcttattcccagatttaaaatttg #### Vwce_ID2948_3 --> 2 - 1 Original Alignment ccCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAg tcctcatttatctgtgcaactaaaatttagcctgctcttttccttttcagccCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGTCAGGATGGAGAGCAAGGGGCCACGTGC---ggtgaggggtgtcgtgaaagagagcagacatgatcgtctaaataatatgga Alignment from CESAR ccCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAg tcctcatttatctgtgcaactaaaatttagcctgctcttttccttttcagccCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGTCAGGATGGAGAGCAAGGGGCCACGTGC---ggtgaggggtgtcgtgaaagagagcagacatgatcgtctaaataatatgga Alignment from Spaln_aa2Genome CTGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tcatttatctgtgcaactaaaatttagcctgctcttttccttttca gCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGTCAGGATGGAGAGCAAGGGGCCACGTGC---Ggtgaggggtgtcgtgaaagagagcagacatgatcgtctaaataatatgga Alignment from Spaln_nt2Genome TGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCC tcctcatttatctgtgcaactaaaatttagcctgctcttttccttttcag---CCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGTCAGGATGGAGAGCAAGGGGCCACGTGCGgtgaggggtgtcgtgaaagagagcagacatgatcgtctaaataatatgga Alignment from Pairagon TGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tcctcatttatctgtgcaactaaaatttagcctgctcttttccttttcag---CCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGTCAGGATGGAGAGCAAGGGGCCACGTGC---Ggtgaggggtgtcgtgaaagagagcagacatgatcgtctaaataatatgga Alignment from Exonerate_protein2genome CCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tcctcatttatctgtgcaactaaaatttagcctgctcttttccttttcagCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGTCAGGATGGAGAGCAAGGGGCCACGTGC---Ggtgaggggtgtcgtgaaagagagcagacatgatcgtctaaataatatgga Alignment from Exonerate_coding2genome CCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tcctcatttatctgtgcaactaaaatttagcctgctcttttccttttcagCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGTCAGGATGGAGAGCAAGGGGCCACGTGC---Ggtgaggggtgtcgtgaaagagagcagacatgatcgtctaaataatatgga Alignment from GeneWise TGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGAAGCC- tcctcatttatctgtgcaactaaaatttagcctgctcttttccttttcagCC---CTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGTCAGGATGGAGAGCAAGGGGCCACGTGCGGTGAGGGGTgtcgtgaaagagagcagacatgatcgtctaaataatatgga #### Wdr74_ID2318_8 --> 1 - 1 Original Alignment tTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAg ctaggaatcgcactgatccttatgaaaggaaattgaactcatttttatagt---------GTAGGGAACACTCATGGGCAACTGGCAGAAATTGACTTTCGGCAAggtaagaataccatagatttcttgagaaggaaagtaaacgaggggtcacta Alignment from CESAR tTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAg aaatgggatctaggaatcgcactgaaaggaaattgaactcatttttatagt---------GTAGGGAACACTCATGGGCAACTGGCAGAAATTGACTTTCGGCAAggtaagaataccatagatttcttgagaaggaaagtaaacgaggggtcacta Alignment from Spaln_aa2Genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG ctaggaatcgcactgatccttatgaaaggaaattgaactcatttttatagT---------GTAGGGAACACTCATGGGCAACTGGCAGAAATTGACTTTCGGCAAGgtaagaataccatagatttcttgagaaggaaagtaaacgaggggtcacta Alignment from Spaln_nt2Genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG ctaggaatcgcactgatccttatgaaaggaaattgaactcatttttatagT---------GTAGGGAACACTCATGGGCAACTGGCAGAAATTGACTTTCGGCAAGgtaagaataccatagatttcttgagaaggaaagtaaacgaggggtcacta Alignment from Pairagon TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG ctaggaatcgcactgatccttatgaaaggaaattgaactcatttttatagT---------GTAGGGAACACTCATGGGCAACTGGCAGAAATTGACTTTCGGCAAGgtaagaataccatagatttcttgagaaggaaagtaaacgaggggtcacta Alignment from Exonerate_protein2genome GGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG ctaggaatcgcactgatccttatgaaaggaaattgaactcatttttatagtgtagGGAACACTCATGGGCAACTGGCAGAAATTGACTTTCGGCAAGgtaagaataccatagatttcttgagaaggaaagtaaacgaggggtcacta Alignment from Exonerate_coding2genome GGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG ctaggaatcgcactgatccttatgaaaggaaattgaactcatttttatagtgtagGGAACACTCATGGGCAACTGGCAGAAATTGACTTTCGGCAAGgtaagaataccatagatttcttgagaaggaaagtaaacgaggggtcacta Alignment from GeneWise CGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG ctaggaatcgcactgatccttatgaaaggaaattgaactcatttttatagTGTAGGGAACACTCATGGGCAACTGGCAGAAATTGACTTTCGGCAAGgtaagaataccatagatttcttgagaaggaaagtaaacgaggggtcacta #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment gg---------------------------CGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gtgtaagattggctaatcagccaataccaatttgaccctcttgctcacaggtTTTGGGAGGAAGCTCATCTTCACGTGCAGACTAGTGGGCTGTCTGAAGGGCCTTGCAGGTAGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATATACAGGATCCGCAATCCATGTGGTCTAGAGCATAAGgtaagtgcccaaactttgtgctagccgcactaacttacatttgctggaac Alignment from CESAR gg---------------------------CGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gtgtaagattggctaatcagccaataccaatttgaccctcttgctcacaggtTTTGGGAGGAAGCTCATCTTCACGTGCAGACTAGTGGGCTGTCTGAAGGGCCTTGCAGGTAGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATATACAGGATCCGCAATCCATGTGGTCTAGAGCATAAGgtaagtgcccaaactttgtgctagccgcactaacttacatttgctggaac Alignment from Spaln_aa2Genome TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gtgtaagattggctaatcagccaataccaatttgaccctcttgctcacaggttttgggaggaagctcatcttcacgtgcagACTAGTGGGCTGTCTGAAGGGCCTTGCAGGTAGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATATACAGGATCCGCAATCCATGTGGTCTAGAGCATAAGgtaagtgcccaaactttgtgctagccgcactaacttacatttgctggaac Alignment from Spaln_nt2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gtgtaagattggctaatcagccaataccaatttgaccctcttgctcacaggttttgggaggaagctcatcttcacgtgcag----ACTAGTGGGCTGTCTGAAGGGCCTTGCAGGTAGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATATACAGGATCCGCAATCCATGTGGTCTAGAGCATAAGgtaagtgcccaaactttgtgctagccgcactaacttacatttgctggaac Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gtgtaagattggctaatcagccaataccaatttgaccctcttgctcacaggttttgggaggaagctcatcttcacgtgcag----ACTAGTGGGCTGTCTGAAGGGCCTTGCAGGTAGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATATACAGGATCCGCAATCCATGTGGTCTAGAGCATAAGgtaagtgcccaaactttgtgctagccgcactaacttacatttgctggaac Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gtgtaagattggctaatcagccaataccaatttgaccctcttgctcacaggttttgggaggaagctcatcttcacgtGCAGACTAGTGGGCTGTCTGAAGGGCCTTGCAGGTAGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATATACAGGATCCGCAATCCATGTGGTCTAGAGCATAAGgtaagtgcccaaactttgtgctagccgcactaacttacatttgctggaac Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gtgtaagattggctaatcagccaataccaatttgaccctcttgctcacaggttttgggaggaagctcatcttcacgtGCAGACTAGTGGGCTGTCTGAAGGGCCTTGCAGGTAGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATATACAGGATCCGCAATCCATGTGGTCTAGAGCATAAGgtaagtgcccaaactttgtgctagccgcactaacttacatttgctggaac Alignment from GeneWise TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gtgtaagattggctaatcagccaataccaatttgaccctcttgctcacaggttttgggaggaagctcatcttcacgtgcagACTAGTGGGCTGTCTGAAGGGCCTTGCAGGTAGTGTTCGTGGGCTGCACTGCCATCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAATATTGAGGATATACAGGATCCGCAATCCATGTGGTCTAGAGCATAAGgtaagtgcccaaactttgtgctagccgcactaacttacatttgctggaac #### Wdr74_ID2320_10 --> 0 - 0 Original Alignment GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gtgtctgggaaagggactatatacacttaatgaatgtccttttattttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATAAC------gtaggcctctcagaataagtaataagtgtgagggatttagagacatacct Alignment from CESAR GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gtgtctgggaaagggactatatacacttaatgaatgtccttttattttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATAAC------gtaggcctctcagaataagtaataagtgtgagggatttagagac Alignment from Spaln_aa2Genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAAC gtgtctgggaaagggactatatacacttaatgaatgtccttttattttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATAACgtaggcctctcagaataagtaataagtgtgagggatttagagacatacct Alignment from Spaln_nt2Genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGA gtgtctgggaaagggactatatacacttaatgaatgtccttttattttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATAACGTAG-gcctctcagaataagtaataagtgtgagggatttagagacatacc Alignment from Pairagon GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAAC gtgtctgggaaagggactatatacacttaatgaatgtccttttattttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATAACgtaggcctctcagaataagtaataagtgtgagggatttagagacatacct Alignment from Exonerate_protein2genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAAC gtgtctgggaaagggactatatacacttaatgaatgtccttttattttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATAACgtaggcctctcagaataagtaataagtgtgagggatttagagacatacct Alignment from Exonerate_coding2genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAAC gtgtctgggaaagggactatatacacttaatgaatgtccttttattttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATAACgtaggcctctcagaataagtaataagtgtgagggatttagagacatacct Alignment from GeneWise GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gtgtctgggaaagggactatatacacttaatgaatgtccttttattttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGAT------AACgtaggcctctcagaataagtaataagtgtgagggatttagagacatacct #### Yif1a_ID835_7 --> 1 - 0 Original Alignment gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT tttgctcactgcattcctaattcactcatgtgatctggcgtttcttccaggATGATCTTGAGTGTGCTTACAGCACTGCTCTTTGGCAGTGACAGCTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATG---------gtcagtgtgatgaattgggggtggccctggcccccctcctctgattctct Alignment from CESAR gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT tttgctcactgcattcctaattcactcatgtgatctggcgtttcttccaggATGATCTTGAGTGTGCTTACAGCACTGCTCTTTGGCAGTGACAGCTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATG---------gtcagtgtgatgaattgggggtggccctggcccccctcctc Alignment from Spaln_aa2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT tttgctcactgcattcctaattcactcatgtgatctggcgtttcttccagGATGATCTTGAGTGTGCTTACAGCACTGCTCTTTGGCAGTGACAGCTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATG---GTCAGTgtgatgaattgggggtggccctggcccccctcctctgattc Alignment from Spaln_nt2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT tttgctcactgcattcctaattcactcatgtgatctggcgtttcttccagGATGATCTTGAGTGTGCTTACAGCACTGCTCTTTGGCAGTGACAGCTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATG---GTCAGTgtgatgaattgggggtggccctggcccccctcctctgattc Alignment from Pairagon GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATG tttgctcactgcattcctaattcactcatgtgatctggcgtttcttccagGATGATCTTGAGTGTGCTTACAGCACTGCTCTTTGGCAGTGACAGCTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGgtcagtgtgatgaattgggggtggccctggcccccctcctctgattctct Alignment from Exonerate_protein2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT tttgctcactgcattcctaattcactcatgtgatctggcgtttcttccagGATGATCTTGAGTGTGCTTACAGCACTGCTCTTTGGCAGTGACAGCTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGGTCAGTGTGatgaattgggggtggccctggcccccctcctctgattctct Alignment from Exonerate_coding2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT tttgctcactgcattcctaattcactcatgtgatctggcgtttcttccagGATGATCTTGAGTGTGCTTACAGCACTGCTCTTTGGCAGTGACAGCTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGGTCAGTGTGatgaattgggggtggccctggcccccctcctctgattctct Alignment from GeneWise GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT tttgctcactgcattcctaattcactcatgtgatctggcgtttcttccagGATGATCTTGAGTGTGCTTACAGCACTGCTCTTTGGCAGTGACAGCTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATG---GTCAGTgtgatgaattgggggtggccctggcccccctcctctgattc #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tcctagtagcctttccaatttcatcaacttttaatgtatctttattgtag------------CTAGTGATTGTGTTGCCTGGTTCTATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCTCAGgtgagtctccatagtgtaaggcaagagacaatgctggctgctatgctagc Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG ctcactactacttcctagtagccttaacttttaatgtatctttattgtag------------CTAGTGATTGTGTTGCCTGGTTCTATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCTCAGgtgagtctccatagtgtaaggcaagagacaatgctggctgctatgctagc Alignment from Spaln_aa2Genome CTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tcctagtagcctttccaatttcatcaacttttaatgtatctttattgtagCTAGTGATTGTGTTGCCTGGTTCTATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCTCAGgtgagtctccatagtgtaaggcaagagacaatgctggctgctatgctagc Alignment from Spaln_nt2Genome CTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tcctagtagcctttccaatttcatcaacttttaatgtatctttattgtagCTAGTGATTGTGTTGCCTGGTTCTATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCTCAGgtgagtctccatagtgtaaggcaagagacaatgctggctgctatgctagc Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tcctagtagcctttccaatttcatcaacttttaatgtatctttattgtag------------CTAGTGATTGTGTTGCCTGGTTCTATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCTCAGgtgagtctccatagtgtaaggcaagagacaatgctggctgctatgctagc Alignment from Exonerate_protein2genome CTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tcctagtagcctttccaatttcatcaacttttaatgtatctttattgtagCTAGTGATTGTGTTGCCTGGTTCTATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCTCAGgtgagtctccatagtgtaaggcaagagacaatgctggctgctatgctagc Alignment from Exonerate_coding2genome CTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tcctagtagcctttccaatttcatcaacttttaatgtatctttattgtagCTAGTGATTGTGTTGCCTGGTTCTATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCTCAGgtgagtctccatagtgtaaggcaagagacaatgctggctgctatgctagc Alignment from GeneWise CTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG tcctagtagcctttccaatttcatcaacttttaatgtatctttattgtagCTAGTGATTGTGTTGCCTGGTTCTATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCTCAGgtgagtctccatagtgtaaggcaagagacaatgctggctgctatgctagc #### Zdhhc16_ID8346_3 --> 0 - 2 Original Alignment GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag attatacatcttctactataattgtagttagttactgatttttcttacagGGCAGGAATGACATTAGCACGGTATCCATCTGCAAGAAATGCATTTATCCCAAGCCGGCTCGCACACACCACTGCAGCATCTGT---aggtgagtagtctgagctgtgctctgtgcctcactcaacttaggtcacactg Alignment from CESAR GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag attatacatcttctactataattgtagttagttactgatttttcttacagGGCAGGAATGACATTAGCACGGTATCCATCTGCAAGAAATGCATTTATCCCAAGCCGGCTCGCACACACCACTGCAGCATCTGT---aggtgagtagtctgagctgtgctctgtgcctcactcaacttaggtcacactg Alignment from Spaln_aa2Genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAA attatacatcttctactataattgtagttagttactgatttttcttacagGGCAGGAATGACATTAGCACGGTATCCATCTGCAAGAAATGCATTTATCCCAAGCCGGCTCGCACACACCACTGCAGCATCTGTAGgtgagtagtctgagctgtgctctgtgcctcactcaacttaggtcacactg Alignment from Spaln_nt2Genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG attatacatcttctactataattgtagttagttactgatttttcttacagGGCAGGAATGACATTAGCACGGTATCCATCTGCAAGAAATGCATTTATCCCAAGCCGGCTCGCACACACCACTGCAGCATCTG---TAGgtgagtagtctgagctgtgctctgtgcctcactcaacttaggtcacactg Alignment from Pairagon GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG attatacatcttctactataattgtagttagttactgatttttcttacagGGCAGGAATGACATTAGCACGGTATCCATCTGCAAGAAATGCATTTATCCCAAGCCGGCTCGCACACACCACTGCAGCATCTG---TAGgtgagtagtctgagctgtgctctgtgcctcactcaacttaggtcacactg Alignment from Exonerate_protein2genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG attatacatcttctactataattgtagttagttactgatttttcttacagGGCAGGAATGACATTAGCACGGTATCCATCTGCAAGAAATGCATTTATCCCAAGCCGGCTCGCACACACCACTGCAGCATCTGT---AGgtgagtagtctgagctgtgctctgtgcctcactcaacttaggtcacactg Alignment from Exonerate_coding2genome GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG attatacatcttctactataattgtagttagttactgatttttcttacagGGCAGGAATGACATTAGCACGGTATCCATCTGCAAGAAATGCATTTATCCCAAGCCGGCTCGCACACACCACTGCAGCATCTGT---AGgtgagtagtctgagctgtgctctgtgcctcactcaacttaggtcacactg Alignment from GeneWise GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAA attatacatcttctactataattgtagttagttactgatttttcttacagGGCAGGAATGACATTAGCACGGTATCCATCTGCAAGAAATGCATTTATCCCAAGCCGGCTCGCACACACCACTGCAGCATCTGTAGgtgagtagtctgagctgtgctctgtgcctcactcaacttaggtcacactg #### Zfand5_ID4879_2 --> 2 - 2 Original Alignment ggACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAag gtaagcaagaaacaaataagcatctgaatctcttgacacatgttttacaggg------AGTGGTTCTAACAGTCCCACCTCGGATGCAGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCGaggtgagtaggaatatttcttggattttctagactaagctatcttcactatg Alignment from CESAR ggACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAag ttttctgtaagcaagaaacaaataagaatctcttgacacatgttttacaggg------AGTGGTTCTAACAGTCCCACCTCGGATGCAGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCGaggtgagtaggaatatttcttggattttctagactaagctatcttcactatg Alignment from Spaln_aa2Genome GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG gtaagcaagaaacaaataagcatctgaatctcttgacacatgttttacagGG------AGTGGTTCTAACAGTCCCACCTCGGATGCAGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCGAGgtgagtaggaatatttcttggattttctagactaagctatcttcactatg Alignment from Spaln_nt2Genome GCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG gtaagcaagaaacaaataagcatctgaatctcttgacacatgttttacagGGAGTGGTT-CTAACAGTCCCACCTCGGATGCAGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCGAGgtgagtaggaatatttcttggattttctagactaagctatcttcactatg Alignment from Pairagon GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG gtaagcaagaaacaaataagcatctgaatctcttgacacatgttttacagGG------AGTGGTTCTAACAGTCCCACCTCGGATGCAGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCGAGgtgagtaggaatatttcttggattttctagactaagctatcttcactatg Alignment from Exonerate_protein2genome GG---ACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG gtaagcaagaaacaaataagcatctgaatctcttgacacatGTTTTACAGGGAGTGGTTCTAACAGTCCCACCTCGGATGCAGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCGAGgtgagtaggaatatttcttggattttctagactaagctatcttcactatg Alignment from Exonerate_coding2genome GG---ACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG gtaagcaagaaacaaataagcatctgaatctcttgacacatGTTTTACAGGGAGTGGTTCTAACAGTCCCACCTCGGATGCAGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCGAGgtgagtaggaatatttcttggattttctagactaagctatcttcactatg Alignment from GeneWise --AGTGGCAGAATGAGCCCAATGGGGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG gtaagcaagaaacaaataagCATCTGAATCTCTTGACACATGTTTTACAGGGAGTGGTTCTAACAGTCCCACCTCGGATGCAGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCGAGgtgagtaggaatatttcttggattttctagactaagctatcttcactatg #### Zp1_ID3061_11 --> 2 - 1 Original Alignment ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg ttgacctccacgggtcatagtagattctaacacggtcactgaattccaagag------CGGTTCCCCGGACACCACAACATCACTCTCCGAGCTCTGGAGATTGTAAGCTCTCCAGGTGCAGTGGGCTTTGAGGATGCAGCTAAACTTGAGCCCTCAggtacagggatgtggatgttccttactgaggggaggtaagtgtagctccac Alignment from CESAR ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg gaccctttgacctccacgggtcatatctaacacggtcactgaattccaagag------CGGTTCCCCGGACACCACAACATCACTCTCCGAGCTCTGGAGATTGTAAGCTCTCCAGGTGCAGTGGGCTTTGAGGATGCAGCTAAACTTGAGCCCTCAggtacagggatgtggatgttccttactgaggggaggtaagtgtagctccac Alignment from Spaln_aa2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG ttgacctccacgggtcatagtagattctaacacggtcactgaattccaagAG------CGGTTCCCCGGACACCACAACATCACTCTCCGAGCTCTGGAGATTGTAAGCTCTCCAGGTGCAGTGGGCTTTGAGGATGCAGCTAAACTTGAGCCCTCAGgtacagggatgtggatgttccttactgaggggaggtaagtgtagctccac Alignment from Spaln_nt2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG ttgacctccacgggtcatagtagattctaacacggtcactgaattccaagAGCG-----GTTCC-CCGGACACCACAACATCACTCTCCGAGCTCTGGAGATTGTAAGCTCTCCAGGTGCAGTGGGCTTTGAGGATGCAGCTAAACTTGAGCCCTCAGgtacagggatgtggatgttccttactgaggggaggtaagtgtagctccac Alignment from Pairagon GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG ttgacctccacgggtcatagtagattctaacacggtcactgaattccaagag--------CGGTTCCCCGGACACCACAACATCACTCTCCGAGCTCTGGAGATTGTAAGCTCTCCAGGTGCAGTGGGCTTTGAGGATGCAGCTAAACTTGAGCCCTCAGgtacagggatgtggatgttccttactgaggggaggtaagtgtagctccac Alignment from Exonerate_protein2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG ttgacctccacgggtcatagtagattctaacacggtcactgaatTCCAAGAGCGGTTCCCCGGACACCACAACATCACTCTCCGAGCTCTGGAGATTGTAAGCTCTCCAGGTGCAGTGGGCTTTGAGGATGCAGCTAAACTTGAGCCCTCAGgtacagggatgtggatgttccttactgaggggaggtaagtgtagctccac Alignment from Exonerate_coding2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG ttgacctccacgggtcatagtagattctaacacggtcactgaatTCCAAGAGCGGTTCCCCGGACACCACAACATCACTCTCCGAGCTCTGGAGATTGTAAGCTCTCCAGGTGCAGTGGGCTTTGAGGATGCAGCTAAACTTGAGCCCTCAGgtacagggatgtggatgttccttactgaggggaggtaagtgtagctccac Alignment from GeneWise GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG ttgacctccacgggtcatagtagattctaacacggtcactgaattccaagAGCGG------TTCCCCGGACACCACAACATCACTCTCCGAGCTCTGGAGATTGTAAGCTCTCCAGGTGCAGTGGGCTTTGAGGATGCAGCTAAACTTGAGCCCTCAGgtacagggatgtggatgttccttactgaggggaggtaagtgtagctccac #### Zp1_ID3064_8 --> 2 - 2 Original Alignment atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg taaagtacagcctggcctatgtgcactgatatccctccttcgctcctcagat------TTCAGCTCCTTCTATCAGGGAAGTGACTACCCCCTTGTAAGACTGCTTCAGAAACCAGTCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCCAGCCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGATCAGCCCCAATGGCCTATTCTGTCAGATgcgtgagggatagaagaagaatgtcctgcattcagggtcaaaagcactttct Alignment from CESAR atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gcagcttaaagtacagcctggcctactgatatccctccttcgctcctcagat------TTCAGCTCCTTCTATCAGGGAAGTGACTACCCCCTTGTAAGACTGCTTCAGAAACCAGTCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCCAGCCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGATCAGCCCCAATGGCCTATTCTGTCAGATgcgtgagggatagaagaagaatgtcctgcattcagggtcaaaagcactttct Alignment from Spaln_aa2Genome CTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctggcctatgtgcactgatatccctccttcgctcctcagATTTCAGCTCCTTCTATCAGGGAAGTGACTACCCCCTTGTAAGACTGCTTCAGAAACCAGTCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCCAGCCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGATCAGCCCCAATGGCCTATTCTGTCAGATGCgtgagggatagaagaagaatgtcctgcattcagggtcaaaagcactttct Alignment from Spaln_nt2Genome AAGA CTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG TAAAgtacagcctggcctatgtgcactgatatccctccttcgctcctcagATTTCAGCTCCTTCTATCAGGGAAGTGACTACCCCCTTGTAAGACTGCTTCAGAAACCAGTCTATGTGCAGGTGCGGCTCCTGCAGAAAACTG---CCAGCCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAG---CTTTGATCAGCCCCAATGGCCTATTCTGTCAGATGCgtgagggatagaagaagaatgtcctgcattcagggtcaaaagcactttct Alignment from Pairagon CTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctggcctatgtgcactgatatccctccttcgctcctcagATTTCAGCTCCTTCTATCAGGGAAGTGACTACCCCCTTGTAAGACTGCTTCAGAAACCAGTCTATGTGCAGGTGCGGCTCCTGCAGAAAACTG---CCAGCCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAG---CTTTGATCAGCCCCAATGGCCTATTCTGTCAGATGCgtgagggatagaagaagaatgtcctgcattcagggtcaaaagcactttct Alignment from Exonerate_protein2genome CTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctggcctatgtgcactgatatccctccttcgctcctcagATTTCAGCTCCTTCTATCAGGGAAGTGACTACCCCCTTGTAAGACTGCTTCAGAAACCAGTCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCCAGCCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGATCAGCCCCAATGGCCTATTCTGTCAGATGCgtgagggatagaagaagaatgtcctgcattcagggtcaaaagcactttct Alignment from Exonerate_coding2genome CTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctggcctatgtgcactgatatccctccttcgctcctcagATTTCAGCTCCTTCTATCAGGGAAGTGACTACCCCCTTGTAAGACTGCTTCAGAAACCAGTCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCCAGCCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGATCAGCCCCAATGGCCTATTCTGTCAGATGCgtgagggatagaagaagaatgtcctgcattcagggtcaaaagcactttct Alignment from GeneWise -----AGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctggcctatgtgcactgatatccctccttcgctcctcagATTTCAGCTCCTTCTATCAGGGAAGTGACTACCCCCTTGTAAGACTGCTTCAGAAACCAGTCTATGTGCAGGTGCGGCTCCTGCAGAAAACT---GCCAGCCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGATCAGCCCCAATGGCCTATTCTGTCAGATGCgtgagggatagaagaagaatgtcctgcattcagggtcaaaagcactttct #### Zp1_ID3065_7 --> 1 - 1 Original Alignment gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACG------g gtttgccccaacttacaagctctcccaagcctgctttattacttttgtaggCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCACCTCAACCCCCTGCCCCTGTAACACAATCTGGAGCCCTCAGGCTGCAATTGAAGATCGCTATGCACAAGggtaagtgctctggcctgtgtggtaccttcctaccttgcagcttaaagtac Alignment from CESAR gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACG------g gtttgccccaacttacaagctctcccaagcctgctttattacttttgtaggCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCACCTCAACCCCCTGCCCCTGTAACACAATCTGGAGCCCTCAGGCTGCAATTGAAGATCGCTATGCACAAGggtaagtgctctggcctgtgtggtaccttcctaccttgcagcttaaagtac Alignment from Spaln_aa2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACG------G gtttgccccaacttacaagctctcccaagcctgctttattacttttgtagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCACCTCAACCCCCTGCCCCTGTAACACAATCTGGAGCCCTCAGGCTGCAATTGAAGATCGCTATGCACAAGGgtaagtgctctggcctgtgtggtaccttcctaccttgcagcttaaagtac Alignment from Spaln_nt2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGC------CACGG gtttgccccaacttacaagctctcccaagcctgctttattacttttgtagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCACCTCAACCCCCTGCCCCTGTAACACAATCTGGAGCCCTCAGGCTGCAATTGAAGATCGCTATGCACAAGGgtaagtgctctggcctgtgtggtaccttcctaccttgcagcttaaagtac Alignment from Pairagon GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGC------CACGG gtttgccccaacttacaagctctcccaagcctgctttattacttttgtagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCACCTCAACCCCCTGCCCCTGTAACACAATCTGGAGCCCTCAGGCTGCAATTGAAGATCGCTATGCACAAGGgtaagtgctctggcctgtgtggtaccttcctaccttgcagcttaaagtac Alignment from Exonerate_protein2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCC------ACGG gtttgccccaacttacaagctctcccaagcctgctttattacttttgtagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCACCTCAACCCCCTGCCCCTGTAACACAATCTGGAGCCCTCAGGCTGCAATTGAAGATCGCTATGCACAAGGgtaagtgctctggcctgtgtggtaccttcctaccttgcagcttaaagtac Alignment from Exonerate_coding2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCC------ACGG gtttgccccaacttacaagctctcccaagcctgctttattacttttgtagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCACCTCAACCCCCTGCCCCTGTAACACAATCTGGAGCCCTCAGGCTGCAATTGAAGATCGCTATGCACAAGGgtaagtgctctggcctgtgtggtaccttcctaccttgcagcttaaagtac Alignment from GeneWise GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGGATAAG- gtttgccccaacttacaagctctcccaagcctgctttattacttttgtagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCACCTCAACCCCCTGCCCCTGTAACACAATCTGGAGCCCTCAGGCTGCAATTGAAGATCGCTATGCACAAGGgtaagtgctctggcctgtgtggtaccttcctaccttgcagcttaaagtac #### Zp1_ID3069_3 --> 0 - 1 Original Alignment ---GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg gactaagccagagcctcactcagctgctcacgtcttctttccatgactagAGAGATGGACGATTTCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAATAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTTGCTCCACCCACCACGCCTGAGCCTTTTTCACCTCATGCTTTTGCCCTGCACCCTATCCCTGAG---------GCCGGGTCTGGCCAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAACATCCAACTCCTGCTCCACCATCACTAGGACTTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAGCTAACTGAGCTGGACTCTGTAggtagtggaacctcatctgtgtacagactaagtactatgacctgtgggctg Alignment from CESAR ---GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg gactaagccagagcctcactcagctgctcacgtcttctttccatgactagAGAGATGGACGATTTCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAATAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTTGCTCCACCCACCACGCCTGAGCCTTTTTCACCTCATGCTTTTGCCCTGCACCCTATCCCTGAG---------GCCGGGTCTGGCCAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAACATCCAACTCCTGCTCCACCATCACTAGGACTTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAGCTAACTGAGCTGGACTCTGTAggtagtggaacctcatctgtgtacagactaagtactatgacctgtgggctg Alignment from Spaln_aa2Genome GATGGGCGGTTC---CACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG gactaagccagagcctcactcagctgctcacgtcttctttccatgactagAGAGATGGACGATTTCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAATAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTTGCTCCACCCACCACGCCTGAGCCTTTTTCACCTCATGCTTTTGCCCTGCACCCTATCCCTGAG---------GCCGGGTCTGGCCAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAACATCCAACTCCTGCTCCACCATCACTAGGACTTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAGCTAACTGAGCTGGACTCTGTAGgtagtggaacctcatctgtgtacagactaagtactatgacctgtgggctg Alignment from Spaln_nt2Genome GATGGGCGGTTCCACC---TGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG gactaagccagagcctcactcagctgctcacgtcttctttccatgactagAGAGATGGACGATTTCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAATAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTTGCTCCACCCACCACGCCTGAGCCTTTTTCACCTCATGCTTTTGCCCTGCACCCTATCCCTGA---------GGCCGGGTCTGGCCA------TATCACTATGTTGTACCCAGAACAAAGCTTCAAACATCCAACTCCTGCTCCACCATCACTAGGACTTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAGCTAACTGAGCTGGACTCTGTAGgtagtggaacctcatctgtgtacagactaagtactatgacctgtgggctg Alignment from Pairagon -GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG gactaagccagagcctcactcagctgctcacgtcttctttccatgactagagAGATGGACGATTTCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAATAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTTGCTCCACCCACCACGCCTGAGCCTTTTTCACCTCATGCTTTTGCCCTGCACCCTATCCCTGA---------GGCCGGGTCTGGCCATA------TCACTATGTTGTACCCAGAACAAAGCTTCAAACATCCAACTCCTGCTCCACCATCACTAGGACTTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAGCTAACTGAGCTGGACTCTGTAGgtagtggaacctcatctgtgtacagactaagtactatgacctgtgggctg Alignment from Exonerate_protein2genome ---GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG gactaagccagagcctcactcagctgctcacgtcttctttccatgactagAGAGATGGACGATTTCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAATAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTTGCTCCACCCACCACGCCTGAGCCTTTTTCACCTCATGCTTTTGCCCTGCACCCTATCCCTGAG---------GCCGGGTCTGGCCAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAACATCCAACTCCTGCTCCACCATCACTAGGACTTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAGCTAACTGAGCTGGACTCTGTAGgtagtggaacctcatctgtgtacagactaagtactatgacctgtgggctg Alignment from Exonerate_coding2genome ---GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG gactaagccagagcctcactcagctgctcacgtcttctttccatgactagAGAGATGGACGATTTCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAATAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTTGCTCCACCCACCACGCCTGAGCCTTTTTCACCTCATGCTTTTGCCCTGCACCCTATCCCTGAG---------GCCGGGTCTGGCCAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAACATCCAACTCCTGCTCCACCATCACTAGGACTTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAGCTAACTGAGCTGGACTCTGTAGgtagtggaacctcatctgtgtacagactaagtactatgacctgtgggctg Alignment from GeneWise ---GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAGGT- gactaagccagagcctcactcagctgctcacgtcttctttccatgactagAGAGATGGACGATTTCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAATAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTTGCTCCACCCACCACGCCTGAGCCTTTTTCACCTCATGCTTTTGCCCTGCACCCTATCCCTGAG---------GCCGGGTCTGGCCAT------ATCACTATGTTGTACCCAGAACAAAGCTTCAAACATCCAACTCCTGCTCCACCATCACTAGGACTTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAGCTAACTGAGCTGGACTCTGTAGGTAgtggaacctcatctgtgtacagactaagtactatgacctgtgggctg ####