#### 1700055N04Rik_ID225_3 --> 0 - 0 Original Alignment TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG--------- ctgaaaaatagacctagcctaacttgtgtgttgacccttcaatgtttcagTCAGGCCTCAAATCAGACATGAGTGAGATCATTTTGTGTGAGAACGAGGTGGACCTGGCCCTTATGAACCTGCTGACCTGGATGAAAGAGGAATCTTTGTCCACCAACTTGGAATCGGAAgtgagtcaacacaccagatacacaaacccacaagatacaggtagtgatgg Alignment from CESAR TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG--------- ctgaaaaatagacctagcctaacttgtgtgttgacccttcaatgtttcagTCAGGCCTCAAATCAGACATGAGTGAGATCATTTTGTGTGAGAACGAGGTGGACCTGGCCCTTATGAACCTGCTGACCTGGATGAAAGAGGAATCTTTGTCCACCAACTTGGAATCGGAAgtgagtcaacacaccagatacacaaacccacaagatacaggtagtgatgg Alignment from Spaln_aa2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG--------- ctgaaaaatagacctagcctaacttgtgtgttgacccttcaatgtttcagTCAGGCCTCAAATCAGACATGAGTGAGATCATTTTGTGTGAGAACGAGGTGGACCTGGCCCTTATGAACCTGCTGACCTGGATGAAAGAGGAATCTTTGTCCACCAACTTGGAATCGGAAgtgagtcaacacaccagatacacaaacccacaagatacaggtagtgatgg Alignment from Spaln_nt2Genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG--------- ctgaaaaatagacctagcctaacttgtgtgttgacccttcaatgtttcagTCAGGCCTCAAATCAGACATGAGTGAGATCATTTTGTGTGAGAACGAGGTGGACCTGGCCCTTATGAACCTGCTGACCTGGATGAAAGAGGAATCTTTGTCCACCAACTTGGAATCGGAAgtgagtcaacacaccagatacacaaacccacaagatacaggtagtgatgg Alignment from Pairagon TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG--------- ctgaaaaatagacctagcctaacttgtgtgttgacccttcaatgtttcagTCAGGCCTCAAATCAGACATGAGTGAGATCATTTTGTGTGAGAACGAGGTGGACCTGGCCCTTATGAACCTGCTGACCTGGATGAAAGAGGAATCTTTGTCCACCAACTTGGAATCGGAAgtgagtcaacacaccagatacacaaacccacaagatacaggtagtgatgg Alignment from Exonerate_protein2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ctgaaaaatagacctagcctaacttgtgtgttgacccttcaatgtttcagTCAGGCCTCAAATCAGACATGAGTGAGATCATTTTGTGTGAGAACGAGGTGGACCTGGCCCTTATGAACCTGCTGACCTGGATGAAAGAGGAATCTTTGTCCACCAACTTGgaatcggaagtgagtcaacacaccagatacacaaacccacaagatacaggtagtgatgg Alignment from Exonerate_coding2genome TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG ctgaaaaatagacctagcctaacttgtgtgttgacccttcaatgtttcagTCAGGCCTCAAATCAGACATGAGTGAGATCATTTTGTGTGAGAACGAGGTGGACCTGGCCCTTATGAACCTGCTGACCTGGATGAAAGAGGAATCTTTGTCCACCAACTTGgaatcggaagtgagtcaacacaccagatacacaaacccacaagatacaggtagtgatgg Alignment from GeneWise TCAGGCTTCGAGTCAGACATGAGTGAGATCATTCTGTGCGAGAATGAGGTGGACCTGGCCCTCAAGAACCTGCAGACCTGGATGAAGGATGAGCCTGTGTCCACCAACTTG--------- ctgaaaaatagacctagcctaacttgtgtgttgacccttcaatgtttcagTCAGGCCTCAAATCAGACATGAGTGAGATCATTTTGTGTGAGAACGAGGTGGACCTGGCCCTTATGAACCTGCTGACCTGGATGAAAGAGGAATCTTTGTCCACCAACTTGGAATCGGAAgtgagtcaacacaccagatacacaaacccacaagatacaggtagtgatgg #### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCA------------------------------g cactcttactcctgcaataccttgtgatacctcaactctggcacttccagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAATCCTGCGACCGCCTCCGGTTCATGTTCGGggtgaggggcattccaagttcacaagcctgatttatctctatcttcttaag Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg cactcttactcctgcaataccttgtgatacctcaactctggcacttccagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAatcctgcgaccgcctccggttcatgttcggggtgaggggcattccaagttcacaagcctgatttatctctatcttcttaag Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCA------------------------------G cactcttactcctgcaataccttgtgatacctcaactctggcacttccagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAATCCTGCGACCGCCTCCGGTTCATGTTCGGGgtgaggggcattccaagttcacaagcctgatttatctctatcttcttaag Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG---- cactcttactcctgcaataccttgtgatacctcaactctggcacttccagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAATCCTgcgaccgcctccggttcatgttcggggtgaggggcattccaagttcacaagcctgatttatctctatcttcttaag Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCA------------------------------G cactcttactcctgcaataccttgtgatacctcaactctggcacttccagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAATCCTGCGACCGCCTCCGGTTCATGTTCGGGgtgaggggcattccaagttcacaagcctgatttatctctatcttcttaag Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTG cactcttactcctgcaataccttgtgatacctcaactctggcacttccagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGctacaatcctgcgaccgcctccggttcatgttcggggtgaggggcattccaagttcacaagcctgatttatctctatcttcttaag Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTG cactcttactcctgcaataccttgtgatacctcaactctggcacttccagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGctacaatcctgcgaccgcctccggttcatgttcggggtgaggggcattccaagttcacaagcctgatttatctctatcttcttaag Alignment from GeneWise CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCA------------------------------G cactcttactcctgcaataccttgtgatacctcaactctggcacttccagCTCACCAAACTGAGCACGGCCTTCATCTGGAAGGAACCCTTTGGTCTGGTGCTTATCATTGCACCATGGAACTATCCTGTTAACCTCATGATCATACCTTCGGTGGGAGCTATTGCTACAATCCTGCGACCGCCTCCGGTTCATGTTCGGGgtgaggggcattccaagttcacaagcctgatttatctctatcttcttaag #### 1700123I01Rik_ID1493_5 --> 2 - 0 Original Alignment ggAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtattcctgtcttgccccatcatcctgctcttacctgtctctccaggtAAACCTGCAGATGATATTCCA---------gtatgatttggtagcaggagtggcttcttttatgtctccatccagattaa Alignment from CESAR ggAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtattcctgtcttgccccatcatcctgctcttacctgtctctccaggtAAACCTGCAGATGATATTCCA---------gtatgatttggtagcaggagtggcttcttttatgtctccat Alignment from Spaln_aa2Genome GGAAACCAGCAGATGATATTCCT acaggtattcctgtcttgccccatcatcctgctcttacctgtctctccagGTAAACCTGCAGATGATATTCCAgtatgatttggtagcaggagtggcttcttttatgtctccatccagattaa Alignment from Spaln_nt2Genome GGAAACCAGCAGATGATATTCCTCT-TGAGTTG acaggtattcctgtcttgccccatcatcctgctcttacctgtctctccagGTAAACCTGCAGATGATATTCCAGTATGATTTGgtagcaggagtggcttcttttatgtctccatccagattaa Alignment from Pairagon GGAAACCAGCAGATGATATTCC--------------------------------------------------- acaggtattcctgtcttgccccatcatcctgctcttacctgtctctccagGTAAACCTGCAGATGATATTCCAGTATGATTTGGTAGCAGGAGTGGCTTCTTTTATGTCTCCATCCAGATTAA Alignment from Exonerate_protein2genome GGAAACCAGCAGATGATATTCCTCTTGAGTTG acaggtattcctgtcttgccccatcatcctgctcttacctgtctctccagGTAAACCTGCAGATGATATTCCAGTATGATTTggtagcaggagtggcttcttttatgtctccatccagattaa Alignment from Exonerate_coding2genome acaggtattcctgtcttgccccatcatcctgctcttacctgtctctccaggtaaacctgcagatgatattccagtatgatttggtagcaggagtggcttcttttatgtctccatccagattaa Alignment from GeneWise acaggtattcctgtcttgccccatcatcctgctcttacctgtctctccaggtaaacctgcagatgatattccagtatgatttggtagcaggagtggcttcttttatgtctccatccagattaa #### 2010012O05Rik_ID10003_2 --> 0 - 0 Original Alignment ---------------------CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accctatagaggtgggatgatcattgcttagcactacctctcttccccagGCCACGGATGACTTCTTTGCGCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCTATTTTGCGTTCAGAAGATgtgagaagcaattatttcatcatatgtgtgtgtaaggatctttgggtctg Alignment from CESAR ---------------------CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accctatagaggtgggatgatcattgcttagcactacctctcttccccagGCCACGGATGACTTCTTTGCGCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCTATTTTGCGTTCAGAAGATgtgagaagcaattatttcatcatatgtgtgtgtaaggatctttgggtctg Alignment from Spaln_aa2Genome ---------------------CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGA accctatagaggtgggatgatcattgcttagcactacctctcttccccagGCCACGGATGACTTCTTTGCGCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCTATTTTGCGTTCAGAAGATgtgagaagcaattatttcatcatatgtgtgtgtaaggatctttgggtctg Alignment from Spaln_nt2Genome GCTCGCGGAGCTCCGAGCTGCTGGGG-----CAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accctatagaggtgggatgatcattgcttagcactacctctcttccccagGCCACGGA-TGACTTCTTTGCGCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCTATTTTGCGTTCAGAAGATgtgagaagcaattatttcatcatatgtgtgtgtaaggatctttgggtctg Alignment from Pairagon ---------------------CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accctatagaggtgggatgatcattgcttagcactacctctcttccccagGCCACGGATGACTTCTTTGCGCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCTATTTTGCGTTCAGAAGATgtgagaagcaattatttcatcatatgtgtgtgtaaggatctttgggtctg Alignment from Exonerate_protein2genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accctatagaggtgggatgatcattgcttagcactacctctcttccccaggccacggatgacttctttgcgCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCTATTTTGCGTTCAGAAGATgtgagaagcaattatttcatcatatgtgtgtgtaaggatctttgggtctg Alignment from Exonerate_coding2genome CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accctatagaggtgggatgatcattgcttagcactacctctcttccccaggccacggatgacttctttgcgCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCTATTTTGCGTTCAGAAGATgtgagaagcaattatttcatcatatgtgtgtgtaaggatctttgggtctg Alignment from GeneWise ---------------------CTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCCATCTTACACTCGGAAGAT accctatagaggtgggatgatcattgcttagcactacctctcttccccagGCCACGGATGACTTCTTTGCGCTGCTGGGGCAGGCAGCTCGAAACATGGTACTACAGGAAGATGCTATTTTGCGTTCAGAAGATgtgagaagcaattatttcatcatatgtgtgtgtaaggatctttgggtctg #### AI846148_ID2142_4 --> 2 - 1 Original Alignment ttACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAg tggagtgaaatctgccaagaccatttgccatctccttccctgacccccagtt---------ATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAAATCTTGGACCCTGACCCAggtaatttgaatattgggggtgacagctgtgaaaataactcaagcataaag Alignment from CESAR ttACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAg taaagaaagtggagtgaaatctgcctgccatctccttccctgacccccagtt---------ATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAAATCTTGGACCCTGACCCAggtaatttgaatattgggggtgacagctgtgaaaataactcaagcataaag Alignment from Spaln_aa2Genome GTTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG atctgccaagaccatttgccatctccttccctgaccccca gTTATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAAATCTTGGACCCTGACCCAGgtaatttgaatattgggggtgacagctgtgaaaataactcaagcataaag Alignment from Spaln_nt2Genome TCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tggagtgaaatctgccaagaccatttgccatctccttccctgacccccagTTATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAAATCTTGGACCCTGACCCAGgtaatttgaatattgggggtgacagctgtgaaaataactcaagcataaag Alignment from Pairagon TCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tggagtgaaatctgccaagaccatttgccatctccttccctgacccccagTTATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAAATCTTGGACCCTGACCCAGgtaatttgaatattgggggtgacagctgtgaaaataactcaagcataaag Alignment from Exonerate_protein2genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tggagtgaaatctgccaagaccatttgccatctccttccctGACCCCCAGTTATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAAATCTTGGACCCTGACCCAGgtaatttgaatattgggggtgacagctgtgaaaataactcaagcataaag Alignment from Exonerate_coding2genome TTACCCCTGTCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tggagtgaaatctgccaagaccatttgccatctccttccctGACCCCCAGTTATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAAATCTTGGACCCTGACCCAGgtaatttgaatattgggggtgacagctgtgaaaataactcaagcataaag Alignment from GeneWise TCATAGAGCAAGGGAATAAAAAGCCCCGTGGTCAGAGATGGAAAGAGTCCCCTGAGAATGAACCTGCTAGAAAGAAGAGAAGCAGGCATATGACCAAAATCTTGGACCCTGACCCAG tggagtgaaatctgccaagaccatttgccatctccttccctgacccccagTTATAGAGCAGGGGAATAAGAAGCCCCGTGGCCAAAGATGGAAAGAGTCCCCCGAGAATGAACCGGCTAGAAAGAAGAGAAGCAGGCATATGACTAAAATCTTGGACCCTGACCCAGgtaatttgaatattgggggtgacagctgtgaaaataactcaagcataaag #### AI846148_ID2143_3 --> 2 - 1 Original Alignment agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gagtagagagagctgaaggctcccagtccctctgacttacctgtccacagaaTCAGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTAGTGCTCTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTACGGCCTAGAGGACTTCGCCCT---GAA------agtaagttaagaacaccaagagtccttgggtttggtaggacatcatatagt Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gagtagagagagctgaaggctcccagtccctctgacttacctgtccacagaaTCAGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTAGTGCTCTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTACGGCCTAGAGGACTTCGCCCT---GAA------agtaagttaagaacaccaagagtccttgggtttggtaggacatcatatagt Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagagagagctgaaggctcccagtccctctgacttacctgtccacagAATCAGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTAGTGCTCTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTACGGCCTAGAGGACTTCGCCCT---------GAAAgtaagttaagaacaccaagagtccttgggtttggtaggacatcatatagt Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAG gagtagagagagctgaaggctcccagtccctctgacttacctgtccacagAATCAGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTAGTGCTCTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTACGGCCTAGAGGACTTCG--CCCTGAAAgtaagttaagaacaccaagagtccttgggtttggtaggacatcatatagt Alignment from Pairagon AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCC----- gagtagagagagctgaaggctcccagtccctctgacttacctgtccacagAATCAGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTAGTGCTCTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTACGGCCTAGAGGACTTCGCCCTGAAAgtaagttaagaacaccaagagtccttgggtttggtaggacatcatatagt Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagagagagctgaaggctcccagtccctctgacttacctgtccacagAATCAGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTAGTGCTCTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTACGGCCTAGAGGACTTCGCCCTGAAAGTAAGTTAAgaacaccaagagtccttgggtttggtaggacatcatatagt Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagagagagctgaaggctcccagtccctctgacttacctgtccacagAATCAGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTAGTGCTCTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTACGGCCTAGAGGACTTCGCCCTGAAAGTAAGTTAAgaacaccaagagtccttgggtttggtaggacatcatatagt Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG gagtagagagagctgaaggctcccagtccctctgacttacctgtccacagAATCAGGCCAGGATGGTCAGTCAGATCCCATCTCCAACCCAGATCCTGTGAGGATGCCAGCAGAGATAGTAGTGCTCTTAGATTCTCAAGACAACCCATCTCTTCCCACTAGGCTACGGCCTAGAGGACTTCGCCCT---------GAAAgtaagttaagaacaccaagagtccttgggtttggtaggacatcatatagt #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG--------- tagttacaacccttgggtattgtctgtttctcttaattgttattttttagTGCGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCCTTGAGCAGCCCTGTAATgtgacaatgtggtatgccttttgcagttcaagttctcaaggtctagctag Alignment from CESAR TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG--------- tagttacaacccttgggtattgtctgtttctcttaattgttattttttagTGCGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCCTTGAGCAGCCCTGTAATgtgacaatgtggtatgccttttgcagttcaagttctcaaggtctagctag Alignment from Spaln_aa2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG--------- tagttacaacccttgggtattgtctgtttctcttaattgttattttttagTGCGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCCTTGAGCAGCCCTGTAATgtgacaatgtggtatgccttttgcagttcaagttctcaaggtctagctag Alignment from Spaln_nt2Genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG---- tagttacaacccttgggtattgtctgtttctcttaattgttattttttagTGCGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCCTTGAGCAGCCCTgtaatgtgacaatgtggtatgccttttgcagttcaagttctcaaggtctagctag Alignment from Pairagon TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG---- tagttacaacccttgggtattgtctgtttctcttaattgttattttttagTGCGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCCTTGAGCAGCCCTgtaatgtgacaatgtggtatgccttttgcagttcaagttctcaaggtctagctag Alignment from Exonerate_protein2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG tagttacaacccttgggtattgtctgtttctcttaattgttattttttagTGCGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCCTTGAGCAGccctgtaatgtgacaatgtggtatgccttttgcagttcaagttctcaaggtctagctag Alignment from Exonerate_coding2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG tagttacaacccttgggtattgtctgtttctcttaattgttattttttagTGCGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCCTTGAGCAGccctgtaatgtgacaatgtggtatgccttttgcagttcaagttctcaaggtctagctag Alignment from GeneWise TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG--------- tagttacaacccttgggtattgtctgtttctcttaattgttattttttagTGCGTAAAAGAAGCCATTTTAGAGGACTTGCAGAAAATTGGGAAGGAGGGCGGCTTGAAATCCCTTGAGCAGCCCTGTAATgtgacaatgtggtatgccttttgcagttcaagttctcaaggtctagctag #### Actn3_ID691_19 --> 0 - 0 Original Alignment GACCGG ---------AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG GACCGGgtaagtgacttcacctgaattattttttaattttcatttgatagCCTTATCACAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtgagtaccttgcccagttctaacacaccattagatcagatctcctcctt Alignment from CESAR GACCGG ---------AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG GACCGGgtgagtgacttcacctgaattattttttaattttcatttgatagCCTTATCACAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtgagtaccttgcccagttctaacacaccattagatcagatctcctcctt Alignment from Spaln_aa2Genome GACCGG AAGCGGAATGGG---------ATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG GACCGGgtaagtgacttcacctgaattattttttaattttcatttgatagCCTTATCACAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtgagtaccttgcccagttctaacacaccattagatcagatctcctcctt Alignment from Spaln_nt2Genome GACCGG AAGCGGAAT---------GGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG GACCGGgtaagtgacttcacctgaattattttttaattttcatttgatagCCTTATCACAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtgagtaccttgcccagttctaacacaccattagatcagatctcctcctt Alignment from Pairagon GACCGG-----------------------------------------------------AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG GACCGGGTAAGTGACTTCACCTGAATTATTTTTTAATTTTCATTTGATAGCCTTATCACAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtgagtaccttgcccagttctaacacaccattagatcagatctcctcctt Alignment from Exonerate_protein2genome GACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG GACCGGgtaagtgacttcacctgaattattttttaattttcatttgatagccttatcacAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtgagtaccttgcccagttctaacacaccattagatcagatctcctcctt Alignment from Exonerate_coding2genome GACCGG AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG GACCGGgtaagtgacttcacctgaattattttttaattttcatttgatagccttatcacAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtgagtaccttgcccagttctaacacaccattagatcagatctcctcctt Alignment from GeneWise GACCGG ---------AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG GACCGGgtaagtgacttcacctgaattattttttaattttcatttgatagCCTTATCACAAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtgagtaccttgcccagttctaacacaccattagatcagatctcctcctt #### Actn3_ID693_17 --> 0 - 0 Original Alignment GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG------ gagcaaagtaatgggtttggagaccttaccttcacccgtgtcttacccagGAAGTAGGACGGCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGCTGTCTgttggttctcacccataagaaaagtactggctcccagacggttgccagtc Alignment from CESAR GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG------ gagcaaagtaatgggtttggagaccttaccttcacccgtgtcttacccagGAAGTAGGACGGCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGCTGTCTgttggttctcacccataagaaaagtactggctcccagacggttgccagtc Alignment from Spaln_aa2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG------ gagcaaagtaatgggtttggagaccttaccttcacccgtgtcttacccagGAAGTAGGACGGCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGCTGTCTgttggttctcacccataagaaaagtactggctcccagacggttgccagtc Alignment from Spaln_nt2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG-- gagcaaagtaatgggtttggagaccttaccttcacccgtgtcttacccagGAAGTAGGACGGCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGCTgtctgttggttctcacccataagaaaagtactggctcccagacggttgccagtc Alignment from Pairagon GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG------ gagcaaagtaatgggtttggagaccttaccttcacccgtgtcttacccagGAAGTAGGACGGCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGCTGTCTgttggttctcacccataagaaaagtactggctcccagacggttgccagtc Alignment from Exonerate_protein2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtaatgggtttggagaccttaccttcacccgtgtcttacccagGAAGTAGGACGGCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGctgtctgttggttctcacccataagaaaagtactggctcccagacggttgccagtc Alignment from Exonerate_coding2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gagcaaagtaatgggtttggagaccttaccttcacccgtgtcttacccagGAAGTAGGACGGCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGctgtctgttggttctcacccataagaaaagtactggctcccagacggttgccagtc Alignment from GeneWise GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG------ gagcaaagtaatgggtttggagaccttaccttcacccgtgtcttacccagGAAGTAGGACGGCTGGCAGCAGGGCTAGCTGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGCCAGCAGGAACAGAATATCATCAATTACAAGAGCAACATCGACCGGCTAGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAGCTGTCTgttggttctcacccataagaaaagtactggctcccagacggttgccagtc #### Actn3_ID694_16 --> 0 - 0 Original Alignment GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG acactttactattgcagatttggttatcgctgaagggggcatggcctcagGTCAGAAAAAAACTTGCCCCTGCCCGTGACCAGACATTCCAAGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTT------------------------------------------------gtaagcgttgggaggctgggcccgtagagatcagcacggagcaaagtatt Alignment from CESAR GTCAGAAAG---CTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG acactttactattgcagatttggttatcgctgaagggggcatggcctcagGTCAGAAAAAAACTTGCCCCTGCCCGTGACCAGACATTCCAAGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTT------------------------------------------------gt Alignment from Spaln_aa2Genome GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACC acactttactattgcagatttggttatcgctgaagggggcatggcctcagGTCAGAAAAAAACTTGCCCCTGCCCGTGACCAGACATTCCAAGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTGTAAGC---GTTGGGAGGCTGGGCCCgtagagatcagcacggagcaaagt Alignment from Spaln_nt2Genome TA----------CCCAGCC-GTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCC-----AGGCTAATGCCATAGGACCCTGGATCCAGGGAAAA acactttactattgcagatttggttatcgctgaagggggcatggcctcaggtcagAAAAAAACTTGCCCCTGCCCGTGACCAGACATTCCAAGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTGTAAGCGTTGGGAGGCTGGGCCCGTAGAGATCAGCA--CGGAGCAAAgta Alignment from Pairagon GTCAGAAA-------------GCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTT acactttactattgcagatttggttatcgctgaagggggcatggcctcagGTCAGAAAAAAACTTGCCCCTGC----------CCGTGACCAGACATTCCAAGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTgtaagcgttgggaggctgggcccgtagagatcagcacggagcaaagtatt Alignment from Exonerate_protein2genome CAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG acactttactattgcagatttggttatcgctgaagggggcatggcctcaggtcagAAAAAAACTTGCCCCTGCCCGTGACCAGACATTCCAAGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTGTAAGC---GTTGGGAGGCTGGGCCCGTAGAGATCAGCACGGAGCAAAgt Alignment from Exonerate_coding2genome CAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG acactttactattgcagatttggttatcgctgaagggggcatggcctcaggtcagAAAAAAACTTGCCCCTGCCCGTGACCAGACATTCCAAGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTGTAAGC---GTTGGGAGGCTGGGCCCGTAGAGATCAGCACGGAGCAAAgt Alignment from GeneWise GTCAGAAAG---CTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCC-TGGATCCAGGGAAAA------- acactttactattgcagatttggttatcgctgaagggggcatggcctcagGTCAGAAAAAAACTTGCCCCTGCCCGTGACCAGACATTCCAAGAGAAGCTAGCCCGGCAGCAAGTTAATGAGAGGTCACGGCGGCAGTTTGTAAGC---GTTGGGAGGCTGGGCCCGTAGAGATCAGCACGGAGCAAAGT #### Actn3_ID695_15 --> 0 - 0 Original Alignment AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctgggtgcaaagggggatactggtatttttctactgtgcttgtagAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCCGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATATGGGCTACGGCCCAAATCCGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGAT---gttagttgcaacctgggtgtcccctactcattcttgtgcttttactacat Alignment from CESAR AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacctgggtgcaaagggggatactggtatttttctactgtgcttgtagAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCCGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATATGGGCTACGGCCCAAATCCGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGAT---gttagttgcaacctgggtgtcccctactcattcttgtgcttttacta Alignment from Spaln_aa2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGAT catacctgggtgcaaagggggatactggtatttttctactgtgcttgtagAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCCGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATATGGGCTACGGCCCAAATCCGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATgttagttgcaacctgggtgtcccctactcattcttgtgcttttactacat Alignment from Spaln_nt2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGAT catacctgggtgcaaagggggatactggtatttttctactgtgcttgtagAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCCGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATATGGGCTACGGCCCAAATCCGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATgttagttgcaacctgggtgtcccctactcattcttgtgcttttactacat Alignment from Pairagon AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGAT catacctgggtgcaaagggggatactggtatttttctactgtgcttgtagAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCCGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATATGGGCTACGGCCCAAATCCGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATgttagttgcaacctgggtgtcccctactcattcttgtgcttttactacat Alignment from Exonerate_protein2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGAT catacctgggtgcaaagggggatactggtatttttctactgtgcttgtagAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCCGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATATGGGCTACGGCCCAAATCCGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATgttagttgcaacctgggtgtcccctactcattcttgtgcttttactacat Alignment from Exonerate_coding2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGAT catacctgggtgcaaagggggatactggtatttttctactgtgcttgtagAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCCGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATATGGGCTACGGCCCAAATCCGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATgttagttgcaacctgggtgtcccctactcattcttgtgcttttactacat Alignment from GeneWise AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGAT catacctgggtgcaaagggggatactggtatttttctactgtgcttgtagAGCCTACTAACAGCACATGAACAGTTCAAAGCAACATTACCTGAAGCCGATCGAGAGCGAGGTGCCATCCCAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATATGGGCTACGGCCCAAATCCGGTAACCCCTACATTACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATgttagttgcaacctgggtgtcccctactcattcttgtgcttttactacat #### Actn3_ID696_14 --> 0 - 0 Original Alignment AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG agcagtctgagaagaatctggaggtgtcgggcacatgattgtgtttgcag------GAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACACAGgtaagcggatacactaggcagggagtctttggatgcacttgtggtctata Alignment from CESAR AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG aaggtcagcagtctgagaagaatctgtcgggcacatgattgtgtttgcag------GAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACACAGgtaagcggatacactaggcagggagtctttggatgcacttgtggtctata Alignment from Spaln_aa2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG agcagtctgagaagaatctggaggtgtcgggcacatgattgtgtttgcag------GAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACACAGgtaagcggatacactaggcagggagtctttggatgcacttgtggtctata Alignment from Spaln_nt2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG agcagtctgagaagaatctggaggtgtcgggcacatgattgtgtttgcag------GAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACACAGgtaagcggatacactaggcagggagtctttggatgcacttgtggtctata Alignment from Pairagon AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG agcagtctgagaagaatctggaggtgtcgggcacatgattgtgtttgcag------GAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACACAGgtaagcggatacactaggcagggagtctttggatgcacttgtggtctata Alignment from Exonerate_protein2genome GAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG agcagtctgagaagaatctggaggtgtcgggcacatgattgtgtttgcagGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACACAGgtaagcggatacactaggcagggagtctttggatgcacttgtggtctata Alignment from Exonerate_coding2genome GAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG agcagtctgagaagaatctggaggtgtcgggcacatgattgtgtttgcagGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACACAGgtaagcggatacactaggcagggagtctttggatgcacttgtggtctata Alignment from GeneWise AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG agcagtctgagaagaatctggaggtgtcgggcacatgattgtgtttgcagGAG------AAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCAGGGCAGCTTCTTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCATGATGTGTGGCTGGTGGTCCACTCTGTGGAGGAGACACAGgtaagcggatacactaggcagggagtctttggatgcacttgtggtctata #### Actn3_ID700_10 --> 0 - 0 Original Alignment CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG taagtgaggtggggcttggaaatgttctctctgtgctctctcccctgcag------GAGTGGATCCGCCGGACTGTTCTATGGCTAGACAACCGTGTAGCTGAACCTAGCATGAGTGCCATGCAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACACAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAACACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCgtaagtccaacagggtatactgcatgttcaagctgtgcctacatgcccac Alignment from CESAR CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG tcgatataagtgaggtggggcttggtctctctgtgctctctcccctgcag------GAGTGGATCCGCCGGACTGTTCTATGGCTAGACAACCGTGTAGCTGAACCTAGCATGAGTGCCATGCAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACACAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAACACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCgtaagtccaacagggtatactgcatgttcaagctgtgcctacatgcccac Alignment from Spaln_aa2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG taagtgaggtggggcttggaaatgttctctctgtgctctctcccctgcag------GAGTGGATCCGCCGGACTGTTCTATGGCTAGACAACCGTGTAGCTGAACCTAGCATGAGTGCCATGCAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACACAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAACACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCgtaagtccaacagggtatactgcatgttcaagctgtgcctacatgcccac Alignment from Spaln_nt2Genome GGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG taagtgaggtggggcttggaaatgttctctctgtgctctctcccctgcagGAGTGGA-TCCGCCGGACTGTTCTATGGCTAGACAACCGTGTAGCTGAACCTAGCATGAGTGCCATGCAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACACAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAACACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCgtaagtccaacagggtatactgcatgttcaagctgtgcctacatgcccac Alignment from Pairagon CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG taagtgaggtggggcttggaaatgttctctctgtgctctctcccctgcag------GAGTGGATCCGCCGGACTGTTCTATGGCTAGACAACCGTGTAGCTGAACCTAGCATGAGTGCCATGCAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACACAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAACACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCgtaagtccaacagggtatactgcatgttcaagctgtgcctacatgcccac Alignment from Exonerate_protein2genome GAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG taagtgaggtggggcttggaaatgttctctctgtgctctctcccctgcagGAGTGGATCCGCCGGACTGTTCTATGGCTAGACAACCGTGTAGCTGAACCTAGCATGAGTGCCATGCAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACACAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAACACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCgtaagtccaacagggtatactgcatgttcaagctgtgcctacatgcccac Alignment from Exonerate_coding2genome GAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG taagtgaggtggggcttggaaatgttctctctgtgctctctcccctgcagGAGTGGATCCGCCGGACTGTTCTATGGCTAGACAACCGTGTAGCTGAACCTAGCATGAGTGCCATGCAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACACAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAACACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCgtaagtccaacagggtatactgcatgttcaagctgtgcctacatgcccac Alignment from GeneWise ---TGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG taagtgaggtggggcttggaaatgttctctctgtgctctctcccctgcagGAGTGGATCCGCCGGACTGTTCTATGGCTAGACAACCGTGTAGCTGAACCTAGCATGAGTGCCATGCAGCACAAGCTGGAAGACTTCCAAGACTATCAACACCTACACAAGCCACCCTGTTTCCAGGAGACATGCCAGCTAGAGATCAACTTCAACACACTGCAGGCTAAGTCTCGTCTGAGCCACCAACCTGCATTCATGCCCTCTGAAGGCAAGTTAGTTTCCgtaagtccaacagggtatactgcatgttcaagctgtgcctacatgcccac #### Actr1a_ID9872_8 --> 0 - 1 Original Alignment ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAg cacaagttggtggtcacagtctgccaataagtgaaccctttctaacctagATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTTCTCTCAGGAGGTTCTACCCTGTTT---ggtaggtagggtatccacttttgaacgaacgatagaaacaacctgatcaat Alignment from CESAR ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAg cacaagttggtggtcacagtctgccaataagtgaaccctttctaacctagATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTTCTCTCAGGAGGTTCTACCCTGTTT---ggtaggtagggtatccacttttgaacgaacgatagaaacaacctgatcaat Alignment from Spaln_aa2Genome ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTC- cacaagttggtggtcacagtctgccaataagtgaaccctttctaacctagATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTTCTCTCAGGAGGTTCTACCCTGTTTGgtaggtagggtatccacttttgaacgaacgatagaaacaacctgatcaat Alignment from Spaln_nt2Genome ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG cacaagttggtggtcacagtctgccaataagtgaaccctttctaacctagATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTTCTCTCAGGAGGTTCTACCCTGTT---TGgtaggtagggtatccacttttgaacgaacgatagaaacaacctgatcaat Alignment from Pairagon ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG cacaagttggtggtcacagtctgccaataagtgaaccctttctaacctagATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTTCTCTCAGGAGGTTCTACCCTGTTT---Ggtaggtagggtatccacttttgaacgaacgatagaaacaacctgatcaat Alignment from Exonerate_protein2genome ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCA cacaagttggtggtcacagtctgccaataagtgaaccctttctaacctagATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTTCTCTCAGGAGGTTCTACCCTGTTTGgtaggtagggtatccacttttgaacgaacgatagaaacaacctgatcaat Alignment from Exonerate_coding2genome ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCA cacaagttggtggtcacagtctgccaataagtgaaccctttctaacctagATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTTCTCTCAGGAGGTTCTACCCTGTTTGgtaggtagggtatccacttttgaacgaacgatagaaacaacctgatcaat Alignment from GeneWise ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCA cacaagttggtggtcacagtctgccaataagtgaaccctttctaacctagATAGGCCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCAGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTTCTCTCAGGAGGTTCTACCCTGTTTGgtaggtagggtatccacttttgaacgaacgatagaaacaacctgatcaat #### Acy3_ID251_5 --> 2 - 0 Original Alignment gcATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG------ agagttatcaggaagcaacagggatgagcccctcccaccctcccctgcaggcATGGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCTGATGGTGACCTAGCCGGCACTGTGCACCCACAACTACAGGCCTGTgtacttgttgtgggagtcaggtaggcgtactgtgaacacccaactgaacc Alignment from CESAR gcATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agagttatcaggaagcaacagggatgagcccctcccaccctcccctgcaggcATGGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCTGATGGTGACCTAGCCGGCACTGTGCACCCACAACTACAGgcctgtgtacttgttgtgggagtcaggtaggcgtactgtgaacacccaactgaacc Alignment from Spaln_aa2Genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agagttatcaggaagcaacagggatgagcccctcccaccctcccctgcagGCATGGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCTGATGGTGACCTAGCCGGCACTGTGCACCCACAACTACAGgcctgtgtacttgttgtgggagtcaggtaggcgtactgtgaacacccaactgaacc Alignment from Spaln_nt2Genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agagttatcaggaagcaacagggatgagcccctcccaccctcccctgcagGCATGGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCTGATGGTGACCTAGCCGGCACTGTGCACCCACAACTACAGgcctgtgtacttgttgtgggagtcaggtaggcgtactgtgaacacccaactgaacc Alignment from Pairagon GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agagttatcaggaagcaacagggatgagcccctcccaccctcccctgcagGCATGGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCTGATGGTGACCTAGCCGGCACTGTGCACCCACAACTACAGgcctgtgtacttgttgtgggagtcaggtaggcgtactgtgaacacccaactgaacc Alignment from Exonerate_protein2genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agagttatcaggaagcaacagggatgagcccctcccaccctcccctgcagGCATGGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCTGATGGTGACCTAGCCGGCACTGTGCACCCACAACTACAGgcctgtgtacttgttgtgggagtcaggtaggcgtactgtgaacacccaactgaacc Alignment from Exonerate_coding2genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agagttatcaggaagcaacagggatgagcccctcccaccctcccctgcagGCATGGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCTGATGGTGACCTAGCCGGCACTGTGCACCCACAACTACAGgcctgtgtacttgttgtgggagtcaggtaggcgtactgtgaacacccaactgaacc Alignment from GeneWise GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAGGACCAT agagttatcaggaagcaacagggatgagcccctcccaccctcccctgcagGCATGGACTCAGCAGCATTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCTGATGGTGACCTAGCCGGCACTGTGCACCCACAACTACAGGCCTGTgtacttgttgtgggagtcaggtaggcgtactgtgaacacccaactgaacc #### Adrbk1_ID476_19 --> 0 - 0 Original Alignment ------------CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT gtgagtatctgggtgcaccctaatttcatattcattgcatatatttctagGGCGTGCACGAGCAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCAGAGATCAAGGAACACAAGTGTCTACTACTTAAAGTCCGAGGTGGCAAGCAGTTTGTATTACAGTGTGATgtgagtgagtgtgaggggtgaggctgatggtaacgtttgaaggcaaatgc Alignment from CESAR ------------CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT gtgagtatctgggtgcaccctaatttcatattcattgcatatatttctagGGCGTGCACGAGCAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCAGAGATCAAGGAACACAAGTGTCTACTACTTAAAGTCCGAGGTGGCAAGCAGTTTGTATTACAGTGTGATgtgagtgagtgtgaggggtgaggctgatggtaacgtttgaaggcaaatgc Alignment from Spaln_aa2Genome CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT gtgagtatctgggtgcaccctaatttcatattcattgcatatatttctagggcgtgcacgagCAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCAGAGATCAAGGAACACAAGTGTCTACTACTTAAAGTCCGAGGTGGCAAGCAGTTTGTATTACAGTGTGATgtgagtgagtgtgaggggtgaggctgatggtaacgtttgaaggcaaatgc Alignment from Spaln_nt2Genome CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT gtgagtatctgggtgcaccctaatttcatattcattgcatatatttctagggcgtgcacgagCAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCAGAGATCAAGGAACACAAGTGTCTACTACTTAAAGTCCGAGGTGGCAAGCAGTTTGTATTACAGTGTGATgtgagtgagtgtgaggggtgaggctgatggtaacgtttgaaggcaaatgc Alignment from Pairagon CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT gtgagtatctgggtgcaccctaatttcatattcattgcatatatttctagggcgtgcacgagCAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCAGAGATCAAGGAACACAAGTGTCTACTACTTAAAGTCCGAGGTGGCAAGCAGTTTGTATTACAGTGTGATgtgagtgagtgtgaggggtgaggctgatggtaacgtttgaaggcaaatgc Alignment from Exonerate_protein2genome CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT gtgagtatctgggtgcaccctaatttcatattcattgcatatatttctagggcgtgcacgagCAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCAGAGATCAAGGAACACAAGTGTCTACTACTTAAAGTCCGAGGTGGCAAGCAGTTTGTATTACAGTGTGATgtgagtgagtgtgaggggtgaggctgatggtaacgtttgaaggcaaatgc Alignment from Exonerate_coding2genome CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT gtgagtatctgggtgcaccctaatttcatattcattgcatatatttctagggcgtgcacgagCAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCAGAGATCAAGGAACACAAGTGTCTACTACTTAAAGTCCGAGGTGGCAAGCAGTTTGTATTACAGTGTGATgtgagtgagtgtgaggggtgaggctgatggtaacgtttgaaggcaaatgc Alignment from GeneWise CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT gtgagtatctgggtgcaccctaatttcatattcattgcatatatttctagggcgtgcacgagCAAAGCCTCCTGACAATGGAGGAAATTCAGTCTGTTGAAGGGGCAGAGATCAAGGAACACAAGTGTCTACTACTTAAAGTCCGAGGTGGCAAGCAGTTTGTATTACAGTGTGATgtgagtgagtgtgaggggtgaggctgatggtaacgtttgaaggcaaatgc #### Adrbk1_ID484_11 --> 0 - 2 Original Alignment ------------------CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTgt gGGC cctctccacaggcagccagcatgatgactgcatttctgttctctgtctagGTCTTGATACGAGGCAATCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTGAGCCTAGTATGTGACTTCTCCAAGAAGAGGCCCCACGCTGGGgtgtaagtgcccacatattcacttcattttttttttttttttttctaggGGC Alignment from CESAR ------------------CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTgt gGGC cctctccacaggcagccagcatgatgactgcatttctgttctctgtctagGTCTTGATACGAGGCAATCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTGAGCCTAGTATGTGACTTCTCCAAGAAGAGGCCCCACGCTGGGgtgtaagtgcccacatattcacttcattctttttttattttaaatcaggGGC Alignment from Spaln_aa2Genome CCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgactgcatttctgttctctgtctaggtcttgatacgaggcaatccagCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTGAGCCTAGTATGTGACTTCTCCAAGAAGAGGCCCCACGCTGGGGTgtaagtgcccacatattcacttcattttttttttttttttttctagGGGC Alignment from Spaln_nt2Genome -----CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgactgcatttctgttctctgtctaggtcttgatacgagGCAATCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTGAGCCTAGTATGTGACTTCTCCAAGAAGAGGCCCCACGCTGGGGTgtaagtgcccacatattcacttcattttttttttttttttttctagGGGC Alignment from Pairagon ------------------CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgactgcatttctgttctctgtctagGTCTTGATACGAGGCAATCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTGAGCCTAGTATGTGACTTCTCCAAGAAGAGGCCCCACGCTGGGGTgtaagtgcccacatattcacttcattttttttttttttttttctagGGGC Alignment from Exonerate_protein2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgactgcatttctgttctctgtctaggtcttgatacgaggcaatCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTGAGCCTAGTATGTGACTTCTCCAAGAAGAGGCCCCACGCTGGGGTgtaagtgcccacatattcacttcattttttttttttttttttctagGGGC Alignment from Exonerate_coding2genome CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgactgcatttctgttctctgtctaggtcttgatacgaggcaatCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTGAGCCTAGTATGTGACTTCTCCAAGAAGAGGCCCCACGCTGGGGTgtaagtgcccacatattcacttcattttttttttttttttttctagGGGC Alignment from GeneWise ------------------CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT GGGC cctctccacaggcagccagcatgatgactgcatttctgttctctgtctagGTCTTGATACGAGGCAATCCAGCTAACATTCTCCTAGATGTACATGGCCATGTGAGAATCTCCGACTTGAGCCTAGTATGTGACTTCTCCAAGAAGAGGCCCCACGCTGGGGTgtaagtgcccacatattcacttcattttttttttttttttttctagGGGC #### Adrbk1_ID486_9 --> 0 - 1 Original Alignment ---------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC ccagtgttagcctgccttccatgattcaaaaccccccacccccgtctcagAGAACCTTAGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATggtataatagtttaggggatgctatttttctcccctgctgtaggtGGGGAA Alignment from CESAR ---------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC ccagtgttagcctgccttccatgattcaaaaccccccacccccgtctcagAGAACCTTAGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATggtataatagtttaggggatggacacctgctctgtccctgcaggtGGGGAA Alignment from Spaln_aa2Genome ---------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagtgttagcctgccttccatgattcaaaaccccccacccccgtctcagAGAACCTTAGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATGgtataatagtttaggggatgctatttttctcccctgctgtagGTGGGGAA Alignment from Spaln_nt2Genome G ACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagTgttagcctgccttccatgattcaaaaccccccacccccgtctcagagaaccttagACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATGgtataatagtttaggggatgctatttttctcccctgctgtagGTGGGGAA Alignment from Pairagon ACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagtgttagcctgccttccatgattcaaaaccccccacccccgtctcagagaaccttagACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATGgtataatagtttaggggatgctatttttctcccctgctgtagGTGGGGAA Alignment from Exonerate_protein2genome CCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagtgttagcctgccttccatgattcaaaaccccccacccccgtctcagagaaccttagactgTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATGgtataatagtttaggggatgctatttttctcccctgctgtagGTGGGGAA Alignment from Exonerate_coding2genome CCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagtgttagcctgccttccatgattcaaaaccccccacccccgtctcagagaaccttagactgTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATGgtataatagtttaggggatgctatttttctcccctgctgtagGTGGGGAA Alignment from GeneWise ---------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagtgttagcctgccttccatgattcaaaaccccccacccccgtctcagAGAACCTTAGACTGTTCTTTCACTGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTAAGCTTCATCCTGGACCTTATGAATGgtataatagtttaggggatgctatttttctcccctgctgtagGTGGGGAA #### Adrbk1_ID487_8 --> 1 - 0 Original Alignment g------TACGCCATGAAGTGTCTG---GACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tactgctctgtcttgcagggcatgcttactctgtcccccttaccctccaggTGTCGCCATGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtaagttgagtggccaagtggactcccactttgtccattttaacctctca Alignment from CESAR g------TACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tactgctctgtcttgcagggcatgcttactctgtcccccttaccctccaggTGTCGCCATGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtaagttgagtggccaagtggactcccactttgtccattttaacctctca Alignment from Spaln_aa2Genome G------TACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGG tactgctctgtcttgcagggcatgcttactctgtcccccttaccctccagGTGTCGCCATGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtaagttgagtggccaagtggactcccactttgtccattttaacctctca Alignment from Spaln_nt2Genome GTA-CGCCATG-----AAGTGTCTGGA---CAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tactgctctgtcttgcagggcatgcttactctgtcccccttaccctccagGTGTCGCCATGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtaagttgagtggccaagtggactcccactttgtccattttaacctctca Alignment from Pairagon GT------ACGCCATGAAGTGTCTGG---ACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tactgctctgtcttgcagggcatgcttactctgtcccccttaccctccagGTGTCGCCATGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtaagttgagtggccaagtggactcccactttgtccattttaacctctca Alignment from Exonerate_protein2genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tactgctctgtcttgcagggcatgcttactctgtcccccttaccctccaggtgtcgCCATGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtaagttgagtggccaagtggactcccactttgtccattttaacctctca Alignment from Exonerate_coding2genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tactgctctgtcttgcagggcatgcttactctgtcccccttaccctccaggtgtcgCCATGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtaagttgagtggccaagtggactcccactttgtccattttaacctctca Alignment from GeneWise ----ATGTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG tactgctctgtcttgcagggcatgcttactctgtcccccttaccctccagGTGTCGCCATGCTAAGAGGTGTCTGGAAAACAAGAAACGCATCAAGATGAAACAGGGAGAGACTCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTGAGCACTGGGgtaagttgagtggccaagtggactcccactttgtccattttaacctctca #### Adrbk1_ID488_7 --> 0 - 2 Original Alignment CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---at gcacaccagcatcactgtgagactagtgttctttaatttttgttgctaagCTGACCATGAATGATTTTAGTGTACATCAAATCATCGGACATGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAAGCGGATGTAGGCAAGATTatgtgagtactggactggtaagggtggccagggaaggagtcaggctttgcat Alignment from CESAR CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---at gcacaccagcatcactgtgagactagtgttctttaatttttgttgctaagCTGACCATGAATGATTTTAGTGTACATCAAATCATCGGACATGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAAGCGGATGTAGGCAAGATTatgtgagtactggactggtaagggtggccagggaaggagtcaggctttgcat Alignment from Spaln_aa2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGATG-- gcacaccagcatcactgtgagactagtgttctttaatttttgttgctaagCTGACCATGAATGATTTTAGTGTACATCAAATCATCGGACATGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAAGCGGATGTAGGCAAGATTATgtgagtactggactggtaagggtggccagggaaggagtcaggctttgcat Alignment from Spaln_nt2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT--- gcacaccagcatcactgtgagactagtgttctttaatttttgttgctaagCTGACCATGAATGATTTTAGTGTACATCAAATCATCGGACATGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAAGCGGATGTAGGCAAGATTATgtgagtactggactggtaagggtggccagggaaggagtcaggctttgcat Alignment from Pairagon CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT--- gcacaccagcatcactgtgagactagtgttctttaatttttgttgctaagCTGACCATGAATGATTTTAGTGTACATCAAATCATCGGACATGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAAGCGGATGTAGGCAAGATTATgtgagtactggactggtaagggtggccagggaaggagtcaggctttgcat Alignment from Exonerate_protein2genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---AT gcacaccagcatcactgtgagactagtgttctttaatttttgttgctaagCTGACCATGAATGATTTTAGTGTACATCAAATCATCGGACATGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAAGCGGATGTAGGCAAGATTATgtgagtactggactggtaagggtggccagggaaggagtcaggctttgcat Alignment from Exonerate_coding2genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG---AT gcacaccagcatcactgtgagactagtgttctttaatttttgttgctaagCTGACCATGAATGATTTTAGTGTACATCAAATCATCGGACATGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAAGCGGATGTAGGCAAGATTATgtgagtactggactggtaagggtggccagggaaggagtcaggctttgcat Alignment from GeneWise CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGATG-- gcacaccagcatcactgtgagactagtgttctttaatttttgttgctaagCTGACCATGAATGATTTTAGTGTACATCAAATCATCGGACATGGCGGCTTTGGTGAGGTTTATGGTTGCCGTAAAGCGGATGTAGGCAAGATTATgtgagtactggactggtaagggtggccagggaaggagtcaggctttgcat #### Aip_ID331_4 --> 0 - 0 Original Alignment GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG aattggaacccataggcagggactggttagttttgtgtcttttctctaagGTAGAGAGTCCTGGTACCTATCAACAGGACCCATGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATTCACCAGGAGGGCAACCGGTTGTATCGTGAAAGCCAGGTGAAGGAGGCTGCTGCCAAGTACTATGATGCCATTGCATCCCTCAAGAATCTGCAAATG---gtgagttgtctcacagccacaatgggggggacatatgaagcacacatggc Alignment from CESAR GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG aattggaacccataggcagggactggttagttttgtgtcttttctctaagGTAGAGAGTCCTGGTACCTATCAACAGGACCCATGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATTCACCAGGAGGGCAACCGGTTGTATCGTGAAAGCCAGGTGAAGGAGGCTGCTGCCAAGTACTATGATGCCATTGCATCCCTCAAGAATCTGCAAATG---gtgagttgtctcacagccacaatgggggggacatatgaagcacacat Alignment from Spaln_aa2Genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATG aattggaacccataggcagggactggttagttttgtgtcttttctctaagGTAGAGAGTCCTGGTACCTATCAACAGGACCCATGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATTCACCAGGAGGGCAACCGGTTGTATCGTGAAAGCCAGGTGAAGGAGGCTGCTGCCAAGTACTATGATGCCATTGCATCCCTCAAGAATCTGCAAATGgtgagttgtctcacagccacaatgggggggacatatgaagcacacatggc Alignment from Spaln_nt2Genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG- aattggaacccataggcagggactggttagttttgtgtcttttctctaagGTAGAGAGTCCTGGTACCTATCAACAGGACCCATGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATTCACCAGGAGGGCAACCGGTTGTATCGTGAAAGCCAGGTGAAGGAGGCTGCTGCCAAGTACTATGATGCCATTGCATCCCTCAAGAATCTGCAAATGGTGAgttgtctcacagccacaatgggggggacatatgaagcacacatggc Alignment from Pairagon GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATG aattggaacccataggcagggactggttagttttgtgtcttttctctaagGTAGAGAGTCCTGGTACCTATCAACAGGACCCATGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATTCACCAGGAGGGCAACCGGTTGTATCGTGAAAGCCAGGTGAAGGAGGCTGCTGCCAAGTACTATGATGCCATTGCATCCCTCAAGAATCTGCAAATGgtgagttgtctcacagccacaatgggggggacatatgaagcacacatggc Alignment from Exonerate_protein2genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG aattggaacccataggcagggactggttagttttgtgtcttttctctaagGTAGAGAGTCCTGGTACCTATCAACAGGACCCATGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATTCACCAGGAGGGCAACCGGTTGTATCGTGAAAGCCAGGTGAAGGAGGCTGCTGCCAAGTACTATGATGCCATTGCATCCCTCAAGAATCTGCAAATG---gtgagttgtctcacagccacaatgggggggacatatgaagcacacat Alignment from Exonerate_coding2genome GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATGAAG aattggaacccataggcagggactggttagttttgtgtcttttctctaagGTAGAGAGTCCTGGTACCTATCAACAGGACCCATGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATTCACCAGGAGGGCAACCGGTTGTATCGTGAAAGCCAGGTGAAGGAGGCTGCTGCCAAGTACTATGATGCCATTGCATCCCTCAAGAATCTGCAAATG---gtgagttgtctcacagccacaatgggggggacatatgaagcacacat Alignment from GeneWise GTAGAGAGTCCTGGCACCTATCAACAGGACCCATGGGCGATGACAGATGAGGAGAAAGCAAAGGCAGTACCAGTCATCCACCAAGAGGGCAACCGGTTGTACCGTGAGGGCCAGGTGAAAGAGGCTGCTGCCAAGTACTATGACGCCATCGCCTGCCTCAAGAATCTGCAGATG-------------------------------------------------- aattggaacccataggcagggactggttagttttgtgtcttttctctaagGTAGAGAGTCCTGGTACCTATCAACAGGACCCATGGGCAATGACAGATGAGGAGAAAGCAAAGGAAGTACCTGTCATTCACCAGGAGGGCAACCGGTTGTATCGTGAAAGCCAGGTGAAGGAGGCTGCTGCCAAGTACTATGATGCCATTGCATCCCTCAAGAATCTGCAAATGGTGAGTTGTCTCACAGCCACAATGGGGGGGACATATGAAGCACACATGGC #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment ---------------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ccattcatctgcctctccatttaccactttggtgacccttccctacacagGACCCGGCCACCGTTCTCACAAAGCTTAGCTCAGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAggtgagggaaattttgagaccacccatttggatgagagtgccccaagaggg Alignment from CESAR ---------------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ccattcatctgcctctccatttaccactttggtgacccttccctacacagGACCCGGCCACCGTTCTCACAAAGCTTAGCTCAGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAggtgagggaaattttgagaccacccatttggatgagagtgccccaagaggg Alignment from Spaln_aa2Genome CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgcctctccatttaccactttggtgacccttccctacacaggacccggccaccgttctcacaaagCTTAGCTCAGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagggaaattttgagaccacccatttggatgagagtgccccaagaggg Alignment from Spaln_nt2Genome GTGTCCACCAACTTGCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgcctctccatttaccactttggtgacccttccctacacagGACCCGGCCACCGTTCTCACAAAGCTTAGCTCAGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagggaaattttgagaccacccatttggatgagagtgccccaagaggg Alignment from Pairagon ---------------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgcctctccatttaccactttggtgacccttccctacacagGACCCGGCCACCGTTCTCACAAAGCTTAGCTCAGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagggaaattttgagaccacccatttggatgagagtgccccaagaggg Alignment from Exonerate_protein2genome CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgcctctccatttaccactttggtgacccttccctacacaggacccggccaccgttctcacaaagCTTAGCTCAGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagggaaattttgagaccacccatttggatgagagtgccccaagaggg Alignment from Exonerate_coding2genome CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgcctctccatttaccactttggtgacccttccctacacaggacccggccaccgttctcacaaagCTTAGCTCAGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagggaaattttgagaccacccatttggatgagagtgccccaagaggg Alignment from GeneWise CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ccattcatctgcctctccatttaccactttggtgacccttccctacacaggacccggccaccgttctcacaaagCTTAGCTCAGCTTTCATCCGGAAAGAGCCCTTTGGTCTTGTTCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCCATTGCTGCAGgtgagggaaattttgagaccacccatttggatgagagtgccccaagaggg #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAA---g cctcagtcccatgtgtatgtgttcttacgtcggcattcctgtgtccacagGTGTACAGTGCCACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAACCAggtgagcccacttgctacaggcttctgcttaagcttcctagggtatgtacc Alignment from CESAR GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAA---g cctcagtcccatgtgtatgtgttcttacgtcggcattcctgtgtccacagGTGTACAGTGCCACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAACCAggtgagcccacttgctacaggcttctgcttaagcttcctagggtatgtacc Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAA---G cctcagtcccatgtgtatgtgttcttacgtcggcattcctgtgtccacagGTGTACAGTGCCACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAACCAGgtgagcccacttgctacaggcttctgcttaagcttcctagggtatgtacc Alignment from Spaln_nt2Genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAA---G cctcagtcccatgtgtatgtgttcttacgtcggcattcctgtgtccacagGTGTACAGTGCCACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAACCAGgtgagcccacttgctacaggcttctgcttaagcttcctagggtatgtacc Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAA---AG cctcagtcccatgtgtatgtgttcttacgtcggcattcctgtgtccacagGTGTACAGTGCCACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAACCAGgtgagcccacttgctacaggcttctgcttaagcttcctagggtatgtacc Alignment from Exonerate_protein2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAA---G cctcagtcccatgtgtatgtgttcttacgtcggcattcctgtgtccacagGTGTACAGTGCCACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAACCAGgtgagcccacttgctacaggcttctgcttaagcttcctagggtatgtacc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGGG- cctcagtcccatgtgtatgtgttcttacgtcggcattcctgtgtccacagGTGTACAGTGCCACAAATGTGGAGCTGGTAACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAACCAGgtgagcccacttgctacaggcttctgcttaagcttcctagggtatgtacc #### Anxa1_ID4766_4 --> 0 - 0 Original Alignment CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG--------- aggccaggagaatggtacatacctaagtctgagtatgctctctccctcagCCCTTAGATGAAGTATTGAGAAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCATGAAGGAATTTCGAgtgagttgttctaacagacttgctcctataacaggttcaaggagcttttg Alignment from CESAR CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG--------- aggccaggagaatggtacatacctaagtctgagtatgctctctccctcagCCCTTAGATGAAGTATTGAGAAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCATGAAGGAATTTCGAgtgagttgttctaacagacttgctcctataacaggttcaaggagcttttg Alignment from Spaln_aa2Genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG--------- aggccaggagaatggtacatacctaagtctgagtatgctctctccctcagCCCTTAGATGAAGTATTGAGAAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCATGAAGGAATTTCGAgtgagttgttctaacagacttgctcctataacaggttcaaggagcttttg Alignment from Spaln_nt2Genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG--------- aggccaggagaatggtacatacctaagtctgagtatgctctctccctcagCCCTTAGATGAAGTATTGAGAAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTTG---CAGATGAACTACATGGTGCCATGAAGGAATTTCGAgtgagttgttctaacagacttgctcctataacaggttcaaggagcttttg Alignment from Pairagon CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG--------- aggccaggagaatggtacatacctaagtctgagtatgctctctccctcagCCCTTAGATGAAGTATTGAGAAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATT---TGCAGATGAACTACATGGTGCCATGAAGGAATTTCGAgtgagttgttctaacagacttgctcctataacaggttcaaggagcttttg Alignment from Exonerate_protein2genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaatggtacatacctaagtctgagtatgctctctccctcagCCCTTAGATGAAGTATTGAGAAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCATGAAGgaatttcgagtgagttgttctaacagacttgctcctataacaggttcaaggagcttttg Alignment from Exonerate_coding2genome CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG aggccaggagaatggtacatacctaagtctgagtatgctctctccctcagCCCTTAGATGAAGTATTGAGAAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCATGAAGgaatttcgagtgagttgttctaacagacttgctcctataacaggttcaaggagcttttg Alignment from GeneWise CCCTTGGATGAAGTCTTGAGAAAAGCCCTTACAGGCCACCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCTCAGTTTGATGCAGATGAACTCCGTGGTGCCATGAAG--------- aggccaggagaatggtacatacctaagtctgagtatgctctctccctcagCCCTTAGATGAAGTATTGAGAAAAGCCCTCACAGGCCATCTGGAGGAGGTTGTTTTGGCTATGCTAAAAACTCCAGCACAATTT---GCAGATGAACTACATGGTGCCATGAAGGAATTTCGAgtgagttgttctaacagacttgctcctataacaggttcaaggagcttttg #### Atg2a_ID1515_4 --> 2 - 2 Original Alignment tg---------------------CTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGag ctccaggatagggacctcagataaggtattctcttctctgctctgctcagtcGACCCTGTCGATCGCAGCTCTCTCAGGAGGACCAAGGTGACCTCTCTGAACATTGTTGTGAGGGTGGAGCAGTCATTGGGTGATGAAGATCAGAGTATTGCTGTGGAGATCCGTGCACAGaggtaagttgcttgagaggttcaagtgtccttttggagcactggtgtaagat Alignment from CESAR tg---------------------CTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGag ctccaggatagggacctcagataaggtattctcttctctgctctgctcagtcGACCCTGTCGATCGCAGCTCTCTCAGGAGGACCAAGGTGACCTCTCTGAACATTGTTGTGAGGGTGGAGCAGTCATTGGGTGATGAAGATCAGAGTATTGCTGTGGAGATCCGTGCACAGaggtaagttgcttgagaggttcaagtgtccttttggagcactggtgtaagat Alignment from Spaln_aa2Genome TG---------------------CTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAG ctccaggatagggacctcagataaggtattctcttctctgctctgctcagTCGACCCTGTCGATCGCAGCTCTCTCAGGAGGACCAAGGTGACCTCTCTGAACATTGTTGTGAGGGTGGAGCAGTCATTGGGTGATGAAGATCAGAGTATTGCTGTGGAGATCCGTGCACAGAGgtaagttgcttgagaggttcaagtgtccttttggagcactggtgtaagat Alignment from Spaln_nt2Genome TGCTCC--GGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAG ctccaggatagggacctcagataaggtattctcttctctgctctgctcagtcgaccctgtcgatcgcagCTCTCTCAGGAGGACCAAGGTGACCTCTCTGAACATTGTTGTGAGGGTGGAGCAGTCATTGGGTGATGAAGATCAGAGTATTGCTGTGGAGATCCGTGCACAGAGgtaagttgcttgagaggttcaagtgtccttttggagcactggtgtaagat Alignment from Pairagon TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAG ctccaggatagggacctcagataaggtattctcttctctgctctgctcagtcgaccctgtcgatcgcagctctctcag-------GAGGACCAAGGTGACCTCTCTGAACATTGTTGTGAGGGTGGAGCAGTCATTGGGTGATGAAGATCAGAGTATTGCTGTGGAGATCCGTGCACAGAGgtaagttgcttgagaggttcaagtgtccttttggagcactggtgtaagat Alignment from Exonerate_protein2genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAG ctccaggatagggacctcagataaggtattctcttctctgctctgctcagtcgaccctgtcgatcgcagctCTCTCAGGAGGACCAAGGTGACCTCTCTGAACATTGTTGTGAGGGTGGAGCAGTCATTGGGTGATGAAGATCAGAGTATTGCTGTGGAGATCCGTGCACAGAGgtaagttgcttgagaggttcaagtgtccttttggagcactggtgtaagat Alignment from Exonerate_coding2genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAG ctccaggatagggacctcagataaggtattctcttctctgctctgctcagtcgaccctgtcgatcgcagctCTCTCAGGAGGACCAAGGTGACCTCTCTGAACATTGTTGTGAGGGTGGAGCAGTCATTGGGTGATGAAGATCAGAGTATTGCTGTGGAGATCCGTGCACAGAGgtaagttgcttgagaggttcaagtgtccttttggagcactggtgtaagat Alignment from GeneWise --------------------GTGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGAG ctccaggatagggacctcagataaggtattctcttctctgctctgctcagTCGACCCTGTCGATCGCAGCTCTCTCAGGAGGACCAAGGTGACCTCTCTGAACATTGTTGTGAGGGTGGAGCAGTCATTGGGTGATGAAGATCAGAGTATTGCTGTGGAGATCCGTGCACAGAGgtaagttgcttgagaggttcaagtgtccttttggagcactggtgtaagat #### Atg2a_ID1517_6 --> 0 - 1 Original Alignment ------TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAg atattggtcaagaccatgcaaccactcattccttctaccttgttgaatagTCCCTACTGGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAggtaagatcgtgattaggagtgagaccaagacatccaggcaggctccctct Alignment from CESAR ------TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAg atattggtcaagaccatgcaaccactcattccttctaccttgttgaatagTCCCTACTGGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAggtaagatcgtgattaggagtgagaccaagacatccaggcaggaacaaatg Alignment from Spaln_aa2Genome CCCAAGTTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG atattggtcaagaccatgcaaccactcattccttctaccttgttgaatagTCCCTACTGGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAGgtaagatcgtgattaggagtgagaccaagacatccaggcaggctccctct Alignment from Spaln_nt2Genome CCCCAAGTTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG atattggtcaagaccatgcaaccactcattccttctaccttgttgaatagTCCCTA-CTGGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCA---CCATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAGgtaagatcgtgattaggagtgagaccaagacatccaggcaggctccctct Alignment from Pairagon T------TGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG atattggtcaagaccatgcaaccactcattccttctaccttgttgaatagTCCCTACTGGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCA---CCATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAGgtaagatcgtgattaggagtgagaccaagacatccaggcaggctccctct Alignment from Exonerate_protein2genome GCCCCAAGTTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG atattggtcaagaccatgcaaccactcattccttctaccttgttgaatAGTCCCTACTGGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAGgtaagatcgtgattaggagtgagaccaagacatccaggcaggctccctct Alignment from Exonerate_coding2genome GCCCCAAGTTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG atattggtcaagaccatgcaaccactcattccttctaccttgttgaatAGTCCCTACTGGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAGgtaagatcgtgattaggagtgagaccaagacatccaggcaggctccctct Alignment from GeneWise ---AAGTTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG atattggtcaagaccatgcaaccactcattccttctaccttgttgaatagTCCCTACTGGAGGTATCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CATCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAGgtaagatcgtgattaggagtgagaccaagacatccaggcaggctccctct #### Atg2a_ID1518_7 --> 2 - 1 Original Alignment ac------CCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGg aggagtgagaccaagacatccaggcaggtgtcccatcttcctctctgcagacGTGGCTCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGggtagggcccaaccattttcaatcagagggatatgcagcaaaggagttaga Alignment from CESAR ac------CCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGg aggagtgagaccaagacatccaggcaggtgtcccatcttcctctctgcagacGTGGCTCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGggtagggcccaaccattttcaatcagagggatatgcagcaaaggagttaga Alignment from Spaln_aa2Genome AC------CCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGG aggagtgagaccaagacatccaggcaggtgtcccatcttcctctctgcagACGTGGCTCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGgtagggcccaaccattttcaatcagagggatatgcagcaaaggagttaga Alignment from Spaln_nt2Genome AC------CCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGG aggagtgagaccaagacatccaggcaggtgtcccatcttcctctctgcagACGTGGCTCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGgtagggcccaaccattttcaatcagagggatatgcagcaaaggagttaga Alignment from Pairagon AC------CCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGG aggagtgagaccaagacatccaggcaggtgtcccatcttcctctctgcagACGTGGCTCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGgtagggcccaaccattttcaatcagagggatatgcagcaaaggagttaga Alignment from Exonerate_protein2genome AC------CCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGG aggagtgagaccaagacatccaggcaggtgtcccatcttcctctctgcagACGTGGCTCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGgtagggcccaaccattttcaatcagagggatatgcagcaaaggagttaga Alignment from Exonerate_coding2genome AC------CCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGG aggagtgagaccaagacatccaggcaggtgtcccatcttcctctctgcagACGTGGCTCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGgtagggcccaaccattttcaatcagagggatatgcagcaaaggagttaga Alignment from GeneWise -----GACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGG aggagtgagaccaagacatccaggcaggtgtcccatcttcctctctgcagACGTGGCTCCCGCAGGCCTGGCTGACAAGCTGAACAAGAGCCGCCAACTGGGTGCTGAAGATCTGTGGCTCATTGAGCAAGACCTGAACCAGCAGCTGCAAGCAGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGgtagggcccaaccattttcaatcagagggatatgcagcaaaggagttaga #### Atg2a_ID1521_10 --> 1 - 0 Original Alignment CTGCCCTTGTAGCCACGTCcg gTTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCaggtaaggtctgaaggctttctgtttcacagg---TCTGGCACAGCTGTGCAGCTTTCCTGGGAGCTGCATACCGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAACTGGAAGTTTTGGAGTGCCTATGGCACAGGGCTGCAACACCACCAGAGTACACAGAGgtaagagtaatgagtgttgtgggcgtgtccttctggtgagtgtcaggcca Alignment from CESAR CTGCCCTTGTAGCCACGTCcg gTTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCaggtacgttctgaaggctttctgtttcacagg---TCTGGCACAGCTGTGCAGCTTTCCTGGGAGCTGCATACCGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAACTGGAAGTTTTGGAGTGCCTATGGCACAGGGCTGCAACACCACCAGAGTACACAGAGgtaagagtaatgagtgttgtgggcgtgtccttctggtgagtgtcaggcca Alignment from Spaln_aa2Genome CTGCCCTTGTAGCCACGTCCGG--------------------------TTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCAGGTAAGGTCTGAAGGCTTTCTGTTTCacAGGTCTGGCACAGCTGTGCAGCTTTCCTGGGAGCTGCATACCGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAACTGGAAGTTTTGGAGTGCCTATGGCACAGGGCTGCAACACCACCAGAGTACACAGAGgtaagagtaatgagtgttgtgggcgtgtccttctggtgagtgtcaggcca Alignment from Spaln_nt2Genome TAGCCACGTCCGGTTAACTGGCACAG CCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TAGCCACATCAGGT---------AAGgtctgaaggctttctgtttcacaggtctggcacagCTGTGCAGCTTTCCTGGGAGCTGCATACCGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAACTGGAAGTTTTGGAGTGCCTATGGCACAGGGCTGCAACACCACCAGAGTACACAGAGgtaagagtaatgagtgttgtgggcgtgtccttctggtgagtgtcaggcca Alignment from Pairagon CTGCCCTTGTAGCCACGTCCGGTTAA--------------------------CTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCAGGTAAGGTCTGAAGGCTTTCTGTTTCACAGGTCTGGCACAGCTGTGCAGCTTTCCTGGGAGCTGCATACCGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAACTGGAAGTTTTGGAGTGCCTATGGCACAGGGCTGCAACACCACCAGAGTACACAGAGgtaagagtaatgagtgttgtgggcgtgtccttctggtgagtgtcaggcca Alignment from Exonerate_protein2genome ACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG ttgcccttgtagccacatcaggtaaggtctgaaggctttctgtttcacaggTCTGGCACAGCTGTGCAGCTTTCCTGGGAGCTGCATACCGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAACTGGAAGTTTTGGAGTGCCTATGGCACAGGGCTGCAACACCACCAGAGTACACAGAGgtaagagtaatgagtgttgtgggcgtgtccttctggtgagtgtcaggcca Alignment from Exonerate_coding2genome CTGCCCTTGTAGCCACGTCCG GTTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTG-----CCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCAGgtaaggtctgaaggctttctgtttcacaggT----CTGGCACAGCTGTGCAGCTTTCCTGGGAGCTGCATACCGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAACTGGAAGTTTTGGAGTGCCTATGGCACAGGGCTGCAACACCA-----CCAGAGTACACAGAGgtaagagtaatgagtgttgtgggcgtgtccttctggtgagtgtcaggcca Alignment from GeneWise CTGCCCTTGTAGCCACGTCCGG--TTA------------------------ACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCAGGTAAGGTCTGAAGGCTTTCTGTTTCACAGGTCTGGCACAGCTGTGCAGCTTTCCTGGGAGCTGCATACCGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAACTGGAAGTTTTGGAGTGCCTATGGCACAGGGCTGCAACACCACCAGAGTACACAGAGgtaagagtaatgagtgttgtgggcgtgtccttctggtgagtgtcaggcca #### Atg2a_ID1526_15 --> 1 - 0 Original Alignment gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA aacttttgttgggaggcatcagggcatctcagttgtctctgtttttctaggGTGGTGGTGACCCTGAATCCC---CCGAGTAGCACCCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAG---------gtactgtctgcggaatcgcctgactttcccactggccactggtggcaaca Alignment from CESAR gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA aacttttgttgggaggcatcagggcatctcagttgtctctgtttttctaggGTGGTGGTGACCCTGAATCCCCCG---AGTAGCACCCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAG---------gtactgtctgcggaatcgcctgactttcccactggccactg Alignment from Spaln_aa2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA aacttttgttgggaggcatcagggcatctcagttgtctctgtttttctagGGTGGTGGTGACCCTGAATCCCCCGAGTAGC---ACCCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGGTACTGTCTgcggaatcgcctgactttcccactggccactggtggcaaca Alignment from Spaln_nt2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAG aacttttgttgggaggcatcagggcatctcagttgtctctgtttttctagGGTGGTGGTGACCCTGAATCCCC---CGAGTAGCACCCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGgtactgtctgcggaatcgcctgactttcccactggccactggtggcaaca Alignment from Pairagon GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAG aacttttgttgggaggcatcagggcatctcagttgtctctgtttttctagGGTGGTGGTGACCCTGAATCCCC---CGAGTAGCACCCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGgtactgtctgcggaatcgcctgactttcccactggccactggtggcaaca Alignment from Exonerate_protein2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAG aacttttgttgggaggcatcagggcatctcagttgtctctgtttttctagGGTGGTGGTGACCCTGAATCCCCCGAGTAGC---ACCCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGgtactgtctgcggaatcgcctgactttcccactggccactggtggcaaca Alignment from Exonerate_coding2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAG aacttttgttgggaggcatcagggcatctcagttgtctctgtttttctagGGTGGTGGTGACCCTGAATCCCCCGAGTAGC---ACCCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTATGAGgtactgtctgcggaatcgcctgactttcccactggccactggtggcaaca Alignment from GeneWise GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA aacttttgttgggaggcatcagggcatctcagttgtctctgtttttctagGGTGGTGGTGACCCTGAATCCCCCGAGTAGC---ACCCAACGGGAGACAGCTTACAAGAAAGGTCGGGATTTAGAGCTTTCCACTGAGAGTCCATGTGAGTTACAGCAACCTGAGCCCTCACCCTTTTCTTCCAAGAGGTCTATGTAT---------GAGgtactgtctgcggaatcgcctgactttcccactggccactggtggcaaca #### Atg2a_ID1527_16 --> 0 - 2 Original Alignment ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACag tggacgctaccaccacatctttgcttttccctttgttcttctctctttag---GTGATCCCTGGAGAACCAGAACAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCTCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCTAGTAAGGAAGTATACAAAAGTATCTACAACaggtaccaggagggattcaggcagtctgattaaggcaggaccagaatggagg Alignment from CESAR ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACag caatggacgctaccaccacatcttttttccctttgttcttctctctttag---GTGATCCCTGGAGAACCAGAACAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCTCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCTAGTAAGGAAGTATACAAAAGTATCTACAACaggtaccaggagggattcaggcagtctgattaaggcaggaccagaatggagg Alignment from Spaln_aa2Genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tggacgctaccaccacatctttgcttttccctttgttcttctctctttag---GTGATCCCTGGAGAACCAGAACAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCTCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCTAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaccaggagggattcaggcagtctgattaaggcaggaccagaatggagg Alignment from Spaln_nt2Genome GTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tggacgctaccaccacatctttgcttttccctttgttcttctctctttagGTGATCCCTGGAGAACCAGAACAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCTCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCTAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaccaggagggattcaggcagtctgattaaggcaggaccagaatggagg Alignment from Pairagon ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAGG------------------------------------------------- tggacgctaccaccacatctttgcttttccctttgttcttctctctttag---GTGATCCCTGGAGAACCAGAACAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCTCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCTAGTAAGGAAGTATACAAAAGTATCTACAACAGGTACCAGGAGGGATTCAGGCAGTCTGATTAAGGCAGGACCAGAATGGAGG Alignment from Exonerate_protein2genome GTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tggacgctaccaccacatctttgcttttccctttgttcttctctctttagGTGATCCCTGGAGAACCAGAACAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCTCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCTAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaccaggagggattcaggcagtctgattaaggcaggaccagaatggagg Alignment from Exonerate_coding2genome GTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tggacgctaccaccacatctttgcttttccctttgttcttctctctttagGTGATCCCTGGAGAACCAGAACAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCTCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCTAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaccaggagggattcaggcagtctgattaaggcaggaccagaatggagg Alignment from GeneWise ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tggacgctaccaccacatctttgcttttccctttgttcttctctctttagGTG---ATCCCTGGAGAACCAGAACAGATGAGAACATTCCAGAGCCGAACACTGGCACTGTCTCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCATATTTTTCTGCCTAGTAAGGAAGTATACAAAAGTATCTACAACAGgtaccaggagggattcaggcagtctgattaaggcaggaccagaatggagg #### Atg2a_ID1528_17 --> 1 - 1 Original Alignment gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTA------g agaatggaggtcctgactttagactgctattttgcttcctgtttatttagaATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACCACCggtaggagagggacactagctagacaatatattatccaagtagtagggtgt Alignment from CESAR gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTA------g agaatggaggtcctgactttagactgctattttgcttcctgtttatttagaATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACCACCggtaggagagggacactagctagacaatatattatccaagtagtagggtgt Alignment from Spaln_aa2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAGACTCGG agaatggaggtcctgactttagactgctattttgcttcctgtttatttagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACCACCGgtaggagagggacactagctagacaatatattatccaagtagtagggtgt Alignment from Spaln_nt2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTA------G agaatggaggtcctgactttagactgctattttgcttcctgtttatttagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACCACCGgtaggagagggacactagctagacaatatattatccaagtagtagggtgt Alignment from Pairagon GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCT------AG agaatggaggtcctgactttagactgctattttgcttcctgtttatttagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACCACCGgtaggagagggacactagctagacaatatattatccaagtagtagggtgt Alignment from Exonerate_protein2genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAGACTCGG agaatggaggtcctgactttagactgctattttgcttcctgtttatttagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACCACCGgtaggagagggacactagctagacaatatattatccaagtagtagggtgt Alignment from Exonerate_coding2genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAGACTCGG agaatggaggtcctgactttagactgctattttgcttcctgtttatttagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACCACCGgtaggagagggacactagctagacaatatattatccaagtagtagggtgt Alignment from GeneWise GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAGACTCGG agaatggaggtcctgactttagactgctattttgcttcctgtttatttagAATCAATAATGACTTACTTATGTGGGAGCCTGCAGATCTACTTCCCACATCAAGTGCTGCTGCTCGGCCACCTGGCTCATCAGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTTACCACCGgtaggagagggacactagctagacaatatattatccaagtagtagggtgt #### Atg2a_ID1531_20 --> 2 - 0 Original Alignment cg------------------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gtgagtcacttagacacacaagggtcagttttctttctccttccacacagcaGAACCCGGCATGCCCGGCGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAGGTGCCCAGCTTTGCCCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTTACTGAACGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCACCCATGCTGTCTGCGGCTGTTCGTATCCACCTGGACCCACATGAGAATGTCATGgtaagtcacaaggcattgtgggccactttgccttacccaacctgtgccag Alignment from CESAR cg------------------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gagagtcacttagacacacaagggtcagttttctttctccttccacacagcaGAACCCGGCATGCCCGGCGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAGGTGCCCAGCTTTGCCCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTTACTGAACGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCACCCATGCTGTCTGCGGCTGTTCGTATCCACCTGGACCCACATGAGAATGTCATGgtaagtcacaaggcattgtgggccactttgccttacccaacctgtgccag Alignment from Spaln_aa2Genome CG------------------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gtgagtcacttagacacacaagggtcagttttctttctccttccacacagCAGAACCCGGCATGCCCGGCGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAGGTGCCCAGCTTTGCCCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTTACTGAACGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCACCCATGCTGTCTGCGGCTGTTCGTATCCACCTGGACCCACATGAGAATGTCATGgtaagtcacaaggcattgtgggccactttgccttacccaacctgtgccag Alignment from Spaln_nt2Genome -------------CGGC--CATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gtgagtcacttagacacacaagggtcagttttctttctccttccacacagcagAACCCGGCATGCCCGGCGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAGGTGCCCAGCTTTGCCCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTTACTGAACGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCACCCATGCTGTCTGCGGCTGTTCGTATCCACCTGGACCCACATGAGAATGTCATGgtaagtcacaaggcattgtgggccactttgccttacccaacctgtgccag Alignment from Pairagon ----------------------------------------------------------------------GCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG GTGAGTCACTTAGACACACAAGGGTCAGTTTTCTTTCTCCTTCCACACAGCAGAACCCGGCATGCCCGGCGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAGGTGCCCAGCTTTGCCCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTTACTGAACGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCACCCATGCTGTCTGCGGCTGTTCGTATCCACCTGGACCCACATGAGAATGTCATGgtaagtcacaaggcattgtgggccactttgccttacccaacctgtgccag Alignment from Exonerate_protein2genome CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gtgagtcacttagacacacaagggtcagttttctttctccttccacacagcagaacccggcatgcccgGCGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAGGTGCCCAGCTTTGCCCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTTACTGAACGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCACCCATGCTGTCTGCGGCTGTTCGTATCCACCTGGACCCACATGAGAATGTCATGgtaagtcacaaggcattgtgggccactttgccttacccaacctgtgccag Alignment from Exonerate_coding2genome CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gtgagtcacttagacacacaagggtcagttttctttctccttccacacagcagaacccggcatgcccgGCGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAGGTGCCCAGCTTTGCCCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTTACTGAACGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCACCCATGCTGTCTGCGGCTGTTCGTATCCACCTGGACCCACATGAGAATGTCATGgtaagtcacaaggcattgtgggccactttgccttacccaacctgtgccag Alignment from GeneWise --------------GCGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gtgagtcacttagacacacaagggtcagttttctttctccttccacacagcagAACCCGGCATGCCCGGCGCCATTGAGGACTACCTGCTGCCCACCCATTTGGAGGTGCCCAGCTTTGCCCCACCTGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTTACTGAACGAGGTACTTTGGGCCGCAAAGGCCAGGGGCCACCCATGCTGTCTGCGGCTGTTCGTATCCACCTGGACCCACATGAGAATGTCATGgtaagtcacaaggcattgtgggccactttgccttacccaacctgtgccag #### Atg2a_ID1538_27 --> 0 - 1 Original Alignment ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGg agctggagccacctctgcttccattgctctctctcctgtcctttggcaagACACGGCTGCTATCAGAAAGCCCGGCCTCTCTGCCTTCATGCCTA---CTCGAGACAGCTCTAATCAATCAACGAGATTTGACTGACGCCCTTCTAGATACTGAGCGACGTGGCCTACAGGAGCTTGCCGAGTCATCAggtgtgtgggggcaatccgagggcaaggaactagtcagacacccaaagcca Alignment from CESAR ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGg agctggagccacctctgcttccattgctctctctcctgtcctttggcaagACACGGCTGCTATCAGAAAGCCCGGCCTCTCTGCCTTCATGCCTA---CTCGAGACAGCTCTAATCAATCAACGAGATTTGACTGACGCCCTTCTAGATACTGAGCGACGTGGCCTACAGGAGCTTGCCGAGTCATCAggtgtgtgggggcaatccgagggcaaggaactagtcagacacccaaagcca Alignment from Spaln_aa2Genome CTTTCGGAGAGC---------CCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagccacctctgcttccattgctctctctcctgtcctttggcaagACACGGCTGCTATCAGAAAGCCCGGCCTCTCTGCCTTCATGCCTA---CTCGAGACAGCTCTAATCAATCAACGAGATTTGACTGACGCCCTTCTAGATACTGAGCGACGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgtgtgggggcaatccgagggcaaggaactagtcagacacccaaagcca Alignment from Spaln_nt2Genome ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagccacctctgcttccattgctctctctcctgtcctttggcaagACACGGCTGCTATCAGAAAGCCCGGCCTCTCTGCCTTCATGCCTAC---TCGAGACAGCTCTAATCAATCAACGAGATTTGACTGACGCCCTTCTAGATACTGAGCGACGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgtgtgggggcaatccgagggcaaggaactagtcagacacccaaagcca Alignment from Pairagon CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagccacctctgcttccattgctctctctcctgtcctttggcaagacacggctgctatcag-------AAAGCCCGGCCTCTCTGCCTTCATGCCTAC---TCGAGACAGCTCTAATCAATCAACGAGATTTGACTGACGCCCTTCTAGATACTGAGCGACGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgtgtgggggcaatccgagggcaaggaactagtcagacacccaaagcca Alignment from Exonerate_protein2genome CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagccacctctgcttccattgctctctctcctgtcctttggcaagacacggctgCTATCAGAAAGCCCGGCCTCTCTGCCTTCATGCCTA---CTCGAGACAGCTCTAATCAATCAACGAGATTTGACTGACGCCCTTCTAGATACTGAGCGACGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgtgtgggggcaatccgagggcaaggaactagtcagacacccaaagcca Alignment from Exonerate_coding2genome CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagccacctctgcttccattgctctctctcctgtcctttggcaagacacggctgCTATCAGAAAGCCCGGCCTCTCTGCCTTCATGCCTA---CTCGAGACAGCTCTAATCAATCAACGAGATTTGACTGACGCCCTTCTAGATACTGAGCGACGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtgtgtgggggcaatccgagggcaaggaactagtcagacacccaaagcca Alignment from GeneWise ---------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCG--------------------------------------------------- agctggagccacctctgcttccattgctctctctcctgtcctttggcaagACACGGCTGCTATCAGAAAGCCCGGCCTCTCTGCCTTCATGCCTA---CTCGAGACAGCTCTAATCAATCAACGAGATTTGACTGACGCCCTTCTAGATACTGAGCGACGTGGCCTACAGGAGCTTGCCGAGTCATCAGGTGTGTGGGGGCAATCCGAGGGCAAGGAACTAGTCAGACACCCAAAGCCA #### Atg2a_ID1540_29 --> 0 - 2 Original Alignment CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACag ttgcctgggtatcagcaccagtggctgccttttcttttttcttccaccagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCGGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCAC---------aggtaggtgtttagaccttaaccattttgttgagcctcaggcattgcttaag Alignment from CESAR CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACag ttgcctgggtatcagcaccagtggctgccttttcttttttcttccaccagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCGGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCAC---------aggtaggtgtttagaccttaaccattttgttgagcctcaggcattgcttaag Alignment from Spaln_aa2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC ttgcctgggtatcagcaccagtggctgccttttcttttttcttccaccagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCGGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaggtgtttagaccttaaccattttgttgagcctcaggcattgcttaag Alignment from Spaln_nt2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG ttgcctgggtatcagcaccagtggctgccttttcttttttcttccaccagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCGGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTC---------ACAGgtaggtgtttagaccttaaccattttgttgagcctcaggcattgcttaag Alignment from Pairagon CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG ttgcctgggtatcagcaccagtggctgccttttcttttttcttccaccagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCGGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTC---------ACAGgtaggtgtttagaccttaaccattttgttgagcctcaggcattgcttaag Alignment from Exonerate_protein2genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC ttgcctgggtatcagcaccagtggctgccttttcttttttcttccaccagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCGGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaggtgtttagaccttaaccattttgttgagcctcaggcattgcttaag Alignment from Exonerate_coding2genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC ttgcctgggtatcagcaccagtggctgccttttcttttttcttccaccagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCGGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaggtgtttagaccttaaccattttgttgagcctcaggcattgcttaag Alignment from GeneWise CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCC ttgcctgggtatcagcaccagtggctgccttttcttttttcttccaccagCCTCAAGATGGGGAACCCATTGTAACACAGCTCCACCCAGGACCTATTATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCAGCTGCTCACTTCCCGGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATTTGGCACCTCTGTGGTGGCAGAGACTTTGGCCTTCACAGgtaggtgtttagaccttaaccattttgttgagcctcaggcattgcttaag #### Atg2a_ID1543_32 --> 0 - 0 Original Alignment CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cactatgcacatagtgcactcttgctttactttatacttttatttcacag---------AAGGCACTGCATGTGGCTCCCACCTGCAGTGTTGGG---CCAAAGTGTTGTCTTCTGGTGTCCATGATGCCCCTGAGGCTCAATGTGGACCAAgtacctacattattaggggcagtggcaagtatgctcttctccacagcctt Alignment from CESAR CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cccccagcccactatgcacatagtgtttactttatacttttatttcacag---------AAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCCCTGAGGCTCAATGTGGACCAAgtacctacattattaggggcagtggcaagtatgctcttctccacagcctt Alignment from Spaln_aa2Genome AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cactatgcacatagtgcactcttgctttactttatacttttatttcacagAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCCCTGAGGCTCAATGTGGACCAAgtacctacattattaggggcagtggcaagtatgctcttctccacagcctt Alignment from Spaln_nt2Genome TCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cactatgcacatagtgcactcttgctttactttatacttttatttcacag--AAGGCACTGCATGTGGCTCCCACCTGCAGTGT---TGGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCCCTGAGGCTCAATGTGGACCAAgtacctacattattaggggcagtggcaagtatgctcttctccacagcctt Alignment from Pairagon CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACC---------------------------------------------------- cactatgcacatagtgcactcttgctttactttatacttttatttcacag---------AAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCCCTGAGGCTCAATGTGGACCAAGTACCTACATTATTAGGGGCAGTGGCAAGTATGCTCTTCTCCACAGCCTT Alignment from Exonerate_protein2genome AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cactatgcacatagtgcactcttgctttactttatacttttatttcacagAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCCCTGAGGCTCAATGTGGACCAAgtacctacattattaggggcagtggcaagtatgctcttctccacagcctt Alignment from Exonerate_coding2genome AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cactatgcacatagtgcactcttgctttactttatacttttatttcacagAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCAAAGTGTTGTCTTCTGGTGTCCATGATGCCCCTGAGGCTCAATGTGGACCAAgtacctacattattaggggcagtggcaagtatgctcttctccacagcctt Alignment from GeneWise AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cactatgcacatagtgcactcttgctttactttatacttttatttcacagAAGGCACTGCATGTGGCTCCCACCTGCAGTGTTGGG---CCAAAGTGTTGTCTTCTGGTGTCCATGATGCCCCTGAGGCTCAATGTGGACCAAgtacctacattattaggggcagtggcaagtatgctcttctccacagcctt #### Atg2a_ID1544_33 --> 0 - 1 Original Alignment GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGg agtatgctcttctccacagccttaggtcattgtgatttaatattctccagGACGCCCTCTTTTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCTAGCACCAACCCCATGGTTCCAGGTGATACT------ggtaagcataggtcacttcatagaagagcacctagttccactgccataatt Alignment from CESAR GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGg agtatgctcttctccacagccttaggtcattgtgatttaatattctccagGACGCCCTCTTTTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCTAGCACCAACCCCATGGTTCCAGGTGATACT------ggtaagcataggtcacttcatagaagagcacctagttccactgccataatt Alignment from Spaln_aa2Genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACT- agtatgctcttctccacagccttaggtcattgtgatttaatattctccagGACGCCCTCTTTTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCTAGCACCAACCCCATGGTTCCAGGTGATACTGgtaagcataggtcacttcatagaagagcacctagttccactgccataatt Alignment from Spaln_nt2Genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG agtatgctcttctccacagccttaggtcattgtgatttaatattctccagGACGCCCTCTTTTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCTAGCACCAACCCCATGGTTCCAGGTGATACT------Ggtaagcataggtcacttcatagaagagcacctagttccactgccataatt Alignment from Pairagon GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG agtatgctcttctccacagccttaggtcattgtgatttaatattctccagGACGCCCTCTTTTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCTAGCACCAACCCCATGGTTCCAGGTGATACT------Ggtaagcataggtcacttcatagaagagcacctagttccactgccataatt Alignment from Exonerate_protein2genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG agtatgctcttctccacagccttaggtcattgtgatttaatattctccagGACGCCCTCTTTTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCTAGCACCAACCCCATGGTTCCAGGTGATACTGGTAAGCataggtcacttcatagaagagcacctagttccactgccataatt Alignment from Exonerate_coding2genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG agtatgctcttctccacagccttaggtcattgtgatttaatattctccagGACGCCCTCTTTTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCTAGCACCAACCCCATGGTTCCAGGTGATACTGGTAAGCataggtcacttcatagaagagcacctagttccactgccataatt Alignment from GeneWise GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTT agtatgctcttctccacagccttaggtcattgtgatttaatattctccagGACGCCCTCTTTTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCTAGCACCAACCCCATGGTTCCAGGTGATACTGgtaagcataggtcacttcatagaagagcacctagttccactgccataatt #### Atg2a_ID1547_36 --> 0 - 2 Original Alignment GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATgg gcattgggtaccacaattcccagtgatttaatgagacttcatacacgtagGGCACTTTTACTGGGCTTTTAATTGGCCTGACCCAACTCACCTGTTCAGAACTCAAGCTCAAGAGGCTCTGCTGTCGG---gggtgagtagctccaaggccctgcaggaagagtcaattgccttccctctaac Alignment from CESAR GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATgg gcattgggtaccacaattcccagtgatttaatgagacttcatacacgtagGGCACTTTTACTGGGCTTTTAATTGGCCTGACCCAACTCACCTGTTCAGAACTCAAGCTCAAGAGGCTCTGCTGTCGG---gggtgagtagctccaaggccctgcaggaagagtcaattgccttccctctaac Alignment from Spaln_aa2Genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCA gcattgggtaccacaattcccagtgatttaatgagacttcatacacgtagGGCACTTTTACTGGGCTTTTAATTGGCCTGACCCAACTCACCTGTTCAGAACTCAAGCTCAAGAGGCTCTGCTGTCGGGGgtgagtagctccaaggccctgcaggaagagtcaattgccttccctctaac Alignment from Spaln_nt2Genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGG gcattgggtaccacaattcccagtgatttaatgagacttcatacacgtagGGCACTTTTACTGGGCTTTTAATTGGCCTGACCCAACTCACCTGTTCAGAACTCAAGCTCAAGAGGCTCTGCTGTCGG---GGgtgagtagctccaaggccctgcaggaagagtcaattgccttccctctaac Alignment from Pairagon GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGG gcattgggtaccacaattcccagtgatttaatgagacttcatacacgtagGGCACTTTTACTGGGCTTTTAATTGGCCTGACCCAACTCACCTGTTCAGAACTCAAGCTCAAGAGGCTCTGCTGTCGG---GGgtgagtagctccaaggccctgcaggaagagtcaattgccttccctctaac Alignment from Exonerate_protein2genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGG gcattgggtaccacaattcccagtgatttaatgagacttcatacacgtagGGCACTTTTACTGGGCTTTTAATTGGCCTGACCCAACTCACCTGTTCAGAACTCAAGCTCAAGAGGCTCTGCTGTCGG---GGgtgagtagctccaaggccctgcaggaagagtcaattgccttccctctaac Alignment from Exonerate_coding2genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGG gcattgggtaccacaattcccagtgatttaatgagacttcatacacgtagGGCACTTTTACTGGGCTTTTAATTGGCCTGACCCAACTCACCTGTTCAGAACTCAAGCTCAAGAGGCTCTGCTGTCGG---GGgtgagtagctccaaggccctgcaggaagagtcaattgccttccctctaac Alignment from GeneWise GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCA gcattgggtaccacaattcccagtgatttaatgagacttcatacacgtagGGCACTTTTACTGGGCTTTTAATTGGCCTGACCCAACTCACCTGTTCAGAACTCAAGCTCAAGAGGCTCTGCTGTCGGGGgtgagtagctccaaggccctgcaggaagagtcaattgccttccctctaac #### Bbs1_ID729_5 --> 0 - 2 Original Alignment ------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCag atgactgccaccagtgctcccaaacacatcagttttatttttgtcctcagAGCATGGATCAT---GACCCCTTGACCTTGAAAGATATGCTGGAACATATCaggtaagcgttcaccttttcttcttggtggcccccaaaactcttcctatggg Alignment from CESAR ------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCag atgactgccaccagtgctcccaaacacatcagttttatttttgtcctcagAGCATGGATCAT---GACCCCTTGACCTTGAAAGATATGCTGGAACATATCaggtaagcgttcaccttttcttcttggtggcccccaaaactcttcctatggg Alignment from Spaln_aa2Genome GAC---CAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG atgactgccaccagtgctcccaaacacatcagttttatttttgtcctcagAGCATGGATCATGACCCCTTGACCTTGAAAGATATGCTGGAACATATCAGgtaagcgttcaccttttcttcttggtggcccccaaaactcttcctatggg Alignment from Spaln_nt2Genome GACCAG-AT--TGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG atgactgccaccagtgctcccaaacacatcagttttatttttgtcctcagAGCATGGATCATGACCCCTTGACCTTGAAAGATATGCTGGAACATATCAGgtaagcgttcaccttttcttcttggtggcccccaaaactcttcctatggg Alignment from Pairagon ------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG atgactgccaccagtgctcccaaacacatcagttttatttttgtcctcagAGCATGGATCA---TGACCCCTTGACCTTGAAAGATATGCTGGAACATATCAGgtaagcgttcaccttttcttcttggtggcccccaaaactcttcctatggg Alignment from Exonerate_protein2genome GAC---CAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG atgactgccaccagtgctcccaaacacatcagttttatttttgtcctcagAGCATGGATCATGACCCCTTGACCTTGAAAGATATGCTGGAACATATCAGgtaagcgttcaccttttcttcttggtggcccccaaaactcttcctatggg Alignment from Exonerate_coding2genome GAC---CAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG atgactgccaccagtgctcccaaacacatcagttttatttttgtcctcagAGCATGGATCATGACCCCTTGACCTTGAAAGATATGCTGGAACATATCAGgtaagcgttcaccttttcttcttggtggcccccaaaactcttcctatggg Alignment from GeneWise atgactgccaccagtgctcccaaacacatcagttttatttttgtcctcagagcatggatcatgaccccttgaccttgaaagatatgctggaacatatcaggtaagcgttcaccttttcttcttggtggcccccaaaactcttcctatggg #### Bbs1_ID732_2 --> 1 - 1 Original Alignment cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt tattcatcaatctattctgggcataccttgacacagttcctcttccacaggAATGAGGCCAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACATCCATACTTTCTCCTCCTGT---tgtacgttgcccccatgactcacctggaacatctggattctacgaggctca Alignment from CESAR cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt tattcatcaatctattctgggcataccttgacacagttcctcttccacaggAATGAGGCCAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACATCCATACTTTCTCCTCCTGT---tgtacgttgcccccatgactcacctggaacatctggattctacgatgaata Alignment from Spaln_aa2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT tattcatcaatctattctgggcataccttgacacagttcctcttccacagGAATGAGGCCAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACATCCATACTTTCTCCTCCTGT---Tgtacgttgcccccatgactcacctggaacatctggattctacgaggctca Alignment from Spaln_nt2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT tattcatcaatctattctgggcataccttgacacagttcctcttccacagGAATGAGGCCAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACATCCATACTTTCTCCTCCTG---TTgtacgttgcccccatgactcacctggaacatctggattctacgaggctca Alignment from Pairagon CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT tattcatcaatctattctgggcataccttgacacagttcctcttccacagGAATGAGGCCAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACATCCATACTTTCTCCTCCTGT---Tgtacgttgcccccatgactcacctggaacatctggattctacgaggctca Alignment from Exonerate_protein2genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCC tattcatcaatctattctgggcataccttgacacagttcctcttccacagGAATGAGGCCAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACATCCATACTTTCTCCTCCTGTTgtacgttgcccccatgactcacctggaacatctggattctacgaggctca Alignment from Exonerate_coding2genome tattcatcaatctattctgggcataccttgacacagttcctcttccacaggaatgaggccaattccaaatggctggatgcacactatgaccctatggctaacatccatactttctcctcctgttgtacgttgcccccatgactcacctggaacatctggattctacgaggctca Alignment from GeneWise AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGTC tattcatcaatctattctgggcataccttgacacagttcctcttccacaggAATGAGGCCAATTCCAAATGGCTGGATGCACACTATGACCCTATGGCTAACATCCATACTTTCTCCTCCTGTTGTACgttgcccccatgactcacctggaacatctggattctacgaggctca #### Bscl2_ID2422_5 --> 0 - 0 Original Alignment GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG cactaacactctattcaggcacccagaattacccctttcttcttttacagGTAATGCTGCAATATTGCTCACAGCTGCTCCAAGTGCTTGACAAACTGTTATTCTCCAGCCTCTTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAG------gtgagtcagggtggcagacaaccttgcaaagcacatcctcaatgagccag Alignment from CESAR GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG cactaacactctattcaggcacccagaattacccctttcttcttttacagGTAATGCTGCAATATTGCTCACAGCTGCTCCAAGTGCTTGACAAACTGTTATTCTCCAGCCTCTTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAG------gtgagtcagggtggcagacaaccttgcaaagcacatcctcaatg Alignment from Spaln_aa2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAG cactaacactctattcaggcacccagaattacccctttcttcttttacagGTAATGCTGCAATATTGCTCACAGCTGCTCCAAGTGCTTGACAAACTGTTATTCTCCAGCCTCTTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGgtgagtcagggtggcagacaaccttgcaaagcacatcctcaatgagccag Alignment from Spaln_nt2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAG cactaacactctattcaggcacccagaattacccctttcttcttttacagGTAATGCTGCAATATTGCTCACAGCTGCTCCAAGTGCTTGACAAACTGTTATTCTCCAGCCTCTTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGgtgagtcagggtggcagacaaccttgcaaagcacatcctcaatgagccag Alignment from Pairagon GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAG cactaacactctattcaggcacccagaattacccctttcttcttttacagGTAATGCTGCAATATTGCTCACAGCTGCTCCAAGTGCTTGACAAACTGTTATTCTCCAGCCTCTTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGgtgagtcagggtggcagacaaccttgcaaagcacatcctcaatgagccag Alignment from Exonerate_protein2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAG cactaacactctattcaggcacccagaattacccctttcttcttttacagGTAATGCTGCAATATTGCTCACAGCTGCTCCAAGTGCTTGACAAACTGTTATTCTCCAGCCTCTTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGgtgagtcagggtggcagacaaccttgcaaagcacatcctcaatgagccag Alignment from Exonerate_coding2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAG cactaacactctattcaggcacccagaattacccctttcttcttttacagGTAATGCTGCAATATTGCTCACAGCTGCTCCAAGTGCTTGACAAACTGTTATTCTCCAGCCTCTTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGGGAGgtgagtcagggtggcagacaaccttgcaaagcacatcctcaatgagccag Alignment from GeneWise GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG cactaacactctattcaggcacccagaattacccctttcttcttttacagGTAATGCTGCAATATTGCTCACAGCTGCTCCAAGTGCTTGACAAACTGTTATTCTCCAGCCTCTTGCTGTTTGGCTTTGCTAAACAAAAGCAGCTCTTGGAAGGCATGAGGCCACCACTAGAAATCTATACTGACTATAGG------GAGgtgagtcagggtggcagacaaccttgcaaagcacatcctcaatgagccag #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg tgccagagctctcccctctgtctcaaggttgcttccatcctatcctccagag---CAA---CCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCTGGTGATggtgagcgtgggggcagcatactcatagacaggggtactgtgtggtgggga Alignment from CESAR agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg cagtgccagagctctcccctctgtcaggttgcttccatcctatcctccagag------CAACCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCTGGTGATggtgagcgtgggggcagcatactcatagacaggggtactgtgtggtgggga Alignment from Spaln_aa2Genome AGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG tgccagagctctcccctctgtctcaaggttgcttccatcctatcctccagAGCAACCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCTGGTGATGgtgagcgtgggggcagcatactcatagacaggggtactgtgtggtgggga Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG tgccagagctctcccctctgtctcaaggttgcttccatcctatcctccagAG---CAAC---CAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCTGGTGATGgtgagcgtgggggcagcatactcatagacaggggtactgtgtggtgggga Alignment from Pairagon AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG tgccagagctctcccctctgtctcaaggttgcttccatcctatcctccag------AGCAACCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCTGGTGATGgtgagcgtgggggcagcatactcatagacaggggtactgtgtggtgggga Alignment from Exonerate_protein2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG tgccagagctctcccctctgtctcaaggttgcttccatcctatcctccagAG------CAACCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCTGGTGATGgtgagcgtgggggcagcatactcatagacaggggtactgtgtggtgggga Alignment from Exonerate_coding2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG tgccagagctctcccctctgtctcaaggttgcttccatcctatcctccagAG------CAACCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCTGGTGATGgtgagcgtgggggcagcatactcatagacaggggtactgtgtggtgggga Alignment from GeneWise AGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG tgccagagctctcccctctgtctcaaggttgcttccatcctatcctccagAGCAACCAGAAGAGGAGAAAGCAAAGAAGTGGCCCCTGAATGGAGAGGAGGAGCGAGAGCCAGACGCTGGTGATGgtgagcgtgggggcagcatactcatagacaggggtactgtgtggtgggga #### Btaf1_ID7227_10 --> 0 - 0 Original Alignment ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA acagagtcaatattcacctattgtatcatctgcatcctgacttaccacag---ATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTTTCTGATGAAgtgggcccagggtaaaactttgttttgattgggggttcaaaatagctacc Alignment from CESAR ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA agtacagagtcaatattcacctatttcatctgcatcctgacttaccacag---ATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTTTCTGATGAAgtgggcccagggtaaaactttgttttgattgggggttcaaaatagctacc Alignment from Spaln_aa2Genome ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA acagagtcaatattcacctattgtatcatctgcatcctgacttaccacag---ATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTTTCTGATGAAgtgggcccagggtaaaactttgttttgattgggggttcaaaatagctacc Alignment from Spaln_nt2Genome ATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA acagagtcaatattcacctattgtatcatctgcatcctgacttaccacagATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTTTCTGATGAAgtgggcccagggtaaaactttgttttgattgggggttcaaaatagctacc Alignment from Pairagon ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA acagagtcaatattcacctattgtatcatctgcatcctgacttaccacag---ATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTTTCTGATGAAgtgggcccagggtaaaactttgttttgattgggggttcaaaatagctacc Alignment from Exonerate_protein2genome ATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA acagagtcaatattcacctattgtatcatctgcatcctgacttaccacagATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTTTCTGATGAAgtgggcccagggtaaaactttgttttgattgggggttcaaaatagctacc Alignment from Exonerate_coding2genome ATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA acagagtcaatattcacctattgtatcatctgcatcctgacttaccacagATTCAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTTTCTGATGAAgtgggcccagggtaaaactttgttttgattgggggttcaaaatagctacc Alignment from GeneWise ATGATTCAGCAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCGTTGGACAGATTTGGAGACTTCGTTTCTGATGAA acagagtcaatattcacctattgtatcatctgcatcctgacttaccacagATT---CAACAGCATCAAGAGTGGTTGGAAGACTTAGTCATTAGACTCCTTTGTGTTTTTGCATTGGACAGATTTGGAGACTTTGTTTCTGATGAAgtgggcccagggtaaaactttgttttgattgggggttcaaaatagctacc #### Btaf1_ID7248_27 --> 0 - 2 Original Alignment GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG---------ag actttacattaatttccttgccttgcccttatttctgtttgtttttatagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGGATGATTCTaggtaagtgaggcaaaaacttgaaaatgattgccttaaaacctgatcaatct Alignment from CESAR GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG---------ag actttacattaatttccttgccttgcccttatttctgtttgtttttatagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGGATGATTCTaggtaagtgaggcaaaaacttgaaaatgattgccttaaaacctgatcaatct Alignment from Spaln_aa2Genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAGG-------- actttacattaatttccttgccttgcccttatttctgtttgtttttatagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGGATGATTCTAGgtaagtgaggcaaaaacttgaaaatgattgccttaaaacctgatcaatct Alignment from Spaln_nt2Genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG---------AG actttacattaatttccttgccttgcccttatttctgtttgtttttatagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGGATGATTCTAGgtaagtgaggcaaaaacttgaaaatgattgccttaaaacctgatcaatct Alignment from Pairagon GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG------------------------------------------------------------- actttacattaatttccttgccttgcccttatttctgtttgtttttatagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGGATGATTCTAGGTAAGTGAGGCAAAAACTTGAAAATGATTGCCTTAAAACCTGATCAATCT Alignment from Exonerate_protein2genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG---------AG actttacattaatttccttgccttgcccttatttctgtttgtttttatagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGGATGATTCTAGgtaagtgaggcaaaaacttgaaaatgattgccttaaaacctgatcaatct Alignment from Exonerate_coding2genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG---------AG actttacattaatttccttgccttgcccttatttctgtttgtttttatagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGGATGATTCTAGgtaagtgaggcaaaaacttgaaaatgattgccttaaaacctgatcaatct Alignment from GeneWise GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG---------AG actttacattaatttccttgccttgcccttatttctgtttgtttttatagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGTATTCTAGCAGGAGATCACTGTCAGGATGATTCTAGgtaagtgaggcaaaaacttgaaaatgattgccttaaaacctgatcaatct #### Cabp2_ID289_4 --> 2 - 1 Original Alignment agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa tgtagcaaccagggtgaaagaggctgggtattatgtgccttttggtctagag---------GGCTTCCAGGAGTTTGACCGAGACAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACTGGGCTACATGCCCACAGAGATGGAGCTCATTGAGATATCACAACAGGTTagtgagtggttaccctatggcccagtggacatagcccttaggcagatgtgt Alignment from CESAR agCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCa ttgcccccttgtagcaaccagggtggggtattatgtgccttttggtctagag---------GGCTTCCAGGAGTTTGACCGAGACAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACTGGGCTACATGCCCACAGAGATGGAGCTCATTGAGATATCACAACAGGTTagtgagtggttaccctatggcccagtggacatagcccttaggcagatgtgt Alignment from Spaln_aa2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tgtagcaaccagggtgaaagaggctgggtattatgtgccttttggtctagAG---------GGCTTCCAGGAGTTTGACCGAGACAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACTGGGCTACATGCCCACAGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtgagtggttaccctatggcccagtggacatagcccttaggcagatgtgt Alignment from Spaln_nt2Genome AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tgtagcaaccagggtgaaagaggctgggtattatgtgccttttggtctagAG---------GGCTTCCAGGAGTTTGACCGAGACAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACTGGGCTACATGCCCACAGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtgagtggttaccctatggcccagtggacatagcccttaggcagatgtgt Alignment from Pairagon AGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tgtagcaaccagggtgaaagaggctgggtattatgtgccttttggtctagAG---------GGCTTCCAGGAGTTTGACCGAGACAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACTGGGCTACATGCCCACAGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtgagtggttaccctatggcccagtggacatagcccttaggcagatgtgt Alignment from Exonerate_protein2genome GATCGAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATC-----GCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tgtagCAACCAGGGTGAAAGAGGCTGGGTATTATGTGCCTTTTGGTCTAGAGGGCTTCCAGGAGTTTGACCGAGACAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACTGGGCTACATGCCCACAGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtgagtggttaccctatggcccagtggacatagcccttaggcagatgtgt Alignment from Exonerate_coding2genome GATCGAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATC-----GCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tgtagCAACCAGGGTGAAAGAGGCTGGGTATTATGTGCCTTTTGGTCTAGAGGGCTTCCAGGAGTTTGACCGAGACAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACTGGGCTACATGCCCACAGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtgagtggttaccctatggcccagtggacatagcccttaggcagatgtgt Alignment from GeneWise GATCGAGAGCTGAGACCAGAAGAGATCGAAGAGCTGCAGATCGCCTTCCAGGAGTTTGACCGAGACCGGGACGGCTACATCGGCTACCGGGAGCTGGGTGCCTGCATGCGGACACTGGGCTACATGCCCACGGAGATGGAGCTCATTGAGATATCACAACAGATCA tgtagcaaccagggtgaaagagGCTGGGTATTATGTGCCTTTTGGTCTAGAG------------GGCTTCCAGGAGTTTGACCGAGACAGGGATGGCTACATCGGGTACCGGGAGCTGGGTGCCTGCATGCAGACACTGGGCTACATGCCCACAGAGATGGAGCTCATTGAGATATCACAACAGGTTAgtgagtggttaccctatggcccagtggacatagcccttaggcagatgtgt #### Cabp4_ID342_2 --> 0 - 1 Original Alignment GATCGTGAACTGGGCCCTGAGGAGTTGGAGg gcaggctcatttctatcgaggattttggcttgcctcctcttttcccacagGACCGTGAGCTGGGACCTGAGGAG------ggtgagtgtgggcgttcctcactgttgttgagaagtggaaaggaagtctga Alignment from CESAR GATCGTGAACTGGGCCCTGAGGAGTTGGAGg gcaggctcatttctatcgaggattttggcttgcctcctcttttcccacagGACCGTGAGCTGGGACCTGAGGAGGGTGAGtgtgggcgttcctcactgttgttgagaagtggaaaggaagtctga Alignment from Spaln_aa2Genome GATCGTGAACTGGGCCCTGAGGAGTTGGAGG gcaggctcatttctatcgaggattttggcttgcctcctcttttcccacagGACCGTGAGCTGGGACCTGAGGAGGGTGAGTgtgggcgttcctcactgttgttgagaagtggaaaggaagtctga Alignment from Spaln_nt2Genome GATCGTGAACTGGGCCCTGAGGAGTTGGAGG gcaggctcatttctatcgaggattttggcttgcctcctcttttcccacagGACCGTGAGCTGGGACCTGAGGAGGGTGAGTgtgggcgttcctcactgttgttgagaagtggaaaggaagtctga Alignment from Pairagon GATCGTGAACTGGGCCCTGAGGAGTTGGAGG gcaggctcatttctatcgaggattttggcttgcctcctcttttcccacagGACCGTGAGCTGGGACCTGA------GGAGGgtgagtgtgggcgttcctcactgttgttgagaagtggaaaggaagtctga Alignment from Exonerate_protein2genome GATCGTGAACTGGGCCCTGAGGAGTTGGAGG gcaggctcatttctatcgaggattttggcttgcctcctcttttcccacagGACCGTGAGCTGGGACCTGAGGAGGGTGAGTgtgggcgttcctcactgttgttgagaagtggaaaggaagtctga Alignment from Exonerate_coding2genome gcaggctcatttctatcgaggattttggcttgcctcctcttttcccacaggaccgtgagctgggacctgaggagggtgagtgtgggcgttcctcactgttgttgagaagtggaaaggaagtctga Alignment from GeneWise gcaggctcatttctatcgaggattttggcttgcctcctcttttcccacaggaccgtgagctgggacctgaggagggtgagtgtgggcgttcctcactgttgttgagaagtggaaaggaagtctga #### Carns1_ID385_7 --> 0 - 1 Original Alignment GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTC---g cttggacagcttcttaccagccaggcccatgaaggatgcttctcttccagATAGTGTGTGGTGTGGGTCATGGGGACCGA---GTACGACAACACTACACTGTCCCAAGGACACTGAGGGTGGCGCTG---CAGTGTGGCCTGGAAGACGGGGCACAGGTGGCACTTCTAGAGCAGGGTATCAAAGAAGCAGCTGAAGGCAAGTTGGCTGCTGTGCTGGCCCTAGAGGCTGGATTGCATGTGGAGCAGCATGGTGGC---CAAGTGCACACTGACTTCCTTGTTggtagggccagatggacaacaaggctctgtctgatttacttggtggctagg Alignment from CESAR GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTC---g cttggacagcttcttaccagccaggcccatgaaggatgcttctcttccagATAGTGTGTGGTGTGGGTCATGGGGACCGA---GTACGACAACACTACACTGTCCCAAGGACACTGAGGGTGGCGCTG---CAGTGTGGCCTGGAAGACGGGGCACAGGTGGCACTTCTAGAGCAGGGTATCAAAGAAGCAGCTGAAGGCAAGTTGGCTGCTGTGCTGGCCCTAGAGGCTGGATTGCATGTGGAGCAGCATGGTGGC---CAAGTGCACACTGACTTCCTTGTTggtagggccagatggacaacaaggctctgtctgatttacttggtggctagg Alignment from Spaln_aa2Genome GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTC---G cttggacagcttcttaccagccaggcccatgaaggatgcttctcttccagATAGTGTGTGGTGTGGGTCATGGGGACCGA---GTACGACAACACTACACTGTCCCAAGGACACTGAGGGTGGCGCTG---CAGTGTGGCCTGGAAGACGGGGCACAGGTGGCACTTCTAGAGCAGGGTATCAAAGAAGCAGCTGAAGGCAAGTTGGCTGCTGTGCTGGCCCTAGAGGCTGGATTGCATGTGGAGCAGCATGGTGGC---CAAGTGCACACTGACTTCCTTGTTGgtagggccagatggacaacaaggctctgtctgatttacttggtggctagg Alignment from Spaln_nt2Genome GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCG--- cttggacagcttcttaccagccaggcccatgaaggatgcttctcttccagATAGTGTGTGGTGTGGGTCATGGGGACCGA---GTACGACAACACTACACTGTCCCAAGGACACTGAGGGTGGCGCTG---CAGTGTGGCCTGGAAGACGGGGCACAGGTGGCACTTCTAGAGCAGGGTATCAAAGAAGCAGCTGAAGGCAAGTTGGCTGCTGTGCTGGCCCTAGAGGCTGGATTGCATGTGGAGCAGCATGGTGG---CCAAGTGCACACTGACTTCCTTGTTGgtagggccagatggacaacaaggctctgtctgatttacttggtggctagg Alignment from Pairagon GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTC------------------------------------------------------ cttggacagcttcttaccagccaggcccatgaaggatgcttctcttccagATAGTGTGTGGTGTGGGTCATGGGGACCGA---GTACGACAACACTACACTGTCCCAAGGACACTGAGGGTGGCGCTG---CAGTGTGGCCTGGAAGACGGGGCACAGGTGGCACTTCTAGAGCAGGGTATCAAAGAAGCAGCTGAAGGCAAGTTGGCTGCTGTGCTGGCCCTAGAGGCTGGATTGCATGTGGAGCAGCATGGTG---GCCAAGTGCACACTGACTTCCTTGTTGGTAGGGCCAGATGGACAACAAGGCTCTGTCTGATTTACTTGGTGGCTAGG Alignment from Exonerate_protein2genome GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCG cttggacagcttcttaccagccaggcccatgaaggatgcttctcttccagATAGTGTGTGGTGTGGGTCATGGGGACCGA---GTACGACAACACTACACTGTCCCAAGGACACTGAGGGTGGCGCTG---CAGTGTGGCCTGGAAGACGGGGCACAGGTGGCACTTCTAGAGCAGGGTATCAAAGAAGCAGCTGAAGGCAAGTTGGCTGCTGTGCTGGCCCTAGAGGCTGGATTGCATGTGGAGCAGCATGGTGGC---CAAGTGCACACTGACTTCCTTGttggtagggccagatggacaacaaggctctgtctgatttacttggtggctagg Alignment from Exonerate_coding2genome GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCG cttggacagcttcttaccagccaggcccatgaaggatgcttctcttccagATAGTGTGTGGTGTGGGTCATGGGGACCGA---GTACGACAACACTACACTGTCCCAAGGACACTGAGGGTGGCGCTG---CAGTGTGGCCTGGAAGACGGGGCACAGGTGGCACTTCTAGAGCAGGGTATCAAAGAAGCAGCTGAAGGCAAGTTGGCTGCTGTGCTGGCCCTAGAGGCTGGATTGCATGTGGAGCAGCATGGTGGC---CAAGTGCACACTGACTTCCTTGttggtagggccagatggacaacaaggctctgtctgatttacttggtggctagg Alignment from GeneWise GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCGGC- cttggacagcttcttaccagccaggcccatgaaggatgcttctcttccagATAGTGTGTGGTGTGGGTCATGGGGACCGA---GTACGACAACACTACACTGTCCCAAGGACACTGAGGGTGGCGCTG---CAGTGTGGCCTGGAAGACGGGGCACAGGTGGCACTTCTAGAGCAGGGTATCAAAGAAGCAGCTGAAGGCAAGTTGGCTGCTGTGCTGGCCCTAGAGGCTGGATTGCATGTGGAGCAGCATGGTGGC---CAAGTGCACACTGACTTCCTTGTTGgtagggccagatggacaacaaggctctgtctgatttacttggtggctagg #### Carns1_ID387_5 --> 0 - 1 Original Alignment GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gcGGTCCTGCACCTGG gagtacatgaggtagtggttgtgtaaagctaattgtcccataatttatagGTGGCAGCGAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTTTACATCTACAGGTAAAACCATCCACAGTGGTGACGATGGTGCTAGGATTGCTGAAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCTCCTGTCCGGCTGCCC------ggtcagaactaggaagacattgtcctcctttgcaggaGGTCCTCCACCTGG Alignment from CESAR GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg gcGGTCCTGCACCTGG gagtacatgaggtagtggttgtgtaaagctaattgtcccataatttatagGTGGCAGCGAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTTTACATCTACAGGTAAAACCATCCACAGTGGTGACGATGGTGCTAGGATTGCTGAAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCTCCTGTCCGGCTGCCC------ggtcagaactactttgttctgtttgtctctgtcaggaGGTCCTCCACCTGG Alignment from Spaln_aa2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCC- TTACCAGGCGGTCCTGC gagtacatgaggtagtggttgtgtaaagctaattgtcccataatttatagGTGGCAGCGAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTTTACATCTACAGGTAAAACCATCCACAGTGGTGACGATGGTGCTAGGATTGCTGAAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCTCCTGTCCGGCTGCCCGgtcagaactaggaagacattgtcctcctttgca gGAGGTCCTCC Alignment from Spaln_nt2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGC----------------------------CCTTACCAGGCGGTCCTGCACCTGG gagtacatgaggtagtggttgtgtaaagctaattgtcccataatttatagGTGGCAGCGAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTTTACATCTACAGGTAAAACCATCCACAGTGGTGACGATGGTGCTAGGATTGCTGAAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCTCCTGTCCGGCTGCCCGGTCAGAACTAGGAAGACATTGTCCTCCTTTGCAGGAGGTCCTCCACCTGG Alignment from Pairagon GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGC----------------------------CCTTACCAGGCGGTCCTGCACCTGG gagtacatgaggtagtggttgtgtaaagctaattgtcccataatttatagGTGGCAGCGAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTTTACATCTACAGGTAAAACCATCCACAGTGGTGACGATGGTGCTAGGATTGCTGAAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCTCCTGTCCGGCTGCCCGGTCAGAACTAGGAAGACATTGTCCTCCTTTGCAGGAGGTCCTCCACCTGG Alignment from Exonerate_protein2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG GCGGTCCTGCACCTGG gagtacatgaggtagtggttgtgtaaagctaattgtcccataatttatagGTGGCAGCGAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTTTACATCTACAGGTAAAACCATCCACAGTGGTGACGATGGTGCTAGGATTGCTGAAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCTCCTGTCCGG------CTGCCCGgtcagaactaggaagacattgtcctcctttgcagGAGGTCCTCCACCTGG Alignment from Exonerate_coding2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG GCGGTCCTGCACCTGG gagtacatgaggtagtggttgtgtaaagctaattgtcccataatttatagGTGGCAGCGAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTTTACATCTACAGGTAAAACCATCCACAGTGGTGACGATGGTGCTAGGATTGCTGAAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCTCCTGTCCGG------CTGCCCGgtcagaactaggaagacattgtcctcctttgcagGAGGTCCTCCACCTGG Alignment from GeneWise GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCC-TTA---------------------------CCAGGCGGTCCTGCACCTGG gagtacatgaggtagtggttgtgtaaagctaattgtcccataatttatagGTGGCAGCGAGACTCAGTGGCTGTCACTGGCATGGTCAACAGGCATTGCCTTTACATCTACAGGTAAAACCATCCACAGTGGTGACGATGGTGCTAGGATTGCTGAAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGCCAATTTGTCCTCCTGTCCGGCTGCCCGGTCAGAACTAGGAAGACATTGTCCTCCTTTGCAGGAGGTCCTCCACCTGG #### Carns1_ID388_4 --> 2 - 0 Original Alignment gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgttggttggcttcgttggttggcctgaattctttgctccttcttcccaggaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGACAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGAGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTTAGTGGGAAGGAGGGCCAGGAAACACTTGTCAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCT------gttgggttaatcgcaaccttgggtacccatgagaaagtatgcctgactgt Alignment from CESAR gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgttggttggcttcgttggttggcctgaattctttgctccttcttcccaggaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGACAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGAGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTTAGTGGGAAGGAGGGCCAGGAAACACTTGTCAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCT------gttgggttaatcgcaaccttgggtacccatgagaaagtatgcct Alignment from Spaln_aa2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCT tgttggttggcttcgttggttggcctgaattctttgctccttcttcccagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGACAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGAGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTTAGTGGGAAGGAGGGCCAGGAAACACTTGTCAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTgttgggttaatcgcaaccttgggtacccatgagaaagtatgcctgactgt Alignment from Spaln_nt2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCT tgttggttggcttcgttggttggcctgaattctttgctccttcttcccagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGACAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGAGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTTAGTGGGAAGGAGGGCCAGGAAACACTTGTCAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTgttgggttaatcgcaaccttgggtacccatgagaaagtatgcctgactgt Alignment from Pairagon GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCT tgttggttggcttcgttggttggcctgaattctttgctccttcttcccagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGACAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGAGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTTAGTGGGAAGGAGGGCCAGGAAACACTTGTCAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTgttgggttaatcgcaaccttgggtacccatgagaaagtatgcctgactgt Alignment from Exonerate_protein2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCT tgttggttggcttcgttggttggcctgaattctttgctccttcttcccagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGACAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGAGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTTAGTGGGAAGGAGGGCCAGGAAACACTTGTCAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTgttgggttaatcgcaaccttgggtacccatgagaaagtatgcctgactgt Alignment from Exonerate_coding2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCT tgttggttggcttcgttggttggcctgaattctttgctccttcttcccagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGACAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGAGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTTAGTGGGAAGGAGGGCCAGGAAACACTTGTCAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGATGCTgttgggttaatcgcaaccttgggtacccatgagaaagtatgcctgactgt Alignment from GeneWise GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG tgttggttggcttcgttggttggcctgaattctttgctccttcttcccagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGACAAGAGGGTGAGGCAGTTTTGCTGGTTTCTAAAGCTGTGAGCTTCTATCCAGGTGGTTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCCCGGAATCTCACTTGCCCTACGGGAACCTCATCAGAGCTGTCCCAGCTGCTAGAGAACCGGCTGCTCATGAGGTGGTTACTTTCCCAGCAGAGTGGTGTGGCTGTGCCTGCTACCCTAGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGTGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTTAGTGGGAAGGAGGGCCAGGAAACACTTGTCAAAGAGGAAGTAGAGGCCTTTGTACATTCAGAGGCCTTGGGTGAT------GCTgttgggttaatcgcaaccttgggtacccatgagaaagtatgcctgactgt #### Catsper1_ID928_5 --> 1 - 1 Original Alignment c---ATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCt ctccccttgcctcattactaacttggcttaacgtggctttctgccctcagtCCTATCTTGACTAGTGTCCATGAAGTAGCTGGAACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCACCTGCCTCtgtatggtgtacaacagagattaggcaattactctgagtaggtcagatggt Alignment from CESAR c---ATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCt ctccccttgcctcattactaacttggcttaacgtggctttctgccctcagtCCTATCTTGACTAGTGTCCATGAAGTAGCTGGAACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCACCTGCCTCtgtatggtgtacaacagagattaggcaattactctgagtaggtcagatggt Alignment from Spaln_aa2Genome C---ATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTC ctccccttgcctcattactaacttggcttaacgtggctttctgccctcagTCCTATCTTGACTAGTGTCCATGAAGTAGCTGGAACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCACCTGCCTCTgtatggtgtacaacagagattaggcaattactctgagtaggtcagatggt Alignment from Spaln_nt2Genome C---ATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ctccccttgcctcattactaacttggcttaacgtggctttctgccctcagTCCTATCTTGACTAGTGTCCATGAAGTAGCTGGAACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCACCTGCCTCTgtatggtgtacaacagagattaggcaattactctgagtaggtcagatggt Alignment from Pairagon ---CATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ctccccttgcctcattactaacttggcttaacgtggctttctgccctcagTCCTATCTTGACTAGTGTCCATGAAGTAGCTGGAACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCACCTGCCTCTgtatggtgtacaacagagattaggcaattactctgagtaggtcagatggt Alignment from Exonerate_protein2genome C---ATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ctccccttgcctcattactaacttggcttaacgtggctttctgccctcagTCCTATCTTGACTAGTGTCCATGAAGTAGCTGGAACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCACCTGCCTCTgtatggtgtacaacagagattaggcaattactctgagtaggtcagatggt Alignment from Exonerate_coding2genome C---ATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ctccccttgcctcattactaacttggcttaacgtggctttctgccctcagTCCTATCTTGACTAGTGTCCATGAAGTAGCTGGAACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCACCTGCCTCTgtatggtgtacaacagagattaggcaattactctgagtaggtcagatggt Alignment from GeneWise -AGCATCCTGACCAGCCTCCACGAAGTGGCCGGGACTCTGAGTGGATCTTTACCATCCATCACGGCCATCCTCACCCTCATGTTTACCTGCCTCT ctccccttgcctcattactaacttggcttaacgtggctttctgccctcagTCCTATCTTGACTAGTGTCCATGAAGTAGCTGGAACCCTTAGTGGGTCATTACCATCAATCACAGCCATCCTCACCCTCATGTTCACCTGCCTCTgtatggtgtacaacagagattaggcaattactctgagtaggtcagatggt #### Cbwd1_ID5354_13 --> 0 - 0 Original Alignment ---AATCTCCTGTGGGAAAAGAACGTGAAAAACAAGGACGGCCACTGCATGGAGGTCATTCGGCTAAAG ctcatgcatattgtttcactagcaatttagcgctgtgctttgtgttctagTGCAATCTGTTGTGGGAAAAGAATGTAAAAAACAAGGATGGTCGCTGCATGGAGGTAATTCAGCTAAGGgtgaactgttctatccgctcatgtgctttagggagaagatatctgttagt Alignment from CESAR ---AATCTCCTGTGGGAAAAGAACGTGAAAAACAAGGACGGCCACTGCATGGAGGTCATTCGGCTAAAG ctcatgcatattgtttcactagcaatttagcgctgtgctttgtgttctagTGCAATCTGTTGTGGGAAAAGAATGTAAAAAACAAGGATGGTCGCTGCATGGAGGTAATTCAGCTAAGGgtgaactgttctatccgctcatgtgctttagggagaagatatctgttagt Alignment from Spaln_aa2Genome AATCTCCTGTGG---GAAAAGAACGTGAAAAACAAGGACGGCCACTGCATGGAGGTCATTCGGCTAAAG ctcatgcatattgtttcactagcaatttagcgctgtgctttgtgttctagTGCAATCTGTTGTGGGAAAAGAATGTAAAAAACAAGGATGGTCGCTGCATGGAGGTAATTCAGCTAAGGgtgaactgttctatccgctcatgtgctttagggagaagatatctgttagt Alignment from Spaln_nt2Genome AATCTCCTGTGGG---AAAAGAACGTGAAAAACAAGGACGGCCACTGCATGGAGGTCATTCGGCTAAAG ctcatgcatattgtttcactagcaatttagcgctgtgctttgtgttctagTGCAATCTGTTGTGGGAAAAGAATGTAAAAAACAAGGATGGTCGCTGCATGGAGGTAATTCAGCTAAGGgtgaactgttctatccgctcatgtgctttagggagaagatatctgttagt Alignment from Pairagon ---AATCTCCTGTGGGAAAAGAACGTGAAAAACAAGGACGGCCACTGCATGGAGGTCATTCGGCTAAAG ctcatgcatattgtttcactagcaatttagcgctgtgctttgtgttctagTGCAATCTGTTGTGGGAAAAGAATGTAAAAAACAAGGATGGTCGCTGCATGGAGGTAATTCAGCTAAGGgtgaactgttctatccgctcatgtgctttagggagaagatatctgttagt Alignment from Exonerate_protein2genome AATCTCCTGTGGGAAAAGAACGTGAAAAACAAGGACGGCCACTGCATGGAGGTCATTCGGCTAAAG ctcatgcatattgtttcactagcaatttagcgctgtgctttgtgttctagtgcAATCTGTTGTGGGAAAAGAATGTAAAAAACAAGGATGGTCGCTGCATGGAGGTAATTCAGCTAAGGgtgaactgttctatccgctcatgtgctttagggagaagatatctgttagt Alignment from Exonerate_coding2genome AATCTCCTGTGGGAAAAGAACGTGAAAAACAAGGACGGCCACTGCATGGAGGTCATTCGGCTAAAG ctcatgcatattgtttcactagcaatttagcgctgtgctttgtgttctagtgcAATCTGTTGTGGGAAAAGAATGTAAAAAACAAGGATGGTCGCTGCATGGAGGTAATTCAGCTAAGGgtgaactgttctatccgctcatgtgctttagggagaagatatctgttagt Alignment from GeneWise ---AATCTCCTGTGGGAAAAGAACGTGAAAAACAAGGACGGCCACTGCATGGAGGTCATTCGGCTAAAG ctcatgcatattgtttcactagcaatttagcgctgtgctttgtgttctagTGCAATCTGTTGTGGGAAAAGAATGTAAAAAACAAGGATGGTCGCTGCATGGAGGTAATTCAGCTAAGGgtgaactgttctatccgctcatgtgctttagggagaagatatctgttagt #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment gg---------------------------------------TCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg tttgctatgttgtgatgacccctcctgcagactggatgacttttgtctagggATTCCTTTTGCAAGGAATATCTATGGACTCCTATTGCTGTCATCATCACCAGCACCCATGCACCAAATCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTGGGTCGAAGTCCAGCATCATTCAGCCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTAAGTACCTATAGCAAAggtatcgcatattttcctaagattgaagttgccattgtttcaagtggttgg Alignment from CESAR taatatctgggattttgtagtcagctgtgcctggatacatacagaacagag Alignment from Spaln_aa2Genome CAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tttgctatgttgtgatgacccctcctgcagactggatgacttttgtctagggattccttttgcaaggaatatctatggactcctattgctgtcatcatcaccagCACCCATGCACCAAATCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTGGGTCGAAGTCCAGCATCATTCAGCCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCC---CTTGGGGCACTAAGTACCTATAGCAAAGgtatcgcatattttcctaagattgaagttgccattgtttcaagtggttgg Alignment from Spaln_nt2Genome GGTCCTCGTCACCA---------GCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tttgctatgttgtgatgacccctcctgcagactggatgacttttgtctagggattccttttgcaaggaatatctatggacTCCTATTGCTGTCATCATCACCAGCACCCATGCACCAAATCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTGGGTCGAAGTCCAGCATCATTCAGCCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTAAGTACCTATAGCAAAGgtatcgcatattttcctaagattgaagttgccattgtttcaagtggttgg Alignment from Pairagon G---------------------------------------GTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tttgctatgttgtgatgacccctcctgcagactggatgacttttgtctagGGATTCCTTTTGCAAGGAATATCTATGGACTCCTATTGCTGTCATCATCACCAGCACCCATGCACCAAATCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTGGGTCGAAGTCCAGCATCATTCAGCCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTAAGTACCTATAGCAAAGgtatcgcatattttcctaagattgaagttgccattgtttcaagtggttgg Alignment from Exonerate_protein2genome CGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tttgctatgttgtgatgacccctcctgcagactggatgacttttgtctagggattccttttgcaaggaatatctatggactcctattgctgtcatCATCACCAGCACCCATGCACCAAATCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTGGGTCGAAGTCCAGCATCATTCAGCCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTAAGTACCTATAGCAAAGgtatcgcatattttcctaagattgaagttgccattgtttcaagtggttgg Alignment from Exonerate_coding2genome CGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tttgctatgttgtgatgacccctcctgcagactggatgacttttgtctagggattccttttgcaaggaatatctatggactcctattgctgtcatCATCACCAGCACCCATGCACCAAATCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTGGGTCGAAGTCCAGCATCATTCAGCCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTAAGTACCTATAGCAAAGgtatcgcatattttcctaagattgaagttgccattgtttcaagtggttgg Alignment from GeneWise -------------------------TCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG tttgctatgttgtgatgacccctcctgcagactggatgacttttgtctagggattccttttgcaagGAATATCTATGGACTCCTATTGCTGTCATCATCACCAGCACCCATGCACCAAATCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTAGCTGGTGGGCAGCGACGAAGTCTCAGTTCTCAGTTCCCTGTGGGTCGAAGTCCAGCATCATTCAGCCCAAGTGACACATCACGGCAATGGTTCAAACAGCAAAGGCCAGGCCCCCTTGGGGCACTAAGTACCTATAGCAAAGgtatcgcatattttcctaagattgaagttgccattgtttcaagtggttgg #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment GAGTACct gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa GAGTATctgttcgtacacttagggtcagactgacactattctataactaggGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAG---ATCATGGACCAGTACCGT------------------------------aagtgagttagtaccttgtggatcctgttagttatccggttatcgtttaaac Alignment from CESAR GAGTACct gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa GAGTATctgtgagtacacttagggtcagactgacactattctataactaggGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAG---ATCATGGACCAGTACCGT------------------------------aagtgagttagtaccttgtggatcctgttagttatccggttatcgtttaaac Alignment from Spaln_aa2Genome GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACC GAGTATCTgttcgtacacttagggtcagactgacactattctataactagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAG---ATCATGGACCAGTACCgtaagtgagttagtaccttgtggatcctgttagttatccggttatcgtttaaac Alignment from Spaln_nt2Genome GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGT----GTGCTAGAACCTG GAGTATCTgttcgtacacttagggtcagactgacactattctataactagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAGA---TCATGGACCAGTACCGTAAGTGAGTTAGTACCTTgtggatcctgttagttatccggttatcgtttaaac Alignment from Pairagon GAGTACCT------------------------------------------GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA GAGTATCTGTTCGTACACTTAGGGTCAGACTGACACTATTCTATAACTAGGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAG---ATCATGGACCAGTACCGT------------------------------AAgtgagttagtaccttgtggatcctgttagttatccggttatcgtttaaac Alignment from Exonerate_protein2genome GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCG GAGTATCTgttcgtacacttagggtcagactgacactattctataactagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAG---ATCATGGACCAGTACCGTAAGTGAGTTAGTACCTTGTGGATCCTgttagttatccggttatcgtttaaac Alignment from Exonerate_coding2genome GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCG GAGTATCTgttcgtacacttagggtcagactgacactattctataactagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAG---ATCATGGACCAGTACCGTAAGTGAGTTAGTACCTTGTGGATCCTgttagttatccggttatcgtttaaac Alignment from GeneWise GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGT GAGTATCTgttcgtacacttagggtcagactgacactattctataactagGGACCAACTCAATGGCTTGCGCCAGCAGAAACAGAAGCTGGTGGAG---ATCATGGACCAGTACCGTAAgtgagttagtaccttgtggatcctgttagttatccggttatcgtttaaac #### Ccdc88b_ID1827_22 --> 0 - 2 Original Alignment CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTAC------------------------ct gGACCAGC ctggacagtcttaggtctggtgttcaacattttaattctgtctttttcagCTTCTAACACAGCTCCGTACTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTGAAGGCTTTAAGTCGAACAAACAGGGAGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTCTGCACCGTGAGCAGCCAGAGTATGCCATGAATGGAGCAGTAACTGTTctgtaaggacacttagggtcagtgggttccttgtctttgaaaaggGACCAAC Alignment from CESAR CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTAC------------------------ct gGACCAGC ctggacagtcttaggtctggtgttcaacattttaattctgtctttttcagCTTCTAACACAGCTCCGTACTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTGAAGGCTTTAAGTCGAACAAACAGGGAGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTCTGCACCGTGAGCAGCCAGAGTATGCCATGAATGGAGCAGTAACTGTTctgtaaggacacttagggtcagactgacactattctataactaggGACCAAC Alignment from Spaln_aa2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGA GTACCTGG ctggacagtcttaggtctggtgttcaacattttaattctgtctttttcagCTTCTAACACAGCTCCGTACTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTGAAGGCTTTAAGTCGAACAAACAGGGAGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTCTGCACCGTGAGCAGCCAGAgtatgccatgaatggagcagtaactgttctgtaaggacacttagggtcagtgggttccttgtctttgaaaagG------G Alignment from Spaln_nt2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGA GTACCTGG ctggacagtcttaggtctggtgttcaacattttaattctgtctttttcagCTTCTAACACAGCTCCGTACTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTGAAGGCTTTAAGTCGAACAAACAGGGAGTTGCAGGAGCGTAGTTTGGAGA---GTGACCCTCTGCACCGTGAGCAGCCAGAgtatgccatgaatggagcagtaactgttctgtaaggacacttagggtcagtgggttccttgtctttgaaaag------GG Alignment from Pairagon CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTA-----------------------------------------------------CCT-------------GGACCAGC ctggacagtcttaggtctggtgttcaacattttaattctgtctttttcagCTTCTAACACAGCTCCGTACTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTGAAGGCTTTAAGTCGAACAAACAGGGAGTTGCAGGAGCGTAGTTTGGAGA---GTGACCCTCTGCACCGTGAGCAGCCAGAGTATGCCATGAATGGAGCAGTAACTGTTCTGTAAGGACACTTAGGGTCAGTGGGTTCCTTGTCTTTGAAAAGGGACCAAC Alignment from Exonerate_protein2genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTAC CTGGACCAGC ctggacagtcttaggtctggtgttcaacattttaattctgtctttttcagCTTCTAACACAGCTCCGTACTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTGAAGGCTTTAAGTCGAACAAACAGGGAGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTCTGCACCGTGAGCAGCCAGAGTATgccatgaatggagcagtaactgttctgtaaggacacttagggtcagtgggttccttgtctttgaaaAGGGACCAAC Alignment from Exonerate_coding2genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTAC CTGGACCAGC ctggacagtcttaggtctggtgttcaacattttaattctgtctttttcagCTTCTAACACAGCTCCGTACTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTGAAGGCTTTAAGTCGAACAAACAGGGAGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTCTGCACCGTGAGCAGCCAGAGTATgccatgaatggagcagtaactgttctgtaaggacacttagggtcagtgggttccttgtctttgaaaAGGGACCAAC Alignment from GeneWise CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTAC------------------------CT GGACCAGC ctggacagtcttaggtctggtgttcaacattttaattctgtctttttcagCTTCTAACACAGCTCCGTACTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTGAAGGCTTTAAGTCGAACAAACAGGGAGTTGCAGGAGCGTAGTTTGGAGAGT---GACCCTCTGCACCGTGAGCAGCCAGAGTATGCCATGAATGGAGCAGTAACTGTTCTgtaaggacacttagggtcagtgggttccttgtctttgaaaagGGACCAAC #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment g---------CATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctggtgggcctatgctcccagtgtggcattgcttccctcaggGATTCTATCCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAGGAGCTGCGCAGACTCCATAACGAGCATCAGaggtgagtactttggttcaggcctatccccccaccctggcatagcattctca Alignment from CESAR g---------CATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag ctcaaaaagctggtgggcctatgctcccagtgtggcattgcttccctcaggGATTCTATCCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAGGAGCTGCGCAGACTCCATAACGAGCATCAGaggtgagtactttggttcaggcctatccccccaccctggcatagcattctca Alignment from Spaln_aa2Genome G---------CATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgggcctatgctcccagtgtggcattgcttccctcagGGATTCTATCCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAGGAGCTGCGCAGACTCCATAACGAGCATCAGAGgtgagtactttggttcaggcctatccccccaccctggcatagcattctca Alignment from Spaln_nt2Genome GCAT---------GAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgggcctatgctcccagtgtggcattgcttccctcagGGATTCTATCCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAGGAGCTGCGCAGACTCCATAACGAGCATCAGAGgtgagtactttggttcaggcctatccccccaccctggcatagcattctca Alignment from Pairagon G---------CATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgggcctatgctcccagtgtggcattgcttccctcagGGATTCTATCCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAGGAGCTGCGCAGACTCCATAACGAGCATCAGAGgtgagtactttggttcaggcctatccccccaccctggcatagcattctca Alignment from Exonerate_protein2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgggcctatgctcccagtgtggcattgcttccctcagggattctatCCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAGGAGCTGCGCAGACTCCATAACGAGCATCAGAGgtgagtactttggttcaggcctatccccccaccctggcatagcattctca Alignment from Exonerate_coding2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgggcctatgctcccagtgtggcattgcttccctcagggattctatCCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAGGAGCTGCGCAGACTCCATAACGAGCATCAGAGgtgagtactttggttcaggcctatccccccaccctggcatagcattctca Alignment from GeneWise ---------GCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG ctcaaaaagctggtgggcctatgctcccagtgtggcattgcttccctcagggattctatccgtgagCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAGGAGCTGCGCAGACTCCATAACGAGCATCAGAGgtgagtactttggttcaggcctatccccccaccctggcatagcattctca #### Ccdc88b_ID1832_17 --> 0 - 0 Original Alignment CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGA---GCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT cagggcagaaatgcttcaactacctgttcgtttgctctgttaacctgcagCTGCATCAGTGCCCGGTG---CTT---GCTGGGGCACGGCGGGATGGCCCTTGGGCCGTGGAGACACAAAATGGGCGGCTCATTGTAGTAGAG------gtaagaactaatgagaaggtgggggcttacccaaggggtaacagggctca Alignment from CESAR CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT cagggcagaaatgcttcaactacctgttcgtttgctctgttaacctgcagCTGCATCAGTGCCCGGTG---CTTGCTGGGGCACGGCGGGATGGCCCTTGGGCCGTGGAGACACAAAATGGGCGGCTCATTGTAGTAGAG------gtaagaactaatgagaaggtgggggcttacccaaggggtaacag Alignment from Spaln_aa2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAG cagggcagaaatgcttcaactacctgttcgtttgctctgttaacctgcagCTGCATCAGTGCCCGGTG---CTTGCTGGGGCACGGCGGGATGGCCCTTGGGCCGTGGAGACACAAAATGGGCGGCTCATTGTAGTAGAGgtaagaactaatgagaaggtgggggcttacccaaggggtaacagggctca Alignment from Spaln_nt2Genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGC---GCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAG cagggcagaaatgcttcaactacctgttcgtttgctctgttaacctgcagCTGCATCAGTGCCCGGTG---CTTG---CTGGGGCACGGCGGGATGGCCCTTGGGCCGTGGAGACACAAAATGGGCGGCTCATTGTAGTAGAGgtaagaactaatgagaaggtgggggcttacccaaggggtaacagggctca Alignment from Pairagon CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGC---GCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAG cagggcagaaatgcttcaactacctgttcgtttgctctgttaacctgcagCTGCATCAGTGCCCGGTG--CTTG----CTGGGGCACGGCGGGATGGCCCTTGGGCCGTGGAGACACAAAATGGGCGGCTCATTGTAGTAGAGgtaagaactaatgagaaggtgggggcttacccaaggggtaacagggctca Alignment from Exonerate_protein2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT cagggcagaaatgcttcaactacctgttcgtttgctctgttaacctgcagCTGCATCAGTGCCCGGTG---CTTGCTGGGGCACGGCGGGATGGCCCTTGGGCCGTGGAGACACAAAATGGGCGGCTCATTGTAGTAGAG------gtaagaactaatgagaaggtgggggcttacccaaggggtaacag Alignment from Exonerate_coding2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT cagggcagaaatgcttcaactacctgttcgtttgctctgttaacctgcagCTGCATCAGTGCCCGGTG---CTTGCTGGGGCACGGCGGGATGGCCCTTGGGCCGTGGAGACACAAAATGGGCGGCTCATTGTAGTAGAG------gtaagaactaatgagaaggtgggggcttacccaaggggtaacag Alignment from GeneWise CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAG---CGAAATAAT------ cagggcagaaatgcttcaactacctgttcgtttgctctgttaacctgcagCTGCATCAGTGCCCGGTG---CTTGCTGGGGCACGGCGGGATGGCCCTTGGGCCGTGGAGACACAAAATGGGCGGCTCATTGTAGTAGAGGTAAGAACTAATGAGAAGgtgggggcttacccaaggggtaacagggctca #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agctgacccgcccgactcattagcgcaacatgctatcttctctcctacagca------------------------TTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttattccctgtatgtcccttgtttgcaa Alignment from CESAR ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtgggagaggatgaacagatacaacatgctatcttctctcctacagca------------------------TTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttattccctgtatgtcccttgtttgcaa Alignment from Spaln_aa2Genome CCTCCCTACCCGGAGCAGCACCCTCA---CTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agctgacccgcccgactcattagCGCAACATGCTATCTTCTCTCCTACAGCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttattccctgtatgtcccttgtttgcaa Alignment from Spaln_nt2Genome TCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agctgacccgcccgactcattagcgcaacatgctatcttctctcctacag-CATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCA---ACATAT------GGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttattccctgtatgtcccttgtttgcaa Alignment from Pairagon CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agctgacccgcccgactcattagcgcaacatgctatcttctctcctacag------------------------CATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttattccctgtatgtcccttgtttgcaa Alignment from Exonerate_protein2genome CCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agctgacccgcccgactcattagcgcaacatgctatcttctctcctacagCA---TTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttattccctgtatgtcccttgtttgcaa Alignment from Exonerate_coding2genome CCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agctgacccgcccgactcattagcgcaacatgctatcttctctcctacagCA---TTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttattccctgtatgtcccttgtttgcaa Alignment from GeneWise CCTCCCTACCCGGAGCAGCACCCTCA---CTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG agctgacccgcccgactcattagCGCAACATGCTATCTTCTCTCCTACAGCATTGCAAGATGAGGTGAGGAAAGCAGAGGGTGGCAGACTTAGGGCAGTGGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGCAGCCAGgtaagttcctctgctggtattcttattccctgtatgtcccttgtttgcaa #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAG------------------------------------------------g ggttaggccagtttaatgaacaggacacacaagagtgcctttccttctagGACCTGGACTCGCTGCGGCACCAGTTGGAGCAGCTAGTGGAAGAGAATGTGGAGTTGGAGCTGGAACTGCAGAGAAGTCTGGAGCCACCTCCAGGTTCCCCTGGGGAGGTTAATATCCGACAAAGGGATAACTCACACTTTCTGGAACTTGACTTAggtaagtcaggtcttgtgtaagggaaaggatctggggaggaaggcaacctt Alignment from CESAR GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg ggttaggccagtttaatgaacaggacacacaagagtgcctttccttctagGACCTGGACTCGCTGCGGCACCAGTTGGAGCAGCTAGTGGAAGAGAATGTGGAGTTGGAGCTGGAACTGCAGAGAAGTCTGGAGCCACCTCCAGGTTCCCCTGGGG-Aggttaatatccgacaaagggataactcacactttctggaacttgacttaggtaagtcaggtcttgtgtaagggaaaggatctggggaggaaggcaacctt Alignment from Spaln_aa2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAG---G ggttaggccagtttaatgaacaggacacacaagagtgcctttccttctagGACCTGGACTCGCTGCGGCACCAGTTGGAGCAGCTAGTGGAAGAGAATGTGGAGTTGGAGCTGGAACTGCAGAGAAGTCTGGAGCCACCTCCAGGTTCCCCTGGGGAGGTTAatatccgacaaagggataactcacactttctggaacttgacttaggtaagtcaggtcttgtgtaagggaaaggatctggggaggaaggcaacctt Alignment from Spaln_nt2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAG ggttaggccagtttaatgaacaggacacacaagagtgcctttccttctagGACCTGGACTCGCTGCGGCACCAGTTGGAGCAGCTAGTGGAAGAGAATGTGGAGTTGGAGCTGGAACTGCAGAGAAGTCTGGAGCCACCTCCAGGTTCCCCTGGGGAGgttaatatccgacaaagggataactcacactttctggaacttgacttaggtaagtcaggtcttgtgtaagggaaaggatctggggaggaaggcaacctt Alignment from Pairagon GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG------------------------------------------------ ggttaggccagtttaatgaacaggacacacaagagtgcctttccttctagGACCTGGACTCGCTGCGGCACCAGTTGGAGCAGCTAGTGGAAGAGAATGTGGAGTTGGAGCTGGAACTGCAGAGAAGTCTGGAGCCACCTCCAGGTTCCCCTGGGGAGGTTAATATCCGACAAAGGGATAACTCACACTTTCTGGAACTTGACTTAGgtaagtcaggtcttgtgtaagggaaaggatctggggaggaaggcaacctt Alignment from Exonerate_protein2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggttaggccagtttaatgaacaggacacacaagagtgcctttccttctagGACCTGGACTCGCTGCGGCACCAGTTGGAGCAGCTAGTGGAAGAGAATGTGGAGTTGGAGCTGGAACTGCAGAGAAGTCTGGAGCCACCTCCAGGTTCCCCTGGGGAGGttaatatccgacaaagggataactcacactttctggaacttgacttaggtaagtcaggtcttgtgtaagggaaaggatctggggaggaaggcaacctt Alignment from Exonerate_coding2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggttaggccagtttaatgaacaggacacacaagagtgcctttccttctagGACCTGGACTCGCTGCGGCACCAGTTGGAGCAGCTAGTGGAAGAGAATGTGGAGTTGGAGCTGGAACTGCAGAGAAGTCTGGAGCCACCTCCAGGTTCCCCTGGGGAGGttaatatccgacaaagggataactcacactttctggaacttgacttaggtaagtcaggtcttgtgtaagggaaaggatctggggaggaaggcaacctt Alignment from GeneWise GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAG ggttaggccagtttaatgaacaggacacacaagagtgcctttccttctagGACCTGGACTCGCTGCGGCACCAGTTGGAGCAGCTAGTGGAAGAGAATGTGGAGTTGGAGCTGGAACTGCAGAGAAGTCTGGAGCCACCTCCAGGTTCCCCTGGGGAGgttaatatccgacaaagggataactcacactttctggaacttgacttaggtaagtcaggtcttgtgtaagggaaaggatctggggaggaaggcaacctt #### Ccdc88b_ID1838_11 --> 0 - 0 Original Alignment ------GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagcactgaagagactcaaccccttcggatgctttgtttgtgtcctcagAGTGAAGAGGAGCAGGTCCTCTCTGAAGCTGTAGAGGCCTCAACTGTCCTTCTTGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtgaggtgtattgcatgttgcaagttgggaccatgatttgactttacttt Alignment from CESAR ------GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagcactgaagagactcaaccccttcggatgctttgtttgtgtcctcagAGTGAAGAGGAGCAGGTCCTCTCTGAAGCTGTAGAGGCCTCAACTGTCCTTCTTGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtgaggtgtattgcatgttgcaagttgggaccatgatttgactttacttt Alignment from Spaln_aa2Genome GAGGAGGAGCGGGTC---CTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagcactgaagagactcaaccccttcggatgctttgtttgtgtcctcagAGTGAAGAGGAGCAGGTCCTCTCTGAAGCTGTAGAGGCCTCAACTGTCCTTCTTGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtgaggtgtattgcatgttgcaagttgggaccatgatttgactttacttt Alignment from Spaln_nt2Genome ------GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagcactgaagagactcaaccccttcggatgctttgtttgtgtcctcagAGTGAAGAGGAGCAGGTCCTCTCTGAAGCTGTAGAGGCCTCAACTGTCCTTCTTGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtgaggtgtattgcatgttgcaagttgggaccatgatttgactttacttt Alignment from Pairagon ------GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagcactgaagagactcaaccccttcggatgctttgtttgtgtcctcagAGTGAAGAGGAGCAGGTCCTCTCTGAAGCTGTAGAGGCCTCAACTGTCCTTCTTGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtgaggtgtattgcatgttgcaagttgggaccatgatttgactttacttt Alignment from Exonerate_protein2genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagcactgaagagactcaaccccttcggatgctttgtttgtgtcctcagagtgaaGAGGAGCAGGTCCTCTCTGAAGCTGTAGAGGCCTCAACTGTCCTTCTTGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtgaggtgtattgcatgttgcaagttgggaccatgatttgactttacttt Alignment from Exonerate_coding2genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagcactgaagagactcaaccccttcggatgctttgtttgtgtcctcagagtgaaGAGGAGCAGGTCCTCTCTGAAGCTGTAGAGGCCTCAACTGTCCTTCTTGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtgaggtgtattgcatgttgcaagttgggaccatgatttgactttacttt Alignment from GeneWise ------GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taagcactgaagagactcaaccccttcggatgctttgtttgtgtcctcagAGTGAAGAGGAGCAGGTCCTCTCTGAAGCTGTAGAGGCCTCAACTGTCCTTCTTGAAGAGCAGTTGGAGGTTGCCCAAAAGCGCTCAGCAAGACTGCATGAAACCCAGAGGGAAAATCTTCTGCTGCGCACACGATTGGGTGAGGCCCATGTAgtgaggtgtattgcatgttgcaagttgggaccatgatttgactttacttt #### Ccdc88b_ID1839_10 --> 0 - 0 Original Alignment ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ccctttgtcccctaactcactagcacacggtgtgttttctcaaacgccag------GCACTCTCTGCCCAAGCAAAGTGCGCAGAGCTCTGCCGTGAAGAAGCAGAGGCACTAAAA---GAGGCTGGTCACCTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCAGCAGAAGTCTTCAAGGGTCATTTGGAGgtaagatgggctacaccagagccagagacaaactatttggtaatgtcact Alignment from CESAR ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG cttcacccctttgtcccctaactcacacggtgtgttttctcaaacgccag------GCACTCTCTGCCCAAGCAAAGTGCGCAGAGCTCTGCCGTGAAGAAGCAGAGGCACTAAAAGAG---GCTGGTCACCTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCAGCAGAAGTCTTCAAGGGTCATTTGGAGgtaagatgggctacaccagagccagagacaaactatttggtaatgtcact Alignment from Spaln_aa2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ccctttgtcccctaactcactagcacacggtgtgttttctcaaacgccag------GCACTCTCTGCCCAAGCAAAGTGCGCAGAGCTCTGCCGTGAAGAAGCAGAGGCACTAAAAGAG---GCTGGTCACCTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCAGCAGAAGTCTTCAAGGGTCATTTGGAGgtaagatgggctacaccagagccagagacaaactatttggtaatgtcact Alignment from Spaln_nt2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ccctttgtcccctaactcactagcacacggtgtgttttctcaaacgccag------GCACTCTCTGCCCAAGCAAAGTGCGCAGAGCTCTGCCGTGAAGAAGCAGAGGCACTAAAAGA---GGCTGGTCACCTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCAGCAGAAGTCTTCAAGGGTCATTTGGAGgtaagatgggctacaccagagccagagacaaactatttggtaatgtcact Alignment from Pairagon ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ccctttgtcccctaactcactagcacacggtgtgttttctcaaacgccag------GCACTCTCTGCCCAAGCAAAGTGCGCAGAGCTCTGCCGTGAAGAAGCAGAGGCACTAAAAGA---GGCTGGTCACCTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCAGCAGAAGTCTTCAAGGGTCATTTGGAGgtaagatgggctacaccagagccagagacaaactatttggtaatgtcact Alignment from Exonerate_protein2genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ccctttgtcccctaactcactagcacacggtgtgttttctcaaaCGCCAGGCACTCTCTGCCCAAGCAAAGTGCGCAGAGCTCTGCCGTGAAGAAGCAGAGGCACTAAAAGAG---GCTGGTCACCTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCAGCAGAAGTCTTCAAGGGTCATTTGGAGgtaagatgggctacaccagagccagagacaaactatttggtaatgtcact Alignment from Exonerate_coding2genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ccctttgtcccctaactcactagcacacggtgtgttttctcaaaCGCCAGGCACTCTCTGCCCAAGCAAAGTGCGCAGAGCTCTGCCGTGAAGAAGCAGAGGCACTAAAAGAG---GCTGGTCACCTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCAGCAGAAGTCTTCAAGGGTCATTTGGAGgtaagatgggctacaccagagccagagacaaactatttggtaatgtcact Alignment from GeneWise ---------------------ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ccctttgtcccctaactcactagCACACGGTGTGTTTTCTCAAACGCCAGGCACTCTCTGCCCAAGCAAAGTGCGCAGAGCTCTGCCGTGAAGAAGCAGAGGCACTAAAAGAG---GCTGGTCACCTGCCCCGCCTGCAGGAAGAACTTCGGCGCTGTCGTGAGAAGCTTCAGGCAGCAGAAGTCTTCAAGGGTCATTTGGAGgtaagatgggctacaccagagccagagacaaactatttggtaatgtcact #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTG---------ct catggctaattaagtgttccattgtagatctccccctgtaatccacacagatTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCCGCATGTGTGGCCTCTTCAAGGATTATACTTCGCCTGTCTCCAACATGGCCGACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATGGAACGGTTATTGGAATCGGAActgttggtagagcctcatagtcgaagtcaaaccgctggagacggctacccac Alignment from CESAR atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTG---------ct catggctaattaagtgttccattgtagatctccccctgtaatccacacagatTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCCGCATGTGTGGCCTCTTCAAGGATTATACTTCGCCTGTCTCCAACATGGCCGACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATGGAACGGTTATTGGAATCGGAActgttggtagagcctcatagtcgaagtcaaaccgctggagacggctacccac Alignment from Spaln_aa2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCTT-------- catggctaattaagtgttccattgtagatctccccctgtaatccacacagATTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCCGCATGTGTGGCCTCTTCAAGGATTATACTTCGCCTGTCTCCAACATGGCCGACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATGGAACGGTTATTGGAATCGGAACTgttggtagagcctcatagtcgaagtcaaaccgctggagacggctacccac Alignment from Spaln_nt2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACG catggctaattaagtgttccattgtagatctccccctgtaatccacacagATTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCCGCATGTGTGGCCTCTTCAAGGATTATACTTCGCCTGTCTCCAACATGGCCGACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATGGAACGgttattggaatcggaactgttggtagagcctcatagtcgaagtcaaaccgctggagacggctacccac Alignment from Pairagon ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTG---------CT catggctaattaagtgttccattgtagatctccccctgtaatccacacagATTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCCGCATGTGTGGCCTCTTCAAGGATTATACTTCGCCTGTCTCCAACATGGCCGACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATGGAACGGTTATTGGAATCGGAACTgttggtagagcctcatagtcgaagtcaaaccgctggagacggctacccac Alignment from Exonerate_protein2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT catggctaattaagtgttccattgtagatctccccctgtaatccacacagATTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCCGCATGTGTGGCCTCTTCAAGGATTATACTTCGCCTGTCTCCAACATGGCCGACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATGGAACGGTTATTGGAatcggaactgttggtagagcctcatagtcgaagtcaaaccgctggagacggctacccac Alignment from Exonerate_coding2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT catggctaattaagtgttccattgtagatctccccctgtaatccacacagATTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCCGCATGTGTGGCCTCTTCAAGGATTATACTTCGCCTGTCTCCAACATGGCCGACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATGGAACGGTTATTGGAatcggaactgttggtagagcctcatagtcgaagtcaaaccgctggagacggctacccac Alignment from GeneWise ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTG---------CT catggctaattaagtgttccattgtagatctccccctgtaatccacacagATTATGCATTTCTAAATTATGCACCCTCCTTAGTAGCTGCCGCATGTGTGGCCTCTTCAAGGATTATACTTCGCCTGTCTCCAACATGGCCGACAAGACTACACTGTTTCACTGCCTATTCTTGGGCCTTCTTGGTGCAGTGTATGGAACGGTTATTGGAATCGGAACTgttggtagagcctcatagtcgaagtcaaaccgctggagacggctacccac #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttcctgtgggtccagtcttattctgtttcagcacgactgttttcttttag------GTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagttggcacaaaaacgcaaaatgtagcttcacaagcctctctttcca Alignment from CESAR GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG tgggttttcctgtgggtccagtctttttcagcacgactgttttcttttag------GTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagttggcacaaaaacgcaaaatgtagctcttataattccatcttttt Alignment from Spaln_aa2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttcctgtgggtccagtcttattctgtttcagcacgactgttttcttttag------GTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagttggcacaaaaacgcaaaatgtagcttcacaagcctctctttcca Alignment from Spaln_nt2Genome GTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttcctgtgggtccagtcttattctgtttcagcacgactgttttcttttagGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagttggcacaaaaacgcaaaatgtagcttcacaagcctctctttcca Alignment from Pairagon GTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttcctgtgggtccagtcttattctgtttcagcacgactgttttcttttagGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagttggcacaaaaacgcaaaatgtagcttcacaagcctctctttcca Alignment from Exonerate_protein2genome TGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttcctgtgggtccagtcttattctgtttcagcacgactgttttcttttaggTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagttggcacaaaaacgcaaaatgtagcttcacaagcctctctttcca Alignment from Exonerate_coding2genome TGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttcctgtgggtccagtcttattctgtttcagcacgactgttttcttttaggTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagttggcacaaaaacgcaaaatgtagcttcacaagcctctctttcca Alignment from GeneWise GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ttcctgtgggtccagtcttattctgtttcagcacgactgttttcttttagGTG------GTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCAATGAACATGTTTCATAAGTGGGAAATGCTGAAGAGGGCTGAGgtaagttggcacaaaaacgcaaaatgtagcttcacaagcctctctttcca #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agtcacaaaaacgcaaaatgtagctcttatttcaaactattttattttag---ACCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaaaccttgtttcatagaggggtgttaccctgacagtgctgttctt Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agttggcacaaaaacgcaaaatgtacttatttcaaactattttattttagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaaaccttgtttcatagaggggtgttaccctgacagtgctgttctt Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agtcacaaaaacgcaaaatgtagctcttatttcaaactattttattttagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaaaccttgtttcatagaggggtgttaccctgacagtgctgttctt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agtcacaaaaacgcaaaatgtagctcttatttcaaactattttattttagA---CCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaaaccttgtttcatagaggggtgttaccctgacagtgctgttctt Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agtcacaaaaacgcaaaatgtagctcttatttcaaactattttattttagA---CCTGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaaaccttgtttcatagaggggtgttaccctgacagtgctgttctt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agtcacaaaaacgcaaaatgtagctcttatttcaaactattttattttagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaaaccttgtttcatagaggggtgttaccctgacagtgctgttctt Alignment from Exonerate_coding2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agtcacaaaaacgcaaaatgtagctcttatttcaaactattttattttagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaaaccttgtttcatagaggggtgttaccctgacagtgctgttctt Alignment from GeneWise ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agtcacaaaaacgcaaaatgtagctcttatttcaaactattttattttagACC---TGTCTCCGGGAAGAGCGAGATGTTTTAGTGAAGGGAGACCACTGTTGGGTGACAGCTTTGCATTACTCATTCCAGGATGAGGAGTTCTTAgtaagaaaccttgtttcatagaggggtgttaccctgacagtgctgttctt #### Cdc42bpg_ID1577_7 --> 0 - 0 Original Alignment GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG------ agtggtgcctcctctgcctgcctccactcataggtttctttcctctttagGTGGATTCATCAGTTGCTGTAGGGACCCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATGTGATTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTACGCTGAATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGGGAGATgtactgttgtagggctcagggaccccggtattgtggaggttattctgtat Alignment from CESAR GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG------ agtggtgcctcctctgcctgcctccactcataggtttctttcctctttagGTGGATTCATCAGTTGCTGTAGGGACCCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATGTGATTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTACGCTGAATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGGGAGATgtactgttgtagggctcagggaccccggtattgtggaggttattctgtat Alignment from Spaln_aa2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG------ agtggtgcctcctctgcctgcctccactcataggtttctttcctctttagGTGGATTCATCAGTTGCTGTAGGGACCCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATGTGATTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTACGCTGAATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGGGAGATgtactgttgtagggctcagggaccccggtattgtggaggttattctgtat Alignment from Spaln_nt2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG------ agtggtgcctcctctgcctgcctccactcataggtttctttcctctttagGTGGATTCATCAGTTGCTGTAGGGACCCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATGTGATTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTACGCTGAATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGGGAGATgtactgttgtagggctcagggaccccggtattgtggaggttattctgtat Alignment from Pairagon GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACG---------------------------------------------------------- agtggtgcctcctctgcctgcctccactcataggtttctttcctctttagGTGGATTCATCAGTTGCTGTAGGGACCCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATGTGATTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTACGCTGAATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGGGAGATGTACTGTTGTAGGGCTCAGGGACCCCGGTATTGTGGAGGTTATTCTGTAT Alignment from Exonerate_protein2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtgcctcctctgcctgcctccactcataggtttctttcctctttagGTGGATTCATCAGTTGCTGTAGGGACCCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATGTGATTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTACGCTGAATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGggagatgtactgttgtagggctcagggaccccggtattgtggaggttattctgtat Alignment from Exonerate_coding2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtggtgcctcctctgcctgcctccactcataggtttctttcctctttagGTGGATTCATCAGTTGCTGTAGGGACCCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATGTGATTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTACGCTGAATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGggagatgtactgttgtagggctcagggaccccggtattgtggaggttattctgtat Alignment from GeneWise GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG---GAC agtggtgcctcctctgcctgcctccactcataggtttctttcctctttagGTGGATTCATCAGTTGCTGTAGGGACCCCAGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGTAAGGGCCACTACGGACCACAATGTGATTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTACGCTGAATCTCTGGTAGAGACTTACGGGAAGATCATGAACCATGAGGGAGATgtactgttgtagggctcagggaccccggtattgtggaggttattctgtat #### Cdc42bpg_ID1581_11 --> 2 - 1 Original Alignment agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA---------g gtgttaaagtcctgggagagctgtcagactccctgtttgctttctttaagagCACCTGCATGGTCCACTACAACCACAGGAGCTTGTGCATCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCGCGGGCCTGGggtgagactggtaagttattagagtaggccaagttccttgccatgtcctag Alignment from CESAR agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA---------g gtgttaaagtcctgggagagctgtcagactccctgtttgctttctttaagagCACCTGCATGGTCCACTACAACCACAGGAGCTTGTGCATCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCGCGGGCCTGGggtgagactggtaagttattagagtaggccaagttccttgccatgtcctag Alignment from Spaln_aa2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAGAG gtgttaaagtcctgggagagctgtcagactccctgtttgctttctttaagAGCACCTGCATGGTCCACTACAACCACAGGAGCTTGTGCATCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCGCGGgcctggggtgagactggtaagttattagagtaggccaagttccttgccatgtcctag Alignment from Spaln_nt2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA--G gtgttaaagtcctgggagagctgtcagactccctgtttgctttctttaagAGCACCTGCATGGTCCACTACAACCACAGGAGCTTGTGCATCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCGCGGgcctggggtgagactggtaagttattagagtaggccaagttccttgccatgtcctag Alignment from Pairagon AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA------------------G gtgttaaagtcctgggagagctgtcagactccctgtttgctttctttaagAGCACCTGCATGGTCCACTACAACCACAGGAGCTTGTGCATCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCGCGGGCCTGGGGTGAGACTGgtaagttattagagtaggccaagttccttgccatgtcctag Alignment from Exonerate_protein2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG gtgttaaagtcctgggagagctgtcagactccctgtttgctttctttaagAGCACCTGCATGGTCCACTACAACCACAGGAGCTTGTGCATCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCGCgggcctggggtgagactggtaagttattagagtaggccaagttccttgccatgtcctag Alignment from Exonerate_coding2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG gtgttaaagtcctgggagagctgtcagactccctgtttgctttctttaagAGCACCTGCATGGTCCACTACAACCACAGGAGCTTGTGCATCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCGCgggcctggggtgagactggtaagttattagagtaggccaagttccttgccatgtcctag Alignment from GeneWise AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA---------G gtgttaaagtcctgggagagctgtcagactccctgtttgctttctttaagAGCACCTGCATGGTCCACTACAACCACAGGAGCTTGTGCATCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCGCGGGCCTGGGgtgagactggtaagttattagagtaggccaagttccttgccatgtcctag #### Cdc42bpg_ID1583_13 --> 0 - 0 Original Alignment GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- cagagctgaccattctgactttgctctgatgcttctccttttgttttcagGAGCTGCCTGAGGCTCAGGTAGCACTGCAAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAATCTGCTGCAGCAGGACAGCTTCAGACCCTGAATACTCAGCTCCAAGAGGCATGGGTTGTCCGCAGGGAGCAGGGACAAgtgagccgtgagacattcaaaggctgcagacattcaaaggctgcagggca Alignment from CESAR GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- cagagctgaccattctgactttgctctgatgcttctccttttgttttcagGAGCTGCCTGAGGCTCAGGTAGCACTGCAAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAATCTGCTGCAGCAGGACAGCTTCAGACCCTGAATACTCAGCTCCAAGAGGCATGGGTTGTCCGCAGGGAGCAGGGACAAgtgagccgtgagacattcaaaggctgcagacattcaaaggctgcagggca Alignment from Spaln_aa2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- cagagctgaccattctgactttgctctgatgcttctccttttgttttcagGAGCTGCCTGAGGCTCAGGTAGCACTGCAAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAATCTGCTGCAGCAGGACAGCTTCAGACCCTGAATACTCAGCTCCAAGAGGCATGGGTTGTCCGCAGGGAGCAGGGACAAgtgagccgtgagacattcaaaggctgcagacattcaaaggctgcagggca Alignment from Spaln_nt2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGA cagagctgaccattctgactttgctctgatgcttctccttttgttttcagGAGCTGCCTGAGGCTCAGGTAGCACTGCAAGTGCAGGATGCTGAGTTGTGCCAAGC---AAACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAATCTGCTGCAGCAGGACAGCTTCAGACCCTGAATACTCAGCTCCAAGAGGCATGGGTTGTCCGCAGGGAgcagggacaagtgagccgtgagacattcaaaggctgcagacattcaaaggctgcagggca Alignment from Pairagon GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- cagagctgaccattctgactttgctctgatgcttctccttttgttttcagGAGCTGCCTGAGGCTCAGGTAGCACTGCAAGTGCAGGATGCTGAGTTGTGCCAAGC---AAACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAATCTGCTGCAGCAGGACAGCTTCAGACCCTGAATACTCAGCTCCAAGAGGCATGGGTTGTCCGCAGGGAGCAGGGACAAgtgagccgtgagacattcaaaggctgcagacattcaaaggctgcagggca Alignment from Exonerate_protein2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG cagagctgaccattctgactttgctctgatgcttctccttttgttttcagGAGCTGCCTGAGGCTCAGGTAGCACTGCAAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAATCTGCTGCAGCAGGACAGCTTCAGACCCTGAATACTCAGCTCCAAGAGGCATGGGTTGTCCGCAGGGAGcagggacaagtgagccgtgagacattcaaaggctgcagacattcaaaggctgcagggca Alignment from Exonerate_coding2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG cagagctgaccattctgactttgctctgatgcttctccttttgttttcagGAGCTGCCTGAGGCTCAGGTAGCACTGCAAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAATCTGCTGCAGCAGGACAGCTTCAGACCCTGAATACTCAGCTCCAAGAGGCATGGGTTGTCCGCAGGGAGcagggacaagtgagccgtgagacattcaaaggctgcagacattcaaaggctgcagggca Alignment from GeneWise GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- cagagctgaccattctgactttgctctgatgcttctccttttgttttcagGAGCTGCCTGAGGCTCAGGTAGCACTGCAAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAATCTGCTGCAGCAGGACAGCTTCAGACCCTGAATACTCAGCTCCAAGAGGCATGGGTTGTCCGCAGGGAGCAGGGACAAgtgagccgtgagacattcaaaggctgcagacattcaaaggctgcagggca #### Cdc42bpg_ID1585_15 --> 0 - 2 Original Alignment ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg tgacttctcaaacctcaaccctttccttctgcttctgtgtgttgtgccag------CATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGAACATGCCTGCAGCCAAgggtgttcgcatggtagttgctgccaggaaggggcaaggtaagatcaccctg Alignment from CESAR ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg aggccctgacttctcaaacctcaaccttctgcttctgtgtgttgtgccag------CATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGAACATGCCTGCAGCCAAgggtgttcgcatggtagttgctgccaggaaggggcaaggtaagatcaccctg Alignment from Spaln_aa2Genome CATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tgacttctcaaacctcaaccctttccttctgcttctgtgtgttgtgccagCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGAACATGCCTGCAGCCAAGGgtgttcgcatggtagttgctgccaggaaggggcaaggtaagatcaccctg Alignment from Spaln_nt2Genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tgacttctcaaacctcaaccctttccttctgcttctgtgtgttgtgccag------CATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGAACATGCCTGCAGCCAAGGgtgttcgcatggtagttgctgccaggaaggggcaaggtaagatcaccctg Alignment from Pairagon ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGGG------------------------------------------------- tgacttctcaaacctcaaccctttccttctgcttctgtgtgttgtgccag------CATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGAACATGCCTGCAGCCAAGGGTGTTCGCATGGTAGTTGCTGCCAGGAAGGGGCAAGGTAAGATCACCCTG Alignment from Exonerate_protein2genome AAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tgacttctcaaacctcaaccctttccttctgcttctgtgtgTTGTGCCAGCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGAACATGCCTGCAGCCAAGGgtgttcgcatggtagttgctgccaggaaggggcaaggtaagatcaccctg Alignment from Exonerate_coding2genome AAGACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tgacttctcaaacctcaaccctttccttctgcttctgtgtgTTGTGCCAGCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGAACATGCCTGCAGCCAAGGgtgttcgcatggtagttgctgccaggaaggggcaaggtaagatcaccctg Alignment from GeneWise CATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tgacttctcaaacctcaaccctttccttctgcttctgtgtgttgtgccagCATGCAGCCCCTGAGATGAATGGGATAGGGTCTCCTGAGGGTCAGTCTCAAGAGACCCAACTGAGGAAGGAAGTAGTAGCCCTAAGGGAGCAACTGGAACATGCCTGCAGCCAAGGgtgttcgcatggtagttgctgccaggaaggggcaaggtaagatcaccctg #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG aggtaagatcaccctggcattccactctctctgtcctcctctccccacagaATCAGTGTCGGGAAAAAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGAGAGCAGGAG---gtaaggagtatgaaatatgacaaagcagaggttgctgccagctgggtggg Alignment from CESAR gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG aggtaagatcaccctggcattccactctctctgtcctcctctccccacagaATCAGTGTCGGGAAAAAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGAGAGCAGGAG---gtaaggagtatgaaatatgacaaagcagaggttgctgccagctgggt Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAA aggtaagatcaccctggcattccactctctctgtcctcctctccccacagAATCAGTGTCGGGAAAAAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGAGAGCAGGAGgtaaggagtatgaaatatgacaaagcagaggttgctgccagctgggtggg Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG aggtaagatcaccctggcattccactctctctgtcctcctctccccacagAATCAGTGTCGGGAAAAAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGAGAGCAGGA---Ggtaaggagtatgaaatatgacaaagcagaggttgctgccagctgggtggg Alignment from Pairagon GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG aggtaagatcaccctggcattccactctctctgtcctcctctccccacagAATCAGTGTCGGGAAAAAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGAGAGCAGGA---Ggtaaggagtatgaaatatgacaaagcagaggttgctgccagctgggtggg Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG aggtaagatcaccctggcattccactctctctgtcctcctctccccacagAATCAGTGTCGGGAAAAAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGAGAGCAGGAG---gtaaggagtatgaaatatgacaaagcagaggttgctgccagctgggt Alignment from Exonerate_coding2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG aggtaagatcaccctggcattccactctctctgtcctcctctccccacagAATCAGTGTCGGGAAAAAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGAGAGCAGGAG---gtaaggagtatgaaatatgacaaagcagaggttgctgccagctgggt Alignment from GeneWise GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG aggtaagatcaccctggcattccactctctctgtcctcctctccccacagAATCAGTGTCGGGAAAAAGGAGGTTCTATGCCGATTGCAGGCGGTAAACCAGCAGCTGAGTCGAGAGCAG---GAGgtaaggagtatgaaatatgacaaagcagaggttgctgccagctgggtggg #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg tattaggcatagaggattaatcgtaacatgtgtgctgtgcttatgtttag------GGAGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCtggtaagtatacacagctgggtggcacctctgatactgaggacccagctcac Alignment from CESAR CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg tggggctattaggcatagaggattaacatgtgtgctgtgcttatgtttag------GGAGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCtggtaagtatacacagctgggtggcacctctgatactgaggacccagctcac Alignment from Spaln_aa2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tattaggcatagaggattaatcgtaacatgtgtgctgtgcttatgtttag------GGAGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaagtatacacagctgggtggcacctctgatactgaggacccagctcac Alignment from Spaln_nt2Genome GGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tattaggcatagaggattaatcgtaacatgtgtgctgtgcttatgtttagGGAGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaagtatacacagctgggtggcacctctgatactgaggacccagctcac Alignment from Pairagon ACGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tattaggcatagaggattaatcgtaacatgtgtgctgtgcttatgtttag----------GGAGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaagtatacacagctgggtggcacctctgatactgaggacccagctcac Alignment from Exonerate_protein2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tattaggcatagaggattaatcgtaacatgtgtgctgtgcttatGTTTAGGGAGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaagtatacacagctgggtggcacctctgatactgaggacccagctcac Alignment from Exonerate_coding2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tattaggcatagaggattaatcgtaacatgtgtgctgtgcttatGTTTAGGGAGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaagtatacacagctgggtggcacctctgatactgaggacccagctcac Alignment from GeneWise GGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG tattaggcatagaggattaatcgtaacatgtgtgctgtgcttatgtttagGGAGAGCTGGAACTGGAGCTTCAGACCAAGCAACGTCTGGAGGGCGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATTGCTGACATCCTCAGCTGgtaagtatacacagctgggtggcacctctgatactgaggacccagctcac #### Cdc42bpg_ID1590_20 --> 1 - 1 Original Alignment cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg gtgaaacacttttcaaggccctgcacctttttttaatatttttaacttagc---CTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGAGCTAAGGGAAGAGCTGCAAGCTCGAGGACCAGGGggtaaggacctacttggatccaaccacgaggcctacactcatggggaccag Alignment from CESAR cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg ggagtgaaacacttttcaaggccctcctttttttaatatttttaacttagc---CTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGAGCTAAGGGAAGAGCTGCAAGCTCGAGGACCAGGGggtaaggacctacttggatccaaccacgaggcctacactcatggggaccag Alignment from Spaln_aa2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG gtgaaacacttttcaaggccctgcacctttttttaatatttttaacttagC---CTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGAGCTAAGGGAAGAGCTGCAAGCTCGAGGACCAGGGGgtaaggacctacttggatccaaccacgaggcctacactcatggggaccag Alignment from Spaln_nt2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCT---GCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG gtgaaacacttttcaaggccctgcacctttttttaatatttttaacttag---CCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGAGCTAAGGGAAGAGCTGCAAGCTCGAGGACCAGGGGgtaaggacctacttggatccaaccacgaggcctacactcatggggaccag Alignment from Pairagon -------------------------------------------------GCCTGCAGGAGGCTGAGAAGCAAAGTCAGGC---CCTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG GTGAAACACTTTTCAAGGCCCTGCACCTTTTTTTAATATTTTTAACTTAGCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGAGCTAAGGGAAGAGCTGCAAGCTCGAGGACCAGGGGgtaaggacctacttggatccaaccacgaggcctacactcatggggaccag Alignment from Exonerate_protein2genome CCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG gtgaaacacttttcaaggccctgcacctttttttaatatttttaacttagCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGAGCTAAGGGAAGAGCTGCAAGCTCGAGGACCAGGGGgtaaggacctacttggatccaaccacgaggcctacactcatggggaccag Alignment from Exonerate_coding2genome CCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG---CAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG gtgaaacacttttcaaggccctgcacctttttttaatatttttaacttagCCTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGAGCTAAGGGAAGAGCTGCAAGCTCGAGGACCAGGGGgtaaggacctacttggatccaaccacgaggcctacactcatggggaccag Alignment from GeneWise CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAG---GAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG gtgaaacacttttcaaggccctgcacctttttttaatatttttaacttagC---CTGCAGGAAGCTGAGACACAAAGTGAGGCACTCCAGCAGCAGGAGGTGGCTGAGCTAAGGGAAGAGCTGCAAGCTCGAGGACCAGGGGgtaaggacctacttggatccaaccacgaggcctacactcatggggaccag #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG--------- GTGCCGCGGCC tatacttatgagtggacttttgttcccctcttcactttctttcacaacagccTGTGGCTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTCTGTCATTAGTGGAAgtatcctgagggggctgccttgctgttttttattctcagGTACGACAGCC Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG--- GTGCCGCGGCC tatacttatgagtggacttttgttcccctcttcactttctttcacaacagccTGTGGCTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTCTGTCATTAgtggaagtatcctgagggggctgctcatgattttctgtttttcagGTACGACAGCC Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCGGTGCCGCGG CC tatacttatgagtggacttttgttcccctcttcactttctttcacaacagCCTGTGGCTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTCTGTCATTAGTGGAAgtatcctgagggggctgccttgctgttttttattctcaggtacgacagCC Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG--- GTGCCGCGGCC tatacttatgagtggacttttgttcccctcttcactttctttcacaacagCCTGTGGCTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTCTGTCATTAgtggaagtatcctgagggggctgccttgctgttttttattctcagGTACGACAGCC Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTC------------------------------------------------GGTGCCGCGGCC tatacttatgagtggacttttgttcccctcttcactttctttcacaacagCCTGTGGCTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTCTGTCATTAGTGGAAGTATCCTGAGGGGGCTGCCTTGCTGTTTTTTATTCTCAGGTACGACAGCC Alignment from Exonerate_protein2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttatgagtggacttttgttcccctcttcactttctttcacaacagCCTGTGGCTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTCTGTCAttagtggaagtatcctgagggggctgccttgctgttttttattctcagGTACGACAGCC Alignment from Exonerate_coding2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGCC tatacttatgagtggacttttgttcccctcttcactttctttcacaacagCCTGTGGCTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTCTGTCAttagtggaagtatcctgagggggctgccttgctgttttttattctcagGTACGACAGCC Alignment from GeneWise CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCGGTG ---CCGCGGCC tatacttatgagtggacttttgttcccctcttcactttctttcacaacagCCTGTGGCTATTTCTGTCATTCAGCCTGTGCATCACAAACCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGTACAGCCTTGGGGGTGCACCCTGAAAAAGGCACAGGGACAGCCTATGAGGGCTTTCTGTCATTAgtggaagtatcctgagggggctgccttgctgttttttattctcagGTACGACAGCC #### Cdc42bpg_ID1602_32 --> 0 - 1 Original Alignment GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAg aggttgtcaagttggtccattgagtgggttttttttttttttgtgaacagGTGAGACCCCTTAATCCAGAAGGCTCATTATTCCTTTATGGCACTGAAAAACTCCGCCTGACCTACCTCAGAAACCCACTG---ggtactgtctgtacacaaccccagtctgtccatgatcacctgtgtatagct Alignment from CESAR GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAg aggttgtcaagttggtccattgagtgggttttttttttttttgtgaacagGTGAGACCCCTTAATCCAGAAGGCTCATTATTCCTTTATGGCACTGAAAAACTCCGCCTGACCTACCTCAGAAACCCACTG---ggtactgtctgtacacaaccccagtctgtccatgatcacctgtgtatagct Alignment from Spaln_aa2Genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTG- aggttgtcaagttggtccattgagtgggttttttttttttttgtgaacagGTGAGACCCCTTAATCCAGAAGGCTCATTATTCCTTTATGGCACTGAAAAACTCCGCCTGACCTACCTCAGAAACCCACTGGgtactgtctgtacacaaccccagtctgtccatgatcacctgtgtatagct Alignment from Spaln_nt2Genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGG aggttgtcaagttggtccattgagtgggttttttttttttttgtgaacagGTGAGACCCCTTAATCCAGAAGGCTCATTATTCCTTTATGGCACTGAAAAACTCCGCCTGACCTACCTCAGAAACCCACTGGgtactgtctgtacacaaccccagtctgtccatgatcacctgtgtatagct Alignment from Pairagon GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGG-------------------------------------------------- aggttgtcaagttggtccattgagtgggttttttttttttttgtgaacagGTGAGACCCCTTAATCCAGAAGGCTCATTATTCCTTTATGGCACTGAAAAACTCCGCCTGACCTACCTCAGAAACCCACTGGGTACTGTCTGTACACAACCCCAGTCTGTCCATGATCACCTGTGTATAGCT Alignment from Exonerate_protein2genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG aggttgtcaagttggtccattgagtgggttttttttttttttgtgaacagGTGAGACCCCTTAATCCAGAAGGCTCATTATTCCTTTATGGCACTGAAAAACTCCGCCTGACCTACCTCAGAAACCCACTGGGTActgtctgtacacaaccccagtctgtccatgatcacctgtgtatagct Alignment from Exonerate_coding2genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG aggttgtcaagttggtccattgagtgggttttttttttttttgtgaacagGTGAGACCCCTTAATCCAGAAGGCTCATTATTCCTTTATGGCACTGAAAAACTCCGCCTGACCTACCTCAGAAACCCACTGGGTActgtctgtacacaaccccagtctgtccatgatcacctgtgtatagct Alignment from GeneWise GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGG aggttgtcaagttggtccattgagtgggttttttttttttttgtgaacagGTGAGACCCCTTAATCCAGAAGGCTCATTATTCCTTTATGGCACTGAAAAACTCCGCCTGACCTACCTCAGAAACCCACTGGgtactgtctgtacacaaccccagtctgtccatgatcacctgtgtatagct #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment g---GAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ctcatcgtcagctatttaccttccaacatgccaagtcctgcctcctctagaAACGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCACCCACCAACTTCATCCACCTGGTTCATGTGGGGCATACAGAGGGGAGACCCAACACTAGGGATGGGACCCGCgtgggtcttgtgcaggtgattgctaaacatgtcacacggcttcaatcatg Alignment from CESAR g---GAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ctcatcgtcagctatttaccttccaacatgccaagtcctgcctcctctagaAACGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCACCCACCAACTTCATCCACCTGGTTCATGTGGGGCATACAGAGGGGAGACCCAACACTAGGGATGGGACCCGCgtgggtcttgtgcaggtgattgctaaacatgtcacacggcttcaatcatg Alignment from Spaln_aa2Genome GGAGATGCTG---AAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ctcatcgtcagctatttaccttccaacatgccaagtcctgcctcctctagAAACGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCACCCACCAACTTCATCCACCTGGTTCATGTGGGGCATACAGAGGGGAGACCCAACACTAGGGATGGGACCCGCgtgggtcttgtgcaggtgattgctaaacatgtcacacggcttcaatcatg Alignment from Spaln_nt2Genome GGAGATGCTG---AAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ctcatcgtcagctatttaccttccaacatgccaagtcctgcctcctctagAAACGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCACCCACCAACTTCATCCACCTGGTTCATGTGGGGCATACAGAGGGGAGACCCAACACTAGGGATGGGACCCGCgtgggtcttgtgcaggtgattgctaaacatgtcacacggcttcaatcatg Alignment from Pairagon ---GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ctcatcgtcagctatttaccttccaacatgccaagtcctgcctcctctagAAACGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCACCCACCAACTTCATCCACCTGGTTCATGTGGGGCATACAGAGGGGAGACCCAACACTAGGGATGGGACCCGCgtgggtcttgtgcaggtgattgctaaacatgtcacacggcttcaatcatg Alignment from Exonerate_protein2genome G---GAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ctcatcgtcagctatttaccttccaacatgccaagtcctgcctcctctagAAACGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCACCCACCAACTTCATCCACCTGGTTCATGTGGGGCATACAGAGGGGAGACCCAACACTAGGGATGGGACCCGCgtgggtcttgtgcaggtgattgctaaacatgtcacacggcttcaatcatg Alignment from Exonerate_coding2genome G---GAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ctcatcgtcagctatttaccttccaacatgccaagtcctgcctcctctagAAACGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCACCCACCAACTTCATCCACCTGGTTCATGTGGGGCATACAGAGGGGAGACCCAACACTAGGGATGGGACCCGCgtgggtcttgtgcaggtgattgctaaacatgtcacacggcttcaatcatg Alignment from GeneWise -AGGGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ctcatcgtcagctatttaccttccaacatgccaagtcctgcctcctctagAAACGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCACCCACCAACTTCATCCACCTGGTTCATGTGGGGCATACAGAGGGGAGACCCAACACTAGGGATGGGACCCGCgtgggtcttgtgcaggtgattgctaaacatgtcacacggcttcaatcatg #### Cdc42bpg_ID1605_35 --> 0 - 1 Original Alignment GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA------t tctttgacaatagcgatacagtcccatgcctgggtcttcttcccttgcagGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCGACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAGAAACAtgcaagcatagggatagctcccagtctgcaagttcctgcttgcttcctctt Alignment from CESAR GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA------t tctttgacaatagcgatacagtcccatgcctgggtcttcttcccttgcagGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCGACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAGAAACAtgcaagcatagggatagctcccagtctgcaagttcctgcttgcttcctctt Alignment from Spaln_aa2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA------T tctttgacaatagcgatacagtcccatgcctgggtcttcttcccttgcagGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCGACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAGAAACATgcaagcatagggatagctcccagtctgcaagttcctgcttgcttcctctt Alignment from Spaln_nt2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA------T tctttgacaatagcgatacagtcccatgcctgggtcttcttcccttgcagGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCGACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAGAAACATgcaagcatagggatagctcccagtctgcaagttcctgcttgcttcctctt Alignment from Pairagon GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACC------CAT tctttgacaatagcgatacagtcccatgcctgggtcttcttcccttgcagGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCGACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAGAAACATgcaagcatagggatagctcccagtctgcaagttcctgcttgcttcctctt Alignment from Exonerate_protein2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT tctttgacaatagcgatacagtcccatgcctgggtcttcttcccttgcagGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCGACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAGaaacatgcaagcatagggatagctcccagtctgcaagttcctgcttgcttcctctt Alignment from Exonerate_coding2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCAT tctttgacaatagcgatacagtcccatgcctgggtcttcttcccttgcagGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCGACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAGaaacatgcaagcatagggatagctcccagtctgcaagttcctgcttgcttcctctt Alignment from GeneWise GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA------------------------------------T tctttgacaatagcgatacagtcccatgcctgggtcttcttcccttgcagGCCCAAGAACAAAAGAGCAGTGGTGCCCGTAGCTCTGGACCACAACGGCCTCACAGCTTCTTAAAGGCATTGCGGCGGCCAGTGTCGACAGACAGTGATCGTCTCCCAGGCCGAACAGACCCAGAAACATGCAAGCATAGGGATAGCTCCCAGTCTGCAAgttcctgcttgcttcctctt #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG--- agcatcttgtgccttttgtttgtaacctgtcttcctgtttccatattcagggCCAAGGACTTTGCTAACTAAGCCTTCAGAGTCATCAAAGCGTAAGTCAGGTTCAGACCTCACAAATTCATTCTCTGAAACCTGGCAAAGGGACgtgagcacttggtcccccaggtcctaaagtgggcacacaaaccatagatt Alignment from CESAR ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG--- agcatcttgtgccttttgtttgtaacctgtcttcctgtttccatattcagggCCAAGGACTTTGCTAACTAAGCCTTCAGAGTCATCAAAGCGTAAGTCAGGTTCAGACCTCACAAATTCATTCTCTGAAACCTGGCAAAGGGACgtgagcacttggtcccccaggtcctaaagtgggcacacaaaccatagatt Alignment from Spaln_aa2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG--- agcatcttgtgccttttgtttgtaacctgtcttcctgtttccatattcagGGCCAAGGACTTTGCTAACTAAGCCTTCAGAGTCATCAAAGCGTAAGTCAGGTTCAGACCTCACAAATTCATTCTCTGAAACCTGGCAAAGGGACgtgagcacttggtcccccaggtcctaaagtgggcacacaaaccatagatt Alignment from Spaln_nt2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG-AC agcatcttgtgccttttgtttgtaacctgtcttcctgtttccatattcagGGCCAAGGACTTTGCTAACTAAGCCTTCAGAGTCATCAAAGCGTAAGTCAGGTTCAGACCTCACAAATTCATTCTCTGAAACCTGGCAAAGGGACgtgagcacttggtcccccaggtcctaaagtgggcacacaaaccatagatt Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG--- agcatcttgtgccttttgtttgtaacctgtcttcctgtttccatattcagGGCCAAGGACTTTGCTAACTAAGCCTTCAGAGTCATCAAAGCGTAAGTCAGGTTCAGACCTCACAAATTCATTCTCTGAAACCTGGCAAAGGGACgtgagcacttggtcccccaggtcctaaagtgggcacacaaaccatagatt Alignment from Exonerate_protein2genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG--- agcatcttgtgccttttgtttgtaacctgtcttcctgtttccatattcagGGCCAAGGACTTTGCTAACTAAGCCTTCAGAGTCATCAAAGCGTAAGTCAGGTTCAGACCTCACAAATTCATTCTCTGAAACCTGGCAAAGGGACgtgagcacttggtcccccaggtcctaaagtgggcacacaaaccatagatt Alignment from Exonerate_coding2genome agcatcttgtgccttttgtttgtaacctgtcttcctgtttccatattcagggccaaggactttgctaactaagccttcagagtcatcaaagcgtaagtcaggttcagacctcacaaattcattctctgaaacctggcaaagggacgtgagcacttggtcccccaggtcctaaagtgggcacacaaaccatagatt Alignment from GeneWise GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGGACA agcatcttgtgccttttgtttgtaacctgtcttcctgtttccatattcagGGCCAAGGACTTTGCTAACTAAGCCTTCAGAGTCATCAAAGCGTAAGTCAGGTTCAGACCTCACAAATTCATTCTCTGAAACCTGGCAAAGGGACgtgagcacttggtcccccaggtcctaaagtgggcacacaaaccatagatt #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg ggacaaggcccctattggggtacttgagagatttaccatttctttttcagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTG------ggtacagaactaggcaaccatggctaaactgtaacaaaacagtggagtcag Alignment from CESAR GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg ggacaaggcccctattggggtacttgagagatttaccatttctttttcagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTG------ggtacagaactaggcaaccatggctaaactgtaacaaaacagtggagtcag Alignment from Spaln_aa2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTG- ggacaaggcccctattggggtacttgagagatttaccatttctttttcagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGGgtacagaactaggcaaccatggctaaactgtaacaaaacagtggagtcag Alignment from Spaln_nt2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggacaaggcccctattggggtacttgagagatttaccatttctttttcagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTG------Ggtacagaactaggcaaccatggctaaactgtaacaaaacagtggagtcag Alignment from Pairagon GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggacaaggcccctattggggtacttgagagatttaccatttctttttcagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTG------Ggtacagaactaggcaaccatggctaaactgtaacaaaacagtggagtcag Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTG ggacaaggcccctattggggtacttgagagatttaccatttctttttcagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGggtacagaactaggcaaccatggctaaactgtaacaaaacagtggagtcag Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTG ggacaaggcccctattggggtacttgagagatttaccatttctttttcagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGggtacagaactaggcaaccatggctaaactgtaacaaaacagtggagtcag Alignment from GeneWise GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGA ggacaaggcccctattggggtacttgagagatttaccatttctttttcagGCAATGAAGCCACCCGGTTCCCAGGGCTCTCAGCGCACCTTCACCGATCTGCTGTCTGTTATAGAGGAGATGGGCAAAGAAATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCCTGGgtacagaactaggcaaccatggctaaactgtaacaaaacagtggagtcag #### Cep78_ID3983_3 --> 0 - 1 Original Alignment GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAA---a aggctgttctcaatgggcagatacctaagcagcaatgccttctcatttagGGACTGAGTAAATCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATTGGAGATGGAGGTTTAGAACTCagtacgttgataaatttaacaatcatcttggtgggctggctgtattcttgg Alignment from CESAR GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAA---a aggctgttctcaatgggcagatacctaagcagcaatgccttctcatttagGGACTGAGTAAATCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATTGGAGATGGAGGTTTAGAACTCagtacgttgataaatttaacaatcatcttggtgggctggctgtattcttgg Alignment from Spaln_aa2Genome GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAA---A aggctgttctcaatgggcagatacctaagcagcaatgccttctcatttagGGACTGAGTAAATCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATTGGAGATGGAGGTTTAGAACTCAgtacgttgataaatttaacaatcatcttggtgggctggctgtattcttgg Alignment from Spaln_nt2Genome GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAA---A aggctgttctcaatgggcagatacctaagcagcaatgccttctcatttagGGACTGAGTAAATCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATTGGAGATGGAGGTTTAGAACTCAgtacgttgataaatttaacaatcatcttggtgggctggctgtattcttgg Alignment from Pairagon GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAA---A aggctgttctcaatgggcagatacctaagcagcaatgccttctcatttagGGACTGAGTAAATCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATTGGAGATGGAGGTTTAGAACTCAgtacgttgataaatttaacaatcatcttggtgggctggctgtattcttgg Alignment from Exonerate_protein2genome GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAA---A aggctgttctcaatgggcagatacctaagcagcaatgccttctcatttagGGACTGAGTAAATCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATTGGAGATGGAGGTTTAGAACTCAgtacgttgataaatttaacaatcatcttggtgggctggctgtattcttgg Alignment from Exonerate_coding2genome GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAA---A aggctgttctcaatgggcagatacctaagcagcaatgccttctcatttagGGACTGAGTAAATCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATTGGAGATGGAGGTTTAGAACTCAgtacgttgataaatttaacaatcatcttggtgggctggctgtattcttgg Alignment from GeneWise GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAATT- aggctgttctcaatgggcagatacctaagcagcaatgccttctcatttagGGACTGAGTAAATCAACCTCTCTGGTGCACCTGTCTCTTGCAAATTGCCCAATTGGAGATGGAGGTTTAGAACTCAgtacgttgataaatttaacaatcatcttggtgggctggctgtattcttgg #### Cfl1_ID1061_3 --> 1 - 1 Original Alignment gGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAg ctatttgggatgtagttacaacttttgtgctctcggtgctcccttctcagg------GTAAATGCCCCCCTAAAAAGCAAAATGATCTATGCAAGCTCCAAAGACGTGATCAAGAGGAAGCTGACAggtacgtatccccgctttcaccaaaaacaattcatatagtctccctgctag Alignment from CESAR gGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAg ttgagactatttgggatgtagttactgtgctctcggtgctcccttctcaggGTA------AATGCCCCCCTAAAAAGCAAAATGATCTATGCAAGCTCCAAAGACGTGATCAAGAGGAAGCTGACAggtacgtatccccgctttcaccaaaaacaattcatatagtctccctgctag Alignment from Spaln_aa2Genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG ctatttgggatgtagttacaacttttgtgctctcggtgctcccttctcagGGTA------AATGCCCCCCTAAAAAGCAAAATGATCTATGCAAGCTCCAAAGACGTGATCAAGAGGAAGCTGACAGgtacgtatccccgctttcaccaaaaacaattcatatagtctccctgctag Alignment from Spaln_nt2Genome CGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG ctatttgggatgtagttacaacttttgtgctctcggtgctcccttctcagGGTAAATGCCCCCCTAAAAAGCAAAATGATCTATGCAAGCTCCAAAGACGTGATCAAGAGGAAGCTGACAGgtacgtatccccgctttcaccaaaaacaattcatatagtctccctgctag Alignment from Pairagon GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG ctatttgggatgtagttacaacttttgtgctctcggtgctcccttctcagGGT------AAATGCCCCCCTAAAAAGCAAAATGATCTATGCAAGCTCCAAAGACGTGATCAAGAGGAAGCTGACAGgtacgtatccccgctttcaccaaaaacaattcatatagtctccctgctag Alignment from Exonerate_protein2genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG ctatttgggatgtagttacaacttttgtgctctcggtgctcccttctcagGGTA------AATGCCCCCCTAAAAAGCAAAATGATCTATGCAAGCTCCAAAGACGTGATCAAGAGGAAGCTGACAGgtacgtatccccgctttcaccaaaaacaattcatatagtctccctgctag Alignment from Exonerate_coding2genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG ctatttgggatgtagttacaacttttgtgctctcggtgctcccttctcagGGTA------AATGCCCCCCTAAAAAGCAAAATGATCTATGCAAGCTCCAAAGACGTGATCAAGAGGAAGCTGACAGgtacgtatccccgctttcaccaaaaacaattcatatagtctccctgctag Alignment from GeneWise GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG ctatttgggatgtagttacaacttttgtgctctcggtgctcccttctcagGGTA------AATGCCCCCCTAAAAAGCAAAATGATCTATGCAAGCTCCAAAGACGTGATCAAGAGGAAGCTGACAGgtacgtatccccgctttcaccaaaaacaattcatatagtctccctgctag #### Chuk_ID8920_8 --> 1 - 2 Original Alignment gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTag gaatcaggctgtcttctctaaacgccgtgggctgtgctgtcttcatttagg---------------AAGAAAGATCCAAAGTGTATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTaggtgagcgatggtcagagtctttgggagtaggtcccttatctactcatagt Alignment from CESAR gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTag gagaagtacttgtatgaatcaggctcgtgggctgtgctgtcttcatttagg---------------AAGAAAGATCCAAAGTGTATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTaggtgagcgatggtcagagtctttgggagtaggtcccttatctactcatagt Alignment from Spaln_aa2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG gaatcaggctgtcttctctaaacgccgtgggctgtgctgtcttcatttagG---------------AAGAAAGATCCAAAGTGTATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGgtgagcgatggtcagagtctttgggagtaggtcccttatctactcatagt Alignment from Spaln_nt2Genome GAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG gaatcaggctgtcttctctaaacgccgtgggctgtgctgtcttcatttagGAAGAAAGATCCAAAGTGTATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGgtgagcgatggtcagagtctttgggagtaggtcccttatctactcatagt Alignment from Pairagon GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG gaatcaggctgtcttctctaaacgccgtgggctgtgctgtcttcatttag---------------GAAGAAAGATCCAAAGTGTATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGgtgagcgatggtcagagtctttgggagtaggtcccttatctactcatagt Alignment from Exonerate_protein2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG gaatcaggctgtcttctctaaacgccgtgggctgtGCTGTCTTCATTTAGGAAGAAAGATCCAAAGTGTATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGgtgagcgatggtcagagtctttgggagtaggtcccttatctactcatagt Alignment from Exonerate_coding2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG gaatcaggctgtcttctctaaacgccgtgggctgtGCTGTCTTCATTTAGGAAGAAAGATCCAAAGTGTATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGgtgagcgatggtcagagtctttgggagtaggtcccttatctactcatagt Alignment from GeneWise GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG gaatcaggctgtcttctctaaacgccgtgggctgtgctgtcttcatttagG---------------AAGAAAGATCCAAAGTGTATATTTGCGTGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGgtgagcgatggtcagagtctttgggagtaggtcccttatctactcatagt #### Chuk_ID8921_7 --> 0 - 2 Original Alignment GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACC---tg aatagaatctctattttatagctccagatcaattttttatatctttctagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCAGAtggtaagtcagcgcttttcatggttgtggaagcagctgatcctacttaatct Alignment from CESAR GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACC---tg aatagaatctctattttatagctccagatcaattttttatatctttctagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCAGAtggtaagtcagcgcttttcatggttgtggaagcagctgatcctacttaatct Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTGG-- aatagaatctctattttatagctccagatcaattttttatatctttctagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCAGATGgtaagtcagcgcttttcatggttgtggaagcagctgatcctacttaatct Alignment from Spaln_nt2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACC---TG aatagaatctctattttatagctccagatcaattttttatatctttctagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCAGATGgtaagtcagcgcttttcatggttgtggaagcagctgatcctacttaatct Alignment from Pairagon GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACC---TG aatagaatctctattttatagctccagatcaattttttatatctttctagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCAGATGgtaagtcagcgcttttcatggttgtggaagcagctgatcctacttaatct Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACC---TG aatagaatctctattttatagctccagatcaattttttatatctttctagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCAGATGgtaagtcagcgcttttcatggttgtggaagcagctgatcctacttaatct Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACC---TG aatagaatctctattttatagctccagatcaattttttatatctttctagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCAGATGgtaagtcagcgcttttcatggttgtggaagcagctgatcctacttaatct Alignment from GeneWise GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTGG-- aatagaatctctattttatagctccagatcaattttttatatctttctagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCAGATGgtaagtcagcgcttttcatggttgtggaagcagctgatcctacttaatct #### Chuk_ID8922_6 --> 0 - 0 Original Alignment ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG gaaatttgacgacatagttgcattttattttgtgtctgtttgctgctcag------CATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAATATTTGgtaagtcaatattacattaaccttgattatgtaacattcttgttattcca Alignment from CESAR ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG ttttctgaaatttgacgacatagtttattttgtgtctgtttgctgctcag------CATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAATATTTGgtaagtcaatattacattaaccttgattatgtaacattcttgttattcca Alignment from Spaln_aa2Genome ACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG gaaatttgacgacatagttgcattttattttgtgtctgtttgctgctcag------CATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAATATTTGgtaagtcaatattacattaaccttgattatgtaacattcttgttattcca Alignment from Spaln_nt2Genome CATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG gaaatttgacgacatagttgcattttattttgtgtctgtttgctgctcagCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAATATTTGgtaagtcaatattacattaaccttgattatgtaacattcttgttattcca Alignment from Pairagon CATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG gaaatttgacgacatagttgcattttattttgtgtctgtttgctgctcagCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAATATTTGgtaagtcaatattacattaaccttgattatgtaacattcttgttattcca Alignment from Exonerate_protein2genome CAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG gaaatttgacgacatagttgcattttattttgtgtctgtttgctgCTCAGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAATATTTGgtaagtcaatattacattaaccttgattatgtaacattcttgttattcca Alignment from Exonerate_coding2genome CAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG gaaatttgacgacatagttgcattttattttgtgtctgtttgctgCTCAGCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAATATTTGgtaagtcaatattacattaaccttgattatgtaacattcttgttattcca Alignment from GeneWise CATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTG gaaatttgacgacatagttgcattttattttgtgtctgtttgctgctcagCATAAAATAATTGATTTGGGGTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTTCAACTTTTGTGGGAACATTGCAATATTTGgtaagtcaatattacattaaccttgattatgtaacattcttgttattcca #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa tcctgtcctgcttcatgttctttctatcttgctgtttcctttcttcccagcc---AGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCTGGACCACCAGGTCCTCGAGGGCCTCCAGGGGTCTCAACAGCTTTGTCTACGTATGCAGCAGAAAACAGTGATAACTTCCGAAGTGAGCTGATTAGCTACCTCACAagtacgtaccctgggtgcttcctgtccccctccagagacacctagtcttct Alignment from CESAR ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa agctcctgtcctgcttcatgttcttatcttgctgtttcctttcttcccagcc---AGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCTGGACCACCAGGTCCTCGAGGGCCTCCAGGGGTCTCAACAGCTTTGTCTACGTATGCAGCAGAAAACAGTGATAACTTCCGAAGTGAGCTGATTAGCTACCTCACAagtacgtaccctgggtgcttcctgtccccctccagagacacctagtcttct Alignment from Spaln_aa2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA tcctgtcctgcttcatgttctttctatcttgctgtttcctttcttcccagCCAGT---TTGTCGTCCACCCCAGGCCCAGCAGGTCCATCTGGACCACCAGGTCCTCGAGGGCCTCCAGGGGTCTCAACAGCTTTGTCTACGTATGCAGCAGAAAACAGTGATAACTTCCGAAGTGAGCTGATTAGCTACCTCACAAgtacgtaccctgggtgcttcctgtccccctccagagacacctagtcttct Alignment from Spaln_nt2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA tcctgtcctgcttcatgttctttctatcttgctgtttcctttcttcccagCC---AGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCTGGACCACCAGGTCCTCGAGGGCCTCCAGGGGTCTCAACAGCTTTGTCTACGTATGCAGCAGAAAACAGTGATAACTTCCGAAGTGAGCTGATTAGCTACCTCACAAgtacgtaccctgggtgcttcctgtccccctccagagacacctagtcttct Alignment from Pairagon CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA tcctgtcctgcttcatgttctttctatcttgctgtttcctttcttcccagCC---AGTTTGTCGTCCACCCCAGGCCCAGCAGGTCCATCTGGACCACCAGGTCCTCGAGGGCCTCCAGGGGTCTCAACAGCTTTGTCTACGTATGCAGCAGAAAACAGTGATAACTTCCGAAGTGAGCTGATTAGCTACCTCACAAgtacgtaccctgggtgcttcctgtccccctccagagacacctagtcttct Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA tcctgtcctgcttcatgttctttctatcttgctgtttcctttcttcccagCCAGT---TTGTCGTCCACCCCAGGCCCAGCAGGTCCATCTGGACCACCAGGTCCTCGAGGGCCTCCAGGGGTCTCAACAGCTTTGTCTACGTATGCAGCAGAAAACAGTGATAACTTCCGAAGTGAGCTGATTAGCTACCTCACAAgtacgtaccctgggtgcttcctgtccccctccagagacacctagtcttct Alignment from Exonerate_coding2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA tcctgtcctgcttcatgttctttctatcttgctgtttcctttcttcccagCCAGT---TTGTCGTCCACCCCAGGCCCAGCAGGTCCATCTGGACCACCAGGTCCTCGAGGGCCTCCAGGGGTCTCAACAGCTTTGTCTACGTATGCAGCAGAAAACAGTGATAACTTCCGAAGTGAGCTGATTAGCTACCTCACAAgtacgtaccctgggtgcttcctgtccccctccagagacacctagtcttct Alignment from GeneWise CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA tcctgtcctgcttcatgttctttctatcttgctgtttcctttcttcccagCCAGT---TTGTCGTCCACCCCAGGCCCAGCAGGTCCATCTGGACCACCAGGTCCTCGAGGGCCTCCAGGGGTCTCAACAGCTTTGTCTACGTATGCAGCAGAAAACAGTGATAACTTCCGAAGTGAGCTGATTAGCTACCTCACAAgtacgtaccctgggtgcttcctgtccccctccagagacacctagtcttct #### Col17a1_ID10278_44 --> 2 - 1 Original Alignment ca---------------------TCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAc gaaatgcatatttagttctacacacgctcctgccctgtggattcttttagctGGCGAGAAAATTCTGATAGGATCAGGATATAGTGCTGGCTTGTCCTCTGCTTCCTCATCAGAGGATATCTTGGCCATGCTGCGAcgtgagcaccttccaacaggcaggattaggttcttttacctaccacctatc Alignment from CESAR caTCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAc gcctgggctcttgacaagtctgaaatgcatatttagttctacacacttagctggcgagaaaattctgataggaTCAGGATATAGTGCTGGCTTGTCCTCTGCTTCCTCATCAGAGGATATCTTGGCCATGCTGCGAcgtgagcaccttccaacaggcaggattaggttcttttacctaccacctatc Alignment from Spaln_aa2Genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC gaaatgcatatttagttctacacacgctcctgccctgtggattcttttagctggcgagaaaattctgatagGATCAGGATATAGTGCTGGCTTGTCCTCTGCTTCCTCATCAGAGGATATCTTGGCCATGCTGCGACgtgagcaccttccaacaggcaggattaggttcttttacctaccacctatc Alignment from Spaln_nt2Genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC gaaatgcatatttagttctacacacgctcctgccctgtggattcttttagctggcgagaaaattctgatagGATCAGGATATAGTGCTGGCTTGTCCTCTGCTTCCTCATCAGAGGATATCTTGGCCATGCTGCGACgtgagcaccttccaacaggcaggattaggttcttttacctaccacctatc Alignment from Pairagon CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC gaaatgcatatttagttctacacacgctcctgccctgtggattcttttagctggcgagaaaattctgatagGATCAGGATATAGTGCTGGCTTGTCCTCTGCTTCCTCATCAGAGGATATCTTGGCCATGCTGCGACgtgagcaccttccaacaggcaggattaggttcttttacctaccacctatc Alignment from Exonerate_protein2genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC gaaatgcatatttagttctacacacgctcctgccctgtggattcttttagctggcgagaaaattctgatagGATCAGGATATAGTGCTGGCTTGTCCTCTGCTTCCTCATCAGAGGATATCTTGGCCATGCTGCGACgtgagcaccttccaacaggcaggattaggttcttttacctaccacctatc Alignment from Exonerate_coding2genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC gaaatgcatatttagttctacacacgctcctgccctgtggattcttttagctggcgagaaaattctgatagGATCAGGATATAGTGCTGGCTTGTCCTCTGCTTCCTCATCAGAGGATATCTTGGCCATGCTGCGACgtgagcaccttccaacaggcaggattaggttcttttacctaccacctatc Alignment from GeneWise CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC gaaatgcatatttagttctacacacgctcctgccctgtggattcttttagctggcgagaaaattctgatagGATCAGGATATAGTGCTGGCTTGTCCTCTGCTTCCTCATCAGAGGATATCTTGGCCATGCTGCGACgtgagcaccttccaacaggcaggattaggttcttttacctaccacctatc #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gt---GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt cagctctttctggctgcaggcgtgatcatatacctgtctatcctctgcaggtTATGGTAACATCAGGACATATCTCCTAGGAGTTCAGGGGCCCCCTGGACCCCCAGGACCCCCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGAtgtgagtccataaaaatttccgtgtttttcccctctacctttgcagatcat Alignment from CESAR gt---GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt cagctctttctggctgcaggcgtgatcatatacctgtctatcctctgcaggtTATGGTAACATCAGGACATATCTCCTAGGAGTTCAGGGGCCCCCTGGACCCCCAGGACCCCCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGAtgtgagtccataaaaatttccgtgtttttcccctctacctttgcagatcat Alignment from Spaln_aa2Genome GT---GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcgtgatcatatacctgtctatcctctgcagGTTATGGTAACATCAGGACATATCTCCTAGGAGTTCAGGGGCCCCCTGGACCCCCAGGACCCCCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtgagtccataaaaatttccgtgtttttcccctctacctttgcagatcat Alignment from Spaln_nt2Genome GTGACAACATCAGGA---CTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcgtgatcatatacctgtctatcctctgcagGTTATGGTAACATCAGGACATATCTCCTAGGAGTTCAGGGGCCCCCTGGACCCCCAGGACCCCCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtgagtccataaaaatttccgtgtttttcccctctacctttgcagatcat Alignment from Pairagon G---TGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcgtgatcatatacctgtctatcctctgcagGTTATGGTAACATCAGGACATATCTCCTAGGAGTTCAGGGGCCCCCTGGACCCCCAGGACCCCCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtgagtccataaaaatttccgtgtttttcccctctacctttgcagatcat Alignment from Exonerate_protein2genome GT---GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcgtgatcatatacctgtctatcctctgcagGTTATGGTAACATCAGGACATATCTCCTAGGAGTTCAGGGGCCCCCTGGACCCCCAGGACCCCCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtgagtccataaaaatttccgtgtttttcccctctacctttgcagatcat Alignment from Exonerate_coding2genome GT---GACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcgtgatcatatacctgtctatcctctgcagGTTATGGTAACATCAGGACATATCTCCTAGGAGTTCAGGGGCCCCCTGGACCCCCAGGACCCCCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtgagtccataaaaatttccgtgtttttcccctctacctttgcagatcat Alignment from GeneWise --AGTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT cagctctttctggctgcaggcgtgatcatatacctgtctatcctctgcagGTTATGGTAACATCAGGACATATCTCCTAGGAGTTCAGGGGCCCCCTGGACCCCCAGGACCCCCTGGATCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCCCAACTGGCAAGTCACGAAGTTAGCTACCTACGATgtgagtccataaaaatttccgtgtttttcccctctacctttgcagatcat #### Col17a1_ID10283_39 --> 2 - 1 Original Alignment ggGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA------------------g ttccactggtgaggttattatctcatcatgctttttcctcctgcccttaggcGAGGGTGTGCCAGGTCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAGCCGACAATTCACCCCTGggtaatttggatcagtctcatctttcagatctgatatccatctagctgtgc Alignment from CESAR ggGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA------------------g ttccactggtgaggttattatctcatcatgctttttcctcctgcccttaggcGAGGGTGTGCCAGGTCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAGCCGACAATTCACCCCTGggtaatttggatcagtctcatctttcagatctgatatccatctagctgtgc Alignment from Spaln_aa2Genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAGAA---------------- ttccactggtgaggttattatctcatcatgctttttcctcctgcccttagGCGAGGGTGTGCCAGGTCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAGCCGACAATTCACCCCTGGgtaatttggatcagtctcatctttcagatctgatatccatctagctgtgc Alignment from Spaln_nt2Genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAGAAACC--TTCTTCACT-- ttccactggtgaggttattatctcatcatgctttttcctcctgcccttagGCGAGGGTGTGCCAGGTCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAGCCGACAATTCACCCCTGGgtaatttggatcagtctcatctttcagatctgatatccatctagctgtgc Alignment from Pairagon GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG------------------ ttccactggtgaggttattatctcatcatgctttttcctcctgcccttagGCGAGGGTGTGCCAGGTCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAGCCGACAATTCACCCCTGGgtaatttggatcagtctcatctttcagatctgatatccatctagctgtgc Alignment from Exonerate_protein2genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG ttccactggtgaggttattatctcatcatgctttttcctcctgcccttagGCGAGGGTGTGCCAGGTCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAGccgacaattcacccctgggtaatttggatcagtctcatctttcagatctgatatccatctagctgtgc Alignment from Exonerate_coding2genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG ttccactggtgaggttattatctcatcatgctttttcctcctgcccttagGCGAGGGTGTGCCAGGTCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAGccgacaattcacccctgggtaatttggatcagtctcatctttcagatctgatatccatctagctgtgc Alignment from GeneWise GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA------------------G ttccactggtgaggttattatctcatcatgctttttcctcctgcccttagGCGAGGGTGTGCCAGGTCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAGCCGACAATTCACCCCTGGgtaatttggatcagtctcatctttcagatctgatatccatctagctgtgc #### Col17a1_ID10285_37 --> 2 - 1 Original Alignment aaGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCA------g gtcaggcttcagtcttctttttcatttaatcctagactctctctcaccagaaGGGGTTGGCTTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGGCCACCGTTCCTAggtaagacctcaccaaaattttaagggggggagaatcacaaccagtgacca Alignment from CESAR aaGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCA------g gtcaggcttcagtcttctttttcatttaatcctagactctctctcaccagaaGGGGTTGGCTTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGGCCACCGTTCCTAggtaagacctcaccaaaattttaagggggggagaatcacaatttctacctt Alignment from Spaln_aa2Genome AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCA------G gtcaggcttcagtcttctttttcatttaatcctagactctctctcaccagAAGGGGTTGGCTTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGGCCACCGTTCCTAGgtaagacctcaccaaaattttaagggggggagaatcacaaccagtgacca Alignment from Spaln_nt2Genome AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACC------AG gtcaggcttcagtcttctttttcatttaatcctagactctctctcaccagAAGGGGTTGGCTTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGGCCACCGTTCCTAGgtaagacctcaccaaaattttaagggggggagaatcacaaccagtgacca Alignment from Pairagon AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCAC----------------------------------------------------------- gtcaggcttcagtcttctttttcatttaatcctagactctctctcaccagAAGGGGTTGGCTTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGGCCACCGTTCCTAGGTAAGACCTCACCAAAATTTTAAGGGGGGGAGAATCACAACCAGTGACCA Alignment from Exonerate_protein2genome AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCA------G gtcaggcttcagtcttctttttcatttaatcctagactctctctcaccagAAGGGGTTGGCTTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGGCCACCGTTCCTAGgtaagacctcaccaaaattttaagggggggagaatcacaaccagtgacca Alignment from Exonerate_coding2genome AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCA------G gtcaggcttcagtcttctttttcatttaatcctagactctctctcaccagAAGGGGTTGGCTTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGGCCACCGTTCCTAGgtaagacctcaccaaaattttaagggggggagaatcacaaccagtgacca Alignment from GeneWise AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCA------G gtcaggcttcagtcttctttttcatttaatcctagactctctctcaccagAAGGGGTTGGCTTACATGGCCCCCCTGGCCCCTCTGGACCACGAGGGCCACCGTTCCTAGgtaagacctcaccaaaattttaagggggggagaatcacaaccagtgacca #### Coro1b_ID354_4 --> 2 - 0 Original Alignment gt---TGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccagtatgtgtcgggctaattgaacaatttcctgggccttcctcaggtTCCTGTGACAATGTGGTACTTATCTGGAATGTGGGCGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCCTATAATGTGAGCTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGAATCACTGATCCTAGGCGGGGCACCCTGGTTGCAgtactaacaagtgggaaatagttcgtcattcaacttcaaggccttgatcc Alignment from CESAR gt---TGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccagtatgtgtcgggctaattgaacaatttcctgggccttcctcaggtTCCTGTGACAATGTGGTACTTATCTGGAATGTGGGCGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCCTATAATGTGAGCTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGAATCACTGATCCTAGGCGGGGCACCCTGGTTGCAgtactaacaagtgggaaatagttcgtcattcaacttcaaggccttgatcc Alignment from Spaln_aa2Genome GT---TGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccagtatgtgtcgggctaattgaacaatttcctgggccttcctcagGTTCCTGTGACAATGTGGTACTTATCTGGAATGTGGGCGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCCTATAATGTGAGCTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGAATCACTGATCCTAGGCGGGGCACCCTGGTTGCAgtactaacaagtgggaaatagttcgtcattcaacttcaaggccttgatcc Alignment from Spaln_nt2Genome GTT---GTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccagtatgtgtcgggctaattgaacaatttcctgggccttcctcagGTTCCTGTGACAATGTGGTACTTATCTGGAATGTGGGCGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCCTATAATGTGAGCTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGAATCACTGATCCTAGGCGGGGCACCCTGGTTGCAgtactaacaagtgggaaatagttcgtcattcaacttcaaggccttgatcc Alignment from Pairagon GT---TGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccagtatgtgtcgggctaattgaacaatttcctgggccttcctcagGTTCCTGTGACAATGTGGTACTTATCTGGAATGTGGGCGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCCTATAATGTGAGCTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGAATCACTGATCCTAGGCGGGGCACCCTGGTTGCAgtactaacaagtgggaaatagttcgtcattcaacttcaaggccttgatcc Alignment from Exonerate_protein2genome GT---TGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccagtatgtgtcgggctaattgaacaatttcctgggccttcctcagGTTCCTGTGACAATGTGGTACTTATCTGGAATGTGGGCGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCCTATAATGTGAGCTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGAATCACTGATCCTAGGCGGGGCACCCTGGTTGCAgtactaacaagtgggaaatagttcgtcattcaacttcaaggccttgatcc Alignment from Exonerate_coding2genome GT---TGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccagtatgtgtcgggctaattgaacaatttcctgggccttcctcagGTTCCTGTGACAATGTGGTACTTATCTGGAATGTGGGCGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCCTATAATGTGAGCTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGAATCACTGATCCTAGGCGGGGCACCCTGGTTGCAgtactaacaagtgggaaatagttcgtcattcaacttcaaggccttgatcc Alignment from GeneWise --GGTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA tccaccagtatgtgtcgggctaattgaacaatttcctgggccttcctcagGTTCCTGTGACAATGTGGTACTTATCTGGAATGTGGGCGCTGCAGAAGAGCTGTACCGTTTGGACAGTTTGCATCCTGACCTTGCCTATAATGTGAGCTGGAACCACATTGGCAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGAATCACTGATCCTAGGCGGGGCACCCTGGTTGCAgtactaacaagtgggaaatagttcgtcattcaacttcaaggccttgatcc #### Csf2ra_ID13430_10 --> 1 - 0 Original Alignment g---TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtcggacacccaggtgcatgctactctgtaactatcaactctaattgcaggATCTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATTAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagtagtcataggcactagcagtgggagttgagtgtgacactgggctc Alignment from CESAR g---TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtcggacacccaggtgcatgctactctgtaactatcaactctaattgcaggATCTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATTAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagtagtcataggcactagcagtgggagttgagtgtgacactgggctc Alignment from Spaln_aa2Genome G----TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtcggacacccaggtgcatgctactctgtaactatcaactctaattgcagGATCTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATTAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagtagtcataggcactagcagtgggagttgagtgtgacactgggctc Alignment from Spaln_nt2Genome GTTC---GAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtcggacacccaggtgcatgctactctgtaactatcaactctaattgcagGATCTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATTAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagtagtcataggcactagcagtgggagttgagtgtgacactgggctc Alignment from Pairagon ------------------------------------------------------TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG GTCGGACACCCAGGTGCATGCTACTCTGTAACTATCAACTCTAATTGCAGGATCTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATTAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagtagtcataggcactagcagtgggagttgagtgtgacactgggctc Alignment from Exonerate_protein2genome G---TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtcggacacccaggtgcatgctactctgtaactatcaactctaattgcagGATCTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATTAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagtagtcataggcactagcagtgggagttgagtgtgacactgggctc Alignment from Exonerate_coding2genome G---TTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtcggacacccaggtgcatgctactctgtaactatcaactctaattgcagGATCTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATTAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagtagtcataggcactagcagtgggagttgagtgtgacactgggctc Alignment from GeneWise -AGGTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtcggacacccaggtgcatgctactctgtaactatcaactctaattgcagGATCTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATTAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgtgagtagtcataggcactagcagtgggagttgagtgtgacactgggctc #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTC---g taagataagttcttactcccagcccaatcgtttttcccatcctcggacagGTCCTGGTTGTCGAAGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCGCAGCCTCTTTCTggtaaggataggtgtaatgatccattcccccaaatacatgcctgctgtcca Alignment from CESAR GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTC---g taagataagttcttactcccagcccaatcgtttttcccatcctcggacagGTCCTGGTTGTCGAAGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCGCAGCCTCTTTCTggtaaggataggtgtaatgatccattcccccaaatacatgcctgctgtcca Alignment from Spaln_aa2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCT- taagataagttcttactcccagcccaatcgtttttcccatcctcggacagGTCCTGGTTGTCGAAGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGGGCGCAGCCTCTTTCTGgtaaggataggtgtaatgatccattcccccaaatacatgcctgctgtcca Alignment from Spaln_nt2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG taagataagttcttactcccagcccaatcgtttttcccatcctcggacagGTCCTGGTTGTCGAAGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG-GCGCAGCC--TCTTTCTGgtaaggataggtgtaatgatccattcccccaaatacatgcctgctgtcca Alignment from Pairagon GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGG------------------------------------------------------------------ taagataagttcttactcccagcccaatcgtttttcccatcctcggacagGTCCTGGTTGTCGAAGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGGGCGCAGCCTCTTTCTGGTAAGGATAGGTGTAATGATCCATTCCCCCAAATACATGCCTGCTGTCCA Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAAT taagataagttcttactcccagcccaatcgtttttcccatcctcggacagGTCCTGGTTGTCGAAGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATgggcgcagcctctttctggtaaggataggtgtaatgatccattcccccaaatacatgcctgctgtcca Alignment from Exonerate_coding2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAAT taagataagttcttactcccagcccaatcgtttttcccatcctcggacagGTCCTGGTTGTCGAAGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATgggcgcagcctctttctggtaaggataggtgtaatgatccattcccccaaatacatgcctgctgtcca Alignment from GeneWise GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCGAG- taagataagttcttactcccagcccaatcgtttttcccatcctcggacagGTCCTGGTTGTCGAAGAGACCCGCCTCACCTTCCCTAGCCCTGCTCCCCATGGATGGCACAGGGTCAAAGTCCGGGCAGGTGACACAAGGATGAAGCACTGGGGTAAATGG------GCGCAGCCTCTTTCTGgtaaggataggtgtaatgatccattcccccaaatacatgcctgctgtcca #### Csf2ra_ID13435_5 --> 1 - 1 Original Alignment gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC------g tttcctattacctcattgctgtctctgacctgtgtccttctgtttttcagaGGTCATGATGTGGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTTGTTACTGGTCGAAGTGGGGCCGGGCCAGTGTGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTGCTCTTCggcaggtctttggttatgggtacgtgtagggcttctaagtcgcagcctgga Alignment from CESAR gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC------g tttcctattacctcattgctgtctctgacctgtgtccttctgtttttcagaGGTCATGATGTGGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTTGTTACTGGTCGAAGTGGGGCCGGGCCAGTGTGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTGCTCTTCggcaggtctttggttatgggtacgtgtagggcttctaagtcgcagcctgga Alignment from Spaln_aa2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC------G tttcctattacctcattgctgtctctgacctgtgtccttctgtttttcagAGGTCATGATGTGGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTTGTTACTGGTCGAAGTGGGGCCGGGCCAGTGTGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTGCTCTTCGgcaggtctttggttatgggtacgtgtagggcttctaagtcgcagcctgga Alignment from Spaln_nt2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCT------CG tttcctattacctcattgctgtctctgacctgtgtccttctgtttttcagAGGTCATGATGTGGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTTGTTACTGGTCGAAGTGGGGCCGGGCCAGTGTGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTGCTCTTCGgcaggtctttggttatgggtacgtgtagggcttctaagtcgcagcctgga Alignment from Pairagon GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGC------TCG tttcctattacctcattgctgtctctgacctgtgtccttctgtttttcagAGGTCATGATGTGGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTTGTTACTGGTCGAAGTGGGGCCGGGCCAGTGTGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTGCTCTTCGgcaggtctttggttatgggtacgtgtagggcttctaagtcgcagcctgga Alignment from Exonerate_protein2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCGAG tttcctattacctcattgctgtctctgacctgtgtccttctgtttttcagAGGTCATGATGTGGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTTGTTACTGGTCGAAGTGGGGCCGGGCCAGTGTGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTGCTCttcggcaggtctttggttatgggtacgtgtagggcttctaagtcgcagcctgga Alignment from Exonerate_coding2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCGAG tttcctattacctcattgctgtctctgacctgtgtccttctgtttttcagAGGTCATGATGTGGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTTGTTACTGGTCGAAGTGGGGCCGGGCCAGTGTGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTGCTCttcggcaggtctttggttatgggtacgtgtagggcttctaagtcgcagcctgga Alignment from GeneWise GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCGAG--------------- tttcctattacctcattgctgtctctgacctgtgtccttctgtttttcagAGGTCATGATGTGGCACACTGCATGGCTGATCCTGGGGATGATGTAATCACCCAGTGCATTGCAAATGATTTATCCCTGCTGGGGAGTGAGGCCTATTTAGTTGTTACTGGTCGAAGTGGGGCCGGGCCAGTGTGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTGCTCTTCGGCAGGTCTTTGgttatgggtacgtgtagggcttctaagtcgcagcctgga #### Csf2ra_ID13438_2 --> 2 - 0 Original Alignment ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--------- ggcactccaccactctctaccaagacagacctgacgtctcatctaaacagccCCAACCACCCCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCTTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCATCCCCTTCCgtaagtgggtaacatgagaggctatgcccaataatgatatcatgcccaat Alignment from CESAR ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--------- ggcactccaccactctctaccaagacagacctgacgtctcatctaaacagccCCAACCACCCCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCTTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCATCCCCTTCCgtaagtgggtaacatgagaggctatgcccaataatgatatcatgcccaat Alignment from Spaln_aa2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTC---------TCG ggcactccaccactctctaccaagacagacctgacgtctcatctaaacagCCCCAACCACCCCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCTTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCATCCCCTTCCgtaagtgggtaacatgagaggctatgcccaataatgatatcatgcccaat Alignment from Spaln_nt2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--------- ggcactccaccactctctaccaagacagacctgacgtctcatctaaacagCCCCAACCACCCCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCTTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCATCCCCTTCCgtaagtgggtaacatgagaggctatgcccaataatgatatcatgcccaat Alignment from Pairagon CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTC------------------------------------------------------------ ggcactccaccactctctaccaagacagacctgacgtctcatctaaacagCCCCAACCACCCCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCTTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCATCCCCTTCCGTAAGTGGGTAACATGAGAGGCTATGCCCAATAATGATATCATGCCCAAT Alignment from Exonerate_protein2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGT ggcactccaccactctctaccaagacagacctgacgtctcatctaaacagCCCCAACCACCCCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCTTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTatcatccccttccgtaagtgggtaacatgagaggctatgcccaataatgatatcatgcccaat Alignment from Exonerate_coding2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGT ggcactccaccactctctaccaagacagacctgacgtctcatctaaacagCCCCAACCACCCCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCTTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTatcatccccttccgtaagtgggtaacatgagaggctatgcccaataatgatatcatgcccaat Alignment from GeneWise CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--------- ggcactccaccactctctaccaagacagacctgacgtctcatctaaacagCCCCAACCACCCCATATGTTGGCTCTGCCCTCAACCTGATCTTTGACCCCTGGACCCGGATGCTGACCTGGGCTTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTATCATCCCCTTCCgtaagtgggtaacatgagaggctatgcccaataatgatatcatgcccaat #### Ctsf_ID674_2 --> 0 - 0 Original Alignment GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG aaaggtgaaagggagtcttggccaactctggacccttgcatgtcttacag---GGCCAGGGCTCCCTGTTCTCCCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCCTTGGTGTGCTCACTTCCTGAAACAAAGAAGACTGTGgtgagatagtggtcacattgttacggccctcctgtcaagacatcgtctaa Alignment from CESAR GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaaggtgaaagggagtcttggcctctggacccttgcatgtcttacag---GGCCAGGGCTCCCTGTTCTCCCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCCTTGGTGTGCTCACTTCCTGAAACAAAGAAGACTGTGgtgagatagtggtcacattgttacggccctcctgtcaagacatcgtctaa Alignment from Spaln_aa2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG aaaggtgaaagggagtcttggccaactctggacccttgcatgtcttacag---GGCCAGGGCTCCCTGTTCTCCCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCCTTGGTGTGCTCACTTCCTGAAACAAAGAAGACTGTGgtgagatagtggtcacattgttacggccctcctgtcaagacatcgtctaa Alignment from Spaln_nt2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG aaaggtgaaagggagtcttggccaactctggacccttgcatgtcttacag---GGCCAGGGCTCCCTGTTCTCCCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCCTTGGTGTGCTCACTTCCTGAAACAAAGAAGACTGTGgtgagatagtggtcacattgttacggccctcctgtcaagacatcgtctaa Alignment from Pairagon GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG aaaggtgaaagggagtcttggccaactctggacccttgcatgtcttacag---GGCCAGGGCTCCCTGTTCTCCCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCCTTGGTGTGCTCACTTCCTGAAACAAAGAAGACTGTGgtgagatagtggtcacattgttacggccctcctgtcaagacatcgtctaa Alignment from Exonerate_protein2genome GGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG aaaggtgaaagggagtcttggccaactctggacccttgcatgtcttacagGGCCAGGGCTCCCTGTTCTCCCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCCTTGGTGTGCTCACTTCCTGAAACAAAGAAGACTGTGgtgagatagtggtcacattgttacggccctcctgtcaagacatcgtctaa Alignment from Exonerate_coding2genome GGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG aaaggtgaaagggagtcttggccaactctggacccttgcatgtcttacagGGCCAGGGCTCCCTGTTCTCCCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCCTTGGTGTGCTCACTTCCTGAAACAAAGAAGACTGTGgtgagatagtggtcacattgttacggccctcctgtcaagacatcgtctaa Alignment from GeneWise ---TCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG aaaggtgaaagggagtcttggccaactctggacccttgcatgtcttacagggccagGGCTCCCTGTTCTCCCTGGAATCCACACTAGATGAGCCACCTTGCAATGATCCCTTGGTGTGCTCACTTCCTGAAACAAAGAAGACTGTGgtgagatagtggtcacattgttacggccctcctgtcaagacatcgtctaa #### Ctsf_ID675_3 --> 0 - 1 Original Alignment CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACA---------------------g ataaccaaaccacatctgtgaatcaatacttgactctccctttcgtacagCTCTGTAGTTTCGAAGCCCTTGAAGAACTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCAGGGTCACTATTCGGTGGACCTACATGATTggtgagtgattactcaagtagatggggaagaggagagatcatacccaagta Alignment from CESAR CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACA---------------------g ataaccaaaccacatctgtgaatcaatacttgactctccctttcgtacagCTCTGTAGTTTCGAAGCCCTTGAAGAACTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCAGGGTCACTATTCGGTGGACCTACATGATTggtgagtgattactcaagtagatggggaagaggagagatcatacccaagta Alignment from Spaln_aa2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACA---------------------G ataaccaaaccacatctgtgaatcaatacttgactctccctttcgtacagCTCTGTAGTTTCGAAGCCCTTGAAGAACTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCAGGGTCACTATTCGGTGGACCTACATGATTGgtgagtgattactcaagtagatggggaagaggagagatcatacccaagta Alignment from Spaln_nt2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACA----G ataaccaaaccacatctgtgaatcaatacttgactctccctttcgtacagCTCTGTAGTTTCGAAGCCCTTGAAGAACTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCAGGGTCACTATTCGgtggacctacatgattggtgagtgattactcaagtagatggggaagaggagagatcatacccaagta Alignment from Pairagon CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCA-------------------------------------------------------------------------- ataaccaaaccacatctgtgaatcaatacttgactctccctttcgtacagCTCTGTAGTTTCGAAGCCCTTGAAGAACTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCAGGGTCACTATTCGGTGGACCTACATGATTGGTGAGTGATTACTCAAGTAGATGGGGAAGAGGAGAGATCATACCCAAGTA Alignment from Exonerate_protein2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG ataaccaaaccacatctgtgaatcaatacttgactctccctttcgtacagCTCTGTAGTTTCGAAGCCCTTGAAGAACTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCAGGGTCACTAttcggtggacctacatgattggtgagtgattactcaagtagatggggaagaggagagatcatacccaagta Alignment from Exonerate_coding2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG ataaccaaaccacatctgtgaatcaatacttgactctccctttcgtacagCTCTGTAGTTTCGAAGCCCTTGAAGAACTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCAGGGTCACTAttcggtggacctacatgattggtgagtgattactcaagtagatggggaagaggagagatcatacccaagta Alignment from GeneWise CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACA---------------------G ataaccaaaccacatctgtgaatcaatacttgactctccctttcgtacagCTCTGTAGTTTCGAAGCCCTTGAAGAACTCAAGGAACACTTGCTCCTGAGGAGGGACTGCAGCCCAGTGAATGCCAGGGTCACTATTCGGTGGACCTACATGATTGgtgagtgattactcaagtagatggggaagaggagagatcatacccaagta #### Ctsf_ID680_8 --> 0 - 1 Original Alignment ---GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cttcagagaaccctaatagagcaccctgctgttttcttttcatgtcccagTGGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTCCTGATCCGAGGAACTCTGCTATCCCTGTCAGAACAGggtaaggatcctgatccattttgtttttatcagacgaacccctccataggg Alignment from CESAR ------GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cttcagagaaccctaatagagcaccctgctgttttcttttcatgtcccagTGGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTCCTGATCCGAGGAACTCTGCTATCCCTGTCAGAACAGggtaaggatcctgatccattttgtttttatcagacgaacccctccataggg Alignment from Spaln_aa2Genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cttcagagaaccctaatagagcaccctgctgttttcttttcatgtcccagTGGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTCCTGATCCGAGGAACTCTGCTATCCCTGTCAGAACAGGgtaaggatcctgatccattttgtttttatcagacgaacccctccataggg Alignment from Spaln_nt2Genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cttcagagaaccctaatagagcaccctgctgttttcttttcatgtcccagTGGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTCCTGATCCGAGGAACTCTGCTATCCCTGTCAGAACAGGgtaaggatcctgatccattttgtttttatcagacgaacccctccataggg Alignment from Pairagon ------GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cttcagagaaccctaatagagcaccctgctgttttcttttcatgtcccagTGGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTCCTGATCCGAGGAACTCTGCTATCCCTGTCAGAACAGGgtaaggatcctgatccattttgtttttatcagacgaacccctccataggg Alignment from Exonerate_protein2genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cttcagagaaccctaatagagcaccctgctgttttcttttcatgtcccagTGGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTCCTGATCCGAGGAACTCTGCTATCCCTGTCAGAACAGGgtaaggatcctgatccattttgtttttatcagacgaacccctccataggg Alignment from Exonerate_coding2genome AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cttcagagaaccctaatagagcaccctgctgttttcttttcatgtcccagTGGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTCCTGATCCGAGGAACTCTGCTATCCCTGTCAGAACAGGgtaaggatcctgatccattttgtttttatcagacgaacccctccataggg Alignment from GeneWise AACCAGGGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cttcagagaaccctaatagagcaccctgctgttttcttttcatgtcccagTGGGGCAGTATGTGCAGTTCCTGCTGGGCCTTCTCTGTCACTGGCAATGGGGAGGGCCAGTGGTTCCTGATCCGAGGAACTCTGCTATCCCTGTCAGAACAGGgtaaggatcctgatccattttgtttttatcagacgaacccctccataggg #### Ctsf_ID681_9 --> 2 - 1 Original Alignment agCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGg ccctccatagggtcccttaatatactttaactccttaacttttgtttcagag---------TGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGggtaagttgaatccacctctggatgacgacagctaccatgttgttggaagt Alignment from CESAR agCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGg cagacgaacccctccatagggtccctttaactccttaacttttgtttcagag---------TGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGggtaagttgaatccacctctggatgacgacagctaccatgttgttggaagt Alignment from Spaln_aa2Genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG ccctccatagggtcccttaatatactttaactccttaacttttgtttcagAG---------TGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtaagttgaatccacctctggatgacgacagctaccatgttgttggaagt Alignment from Spaln_nt2Genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG ccctccatagggtcccttaatatactttaactccttaacttttgtttcagAG---------TGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtaagttgaatccacctctggatgacgacagctaccatgttgttggaagt Alignment from Pairagon AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG ccctccatagggtcccttaatatactttaactccttaacttttgtttcagAG---------TGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtaagttgaatccacctctggatgacgacagctaccatgttgttggaagt Alignment from Exonerate_protein2genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG ccctccatagggtcccttaatatactttaactccttaacttTTGTTTCAGAGTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtaagttgaatccacctctggatgacgacagctaccatgttgttggaagt Alignment from Exonerate_coding2genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG ccctccatagggtcccttaatatactttaactccttaacttTTGTTTCAGAGTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtaagttgaatccacctctggatgacgacagctaccatgttgttggaagt Alignment from GeneWise ATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG ccctccatagggtcccttaatatactttaactccttaacttttgtttcagAGTGTGGCAAAGAGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtaagttgaatccacctctggatgacgacagctaccatgttgttggaagt #### Ctsf_ID682_10 --> 2 - 1 Original Alignment gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAAT---a tgggagagcttgtgtagcaggtcatcaagtttattttcttcttttcacaggaGGTCTGGAGACAGAGGACGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCGAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATGAAAATCATagtaagtgagggctgctgtaggtgaatcagggttaacaccactgggccaaa Alignment from CESAR gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAAT---a tgggagagcttgtgtagcaggtcatcaagtttattttcttcttttcacaggaGGTCTGGAGACAGAGGACGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCGAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATGAAAATCATagtaagtgagggctgctgtaggtgaatcagggttaacaccactgggccaaa Alignment from Spaln_aa2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAAT---A tgggagagcttgtgtagcaggtcatcaagtttattttcttcttttcacagGAGGTCTGGAGACAGAGGACGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCGAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATGAAAATCATAgtaagtgagggctgctgtaggtgaatcagggttaacaccactgggccaaa Alignment from Spaln_nt2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAAT---A tgggagagcttgtgtagcaggtcatcaagtttattttcttcttttcacagGAGGTCTGGAGACAGAGGACGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCGAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATGAAAATCATAgtaagtgagggctgctgtaggtgaatcagggttaacaccactgggccaaa Alignment from Pairagon GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAA---ATA tgggagagcttgtgtagcaggtcatcaagtttattttcttcttttcacagGAGGTCTGGAGACAGAGGACGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCGAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATGAAAATCATAgtaagtgagggctgctgtaggtgaatcagggttaacaccactgggccaaa Alignment from Exonerate_protein2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAAT---A tgggagagcttgtgtagcaggtcatcaagtttattttcttcttttcacagGAGGTCTGGAGACAGAGGACGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCGAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATGAAAATCATAgtaagtgagggctgctgtaggtgaatcagggttaacaccactgggccaaa Alignment from Exonerate_coding2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAAT---A tgggagagcttgtgtagcaggtcatcaagtttattttcttcttttcacagGAGGTCTGGAGACAGAGGACGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCGAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATGAAAATCATAgtaagtgagggctgctgtaggtgaatcagggttaacaccactgggccaaa Alignment from GeneWise GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATAAGATA-- tgggagagcttgtgtagcaggtcatcaagtttattttcttcttttcacagGAGGTCTGGAGACAGAGGACGACTATGGCTATCAGGGCCATGTTCAGACCTGTAACTTCTCAGCACAGATGGCGAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAAAATGAAAATCATAGTAAgtgagggctgctgtaggtgaatcagggttaacaccactgggccaaa #### Ctsf_ID683_11 --> 2 - 0 Original Alignment agATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG aatcagggttaacaccactgggccaaagaaactctattgtgtttttgcagagAGAGCAGCCTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATTAATGCCTTCGGAATG---gtgagtagatggttctaacctccctgtgcctcctcaacccatcagcaatg Alignment from CESAR agATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG aatcagggttaacaccactgggccaaagaaactctattgtgtttttgcagagAGAGCAGCCTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATTAATGCCTTCGGAATG---gtgagtagatggttctaacctccctgtgcctcctcaacccatcagca Alignment from Spaln_aa2Genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATG aatcagggttaacaccactgggccaaagaaactctattgtgtttttgcagAGAGAGCAGCCTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATTAATGCCTTCGGAATGgtgagtagatggttctaacctccctgtgcctcctcaacccatcagcaatg Alignment from Spaln_nt2Genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG- aatcagggttaacaccactgggccaaagaaactctattgtgtttttgcagAGAGAGCAGCCTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATTAATGCCTTCGGAATGGTGAgtagatggttctaacctccctgtgcctcctcaacccatcagcaatg Alignment from Pairagon AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATG-------------------------------------------------- aatcagggttaacaccactgggccaaagaaactctattgtgtttttgcagAGAGAGCAGCCTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATTAATGCCTTCGGAATGGTGAGTAGATGGTTCTAACCTCCCTGTGCCTCCTCAACCCATCAGCAATG Alignment from Exonerate_protein2genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG aatcagggttaacaccactgggccaaagaaactctattgtgtttttgcagAGAGAGCAGCCTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATTAATGCCTTCGGAATG---gtgagtagatggttctaacctccctgtgcctcctcaacccatcagca Alignment from Exonerate_coding2genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG aatcagggttaacaccactgggccaaagaaactctattgtgtttttgcagAGAGAGCAGCCTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATTAATGCCTTCGGAATG---gtgagtagatggttctaacctccctgtgcctcctcaacccatcagca Alignment from GeneWise AGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG aatcagggttaacaccactgggccaaagaaactctattgtgtttttgcagagagAGCAGCCTGGCTGGCCCAGAAAGGTCCTATTTCAGTTGCCATTAATGCCTTCGGA---ATGgtgagtagatggttctaacctccctgtgcctcctcaacccatcagcaatg #### Ctsf_ID684_12 --> 0 - 1 Original Alignment TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc atgatcccacttctgaagctggccttttttcctgctcttattgtccccag---TACCATCATGGAATTGCTCACCCATTCCAGCCACTCTGCAGCCCTTGGCTAATTGACCATGCAGTGGTGCTTGTAGGCCATGGCAACcgtcagctctgttgtctgcctcaggctacagtcggcagctcgacagcaacc Alignment from CESAR TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc gcaatgatcccacttctgaagctggtttttcctgctcttattgtccccag---TACCATCATGGAATTGCTCACCCATTCCAGCCACTCTGCAGCCCTTGGCTAATTGACCATGCAGTGGTGCTTGTAGGCCATGGCAACcgtcagctctgttgtctgcctcaggctacagtcggcagctcgacagcaacc Alignment from Spaln_aa2Genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC atgatcccacttctgaagctggccttttttcctgctcttattgtccccag---TACCATCATGGAATTGCTCACCCATTCCAGCCACTCTGCAGCCCTTGGCTAATTGACCATGCAGTGGTGCTTGTAGGCCATGGCAACCgtcagctctgttgtctgcctcaggctacagtcggcagctcgacagcaacc Alignment from Spaln_nt2Genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC atgatcccacttctgaagctggccttttttcctgctcttattgtccccagTACCAT---CATGGAATTGCTCACCCATTCCAGCCACTCTGCAGCCCTTGGCTAATTGACCATGCAGTGGTGCTTGTAGGCCATGGCAACCgtcagctctgttgtctgcctcaggctacagtcggcagctcgacagcaacc Alignment from Pairagon TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC atgatcccacttctgaagctggccttttttcctgctcttattgtccccag---TACCATCATGGAATTGCTCACCCATTCCAGCCACTCTGCAGCCCTTGGCTAATTGACCATGCAGTGGTGCTTGTAGGCCATGGCAACCgtcagctctgttgtctgcctcaggctacagtcggcagctcgacagcaacc Alignment from Exonerate_protein2genome TATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC atgatcccacttctgaagctggccttttttcctgctcttattgtccccagTACCATCATGGAATTGCTCACCCATTCCAGCCACTCTGCAGCCCTTGGCTAATTGACCATGCAGTGGTGCTTGTAGGCCATGGCAACCgtcagctctgttgtctgcctcaggctacagtcggcagctcgacagcaacc Alignment from Exonerate_coding2genome TATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC atgatcccacttctgaagctggccttttttcctgctcttattgtccccagTACCATCATGGAATTGCTCACCCATTCCAGCCACTCTGCAGCCCTTGGCTAATTGACCATGCAGTGGTGCTTGTAGGCCATGGCAACCgtcagctctgttgtctgcctcaggctacagtcggcagctcgacagcaacc Alignment from GeneWise TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC atgatcccacttctgaagctggccttttttcctgctcttattgtccccagTACCAT---CATGGAATTGCTCACCCATTCCAGCCACTCTGCAGCCCTTGGCTAATTGACCATGCAGTGGTGCTTGTAGGCCATGGCAACCgtcagctctgttgtctgcctcaggctacagtcggcagctcgacagcaacc #### Ctsf_ID685_13 --> 2 - 0 Original Alignment gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG------------------------------ GGTT acaacaagagactgaggatttttggctcttgatgggttcaatgtttctaggtTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGTGTGACATGAAGATGGATCACCACTGCCCCgtaagtttttttggcctgtccatcctctgcttacctggccccacagGGTT Alignment from CESAR gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG GGTT acaacaagagactgaggatttttggctcttgatgggttcaatgtttctaggtTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGG-AgtgtgacatgaagatggatcaccactgccccgtaagtttttttggcctgtccatcttacttgagtttttgattgcagGGTT Alignment from Spaln_aa2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG------ GGTT acaacaagagactgaggatttttggctcttgatgggttcaatgtttctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGTGTGACatgaagatggatcaccactgccccgtaagtttttttggcctgtccatcctctgcttacctggccccacagGGTT Alignment from Spaln_nt2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG- GGTT acaacaagagactgaggatttttggctcttgatgggttcaatgtttctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGTgtgacatgaagatggatcaccactgccccgtaagtttttttggcctgtccatcctctgcttacctggccccacagGGTT Alignment from Pairagon GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG------------------------------ GGTT acaacaagagactgaggatttttggctcttgatgggttcaatgtttctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGTGTGACATGAAGATGGATCACCACTGCCCCgtaagtttttttggcctgtccatcctctgcttacctggccccacagGGTT Alignment from Exonerate_protein2genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGG GTGAGGAGGGTT acaacaagagactgaggatttttggctcttgatgggttcaatgtttctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGgtgaggagtgtgacatgaagatggatcaccactgccccgtaagtttttttggcctgtccatcctctgcttacctggCCCCACAGGGTT Alignment from Exonerate_coding2genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGG GTGAGGAGGGTT acaacaagagactgaggatttttggctcttgatgggttcaatgtttctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGgtgaggagtgtgacatgaagatggatcaccactgccccgtaagtttttttggcctgtccatcctctgcttacctggCCCCACAGGGTT Alignment from GeneWise GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG------------------------------ GGTT acaacaagagactgaggatttttggctcttgatgggttcaatgtttctagGTTCTAACATTCCTTACTGGGCAATCAAGAATAGCTGGGGCAGTGACTGGGGTGAGGAGTGTGACATGAAGATGGATCACCACTGCCCCgtaagtttttttggcctgtccatcctctgcttacctggccccacagGGTT #### Ctsw_ID1019_7 --> 2 - 1 Original Alignment gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg tgcttagcatggtaggtttcttgctcatatgtctgaacctgtgtccacaggt---CTGGCCAGTGAAAAGGAATATCCATTCCAGGGGGAAAGAAAGCCTCACAGATGCTTGGCTAAGAAGTATAAGGAAGTGGCATGGATCCAG------GCCACATTGTCCAATAATGAACAGggtgagcccagggtaagatgggtgagttcatatgacctggctggcaatgga Alignment from CESAR gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg gagtgcttagcatggtaggtttcttcatatgtctgaacctgtgtccacaggt---CTGGCCAGTGAAAAGGAATATCCATTCCAGGGGGAAAGAAAGCCTCACAGATGCTTGGCTAAGAAGTATAAGGAAGTGGCATGGATCCAG------GCCACATTGTCCAATAATGAACAGggtgagcccagggtaagatgggtgagttcatatgacctggctggcaatgga Alignment from Spaln_aa2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgcttagcatggtaggtttcttgctcatatgtctgaacctgtgtccacagGTCTGGCCAGTGAA---AAGGAATATCCATTCCAGGGGGAAAGAAAGCCTCACAGATGCTTGGCTAAGAAGTATAAGGAAGTGGCATGGATCCAG------GCCACATTGTCCAATAATGAACAGGgtgagcccagggtaagatgggtgagttcatatgacctggctggcaatgga Alignment from Spaln_nt2Genome GCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgcttagcatggtaggtttcttgctcatatgtctgaacctgtgtccacagGTCTGGCCAGTGAAAAGGAATATCCATTCCAGGGGGAAAGAAAGCCTCACAGATGCTTGGCTAAGAAGTATAAGGAAGTGGCATGGATCCAGG------CCACATTGTCCAATAATGAACAGGgtgagcccagggtaagatgggtgagttcatatgacctggctggcaatgga Alignment from Pairagon -------------------------------------------------GGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG TGCTTAGCATGGTAGGTTTCTTGCTCATATGTCTGAACCTGTGTCCACAGGTCTGGCCAGTGAAAAGGAATATCCATTCCAGGGGGAAAGAAAGCCTCACAGATGCTTGGCTAAGAAGTATAAGGAAGTGGCATGGATCCAGG------CCACATTGTCCAATAATGAACAGGgtgagcccagggtaagatgggtgagttcatatgacctggctggcaatgga Alignment from Exonerate_protein2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgcttagcatggtaggtttcttgctcatatgtctgaacctgtgtccacagGT---CTGGCCAGTGAAAAGGAATATCCATTCCAGGGGGAAAGAAAGCCTCACAGATGCTTGGCTAAGAAGTATAAGGAAGTGGCATGGATCCAG------GCCACATTGTCCAATAATGAACAGGgtgagcccagggtaagatgggtgagttcatatgacctggctggcaatgga Alignment from Exonerate_coding2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgcttagcatggtaggtttcttgctcatatgtctgaacctgtgtccacagGT---CTGGCCAGTGAAAAGGAATATCCATTCCAGGGGGAAAGAAAGCCTCACAGATGCTTGGCTAAGAAGTATAAGGAAGTGGCATGGATCCAG------GCCACATTGTCCAATAATGAACAGGgtgagcccagggtaagatgggtgagttcatatgacctggctggcaatgga Alignment from GeneWise GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgcttagcatggtaggtttcttgctcatatgtctgaacctgtgtccacagGT---CTGGCCAGTGAAAAGGAATATCCATTCCAGGGGGAAAGAAAGCCTCACAGATGCTTGGCTAAGAAGTATAAGGAAGTGGCATGGATCCAG------GCCACATTGTCCAATAATGAACAGGgtgagcccagggtaagatgggtgagttcatatgacctggctggcaatgga #### Cwf19l1_ID8941_3 --> 0 - 1 Original Alignment CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAA------------------------g tcaatagaacgctaaaaaactcaatttaatgtttgttttctccctggaagTTGCTGTTATGTGTAGGAAACTTCTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAATATAAGACCGGCAACAAGAAAGTGAAACACAACCTGAAATCTGATggtgtgtgggcattggtcaagtatgatgtatgtcatagcctaatgcagaga Alignment from CESAR CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAg tcaatagaacgctaaaaaactcaatttaatgtttgttttctccctggaagTTGCTGTTATGTGTAGGAAACTTCTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAATATAAGACCGGCAACAAGA-Aagtgaaacacaacctgaaatctgatggtgtgtgggcattggtcaagtatgatgtatgtcatagcctaatgcagaga Alignment from Spaln_aa2Genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAA------------------------G tcaatagaacgctaaaaaactcaatttaatgtttgttttctccctggaagTTGCTGTTATGTGTAGGAAACTTCTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAATATAAGACCGGCAACAAGAAAGTGAAACACAACCTGAAATCTGATGgtgtgtgggcattggtcaagtatgatgtatgtcatagcctaatgcagaga Alignment from Spaln_nt2Genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAA tcaatagaacgctaaaaaactcaatttaatgtttgttttctccctggaagTTGCTGTTATGTGTAGGAAACTTCTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAATATAAGACCGGCAACAAGAAAgtgaaacacaacctgaaatctgatggtgtgtgggcattggtcaagtatgatgtatgtcatagcctaatgcagaga Alignment from Pairagon CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAG------------------------ tcaatagaacgctaaaaaactcaatttaatgtttgttttctccctggaagTTGCTGTTATGTGTAGGAAACTTCTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAATATAAGACCGGCAACAAGAAAGTGAAACACAACCTGAAATCTGATGgtgtgtgggcattggtcaagtatgatgtatgtcatagcctaatgcagaga Alignment from Exonerate_protein2genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAG tcaatagaacgctaaaaaactcaatttaatgtttgttttctccctggaagTTGCTGTTATGTGTAGGAAACTTCTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAATATAAGACCGGCAACAAGAAAGtgaaacacaacctgaaatctgatggtgtgtgggcattggtcaagtatgatgtatgtcatagcctaatgcagaga Alignment from Exonerate_coding2genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAG tcaatagaacgctaaaaaactcaatttaatgtttgttttctccctggaagTTGCTGTTATGTGTAGGAAACTTCTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAATATAAGACCGGCAACAAGAAAGtgaaacacaacctgaaatctgatggtgtgtgggcattggtcaagtatgatgtatgtcatagcctaatgcagaga Alignment from GeneWise CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAA------------------------G tcaatagaacgctaaaaaactcaatttaatgtttgttttctccctggaagTTGCTGTTATGTGTAGGAAACTTCTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAATATAAGACCGGCAACAAGAAAGTGAAACACAACCTGAAATCTGATGgtgtgtgggcattggtcaagtatgatgtatgtcatagcctaatgcagaga #### Cyp17a1_ID9995_5 --> 0 - 0 Original Alignment ------------------------------GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG taggtgagcatagatgtaacaatcatagctgttctcctctttcctgacagAATATGTTTCAAGAACTCAAACACAACTGTGAGAAGTTCAATAGTGAGTCTCTTTCCAGCCTGACAGACATTCTTATACAAGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGGCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCATAGAGACCACTAGTTCTGTGCTGAACTGGATACTGACATTCTTAGTTCATAATCCTCAGgtttgcatgtgtctcgatcaccatggaggcaatgcctgtaaccatagcca Alignment from CESAR ------------------------------GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG taggtgagcatagatgtaacaatcatagctgttctcctctttcctgacagAATATGTTTCAAGAACTCAAACACAACTGTGAGAAGTTCAATAGTGAGTCTCTTTCCAGCCTGACAGACATTCTTATACAAGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGGCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCATAGAGACCACTAGTTCTGTGCTGAACTGGATACTGACATTCTTAGTTCATAATCCTCAGgtttgcatgtgtctcgatcaccatggaggcaatgcctgtaaccatagcca Alignment from Spaln_aa2Genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG taggtgagcatagatgtaacaatcatagctgttctcctctttcctgacagaatatgtttcaagaactcaaacacaactgtgagAAGTTC---AATAGTGAGTCTCTTTCCAGCCTGACAGACATTCTTATACAAGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGGCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCATAGAGACCACTAGTTCTGTGCTGAACTGGATACTGACATTCTTAGTTCATAATCCTCAGgtttgcatgtgtctcgatcaccatggaggcaatgcctgtaaccatagcca Alignment from Spaln_nt2Genome AATTCAAT-AGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG taggtgagcatagatgtaacaatcatagctgttctcctctttcctgacagaatatgtttcaagaactcaaacacaactgtgagAAGTTCAATAGTGAGTCTCTTTCCAGCCTGACAGACATTCTTATACAAGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGGCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTT------GGGCATAGAGACCACTAGTTCTGTGCTGAACTGGATACTGACATTCTTAGTTCATAATCCTCAGgtttgcatgtgtctcgatcaccatggaggcaatgcctgtaaccatagcca Alignment from Pairagon -----------------GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG taggtgagcatagatgtaacaatcatagctgttctcctctttcctgacagaatatgtttcaagAACTCAAACACAACTGTGAGAAGTTCAATAGTGAGTCTCTTTCCAGCCTGACAGACATTCTTATACAAGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGGCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTT------GGGCATAGAGACCACTAGTTCTGTGCTGAACTGGATACTGACATTCTTAGTTCATAATCCTCAGgtttgcatgtgtctcgatcaccatggaggcaatgcctgtaaccatagcca Alignment from Exonerate_protein2genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG taggtgagcatagatgtaacaatcatagctgttctcctctttcctgacagaatatgtttcaagaactcaaacacaactgtGAGAAGTTCAATAGTGAGTCTCTTTCCAGCCTGACAGACATTCTTATACAAGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGGCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCATAGAGACCACTAGTTCTGTGCTGAACTGGATACTGACATTCTTAGTTCATAATCCTCAGgtttgcatgtgtctcgatcaccatggaggcaatgcctgtaaccatagcca Alignment from Exonerate_coding2genome GAGAAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG taggtgagcatagatgtaacaatcatagctgttctcctctttcctgacagaatatgtttcaagaactcaaacacaactgtGAGAAGTTCAATAGTGAGTCTCTTTCCAGCCTGACAGACATTCTTATACAAGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGGCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTG------GGCATAGAGACCACTAGTTCTGTGCTGAACTGGATACTGACATTCTTAGTTCATAATCCTCAGgtttgcatgtgtctcgatcaccatggaggcaatgcctgtaaccatagcca Alignment from GeneWise AAATTCAATAGTGAATCTCTCTCCAGCCTGACAGACATTCTGATACAAGCCAAGATGAATGCAGAAAATAATAACACTGGGGAAGGCCAGGACCCAAGTGTGTTCTCAGATAAGCATATCCTTGTCACGGTGGGAGACATCTTTGGGGCAGGCATAGAGACAACTAGCTCTGTGCTGAACTGGATCCTGGCTTTCCTGGTGCACAATCCTGAG taggtgagcatagatgtaacaatcatagctgttctcctctttcctgacagaatatgtttcaagaactcaaacacaactgtgagAAGTTCAATAGTGAGTCTCTTTCCAGCCTGACAGACATTCTTATACAAGCCAAAATGAATGCAGAAAATAATAACACAGGAGAAGGGCAAGACCCAAGTGTGTTCTCTGATAAGCATGTCCTTGTCAGGGTTGGAGACATCTTGGGC------ATAGAGACCACTAGTTCTGTGCTGAACTGGATACTGACATTCTTAGTTCATAATCCTCAGgtttgcatgtgtctcgatcaccatggaggcaatgcctgtaaccatagcca #### Cyp26a1_ID7416_4 --> 0 - 0 Original Alignment CTTTAGCGGCCTGTACCGG ------------GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTTTGTACCGTgtaaggtgtcctcttcctcccctccccgcagCCACTGGAAACCGGTGTT---ACACGCAACATAATACAGGCATGCATTGAGGAGAATATTCATGCAAATATCCGCCAGCTCCAGGCCACAGAACCGGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCGAGCACTCGTGGGAA---GGTGAAGAATTGGACATACAGgtgagcaacaatctcaaaaggtaccaaagggcagctgagtgtattccaga Alignment from CESAR CTTTAGCGGCCTGTACCGG ------------GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTTTGTACCGTgtactttgtcctcttcctcccctccccgcagCCACTGGAAACCGGTGTT---ACACGCAACATAATACAGGCATGCATTGAGGAGAATATTCATGCAAATATCCGCCAGCTCCAGGCCACAGAACCGGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCGAGCACTCGTGGGAA---GGTGAAGAATTGGACATACAGgtgagcaacaatctcaaaaggtaccaaagggcagctgagtgtattccaga Alignment from Spaln_aa2Genome CTTTAGCGGCCTGTACCGG GGCGTGAAG---------GCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTTTGTACCGTgtaaggtgtcctcttcctcccctccccgcagCCACTGGAAACCGGTGTTACACGCAACATAATACAGGCATGCATTGAGGAGAATATTCATGCAAATATCCGCCAGCTCCAGGCCACAGAACCGGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCGAGCACTCGTGGGAA---GGTGAAGAATTGGACATACAGgtgagcaacaatctcaaaaggtaccaaagggcagctgagtgtattccaga Alignment from Spaln_nt2Genome CTTTAGCG GC-CTGTACCGGGGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGgtttgtaccgtgtaaggtgtcctcttcctcccctccccgcagCCACTGGAAACCGGTGTTA---CACGCAACATAATACAGGCATGCATTGAGGAGAATATTCATGCAAATATCCGCCAGCTCCAGGCCACAGAACCGGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCGAGCACTCGTGGGA-AGGTGA-AGA-ATTGGACATACAGgtgagcaacaatctcaaaaggtaccaaagggcagctgagtgtattccaga Alignment from Pairagon AGCGGCCTGTACCGGGGCGTGAAGGCG--------------------------------------------CGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG AGCGGTTTGTACCGTG----TAAGGTGTCCTCTTCCTCCCCTCCCCGCAGCCACTGGAAACCGGTGTTACACGCAACATAATACAGGCATGCATTGAGGAGAATATTCATGCAAATATCCGCCAGCTCCAGGCCACAGAACCGGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCGAGCACTCGTGGGA-----------------------AGgtgaagaattggacatacaggtgagcaacaatctcaaaaggtaccaaagggcagctgagtgtattccaga Alignment from Exonerate_protein2genome CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTTTGTACCGTgtaaggtgtcctcttcctcccctccccgcagccactggaaACCGGTGTTACACGCAACATAATACAGGCATGCATTGAGGAGAATATTCATGCAAATATCCGCCAGCTCCAGGCCACAGAACCGGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCGAGCACTCGTGGGAA---GGTGAAGAATTGGACATACAGgtgagcaacaatctcaaaaggtaccaaagggcagctgagtgtattccaga Alignment from Exonerate_coding2genome CTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTTTGTACCGTgtaaggtgtcctcttcctcccctccccgcagccactggaaACCGGTGTTACACGCAACATAATACAGGCATGCATTGAGGAGAATATTCATGCAAATATCCGCCAGCTCCAGGCCACAGAACCGGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCGAGCACTCGTGGGAA---GGTGAAGAATTGGACATACAGgtgagcaacaatctcaaaaggtaccaaagggcagctgagtgtattccaga Alignment from GeneWise CTTTAGCGGCCTGTACCGG ------------GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG ATTCAGCGGTTTGTACCGTgtaaggtgtcctcttcctcccctccccgcagCCACTGGAAACCGGTGTT---ACACGCAACATAATACAGGCATGCATTGAGGAGAATATTCATGCAAATATCCGCCAGCTCCAGGCCACAGAACCGGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATCGAGCACTCGTGGGAA---GGTGAAGAATTGGACATACAGgtgagcaacaatctcaaaaggtaccaaagggcagctgagtgtattccaga #### Cyp2c50_ID7861_2 --> 0 - 1 Original Alignment TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg ttgaaatgcagtcaaatctttctagtctttgtttcatttcttcaatgaagCTATCCAAAGTCTATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTGTTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTTGCTGGAAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGA---ggtagtaagcatagctgtggaataacagtgagagaatgtgtgagcccattc Alignment from CESAR TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg ttgaaatgcagtcaaatctttctagtctttgtttcatttcttcaatgaagCTATCCAAAGTCTATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTGTTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTTGCTGGAAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAGGTagtaagcatagctgtggaataacagtgagagaatgtgtgagcccattc Alignment from Spaln_aa2Genome TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ttgaaatgcagtcaaatctttctagtctttgtttcatttcttcaatgaagCTATCCAAAGTCTATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTGTTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTTGCTGGAAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAGGTAgtaagcatagctgtggaataacagtgagagaatgtgtgagcccattc Alignment from Spaln_nt2Genome TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ttgaaatgcagtcaaatctttctagtctttgtttcatttcttcaatgaagCTATCCAAAGTCTATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTGTTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTTGCTGGAAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAGGTAgtaagcatagctgtggaataacagtgagagaatgtgtgagcccattc Alignment from Pairagon TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAA-------------------------------------------------- ttgaaatgcagtcaaatctttctagtctttgtttcatttcttcaatgaagCTATCCAAAGTCTATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTGTTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTTGCTGGAAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAGGTAGTAAGCATAGCTGTGGAATAACAGTGAGAGAATGTGTGAGCCCATTC Alignment from Exonerate_protein2genome TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ttgaaatgcagtcaaatctttctagtctttgtttcatttcttcaatgaagCTATCCAAAGTCTATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTGTTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTTGCTGGAAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAGGTAgtaagcatagctgtggaataacagtgagagaatgtgtgagcccattc Alignment from Exonerate_coding2genome TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG ttgaaatgcagtcaaatctttctagtctttgtttcatttcttcaatgaagCTATCCAAAGTCTATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTGTTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTTGCTGGAAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAGGTAgtaagcatagctgtggaataacagtgagagaatgtgtgagcccattc Alignment from GeneWise TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGA--------------------------------------------------- ttgaaatgcagtcaaatctttctagtctttgtttcatttcttcaatgaagCTATCCAAAGTCTATGGTCCTGTGTATACTCTATATTTAGGCAAGAAGCCTACTGTAGTGTTACAGGGATATGAGGCAGTGAAGGAATCTTTAGTTGACCATGGGGAAGAATTTGCTGGAAGAGAAAGACTACCAGTTTTTGATAAAGCTACCAATGGAGGTAGTAAGCATAGCTGTGGAATAACAGTGAGAGAATGTGTGAGCCCATTC #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT------g gagagaatgtgtgagcccattccagctaaatcttctgctatgttttataggaATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCTTGTTGAGGAACTTAGGAAAACCAATTGGCTGggtaggccaggtgcagacccagaacttagtgtgatcttaatcaggtttttc Alignment from CESAR gcATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT------g gagagaatgtgtgagcccattccagctaaatcttctgctatgttttataggaATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCTTGTTGAGGAACTTAGGAAAACCAATTGGCTGggtaggccaggtgcagacccagaacttagtgtgatcttaatcaggtttttc Alignment from Spaln_aa2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT------G gagagaatgtgtgagcccattccagctaaatcttctgctatgttttatagGAATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCTTGTTGAGGAACTTAGGAAAACCAATTGGCTGGgtaggccaggtgcagacccagaacttagtgtgatcttaatcaggtttttc Alignment from Spaln_nt2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT------G gagagaatgtgtgagcccattccagctaaatcttctgctatgttttatagGAATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCTTGTTGAGGAACTTAGGAAAACCAATTGGCTGGgtaggccaggtgcagacccagaacttagtgtgatcttaatcaggtttttc Alignment from Pairagon GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT------G gagagaatgtgtgagcccattccagctaaatcttctgctatgttttatagGAATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCTTGTTGAGGAACTTAGGAAAACCAATTGGCTGGgtaggccaggtgcagacccagaacttagtgtgatcttaatcaggtttttc Alignment from Exonerate_protein2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gagagaatgtgtgagcccattccagctaaatcttctgctatgttttatagGAATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCTTGTTGAGGAACTTAGGAAAACCAATTggctgggtaggccaggtgcagacccagaacttagtgtgatcttaatcaggtttttc Alignment from Exonerate_coding2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG gagagaatgtgtgagcccattccagctaaatcttctgctatgttttatagGAATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCTTGTTGAGGAACTTAGGAAAACCAATTggctgggtaggccaggtgcagacccagaacttagtgtgatcttaatcaggtttttc Alignment from GeneWise -------------------------------------------------GGCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT------G GAGAGAATGTGTGAGCCCATTCCAGCTAAATCTTCTGCTATGTTTTATAGGAATTATATTCAGTAAGGGAAATGTGTGGAAAAATATAAGGCACTTCTCACTTACAACTCTGCGAAATTTAGGCATGGGAAAAAGAAGCATTGAGGACCGCCTTCAAGAGGAAGCCCGTTGGCTTGTTGAGGAACTTAGGAAAACCAATTGGCTGGgtaggccaggtgcagacccagaacttagtgtgatcttaatcaggtttttc #### Cyp2c54_ID7855_3 --> 2 - 1 Original Alignment gc---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgttactccaaggttaattctgtactccacatttcggctgccccaggcTTATCAAAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTTATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATggtgagtcaaaggtataaaaggaaggcgaccaactaggtcttgcaaatcct Alignment from CESAR gc---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctgctgttactccaaggttaattctgtactccacatttcggctgccccaggcTTATCAAAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTTATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATggtgagtcaaaggtataaaaggaaggcgaccaactaggtcttgcaaatcct Alignment from Spaln_aa2Genome GCATTGGATTT---------AGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttactccaaggttaattctgtactccacatttcggctgccccagGCTTATCAAAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTTATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtgagtcaaaggtataaaaggaaggcgaccaactaggtcttgcaaatcct Alignment from Spaln_nt2Genome GCATTGGATTT---------AGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttactccaaggttaattctgtactccacatttcggctgccccagGCTTATCAAAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTTATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtgagtcaaaggtataaaaggaaggcgaccaactaggtcttgcaaatcct Alignment from Pairagon GC---------ATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttactccaaggttaattctgtactccacatttcggctgccccagGCTTATCAAAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTTATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtgagtcaaaggtataaaaggaaggcgaccaactaggtcttgcaaatcct Alignment from Exonerate_protein2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttactccaaggttaattctgtactccacatttcggctgccccaggcttatcaaAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTTATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtgagtcaaaggtataaaaggaaggcgaccaactaggtcttgcaaatcct Alignment from Exonerate_coding2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttactccaaggttaattctgtactccacatttcggctgccccaggcttatcaaAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTTATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtgagtcaaaggtataaaaggaaggcgaccaactaggtcttgcaaatcct Alignment from GeneWise --------GGCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctgctgttactccaaggttaattctgtactccacatttcggctgccccagGCTTATCAAAAATTGGATTTAGCAATGGAACTGTATGGAAGAACACAAGGCACTTCTCACTTATGACATTGCGGAATTTAGGTATGGGAAAAAGGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAAGAACTGAGAAAGACTAATGgtgagtcaaaggtataaaaggaaggcgaccaactaggtcttgcaaatcct #### Cyp2c54_ID7856_2 --> 0 - 1 Original Alignment TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgacaaccaggggtggctacttcacattctttgacttctctctgaaacagTTATCAAGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTATTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCTGGAAGGGGAAGCCTCCCAGTTTTTGATAAAGCTACT---------ggtgagctttgtaccccctgtgttgcatagtatgtattgtggcagtacagt Alignment from CESAR TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgacaaccaggggtggctacttcacattctttgacttctctctgaaacagTTATCAAGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTATTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCTGGAAGGGGAAGCCTCCCAGTTTTTGATAAAGCTACTGGTGAGCTTtgtaccccctgtgttgcatagtatgtattgtggcagtacagt Alignment from Spaln_aa2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgacaaccaggggtggctacttcacattctttgacttctctctgaaacagTTATCAAGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTATTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCTGGAAGGGGAAGCCTCCCAGTTTTTGATAAAGCTACTGGTGAGCTTTgtaccccctgtgttgcatagtatgtattgtggcagtacagt Alignment from Spaln_nt2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGA---AGGAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgacaaccaggggtggctacttcacattctttgacttctctctgaaacagTTATCAAGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTATTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCTGGAAGGGGAAGCCTCCCAGTTTTTGATAAAGCTACTGGTGAGCTTTgtaccccctgtgttgcatagtatgtattgtggcagtacagt Alignment from Pairagon TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGA---AGGAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgacaaccaggggtggctacttcacattctttgacttctctctgaaacagTTATCAAGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTATTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCTGGAAGGGGAAGCCTCCCAGTTTTTGATAAAGCTACT---------Ggtgagctttgtaccccctgtgttgcatagtatgtattgtggcagtacagt Alignment from Exonerate_protein2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgacaaccaggggtggctacttcacattctttgacttctctctgaaacagTTATCAAGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTATTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCTGGAAGGGGAAGCCTCCCAGTTTTTGATAAAGCTACTGGTGAGCTTTgtaccccctgtgttgcatagtatgtattgtggcagtacagt Alignment from Exonerate_coding2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgacaaccaggggtggctacttcacattctttgacttctctctgaaacagTTATCAAGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTATTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCTGGAAGGGGAAGCCTCCCAGTTTTTGATAAAGCTACTGGTGAGCTTTgtaccccctgtgttgcatagtatgtattgtggcagtacagt Alignment from GeneWise TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG---GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgacaaccaggggtggctacttcacattctttgacttctctctgaaacagTTATCAAGAGTTTATGGTCCAGTGTATACTTCATATCTGGGGAGGAAGCCAACTGTTGTATTACATGGATATGAGGCAGTGAAGGAGGAAGCTCTTGCTGACCAAGGGGATGTTTTTGCTGGAAGGGGAAGCCTCCCAGTTTTTGATAAAGCTACTGGTGAGCTTTgtaccccctgtgttgcatagtatgtattgtggcagtacagt #### D19Bwg1357e_ID5846_6 --> 2 - 2 Original Alignment gc------------------------------GACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATgg agcactgtagtaaggagcatagtatgcttgaaactttattttattttaaggtGACTTTGGGGTTCCTGGCGTCCTGACGGCAGACTTAGTGGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATTATGTATgggtatgtgcaagagcgatagtgtattgagatgtcccttaaaatgataagtg Alignment from CESAR gctactctggcagcctggcaaatagaaggaagagtgttaggggactcatga Alignment from Spaln_aa2Genome TTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG agcactgtagtaaggagcatagtatgcttgaaactttattttattttaaggtgactttggggttcctggcgtcctgacggcagacttagTGGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATTATGTATGGgtatgtgcaagagcgatagtgtattgagatgtcccttaaaatgataagtg Alignment from Spaln_nt2Genome ACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG agcactgtagtaaggagcatagtatgcttgaaactttattttattttaaggtgactttggggttcctggcgtcctgacggcagACTTAGTGGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATTATGTATGGgtatgtgcaagagcgatagtgtattgagatgtcccttaaaatgataagtg Alignment from Pairagon GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG agcactgtagtaaggagcatagtatgcttgaaactttattttattttaaggtgactttggggttcctggcgtcctgacggcag---ACTTAGTGGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATTATGTATGGgtatgtgcaagagcgatagtgtattgagatgtcccttaaaatgataagtg Alignment from Exonerate_protein2genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG agcactgtagtaaggagcatagtatgcttgaaactttattttattttaaggtgactttggggttcctggcgtcctgacggCAGACTTAGTGGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATTATGTATGGgtatgtgcaagagcgatagtgtattgagatgtcccttaaaatgataagtg Alignment from Exonerate_coding2genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG agcactgtagtaaggagcatagtatgcttgaaactttattttattttaaggtgactttggggttcctggcgtcctgacggCAGACTTAGTGGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATTATGTATGGgtatgtgcaagagcgatagtgtattgagatgtcccttaaaatgataagtg Alignment from GeneWise TTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGG agcactgtagtaaggagcatagtatgcttgaaactttattttattttaaggtgactttggggttcctggcgtcctgacggcagacttagTGGAGTTAAGTAGAGCAAAACATTCCCAGAATATTGTTAAGAAATTTATTATGTATGGgtatgtgcaagagcgatagtgtattgagatgtcccttaaaatgataagtg #### Dagla_ID2758_12 --> 0 - 0 Original Alignment GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG cactcttcccctgctggggaggggctaccaatgttgcccttcccttacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGG---------gtaagctgcgaacgtaattaactatattccatactgaagaggttggctgg Alignment from CESAR GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG cactcttcccctgctggggaggggctaccaatgttgcccttcccttacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGG---------gtaagctgcgaacgtaattaactatattccatactgaagag Alignment from Spaln_aa2Genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGG cactcttcccctgctggggaggggctaccaatgttgcccttcccttacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGgtaagctgcgaacgtaattaactatattccatactgaagaggttggctgg Alignment from Spaln_nt2Genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGG cactcttcccctgctggggaggggctaccaatgttgcccttcccttacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGgtaagctgcgaacgtaattaactatattccatactgaagaggttggctgg Alignment from Pairagon GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGG cactcttcccctgctggggaggggctaccaatgttgcccttcccttacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGgtaagctgcgaacgtaattaactatattccatactgaagaggttggctgg Alignment from Exonerate_protein2genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG cactcttcccctgctggggaggggctaccaatgttgcccttcccttacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGGTAAGCTGCgaacgtaattaactatattccatactgaagaggttggctgg Alignment from Exonerate_coding2genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG cactcttcccctgctggggaggggctaccaatgttgcccttcccttacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGGTAAGCTGCgaacgtaattaactatattccatactgaagaggttggctgg Alignment from GeneWise GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTGGGC cactcttcccctgctggggaggggctaccaatgttgcccttcccttacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTT------------GGGgtaagctgcgaacgtaattaactatattccatactgaagaggttggctgg #### Dak_ID2898_15 --> 1 - 0 Original Alignment gTATGGAAAGGCTGCACCAGGAGACAGGACAATG tgtgtaaacatctcgagaagttttttttttgcctgattgctttattctagg---------GCTGCACCAGGAGACAGGACAATGgtgaggtccccttccccctttgggccttcctaagtgctggggtctggtgt Alignment from CESAR gTATGGAAAGGCTGCACCAGGAGACAGGACAATG cttggcacctgtgtaaacatctcgatttttgcctgattgctttattctagg---------GCTGCACCAGGAGACAGGACAATGgtgaggtccccttccccctttgggccttcctaagtgctggggtctgggac Alignment from Spaln_aa2Genome GTATGGAAAGGCTGCACCAGGAGACAGGACAATG tgtgtaaacatctcgagaagttttttttttgcctgattgctttattctagG---------GCTGCACCAGGAGACAGGACAATGgtgaggtccccttccccctttgggccttcctaagtgctggggtctggtgt Alignment from Spaln_nt2Genome GGCTGCACCAGGAGACAGGACAATG tgtgtaaacatctcgagaagttttttttttgcctgattgctttattctagGGCTGCACCAGGAGACAGGACAATGgtgaggtccccttccccctttgggccttcctaagtgctggggtctggtgt Alignment from Pairagon GTATGGAAAGGCTGCACCAGGAGACAGGACAATG tgtgtaaacatctcgagaagttttttttttgcctgattgctttattctag---------GGCTGCACCAGGAGACAGGACAATGgtgaggtccccttccccctttgggccttcctaagtgctggggtctggtgt Alignment from Exonerate_protein2genome TATGGAAAGGCTGCACCAGGAGACAGGACAATG tgtgtaaacatctcgagaagttttttttttgcctgattgcttTATTCTAGGGCTGCACCAGGAGACAGGACAATGgtgaggtccccttccccctttgggccttcctaagtgctggggtctggtgt Alignment from Exonerate_coding2genome TATGGAAAGGCTGCACCAGGAGACAGGACAATG tgtgtaaacatctcgagaagttttttttttgcctgattgcttTATTCTAGGGCTGCACCAGGAGACAGGACAATGgtgaggtccccttccccctttgggccttcctaagtgctggggtctggtgt Alignment from GeneWise GTATGGAAAGGCTGCACCAGGAGACAGGACAATG tgtgtaaacatctcgagaagttttttttttgcctgattgctttattctagG---------GCTGCACCAGGAGACAGGACAATGgtgaggtccccttccccctttgggccttcctaagtgctggggtctggtgt #### Dak_ID2899_14 --> 0 - 2 Original Alignment CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------aa tatcaggtggctagctccaatcagctcagcagccttttctcttctttcagCTATATGGTTTGTTCCTTACTGCTTCTGCCCAGCCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGTTCATCaagtaatgcagctgtccttacctgctaacagcaaaaggtgaggccctgccag Alignment from CESAR CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------aa tatcaggtggctagctccaatcagctcagcagccttttctcttctttcagCTATATGGTTTGTTCCTTACTGCTTCTGCCCAGCCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGTTCATCaagtaatgcagctgtccttacctgctaacagcaaaaggtgaggccctgccag Alignment from Spaln_aa2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAAG----- tatcaggtggctagctccaatcagctcagcagccttttctcttctttcagCTATATGGTTTGTTCCTTACTGCTTCTGCCCAGCCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGTTCATCAAgtaatgcagctgtccttacctgctaacagcaaaaggtgaggccctgccag Alignment from Spaln_nt2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA tatcaggtggctagctccaatcagctcagcagccttttctcttctttcagCTATATGGTTTGTTCCTTACTGCTTCTGCCCAGCCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGTTCATCAAgtaatgcagctgtccttacctgctaacagcaaaaggtgaggccctgccag Alignment from Pairagon CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA tatcaggtggctagctccaatcagctcagcagccttttctcttctttcagCTATATGGTTTGTTCCTTACTGCTTCTGCCCAGCCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGTTCATCAAgtaatgcagctgtccttacctgctaacagcaaaaggtgaggccctgccag Alignment from Exonerate_protein2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA tatcaggtggctagctccaatcagctcagcagccttttctcttctttcagCTATATGGTTTGTTCCTTACTGCTTCTGCCCAGCCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGTTCATCAAgtaatgcagctgtccttacctgctaacagcaaaaggtgaggccctgccag Alignment from Exonerate_coding2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA tatcaggtggctagctccaatcagctcagcagccttttctcttctttcagCTATATGGTTTGTTCCTTACTGCTTCTGCCCAGCCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGTTCATCAAgtaatgcagctgtccttacctgctaacagcaaaaggtgaggccctgccag Alignment from GeneWise CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAG------AA tatcaggtggctagctccaatcagctcagcagccttttctcttctttcagCTATATGGTTTGTTCCTTACTGCTTCTGCCCAGCCTCTCAAAGCTAAGACTGACCTGCCAACCTGGTCTGCTGCTATGGATGCTGGCCTAGAGTCCATGCAGTTCATCAAgtaatgcagctgtccttacctgctaacagcaaaaggtgaggccctgccag #### Dak_ID2900_13 --> 2 - 0 Original Alignment ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG aaagtggcttgtagctcagatcccatccagtgctgtttatttttcaacagcc---CAGGGGTGGTTGAAGGAGGGCCCATCTCTGACCAGCCCCACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtacataagaacagttcttaggactacggttgaaagccttatcaggtggc Alignment from CESAR ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG actaaagtggcttgtagctcagatctccagtgctgtttatttttcaacagcc---CAGGGGTGGTTGAAGGAGGGCCCATCTCTGACCAGCCCCACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtacataagaacagttcttaggactacggttgaaagccttatcaggtggc Alignment from Spaln_aa2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG aaagtggcttgtagctcagatcccatccagtgctgtttatttttcaacagCC---CAGGGGTGGTTGAAGGAGGGCCCATCTCTGACCAGCCCCACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtacataagaacagttcttaggactacggttgaaagccttatcaggtggc Alignment from Spaln_nt2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG aaagtggcttgtagctcagatcccatccagtgctgtttatttttcaacagCC---CAGGGGTGGTTGAAGGAGGGCCCATCTCTGACCAGCCCCACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtacataagaacagttcttaggactacggttgaaagccttatcaggtggc Alignment from Pairagon CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG aaagtggcttgtagctcagatcccatccagtgctgtttatttttcaacagCC---CAGGGGTGGTTGAAGGAGGGCCCATCTCTGACCAGCCCCACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtacataagaacagttcttaggactacggttgaaagccttatcaggtggc Alignment from Exonerate_protein2genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG aaagtggcttgtagctcagatcccatccagtgctgtttatttttcaaCAGCCCAGGGGTGGTTGAAGGAGGGCCCATCTCTGACCAGCCCCACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtacataagaacagttcttaggactacggttgaaagccttatcaggtggc Alignment from Exonerate_coding2genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG aaagtggcttgtagctcagatcccatccagtgctgtttatttttcaaCAGCCCAGGGGTGGTTGAAGGAGGGCCCATCTCTGACCAGCCCCACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtacataagaacagttcttaggactacggttgaaagccttatcaggtggc Alignment from GeneWise CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG aaagtggcttgtagctcagatcccatccagtgctgtttatttttcaacagCC---CAGGGGTGGTTGAAGGAGGGCCCATCTCTGACCAGCCCCACCCAGCTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtacataagaacagttcttaggactacggttgaaagccttatcaggtggc #### Dak_ID2907_6 --> 2 - 1 Original Alignment gtACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg accatccctttaaattaccaaccatcccgaggtttgtttgttttccataggtACCCTAGGTGTGACCTTGTCATCCTGCAGTGTGCCTGGCACCACACACACTTTCGAGCTTGCAGCTGATGAAATAGAGTTG------ggtaggattacgtccactgtcataatgcatcttactttgtgtctgatgtta Alignment from CESAR gtACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg accatccctttaaattaccaaccatcccgaggtttgtttgttttccataggtACCCTAGGTGTGACCTTGTCATCCTGCAGTGTGCCTGGCACCACACACACTTTCGAGCTTGCAGCTGATGAAATAGAG------TTGggtaggattacgtccactgtcataatgcatcttactttgtgtctgatgtta Alignment from Spaln_aa2Genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTA- accatccctttaaattaccaaccatcccgaggtttgtttgttttccatagGTACCCTAGGTGTGACCTTGTCATCCTGCAGTGTGCCTGGCACCACACACACTTTCGAGCTTGCAGCTGATGAAATAGAGTTGGgtaggattacgtccactgtcataatgcatcttactttgtgtctgatgtta Alignment from Spaln_nt2Genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAG accatccctttaaattaccaaccatcccgaggtttgtttgttttccatagGTACCCTAGGTGTGACCTTGTCATCCTGCAGTGTGCCTGGCACCACACACACTTTCGAGCTTGCAGCTGATGAAATAGAGTTGGgtaggattacgtccactgtcataatgcatcttactttgtgtctgatgtta Alignment from Pairagon GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG accatccctttaaattaccaaccatcccgaggtttgtttgttttccatagGTACCCTAGGTGTGACCTTGTCATCCTGCAGTGTGCCTGGCACCACACACACTTTCGAGCTTGCAGCTGATGAAATAGAG------TTGGgtaggattacgtccactgtcataatgcatcttactttgtgtctgatgtta Alignment from Exonerate_protein2genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG accatccctttaaattaccaaccatcccgaggtttgtttgttttccatagGTACCCTAGGTGTGACCTTGTCATCCTGCAGTGTGCCTGGCACCACACACACTTTCGAGCTTGCAGCTGATGAAATAGAGTTGGGTAGGAttacgtccactgtcataatgcatcttactttgtgtctgatgtta Alignment from Exonerate_coding2genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG accatccctttaaattaccaaccatcccgaggtttgtttgttttccatagGTACCCTAGGTGTGACCTTGTCATCCTGCAGTGTGCCTGGCACCACACACACTTTCGAGCTTGCAGCTGATGAAATAGAGTTGGGTAGGAttacgtccactgtcataatgcatcttactttgtgtctgatgtta Alignment from GeneWise GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGGGGAT accatccctttaaattaccaaccatcccgaggtttgtttgttttccatagGTACCCTAGGTGTGACCTTGTCATCCTGCAGTGTGCCTGGCACCACACACACTTTCGAGCTTGCAGCTGATGAAATAGAGTTGGGTAGGATTACgtccactgtcataatgcatcttactttgtgtctgatgtta #### Ddb1_ID2924_9 --> 0 - 0 Original Alignment ---------CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG atctgtttattaaggattctttaagtcttgtctctttttttttttttcagTATCAAACGCTCAATGTCGATAGCAATGAACAGGGGTCCTATGTAGTGGCAATGGAAACATTTACCAATTTAGGACCCATTGTGGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgcgtaggatcccctatggctcatcccctatggctctgtgtttccgttc Alignment from CESAR ---------CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG atctgtttattaaggattctttaagtcttgtctctttttttttttttcagTATCAAACGCTCAATGTCGATAGCAATGAACAGGGGTCCTATGTAGTGGCAATGGAAACATTTACCAATTTAGGACCCATTGTGGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgcgtaggatcccctatggctcatcccctatggctctgtgtttccgttc Alignment from Spaln_aa2Genome CTCAATGTCGAC---------AGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG atctgtttattaaggattctttaagtcttgtctctttttttttttttcagTATCAAACGCTCAATGTCGATAGCAATGAACAGGGGTCCTATGTAGTGGCAATGGAAACATTTACCAATTTAGGACCCATTGTGGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgcgtaggatcccctatggctcatcccctatggctctgtgtttccgttc Alignment from Spaln_nt2Genome -----AAAGCTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG atctgtttattaaggattctttaagtcttgtctctttttttttttttcagTATCAAACGCTCAATGTCGATAGCAATGAACAGGGGTCCTATGTAGTGGCAATGGAAACATTTACCAATTTAGGACCCATTGTGGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgcgtaggatcccctatggctcatcccctatggctctgtgtttccgttc Alignment from Pairagon ---------CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG atctgtttattaaggattctttaagtcttgtctctttttttttttttcagTATCAAACGCTCAATGTCGATAGCAATGAACAGGGGTCCTATGTAGTGGCAATGGAAACATTTACCAATTTAGGACCCATTGTGGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgcgtaggatcccctatggctcatcccctatggctctgtgtttccgttc Alignment from Exonerate_protein2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG atctgtttattaaggattctttaagtcttgtctctttttttttttttcagtatcaaacgCTCAATGTCGATAGCAATGAACAGGGGTCCTATGTAGTGGCAATGGAAACATTTACCAATTTAGGACCCATTGTGGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgcgtaggatcccctatggctcatcccctatggctctgtgtttccgttc Alignment from Exonerate_coding2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG atctgtttattaaggattctttaagtcttgtctctttttttttttttcagtatcaaacgCTCAATGTCGATAGCAATGAACAGGGGTCCTATGTAGTGGCAATGGAAACATTTACCAATTTAGGACCCATTGTGGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgcgtaggatcccctatggctcatcccctatggctctgtgtttccgttc Alignment from GeneWise ---------CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG atctgtttattaaggattctttaagtcttgtctctttttttttttttcagTATCAAACGCTCAATGTCGATAGCAATGAACAGGGGTCCTATGTAGTGGCAATGGAAACATTTACCAATTTAGGACCCATTGTGGATATGTTTGTGGTGGACCTGGAGAGGCAGGGACAGGGGCAGgtgcgtaggatcccctatggctcatcccctatggctctgtgtttccgttc #### Ddb1_ID2930_15 --> 2 - 1 Original Alignment agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg cttccaggtcaacgccctagtaaggtgttatgaacttatttttatcctagag---ATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATCGAGACAggtaagtctaaagattgttttagtgctgggttttttcagaaataaggatcc Alignment from CESAR agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg gtacttccaggtcaacgccctagtatgttatgaacttatttttatcctagag---ATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATCGAGACAggtaagtctaaagattgttttagtgctgggttttttcagaaataaggatcc Alignment from Spaln_aa2Genome ATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttccaggtcaacgccctagtaaggtgttatgaacttatttttatcctagagATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATCGAGACAGgtaagtctaaagattgttttagtgctgggttttttcagaaataaggatcc Alignment from Spaln_nt2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttccaggtcaacgccctagtaaggtgttatgaacttatttttatcctagAG---ATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATCGAGACAGgtaagtctaaagattgttttagtgctgggttttttcagaaataaggatcc Alignment from Pairagon AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttccaggtcaacgccctagtaaggtgttatgaacttatttttatcctagAG---ATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATCGAGACAGgtaagtctaaagattgttttagtgctgggttttttcagaaataaggatcc Alignment from Exonerate_protein2genome ATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttccaggtcaacgccctagtaaggtgttatgaacttatttttatcctagagATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATCGAGACAGgtaagtctaaagattgttttagtgctgggttttttcagaaataaggatcc Alignment from Exonerate_coding2genome ATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttccaggtcaacgccctagtaaggtgttatgaacttatttttatcctagagATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATCGAGACAGgtaagtctaaagattgttttagtgctgggttttttcagaaataaggatcc Alignment from GeneWise ATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG cttccaggtcaacgccctagtaaggtgttatgaacttatttttatcctagagATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAATATCGAGACAGgtaagtctaaagattgttttagtgctgggttttttcagaaataaggatcc #### Ddb1_ID2931_16 --> 2 - 2 Original Alignment gt---------TTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag atagtagctttgccctgttttgcttccttgttatgtttgaatttatcaaggtCATGCCTCTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctatctgtgtctcaaggaggaggcacacatctccttcatga Alignment from CESAR gt---------TTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag atagtagctttgccctgttttgcttccttgttatgtttgaatttatcaaggtCATGCCTCTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACaggtaagtttcctatctgtgtctcaaggaggaggcacacatctccttcatga Alignment from Spaln_aa2Genome GTTTACTGAGTGAC---------CGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG atagtagctttgccctgttttgcttccttgttatgtttgaatttatcaagGTCATGCCTCTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctatctgtgtctcaaggaggaggcacacatctccttcatga Alignment from Spaln_nt2Genome GTTTACTGAGTGA---------CCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG atagtagctttgccctgttttgcttccttgttatgtttgaatttatcaagGTCATGCCTCTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctatctgtgtctcaaggaggaggcacacatctccttcatga Alignment from Pairagon ------------------------------------------------------------TTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG ATAGTAGCTTTGCCCTGTTTTGCTTCCTTGTTATGTTTGAATTTATCAAGGTCATGCCTCTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctatctgtgtctcaaggaggaggcacacatctccttcatga Alignment from Exonerate_protein2genome TGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG atagtagctttgccctgttttgcttccttgttatgtttgaatttatcaaggtcatgcctctttatTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctatctgtgtctcaaggaggaggcacacatctccttcatga Alignment from Exonerate_coding2genome TGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG atagtagctttgccctgttttgcttccttgttatgtttgaatttatcaaggtcatgcctctttatTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctatctgtgtctcaaggaggaggcacacatctccttcatga Alignment from GeneWise --------GGTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG atagtagctttgccctgttttgcttccttgttatgtttgaatttatcaagGTCATGCCTCTTTATTGAGTGACCGTAAAAAGGTAACTTTGGGCACCCAGCCCACCGTGCTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTGATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAGgtaagtttcctatctgtgtctcaaggaggaggcacacatctccttcatga #### Ddb1_ID2935_20 --> 2 - 1 Original Alignment tg------CTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg tatggggttggaagccaatacccataacaaactccctttgatttttgcagtgGCCGTGCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCGATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATggtgagacatcagtctctggggtatgaaagatggaaatttccatggagaca Alignment from CESAR tg------CTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg tatggggttggaagccaatacccataacaaactccctttgatttttgcagtgGCCGTGCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCGATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATggtgagacatcagtctctggggtatgaaagatggaaatttccatggagaca Alignment from Spaln_aa2Genome TGCTTCACGCC------CATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tatggggttggaagccaatacccataacaaactccctttgatttttgcagTGGCCGTGCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCGATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagacatcagtctctggggtatgaaagatggaaatttccatggagaca Alignment from Spaln_nt2Genome GTGCTTCACG-----CCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tatggggttggaagccaatacccataacaaactccctttgatttttgcagTGGCCGTGCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCGATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagacatcagtctctggggtatgaaagatggaaatttccatggagaca Alignment from Pairagon ------TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tatggggttggaagccaatacccataacaaactccctttgatttttgcagTGGCCGTGCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCGATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagacatcagtctctggggtatgaaagatggaaatttccatggagaca Alignment from Exonerate_protein2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tatggggttggaagccaatacccataacaaactccctttgatttttgcagtggccgTGCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCGATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagacatcagtctctggggtatgaaagatggaaatttccatggagaca Alignment from Exonerate_coding2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tatggggttggaagccaatacccataacaaactccctttgatttttgcagtggccgTGCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCGATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagacatcagtctctggggtatgaaagatggaaatttccatggagaca Alignment from GeneWise -----GTGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tatggggttggaagccaatacccataacaaactccctttgatttttgcagTGGCCGTGCTTCACGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTTGGTACAGCGATGGTATATCCAGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCTGATGgtgagacatcagtctctggggtatgaaagatggaaatttccatggagaca #### Ddb1_ID2939_24 --> 1 - 1 Original Alignment t---------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg agagcctactagggagaactgttctggaaacaaacatttatttttaaaagtGAGATCCTGGCTGCAACCACTGTCGAGGAACGGCAGCATTTACAGGAGATAGGTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACGGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAggtatgtgctcaagctcttatgccagggcttgcttatgccagggcttgtac Alignment from CESAR t---------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg agagcctactagggagaactgttctggaaacaaacatttatttttaaaagtGAGATCCTGGCTGCAACCACTGTCGAGGAACGGCAGCATTTACAGGAGATAGGTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACGGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAggtatgtgctcaagctcttatgccagggcttgcttatgccagggcttgtac Alignment from Spaln_aa2Genome T----------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG agagcctactagggagaactgttctggaaacaaacatttatttttaaaagTGAGATCCTGGCTGCAACCACTGTCGAGGAACGGCAGCATTTACAGGAGATAGGTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACGGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtatgtgctcaagctcttatgccagggcttgcttatgccagggcttgtac Alignment from Spaln_nt2Genome TGCTGCCACCAC---------TGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG agagcctactagggagaactgttctggaaacaaacatttatttttaaaagTGAGATCCTGGCTGCAACCACTGTCGAGGAACGGCAGCATTTACAGGAGATAGGTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACGGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtatgtgctcaagctcttatgccagggcttgcttatgccagggcttgtac Alignment from Pairagon T---------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG agagcctactagggagaactgttctggaaacaaacatttatttttaaaagTGAGATCCTGGCTGCAACCACTGTCGAGGAACGGCAGCATTTACAGGAGATAGGTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACGGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtatgtgctcaagctcttatgccagggcttgcttatgccagggcttgtac Alignment from Exonerate_protein2genome T---------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG agagcctactagggagaactgttctggaaacaaacatttatttttaaaagTGAGATCCTGGCTGCAACCACTGTCGAGGAACGGCAGCATTTACAGGAGATAGGTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACGGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtatgtgctcaagctcttatgccagggcttgcttatgccagggcttgtac Alignment from Exonerate_coding2genome T---------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCT---ACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG agagcctactagggagaactgttctggaaacaaacatttatttttaaaagTGAGATCCTGGCTGCAACCACTGTCGAGGAACGGCAGCATTTACAGGAGATAGGTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACGGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtatgtgctcaagctcttatgccagggcttgcttatgccagggcttgtac Alignment from GeneWise -------AGTGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACA---CAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG agagcctactagggagaactgttctggaaacaaacatttatttttaaaagTGAGATCCTGGCTGCAACCACTGTCGAGGAACGGCAGCATTTACAGGAGATAGGTCTCTTCCACCTAGGTGAGTTTGTCAATGTGTTCTGCCACGGCTCTCTAGTTATGAAGAATCTGGGTGAGGCTTCCACTCCTACAACGCAGGGATCGGTGCTTTTTGGCACAGTCAATGTCATGATAGgtatgtgctcaagctcttatgccagggcttgcttatgccagggcttgtac #### Dkk1_ID6483_2 --> 0 - 1 Original Alignment ---CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg aaggttggcaactagcctgatcaaggtgtcttaattctttctctcttcagAAACCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCTGATAAATACTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAAGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAAAACcgtaagtatgccccagtacctgtcttctacttaccgagttctacttggcaa Alignment from CESAR ---CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg aaggttggcaactagcctgatcaaggtgtcttaattctttctctcttcagAAACCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCTGATAAATACTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAAGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAAAACcgtaagtatgccccagtacctgtcttctacttaccgagttctacttggcaa Alignment from Spaln_aa2Genome ---CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAAT aaggttggcaactagcctgatcaaggtgtcttaattctttctctcttcagAAACCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCTGATAAATACTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAAGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAAAACCgtaagtatgccccagtacctgtcttctacttaccgagttctacttggcaa Alignment from Spaln_nt2Genome CCCTACCCTTG---CGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG aaggttggcaactagcctgatcaaggtgtcttaattctttctctcttcagAAACCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCTGATAAATACTGTTCCAGCCCCAGCTGTGGAGCAGC---TGTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAAGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAAAACCgtaagtatgccccagtacctgtcttctacttaccgagttctacttggcaa Alignment from Pairagon ---CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG aaggttggcaactagcctgatcaaggtgtcttaattctttctctcttcagAAACCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCTGATAAATACTGTTCCAGCCCCAGCTGTGGAGCAGC---TGTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAAGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAAAACCgtaagtatgccccagtacctgtcttctacttaccgagttctacttggcaa Alignment from Exonerate_protein2genome ---CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG aaggttggcaactagcctgatcaaggtgtcttaattctttctctcttcagAAACCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCTGATAAATACTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAAGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAAAACCgtaagtatgccccagtacctgtcttctacttaccgagttctacttggcaa Alignment from Exonerate_coding2genome ---CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG aaggttggcaactagcctgatcaaggtgtcttaattctttctctcttcagAAACCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCTGATAAATACTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAAGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAAAACCgtaagtatgccccagtacctgtcttctacttaccgagttctacttggcaa Alignment from GeneWise ---CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG aaggttggcaactagcctgatcaaggtgtcttaattctttctctcttcagAAACCCTTCCCTTGTGTTGTAGATGAGGAGTGTGGTTCTGATAAATACTGTTCCAGCCCCAGCTGTGGAGCAGCT---GTTGAAGGTGTTCAGATCTGCTTGGCTTGCCGAAAGCATAGGAAGTGTTGTGTAAGGCATACTATGTGCTGCCCTGGGAACCACTGCAAAAACCgtaagtatgccccagtacctgtcttctacttaccgagttctacttggcaa #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgagtctcacatcacagttgattccggtccttatgcactctctgcaggTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTAC---gtaagtagtacttaaccagaactggtggtttgctaccttccagtctggtt Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgagtctcacatcacagttgattccggtccttatgcactctctgcaggTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTAC---gtaagtagtacttaaccagaactggtggtttgctaccttccagtctg Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTAC acctgagtctcacatcacagttgattccggtccttatgcactctctgcagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACgtaagtagtacttaaccagaactggtggtttgctaccttccagtctggtt Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTAC acctgagtctcacatcacagttgattccggtccttatgcactctctgcagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACgtaagtagtacttaaccagaactggtggtttgctaccttccagtctggtt Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTAC acctgagtctcacatcacagttgattccggtccttatgcactctctgcagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTACgtaagtagtacttaaccagaactggtggtttgctaccttccagtctggtt Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgagtctcacatcacagttgattccggtccttatgcactctctgcagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTAC---gtaagtagtacttaaccagaactggtggtttgctaccttccagtctg Alignment from Exonerate_coding2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgagtctcacatcacagttgattccggtccttatgcactctctgcagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGGTAC---gtaagtagtacttaaccagaactggtggtttgctaccttccagtctg Alignment from GeneWise GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG acctgagtctcacatcacagttgattccggtccttatgcactctctgcagGTCTCCTGACTTTTATGAAGAAGTGAAAATTAAGCTACCAGCCAAGCTGACAGTGAATCATCATCTCCTCTTCACCTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAGAGCCTTCTGGGG---TACgtaagtagtacttaaccagaactggtggtttgctaccttccagtctggtt #### Dock8_ID5413_32 --> 0 - 1 Original Alignment ---------GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg gtttgctgagtcctagtaaactaaatgttatgtggtttctttgttttcagCTGTTTGCTGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgagagttcattccaacactataaccccaagttattcaaggctactgca Alignment from CESAR ---------GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg gtttgctgagtcctagtaaactaaatgttatgtggtttctttgttttcagCTGTTTGCTGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgagagttcattccaacactataaccccaagttattcaaggctactgca Alignment from Spaln_aa2Genome GGAAAGCAGAGTTCTGACAAA---------GTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG gtttgctgagtcctagtaaactaaatgttatgtggtttctttgttttcagCTGTTTGCTGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagagttcattccaacactataaccccaagttattcaaggctactgca Alignment from Spaln_nt2Genome GGAAAGCAGA---------GTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG gtttgctgagtcctagtaaactaaatgttatgtggtttctttgttttcagCTGTTTGCTGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagagttcattccaacactataaccccaagttattcaaggctactgca Alignment from Pairagon ---------GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG gtttgctgagtcctagtaaactaaatgttatgtggtttctttgttttcagCTGTTTGCTGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagagttcattccaacactataaccccaagttattcaaggctactgca Alignment from Exonerate_protein2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG gtttgctgagtcctagtaaactaaatgttatgtggtttctttgttttcagctgtttgctGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagagttcattccaacactataaccccaagttattcaaggctactgca Alignment from Exonerate_coding2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG gtttgctgagtcctagtaaactaaatgttatgtggtttctttgttttcagctgtttgctGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagagttcattccaacactataaccccaagttattcaaggctactgca Alignment from GeneWise ---------GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG gtttgctgagtcctagtaaactaaatgttatgtggtttctttgttttcagCTGTTTGCTGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgagagttcattccaacactataaccccaagttattcaaggctactgca #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment cc---AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg aaagacatgctgacaaaatcaaagaaaccccttggttgtgcactgtgtagccGTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtactgccatagcacactgtgctctgggtcccgaaacccgctatacactc Alignment from CESAR cc---AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg aaagacatgctgacaaaatcaaagaaaccccttggttgtgcactgtgtagccGTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtactgccatagcacactgtgctctgggtcccgaaacccgctatacactc Alignment from Spaln_aa2Genome CC---AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG aaagacatgctgacaaaatcaaagaaaccccttggttgtgcactgtgtagCCGTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtactgccatagcacactgtgctctgggtcccgaaacccgctatacactc Alignment from Spaln_nt2Genome CC---AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG aaagacatgctgacaaaatcaaagaaaccccttggttgtgcactgtgtagCCGTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtactgccatagcacactgtgctctgggtcccgaaacccgctatacactc Alignment from Pairagon CC---AAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG aaagacatgctgacaaaatcaaagaaaccccttggttgtgcactgtgtagCCGTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtactgccatagcacactgtgctctgggtcccgaaacccgctatacactc Alignment from Exonerate_protein2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG aaagacatgctgacaaaatcaaagaaaccccttggttgtgcactgtgtagccgTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtactgccatagcacactgtgctctgggtcccgaaacccgctatacactc Alignment from Exonerate_coding2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG aaagacatgctgacaaaatcaaagaaaccccttggttgtgcactgtgtagccgTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtactgccatagcacactgtgctctgggtcccgaaacccgctatacactc Alignment from GeneWise --TCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG aaagacatgctgacaaaatcaaagaaaccccttggttgtgcactgtgtagCCGTTAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtactgccatagcacactgtgctctgggtcccgaaacccgctatacactc #### Dpp3_ID741_12 --> 0 - 0 Original Alignment GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG------ agtgctgggaggccctgataagcatgggttttgattcccccaaaatgtagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTGATCAACCCAGAGACTGGGGAGCAGCAAGACgtaatcaatacactatggggtgagggaattgcaatgagggagacagctaa Alignment from CESAR GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG------ agtgctgggaggccctgataagcatgggttttgattcccccaaaatgtagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTGATCAACCCAGAGACTGGGGAGCAGCAAGACgtaatcaatacactatggggtgagggaattgcaatgagggagacagctaa Alignment from Spaln_aa2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAGATCCAG agtgctgggaggccctgataagcatgggttttgattcccccaaaatgtagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTGATCAACCCAGAGACTGGGGAGCAGCAAGACgtaatcaatacactatggggtgagggaattgcaatgagggagacagctaa Alignment from Spaln_nt2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACA agtgctgggaggccctgataagcatgggttttgattcccccaaaatgtagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTGATCAACCCAGAGACTGGGGAGCAgcaagacgtaatcaatacactatggggtgagggaattgcaatgagggagacagctaa Alignment from Pairagon GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAAC---------------------------------------------------------- agtgctgggaggccctgataagcatgggttttgattcccccaaaatgtagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTGATCAACCCAGAGACTGGGGAGCAGCAAGACGTAATCAATACACTATGGGGTGAGGGAATTGCAATGAGGGAGACAGCTAA Alignment from Exonerate_protein2genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAGATCCAG agtgctgggaggccctgataagcatgggttttgattcccccaaaatgtagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTGATCAACCCAGAGACTGGGGAGCAGCAAGACgtaatcaatacactatggggtgagggaattgcaatgagggagacagctaa Alignment from Exonerate_coding2genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAGATCCAG agtgctgggaggccctgataagcatgggttttgattcccccaaaatgtagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTGATCAACCCAGAGACTGGGGAGCAGCAAGACgtaatcaatacactatggggtgagggaattgcaatgagggagacagctaa Alignment from GeneWise GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAGATCCAG agtgctgggaggccctgataagcatgggttttgattcccccaaaatgtagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAAACGGTGATCAACCCAGAGACTGGGGAGCAGCAAGACgtaatcaatacactatggggtgagggaattgcaatgagggagacagctaa #### Dpp3_ID746_7 --> 0 - 2 Original Alignment ---GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gactgaggggatcaatcaaagtgaggatattttattttaacctatcccagGGCGCCTATGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGATCAATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTGTAAAAaggtggggtgccaaccaaggctccaaccccccgatctctcttccaatgcact Alignment from CESAR ---GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gactgaggggatcaatcaaagtgaggatattttattttaacctatcccagGGCGCCTATGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGATCAATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTGTAAAAaggtggggtgccaaccaaggctccaaccccccgatctctcttccaatgcact Alignment from Spaln_aa2Genome GCTTATGCAGCC---AACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgaggggatcaatcaaagtgaggatattttattttaacctatcccagGGCGCCTATGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGATCAATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTGTAAAAAGgtggggtgccaaccaaggctccaaccccccgatctctcttccaatgcact Alignment from Spaln_nt2Genome GCTTATGCAGCC---AACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgaggggatcaatcaaagtgaggatattttattttaacctatcccagGGCGCCTATGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGATCAATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTGTAAAAAGgtggggtgccaaccaaggctccaaccccccgatctctcttccaatgcact Alignment from Pairagon -----------------------------------------------------GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG GACTGAGGGGATCAATCAAAGTGAGGATATTTTATTTTAACCTATCCCAGGGCGCCTATGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGATCAATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTGTAAAAAGgtggggtgccaaccaaggctccaaccccccgatctctcttccaatgcact Alignment from Exonerate_protein2genome ---GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgaggggatcaatcaaagtgaggatattttattttaacctatcccagGGCGCCTATGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGATCAATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTGTAAAAAGgtggggtgccaaccaaggctccaaccccccgatctctcttccaatgcact Alignment from Exonerate_coding2genome ---GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gactgaggggatcaatcaaagtgaggatattttattttaacctatcccagGGCGCCTATGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGATCAATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTGTAAAAAGgtggggtgccaaccaaggctccaaccccccgatctctcttccaatgcact Alignment from GeneWise -----------------------------------------------------GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG GACTGAGGGGATCAATCAAAGTGAGGATATTTTATTTTAACCTATCCCAGGGCGCCTATGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGATCAATTGATGCCCATAAGAGGGGTTCCCATTTCTGGATCCAGGACAAAGGCCCCATTGTAAAAAGgtggggtgccaaccaaggctccaaccccccgatctctcttccaatgcact #### Drap1_ID985_5 --> 1 - 0 Original Alignment CCTCGAag g------GGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtgagtagcgaggggtctgcacatgcagattgcactccccaggTTCCTAGGCCGTAAACCAGGTAGCAGTGGTAAGAAGAATGGGGGCACAGGAAGCAAAGGTAAAGATAAAAAGCTCTCTGGGACAGACTCTGAGCAAGAGgtctgtaggctggtgggtaatgggttatgtctgcttttttgtaccttaca Alignment from CESAR CCTCGAag g------GGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAaggtgagtagcgaggggtctgcacatgcagattgcactccccaggTTCCTAGGCCGTAAACCAGGTAGCAGTGGTAAGAAGAATGGGGGCACAGGAAGCAAAGGTAAAGATAAAAAGCTCTCTGGGACAGACTCTGAGCAAGAGgtctgtaggctggtgggtaatgggttatgtctgcttttttgtaccttaca Alignment from Spaln_aa2Genome CCTCGAAG GGGCCGGAAACCG------GGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtgagtagcgaggggtctgcacatgcagattgcactccccagGTTCCTAGGCCGTAAACCAGGTAGCAGTGGTAAGAAGAATGGGGGCACAGGAAGCAAAGGTAAAGATAAAAAGCTCTCTGGGACAGACTCTGAGCAAGAGgtctgtaggctggtgggtaatgggttatgtctgcttttttgtaccttaca Alignment from Spaln_nt2Genome CCTCGAAG G------GGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtgagtagcgaggggtctgcacatgcagattgcactccccagGTTCCTAGGCCGTAAACCAGGTAGCAGTGGTAAGAAGAATGGGGGCACAGGAAGCAAAGGTAAAGATAAAAAGCTCTCTGGGACAGACTCTGAGCAAGAGgtctgtaggctggtgggtaatgggttatgtctgcttttttgtaccttaca Alignment from Pairagon CCTCGAAGG------------------------------------------------GGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGGTGAGTAGCGAGGGGTCTGCACATGCAGATTGCACTCCCCAGGTTCCTAGGCCGTAAACCAGGTAGCAGTGGTAAGAAGAATGGGGGCACAGGAAGCAAAGGTAAAGATAAAAAGCTCTCTGGGACAGACTCTGAGCAAGAGgtctgtaggctggtgggtaatgggttatgtctgcttttttgtaccttaca Alignment from Exonerate_protein2genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtgagtagcgaggggtctgcacatgcagattgcactccccaggttcctAGGCCGTAAACCAGGTAGCAGTGGTAAGAAGAATGGGGGCACAGGAAGCAAAGGTAAAGATAAAAAGCTCTCTGGGACAGACTCTGAGCAAGAGgtctgtaggctggtgggtaatgggttatgtctgcttttttgtaccttaca Alignment from Exonerate_coding2genome CCTCGAAG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtgagtagcgaggggtctgcacatgcagattgcactccccaggttcctAGGCCGTAAACCAGGTAGCAGTGGTAAGAAGAATGGGGGCACAGGAAGCAAAGGTAAAGATAAAAAGCTCTCTGGGACAGACTCTGAGCAAGAGgtctgtaggctggtgggtaatgggttatgtctgcttttttgtaccttaca Alignment from GeneWise CCTCGA-- ----AGGGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG CCTCGAAGgtgagtagcgaggggtctgcacatgcagattgcactccccagGTTCCTAGGCCGTAAACCAGGTAGCAGTGGTAAGAAGAATGGGGGCACAGGAAGCAAAGGTAAAGATAAAAAGCTCTCTGGGACAGACTCTGAGCAAGAGgtctgtaggctggtgggtaatgggttatgtctgcttttttgtaccttaca #### Drap1_ID986_4 --> 1 - 2 Original Alignment g---------------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tccccaagtgtttgagaggcggcagacctttttttttttttgcttcctaggTTTGTCCCTTCTGAGATGCAATGCATTGATGTTGAGCAGCAGTTTGACTTCTTGAAAGAGCTAGTGGCATCAGTACCCGACATGCAGGGGGACAGGGAGGACAACCATGTAGATGGGGAGAAGGGACCTCGAaggtgagtagcgaggggtctgcgccctttcttttttgtccttaggGGCCGTA Alignment from CESAR g---------------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tccccaagtgtttgagaggcggcagacctttttttttttttgcttcctaggTTTGTCCCTTCTGAGATGCAATGCATTGATGTTGAGCAGCAGTTTGACTTCTTGAAAGAGCTAGTGGCATCAGTACCCGACATGCAGGGGGACAGGGAGGACAACCATGTAGATGGGGAGAAGGGACCTCGAaggtgagtagcgaggggtctgctgtctgtcttgtcttctcacaggGGCCGTA Alignment from Spaln_aa2Genome G---------------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcggcagacctttttttttttttgcttcctagGTTTGTCCCTTCTGAGATGCAATGCATTGATGTTGAGCAGCAGTTTGACTTCTTGAAAGAGCTAGTGGCATCAGTACCCGACATGCAGGGGGACAGGGAGGACAACCATGTAGATGGGGAGAAGGGACCTCGAAGgtgagtagcgaggggtctgcgccctttcttttttgtccttagGGGCCGTA Alignment from Spaln_nt2Genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcggcagacctttttttttttttgcttcctaggtttgtcccttctgag-ATGCAATGCATTGATGTTGAGCAGCAGTTTGACTTCTTGAAAGAGCTAGTGGCATCAGTACCCGACATGCAGGGGGACAGGGAGGACAACCATGTAGATGGGGAGAAGGGACCTCGAAGgtgagtagcgaggggtctgcgccctttcttttttgtccttagGGGCCGTA Alignment from Pairagon ---------------GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcggcagacctttttttttttttgcttcctagGTTTGTCCCTTCTGAGATGCAATGCATTGATGTTGAGCAGCAGTTTGACTTCTTGAAAGAGCTAGTGGCATCAGTACCCGACATGCAGGGGGACAGGGAGGACAACCATGTAGATGGGGAGAAGGGACCTCGAAGgtgagtagcgaggggtctgcgccctttcttttttgtccttagGGGCCGTA Alignment from Exonerate_protein2genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcggcagacctttttttttttttgcttcctaggtttgtcccttctgaGATGCAATGCATTGATGTTGAGCAGCAGTTTGACTTCTTGAAAGAGCTAGTGGCATCAGTACCCGACATGCAGGGGGACAGGGAGGACAACCATGTAGATGGGGAGAAGGGACCTCGAAGgtgagtagcgaggggtctgcgccctttcttttttgtccttagGGGCCGTA Alignment from Exonerate_coding2genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcggcagacctttttttttttttgcttcctaggtttgtcccttctgaGATGCAATGCATTGATGTTGAGCAGCAGTTTGACTTCTTGAAAGAGCTAGTGGCATCAGTACCCGACATGCAGGGGGACAGGGAGGACAACCATGTAGATGGGGAGAAGGGACCTCGAAGgtgagtagcgaggggtctgcgccctttcttttttgtccttagGGGCCGTA Alignment from GeneWise -------------CTGAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tccccaagtgtttgagaggcggcagacctttttttttttttgcttcctagGTTTGTCCCTTCTGAGATGCAATGCATTGATGTTGAGCAGCAGTTTGACTTCTTGAAAGAGCTAGTGGCATCAGTACCCGACATGCAGGGGGACAGGGAGGACAACCATGTAGATGGGGAGAAGGGACCTCGAAGgtgagtagcgaggggtctgcgccctttcttttttgtccttagGGGCCGTA #### Drap1_ID987_3 --> 2 - 2 Original Alignment ccCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCAC------ct tctgaggtgtgggagtaatgcactccaccagcgtgacaactcttttgtagccCGGGCCCTTGAGCTCTTCTTGGAGTCCCTGCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGACCACATCTCACGAGAAGctgtaagaggctgttgccaagctggcaggggctttcaaagctatggggttag Alignment from CESAR ccCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCAC------ct tctgaggtgtgggagtaatgcactccaccagcgtgacaactcttttgtagccCGGGCCCTTGAGCTCTTCTTGGAGTCCCTGCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGACCACATCTCACGAGAAGctgtaagaggctgttgccaagctggcaggggctttcaaagctatggggttag Alignment from Spaln_aa2Genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCTG----- tctgaggtgtgggagtaatgcactccaccagcgtgacaactcttttgtagCCCGGGCCCTTGAGCTCTTCTTGGAGTCCCTGCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGACCACATCTCACGAGAAGCTgtaagaggctgttgccaagctggcaggggctttcaaagctatggggttag Alignment from Spaln_nt2Genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCAC------CT tctgaggtgtgggagtaatgcactccaccagcgtgacaactcttttgtagCCCGGGCCCTTGAGCTCTTCTTGGAGTCCCTGCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGACCACATCTCACGAGAAGCTgtaagaggctgttgccaagctggcaggggctttcaaagctatggggttag Alignment from Pairagon CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCAC------CT tctgaggtgtgggagtaatgcactccaccagcgtgacaactcttttgtagCCCGGGCCCTTGAGCTCTTCTTGGAGTCCCTGCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGACCACATCTCACGAGAAGCTgtaagaggctgttgccaagctggcaggggctttcaaagctatggggttag Alignment from Exonerate_protein2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT tctgaggtgtgggagtaatgcactccaccagcgtgacaactcttttgtagCCCGGGCCCTTGAGCTCTTCTTGGAGTCCCTGCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGACCACATCTCACGAgaagctgtaagaggctgttgccaagctggcaggggctttcaaagctatggggttag Alignment from Exonerate_coding2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT tctgaggtgtgggagtaatgcactccaccagcgtgacaactcttttgtagCCCGGGCCCTTGAGCTCTTCTTGGAGTCCCTGCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGACCACATCTCACGAgaagctgtaagaggctgttgccaagctggcaggggctttcaaagctatggggttag Alignment from GeneWise CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCTGAAG-- tctgaggtgtgggagtaatgcactccaccagcgtgacaactcttttgtagCCCGGGCCCTTGAGCTCTTCTTGGAGTCCCTGCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGACAATGACCACATCTCACGAGAAGCTgtaagaggctgttgccaagctggcaggggctttcaaagctatggggttag #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment ac---------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg tacaggtggtttggctgtcttccatttactttgtttctttcttccctaagacATGTCTCCGATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTGCCAGGCTCATTCCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCCTGTGTGggcagattggtgtgtcctgcaagtttctgaggtcctcccaggtgaaccagt Alignment from CESAR ac---------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg tacaggtggtttggctgtcttccatttactttgtttctttcttccctaagacATGTCTCCGATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTGCCAGGCTCATTCCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCCTGTGTGggcagattggtgtgtcctgcaagtttctgaggtcctcccaggtgaaccagt Alignment from Spaln_aa2Genome AC---------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG tacaggtggtttggctgtcttccatttactttgtttctttcttccctaagACATGTCTCCGATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTGCCAGGCTCATTCCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCCTGTGTGGgcagattggtgtgtcctgcaagtttctgaggtcctcccaggtgaaccagt Alignment from Spaln_nt2Genome ATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG tacaggtggtttggctgtcttccatttactttgtttctttcttccctaagacatgtctccgatagATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTGCCAGGCTCATTCCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCCTGTGTGGgcagattggtgtgtcctgcaagtttctgaggtcctcccaggtgaaccagt Alignment from Pairagon ------------------------------------------------GGAC---------ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG TACAGGTGGTTTGGCTGTCTTCCATTTACTTTGTTTCTTTCTTCCCTAAGACATGTCTCCGATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTGCCAGGCTCATTCCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCCTGTGTGGgcagattggtgtgtcctgcaagtttctgaggtcctcccaggtgaaccagt Alignment from Exonerate_protein2genome AGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG tacaggtggtttggctgtcttccatttactttgtttctttcttccctaagacatgtctccgatAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTGCCAGGCTCATTCCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCCTGTGTGGgcagattggtgtgtcctgcaagtttctgaggtcctcccaggtgaaccagt Alignment from Exonerate_coding2genome AGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG tacaggtggtttggctgtcttccatttactttgtttctttcttccctaagacatgtctccgatAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTGCCAGGCTCATTCCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCCTGTGTGGgcagattggtgtgtcctgcaagtttctgaggtcctcccaggtgaaccagt Alignment from GeneWise --------GACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTG------------G tacaggtggtttggctgtcttccatttactttgtttctttcttccctaagACATGTCTCCGATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGATTCTGCCAGGCTCATTCCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACATTCGCTCCTGTGTGGGCAGATTGGTGTgtcctgcaagtttctgaggtcctcccaggtgaaccagt #### Efemp2_ID1035_8 --> 2 - 2 Original Alignment at---------ATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACaa acttaccatgagtatggtactcagactctgtttgttttgtatttgtatagatCCTGTTGAATTAGATGACTGTGAGACAGGTGCTCACCGATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGCTGGTTACCGCTGTGTGGAGACCAACCGTTGTGTAGAACCATATGTCCATGTATCAGACaagtaggtgcacctggcacctgctgacttgtgtaggtcaagatgtcagtggg Alignment from CESAR at---------ATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACaa acttaccatgagtatggtactcagactctgtttgttttgtatttgtatagatCCTGTTGAATTAGATGACTGTGAGACAGGTGCTCACCGATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGCTGGTTACCGCTGTGTGGAGACCAACCGTTGTGTAGAACCATATGTCCATGTATCAGACaagtaggtgcacctggcacctgctgacttgtgtaggtcaagatgtcagtggg Alignment from Spaln_aa2Genome AT---------ATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA acttaccatgagtatggtactcagactctgtttgttttgtatttgtatagATCCTGTTGAATTAGATGACTGTGAGACAGGTGCTCACCGATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGCTGGTTACCGCTGTGTGGAGACCAACCGTTGTGTAGAACCATATGTCCATGTATCAGACAAgtaggtgcacctggcacctgctgacttgtgtaggtcaagatgtcagtggg Alignment from Spaln_nt2Genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA acttaccatgagtatggtactcagactctgtttgttttgtatttgtatagatcctgttgaattagAT------GACTGTGAGACAGGTGCTCACCGATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGCTGGTTACCGCTGTGTGGAGACCAACCGTTGTGTAGAACCATATGTCCATGTATCAGACAAgtaggtgcacctggcacctgctgacttgtgtaggtcaagatgtcagtggg Alignment from Pairagon ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA acttaccatgagtatggtactcagactctgtttgttttgtatttgtatagatcctgttgaattagAT------GACTGTGAGACAGGTGCTCACCGATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGCTGGTTACCGCTGTGTGGAGACCAACCGTTGTGTAGAACCATATGTCCATGTATCAGACAAgtaggtgcacctggcacctgctgacttgtgtaggtcaagatgtcagtggg Alignment from Exonerate_protein2genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA acttaccatgagtatggtactcagactctgtttgttttgtatttgtatagatcctgttgAATTAGATGACTGTGAGACAGGTGCTCACCGATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGCTGGTTACCGCTGTGTGGAGACCAACCGTTGTGTAGAACCATATGTCCATGTATCAGACAAgtaggtgcacctggcacctgctgacttgtgtaggtcaagatgtcagtggg Alignment from Exonerate_coding2genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA acttaccatgagtatggtactcagactctgtttgttttgtatttgtatagatcctgttgAATTAGATGACTGTGAGACAGGTGCTCACCGATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGCTGGTTACCGCTGTGTGGAGACCAACCGTTGTGTAGAACCATATGTCCATGTATCAGACAAgtaggtgcacctggcacctgctgacttgtgtaggtcaagatgtcagtggg Alignment from GeneWise --------GATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA acttaccatgagtatggtactcagactctgtttgttttgtatttgtatagATCCTGTTGAATTAGATGACTGTGAGACAGGTGCTCACCGATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGCTGGTTACCGCTGTGTGGAGACCAACCGTTGTGTAGAACCATATGTCCATGTATCAGACAAgtaggtgcacctggcacctgctgacttgtgtaggtcaagatgtcagtggg #### Ehbp1l1_ID1220_15 --> 0 - 1 Original Alignment CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg ctggctggggtggggtcacttgtcctctacctctgcttgttattacacagCATCGGTTGCAGGACACAAGTCAGTATGTGTGTGCAGAGCAGCAAGCCCTAGAGCAAGAACAGGGACAGGTCGATGGCAGGGCTGCTGAAGTGCAGAAGCAGCTTAGGAGCCTG---------ggtgaggcccactagatcccgcacttttgactttgctcctctagaattcac Alignment from CESAR CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg ctggctggggtggggtcacttgtcctctacctctgcttgttattacacagCATCGGTTGCAGGACACAAGTCAGTATGTGTGTGCAGAGCAGCAAGCCCTAGAGCAAGAACAGGGACAGGTCGATGGCAGGGCTGCTGAAGTGCAGAAGCAGCTTAGGAGCCTG---------ggtgaggcccactagatcccgcacttttgactttgctcctctagaattcac Alignment from Spaln_aa2Genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTC- ctggctggggtggggtcacttgtcctctacctctgcttgttattacacagCATCGGTTGCAGGACACAAGTCAGTATGTGTGTGCAGAGCAGCAAGCCCTAGAGCAAGAACAGGGACAGGTCGATGGCAGGGCTGCTGAAGTGCAGAAGCAGCTTAGGAGCCTGGgtgaggcccactagatcccgcacttttgactttgctcctctagaattcac Alignment from Spaln_nt2Genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG ctggctggggtggggtcacttgtcctctacctctgcttgttattacacagCATCGGTTGCAGGACACAAGTCAGTATGTGTGTGCAGAGCAGCAAGCCCTAGAGCAAGAACAGGGACAGGTCGATGGCAGGGCTGCTGAAGTGCAGAAGCAGCTTAGGAGCCT---------GGgtgaggcccactagatcccgcacttttgactttgctcctctagaattcac Alignment from Pairagon CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG ctggctggggtggggtcacttgtcctctacctctgcttgttattacacagCATCGGTTGCAGGACACAAGTCAGTATGTGTGTGCAGAGCAGCAAGCCCTAGAGCAAGAACAGGGACAGGTCGATGGCAGGGCTGCTGAAGTGCAGAAGCAGCTTAGGAGCCT---------GGgtgaggcccactagatcccgcacttttgactttgctcctctagaattcac Alignment from Exonerate_protein2genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCA ctggctggggtggggtcacttgtcctctacctctgcttgttattacacagCATCGGTTGCAGGACACAAGTCAGTATGTGTGTGCAGAGCAGCAAGCCCTAGAGCAAGAACAGGGACAGGTCGATGGCAGGGCTGCTGAAGTGCAGAAGCAGCTTAGGAGCCTGGgtgaggcccactagatcccgcacttttgactttgctcctctagaattcac Alignment from Exonerate_coding2genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCA ctggctggggtggggtcacttgtcctctacctctgcttgttattacacagCATCGGTTGCAGGACACAAGTCAGTATGTGTGTGCAGAGCAGCAAGCCCTAGAGCAAGAACAGGGACAGGTCGATGGCAGGGCTGCTGAAGTGCAGAAGCAGCTTAGGAGCCTGGgtgaggcccactagatcccgcacttttgactttgctcctctagaattcac Alignment from GeneWise CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCA ctggctggggtggggtcacttgtcctctacctctgcttgttattacacagCATCGGTTGCAGGACACAAGTCAGTATGTGTGTGCAGAGCAGCAAGCCCTAGAGCAAGAACAGGGACAGGTCGATGGCAGGGCTGCTGAAGTGCAGAAGCAGCTTAGGAGCCTGGgtgaggcccactagatcccgcacttttgactttgctcctctagaattcac #### Ehbp1l1_ID1228_7 --> 2 - 1 Original Alignment at---------CTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAg aaccatatgcttgtgtatgatttcatcctttcctcccactgtttccaaagatGATGATTCTCTGTCACGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGTCAggtatggctggtaatggggttgcagtctgaacctacatgacctgtccaatt Alignment from CESAR at---------CTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAg aaccatatgcttgtgtatgatttcatcctttcctcccactgtttccaaagatGATGATTCTCTGTCACGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGTCAggtatggctggtaatggggttgcagtctgaacctacatgacctgtatacaa Alignment from Spaln_aa2Genome AT---------CTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG aaccatatgcttgtgtatgatttcatcctttcctcccactgtttccaaagATGATGATTCTCTGTCACGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGTCAGgtatggctggtaatggggttgcagtctgaacctacatgacctgtccaatt Alignment from Spaln_nt2Genome AT---------CTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG aaccatatgcttgtgtatgatttcatcctttcctcccactgtttccaaagATGATGATTCTCTGTCACGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGTCAGgtatggctggtaatggggttgcagtctgaacctacatgacctgtccaatt Alignment from Pairagon A---------TCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG aaccatatgcttgtgtatgatttcatcctttcctcccactgtttccaaagATGATGATTCTCTGTCACGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGTCAGgtatggctggtaatggggttgcagtctgaacctacatgacctgtccaatt Alignment from Exonerate_protein2genome aaccatatgcttgtgtatgatttcatcctttcctcccactgtttccaaagatgatgattctctgtcacgtgagctgaagacactctgtgaggaagaagatgaaggccacatacgtccccagcagtcaggtatggctggtaatggggttgcagtctgaacctacatgacctgtccaatt Alignment from Exonerate_coding2genome aaccatatgcttgtgtatgatttcatcctttcctcccactgtttccaaagatgatgattctctgtcacgtgagctgaagacactctgtgaggaagaagatgaaggccacatacgtccccagcagtcaggtatggctggtaatggggttgcagtctgaacctacatgacctgtccaatt Alignment from GeneWise --------GATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG aaccatatgcttgtgtatgatttcatcctttcctcccactgtttccaaagATGATGATTCTCTGTCACGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGTCAGgtatggctggtaatggggttgcagtctgaacctacatgacctgtccaatt #### Ehbp1l1_ID1231_4 --> 0 - 0 Original Alignment ---GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT ttctgatgctctttcctggaaactctgtctccctcttaactttctcttagTGTGATCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACATTCATTATTGAAAATgtaagtcattgggacagtatacattcacctctaattgagagtattgcaac Alignment from CESAR ---GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT ttctgatgctctttcctggaaactctgtctccctcttaactttctcttagTGTGATCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACATTCATTATTGAAAATgtaagtcattgggacagtatacattcacctctaattgagagtattgcaac Alignment from Spaln_aa2Genome GACCCTCAT---GTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT ttctgatgctctttcctggaaactctgtctccctcttaactttctcttagTGTGATCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACATTCATTATTGAAAATgtaagtcattgggacagtatacattcacctctaattgagagtattgcaac Alignment from Spaln_nt2Genome ---GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT ttctgatgctctttcctggaaactctgtctccctcttaactttctcttagTGTGATCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACATTCATTATTGAAAATgtaagtcattgggacagtatacattcacctctaattgagagtattgcaac Alignment from Pairagon ---GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT ttctgatgctctttcctggaaactctgtctccctcttaactttctcttagTGTGATCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACATTCATTATTGAAAATgtaagtcattgggacagtatacattcacctctaattgagagtattgcaac Alignment from Exonerate_protein2genome ttctgatgctctttcctggaaactctgtctccctcttaactttctcttagtgtgatcctcatgtggaccagtatgaaaccaaagagtggacattcattattgaaaatgtaagtcattgggacagtatacattcacctctaattgagagtattgcaac Alignment from Exonerate_coding2genome ttctgatgctctttcctggaaactctgtctccctcttaactttctcttagtgtgatcctcatgtggaccagtatgaaaccaaagagtggacattcattattgaaaatgtaagtcattgggacagtatacattcacctctaattgagagtattgcaac Alignment from GeneWise ---GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT ttctgatgctctttcctggaaactctgtctccctcttaactttctcttagTGTGATCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACATTCATTATTGAAAATgtaagtcattgggacagtatacattcacctctaattgagagtattgcaac #### Ehbp1l1_ID1232_3 --> 0 - 0 Original Alignment ------GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG aataagaattcaacaatggcggggattagtggccttttctttccctccagTCAGGCGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAAAATGTGGACATTTCTGTAACCCTGCACAAGgtgagagcactgggtgcggtgggaggcactgcagagagtgagcagacact Alignment from CESAR ------GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG aataagaattcaacaatggcggggattagtggccttttctttccctccagTCAGGCGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAAAATGTGGACATTTCTGTAACCCTGCACAAGgtgagagcactgggtgcggtgggaggcactgcagagagtgagcagacact Alignment from Spaln_aa2Genome GCCCACAGCTGG------CAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG aataagaattcaacaatggcggggattagtggccttttctttccctccagTCAGGCGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAAAATGTGGACATTTCTGTAACCCTGCACAAGgtgagagcactgggtgcggtgggaggcactgcagagagtgagcagacact Alignment from Spaln_nt2Genome GCCCACAGCT------GGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG aataagaattcaacaatggcggggattagtggccttttctttccctccagTCAGGCGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAAAATGTGGACATTTCTGTAACCCTGCACAAGgtgagagcactgggtgcggtgggaggcactgcagagagtgagcagacact Alignment from Pairagon ------GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG aataagaattcaacaatggcggggattagtggccttttctttccctccagTCAGGCGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAAAATGTGGACATTTCTGTAACCCTGCACAAGgtgagagcactgggtgcggtgggaggcactgcagagagtgagcagacact Alignment from Exonerate_protein2genome aataagaattcaacaatggcggggattagtggccttttctttccctccagtcaggcgcccacagctggcagcctggcattcagaatccataccttggcactgcagtatggatggttcctgaaaatgtggacatttctgtaaccctgcacaaggtgagagcactgggtgcggtgggaggcactgcagagagtgagcagacact Alignment from Exonerate_coding2genome aataagaattcaacaatggcggggattagtggccttttctttccctccagtcaggcgcccacagctggcagcctggcattcagaatccataccttggcactgcagtatggatggttcctgaaaatgtggacatttctgtaaccctgcacaaggtgagagcactgggtgcggtgggaggcactgcagagagtgagcagacact Alignment from GeneWise ------GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG aataagaattcaacaatggcggggattagtggccttttctttccctccagTCAGGCGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTTGGCACTGCAGTATGGATGGTTCCTGAAAATGTGGACATTTCTGTAACCCTGCACAAGgtgagagcactgggtgcggtgggaggcactgcagagagtgagcagacact #### Eif3a_ID13327_3 --> 0 - 2 Original Alignment ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGag cttactctaaagatttagaagttgtcttccaggtagggttgtgcctacagCCTGTAAACATTAAGTCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGaggtaagtagtaagagggcattttttatcatcagacaaagtgttacaataat Alignment from CESAR ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGag cttactctaaagatttagaagttgtcttccaggtagggttgtgcctacagCCTGTAAACATTAAGTCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGaggtaagtagtaagagggcattttttatcatcagacaaagtgttacaataat Alignment from Spaln_aa2Genome GTAAACATTAAATCTTTA---GAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttactctaaagatttagaagttgtcttccaggtagggttgtgcctacagCCTGTAAACATTAAGTCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtaagtagtaagagggcattttttatcatcagacaaagtgttacaataat Alignment from Spaln_nt2Genome GTAAACATTAA---ATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttactctaaagatttagaagttgtcttccaggtagggttgtgcctacagCCTGTAAACATTAAGTCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtaagtagtaagagggcattttttatcatcagacaaagtgttacaataat Alignment from Pairagon ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttactctaaagatttagaagttgtcttccaggtagggttgtgcctacagCCTGTAAACATTAAGTCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtaagtagtaagagggcattttttatcatcagacaaagtgttacaataat Alignment from Exonerate_protein2genome ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttactctaaagatttagaagttgtcttccaggtagggttgtgcctacagCCTGTAAACATTAAGTCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtaagtagtaagagggcattttttatcatcagacaaagtgttacaataat Alignment from Exonerate_coding2genome ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttactctaaagatttagaagttgtcttccaggtagggttgtgcctacagCCTGTAAACATTAAGTCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtaagtagtaagagggcattttttatcatcagacaaagtgttacaataat Alignment from GeneWise ---GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttactctaaagatttagaagttgtcttccaggtagggttgtgcctacagCCTGTAAACATTAAGTCTTTAAAGGATGTTGTTAGGGCATATTTGAAGTTAGCAGAGGAAAAAACAGAAGCTGCTAGAGAAGAATCCCAACAAATGGTGTTGGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtaagtagtaagagggcattttttatcatcagacaaagtgttacaataat #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC tactcggggctaagtgtgctgggtattggatcgctttcctttcttctcagt------------------------------------AGTCCTTCCTTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCCCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGCGAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACacgtgccagatgttgttgatccctcaggCCGCGAAGAAATTCTTCCTCCTCA Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC tacaattattccgatgtgctgggtattggatcgctttcctttcttctcagt------------------------------------AGTCCTTCCTTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCCCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGCGAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACacgtatttagtgcctctcctctcccaggCCGCGAAGAAATTCTTCCTCCTCA Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCA GCGTTCTGACACGCCCCGAAGAAAT tactcggggctaagtgtgctgggtattggatcgctttcctttcttctcagT------------------------------------AGTCCTTCCTTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCCCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGCGAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAgtgttcagacacgtgccagatgttgttgatccctcagG------------CCGCGAAGAAAT Alignment from Spaln_nt2Genome ACTGCCACCTACA TGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGC GTTCTGACACGCCCCGAAGAAATTC ACTCGGGGCTA-AgtgtgctgggtattggatcgctttcctttcttctcagT--AGTCCTTCCTTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCCCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGCGAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTgttcagacacgtgccagatgttgttgatccctcag----------GCCGCGAAGAAATTC Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC-------------------------GCCCCGAAGAAATTCTTCCTCCTCC tactcggggctaagtgtgctgggtattggatcgctttcctttcttctcag------------------------------------TAGTCCTTCCTTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCCCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGCGAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACACGTGCCAGATGTTGTTGATCCCTCAGGCCGCGAAGAAATTCTTCCTCCTCA Alignment from Exonerate_protein2genome CTCCAGGACTGCC ACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCC TACTCGGGGCTAAgtgtgctgggtattggatcgctttcctttcttctcagT---------AGTCCTTCCTTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCCCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGCGAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACACgtgccagatgttgttgatccctcaggccgcgAAGAAATTCTTCCTCCTCA Alignment from Exonerate_coding2genome CTCCAGGACTGCC ACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCC TACTCGGGGCTAAgtgtgctgggtattggatcgctttcctttcttctcagT---------AGTCCTTCCTTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCCCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGCGAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACACgtgccagatgttgttgatccctcaggccgcgAAGAAATTCTTCCTCCTCA Alignment from GeneWise CCTCCAGGACTGCCACCT---------------------------ACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG---------------------------CCCCGAAGAAATTCTTCCTCCT TACTCGGGGCTAAGTGTGCTGGGTATTGGATCGCTTTCCTTTCTTCTCAGTAGTCCTTCCTTGGTTACAAGAGGCACACAAACTAAAGAAGAGTTAGAGATTGTTCCTTCCTCTGGACCCCCTGGACTAAGCAATGGCCCACCAGCTCTTCAAGGGGGCAGCGAAGAACCTAGTGGTATCCAATTTCAAGGTGGGTGTCGCAGCAGTAGTGGGGCAGGATCACCTGGGCCTCCAGGGATCCTCAGGCCAGTGCAGCCTCTTGAGTGTTCAGACACGTGCCAGATGTTGTTGATCCCTCAGG--CCGCGAAGAAATTCTTCCTCCT #### Eml3_ID2507_6 --> 2 - 2 Original Alignment aa------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt ttgctgagtggcctccaaagaggaggcttgagtctttctccctcttctagaaTTAACCGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGgtgtatggggttaaaactgtcacacacaatggataccctggcatctttgcag Alignment from CESAR aa------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGgt ttgctgagtggcctccaaagaggaggcttgagtctttctccctcttctagaaTTAACCGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGgtgtatggggttaaaactgtcacacacaatggataccctggcatctttgcag Alignment from Spaln_aa2Genome AA------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgagtggcctccaaagaggaggcttgagtctttctccctcttctagAATTAACCGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtatggggttaaaactgtcacacacaatggataccctggcatctttgcag Alignment from Spaln_nt2Genome AA------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgagtggcctccaaagaggaggcttgagtctttctccctcttctagAATTAACCGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtatggggttaaaactgtcacacacaatggataccctggcatctttgcag Alignment from Pairagon AA------GGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgagtggcctccaaagaggaggcttgagtctttctccctcttctagAATTAACCGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtatggggttaaaactgtcacacacaatggataccctggcatctttgcag Alignment from Exonerate_protein2genome TTAGAAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgagtggcctccaaagaggaggcttgagtctttctccctcttctagaaTTAACCGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtatggggttaaaactgtcacacacaatggataccctggcatctttgcag Alignment from Exonerate_coding2genome TTAGAAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgagtggcctccaaagaggaggcttgagtctttctccctcttctagaaTTAACCGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtatggggttaaaactgtcacacacaatggataccctggcatctttgcag Alignment from GeneWise -----GAAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT ttgctgagtggcctccaaagaggaggcttgagtctttctccctcttctagAATTAACCGGGATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGCCTTGAGGAGCTGCCTAGTGGCCCACCACCAGAGACTCTGACCCTTGATTGGGTgtatggggttaaaactgtcacacacaatggataccctggcatctttgcag #### Eml3_ID2509_8 --> 1 - 0 Original Alignment cCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG------------------------------------------ ctgtggagttttaacctaggatttaatggacactgtgattcttgatttagtCTTGCTGTTCATCCTGATGGTGTTCATGTTGCTTCAGGACAGACAGCTGGAGTGGACAAGGATGGGAAGCCCGCTACGCGTTCCCCTCCTAATTCCAAGCAGCTTCAAAAGgtaagtgcagggaaggtagtgagcagatgcgatgagattatgggtcaaat Alignment from CESAR cCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG--- ctgtggagttttaacctaggatttaatggacactgtgattcttgatttagtCTTGCTGTTCATCCTGATGGTGTTCATGTTGCTTCAGGACAGACAGCTGGAGTGGACAAGGATGGGAAGCCCgctacgcgttcccctcctaattccaagcagcttcaaaaggtaagtgcagggaaggtagtgagcagatgcgatgagattatgggtcaaat Alignment from Spaln_aa2Genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG--- ctgtggagttttaacctaggatttaatggacactgtgattcttgatttagTCTTGCTGTTCATCCTGATGGTGTTCATGTTGCTTCAGGACAGACAGCTGGAGTGGACAAGGATGGGAAGCCCgctacgcgttcccctcctaattccaagcagcttcaaaaggtaagtgcagggaaggtagtgagcagatgcgatgagattatgggtcaaat Alignment from Spaln_nt2Genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAA ctgtggagttttaacctaggatttaatggacactgtgattcttgatttagTCTTGCTGTTCATCCTGATGGTGTTCATGTTGCTTCAGGACAGACAGCTGGAGTGGACAAGGATGGGAAgcccgctacgcgttcccctcctaattccaagcagcttcaaaaggtaagtgcagggaaggtagtgagcagatgcgatgagattatgggtcaaat Alignment from Pairagon CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGG------------------------------------------------------------------------------------------------ ctgtggagttttaacctaggatttaatggacactgtgattcttgatttagTCTTGCTGTTCATCCTGATGGTGTTCATGTTGCTTCAGGACAGACAGCTGGAGTGGACAAGGATGGGAAGCCCGCTACGCGTTCCCCTCCTAATTCCAAGCAGCTTCAAAAGGTAAGTGCAGGGAAGGTAGTGAGCAGATGCGATGAGATTATGGGTCAAAT Alignment from Exonerate_protein2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG ctgtggagttttaacctaggatttaatggacactgtgattcttgatttagTCTTGCTGTTCATCCTGATGGTGTTCATGTTGCTTCAGGACAGACAGCTGGAGTGGACAAGGATGGGAAGcccgctacgcgttcccctcctaattccaagcagcttcaaaaggtaagtgcagggaaggtagtgagcagatgcgatgagattatgggtcaaat Alignment from Exonerate_coding2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG ctgtggagttttaacctaggatttaatggacactgtgattcttgatttagTCTTGCTGTTCATCCTGATGGTGTTCATGTTGCTTCAGGACAGACAGCTGGAGTGGACAAGGATGGGAAGcccgctacgcgttcccctcctaattccaagcagcttcaaaaggtaagtgcagggaaggtagtgagcagatgcgatgagattatgggtcaaat Alignment from GeneWise CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAGCCC--------------------------------------- ctgtggagttttaacctaggatttaatggacactgtgattcttgatttagTCTTGCTGTTCATCCTGATGGTGTTCATGTTGCTTCAGGACAGACAGCTGGAGTGGACAAGGATGGGAAGCCCGCTACGCGTTCCCCTCCTAATTCCAAGCAGCTTCAAAAGgtaagtgcagggaaggtagtgagcagatgcgatgagattatgggtcaaat #### Eml3_ID2513_12 --> 0 - 1 Original Alignment AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAA---g ccacaccacctctgcaatccattccatcttgtgctatttgctttatttagAAAGACAAAAAACCTAAGTTTATCCCATGCTTCATATTCCTTCCTGATGGAGACATTCTGACTGGAGACTCTGAGGGGAACATTCTTACCTGGGATCAGAGTATCTCAGATTCTAGGACTACAGGCAGGGGAGGAGCAAAAATTggtaccttgaggcaggtgttgggaacactgtatctcagatgagagactcag Alignment from CESAR AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAA---g ccacaccacctctgcaatccattccatcttgtgctatttgctttatttagAAAGACAAAAAACCTAAGTTTATCCCATGCTTCATATTCCTTCCTGATGGAGACATTCTGACTGGAGACTCTGAGGGGAACATTCTTACCTGGGATCAGAGTATCTCAGATTCTAGGACTACAGGCAGGGGAGGAGCAAAAATTggtaccttgaggcaggtgttgggaacactgtatctcagatgagagactcag Alignment from Spaln_aa2Genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAA---G ccacaccacctctgcaatccattccatcttgtgctatttgctttatttagAAAGACAAAAAACCTAAGTTTATCCCATGCTTCATATTCCTTCCTGATGGAGACATTCTGACTGGAGACTCTGAGGGGAACATTCTTACCTGGGATCAGAGTATCTCAGATTCTAGGACTACAGGCAGGGGAGGAGCAAAAATTGgtaccttgaggcaggtgttgggaacactgtatctcagatgagagactcag Alignment from Spaln_nt2Genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAA---G ccacaccacctctgcaatccattccatcttgtgctatttgctttatttagAAAGACAAAAAACCTAAGTTTATCCCATGCTTCATATTCCTTCCTGATGGAGACATTCTGACTGGAGACTCTGAGGGGAACATTCTTACCTGGGATCAGAGTATCTCAGATTCTAGGACTACAGGCAGGGGAGGAGCAAAAATTGgtaccttgaggcaggtgttgggaacactgtatctcagatgagagactcag Alignment from Pairagon AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAA---G ccacaccacctctgcaatccattccatcttgtgctatttgctttatttagAAAGACAAAAAACCTAAGTTTATCCCATGCTTCATATTCCTTCCTGATGGAGACATTCTGACTGGAGACTCTGAGGGGAACATTCTTACCTGGGATCAGAGTATCTCAGATTCTAGGACTACAGGCAGGGGAGGAGCAAAAATTGgtaccttgaggcaggtgttgggaacactgtatctcagatgagagactcag Alignment from Exonerate_protein2genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG ccacaccacctctgcaatccattccatcttgtgctatttgctttatttagAAAGACAAAAAACCTAAGTTTATCCCATGCTTCATATTCCTTCCTGATGGAGACATTCTGACTGGAGACTCTGAGGGGAACATTCTTACCTGGGATCAGAGTATCTCAGATTCTAGGACTACAGGCAGGGGAGGAGCAAAAAttggtaccttgaggcaggtgttgggaacactgtatctcagatgagagactcag Alignment from Exonerate_coding2genome AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG ccacaccacctctgcaatccattccatcttgtgctatttgctttatttagAAAGACAAAAAACCTAAGTTTATCCCATGCTTCATATTCCTTCCTGATGGAGACATTCTGACTGGAGACTCTGAGGGGAACATTCTTACCTGGGATCAGAGTATCTCAGATTCTAGGACTACAGGCAGGGGAGGAGCAAAAAttggtaccttgaggcaggtgttgggaacactgtatctcagatgagagactcag Alignment from GeneWise AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAGAG- ccacaccacctctgcaatccattccatcttgtgctatttgctttatttagAAAGACAAAAAACCTAAGTTTATCCCATGCTTCATATTCCTTCCTGATGGAGACATTCTGACTGGAGACTCTGAGGGGAACATTCTTACCTGGGATCAGAGTATCTCAGATTCTAGGACTACAGGCAGGGGAGGAGCAAAAATTGgtaccttgaggcaggtgttgggaacactgtatctcagatgagagactcag #### Eml3_ID2514_13 --> 2 - 0 Original Alignment agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gtcgtgatgcaaactcttggactccacagtcctgacgtctccctcaacagag---------ATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTCCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGGATCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtgagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from CESAR agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gtcatccatgtcgtgatgcaaactcacagtcctgacgtctccctcaacagag---------ATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTCCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGGATCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtgagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Spaln_aa2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gtcgtgatgcaaactcttggactccacagtcctgacgtctccctcaacagAG---------ATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTCCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGGATCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtgagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Spaln_nt2Genome CGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gtcgtgatgcaaactcttggactccacagtcctgacgtctccctcaacagAGATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTCCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGGATCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtgagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Pairagon AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gtcgtgatgcaaactcttggactccacagtcctgacgtctccctcaacagA---------GATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTCCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGGATCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtgagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Exonerate_protein2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gtcgtgatgcaaactcttggactccacagtcctgacgtctccctcaacagAG---------ATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTCCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGGATCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtgagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from Exonerate_coding2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gtcgtgatgcaaactcttggactccacagtcctgacgtctccctcaacagAG---------ATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTCCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGGATCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtgagtcctgtcctggactctgagtctgagaagggatggggagacatggt Alignment from GeneWise -----------GAGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG gtcgtgatgcaaactcttggactccacagTCCTGACGTCTCCCTCAACAGAGATTGTGGCTCAGTCCCATGCTCATGAGGAGTGCTTCTTTGCCCTCTGTCTCCACCAGGATGGAACAGTACTGACTGGTGGTGGGTGGGATCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtgagtcctgtcctggactctgagtctgagaagggatggggagacatggt #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--------------- GGCCACACTGATGAGC ggatggggagacatggtggatagtataaattccctgtttttcatttttagATTCCAGAACACTTTGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACGAAGAATGCATTACTGAGAGGAGACCTTGCCCAAGGTTTCTCTCCTGTTATCCAGTTCGTCAACCTGGGGgtatggattgtagactggctcccccttcttgtagGGACATACTGATGAGC Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--- GGCCACACTGATGAGC ggatggggagacatggtggatagtataaattccctgtttttcatttttagATTCCAGAACACTTTGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACGAAGAATGCATTACTGAGAGGAGACCTTGCCCAAGGTTTCTCTCCTGTTATCCAGTTCgtcaacctgggggtatggattgtattgtttcttcccactcacacagGGACATACTGATGAGC Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--- GGCCACACTGATGAGC ggatggggagacatggtggatagtataaattccctgtttttcatttttagATTCCAGAACACTTTGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACGAAGAATGCATTACTGAGAGGAGACCTTGCCCAAGGTTTCTCTCCTGTTATCCAGTTCgtcaacctgggggtatggattgtagactggctcccccttcttgtagGGACATACTGATGAGC Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCA GGGCCACACTGATGAG ggatggggagacatggtggatagtataaattccctgtttttcatttttagATTCCAGAACACTTTGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACGAAGAATGCATTACTGAGAGGAGACCTTGCCCAAGGTTTCTCTCCTGTTATCCAgttcgtcaacctgggggtatggattgtagactggctcccccttcttgtagGGACATACTGATG-AG Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCC-------------------------------------------------AGGGCCACACTGATGAGC ggatggggagacatggtggatagtataaattccctgtttttcatttttagATTCCAGAACACTTTGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACGAAGAATGCATTACTGAGAGGAGACCTTGCCCAAGGTTTCTCTCCTGTTATCCAGTTCGTCAACCTGGGGGTATGGATTGTAGACTGGCTCCCCCTTCTTGTAGGGACATACTGATGAGC Alignment from Exonerate_protein2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGC ggatggggagacatggtggatagtataaattccctgtttttcatttttagATTCCAGAACACTTTGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACGAAGAATGCATTACTGAGAGGAGACCTTGCCCAAGGTTTCTCTCCTGTTATCCAGttcgtcaacctgggggtatggattgtagactggctcccccttcttgtagGGACATACTGATGAGC Alignment from Exonerate_coding2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGC ggatggggagacatggtggatagtataaattccctgtttttcatttttagATTCCAGAACACTTTGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACGAAGAATGCATTACTGAGAGGAGACCTTGCCCAAGGTTTCTCTCCTGTTATCCAGttcgtcaacctgggggtatggattgtagactggctcccccttcttgtagGGACATACTGATGAGC Alignment from GeneWise ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAGGGC ---CACACTGATGAGC ggatggggagacatggtggatagtataaattccctgtttttcatttttagATTCCAGAACACTTTGGTGCAGTCAGTGCCATTGCTGAAGGACTTGGCTCTGAACTACTGGTGGGAACCACGAAGAATGCATTACTGAGAGGAGACCTTGCCCAAGGTTTCTCTCCTGTTATCCAGTTCgtcaacctgggggtatggattgtagactggctcccccttcttgtagGGACATACTGATGAGC #### Eml3_ID2516_15 --> 0 - 0 Original Alignment CTCCCCTGTTATCCAG ---------GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtaagtattgtaatgtcctgaccacctccgatagGGAGTCATTGGACATACTGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtacaaagctgtcctttagcatcctcaccaaacatgttcagatagcaaat Alignment from CESAR CTCCCCTGTTATCCAG GGC---------CACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtaagtattgtaatgtcctgaccacctccgatagGGAGTCATTGGACATACTGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtacaaagctgtcctttagcatcctcaccaaacatgttcagatagcaaat Alignment from Spaln_aa2Genome CTCCCCT GTTATCCAGGGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTgttatccaggtaagtattgtaatgtcctgaccacctccgatagGGAGTCATTGGACATACTGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtacaaagctgtcctttagcatcctcaccaaacatgttcagatagcaaat Alignment from Spaln_nt2Genome CTCCCCTGTTATCCAG GGCCACACTGATGA---------GCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtaagtattgtaatgtcctgaccacctccgatagGGAGTCATTGGACATACTGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtacaaagctgtcctttagcatcctcaccaaacatgttcagatagcaaat Alignment from Pairagon CTCCCCTGTTATCCAG-------------------------------------------GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGGTAAGTATTGTAATGTCCTGACCACCTCCGATAGGGAGTCATTGGACATACTGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtacaaagctgtcctttagcatcctcaccaaacatgttcagatagcaaat Alignment from Exonerate_protein2genome CTCCCCTGTTATCCAG GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtaagtattgtaatgtcctgaccacctccgatagggagtcattGGACATACTGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtacaaagctgtcctttagcatcctcaccaaacatgttcagatagcaaat Alignment from Exonerate_coding2genome CTCCCCTGTTATCCAG GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtaagtattgtaatgtcctgaccacctccgatagggagtcattGGACATACTGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtacaaagctgtcctttagcatcctcaccaaacatgttcagatagcaaat Alignment from GeneWise CTCCCCTGTTATCCAG ---------GGCCACACTGATGAGCTCTGGGGACTGTGTACACATCCGTCCCAGAATCGCTTCCTCACCTGTGGCCATGACCGGCAGCTCTGCCTGTGGGATGGGGAAGGCCATGCACTGGCCTGGAGCATGGACCTAAAG CTCTCCTGTTATCCAGgtaagtattgtaatgtcctgaccacctccgatagGGAGTCATTGGACATACTGATGAGCTGTGGGGCTTGTGTACACATCCATCTCAGAATCACTTTCTCACCTTTGGCCATGACAGGCAACTCTGCCTGTGGGATGGAGAAGGTCATGCATTGGCCTGGAGCATGGATCTAAAAgtacaaagctgtcctttagcatcctcaccaaacatgttcagatagcaaat #### Eml3_ID2518_17 --> 1 - 1 Original Alignment g---TGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaaaatcttttctccatgtcccttgctccctcccgctcagaGGGTGGTTGGTCTTGGACACAGAGACCAGAGAAATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAggtaagtgtgtcttcccccggcctgggtcctgcctggttctgctttgtcac Alignment from CESAR g---TGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAg aagtgtaaggcaaaatcttttctccatgtcccttgctccctcccgctcagaGGGTGGTTGGTCTTGGACACAGAGACCAGAGAAATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAggtaagtgtgtcttcccccggcctgggtcctgcctggttctgctttgtcac Alignment from Spaln_aa2Genome GTGGTTGGTT---TTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctccatgtcccttgctccctcccgctcagAGGGTGGTTGGTCTTGGACACAGAGACCAGAGAAATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAGgtaagtgtgtcttcccccggcctgggtcctgcctggttctgctttgtcac Alignment from Spaln_nt2Genome GGTGGTTGGTTTTG--GACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctccatgtcccttgctccctcccgctcagAGGGTGGTTGGTCTTGGACACAGAGACCAGAGAAATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAGgtaagtgtgtcttcccccggcctgggtcctgcctggttctgctttgtcac Alignment from Pairagon ---GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctccatgtcccttgctccctcccgctcagAGGGTGGTTGGTCTTGGACACAGAGACCAGAGAAATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAGgtaagtgtgtcttcccccggcctgggtcctgcctggttctgctttgtcac Alignment from Exonerate_protein2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctccatgtcccttgctccctcccgctcagaggGTGGTTGGTCTTGGACACAGAGACCAGAGAAATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAGgtaagtgtgtcttcccccggcctgggtcctgcctggttctgctttgtcac Alignment from Exonerate_coding2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctccatgtcccttgctccctcccgctcagaggGTGGTTGGTCTTGGACACAGAGACCAGAGAAATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAGgtaagtgtgtcttcccccggcctgggtcctgcctggttctgctttgtcac Alignment from GeneWise -AGGTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAG aagtgtaaggcaaaatcttttctccatgtcccttgctccctcccgctcagAGGGTGGTTGGTCTTGGACACAGAGACCAGAGAAATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAGgtaagtgtgtcttcccccggcctgggtcctgcctggttctgctttgtcac #### Eml3_ID2522_21 --> 2 - 0 Original Alignment gt------GTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agaagattaaagggatgcaataaaagtggagaaatcttttctttttgtaggtGGTGGGGTATGGCCTGGTGGCTGCGATGGTACGGACATCAATTCCCTATGCCATTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGTGCTCGGGCCAAAgtagagctccatgagcccattgggcccaggtacgaacagttgcagttcct Alignment from CESAR gt------GTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agaagattaaagggatgcaataaaagtggagaaatcttttctttttgtaggtGGTGGGGTATGGCCTGGTGGCTGCGATGGTACGGACATCAATTCCCTATGCCATTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGTGCTCGGGCCAAAgtagagctccatgagcccattgggcccaggtacgaacagttgcagttcct Alignment from Spaln_aa2Genome GTGTGTGGCCT------GATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agaagattaaagggatgcaataaaagtggagaaatcttttctttttgtagGTGGTGGGGTATGGCCTGGTGGCTGCGATGGTACGGACATCAATTCCCTATGCCATTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGTGCTCGGGCCAAAgtagagctccatgagcccattgggcccaggtacgaacagttgcagttcct Alignment from Spaln_nt2Genome GTGTGTGGCCTGATG------GCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agaagattaaagggatgcaataaaagtggagaaatcttttctttttgtagGTGGTGGGGTATGGCCTGGTGGCTGCGATGGTACGGACATCAATTCCCTATGCCATTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGTGCTCGGGCCAAAgtagagctccatgagcccattgggcccaggtacgaacagttgcagttcct Alignment from Pairagon GT------GTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agaagattaaagggatgcaataaaagtggagaaatcttttctttttgtagGTGGTGGGGTATGGCCTGGTGGCTGCGATGGTACGGACATCAATTCCCTATGCCATTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGTGCTCGGGCCAAAgtagagctccatgagcccattgggcccaggtacgaacagttgcagttcct Alignment from Exonerate_protein2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agaagattaaagggatgcaataaaagtggagaaatcttttctttttgtaggtggtgGGGTATGGCCTGGTGGCTGCGATGGTACGGACATCAATTCCCTATGCCATTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGTGCTCGGGCCAAAgtagagctccatgagcccattgggcccaggtacgaacagttgcagttcct Alignment from Exonerate_coding2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agaagattaaagggatgcaataaaagtggagaaatcttttctttttgtaggtggtgGGGTATGGCCTGGTGGCTGCGATGGTACGGACATCAATTCCCTATGCCATTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGTGCTCGGGCCAAAgtagagctccatgagcccattgggcccaggtacgaacagttgcagttcct Alignment from GeneWise -----GGTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG agaagattaaagggatgcaataaaagtggagaaatcttttctttttgtagGTGGTGGGGTATGGCCTGGTGGCTGCGATGGTACGGACATCAATTCCCTATGCCATTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTGCTGTAAAGTGCATGTCTTTCAGTATCCATGTGCTCGGGCCAAAgtagagctccatgagcccattgggcccaggtacgaacagttgcagttcct #### Exosc1_ID8337_2 --> 2 - 0 Original Alignment gcGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG--------- ctgtcacatgggttgcaggccactcttgctgaatttctttcttttgaaaggtGAACGTCTGTGCAACTTGGAAGAAGGCAGTCCTGGCAGTGGAACCTACACCTGGCATGGCTACATCTTTTCATCATTGGCTGGCTGTCCTATGAAGACCAGTGAGAATGGTGCAGGGGTAGAGgtaaagaaagtggctccctaggctgtgctctctctcccactgagtcctca Alignment from CESAR gcGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG--- ctgtcacatgggttgcaggccactcttgctgaatttctttcttttgaaaggtGAACGTCTGTGCAACTTGGAAGAAGGCAGTCCTGGCAGTGGAACCTACACCTGGCATGGCTACATCTTTTCATCATTGGCTGGCTGTCCTATGAAGACCAGTGAGAATGGTGCAGGGgtagaggtaaagaaagtggctccctaggctgtgctctctctcccactgagtcctca Alignment from Spaln_aa2Genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGC ctgtcacatgggttgcaggccactcttgctgaatttctttcttttgaaagGTGAACGTCTGTGCAACTTGGAAGAAGGCAGTCCTGGCAGTGGAACCTACACCTGGCATGGCTACATCTTTTCATCATTGGCTGGCTGTCCTATGAAGACCAGTGAGAATGGTgcaggggtagaggtaaagaaagtggctccctaggctgtgctctctctcccactgagtcctca Alignment from Spaln_nt2Genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGC---G ctgtcacatgggttgcaggccactcttgctgaatttctttcttttgaaagGTGAACGTCTGTGCAACTTGGAAGAAGGCAGTCCTGGCAGTGGAACCTACACCTGGCATGGCTACATCTTTTCATCATTGGCTGGCTGTCCTATGAAGACCAGTGAGAATGGTGCAGGGgtagaggtaaagaaagtggctccctaggctgtgctctctctcccactgagtcctca Alignment from Pairagon GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGC---------G ctgtcacatgggttgcaggccactcttgctgaatttctttcttttgaaagGTGAACGTCTGTGCAACTTGGAAGAAGGCAGTCCTGGCAGTGGAACCTACACCTGGCATGGCTACATCTTTTCATCATTGGCTGGCTGTCCTATGAAGACCAGTGAGAATGGTGCAGGGGTAGAGgtaaagaaagtggctccctaggctgtgctctctctcccactgagtcctca Alignment from Exonerate_protein2genome GCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG ctgtcacatgggttgcaggccactcttgctgaatttctttcttttgaaagGTGAACGTCTGTGCAACTTGGAAGAAGGCAGTCCTGGCAGTGGAACCTACACCTGGCATGGCTACATCTTTTCATCATTGGCTGGCTGTCCTATGAAGACCAGTGAGAATGGTGCAggggtagaggtaaagaaagtggctccctaggctgtgctctctctcccactgagtcctca Alignment from Exonerate_coding2genome TACTGCATCCCCGGCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG ctgtcacatgggttgcaggccactcttgctgaatttcTTTCTTTTGAAAGGTGAACGTCTGTGCAACTTGGAAGAAGGCAGTCCTGGCAGTGGAACCTACACCTGGCATGGCTACATCTTTTCATCATTGGCTGGCTGTCCTATGAAGACCAGTGAGAATGGTGCAggggtagaggtaaagaaagtggctccctaggctgtgctctctctcccactgagtcctca Alignment from GeneWise GCACCACCGGTGAGGTACTGCATCCCCGGCGAACGTCTGTGTAACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCGGTT caggccactcttgctgaatttc---------------TTTCTTTTGAAAGGTGAACGTCTGTGCAACTTGGAAGAAGGCAGTCCTGGCAGTGGAACCTACACCTGGCATGGCTACATCTTTTCATCATTGGCTGGCTGTCCTATGAAGACCAGTGAGAATGGTGCAGGGgtagaggtaaagaaagtggctccctaggctgtgctctctctcccactgagtcctca #### Fads1_ID2689_3 --> 0 - 0 Original Alignment ------AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actctcttgacattggttaagtggggtaacatgaatattttgtatttcagTTATACAAAGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTGTGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtacgctttacctcttaatccaaacctcagatgccaagagaatggtctgt Alignment from CESAR ------AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actctcttgacattggttaagtggggtaacatgaatattttgtatttcagTTATACAAAGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTGTGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtacgctttacctcttaatccaaacctcagatgccaagagaatggtctgt Alignment from Spaln_aa2Genome CGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actctcttgacattggttaagtggggtaacatgaatattttgtatttcagttatacaaagTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTGTGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtacgctttacctcttaatccaaacctcagatgccaagagaatggtctgt Alignment from Spaln_nt2Genome ------AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actctcttgacattggttaagtggggtaacatgaatattttgtatttcagTTATACAAAGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTGTGGATCTTTGGAACTTCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtacgctttacctcttaatccaaacctcagatgccaagagaatggtctgt Alignment from Pairagon ------AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actctcttgacattggttaagtggggtaacatgaatattttgtatttcagTTATACAAAGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTGTGGATCTTTGGAACTTCCTTGGTGCC---CATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtacgctttacctcttaatccaaacctcagatgccaagagaatggtctgt Alignment from Exonerate_protein2genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actctcttgacattggttaagtggggtaacatgaatattttgtatttcagttatacAAAGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTGTGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtacgctttacctcttaatccaaacctcagatgccaagagaatggtctgt Alignment from Exonerate_coding2genome AAAGCGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actctcttgacattggttaagtggggtaacatgaatattttgtatttcagttatacAAAGTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTGTGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtacgctttacctcttaatccaaacctcagatgccaagagaatggtctgt Alignment from GeneWise CGCTAACTGATGAATTCCGGGAGCTGCGGGCCACAGTAGAGCGAATGGGCCTCATGAAGGCCAACCACCTCTTCTTCCTGGTCTACCTGCTTCACATCCTGCTGCTGGATGTGGCTGCCTGGCTCACCCTTTGGATCTTTGGAACTTCCTTGGTGCCCTTCATCCTCTGTGCAGTACTGCTCAGTACAGTTCAG actctcttgacattggttaagtggggtaacatgaatattttgtatttcagttatacaaagTACTGTCCGATGAATTTCGGGAACTGCGGGCCACAGTAGAGCGAATAGGTCTCATGAAAGCTAACCATCTCTTCCTCTTGGTATACCTACTTCGCATTCCACTGCTTGATGTAGCTGCCTGGCTAACACTGTGGATCTTTGGAACTTCCTTGGTGCCC---ATACTTTGTGCAGTATTACTCAGTACAGTTCAGgtacgctttacctcttaatccaaacctcagatgccaagagaatggtctgt #### Fads1_ID2690_4 --> 0 - 0 Original Alignment GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACC---TCGACATGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ctgggtgcctacagaggtactgctgctgatgctggtgctttcttccccag---CAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTAATTGGGCACCTGAAGgtataaaatattatcttgtccacccaagctacagttgttcgtagtttgtc Alignment from CESAR GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG gagctgggtgcctacagaggtactgctgatgctggtgctttcttccccag---CAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTAATTGGGCACCTGAAGgtataaaatattatcttgtccacccaagctacagttgttcgtagtttgtc Alignment from Spaln_aa2Genome GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ctgggtgcctacagaggtactgctgctgatgctggtgctttcttccccag---CAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTAATTGGGCACCTGAAGgtataaaatattatcttgtccacccaagctacagttgttcgtagtttgtc Alignment from Spaln_nt2Genome CAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ctgggtgcctacagaggtactgctgctgatgctggtgctttcttccccagCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTAATTGGGCACCTGAAGgtataaaatattatcttgtccacccaagctacagttgttcgtagtttgtc Alignment from Pairagon GCTCAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ctgggtgcctacagaggtactgctgctgatgctggtgctttcttccccag---CAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTAATTGGGCACCTGAAGgtataaaatattatcttgtccacccaagctacagttgttcgtagtttgtc Alignment from Exonerate_protein2genome CAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ctgggtgcctacagaggtactgctgctgatgctggtgctttcttccccagCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTAATTGGGCACCTGAAGgtataaaatattatcttgtccacccaagctacagttgttcgtagtttgtc Alignment from Exonerate_coding2genome CAGGCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ctgggtgcctacagaggtactgctgctgatgctggtgctttcttccccagCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTAATTGGGCACCTGAAGgtataaaatattatcttgtccacccaagctacagttgttcgtagtttgtc Alignment from GeneWise ---GCAGGTTGGCTACAGCATGACTTTGGGCACCTGTCAGTCTTTGGCACCTCGACA---TGGAATCACCTGCTACATCATTTTGTGATTGGCCACCTGAAG ctgggtgcctacagaggtactgctgctgatgctggtgctttcttccccagCAGGCAGGTTGGCTACAGCATGACTTTGGGCGCTTGTCAGTCTTTGGCACCTCATCAATGTGGAATTACCTGCTGCACCATTTTGTAATTGGGCACCTGAAGgtataaaatattatcttgtccacccaagctacagttgttcgtagtttgtc #### Fads1_ID2694_8 --> 0 - 2 Original Alignment GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag cgtatgtgatcaggacggctgacaatgcctttttaaccaatttctttcag------------------------------CGCATCTTTTTAGCTTATATATCACTCCCAGGGCTGAAAGGCTTCCTGGGGCTTTTCTTCATTGTTaggtaagcatattcagtgaattatacaggtaagcctagacaccataagtaag Alignment from CESAR GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag gaatctgtaagaagggcgaagacaatgcctttttaaccaatttctttcag------------------------------CGCATCTTTTTAGCTTATATATCACTCCCAGGGCTGAAAGGCTTCCTGGGGCTTTTCTTCATTGTTaggtaagcatattcagtgaattatacaggtaagcctagacaccataagtaag Alignment from Spaln_aa2Genome ATGGGTGGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cgtatgtgatcagGACGGCTGACAATGCCTTTTTAACCAATTTCTTTCAGCGCATCTTTTTAGCTTATATATCACTCCCAGGGCTGAAAGGCTTCCTGGGGCTTTTCTTCATTGTTAGgtaagcatattcagtgaattatacaggtaagcctagacaccataagtaag Alignment from Spaln_nt2Genome CGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cgtatgtgatcaggacggctgacaatgcctttttaaccaatttctttcagCGCATCTTTTTAGCTTATATATCACTCCCAGGGCTGAAAGGCTTCCTGGGGCTTTTCTTCATTGTTAGgtaagcatattcagtgaattatacaggtaagcctagacaccataagtaag Alignment from Pairagon GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cgtatgtgatcaggacggctgacaatgcctttttaaccaatttctttcag------------------------------CGCATCTTTTTAGCTTATATATCACTCCCAGGGCTGAAAGGCTTCCTGGGGCTTTTCTTCATTGTTAGgtaagcatattcagtgaattatacaggtaagcctagacaccataagtaag Alignment from Exonerate_protein2genome ATGGGTGGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cgtatgtgatcagGACGGCTGACAATGCCTTTTTAACCAATTTCTTTCAGCGCATCTTTTTAGCTTATATATCACTCCCAGGGCTGAAAGGCTTCCTGGGGCTTTTCTTCATTGTTAGgtaagcatattcagtgaattatacaggtaagcctagacaccataagtaag Alignment from Exonerate_coding2genome ATGGGTGGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG cgtatgtgatcagGACGGCTGACAATGCCTTTTTAACCAATTTCTTTCAGCGCATCTTTTTAGCTTATATATCACTCCCAGGGCTGAAAGGCTTCCTGGGGCTTTTCTTCATTGTTAGgtaagcatattcagtgaattatacaggtaagcctagacaccataagtaag Alignment from GeneWise --------------------GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG CGTATGTGATCAGGACGGCTGACAATGCCTTTTTAACCAATTTCTTTCAGCGCATCTTTTTAGCTTATATATCACTCCCAGGGCTGAAAGGCTTCCTGGGGCTTTTCTTCATTGTTAGgtaagcatattcagtgaattatacaggtaagcctagacaccataagtaag #### Fads1_ID2696_10 --> 0 - 2 Original Alignment CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca atgatcctacactgagacatggaaatctgctctcccctccctacccacagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGCGGACACCTAAATTTCCAGATTGAA---cagtatctggcgcagatacccaggaaacaggggtggcacggggataagggta Alignment from CESAR CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca atgatcctacactgagacatggaaatctgctctcccctccctacccacagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGCGGACACCTAAATTTCCAGATTGAA---cagtatctggcgcagatacccaggaaacaggggtggcacggggataagggta Alignment from Spaln_aa2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACA atgatcctacactgagacatggaaatctgctctcccctccctacccacagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGCGGACACCTAAATTTCCAGATTGAACAgtatctggcgcagatacccaggaaacaggggtggcacggggataagggta Alignment from Spaln_nt2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACA atgatcctacactgagacatggaaatctgctctcccctccctacccacagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGCGGACACCTAAATTTCCAGATTGAACAgtatctggcgcagatacccaggaaacaggggtggcacggggataagggta Alignment from Pairagon CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACA atgatcctacactgagacatggaaatctgctctcccctccctacccacagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGCGGACACCTAAATTTCCAGATTGAACAgtatctggcgcagatacccaggaaacaggggtggcacggggataagggta Alignment from Exonerate_protein2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACA atgatcctacactgagacatggaaatctgctctcccctccctacccacagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGCGGACACCTAAATTTCCAGATTGAACAgtatctggcgcagatacccaggaaacaggggtggcacggggataagggta Alignment from Exonerate_coding2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACA atgatcctacactgagacatggaaatctgctctcccctccctacccacagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGCGGACACCTAAATTTCCAGATTGAACAgtatctggcgcagatacccaggaaacaggggtggcacggggataagggta Alignment from GeneWise CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACA atgatcctacactgagacatggaaatctgctctcccctccctacccacagCTGCAGGCAACCTGCAATGTTCACCAATCTGCCTTCAACAACTGGTTCAGCGGACACCTAAATTTCCAGATTGAACAgtatctggcgcagatacccaggaaacaggggtggcacggggataagggta #### Fads1_ID2697_11 --> 1 - 2 Original Alignment cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta tatgtaagcccctacattacctgtacttgctaatctgatacctgttacagt---------ACAATGCCTCACCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATAAAGTATGAGTCTAAACCCCTGCTTGCAGCTTTTGCAGACATTGTTtagtgagtatgaacgcttagctgacagtagtgaagtgagcatatgacaagtg Alignment from CESAR cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta atgcagcagtatgtaagcccctacacttgctaatctgatacctgttacagt---------ACAATGCCTCACCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATAAAGTATGAGTCTAAACCCCTGCTTGCAGCTTTTGCAGACATTGTTtagtgagtatgaacgcttagctgacagtagtgaagtgagcatatgacaagtg Alignment from Spaln_aa2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtaagcccctacattacctgtacttgctaatctgatacctgttacagT---------ACAATGCCTCACCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATAAAGTATGAGTCTAAACCCCTGCTTGCAGCTTTTGCAGACATTGTTTAgtgagtatgaacgcttagctgacagtagtgaagtgagcatatgacaagtg Alignment from Spaln_nt2Genome TCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtaagcccctacattacctgtacttgctaatctgatacctgttacagT-------ACAATGCCTCACCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATAAAGTATGAGTCTAAACCCCTGCTTGCAGCTTTTGCAGACATTGTTTAgtgagtatgaacgcttagctgacagtagtgaagtgagcatatgacaagtg Alignment from Pairagon CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtaagcccctacattacctgtacttgctaatctgatacctgttacag---------TACAATGCCTCACCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATAAAGTATGAGTCTAAACCCCTGCTTGCAGCTTTTGCAGACATTGTTTAgtgagtatgaacgcttagctgacagtagtgaagtgagcatatgacaagtg Alignment from Exonerate_protein2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtaagcccctacattacctgtacttgctaatctgatacCTGTTACAGTACAATGCCTCACCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATAAAGTATGAGTCTAAACCCCTGCTTGCAGCTTTTGCAGACATTGTTTAgtgagtatgaacgcttagctgacagtagtgaagtgagcatatgacaagtg Alignment from Exonerate_coding2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT tatgtaagcccctacattacctgtacttgctaatctgatacCTGTTACAGTACAATGCCTCACCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATAAAGTATGAGTCTAAACCCCTGCTTGCAGCTTTTGCAGACATTGTTtagtgagtatgaacgcttagctgacagtagtgaagtgagcatatgacaagtg Alignment from GeneWise CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT tatgtaagcccctacattacctgtacttgctaatctgatacctgttacagT---------ACAATGCCTCACCACAACTACCACAAGGTGACACCAGTAGTACAATCCCTATGTGCCAAGTATGGCATAAAGTATGAGTCTAAACCCCTGCTTGCAGCTTTTGCAGACATTGTTtagtgagtatgaacgcttagctgacagtagtgaagtgagcatatgacaagtg #### Fads3_ID2662_5 --> 0 - 0 Original Alignment GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG gctggaacacaacaattcagcagatgtcccccactcccatctctgtttag------TCTGCCCACTGGTGGAATTTCCGTCACTTCAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCGCCTGTCTTCCTTCTTGGTGTGTCATCTGTAGAAgtaagtggtagtttctgagcccagagagctgttctccctggctttcattc Alignment from CESAR GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tagcgggctggaacacaacaattcagtcccccactcccatctctgtttag------TCTGCCCACTGGTGGAATTTCCGTCACTTCAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCGCCTGTCTTCCTTCTTGGTGTGTCATCTGTAGAAgtaagtggtagtttctgagcccagagagctgttctccctggtgtctctca Alignment from Spaln_aa2Genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG gctggaacacaacaattcagcagatgtcccccactcccatctctgtttag------TCTGCCCACTGGTGGAATTTCCGTCACTTCAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCGCCTGTCTTCCTTCTTGGTGTGTCATCTGTAGAAgtaagtggtagtttctgagcccagagagctgttctccctggctttcattc Alignment from Spaln_nt2Genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG gctggaacacaacaattcagcagatgtcccccactcccatctctgtttag------TCTGCCCACTGGTGGAATTTCCGTCACTTCAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCGCCTGTCTTCCTTCTTGGTGTGTCATCTGTAGAAgtaagtggtagtttctgagcccagagagctgttctccctggctttcattc Alignment from Pairagon GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG gctggaacacaacaattcagcagatgtcccccactcccatctctgtttag------TCTGCCCACTGGTGGAATTTCCGTCACTTCAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCGCCTGTCTTCCTTCTTGGTGTGTCATCTGTAGAAgtaagtggtagtttctgagcccagagagctgttctccctggctttcattc Alignment from Exonerate_protein2genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG gctggaacacaacaattcagcagatgtcccccactcccatctctGTTTAGTCTGCCCACTGGTGGAATTTCCGTCACTTCAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCGCCTGTCTTCCTTCTTGGTGTGTCATCTGTAGAAgtaagtggtagtttctgagcccagagagctgttctccctggctttcattc Alignment from Exonerate_coding2genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG gctggaacacaacaattcagcagatgtcccccactcccatctctGTTTAGTCTGCCCACTGGTGGAATTTCCGTCACTTCAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCGCCTGTCTTCCTTCTTGGTGTGTCATCTGTAGAAgtaagtggtagtttctgagcccagagagctgttctccctggctttcattc Alignment from GeneWise GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG gctggaacacaacaattcagcagatgtcccccactcccatctctgtttagTCT------GCCCACTGGTGGAATTTCCGTCACTTCAAGCATCATGCCAAGCCCAACATATTCCACAAAGACCCTGATGTGACTGTTGCGCCTGTCTTCCTTCTTGGTGTGTCATCTGTAGAAgtaagtggtagtttctgagcccagagagctgttctccctggctttcattc #### Fads3_ID2664_7 --> 2 - 0 Original Alignment ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG taccatttgtataacccattccccagtgtcttgcttcttctttgctacagttGGCCCTCCGCTGCTCACATTAGTGAATTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAG------gtaggttgagcgagattgtcctcaaaatctaaggtatgattggcatatgc Alignment from CESAR ttGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG taccatttgtataacccattccccagtgtcttgcttcttctttgctacagttGGCCCTCCGCTGCTCACATTAGTGAATTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAG------gtaggttgagcgagattgtcctcaaaatctaaggtatgattggc Alignment from Spaln_aa2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAG taccatttgtataacccattccccagtgtcttgcttcttctttgctacagTTGGCCCTCCGCTGCTCACATTAGTGAATTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGgtaggttgagcgagattgtcctcaaaatctaaggtatgattggcatatgc Alignment from Spaln_nt2Genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAG taccatttgtataacccattccccagtgtcttgcttcttctttgctacagTTGGCCCTCCGCTGCTCACATTAGTGAATTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGgtaggttgagcgagattgtcctcaaaatctaaggtatgattggcatatgc Alignment from Pairagon TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAG taccatttgtataacccattccccagtgtcttgcttcttctttgctacagTTGGCCCTCCGCTGCTCACATTAGTGAATTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGgtaggttgagcgagattgtcctcaaaatctaaggtatgattggcatatgc Alignment from Exonerate_protein2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAG taccatttgtataacccattccccagtgtcttgcttcttctttgctacagTTGGCCCTCCGCTGCTCACATTAGTGAATTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGgtaggttgagcgagattgtcctcaaaatctaaggtatgattggcatatgc Alignment from Exonerate_coding2genome TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAG taccatttgtataacccattccccagtgtcttgcttcttctttgctacagTTGGCCCTCCGCTGCTCACATTAGTGAATTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATGCAGgtaggttgagcgagattgtcctcaaaatctaaggtatgattggcatatgc Alignment from GeneWise TTGGCCCTCCGCTGCTCACCTTGGTGAACTTTGAAGTTGAAAATCTGGCGTACATGCTGGTGTGCATGCAGTGGACG taccatttgtataacccattccccagtgtcttgcttcttctttgctacagTTGGCCCTCCGCTGCTCACATTAGTGAATTTTGAAGTTGAAAATCTGGCATACATGCTGGTATGCATG------CAGgtaggttgagcgagattgtcctcaaaatctaaggtatgattggcatatgc #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTC---------ag ttctggccccctaggtccccagcacaggagccttgtcaccttgctcctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGCTGTCGAAGAAGCTaggtattctgcaacatgctgtccacaaaaatccacttaggtcttgctgacat Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTC---------ag ttctggccccctaggtccccagcacaggagccttgtcaccttgctcctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGCTGTCGAAGAAGCTaggtattctgcaacatgctgtccacaaaaatccacttaggtcttgctgacat Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAGG-------- ttctggccccctaggtccccagcacaggagccttgtcaccttgctcctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGCTGTCGAAGAAGCTAGgtattctgcaacatgctgtccacaaaaatccacttaggtcttgctgacat Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTC---------AG ttctggccccctaggtccccagcacaggagccttgtcaccttgctcctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGCTGTCGAAGAAGCTAGgtattctgcaacatgctgtccacaaaaatccacttaggtcttgctgacat Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTC---------AG ttctggccccctaggtccccagcacaggagccttgtcaccttgctcctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGCTGTCGAAGAAGCTAGgtattctgcaacatgctgtccacaaaaatccacttaggtcttgctgacat Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctggccccctaggtccccagcacaggagccttgtcaccttgctcctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGCTGTCGAagaagctaggtattctgcaacatgctgtccacaaaaatccacttaggtcttgctgacat Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttctggccccctaggtccccagcacaggagccttgtcaccttgctcctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGCTGTCGAagaagctaggtattctgcaacatgctgtccacaaaaatccacttaggtcttgctgacat Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTC---------AG ttctggccccctaggtccccagcacaggagccttgtcaccttgctcctagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTTCTGTCCTACTCACCCTTCTATGGGGCCACTGGGACACTAATCCTCTTTGTTGCTGTCGAAGAAGCTAGgtattctgcaacatgctgtccacaaaaatccacttaggtcttgctgacat #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg tccatttatgctaaatctgacaagctccttgtatgtgaaattttcgacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGTCGTTACCTCAGTCAGTGGACCCCTTGGACATTGAAACTGTGGAGGCAGTA------gggtaaacccccatatccattctgtacatttggtgatgggtatcagggtttg Alignment from CESAR GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg tccatttatgctaaatctgacaagctccttgtatgtgaaattttcgacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGTCGTTACCTCAGTCAGTGGACCCCTTGGACATTGAAACTGTGGAGGCAGTA------gggtaaacccccatatccattctgtacatttggtgatgggtatcagggtttg Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAA tccatttatgctaaatctgacaagctccttgtatgtgaaattttcgacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGTCGTTACCTCAGTCAGTGGACCCCTTGGACATTGAAACTGTGGAGGCAGTAGGgtaaacccccatatccattctgtacatttggtgatgggtatcagggtttg Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG tccatttatgctaaatctgacaagctccttgtatgtgaaattttcgacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGTCGTTACCTCAGTCAGTGGACCCCTTGGACATTGAAACTGTGGAGGCAGT------AGGgtaaacccccatatccattctgtacatttggtgatgggtatcagggtttg Alignment from Pairagon GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCA tccatttatgctaaatctgacaagctccttgtatgtgaaattttcgacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGTCGTTACCTCAGTCAGTGGACCCCTTGGACATTGAAACTGTGGAGGCAgtagggtaaacccccatatccattctgtacatttggtgatgggtatcagggtttg Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAA tccatttatgctaaatctgacaagctccttgtatgtgaaattttcgacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGTCGTTACCTCAGTCAGTGGACCCCTTGGACATTGAAACTGTGGAGGCAGTAGGgtaaacccccatatccattctgtacatttggtgatgggtatcagggtttg Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAA tccatttatgctaaatctgacaagctccttgtatgtgaaattttcgacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGTCGTTACCTCAGTCAGTGGACCCCTTGGACATTGAAACTGTGGAGGCAGTAGGgtaaacccccatatccattctgtacatttggtgatgggtatcagggtttg Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAA tccatttatgctaaatctgacaagctccttgtatgtgaaattttcgacagGATGGCCGGATAGCTGTAAAGGCTTGCAAGGGTTCGATGCTCTTGGTGAGCCTACCAGAGCCCGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTGTGTGAGCTGCTGACTGGCAGACTCACCTCCCTGTACAAGTCGTTACCTCAGTCAGTGGACCCCTTGGACATTGAAACTGTGGAGGCAGTAGGgtaaacccccatatccattctgtacatttggtgatgggtatcagggtttg #### Fam160b1_ID12357_8 --> 1 - 0 Original Alignment gTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--------- tcctttgtccagatcttgtgaacctttaccccctcctctttcttcggcaggTTGGACTCATACAGCCACAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACATACGATgtatgtagcttgatattatcttcatagtgtttgtggtcattgagccgtct Alignment from CESAR gTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--------- tcctttgtccagatcttgtgaacctttaccccctcctctttcttcggcaggTTGGACTCATACAGCCACAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACATACGATgtatgtagcttgatattatcttcatagtgtttgtggtcattgagccgtct Alignment from Spaln_aa2Genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACTGCTGCTGTTG tcctttgtccagatcttgtgaacctttaccccctcctctttcttcggcagGTTGGACTCATACAGCCACAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACATACGATGTATgtagcttgatattatcttcatagtgtttgtggtcattgagccgtct Alignment from Spaln_nt2Genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGAC tcctttgtccagatcttgtgaacctttaccccctcctctttcttcggcagGTTGGACTCATACAGCCACAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACatacgatgtatgtagcttgatattatcttcatagtgtttgtggtcattgagccgtct Alignment from Pairagon GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG--------- tcctttgtccagatcttgtgaacctttaccccctcctctttcttcggcagGTTGGACTCATACAGCCACAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACATACGATgtatgtagcttgatattatcttcatagtgtttgtggtcattgagccgtct Alignment from Exonerate_protein2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tcctttgtccagatcttgtgaacctttaccccctcctctttcttcggcagGTTGGACTCATACAGCCACAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGacatacgatgtatgtagcttgatattatcttcatagtgtttgtggtcattgagccgtct Alignment from Exonerate_coding2genome GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tcctttgtccagatcttgtgaacctttaccccctcctctttcttcggcagGTTGGACTCATACAGCCACAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGacatacgatgtatgtagcttgatattatcttcatagtgtttgtggtcattgagccgtct Alignment from GeneWise GTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACT------ tcctttgtccagatcttgtgaacctttaccccctcctctttcttcggcagGTTGGACTCATACAGCCACAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGACATACGATgtatgtagcttgatattatcttcatagtgtttgtggtcattgagccgtct #### Fas_ID6925_6 --> 2 - 1 Original Alignment gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTg cagtgatctgtccatgcttaagaaaattcatgtcttcatataacttgtaggtCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCA---ggtacgtagcaaaggtgttcagggtgaatattaaagtaatgttgagaagta Alignment from CESAR gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTg cagtgatctgtccatgcttaagaaaattcatgtcttcatataacttgtaggtCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCA---ggtacgtagcaaaggtgttcagggtgaatattaaagtaatgttgagaagta Alignment from Spaln_aa2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCA- cagtgatctgtccatgcttaagaaaattcatgtcttcatataacttgtagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCAGgtacgtagcaaaggtgttcagggtgaatattaaagtaatgttgagaagta Alignment from Spaln_nt2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG cagtgatctgtccatgcttaagaaaattcatgtcttcatataacttgtagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCA---Ggtacgtagcaaaggtgttcagggtgaatattaaagtaatgttgagaagta Alignment from Pairagon GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG cagtgatctgtccatgcttaagaaaattcatgtcttcatataacttgtagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCA---Ggtacgtagcaaaggtgttcagggtgaatattaaagtaatgttgagaagta Alignment from Exonerate_protein2genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG cagtgatctgtccatgcttaagaaaattcatgtcttcatataacttgtagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCA---Ggtacgtagcaaaggtgttcagggtgaatattaaagtaatgttgagaagta Alignment from Exonerate_coding2genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG cagtgatctgtccatgcttaagaaaattcatgtcttcatataacttgtagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCA---Ggtacgtagcaaaggtgttcagggtgaatattaaagtaatgttgagaagta Alignment from GeneWise GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCAC cagtgatctgtccatgcttaagaaaattcatgtcttcatataacttgtagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCAGgtacgtagcaaaggtgttcagggtgaatattaaagtaatgttgagaagta #### Fbxl15_ID9850_2 --> 1 - 0 Original Alignment gCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG aatgcacttatcttgcaggcagctgtccagagacacacctcctttcccaga---------CTGCCTTGGGAAGATTTGCTGCTCCTGCATGTCCTAAACTGGGTCCCACTACGTCAACTGCTCCGGCTGCAGCAGGTGAGTAGAGCCTTTGGGGCACTTATTCAGTTGCATTTGGCCAGGTTGCGCCGCTTTGATGCTGCTCAGgtaagatggtgattgggggtgcccttgtccctgtgctgctttgataccaa Alignment from CESAR gCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tacactgtaaatgcacttatcttgctccagagacacacctcctttcccaga---------CTGCCTTGGGAAGATTTGCTGCTCCTGCATGTCCTAAACTGGGTCCCACTACGTCAACTGCTCCGGCTGCAGCAGGTGAGTAGAGCCTTTGGGGCACTTATTCAGTTGCATTTGGCCAGGTTGCGCCGCTTTGATGCTGCTCAGgtaagatggtgattgggggtgcccttgtccctgtgctgctttgataccaa Alignment from Spaln_aa2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG aatgcacttatcttgcaggcagctgtccagagacacacctcctttcccagA---------CTGCCTTGGGAAGATTTGCTGCTCCTGCATGTCCTAAACTGGGTCCCACTACGTCAACTGCTCCGGCTGCAGCAGGTGAGTAGAGCCTTTGGGGCACTTATTCAGTTGCATTTGGCCAGGTTGCGCCGCTTTGATGCTGCTCAGgtaagatggtgattgggggtgcccttgtccctgtgctgctttgataccaa Alignment from Spaln_nt2Genome GACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG aatgcacttatcttgcaggcagctgtccagagacacacctcctttcccag--ACTGCCTTGGGAAGATTTGCTGCTCCTGCATGTCCTAAACTGGGTCCCACTACGTCAACTGCTCCGGCTGCAGCAGGTGAGTAGAGCCTTTGGGGCACTTATTCAGTTGCATTTGGCCAGGTTGCGCCGCTTTGATGCTGCTCAGgtaagatggtgattgggggtgcccttgtccctgtgctgctttgataccaa Alignment from Pairagon GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG aatgcacttatcttgcaggcagctgtccagagacacacctcctttcccag---------ACTGCCTTGGGAAGATTTGCTGCTCCTGCATGTCCTAAACTGGGTCCCACTACGTCAACTGCTCCGGCTGCAGCAGGTGAGTAGAGCCTTTGGGGCACTTATTCAGTTGCATTTGGCCAGGTTGCGCCGCTTTGATGCTGCTCAGgtaagatggtgattgggggtgcccttgtccctgtgctgctttgataccaa Alignment from Exonerate_protein2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG aatgcacttatcttgcaggcagctgtccagagacacacctcctttcccagA---------CTGCCTTGGGAAGATTTGCTGCTCCTGCATGTCCTAAACTGGGTCCCACTACGTCAACTGCTCCGGCTGCAGCAGGTGAGTAGAGCCTTTGGGGCACTTATTCAGTTGCATTTGGCCAGGTTGCGCCGCTTTGATGCTGCTCAGgtaagatggtgattgggggtgcccttgtccctgtgctgctttgataccaa Alignment from Exonerate_coding2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG aatgcacttatcttgcaggcagctgtccagagacacacctcctttcccagA---------CTGCCTTGGGAAGATTTGCTGCTCCTGCATGTCCTAAACTGGGTCCCACTACGTCAACTGCTCCGGCTGCAGCAGGTGAGTAGAGCCTTTGGGGCACTTATTCAGTTGCATTTGGCCAGGTTGCGCCGCTTTGATGCTGCTCAGgtaagatggtgattgggggtgcccttgtccctgtgctgctttgataccaa Alignment from GeneWise -------AGGCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG aatgcacttatcttgcaggcagctgtccagagACACACCTCCTTTCCCAGACTGCCTTGGGAAGATTTGCTGCTCCTGCATGTCCTAAACTGGGTCCCACTACGTCAACTGCTCCGGCTGCAGCAGGTGAGTAGAGCCTTTGGGGCACTTATTCAGTTGCATTTGGCCAGGTTGCGCCGCTTTGATGCTGCTCAGgtaagatggtgattgggggtgcccttgtccctgtgctgctttgataccaa #### Fibp_ID1008_5 --> 1 - 1 Original Alignment gGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg aagtataagacagataaagagcatatcccttcataaattatgctttgtagg---TATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTCGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAggtaatgaagctccatacccctcatggtactagttatcttgtatcagtttc Alignment from CESAR gGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg ttcaagtataagacagataaagagctcccttcataaattatgctttgtagg---TATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTCGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAggtaatgaagctccatacccctcatggtactagttatcttgtatcagtttc Alignment from Spaln_aa2Genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG aagtataagacagataaagagcatatcccttcataaattatgctttgtagG---TATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTCGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtaatgaagctccatacccctcatggtactagttatcttgtatcagtttc Alignment from Spaln_nt2Genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG aagtataagacagataaagagcatatcccttcataaattatgctttgtagG---TATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTCGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtaatgaagctccatacccctcatggtactagttatcttgtatcagtttc Alignment from Pairagon GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG aagtataagacagataaagagcatatcccttcataaattatgctttgtagG---TATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTCGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtaatgaagctccatacccctcatggtactagttatcttgtatcagtttc Alignment from Exonerate_protein2genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG aagtataagacagataaagagcatatcccttcataaattatgctttgtagG---TATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTCGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtaatgaagctccatacccctcatggtactagttatcttgtatcagtttc Alignment from Exonerate_coding2genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG aagtataagacagataaagagcatatcccttcataaattatgctttgtagG---TATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTCGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtaatgaagctccatacccctcatggtactagttatcttgtatcagtttc Alignment from GeneWise GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG aagtataagacagataaagagcatatcccttcataaattatgctttgtagG---TATGCAGCTATTGTTTTCTTTGCCAATAATGACTTTGAAACTGGAAAAAAAAGGCTGCAGCACCTGAGCTTCGGGGACTTTGCCTTCTGTGCAGAACTCATGATCCAGAATTGGACCCTTGGGGCCATTGGTGAGGCCCCAACTGATCCAGgtaatgaagctccatacccctcatggtactagttatcttgtatcagtttc #### Fibp_ID1009_6 --> 2 - 2 Original Alignment ac------------TCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGag caatatccaagatgttttatgcatatgcgtgctgagttactctcttccagacGACATTGAGGTGCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGaggtgagcgtgggatacttgggagcctaggttacaacactcagtctatagaa Alignment from CESAR ac------------TCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGag caatatccaagatgttttatgcatatgcgtgctgagttactctcttccagacGACATTGAGGTGCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGaggtgagcgtgggatacttgggagcctaggttacaacactcagtctatagaa Alignment from Spaln_aa2Genome GTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caatatccaagatgttttatgcatatgcgtgctgagttactctcttccagacgacattgaggtgcctcagGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagcctaggttacaacactcagtctatagaa Alignment from Spaln_nt2Genome GTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caatatccaagatgttttatgcatatgcgtgctgagttactctcttccagacgacattgaggtgcctcagGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagcctaggttacaacactcagtctatagaa Alignment from Pairagon AC------------TCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caatatccaagatgttttatgcatatgcgtgctgagttactctcttccagACGACATTGAGGTGCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagcctaggttacaacactcagtctatagaa Alignment from Exonerate_protein2genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caatatccaagatgttttatgcatatgcgtgctgagttactctcttccagacgacattgaggTGCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagcctaggttacaacactcagtctatagaa Alignment from Exonerate_coding2genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caatatccaagatgttttatgcatatgcgtgctgagttactctcttccagacgacattgaggTGCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagcctaggttacaacactcagtctatagaa Alignment from GeneWise -----------GACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caatatccaagatgttttatgcatatgcgtgctgagttactctcttccagACGACATTGAGGTGCCTCAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTAGACCTGGACAAGAGgtgagcgtgggatacttgggagcctaggttacaacactcagtctatagaa #### Fibp_ID1011_8 --> 0 - 0 Original Alignment AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG--------- gcccacatgaaaagcaggaggcagaaccagtgaggttttcttcattccagAATCTGTCTAGAGGTCTGGTGAATGTGGCTGCCAAG------TGCAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGAGGTTTCCTAGGgtaagtagtgcttagatgtgtggcagtcacgggaccagtggcagtgcttg Alignment from CESAR AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG--------- gcccacatgaaaagcaggaggcagaaccagtgaggttttcttcattccagAATCTGTCTAGAGGTCTGGTGAATGTGGCTGCCAAG------TGCAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGAGGTTTCCTAGGgtaagtagtgcttagatgtgtggcagtcacgggaccagtggcagtgcttg Alignment from Spaln_aa2Genome AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAG---------AAG gcccacatgaaaagcaggaggcagaaccagtgaggttttcttcattccagAATCTGTCTAGAGGTCTGGTGAATGTGGCTGCCAAG------TGCAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGAGGTTTCCTAGGgtaagtagtgcttagatgtgtggcagtcacgggaccagtggcagtgcttg Alignment from Spaln_nt2Genome AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG gcccacatgaaaagcaggaggcagaaccagtgaggttttcttcattccagAATCTGTCTAGAGGTCTGGTGAATGTGGCTGCCAAG-TG-----CAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAG-AGgtttcctagggtaagtagtgcttagatgtgtggcagtcacgggaccagtggcagtgcttg Alignment from Pairagon AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG--------- gcccacatgaaaagcaggaggcagaaccagtgaggttttcttcattccagAATCTGTCTAGAGGTCTGGTGAATGTGGCTGCCAAG------TGCAATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGAGGTTTCCTAGGgtaagtagtgcttagatgtgtggcagtcacgggaccagtggcagtgcttg Alignment from Exonerate_protein2genome AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG gcccacatgaaaagcaggaggcagaaccagtgaggttttcttcattccagAATCTGTCTAGAGGTCTGGTGAATGTGGCTGCCAAGTGC------AATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGAGGtttcctagggtaagtagtgcttagatgtgtggcagtcacgggaccagtggcagtgcttg Alignment from Exonerate_coding2genome AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG gcccacatgaaaagcaggaggcagaaccagtgaggttttcttcattccagAATCTGTCTAGAGGTCTGGTGAATGTGGCTGCCAAGTGC------AATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGAGGtttcctagggtaagtagtgcttagatgtgtggcagtcacgggaccagtggcagtgcttg Alignment from GeneWise AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAGTTT------ gcccacatgaaaagcaggaggcagaaccagtgaggttttcttcattccagAATCTGTCTAGAGGTCTGGTGAATGTGGCTGCCAAGTGC------AATAAGGATGTCAGAGTCTTATTCGTAGACCTTTTGGAGAGGTTTCCTAGGgtaagtagtgcttagatgtgtggcagtcacgggaccagtggcagtgcttg #### Frmd8_ID1284_4 --> 2 - 0 Original Alignment at------------------GAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG ggctgcctcagcctagggaactaggataccatctttatgactttctttagatAAAAACTGCTATTTGCTAGAGCCTTCCCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGACAGCGTGAGCTCCAGgtgacccaggacttggggaatatcacagtgttccagtatgtccatgccag Alignment from CESAR at------------------GAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG ggctgcctcagcctagggaactaggataccatctttatgactttctttagatAAAAACTGCTATTTGCTAGAGCCTTCCCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGACAGCGTGAGCTCCAGgtgacccaggacttggggaatatcacagtgttccagtatgtccatgccag Alignment from Spaln_aa2Genome CAGGGAAGCTACACCGTGGTGCAGCCCACCGACGACAGCCTGGAGCAGAGC ccacctattcccctaagttatgttggaacctagatgtctgcttttttgcag Alignment from Spaln_nt2Genome AGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG ggctgcctcagcctagggaactaggataccatctttatgactttctttagataaaaactgctatttgctagAGCCTTCCCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGACAGCGTGAGCTCCAGgtgacccaggacttggggaatatcacagtgttccagtatgtccatgccag Alignment from Pairagon AT------------------GAGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG ggctgcctcagcctagggaactaggataccatctttatgactttctttagATAAAAACTGCTATTTGCTAGAGCCTTCCCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGACAGCGTGAGCTCCAGgtgacccaggacttggggaatatcacagtgttccagtatgtccatgccag Alignment from Exonerate_protein2genome AGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG ggctgcctcagcctagggaactaggataccatctttatgactttctttagataaaaactgctatttgctagAGCCTTCCCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGACAGCGTGAGCTCCAGgtgacccaggacttggggaatatcacagtgttccagtatgtccatgccag Alignment from Exonerate_coding2genome AGCCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG ggctgcctcagcctagggaactaggataccatctttatgactttctttagataaaaactgctatttgctagAGCCTTCCCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGACAGCGTGAGCTCCAGgtgacccaggacttggggaatatcacagtgttccagtatgtccatgccag Alignment from GeneWise --CCTTCCCTTCAGTTCCGAAGGAATGTTTTTTTCCCAAGGCGCCGAGAGCTCCAG ggctgcctcagcctagggaactaggataccatctttatgactttctttagataaaaactgctatttgctagAGCCTTCCCTTCACTTCCGAAGGAATGTTTTTTTCCCCAGACAGCGTGAGCTCCAGgtgacccaggacttggggaatatcacagtgttccagtatgtccatgccag #### Fth1_ID2623_2 --> 0 - 0 Original Alignment ------TCTTGTTATTTTGACCGAGATGATGTGGCTCTGAAGAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGCTGCAGAACCAGCGAGGTGGCCGAATCTTCCTGCAGGATATAAAG agtactattccctgttgaagactggcaattacctgtctgggtctctacagATGTGTTCTTGTTATTTCGATCGAGATGATGTGGCTCTGAAAAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGTTGCGGAACCAGCGAGGGGGCCGAATTTTCCTGCAGGATATAAAGgtcagtaggagcggttctactctgattcagtaaatgatgatgtgttgagg Alignment from CESAR ------TCTTGTTATTTTGACCGAGATGATGTGGCTCTGAAGAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGCTGCAGAACCAGCGAGGTGGCCGAATCTTCCTGCAGGATATAAAG agtactattccctgttgaagactggcaattacctgtctgggtctctacagATGTGTTCTTGTTATTTCGATCGAGATGATGTGGCTCTGAAAAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGTTGCGGAACCAGCGAGGGGGCCGAATTTTCCTGCAGGATATAAAGgtcagtaggagcggttctactctgattcagtaaatgatgatgtgttgagg Alignment from Spaln_aa2Genome TCTTGTTAT------TTTGACCGAGATGATGTGGCTCTGAAGAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGCTGCAGAACCAGCGAGGTGGCCGAATCTTCCTGCAGGATATAAAG agtactattccctgttgaagactggcaattacctgtctgggtctctacagATGTGTTCTTGTTATTTCGATCGAGATGATGTGGCTCTGAAAAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGTTGCGGAACCAGCGAGGGGGCCGAATTTTCCTGCAGGATATAAAGgtcagtaggagcggttctactctgattcagtaaatgatgatgtgttgagg Alignment from Spaln_nt2Genome TCTTGTTAT------TTTGACCGAGATGATGTGGCTCTGAAGAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGCTGCAGAACCAGCGAGGTGGCCGAATCTTCCTGCAGGATATAAAG agtactattccctgttgaagactggcaattacctgtctgggtctctacagATGTGTTCTTGTTATTTCGATCGAGATGATGTGGCTCTGAAAAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGTTGCGGAACCAGCGAGGGGGCCGAATTTTCCTGCAGGATATAAAGgtcagtaggagcggttctactctgattcagtaaatgatgatgtgttgagg Alignment from Pairagon ------TCTTGTTATTTTGACCGAGATGATGTGGCTCTGAAGAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGCTGCAGAACCAGCGAGGTGGCCGAATCTTCCTGCAGGATATAAAG agtactattccctgttgaagactggcaattacctgtctgggtctctacagATGTGTTCTTGTTATTTCGATCGAGATGATGTGGCTCTGAAAAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGTTGCGGAACCAGCGAGGGGGCCGAATTTTCCTGCAGGATATAAAGgtcagtaggagcggttctactctgattcagtaaatgatgatgtgttgagg Alignment from Exonerate_protein2genome ------TCTTGTTATTTTGACCGAGATGATGTGGCTCTGAAGAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGCTGCAGAACCAGCGAGGTGGCCGAATCTTCCTGCAGGATATAAAG agtactattccctgttgaagactggcaattacctgtctgggtctctacagATGTGTTCTTGTTATTTCGATCGAGATGATGTGGCTCTGAAAAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGTTGCGGAACCAGCGAGGGGGCCGAATTTTCCTGCAGGATATAAAGgtcagtaggagcggttctactctgattcagtaaatgatgatgtgttgagg Alignment from Exonerate_coding2genome ------TCTTGTTATTTTGACCGAGATGATGTGGCTCTGAAGAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGCTGCAGAACCAGCGAGGTGGCCGAATCTTCCTGCAGGATATAAAG agtactattccctgttgaagactggcaattacctgtctgggtctctacagATGTGTTCTTGTTATTTCGATCGAGATGATGTGGCTCTGAAAAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGTTGCGGAACCAGCGAGGGGGCCGAATTTTCCTGCAGGATATAAAGgtcagtaggagcggttctactctgattcagtaaatgatgatgtgttgagg Alignment from GeneWise ------TCTTGTTATTTTGACCGAGATGATGTGGCTCTGAAGAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGCTGCAGAACCAGCGAGGTGGCCGAATCTTCCTGCAGGATATAAAG agtactattccctgttgaagactggcaattacctgtctgggtctctacagATGTGTTCTTGTTATTTCGATCGAGATGATGTGGCTCTGAAAAACTTTGCCAAATACTTTCTCCACCAATCTCATGAGGAGAGGGAGCATGCCGAGAAACTGATGAAGTTGCGGAACCAGCGAGGGGGCCGAATTTTCCTGCAGGATATAAAGgtcagtaggagcggttctactctgattcagtaaatgatgatgtgttgagg #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- tgctggctaggactaatgattaggatgatgtggaagcccatcgcccccagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCGCTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGACCCCCATCATACAGGCgtaagaaccagttggttggaggagatgaattgctaggacctggggagacc Alignment from CESAR AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- tgctggctaggactaatgattaggatgatgtggaagcccatcgcccccagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCGCTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGACCCCCATCATACAGGCgtaagaaccagttggttggaggagatgaattgctaggacctggggagacc Alignment from Spaln_aa2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- tgctggctaggactaatgattaggatgatgtggaagcccatcgcccccagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCGCTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGACCCCCATCATACAGGCgtaagaaccagttggttggaggagatgaattgctaggacctggggagacc Alignment from Spaln_nt2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCA---------C tgctggctaggactaatgattaggatgatgtggaagcccatcgcccccagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCGCTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGACCCCCATCATACAGGCgtaagaaccagttggttggaggagatgaattgctaggacctggggagacc Alignment from Pairagon AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCA---------C tgctggctaggactaatgattaggatgatgtggaagcccatcgcccccagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCGCTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGACCCCCATCATACAGGCgtaagaaccagttggttggaggagatgaattgctaggacctggggagacc Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggctaggactaatgattaggatgatgtggaagcccatcgcccccagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCGCTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGACCCCCATcatacaggcgtaagaaccagttggttggaggagatgaattgctaggacctggggagacc Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgctggctaggactaatgattaggatgatgtggaagcccatcgcccccagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCGCTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGACCCCCATcatacaggcgtaagaaccagttggttggaggagatgaattgctaggacctggggagacc Alignment from GeneWise AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- tgctggctaggactaatgattaggatgatgtggaagcccatcgcccccagAAACCGGACCGTGATGACTGGGAGAGTGGGCTGAATGGAATGGAGTGTGCGCTGCACTTGGAAAAGAGTGTGAATCAGTCACTGCTGGAGCTGCACAAACTGGCAACTGACAAGAATGACCCCCATCATACAGGCgtaagaaccagttggttggaggagatgaattgctaggacctggggagacc #### Gal_ID62_4 --> 2 - 1 Original Alignment gaAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAA---g ataggggggggtcaggaagtggctgtaatgacactgctctgtcctttcagggAGTGTTGATGTGCCCCTGCCCGAAAGTATCATTGTTCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAACAGggtgagttgacaacctttctctagagtgtctacattgattggctgccttca Alignment from CESAR gaAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAA---g ataggggggggtcaggaagtggctgtaatgacactgctctgtcctttcagggAGTGTTGATGTGCCCCTGCCCGAAAGTATCATTGTTCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAACAGggtgagttgacaacctttctctagagtgtctacattgattggctgccttca Alignment from Spaln_aa2Genome GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAA---G ataggggggggtcaggaagtggctgtaatgacactgctctgtcctttcagGGAGTGTTGATGTGCCCCTGCCCGAAAGTATCATTGTTCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAACAGGgtgagttgacaacctttctctagagtgtctacattgattggctgccttca Alignment from Spaln_nt2Genome GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAA---G ataggggggggtcaggaagtggctgtaatgacactgctctgtcctttcagGGAGTGTTGATGTGCCCCTGCCCGAAAGTATCATTGTTCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAACAGGgtgagttgacaacctttctctagagtgtctacattgattggctgccttca Alignment from Pairagon GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAAGAGG ataggggggggtcaggaagtggctgtaatgacactgctctgtcctttcagGGAGTGTTGATGTGCCCCTGCCCGAAAGTATCATTGTTCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAACAGGgtgagttgacaacctttctctagagtgtctacattgattggctgccttca Alignment from Exonerate_protein2genome GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAA---G ataggggggggtcaggaagtggctgtaatgacactgctctgtcctttcagGGAGTGTTGATGTGCCCCTGCCCGAAAGTATCATTGTTCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAACAGGgtgagttgacaacctttctctagagtgtctacattgattggctgccttca Alignment from Exonerate_coding2genome GAAGTGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAA---G ataggggggggtcaggaagtggctgtaatgacactgctctgtcctttcagGGAGTGTTGATGTGCCCCTGCCCGAAAGTATCATTGTTCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAACAGGgtgagttgacaacctttctctagagtgtctacattgattggctgccttca Alignment from GeneWise TGTTGATGTGCCCCTGCCTGAGAGCAACATTGTCCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAAGAG- ataggggggggtcaggaagtggctgtaatgacactgctctgtcctttcagggagTGTTGATGTGCCCCTGCCCGAAAGTATCATTGTTCGCACTATAATGGAGTTTCTCAGTTTCTTGCACCTTAAACAGGgtgagttgacaacctttctctagagtgtctacattgattggctgccttca #### Ganab_ID2469_8 --> 0 - 1 Original Alignment ------CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg taccttgggagtggagggtgcaagtgggcctgtccctgtccttcactcagCTCCCTCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtactgaattcggcaggcccgaagagtcggttatctcctttgtttctgta Alignment from CESAR ------CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg taccttgggagtggagggtgcaagtgggcctgtccctgtccttcactcagCTCCCTCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtactgaattcggcaggcccgaagagtcgtctaagcttcatctcctttta Alignment from Spaln_aa2Genome CCAGAGGAG------ACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG taccttgggagtggagggtgcaagtgggcctgtccctgtccttcactcagCTCCCTCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaattcggcaggcccgaagagtcggttatctcctttgtttctgta Alignment from Spaln_nt2Genome CCAGAGGAG------ACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG taccttgggagtggagggtgcaagtgggcctgtccctgtccttcactcagCTCCCTCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaattcggcaggcccgaagagtcggttatctcctttgtttctgta Alignment from Pairagon ------CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG taccttgggagtggagggtgcaagtgggcctgtccctgtccttcactcagCTCCCTCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaattcggcaggcccgaagagtcggttatctcctttgtttctgta Alignment from Exonerate_protein2genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG taccttgggagtggagggtgcaagtgggcctgtccctgtccttcactcagctccctCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaattcggcaggcccgaagagtcggttatctcctttgtttctgta Alignment from Exonerate_coding2genome CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG taccttgggagtggagggtgcaagtgggcctgtccctgtccttcactcagctccctCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtactgaattcggcaggcccgaagagtcggttatctcctttgtttctgta Alignment from GeneWise ------CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTAT--------------------------------------------------- taccttgggagtggagggtgcaagtgggcctgtccctgtccttcactcagCTCCCTCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGGTACTGAATTCGGCAGGCCCGAAGAGTCGGTTATCTCCTTTGTTTCTGTA #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT------------------ga tgaggaattcggcaggcccgaagagtcgtctaagcttcatctccttttaggtCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTAATGCTTGCTTCCCATGTgagtaagaccatgctaaatcgggttaacaaaggtaatgaaaaaccaaacttt Alignment from CESAR gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT------------------ga tactgaattcggcaggcccgaagagtcgtctaagcttcatctccttttaggtCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTAATGCTTGCTTCCCATGTgagtaagaccatgctaaatcgggttaacaaaggtaatgaaaaaccaaacttt Alignment from Spaln_aa2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGAG---G tgaggaattcggcaggcccgaagagtcgtctaagcttcatctccttttagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTAATGCTTgcttcccatgtgagtaagaccatgctaaatcgggttaacaaaggtaatgaaaaaccaaacttt Alignment from Spaln_nt2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGAG tgaggaattcggcaggcccgaagagtcgtctaagcttcatctccttttagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTAATgcttgcttcccatgtgagtaagaccatgctaaatcgggttaacaaaggtaatgaaaaaccaaacttt Alignment from Pairagon GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCAC------------------TGA tgaggaattcggcaggcccgaagagtcgtctaagcttcatctccttttagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTAATGCTTGCTTCCCATGTGAgtaagaccatgctaaatcgggttaacaaaggtaatgaaaaaccaaacttt Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGAGG tgaggaattcggcaggcccgaagagtcgtctaagcttcatctccttttagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTAATGcttgcttcccatgtgagtaagaccatgctaaatcgggttaacaaaggtaatgaaaaaccaaacttt Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGAGG tgaggaattcggcaggcccgaagagtcgtctaagcttcatctccttttagGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTAATGcttgcttcccatgtgagtaagaccatgctaaatcgggttaacaaaggtaatgaaaaaccaaacttt Alignment from GeneWise -------------------------------------------------GGCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACT------------------GA TGAGGAATTCGGCAGGCCCGAAGAGTCGTCTAAGCTTCATCTCCTTTTAGGTCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGCATATGGGATCCCTGAACATGCTGACAGCTTGAGACTGAAGGTTACTAATGCTTGCTTCCCATGTGAgtaagaccatgctaaatcgggttaacaaaggtaatgaaaaaccaaacttt #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG atcagtggtgggagtcgagtgttgcctggcgcacatggtctctctttcaggg---------------------------CTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAAGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAAAGGCGGAAGgtaaggggatgctgcagctgtgtgggtgcctcttgtccagtgttggggat Alignment from CESAR ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG tacaaagtattacacttttaccagcctggcgcacatggtctctctttcaggg---------------------------CTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAAGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAAAGGCGGAAGgtaaggggatgctgcagctgtgtgggtgcctcttgtccagtgttggggat Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCC---------CCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG atcagtggtgggagTCGAGTGTTGCCTGGCGCACATGGTCTCTCTTTCAGGGCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAAGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAAAGGCGGAAGgtaaggggatgctgcagctgtgtgggtgcctcttgtccagtgttggggat Alignment from Spaln_nt2Genome TTCT CCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ATCAgtggtgggagtcgagtgttgcctggcgcacatggtctctctttcagGGCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAAGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAAAGGCGGAAGgtaaggggatgctgcagctgtgtgggtgcctcttgtccagtgttggggat Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG atcagtggtgggagtcgagtgttgcctggcgcacatggtctctctttcagGG---------------------------CTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAAGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAAAGGCGGAAGgtaaggggatgctgcagctgtgtgggtgcctcttgtccagtgttggggat Alignment from Exonerate_protein2genome CAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG atcagtggtgggagtcgagtgttgcctgGCGCACATGGTCTCTCTTTCAGGGCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAAGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAAAGGCGGAAGgtaaggggatgctgcagctgtgtgggtgcctcttgtccagtgttggggat Alignment from Exonerate_coding2genome CAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG atcagtggtgggagtcgagtgttgcctgGCGCACATGGTCTCTCTTTCAGGGCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAAGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAAAGGCGGAAGgtaaggggatgctgcagctgtgtgggtgcctcttgtccagtgttggggat Alignment from GeneWise --------------------------------------CCACTCTTC--TCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG ATCAGTGGTGGGAGTCGAGTGTTGCCTGGCGCACATGGTCTCTCTTTCAGGGCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATATCTTGGAAGTAGGCCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGATGTTGAACACGCTGATGGCAAGAGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAAAGGCGGAAGgtaaggggatgctgcagctgtgtgggtgcctcttgtccagtgttggggat #### Ganab_ID2476_15 --> 0 - 0 Original Alignment GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttacatgtctctatatctatgtctattcag---TCAGCTCCTAATCTGTATGTCTGGATTGACATGAATGAACCCTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtatagcaggcaaaggagaaggcagtaaggcaaagagaatcaaacagttg Alignment from CESAR GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG agtaatctcctttttctcccccttttgtctctatatctatgtctattcag---TCAGCTCCTAATCTGTATGTCTGGATTGACATGAATGAACCCTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtatagcaggcaaaggagaaggcagtaaggcaaagagaatcaaacagttg Alignment from Spaln_aa2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttacatgtctctatatctatgtctattcag---TCAGCTCCTAATCTGTATGTCTGGATTGACATGAATGAACCCTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtatagcaggcaaaggagaaggcagtaaggcaaagagaatcaaacagttg Alignment from Spaln_nt2Genome GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttacatgtctctatatctatgtctattcag---TCAGCTCCTAATCTGTATGTCTGGATTGACATGAATGAACCCTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtatagcaggcaaaggagaaggcagtaaggcaaagagaatcaaacagttg Alignment from Pairagon GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttacatgtctctatatctatgtctattcag---TCAGCTCCTAATCTGTATGTCTGGATTGACATGAATGAACCCTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtatagcaggcaaaggagaaggcagtaaggcaaagagaatcaaacagttg Alignment from Exonerate_protein2genome TCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttacatgtctctatatctatgtctattcagTCAGCTCCTAATCTGTATGTCTGGATTGACATGAATGAACCCTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtatagcaggcaaaggagaaggcagtaaggcaaagagaatcaaacagttg Alignment from Exonerate_coding2genome TCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttacatgtctctatatctatgtctattcagTCAGCTCCTAATCTGTATGTCTGGATTGACATGAATGAACCCTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtatagcaggcaaaggagaaggcagtaaggcaaagagaatcaaacagttg Alignment from GeneWise GGTTCAGCTCCTAATCTTTATGTTTGGAATGACATGAATGAACCGTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCTGTGCATTATGGAGGCTGGGAGCACCGGGACATCCATAACATCTATGGCTTATATGTG aatctcctttttctccccctttacatgtctctatatctatgtctattcagTCA---GCTCCTAATCTGTATGTCTGGATTGACATGAATGAACCCTCTGTGTTCAATGGTCCTGAGGTCACCATGTTGAAGGATGCAGTGCATTATGGGGGCTGGGAGCACCGGGACATCCATAATTTTTATGGCTTATATGTGgtatagcaggcaaaggagaaggcagtaaggcaaagagaatcaaacagttg #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gtGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA--------- ggttgcataagtgtgtataacattgtatcttctatatctattttttccaggtGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAACCTAGAGGTgtaaggcaccaaatatagcagcccaagggacccaaaaggacaaaaacata Alignment from CESAR gtGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA--------- ggttgcataagtgtgtataacattgtatcttctatatctattttttccaggtGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAACCTAGAGGTgtaaggcaccaaatatagcagcccaagggacccaaaaggacaaaaacata Alignment from Spaln_aa2Genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA--------- ggttgcataagtgtgtataacattgtatcttctatatctattttttccagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAACCTAGAGGTgtaaggcaccaaatatagcagcccaagggacccaaaaggacaaaaacata Alignment from Spaln_nt2Genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA------- ggttgcataagtgtgtataacattgtatcttctatatctattttttccagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAACCTAGAGgtgtaaggcaccaaatatagcagcccaagggacccaaaaggacaaaaacata Alignment from Pairagon GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA--------- ggttgcataagtgtgtataacattgtatcttctatatctattttttccagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAACCTAGAGGTgtaaggcaccaaatatagcagcccaagggacccaaaaggacaaaaacata Alignment from Exonerate_protein2genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtataacattgtatcttctatatctattttttccagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAcctagaggtgtaaggcaccaaatatagcagcccaagggacccaaaaggacaaaaacata Alignment from Exonerate_coding2genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggttgcataagtgtgtataacattgtatcttctatatctattttttccagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAAcctagaggtgtaaggcaccaaatatagcagcccaagggacccaaaaggacaaaaacata Alignment from GeneWise GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA--------- ggttgcataagtgtgtataacattgtatcttctatatctattttttccagGTGACACACTCCTTATTCATCCTGTATCAGATGCTGGGGCCCATGGAGTGCAGGTCTATTTGCCCGGCCAAGAAGAACCTAGAGGTgtaaggcaccaaatatagcagcccaagggacccaaaaggacaaaaacata #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtgtacttggaaggcatgaagtacacttcttgcttgtacttgtggtccagATCCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTTTTC------------------gtattcatccaatcactcactggcggcgggggcaatagggctggcttaat Alignment from CESAR ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtgtacttggaaggcatgaagtacacttcttgcttgtacttgtggtccagATCCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTTTTC------------------gtattcatccaatcactcactggcggcggggg Alignment from Spaln_aa2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTT gtgtacttggaaggcatgaagtacacttcttgcttgtacttgtggtccagATCCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTTTTCgtattcatccaatcactcactggcggcgggggcaatagggctggcttaat Alignment from Spaln_nt2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGC gtgtacttggaaggcatgaagtacacttcttgcttgtacttgtggtccagATCCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCT-----TTTCgtattcatccaatcactcactggcggcgggggcaatagggctggcttaat Alignment from Pairagon ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTT gtgtacttggaaggcatgaagtacacttcttgcttgtacttgtggtccagATCCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTTTTCgtattcatccaatcactcactggcggcgggggcaatagggctggcttaat Alignment from Exonerate_protein2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCC gtgtacttggaaggcatgaagtacacttcttgcttgtacttgtggtccagATCCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTTTTCGTATTCATCCAATCActcactggcggcgggggcaatagggctggcttaat Alignment from Exonerate_coding2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCC gtgtacttggaaggcatgaagtacacttcttgcttgtacttgtggtccagATCCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTTTTCGTATTCATCCAATCActcactggcggcgggggcaatagggctggcttaat Alignment from GeneWise ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTT gtgtacttggaaggcatgaagtacacttcttgcttgtacttgtggtccagATCCCTGTGTTCCAGCGGGGTGGAACCATTGTGCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTTTTCgtattcatccaatcactcactggcggcgggggcaatagggctggcttaat #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg atcaccagccataagtttttgatgaatgctgccagcctcctcccttctagctGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATGCACGAGGTCTTTATTTTCCCAGTGGAGGGTGGTTG---ACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGT---------cgtaggtatgtttcccttatccagtatattgtctctaactgagcctcccag Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg atcaccagccataagtttttgatgaatgctgccagcctcctcccttctagctGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATGCACGAGGTCTTTATTTTCCCAGTGGAGGGTGGTTG---ACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGT---------cgtaggtatgtttcccttatccagtatattgtctctaactgagcctcccag Alignment from Spaln_aa2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGT- atcaccagccataagtttttgatgaatgctgccagcctcctcccttctagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATGCACGAGGTCTTTATTTTCCCAGTGGAGGGTGGTTG---ACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTCgtaggtatgtttcccttatccagtatattgtctctaactgagcctcccag Alignment from Spaln_nt2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGT- atcaccagccataagtttttgatgaatgctgccagcctcctcccttctagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATGCACGAGGTCTTTATTTTCCCAGTGGAGGGTGGTTG---ACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTCgtaggtatgtttcccttatccagtatattgtctctaactgagcctcccag Alignment from Pairagon CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTG atcaccagccataagtttttgatgaatgctgccagcctcctcccttctagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATGCACGAGGTCTTTATTTTCCCAGTGGAGGGTGGTTG---ACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTCgtaggtatgtttcccttatccagtatattgtctctaactgagcctcccag Alignment from Exonerate_protein2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTC atcaccagccataagtttttgatgaatgctgccagcctcctcccttctagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATGCACGAGGTCTTTATTTTCCCAGTGGAGGGTGGTTG---ACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTCGTAGgtatgtttcccttatccagtatattgtctctaactgagcctcccag Alignment from Exonerate_coding2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTC atcaccagccataagtttttgatgaatgctgccagcctcctcccttctagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATGCACGAGGTCTTTATTTTCCCAGTGGAGGGTGGTTG---ACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTCGTAGgtatgtttcccttatccagtatattgtctctaactgagcctcccag Alignment from GeneWise CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGT- atcaccagccataagtttttgatgaatgctgccagcctcctcccttctagCTGAGAGAGCGACCAGTGATGGGAAATCCACAGGGGTGGCCTTGGATGCACGAGGTCTTTATTTTCCCAGTGGAGGGTGGTTG---ACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCAGGTCgtaggtatgtttcccttatccagtatattgtctctaactgagcctcccag #### Gbf1_ID9798_17 --> 0 - 2 Original Alignment CTGCTGATCACTGGTACAGAGCAGTTCAACCAAAAACCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGCCTCCTCACCATCCCAATGGATAACACGGAGGTAGCCCAATGGCTCCGAGAAAACCCTCGGTTAGACAAAAAAATGATTGGAGAGTTTGTGAGTGACCGCAAAAACATGGACCTGTTGGAGAGTTTTGTGag tacttgaaactttagaaggatttaatttttattgtgggttttatctctag------AGCACTGGTACAGAGCAGTTCAACCAAAAGCCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGTCTCCTCACCATTCCTATGGATAACACAGAAGTAGCCCAATGGCTCCAAGGAAACCCTCGGTTAGACAAAAAGATGATTGGAGAATTTGTGAGTGACCGCAAAATTATTGACCTATTGGAGAGTTTTGTGaggtgaggaaggattttaggcattgggctaagttagctggcacattaatagg Alignment from CESAR CTGCTGATCACTGGTACAGAGCAGTTCAACCAAAAACCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGCCTCCTCACCATCCCAATGGATAACACGGAGGTAGCCCAATGGCTCCGAGAAAACCCTCGGTTAGACAAAAAAATGATTGGAGAGTTTGTGAGTGACCGCAAAAACATGGACCTGTTGGAGAGTTTTGTGag taatcttacttgaaactttagaaggtttttattgtgggttttatctctag------AGCACTGGTACAGAGCAGTTCAACCAAAAGCCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGTCTCCTCACCATTCCTATGGATAACACAGAAGTAGCCCAATGGCTCCAAGGAAACCCTCGGTTAGACAAAAAGATGATTGGAGAATTTGTGAGTGACCGCAAAATTATTGACCTATTGGAGAGTTTTGTGaggtgaggaaggattttaggcattgggctaagttagctggcacattaatagg Alignment from Spaln_aa2Genome CTGCTGATCACTGGTACAGAGCAGTTCAACCAAAAACCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGCCTCCTCACCATCCCAATGGATAACACGGAGGTAGCCCAATGGCTCCGAGAAAACCCTCGGTTAGACAAAAAAATGATTGGAGAGTTTGTGAGTGACCGCAAAAACATGGACCTGTTGGAGAGTTTTGTGAG tacttgaaactttagaaggatttaatttttattgtgggttttatctctag------AGCACTGGTACAGAGCAGTTCAACCAAAAGCCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGTCTCCTCACCATTCCTATGGATAACACAGAAGTAGCCCAATGGCTCCAAGGAAACCCTCGGTTAGACAAAAAGATGATTGGAGAATTTGTGAGTGACCGCAAAATTATTGACCTATTGGAGAGTTTTGTGAGgtgaggaaggattttaggcattgggctaagttagctggcacattaatagg Alignment from Spaln_nt2Genome CTGCTGATCACTGGTACAGAGCAGTTCAACCAAAAACCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGCCTCCTCACCATCCCAATGGATAACACGGAGGTAGCCCAATGGCTCCGAGAAAACCCTCGGTTAGACAAAAAAATGATTGGAGAGTTTGTGAGTGACCGCAAAAACATGGACCTGTTGGAGAGTTTTGTGAG tacttgaaactttagaaggatttaatttttattgtgggttttatctctag------AGCACTGGTACAGAGCAGTTCAACCAAAAGCCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGTCTCCTCACCATTCCTATGGATAACACAGAAGTAGCCCAATGGCTCCAAGGAAACCCTCGGTTAGACAAAAAGATGATTGGAGAATTTGTGAGTGACCGCAAAATTATTGACCTATTGGAGAGTTTTGTGAGgtgaggaaggattttaggcattgggctaagttagctggcacattaatagg Alignment from Pairagon CTGCTGATCACTGGTACAGAGCAGTTCAACCAAAAACCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGCCTCCTCACCATCCCAATGGATAACACGGAGGTAGCCCAATGGCTCCGAGAAAACCCTCGGTTAGACAAAAAAATGATTGGAGAGTTTGTGAGTGACCGCAAAAACATGGACCTGTTGGAGAGTTTTGTGAG tacttgaaactttagaaggatttaatttttattgtgggttttatctctag------AGCACTGGTACAGAGCAGTTCAACCAAAAGCCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGTCTCCTCACCATTCCTATGGATAACACAGAAGTAGCCCAATGGCTCCAAGGAAACCCTCGGTTAGACAAAAAGATGATTGGAGAATTTGTGAGTGACCGCAAAATTATTGACCTATTGGAGAGTTTTGTGAGgtgaggaaggattttaggcattgggctaagttagctggcacattaatagg Alignment from Exonerate_protein2genome CTGCTGATCACTGGTACAGAGCAGTTCAACCAAAAACCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGCCTCCTCACCATCCCAATGGATAACACGGAGGTAGCCCAATGGCTCCGAGAAAACCCTCGGTTAGACAAAAAAATGATTGGAGAGTTTGTGAGTGACCGCAAAAACATGGACCTGTTGGAGAGTTTTGTGAG tacttgaaactttagaaggatttaatttttattgtgggttttatCTCTAGAGCACTGGTACAGAGCAGTTCAACCAAAAGCCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGTCTCCTCACCATTCCTATGGATAACACAGAAGTAGCCCAATGGCTCCAAGGAAACCCTCGGTTAGACAAAAAGATGATTGGAGAATTTGTGAGTGACCGCAAAATTATTGACCTATTGGAGAGTTTTGTGAGgtgaggaaggattttaggcattgggctaagttagctggcacattaatagg Alignment from Exonerate_coding2genome CTGCTGATCACTGGTACAGAGCAGTTCAACCAAAAACCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGCCTCCTCACCATCCCAATGGATAACACGGAGGTAGCCCAATGGCTCCGAGAAAACCCTCGGTTAGACAAAAAAATGATTGGAGAGTTTGTGAGTGACCGCAAAAACATGGACCTGTTGGAGAGTTTTGTGAG tacttgaaactttagaaggatttaatttttattgtgggttttatCTCTAGAGCACTGGTACAGAGCAGTTCAACCAAAAGCCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGTCTCCTCACCATTCCTATGGATAACACAGAAGTAGCCCAATGGCTCCAAGGAAACCCTCGGTTAGACAAAAAGATGATTGGAGAATTTGTGAGTGACCGCAAAATTATTGACCTATTGGAGAGTTTTGTGAGgtgaggaaggattttaggcattgggctaagttagctggcacattaatagg Alignment from GeneWise CTGCTGATCACTGGTACAGAGCAGTTCAACCAAAAACCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGCCTCCTCACCATCCCAATGGATAACACGGAGGTAGCCCAATGGCTCCGAGAAAACCCTCGGTTAGACAAAAAAATGATTGGAGAGTTTGTGAGTGACCGCAAAAACATGGACCTGTTGGAGAGTTTTGTGAG tacttgaaactttagaaggatttaatttttattgtgggttttatctctagAGC------ACTGGTACAGAGCAGTTCAACCAAAAGCCAAAGAAGGGGATCCAATTTCTGCAGGAGAAAGGTCTCCTCACCATTCCTATGGATAACACAGAAGTAGCCCAATGGCTCCAAGGAAACCCTCGGTTAGACAAAAAGATGATTGGAGAATTTGTGAGTGACCGCAAAATTATTGACCTATTGGAGAGTTTTGTGAGgtgaggaaggattttaggcattgggctaagttagctggcacattaatagg #### Gbf1_ID9799_18 --> 1 - 0 Original Alignment cACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- tggttcattgtttcaaatctctgcaagttcttgtggctggttcctcacagtACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGTCTgtgagaaatgctagagacgaattgtaatgtaggaatcactaacaaaggac Alignment from CESAR cACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- tggttcattgtttcaaatctctgcaagttcttgtggctggttcctcacagtACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGTCTgtgagaaatgctagagacgaattgtaatgtaggaatcactaacaaaggac Alignment from Spaln_aa2Genome CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- tggttcattgtttcaaatctctgcaagttcttgtggctggttcctcacagTACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGTCTgtgagaaatgctagagacgaattgtaatgtaggaatcactaacaaaggac Alignment from Spaln_nt2Genome CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAG tggttcattgtttcaaatctctgcaagttcttgtggctggttcctcacagTACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGgtctgtgagaaatgctagagacgaattgtaatgtaggaatcactaacaaaggac Alignment from Pairagon CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- tggttcattgtttcaaatctctgcaagttcttgtggctggttcctcacagTACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGTCTgtgagaaatgctagagacgaattgtaatgtaggaatcactaacaaaggac Alignment from Exonerate_protein2genome CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- tggttcattgtttcaaatctctgcaagttcttgtggctggttcctcacagTACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGTCTgtgagaaatgctagagacgaattgtaatgtaggaatcactaacaaaggac Alignment from Exonerate_coding2genome CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- tggttcattgtttcaaatctctgcaagttcttgtggctggttcctcacagTACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGTCTgtgagaaatgctagagacgaattgtaatgtaggaatcactaacaaaggac Alignment from GeneWise CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGAGT tggttcattgtttcaaatctctgcaagttcttgtggctggttcctcacagTACCTTCAGCTTTCAAGGTCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTTTTCACTGAGCACTGGAGGTCTgtgagaaatgctagagacgaattgtaatgtaggaatcactaacaaaggac #### Gbf1_ID9800_19 --> 0 - 0 Original Alignment AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG agtaaaaatttagttgtggggtgttacactttcccctccttttgtcacagAGCTGTAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTTTGCCTTAGCCTATGGTGCCATCATGCTGAATACTGACCAGCACAACCACAATGTTCGGAAGCAGAATGCGCCCATGACTCTA---gtatatagaatgaaatagctgtctaactttaaaagtgtaaacaatattca Alignment from CESAR AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG agtaaaaatttagttgtggggtgttacactttcccctccttttgtcacagAGCTGTAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTTTGCCTTAGCCTATGGTGCCATCATGCTGAATACTGACCAGCACAACCACAATGTTCGGAAGCAGAATGCGCCCATGACTCTA---gtatatagaatgaaatagctgtctaactttaaaagtgtaaacaatat Alignment from Spaln_aa2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTG agtaaaaatttagttgtggggtgttacactttcccctccttttgtcacagAGCTGTAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTTTGCCTTAGCCTATGGTGCCATCATGCTGAATACTGACCAGCACAACCACAATGTTCGGAAGCAGAATGCGCCCATGACTCTAgtatatagaatgaaatagctgtctaactttaaaagtgtaaacaatattca Alignment from Spaln_nt2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTG agtaaaaatttagttgtggggtgttacactttcccctccttttgtcacagAGCTGTAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTTTGCCTTAGCCTATGGTGCCATCATGCTGAATACTGACCAGCACAACCACAATGTTCGGAAGCAGAATGCGCCCATGACTCTAgtatatagaatgaaatagctgtctaactttaaaagtgtaaacaatattca Alignment from Pairagon AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTG agtaaaaatttagttgtggggtgttacactttcccctccttttgtcacagAGCTGTAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTTTGCCTTAGCCTATGGTGCCATCATGCTGAATACTGACCAGCACAACCACAATGTTCGGAAGCAGAATGCGCCCATGACTCTAgtatatagaatgaaatagctgtctaactttaaaagtgtaaacaatattca Alignment from Exonerate_protein2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTG agtaaaaatttagttgtggggtgttacactttcccctccttttgtcacagAGCTGTAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTTTGCCTTAGCCTATGGTGCCATCATGCTGAATACTGACCAGCACAACCACAATGTTCGGAAGCAGAATGCGCCCATGACTCTAgtatatagaatgaaatagctgtctaactttaaaagtgtaaacaatattca Alignment from Exonerate_coding2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTG agtaaaaatttagttgtggggtgttacactttcccctccttttgtcacagAGCTGTAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTTTGCCTTAGCCTATGGTGCCATCATGCTGAATACTGACCAGCACAACCACAATGTTCGGAAGCAGAATGCGCCCATGACTCTAgtatatagaatgaaatagctgtctaactttaaaagtgtaaacaatattca Alignment from GeneWise AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTG agtaaaaatttagttgtggggtgttacactttcccctccttttgtcacagAGCTGTAATGGCTCTCCTTTTGCTAATAGTGGTGCCTGCTTTGCCTTAGCCTATGGTGCCATCATGCTGAATACTGACCAGCACAACCACAATGTTCGGAAGCAGAATGCGCCCATGACTCTAgtatatagaatgaaatagctgtctaactttaaaagtgtaaacaatattca #### Gbf1_ID9803_22 --> 1 - 0 Original Alignment gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG tgggtgtttctggagtaagggctggccaaagtgtttgccttccttcctagg------------------GCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaggatggaacgagaaaactagttagaggacgatgagcctcttcctccc Alignment from CESAR gAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacctggtggatgttcactgggtgtccaaagtgtttgccttccttcctagg------------------GCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaggatggaacgagaaaactagttagaggacgatgagcctcttcctccc Alignment from Spaln_aa2Genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG tgggtgtttctggagtaagggctggccaaagtgtttgccttccttcctagG------------------GCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaggatggaacgagaaaactagttagaggacgatgagcctcttcctccc Alignment from Spaln_nt2Genome CGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG tgggtgtttctggagtaagggctggccaaagtgtttgccttccttcctagGGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaggatggaacgagaaaactagttagaggacgatgagcctcttcctccc Alignment from Pairagon GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG tgggtgtttctggagtaagggctggccaaagtgtttgccttccttcctagG------------------GCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaggatggaacgagaaaactagttagaggacgatgagcctcttcctccc Alignment from Exonerate_protein2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG tgggtgtttctggagtaagggctggccaaagtGTTTGCCTTCCTTCCTAGGGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaggatggaacgagaaaactagttagaggacgatgagcctcttcctccc Alignment from Exonerate_coding2genome GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG tgggtgtttctggagtaagggctggccaaagtGTTTGCCTTCCTTCCTAGGGCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaggatggaacgagaaaactagttagaggacgatgagcctcttcctccc Alignment from GeneWise GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG tgggtgtttctggagtaagggctggccaaagtgtttgccttccttcctagG------------------GCCCACTATGGCCTCAGTGATGTCTTTGACAATCTGATCATTTCCCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtaggatggaacgagaaaactagttagaggacgatgagcctcttcctccc #### Gbf1_ID9808_27 --> 0 - 2 Original Alignment GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACag gaaagtgcttgaatcctagctccttactggccctctcctctgttctgcagGCTCTGGTCTCAGTGACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATG------------------------aggtgagctaagtcaggcctgcagaatctctatacgaatatccctacgcccc Alignment from CESAR GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACag gaaagtgcttgaatcctagctccttactggccctctcctctgttctgcagGCTCTGGTCTCAGTGACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATG------------------------aggtgagctaagtcaggcctgcagaatctctatacgaatatccctacgcccc Alignment from Spaln_aa2Genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAG----- gaaagtgcttgaatcctagctccttactggccctctcctctgttctgcagGCTCTGGTCTCAGTGACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGAGgtgagctaagtcaggcctgcagaatctctatacgaatatccctacgcccc Alignment from Spaln_nt2Genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATG-- gaaagtgcttgaatcctagctccttactggccctctcctctgttctgcagGCTCTGGTCTCAGTGACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGAGgtgagctaagtcaggcctgcagaatctctatacgaatatccctacgcccc Alignment from Pairagon GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG gaaagtgcttgaatcctagctccttactggccctctcctctgttctgcagGCTCTGGTCTCAGTGACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATG------------------------AGgtgagctaagtcaggcctgcagaatctctatacgaatatccctacgcccc Alignment from Exonerate_protein2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCT gaaagtgcttgaatcctagctccttactggccctctcctctgttctgcagGCTCTGGTCTCAGTGACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGAGgtgagctaagtcaggcctgcagaatctctatacgaatatccctacgcccc Alignment from Exonerate_coding2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCT gaaagtgcttgaatcctagctccttactggccctctcctctgttctgcagGCTCTGGTCTCAGTGACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGAGgtgagctaagtcaggcctgcagaatctctatacgaatatccctacgcccc Alignment from GeneWise GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATG-- gaaagtgcttgaatcctagctccttactggccctctcctctgttctgcagGCTCTGGTCTCAGTGACCCCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTTTGTCTTGAAATGAGgtgagctaagtcaggcctgcagaatctctatacgaatatccctacgcccc #### Gbf1_ID9815_34 --> 2 - 0 Original Alignment ga---ATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccccccacacacttgatcacttacacccgccctcttctcttgcctaggaGGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACGTATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTTTAACAAGgtgaggcctcaagtcaacagaagttcaaataacaagataaaggtggagaa Alignment from CESAR ga---ATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccccccacacacttgatcacttacacccgccctcttctcttgcctaggaGGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACGTATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTTTAACAAGgtgaggcctcaagtcaacagaagttcaaataacaagataaaggtggagaa Alignment from Spaln_aa2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccccccacacacttgatcacttacacccgccctcttctcttgcctaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACGTATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTTTAACAAGgtgaggcctcaagtcaacagaagttcaaataacaagataaaggtggagaa Alignment from Spaln_nt2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccccccacacacttgatcacttacacccgccctcttctcttgcctaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACGTATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTTTAACAAGgtgaggcctcaagtcaacagaagttcaaataacaagataaaggtggagaa Alignment from Pairagon GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccccccacacacttgatcacttacacccgccctcttctcttgcctaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACGTATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTTTAACAAGgtgaggcctcaagtcaacagaagttcaaataacaagataaaggtggagaa Alignment from Exonerate_protein2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccccccacacacttgatcacttacacccgccctcttctcttgcctaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACGTATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTTTAACAAGgtgaggcctcaagtcaacagaagttcaaataacaagataaaggtggagaa Alignment from Exonerate_coding2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccccccacacacttgatcacttacacccgccctcttctcttgcctaggagGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACGTATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTTTAACAAGgtgaggcctcaagtcaacagaagttcaaataacaagataaaggtggagaa Alignment from GeneWise --GGAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacccccccacacacttgatcacttacacccgccctcttctcttgcctagGAGGAATTGCTTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCTTGACGTATCTACAGCATGCACTTCTCGTGCACGATCTGCAGAAACTGGATGCCCTGGAGTGGGAGTCTTGTTTTAACAAGgtgaggcctcaagtcaacagaagttcaaataacaagataaaggtggagaa #### Gbf1_ID9816_35 --> 0 - 0 Original Alignment GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG ccatgcgcaacctggctgggttaatgtgaatccaggtctccatctcacagGTGCTATTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTAGGTGGGATGGAAGAGACTCGGATGCGGGCTTCCACACTACTT------gtgagattagaactttacctggtttgcacccctctacctcattccacctc Alignment from CESAR GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG ccatgcgcaacctggctgggttaatgtgaatccaggtctccatctcacagGTGCTATTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTAGGTGGGATGGAAGAGACTCGGATGCGGGCTTCCACACTACTT------gtgagattagaactttacctggtttgcacccctctacctcattc Alignment from Spaln_aa2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCA ccatgcgcaacctggctgggttaatgtgaatccaggtctccatctcacagGTGCTATTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTAGGTGGGATGGAAGAGACTCGGATGCGGGCTTCCACACTACTT gtgagattagaactttacctggtttgcacccctctacctcattccac Alignment from Spaln_nt2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTC ccatgcgcaacctggctgggttaatgtgaatccaggtctccatctcacagGTGCTATTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTAGGTGGGATGGAAGAGACTCGGATGCGGGCTTCCACACTACTTgtgagattagaactttacctggtttgcacccctctacctcattccacctc Alignment from Pairagon GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTC ccatgcgcaacctggctgggttaatgtgaatccaggtctccatctcacagGTGCTATTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTAGGTGGGATGGAAGAGACTCGGATGCGGGCTTCCACACTACTTgtgagattagaactttacctggtttgcacccctctacctcattccacctc Alignment from Exonerate_protein2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTC ccatgcgcaacctggctgggttaatgtgaatccaggtctccatctcacagGTGCTATTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTAGGTGGGATGGAAGAGACTCGGATGCGGGCTTCCACACTACTTgtgagattagaactttacctggtttgcacccctctacctcattccacctc Alignment from Exonerate_coding2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTC ccatgcgcaacctggctgggttaatgtgaatccaggtctccatctcacagGTGCTATTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTAGGTGGGATGGAAGAGACTCGGATGCGGGCTTCCACACTACTTgtgagattagaactttacctggtttgcacccctctacctcattccacctc Alignment from GeneWise GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTC ccatgcgcaacctggctgggttaatgtgaatccaggtctccatctcacagGTGCTATTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTAGGTGGGATGGAAGAGACTCGGATGCGGGCTTCCACACTACTTgtgagattagaactttacctggtttgcacccctctacctcattccacctc #### Gbf1_ID9817_36 --> 0 - 0 Original Alignment GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--------------------------------------------- tagagctaatgcttaatcttcagcccgttgttttttttctgttgccttagGTCTTCCTGCAGCATTTGTCTCCATTGTTGTCGCTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCTGGTTCGAGTGATTTGCTTCCCTTAAGATCAATTATGGAATCATTGAGTTGTGAACATGGGTATgtaagtttccctggatgagccatttttgttcaggcacatcttctcacact Alignment from CESAR GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG tagagctaatgcttaatcttcagcccgttgttttttttctgttgccttagGTCTTCCTGCAGCATTTGTCTCCATTGTTGTCGCTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCTGGTTCGAGTGATTTGCTTcccttaagatcaattatggaatcattgagttgtgaacatgggtatgtaagtttccctggatgagccatttttgttcaggcacatcttctcacact Alignment from Spaln_aa2Genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTGTCA------------------------G tagagctaatgcttaatcttcagcccgttgttttttttctgttgccttagGTCTTCCTGCAGCATTTGTCTCCATTGTTGTCGCTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCTGGTTCGAGTGATTTGCTTCCCTTAAGATCAATTATGGAATCATTGAgttgtgaacatgggtatgtaagtttccctggatgagccatttttgttcaggcacatcttctcacact Alignment from Spaln_nt2Genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTT tagagctaatgcttaatcttcagcccgttgttttttttctgttgccttagGTCTTCCTGCAGCATTTGTCTCCATTGTTGTCGCTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCTGGTTCGAGTGATTTgcttcccttaagatcaattatggaatcattgagttgtgaacatgggtatgtaagtttccctggatgagccatttttgttcaggcacatcttctcacact Alignment from Pairagon GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCT-----------------------------------------G tagagctaatgcttaatcttcagcccgttgttttttttctgttgccttagGTCTTCCTGCAGCATTTGTCTCCATTGTTGTCGCTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCTGGTTCGAGTGATTTGCTTCCCTTAAGATCAATTATGGAATCATTGAGTTGTGAACATGGgtatgtaagtttccctggatgagccatttttgttcaggcacatcttctcacact Alignment from Exonerate_protein2genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- tagagctaatgcttaatcttcagcccgttgttttttttctgttgccttagGTCTTCCTGCAGCATTTGTCTCCATTGTTGTCGCTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCTGGTTCGAGTGATTTGCTTCCCttaagatcaattatggaatcattgagttgtgaacatgggtatgtaagtttccctggatgagccatttttgttcaggcacatcttctcacact Alignment from Exonerate_coding2genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- tagagctaatgcttaatcttcagcccgttgttttttttctgttgccttagGTCTTCCTGCAGCATTTGTCTCCATTGTTGTCGCTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCTGGTTCGAGTGATTTGCTTCCCttaagatcaattatggaatcattgagttgtgaacatgggtatgtaagtttccctggatgagccatttttgttcaggcacatcttctcacact Alignment from GeneWise GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTG---------------------------CTGTCAG tagagctaatgcttaatcttcagcccgttgttttttttctgttgccttagGTCTTCCTGCAGCATTTGTCTCCATTGTTGTCGCTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCTGGTTCGAGTGATTTGCTTCCCTTAAGATCAATTATGGAATCATTGAGTTgtgaacatgggtatgtaagtttccctggatgagccatttttgttcaggcacatcttctcacact #### Gldc_ID6401_14 --> 0 - 0 Original Alignment ---------GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggtcatagcaagcactagtggatatctcgataaccctcatttctttgcagGATGGGGACGGATCTTGCACCATGAAGCTCAATAGCTCTTCTGAGCTTGCTgtaaccctctttcatttccatatgatgggtagatcattccaatgaagcta Alignment from CESAR ---------GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggtcatagcaagcactagtggatatctcgataaccctcatttctttgcagGATGGGGACGGATCTTGCACCATGAAGCTCAATAGCTCTTCTGAGCTTGCTgtaaccctctttcatttccatatgatgggtagatcattccaatgaagcta Alignment from Spaln_aa2Genome GGATCCTGC---------ACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggtcatagcaagcactagtggatatctcgataaccctcatttctttgcagGATGGGGACGGATCTTGCACCATGAAGCTCAATAGCTCTTCTGAGCTTGCTgtaaccctctttcatttccatatgatgggtagatcattccaatgaagcta Alignment from Spaln_nt2Genome GGGATCCTGCAC--------CATGAAGCTCAATAGCTCCTCCGAACTTGCA ggtcatagcaagcactagtggatatctcgataaccctcatttctttgcagGATGGGGACGGATCTTGCACCATGAAGCTCAATAGCTCTTCTGAGCTTGCTgtaaccctctttcatttccatatgatgggtagatcattccaatgaagcta Alignment from Pairagon ---------GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggtcatagcaagcactagtggatatctcgataaccctcatttctttgcagGATGGGGACGGATCTTGCACCATGAAGCTCAATAGCTCTTCTGAGCTTGCTgtaaccctctttcatttccatatgatgggtagatcattccaatgaagcta Alignment from Exonerate_protein2genome ---------GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggtcatagcaagcactagtggatatctcgataaccctcatttctttgcagGATGGGGACGGATCTTGCACCATGAAGCTCAATAGCTCTTCTGAGCTTGCTgtaaccctctttcatttccatatgatgggtagatcattccaatgaagcta Alignment from Exonerate_coding2genome ---------GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggtcatagcaagcactagtggatatctcgataaccctcatttctttgcagGATGGGGACGGATCTTGCACCATGAAGCTCAATAGCTCTTCTGAGCTTGCTgtaaccctctttcatttccatatgatgggtagatcattccaatgaagcta Alignment from GeneWise ---------GGATCCTGCACCATGAAGCTCAATAGCTCCTCCGAACTTGCA ggtcatagcaagcactagtggatatctcgataaccctcatttctttgcagGATGGGGACGGATCTTGCACCATGAAGCTCAATAGCTCTTCTGAGCTTGCTgtaaccctctttcatttccatatgatgggtagatcattccaatgaagcta #### Gpam_ID11538_11 --> 0 - 2 Original Alignment GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCAag attccatgctttcaagtaagggattatttcactacagtttctgtttccagGAATACCTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTAGAGCAGGCACTA---------------------aggtgagcgtgggtacctgtagggcactcaaagtcgaacgtgctgcttggct Alignment from CESAR GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCAag attccatgctttcaagtaagggattatttcactacagtttctgtttccagGAATACCTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTAGAGCAGGCACTA---------------------aggtgagcgtgggtacctgtagggcactcaaagtcgaacgtgctgcttggct Alignment from Spaln_aa2Genome GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAA attccatgctttcaagtaagggattatttcactacagtttctgtttccagGAATACCTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTAGAGCAGgcactaaggtgagcgtgggtacctgtagggcactcaaagtcgaacgtgctgcttggct Alignment from Spaln_nt2Genome GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACC attccatgctttcaagtaagggattatttcactacagtttctgtttccagGAATACCTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTAGAGCAGGCAC---TAAGgtgagcgtgggtacctgtagggcactcaaagtcgaacgtgctgcttggct Alignment from Pairagon GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCAAG attccatgctttcaagtaagggattatttcactacagtttctgtttccagGAATACCTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTAGAGCAGGCACT---------------------AAGgtgagcgtgggtacctgtagggcactcaaagtcgaacgtgctgcttggct Alignment from Exonerate_protein2genome GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCAAG attccatgctttcaagtaagggattatttcactacagtttctgtttccagGAATACCTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTAGAGCAGGCACTAAGGTGAGCGTGGGTACCTGTAGGgcactcaaagtcgaacgtgctgcttggct Alignment from Exonerate_coding2genome GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCAAG attccatgctttcaagtaagggattatttcactacagtttctgtttccagGAATACCTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTAGAGCAGGCACTAAGGTGAGCGTGGGTACCTGTAGGgcactcaaagtcgaacgtgctgcttggct Alignment from GeneWise GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTT attccatgctttcaagtaagggattatttcactacagtttctgtttccagGAATACCTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTAGAGCAGGCACTAAGgtgagcgtgggtacctgtagggcactcaaagtcgaacgtgctgcttggct #### Gpam_ID11543_6 --> 1 - 0 Original Alignment gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gcaatatctatcccagtcttgatgcactctactgcagctctctcttacagg---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtgaagtttgaatttggactcctgggggaagggtcctgtagtattgttat Alignment from CESAR gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG tgatttatggcaatatctatcccagactctactgcagctctctcttacagg---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtgaagtttgaatttggactcctgggggaagggtcctgtagtattgttat Alignment from Spaln_aa2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gcaatatctatcccagtcttgatgcactctactgcagctctctcttacagG---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtgaagtttgaatttggactcctgggggaagggtcctgtagtattgttat Alignment from Spaln_nt2Genome CTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gcaatatctatcccagtcttgatgcactctactgcagctctctcttacagGTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtgaagtttgaatttggactcctgggggaagggtcctgtagtattgttat Alignment from Pairagon GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gcaatatctatcccagtcttgatgcactctactgcagctctctcttacagG---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtgaagtttgaatttggactcctgggggaagggtcctgtagtattgttat Alignment from Exonerate_protein2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gcaatatctatcccagtcttgatgcactctactgcagctctctcttacagG---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtgaagtttgaatttggactcctgggggaagggtcctgtagtattgttat Alignment from Exonerate_coding2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gcaatatctatcccagtcttgatgcactctactgcagctctctcttacagG---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtgaagtttgaatttggactcctgggggaagggtcctgtagtattgttat Alignment from GeneWise GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG gcaatatctatcccagtcttgatgcactctactgcagctctctcttacagG---------TGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAATTAGAGATGGTCAAGGCTGCCACTGAGgtgaagtttgaatttggactcctgggggaagggtcctgtagtattgttat #### Gpr137_ID1885_6 --> 0 - 2 Original Alignment AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACC---ag cagttgcagcagaaggacagggcaacaggccctttgattggctcttttagAGCACCAGTCAAATCCTTAATGGCCAGGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCACAGCCGAAGCAAGAGCACTAGCaggtgagttccctgaccttcttcccaataggaaaagcctacaaacacagagc Alignment from CESAR AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACC---ag cagttgcagcagaaggacagggcaacaggccctttgattggctcttttagAGCACCAGTCAAATCCTTAATGGCCAGGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCACAGCCGAAGCAAGAGCACTAGCaggtgagttccctgaccttcttcccaataggaaaagcctacaaacacagagc Alignment from Spaln_aa2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGC-- cagttgcagcagaaggacagggcaacaggccctttgattggctcttttagAGCACCAGTCAAATCCTTAATGGCCAGGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCACAGCCGAAGCAAGAGCACTAGCAGgtgagttccctgaccttcttcccaataggaaaagcctacaaacacagagc Alignment from Spaln_nt2Genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCAC---CAG cagttgcagcagaaggacagggcaacaggccctttgattggctcttttagAGCACCAGTCAAATCCTTAATGGCCAGGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCACAGCCGAAGCAAGAGCACTAGCAGgtgagttccctgaccttcttcccaataggaaaagcctacaaacacagagc Alignment from Pairagon AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCAC---CAG cagttgcagcagaaggacagggcaacaggccctttgattggctcttttagAGCACCAGTCAAATCCTTAATGGCCAGGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCACAGCCGAAGCAAGAGCACTAGCAGgtgagttccctgaccttcttcccaataggaaaagcctacaaacacagagc Alignment from Exonerate_protein2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGCAT cagttgcagcagaaggacagggcaacaggccctttgattggctcttttagAGCACCAGTCAAATCCTTAATGGCCAGGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCACAGCCGAAGCAAGAGCACTAGCAGgtgagttccctgaccttcttcccaataggaaaagcctacaaacacagagc Alignment from Exonerate_coding2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGCAT cagttgcagcagaaggacagggcaacaggccctttgattggctcttttagAGCACCAGTCAAATCCTTAATGGCCAGGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCACAGCCGAAGCAAGAGCACTAGCAGgtgagttccctgaccttcttcccaataggaaaagcctacaaacacagagc Alignment from GeneWise AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGC-- cagttgcagcagaaggacagggcaacaggccctttgattggctcttttagAGCACCAGTCAAATCCTTAATGGCCAGGTTTTTGGCTCCCGATCATACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCACAGCCGAAGCAAGAGCACTAGCAGgtgagttccctgaccttcttcccaataggaaaagcctacaaacacagagc #### Gpr137_ID1886_5 --> 0 - 0 Original Alignment GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tgcattagcttctgtattgacaaacttgttttcctttatcttcttttcag---GATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTC---TTTTGGGAATTGCTGCCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaacgacctcttgccacgacatgctaactcatctccatgcaatatatgg Alignment from CESAR GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgtgcattagcttctgtattgacattgttttcctttatcttcttttcag---GATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAATTGCTGCCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaacgacctcttgccacgacatgctaactcatctccatgcaatatatgg Alignment from Spaln_aa2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tgcattagcttctgtattgacaaacttgttttcctttatcttcttttcag---GATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAATTGCTGCCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaacgacctcttgccacgacatgctaactcatctccatgcaatatatgg Alignment from Spaln_nt2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tgcattagcttctgtattgacaaacttgttttcctttatcttcttttcag---GATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCT---TTTGGGAATTGCTGCCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaacgacctcttgccacgacatgctaactcatctccatgcaatatatgg Alignment from Pairagon GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tgcattagcttctgtattgacaaacttgttttcctttatcttcttttcag---GATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCT---TTTGGGAATTGCTGCCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaacgacctcttgccacgacatgctaactcatctccatgcaatatatgg Alignment from Exonerate_protein2genome GATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tgcattagcttctgtattgacaaacttgttttcctttatcttcttttcagGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAATTGCTGCCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaacgacctcttgccacgacatgctaactcatctccatgcaatatatgg Alignment from Exonerate_coding2genome GATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tgcattagcttctgtattgacaaacttgttttcctttatcttcttttcagGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAATTGCTGCCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaacgacctcttgccacgacatgctaactcatctccatgcaatatatgg Alignment from GeneWise GATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG tgcattagcttctgtattgacaaacttgttttcctttatcttcttttcagGATCTGGTCAATGACCTAGTGAACAAAGGTTACCTGGTGTTTGGTCTCATTCTCTTT---TGGGAATTGCTGCCCACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaacgacctcttgccacgacatgctaactcatctccatgcaatatatgg #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment ------------------------GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tagggattgtagagaaacttaggaccccgtgtgccttttggattttatagCATGAAAGAATCAATATCAATCTGGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---GCCATGGTCTTGCTTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGACCAGgtgagttctatacagattatttctggctgccaaggctgtgcattagcttc Alignment from CESAR ------------------------GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tagggattgtagagaaacttaggaccccgtgtgccttttggattttatagCATGAAAGAATCAATATCAATCTGGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---GCCATGGTCTTGCTTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGACCAGgtgagttctatacagattatttctggctgccaaggctgtgcattagcttc Alignment from Spaln_aa2Genome ------------------------GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCA tagggattgtagagaaacttaggaccccgtgtgccttttggattttatagCATGAAAGAATCAATATCAATCTGGGGACAAGTGTATGTCAGGTGGCTGCAATA---GGGGCCATGGTCTTGCTTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGACCAGgtgagttctatacagattatttctggctgccaaggctgtgcattagcttc Alignment from Spaln_nt2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tagggattgtagagaaacttaggaccccgtgtgccttttggattttatagcatgaaagaatcaatatcaatctggggacaag--------TGTATGTCAGGTGGCTGCAATAGGG---GCCATGGTCTTGCTTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGACCAGgtgagttctatacagattatttctggctgccaaggctgtgcattagcttc Alignment from Pairagon ------------------------GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tagggattgtagagaaacttaggaccccgtgtgccttttggattttatagCATGAAAGAATCAATATCAATCTGGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---GCCATGGTCTTGCTTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGACCAGgtgagttctatacagattatttctggctgccaaggctgtgcattagcttc Alignment from Exonerate_protein2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tagggattgtagagaaacttaggaccccgtgtgccttttggattttatagcatgaaagaatcaatatcaatctgGGGACAAGTGTATGTCAGGTGGCTGCAATA---GGGGCCATGGTCTTGCTTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGACCAGgtgagttctatacagattatttctggctgccaaggctgtgcattagcttc Alignment from Exonerate_coding2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tagggattgtagagaaacttaggaccccgtgtgccttttggattttatagcatgaaagaatcaatatcaatctgGGGACAAGTGTATGTCAGGTGGCTGCAATA---GGGGCCATGGTCTTGCTTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGACCAGgtgagttctatacagattatttctggctgccaaggctgtgcattagcttc Alignment from GeneWise ------------------------GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tagggattgtagagaaacttaggaccccgtgtgccttttggattttatagCATGAAAGAATCAATATCAATCTGGGGACAAGTGTATGTCAGGTGGCTGCAATAGGG---GCCATGGTCTTGCTTTATGCCAGCCGGGCCTGCTATAACCTGGCAGCCCTGGCCTTGGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTATAATGTATCAGACCAGgtgagttctatacagattatttctggctgccaaggctgtgcattagcttc #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG--- tgtatagtctctggagtgagggcattcaccatgctttttctcttttgcaggCTGGCTGTTCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATTCTTCTACTGGTACATGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGGGCCCCTTCCACTAGTATCTACTTAGATGCCAAGTATgcaagtccaccacatggatgtggcattgttgggtctgtggacagagtact Alignment from CESAR gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG--- tgtatagtctctggagtgagggcattcaccatgctttttctcttttgcaggCTGGCTGTTCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATTCTTCTACTGGTACATGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGGGCCCCTTCCACTAGTATCTACTTAGATGCCAAGTATgcaagtccaccacatggatgtggcattgttgggtctgtggacagagtact Alignment from Spaln_aa2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG--- tgtatagtctctggagtgagggcattcaccatgctttttctcttttgcagGCTGGCTGTTCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATTCTTCTACTGGTACATGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGGGCCCCTTCCACTAGTATCTACTTAGATGCCAAGTATgcaagtccaccacatggatgtggcattgttgggtctgtggacagagtact Alignment from Spaln_nt2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAA G tgtatagtctctggagtgagggcattcaccatgctttttctcttttgcagGCTGGCTGTTCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATTCTTCTACTGGTACATGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGGGCCCCTTCCACTAGTATCTACTTAGATGCCAAgtatgcaagtccaccacatggatgtggcattgttgggtctgtggacagAgtact Alignment from Pairagon GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG--- tgtatagtctctggagtgagggcattcaccatgctttttctcttttgcagGCTGGCTGTTCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATTCTTCTACTGGTACATGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGGGCCCCTTCCACTAGTATCTACTTAGATGCCAAGTATgcaagtccaccacatggatgtggcattgttgggtctgtggacagagtact Alignment from Exonerate_protein2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAA tgtatagtctctggagtgagggcattcaccatgctttttctcttttgcagGCTGGCTGTTCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATTCTTCTACTGGTACATGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGGGCCCCTTCCACTAGTATCTACTTAGATGCCAAgtatgcaagtccaccacatggatgtggcattgttgggtctgtggacagagtact Alignment from Exonerate_coding2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAA tgtatagtctctggagtgagggcattcaccatgctttttctcttttgcagGCTGGCTGTTCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATTCTTCTACTGGTACATGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGGGCCCCTTCCACTAGTATCTACTTAGATGCCAAgtatgcaagtccaccacatggatgtggcattgttgggtctgtggacagagtact Alignment from GeneWise GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG------------------------------ tgtatagtctctggagtgagggcattcaccatgctttttctcttttgcagGCTGGCTGTTCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTATTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATTCTTCTACTGGTACATGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGGGCCCCTTCCACTAGTATCTACTTAGATGCCAAGTATGCAAGTCCACCACATGGATGTGGCATTgttgggtctgtggacagagtact #### Gpr137_ID1889_2 --> 0 - 2 Original Alignment GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt aagctcacacgtcgaaaaactctaatttaactaccgccatgttcccacag---------AAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGctgtaaatagaataactcattggcagtgagtaagcccatggctgagataggg Alignment from CESAR GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt aagaagggtaagctcacacgtcgaatttaactaccgccatgttcccacag---------AAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGctgtaaatagaataactcattggcagtgagtaagcccatggctgagataggg Alignment from Spaln_aa2Genome AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacgtcgaaaaactctaatttaactaccgccatgttcccacagAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaaatagaataactcattggcagtgagtaagcccatggctgagataggg Alignment from Spaln_nt2Genome AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacgtcgaaaaactctaatttaactaccgccatgttcccacagAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaaatagaataactcattggcagtgagtaagcccatggctgagataggg Alignment from Pairagon GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacgtcgaaaaactctaatttaactaccgccatgttcccacag---------AAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaaatagaataactcattggcagtgagtaagcccatggctgagataggg Alignment from Exonerate_protein2genome AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacgtcgaaaaactctaatttaactaccgccatgttcccacagAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaaatagaataactcattggcagtgagtaagcccatggctgagataggg Alignment from Exonerate_coding2genome TCGGCCAGAGATGAGCCGAGG AAGCTCACACGTCGAAAAACTctaatttaactaccgccatgttcccacagaaggccaaagctaggcgtcgaccagcaatgagccgagggctgtaaatagaataactcattggcagtgagtaagcccatggctgagataggg Alignment from GeneWise ---GCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aagctcacacgtcgaaaaactctaatttaactaccgccatgttcccacagAAGGCCAAAGCTAGGCGTCGACCAGCAATGAGCCGAGGGCTgtaaatagaataactcattggcagtgagtaagcccatggctgagataggg #### Hnrnpul2_ID2399_3 --> 1 - 1 Original Alignment cTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGt ccgaccctatccttttattatcatttggcgcctcatgctcctacctctagc---------------------------GAAGCTAAAGATGAGGAGGAGGCCCAGTCACTTGTGAACCTGGACACAtgtaagtgagatgcatggtatggcttacctttacagatagaacattgttct Alignment from CESAR cTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGt ggataagttctaattataacatgtttggcgcctcatgctcctacctctagc---------------------------GAAGCTAAAGATGAGGAGGAGGCCCAGTCACTTGTGAACCTGGACACAtgtaagtgagatgcatggtatggcttacctttacagatagaacattgttct Alignment from Spaln_aa2Genome AGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ccgaccctatccttttattatcatttggcgcctcatgctcctacctctagCGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTTGTGAACCTGGACACATgtaagtgagatgcatggtatggcttacctttacagatagaacattgttct Alignment from Spaln_nt2Genome AAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ccgaccctatccttttattatcatttggcgcctcatgctcctacctctag-CGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTTGTGAACCTGGACACATgtaagtgagatgcatggtatggcttacctttacagatagaacattgttct Alignment from Pairagon CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ccgaccctatccttttattatcatttggcgcctcatgctcctacctctagC---------------------------GAAGCTAAAGATGAGGAGGAGGCCCAGTCACTTGTGAACCTGGACACATgtaagtgagatgcatggtatggcttacctttacagatagaacattgttct Alignment from Exonerate_protein2genome CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ccgaccctatccttttattatcaTTTGGCGCCTCATGCTCCTACCTCTAGCGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTTGTGAACCTGGACACATgtaagtgagatgcatggtatggcttacctttacagatagaacattgttct Alignment from Exonerate_coding2genome CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ccgaccctatccttttattatcaTTTGGCGCCTCATGCTCCTACCTCTAGCGAAGCTAAAGATGAGGAGGAGGCCCAGTCACTTGTGAACCTGGACACATgtaagtgagatgcatggtatggcttacctttacagatagaacattgttct Alignment from GeneWise CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGT ccgaccctatccttttattatcatttggcgcctcatgctcctacctctagC---------------------------GAAGCTAAAGATGAGGAGGAGGCCCAGTCACTTGTGAACCTGGACACATgtaagtgagatgcatggtatggcttacctttacagatagaacattgttct #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG------ cactcttcggtgctgaatgttgtagtgactttctgcctccttccatttagatACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGCGTAACAAAGGGGAAAGTATGCTTTGAAGCTAAGATCTGGgtagttcattaacttagaatgggacaaagtatgctggctcgtttttcact Alignment from CESAR atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG------ cactcttcggtgctgaatgttgtagtgactttctgcctccttccatttagatACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGCGTAACAAAGGGGAAAGTATGCTTTGAAGCTAAGATCTGGgtagttcattaacttagaatgggacaaagtatgctggctcgtttttcact Alignment from Spaln_aa2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG------ cactcttcggtgctgaatgttgtagtgactttctgcctccttccatttagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGCGTAACAAAGGGGAAAGTATGCTTTGAAGCTAAGATCTGGgtagttcattaacttagaatgggacaaagtatgctggctcgtttttcact Alignment from Spaln_nt2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG------ cactcttcggtgctgaatgttgtagtgactttctgcctccttccatttagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGCGTAACAAAGGGGAAAGTATGCTTTGAAGCTAAGATCTGGgtagttcattaacttagaatgggacaaagtatgctggctcgtttttcact Alignment from Pairagon ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG------ cactcttcggtgctgaatgttgtagtgactttctgcctccttccatttagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGCGTAACAAAGGGGAAAGTATGCTTTGAAGCTAAGATCTGGgtagttcattaacttagaatgggacaaagtatgctggctcgtttttcact Alignment from Exonerate_protein2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cactcttcggtgctgaatgttgtagtgactttctgcctccttccatttagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGCGTAACAAAGGGGAAAGTATGCTTTGAAGCTAAGatctgggtagttcattaacttagaatgggacaaagtatgctggctcgtttttcact Alignment from Exonerate_coding2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cactcttcggtgctgaatgttgtagtgactttctgcctccttccatttagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGCGTAACAAAGGGGAAAGTATGCTTTGAAGCTAAGatctgggtagttcattaacttagaatgggacaaagtatgctggctcgtttttcact Alignment from GeneWise ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAGGTA--- cactcttcggtgctgaatgttgtagtgactttctgcctccttccatttagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACCTATGGCGTAACAAAGGGGAAAGTATGCTTTGAAGCTAAGATCTGGgtagttcattaacttagaatgggacaaagtatgctggctcgtttttcact #### Hnrnpul2_ID2401_5 --> 0 - 1 Original Alignment GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT---g tacttttagacctgcatttgtcataagaatatttatttgtttatttccagGTTACACAGAATCTCCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCACAGCTTAACggtaaggtgattcaattaggtaactttggcatgttttctttgtactttttc Alignment from CESAR GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT---g tacttttagacctgcatttgtcataagaatatttatttgtttatttccagGTTACACAGAATCTCCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCACAGCTTAACggtaaggtgattcaattaggtaactttggcatgttttctttgtactttttc Alignment from Spaln_aa2Genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT---G tacttttagacctgcatttgtcataagaatatttatttgtttatttccagGTTACACAGAATCTCCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCACAGCTTAACGgtaaggtgattcaattaggtaactttggcatgttttctttgtactttttc Alignment from Spaln_nt2Genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT---G tacttttagacctgcatttgtcataagaatatttatttgtttatttccagGTTACACAGAATCTCCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCACAGCTTAACGgtaaggtgattcaattaggtaactttggcatgttttctttgtactttttc Alignment from Pairagon GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT---G tacttttagacctgcatttgtcataagaatatttatttgtttatttccagGTTACACAGAATCTCCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCACAGCTTAACGgtaaggtgattcaattaggtaactttggcatgttttctttgtactttttc Alignment from Exonerate_protein2genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT---G tacttttagacctgcatttgtcataagaatatttatttgtttatttccagGTTACACAGAATCTCCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCACAGCTTAACGgtaaggtgattcaattaggtaactttggcatgttttctttgtactttttc Alignment from Exonerate_coding2genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTT---G tacttttagacctgcatttgtcataagaatatttatttgtttatttccagGTTACACAGAATCTCCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCACAGCTTAACGgtaaggtgattcaattaggtaactttggcatgttttctttgtactttttc Alignment from GeneWise GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTGGT- tacttttagacctgcatttgtcataagaatatttatttgtttatttccagGTTACACAGAATCTCCCAATGCAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTAGATTTTTCCTGTTCACAGCTTAACGgtaaggtgattcaattaggtaactttggcatgttttctttgtactttttc #### Hnrnpul2_ID2408_12 --> 2 - 0 Original Alignment tgGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG ttgtgcatctgtaatgtaaatcatagaactgactcaccttctttccacagtg------CAGCGCCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGTCTGGAACCAGAGGGgtgaatgcatgcctttctttactcctccctccagcctgtgaaggaattga Alignment from CESAR tgGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG atttgtttgtgcatctgtaatgtaagaactgactcaccttctttccacagtg------CAGCGCCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGTCTGGAACCAGAGGGgtgaatgcatgcctttctttactcctccctccagcctgtgaaggaattga Alignment from Spaln_aa2Genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG ttgtgcatctgtaatgtaaatcatagaactgactcaccttctttccacagTG------CAGCGCCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGTCTGGAACCAGAGGGgtgaatgcatgcctttctttactcctccctccagcctgtgaaggaattga Alignment from Spaln_nt2Genome GGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG ttgtgcatctgtaatgtaaatcatagaactgactcaccttctttccacagTGCAGCGCCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGTCTGGAACCAGAGGGgtgaatgcatgcctttctttactcctccctccagcctgtgaaggaattga Alignment from Pairagon TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG ttgtgcatctgtaatgtaaatcatagaactgactcaccttctttccacagT------GCAGCGCCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGTCTGGAACCAGAGGGgtgaatgcatgcctttctttactcctccctccagcctgtgaaggaattga Alignment from Exonerate_protein2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG ttgtgcatctgtaatgtaaatcatagaactgactcaccttctttccacagTG------CAGCGCCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGTCTGGAACCAGAGGGgtgaatgcatgcctttctttactcctccctccagcctgtgaaggaattga Alignment from Exonerate_coding2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG ttgtgcatctgtaatgtaaatcatagaactgactcaccttctttccacagTG------CAGCGCCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGTCTGGAACCAGAGGGgtgaatgcatgcctttctttactcctccctccagcctgtgaaggaattga Alignment from GeneWise TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG ttgtgcatctgtaatgtaaatcatagaactgactcaccttctttccacagTG------CAGCGCCGAGGCTATGACAACCAGGCCTATGGGCAGCAGTACTGGGGGCAGTCTGGAACCAGAGGGgtgaatgcatgcctttctttactcctccctccagcctgtgaaggaattga #### Hoga1_ID8380_3 --> 2 - 0 Original Alignment ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggagatgaaccgatccagtattggttggtatcgtctaatcccgagctagccATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTAC------gtgagcgtattagggaatggttgatgtgtgctggaggtcatgattggagg Alignment from CESAR ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggagatgaaccgatccagtattggttggtatcgtctaatcccgagctagccATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACGTGAGCgtattagggaatggttgatgtgtgctggaggtcatgattggagg Alignment from Spaln_aa2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggagatgaaccgatccagtattggttggtatcgtctaatcccgagctagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACGTGAGCgtattagggaatggttgatgtgtgctggaggtcatgattggagg Alignment from Spaln_nt2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTAC tggagatgaaccgatccagtattggttggtatcgtctaatcccgagctagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACgtgagcgtattagggaatggttgatgtgtgctggaggtcatgattggagg Alignment from Pairagon CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTAC tggagatgaaccgatccagtattggttggtatcgtctaatcccgagctagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACgtgagcgtattagggaatggttgatgtgtgctggaggtcatgattggagg Alignment from Exonerate_protein2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggagatgaaccgatccagtattggttggtatcgtctaatcccgagctagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACGTGAGCgtattagggaatggttgatgtgtgctggaggtcatgattggagg Alignment from Exonerate_coding2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggagatgaaccgatccagtattggttggtatcgtctaatcccgagctagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACGTGAGCgtattagggaatggttgatgtgtgctggaggtcatgattggagg Alignment from GeneWise CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggagatgaaccgatccagtattggttggtatcgtctaatcccgagctagCCATGCAAGCTACAGTAGAGATGACTGTTAGCATGGCCCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCATGGCCACATGAGCAGTGCAGCAATCATTCACCACTACGTGAGCgtattagggaatggttgatgtgtgctggaggtcatgattggagg #### Hps1_ID8616_12 --> 0 - 2 Original Alignment AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga tggagaacaccctcatacagtcactgatacagtttttttcttctccttag------TGGCTGGAGTTTAAGAGTAAAGCCTTCTCTAAAGGTGAGCCAGGTTCATCCTGGgagtgagtctattgaagcaaaagagttatgtacactcatgcacagtcacttg Alignment from CESAR AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGga tctttgtggagaacaccctcatacagatacagtttttttcttctccttag------TGGCTGGAGTTTAAGAGTAAAGCCTTCTCTAAAGGTGAGCCAGGTTCATCCTGGgagtgagtctattgaagcaaaagagttatgtacactcatgcacagtcacttg Alignment from Spaln_aa2Genome AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tggagaacaccctcatacagtcactgatacagtttttttcttctccttag------TGGCTGGAGTTTAAGAGTAAAGCCTTCTCTAAAGGTGAGCCAGGTTCATCCTGGGAgtgagtctattgaagcaaaagagttatgtacactcatgcacagtcacttg Alignment from Spaln_nt2Genome TGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tggagaacaccctcatacagtcactgatacagtttttttcttctccttagTGGCTGGAGTTTAAGAGTAAAGCCTTCTCTAAAGGTGAGCCAGGTTCATCCTGGGAgtgagtctattgaagcaaaagagttatgtacactcatgcacagtcacttg Alignment from Pairagon AACACCTGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tggagaacaccctcatacagtcactgatacagtttttttcttctccttag------TGGCTGGAGTTTAAGAGTAAAGCCTTCTCTAAAGGTGAGCCAGGTTCATCCTGGGAgtgagtctattgaagcaaaagagttatgtacactcatgcacagtcacttg Alignment from Exonerate_protein2genome TGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tggagaacaccctcatacagtcactgatacagtttttttcttctccttagTGGCTGGAGTTTAAGAGTAAAGCCTTCTCTAAAGGTGAGCCAGGTTCATCCTGGGAgtgagtctattgaagcaaaagagttatgtacactcatgcacagtcacttg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGGCTGGAGTTTAAGAGCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGA tggagaacaccctcatacagtcactgatacagtttttttcttctccttagTGGCTGGAGTTTAAGAGTAAAGCCTTCTCTAAAGGTGAGCCAGGTTCATCCTGGGAgtgagtctattgaagcaaaagagttatgtacactcatgcacagtcacttg #### Hps1_ID8617_11 --> 0 - 0 Original Alignment AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccctgggtccccctatctcaatatatcatcaacagctcttcttcttgcag------GGCACCCCACTCACCCAAATTTTATGCCAACTGCTGGATGGATTCTCCCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGAAGTGCCCTACGATCCCAGCCCTTTGTGGCCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtgagctctcaggactaatgtgggccaattttggaggagatttggtgctg Alignment from CESAR AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG cccatcccctgggtccccctatctctcatcaacagctcttcttcttgcag------GGCACCCCACTCACCCAAATTTTATGCCAACTGCTGGATGGATTCTCCCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGAAGTGCCCTACGATCCCAGCCCTTTGTGGCCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtgagctctcaggactaatgtgggccaattttggaggagatttggtgctg Alignment from Spaln_aa2Genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccctgggtccccctatctcaatatatcatcaacagctcttcttcttgcag------GGCACCCCACTCACCCAAATTTTATGCCAACTGCTGGATGGATTCTCCCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGAAGTGCCCTACGATCCCAGCCCTTTGTGGCCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtgagctctcaggactaatgtgggccaattttggaggagatttggtgctg Alignment from Spaln_nt2Genome AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccctgggtccccctatctcaatatatcatcaacagctcttcttcttgcag------GGCACCCCACTCACCCAAATTTTATGCCAACTGCTGGATGGATTCTCCCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGAAGTGCCCTACGATCCCAGCCCTTTGTGGCCGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtgagctctcaggactaatgtgggccaattttggaggagatttggtgctg Alignment from Pairagon AGCCCCAGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccctgggtccccctatctcaatatatcatcaacagctcttcttcttgcag------GGCACCCCACTCACCCAAATTTTATGCCAACTGCTGGATGGATTCTCCCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGAAGTGCCCTACGATCCCAGCCCTTTGTGGCCGACCCACACCAGAACA---ACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtgagctctcaggactaatgtgggccaattttggaggagatttggtgctg Alignment from Exonerate_protein2genome AGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG ccctgggtccccctatctcaatatatcatcaacagctcttcttcttgcagGGCACCCCACTCACCCAAATTTTATGCCAACTGCTGGATGGATTCTCCCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGAAGTGCCCTACGATCCCAGCCCTTTGTGGCCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtgagctctcaggactaatgtgggccaattttggaggagatttggtgctg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -----AGCCCC---------------------------------------AGCACCCCACTGGCCCTGATCCTGTACCAACTGCTGGATGGCTTCTCCCTCCTGGAGAAAAAGCTGAAGGAAGGTCAGGAGGCCGGAAGTGCCCTGCGATCCCAGCCCTTTGTTGCAGACCTGCGCCAGAAGATGGACAAGTTTATCAAGAATCGAGTTGGGCAGGAGATTCAG CCCTGGGTCCCCCTATCTCAATATATCATCAACAGCTCTTCTTCTTGCAGGGCACCCCACTCACCCAAATTTTATGCCAACTGCTGGATGGATTCTCCCTCCTGGAGAAAAAGTTGAAGGAGGGCCAGGAGGCTGGAAGTGCCCTACGATCCCAGCCCTTTGTGGCCGACCCACACCAGAAC---AACAAGTTCATCAAGAATCGGGTAGGGCAGGAGATTCAGgtgagctctcaggactaatgtgggccaattttggaggagatttggtgctg #### Hps1_ID8622_6 --> 1 - 0 Original Alignment cCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG ttttagttgtattctcttccacccccctgtccttgttgctgtcttttcagc------------ACCCTGTGCCCGGCAGACCTCCTT---------CTCCTAGTGCATGATCTACAGCCCTCACCAGCTATGACAGAGGAGGAGGGGGAGGAAGAAGATAGTCACAGCCCTCAGgtgagtgcagatacgcagaataggggtaaactaactgcgctaagatagaa Alignment from CESAR cCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG cctcccacaccattttagttgtattcctgtccttgttgctgtcttttcagc------------ACCCTGTGCCCGGCAGACCTCCTT---------CTCCTAGTGCATGATCTACAGCCCTCACCAGCTATGACAGAGGAGGAGGGGGAGGAAGAAGATAGTCACAGCCCTCAGgtgagtgcagatacgcagaataggggtaaactaactgcgctaagatagaa Alignment from Spaln_aa2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG ttttagttgtattctcttccacccccctgtccttgttgctgtcttttcagC------------ACCCTGTGCCCGGCAGACCTCCTT---------CTCCTAGTGCATGATCTACAGCCCTCACCAGCTATGACAGAGGAGGAGGGGGAGGAAGAAGATAGTCACAGCCCTCAGgtgagtgcagatacgcagaataggggtaaactaactgcgctaagatagaa Alignment from Spaln_nt2Genome CACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG ttttagttgtattctcttccacccccctgtccttgttgctgtcttttcagCACCCTGTGCCCGGCAGAC---------CTCCTTCTCCTAGTGCATGATCTACAGCCCTCACCAGCTATGACAGAGGAGGAGGGGGAGGAAGAAGATAGTCACAGCCCTCAGgtgagtgcagatacgcagaataggggtaaactaactgcgctaagatagaa Alignment from Pairagon CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG ttttagttgtattctcttccacccccctgtccttgttgctgtcttttcag------------CACCCTGTGCCCGGCAGACCTCC---------TTCTCCTAGTGCATGATCTACAGCCCTCACCAGCTATGACAGAGGAGGAGGGGGAGGAAGAAGATAGTCACAGCCCTCAGgtgagtgcagatacgcagaataggggtaaactaactgcgctaagatagaa Alignment from Exonerate_protein2genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG ttttagttgtattctcttccacccccctgtccttgttgCTGTCTTTTCAGCACCCTGTGCCCGGCAGACCTCCTT---------CTCCTAGTGCATGATCTACAGCCCTCACCAGCTATGACAGAGGAGGAGGGGGAGGAAGAAGATAGTCACAGCCCTCAGgtgagtgcagatacgcagaataggggtaaactaactgcgctaagatagaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG ttttagttgtattctcttccacccccctgtccttgttgctgtcttttcagC------------ACCCTGTGCCCGGCAGACCTCCTT---------CTCCTAGTGCATGATCTACAGCCCTCACCAGCTATGACAGAGGAGGAGGGGGAGGAAGAAGATAGTCACAGCCCTCAGgtgagtgcagatacgcagaataggggtaaactaactgcgctaagatagaa #### Incenp_ID2604_15 --> 0 - 0 Original Alignment GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gggggtagtgatgccgtaaggggggaggactttttgcaaacattgtttagGAGGAGCAACAGCACCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCACGGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTGCTCAACATGACGGTGGATGTGCGAAATGGGgtctggcgaagaagctatcttcctgctcaacccaacctatgcttgctgtg Alignment from CESAR GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gggggtagtgatgccgtaaggggggaggactttttgcaaacattgtttagGAGGAGCAACAGCACCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCACGGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTGCTCAACATGACGGTGGATGTGCGAAATGGGgtctggcgaagaagctatcttcctgctcaacccaacctatgcttgctgtg Alignment from Spaln_aa2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gggggtagtgatgccgtaaggggggaggactttttgcaaacattgtttagGAGGAGCAACAGCACCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCACGGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTGCTCAACATGACGGTGGATGTGCGAAATGGGgtctggcgaagaagctatcttcctgctcaacccaacctatgcttgctgtg Alignment from Spaln_nt2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCA------G gggggtagtgatgccgtaaggggggaggactttttgcaaacattgtttagGAGGAGCAACAGCACCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCACGGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTGCTCAACATGACGGTGGATGTGCGAAATGGGgtctggcgaagaagctatcttcctgctcaacccaacctatgcttgctgtg Alignment from Pairagon GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGAT gggggtagtgatgccgtaaggggggaggactttttgcaaacattgtttagGAGGAGCAACAGCACCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCACGGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTGCTCAACATGACGGTGGATgtgcgaaatggggtctggcgaagaagctatcttcctgctcaacccaacctatgcttgctgtg Alignment from Exonerate_protein2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGAT gggggtagtgatgccgtaaggggggaggactttttgcaaacattgtttagGAGGAGCAACAGCACCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCACGGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTGCTCAACATGACGGTGGATgtgcgaaatggggtctggcgaagaagctatcttcctgctcaacccaacctatgcttgctgtg Alignment from Exonerate_coding2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGAT gggggtagtgatgccgtaaggggggaggactttttgcaaacattgtttagGAGGAGCAACAGCACCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCACGGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTGCTCAACATGACGGTGGATgtgcgaaatggggtctggcgaagaagctatcttcctgctcaacccaacctatgcttgctgtg Alignment from GeneWise GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gggggtagtgatgccgtaaggggggaggactttttgcaaacattgtttagGAGGAGCAACAGCACCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCACGGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTGCTCAACATGACGGTGGATGTGCGAAATGGGgtctggcgaagaagctatcttcctgctcaacccaacctatgcttgctgtg #### Incenp_ID2605_14 --> 1 - 0 Original Alignment gGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttggaaattcgcttcattggaagacaactgcctttctatccctgtgacagg---ATGCAGGAGAGAGAGAAAGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCGGAAGgtaccggccttgtaaagatatgttctccaggtcgaatttgaactaaagca Alignment from CESAR gGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG agcttggaaattcgcttcattggaaaactgcctttctatccctgtgacagg---ATGCAGGAGAGAGAGAAAGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCGGAAGgtaccggccttgtaaagatatgttctccaggtcgaatttgaactaaagca Alignment from Spaln_aa2Genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttggaaattcgcttcattggaagacaactgcctttctatccctgtgacagG---ATGCAGGAGAGAGAGAAAGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCGGAAGgtaccggccttgtaaagatatgttctccaggtcgaatttgaactaaagca Alignment from Spaln_nt2Genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttggaaattcgcttcattggaagacaactgcctttctatccctgtgacag---GATGCAGGAGAGAGAGAAAGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCGGAAGgtaccggccttgtaaagatatgttctccaggtcgaatttgaactaaagca Alignment from Pairagon GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttggaaattcgcttcattggaagacaactgcctttctatccctgtgacag---GATGCAGGAGAGAGAGAAAGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCGGAAGgtaccggccttgtaaagatatgttctccaggtcgaatttgaactaaagca Alignment from Exonerate_protein2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttggaaattcgcttcattggaagacaactgcctttctatccctgtgacagG---ATGCAGGAGAGAGAGAAAGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCGGAAGgtaccggccttgtaaagatatgttctccaggtcgaatttgaactaaagca Alignment from Exonerate_coding2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttggaaattcgcttcattggaagacaactgcctttctatccctgtgacagG---ATGCAGGAGAGAGAGAAAGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCGGAAGgtaccggccttgtaaagatatgttctccaggtcgaatttgaactaaagca Alignment from GeneWise GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ttggaaattcgcttcattggaagacaactgcctttctatccctgtgacagG---ATGCAGGAGAGAGAGAAAGCCTTGAGACTCCAAAAGGAACGACTTCAAAAGGAACTGGGGGAAAAGAAGCGGAAGgtaccggccttgtaaagatatgttctccaggtcgaatttgaactaaagca #### Incenp_ID2611_8 --> 1 - 0 Original Alignment g------AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacattctatatattttgtttttaaggCAGCTTAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGACCTTAAGCCCTGTCAGAATAAAACACTTTCACCACCCTGCCCACCCAACAAGgtctgcaaccgctcatgttcgatgcccttgttttgcattctgtccaagcc Alignment from CESAR g------AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacattctatatattttgtttttaaggCAGCTTAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGACCTTAAGCCCTGTCAGAATAAAACACTTTCACCACCCTGCCCACCCAACAAGgtctgcaaccgctcatgttcgatgcccttgttttgcattctgtccaagcc Alignment from Spaln_aa2Genome GAGGAAACGCAGT------TACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacattctatatattttgtttttaagGCAGCTTAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGACCTTAAGCCCTGTCAGAATAAAACACTTTCACCACCCTGCCCACCCAACAAGgtctgcaaccgctcatgttcgatgcccttgttttgcattctgtccaagcc Alignment from Spaln_nt2Genome GAGGAAACGC------AGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacattctatatattttgtttttaagGCAGCTTAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGACCTTAAGCCCTGTCAGAATAAAACACTTTCACCACCCTGCCCACCCAACAAGgtctgcaaccgctcatgttcgatgcccttgttttgcattctgtccaagcc Alignment from Pairagon G------AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacattctatatattttgtttttaagGCAGCTTAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGACCTTAAGCCCTGTCAGAATAAAACACTTTCACCACCCTGCCCACCCAACAAGgtctgcaaccgctcatgttcgatgcccttgttttgcattctgtccaagcc Alignment from Exonerate_protein2genome G------AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacattctatatattttgtttttaagGCAGCTTAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGACCTTAAGCCCTGTCAGAATAAAACACTTTCACCACCCTGCCCACCCAACAAGgtctgcaaccgctcatgttcgatgcccttgttttgcattctgtccaagcc Alignment from Exonerate_coding2genome G------AGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacattctatatattttgtttttaagGCAGCTTAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGACCTTAAGCCCTGTCAGAATAAAACACTTTCACCACCCTGCCCACCCAACAAGgtctgcaaccgctcatgttcgatgcccttgttttgcattctgtccaagcc Alignment from GeneWise ----AGGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG agagggctattgacacttgttaatgacattctatatattttgtttttaagGCAGCTTAGGAAACGCAGTTACAAAAAGGCAATAAGTAAGCCAGATGAGGAGCAACTGGAAGATGAAGACCTTAAGCCCTGTCAGAATAAAACACTTTCACCACCCTGCCCACCCAACAAGgtctgcaaccgctcatgttcgatgcccttgttttgcattctgtccaagcc #### Jak2_ID6240_16 --> 0 - 1 Original Alignment AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAg gtgaagcaacctgcatccctaagtggtctcttctctattttccttcccag------CAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAATAGCCTGTTTACTCCTggtaagtgctggtcagactctcttctgaccactgatgatggatttgtcttc Alignment from CESAR AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAg tcatttgtgaagcaacctgcatcccgtctcttctctattttccttcccag------CAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAATAGCCTGTTTACTCCTggtaagtgctggtcagactctcttctgaccactgatgatggatttgtcttc Alignment from Spaln_aa2Genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG gtgaagcaacctgcatccctaagtggtctcttctctattttccttcccag------CAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAATAGCCTGTTTACTCCTGgtaagtgctggtcagactctcttctgaccactgatgatggatttgtcttc Alignment from Spaln_nt2Genome CAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG gtgaagcaacctgcatccctaagtggtctcttctctattttccttcccagCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAATAGCCTGTTTACTCCTGgtaagtgctggtcagactctcttctgaccactgatgatggatttgtcttc Alignment from Pairagon CAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG gtgaagcaacctgcatccctaagtggtctcttctctattttccttcccagCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAATAGCCTGTTTACTCCTGgtaagtgctggtcagactctcttctgaccactgatgatggatttgtcttc Alignment from Exonerate_protein2genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG gtgaagcaacctgcatccctaagtggtctcttctctattttcctTCCCAGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAATAGCCTGTTTACTCCTGgtaagtgctggtcagactctcttctgaccactgatgatggatttgtcttc Alignment from Exonerate_coding2genome AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG gtgaagcaacctgcatccctaagtggtctcttctctattttcctTCCCAGCAGTTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAATAGCCTGTTTACTCCTGgtaagtgctggtcagactctcttctgaccactgatgatggatttgtcttc Alignment from GeneWise AAGCTGCAGTTCTATGAAGATAAGCATCAGCTTCCTGCACCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGGCCTGCTTTCAGAGCTGTCATCCGTGATCTTAACAGCCTGTTTACTCCAG gtgaagcaacctgcatccctaagtggtctcttctctattttccttcccagCAG------TTCTATGAAGACAAGCATCAGCTTCCTGCCCCCAAGTGGACAGAGTTAGCAAACCTTATAAATAATTGCATGGACTATGAGCCAGATTTCAGACCTGCCTTCAGAGCTCTTGTACGTGATCTTAATAGCCTGTTTACTCCTGgtaagtgctggtcagactctcttctgaccactgatgatggatttgtcttc #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG acagatgtgtatccacaggtgataacttttcttttttaatgtattcacagtGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACACTGCAGTATCTCAAC------------------gtaagggggcataactacagccggatgattatcgtcaaggtgacgcaaca Alignment from CESAR tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG acagatgtgtatccacaggtgataacttttcttttttaatgtattcacagtGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACACTGCAGTATCTCAAC------------------gtaagggggcataactacagccggatgattat Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTC------ATCAATTACTACAAG--------- acagatgtgtatccacaggtgataacttttcttttttaatgtattcacagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACACTGCAGTATCTCAACGTAAGGGGGCATAACTACAGCCGGATGATTATCgtcaaggtgacgcaaca Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAAC acagatgtgtatccacaggtgataacttttcttttttaatgtattcacagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACACTGCAGTATCTCAACgtaagggggcataactacagccggatgattatcgtcaaggtgacgcaaca Alignment from Pairagon TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAAC acagatgtgtatccacaggtgataacttttcttttttaatgtattcacagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACACTGCAGTATCTCAACgtaagggggcataactacagccggatgattatcgtcaaggtgacgcaaca Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTC------ATCAATTACTACAAG acagatgtgtatccacaggtgataacttttcttttttaatgtattcacagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACACTGCAGTATCTCAACGTAAGGGGGCATAACTACAGCCGGatgattatcgtcaaggtgacgcaaca Alignment from Exonerate_coding2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTC------ATCAATTACTACAAG acagatgtgtatccacaggtgataacttttcttttttaatgtattcacagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACACTGCAGTATCTCAACGTAAGGGGGCATAACTACAGCCGGatgattatcgtcaaggtgacgcaaca Alignment from GeneWise TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATC------AATTACTACAAG--------- acagatgtgtatccacaggtgataacttttcttttttaatgtattcacagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCTACACTGCAGTATCTCAACGTAAGGGGGCATAACTACAGCCGGATGATTATCgtcaaggtgacgcaaca #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---aa gtttgggcctgtacaagagatgaaggtcctggctctttctcaatttctaggcTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACTCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCGAAaagtaatttaaagtgctaactgggggaatgtggtatggtctatctgttctgg Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---aa gtttgggcctgtacaagagatgaaggtcctggctctttctcaatttctaggcTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACTCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCGAAaagtaatttaaagtgctaactgggggaatgtggtatggtctatctgttctgg Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAAT-- gtttgggcctgtacaagagatgaaggtcctggctctttctcaatttctagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACTCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCGAAAAgtaatttaaagtgctaactgggggaatgtggtatggtctatctgttctgg Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---AA gtttgggcctgtacaagagatgaaggtcctggctctttctcaatttctagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACTCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCGAAAAgtaatttaaagtgctaactgggggaatgtggtatggtctatctgttctgg Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---AA gtttgggcctgtacaagagatgaaggtcctggctctttctcaatttctagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACTCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCGAAAAgtaatttaaagtgctaactgggggaatgtggtatggtctatctgttctgg Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---AA gtttgggcctgtacaagagatgaaggtcctggctctttctcaatttctagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACTCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCGAAAAgtaatttaaagtgctaactgggggaatgtggtatggtctatctgttctgg Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---AA gtttgggcctgtacaagagatgaaggtcctggctctttctcaatttctagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACTCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCGAAAAgtaatttaaagtgctaactgggggaatgtggtatggtctatctgttctgg Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAAT-- gtttgggcctgtacaagagatgaaggtcctggctctttctcaatttctagGCTATGAACTCTCAAAAGTAGATGGGAAGACTGGCACTCCCGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCGAAAAgtaatttaaagtgctaactgggggaatgtggtatggtctatctgttctgg #### Kat5_ID1111_11 --> 0 - 1 Original Alignment ---GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa ctcggtgcccctactctccaacctgttcgaaagctggttccttcctccagATCGAAAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCTTACCAACGCCGCGGCTATGGTAGGTTGCTTATTGAGTTCagtaagaatgcgctacctggtcagggtctggtaggatgaggttgggttggt Alignment from CESAR ---GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa ctcggtgcccctactctccaacctgttcgaaagctggttccttcctccagATCGAAAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCTTACCAACGCCGCGGCTATGGTAGGTTGCTTATTGAGTTCagtaagaatgcgctacctggtcagggtctggtaggatgaggttgggttggt Alignment from Spaln_aa2Genome GAAAAGGAATCC---ACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ctcggtgcccctactctccaacctgttcgaaagctggttccttcctccagATCGAAAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCTTACCAACGCCGCGGCTATGGTAGGTTGCTTATTGAGTTCAgtaagaatgcgctacctggtcagggtctggtaggatgaggttgggttggt Alignment from Spaln_nt2Genome GAAAAGGAATCCAC---AGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ctcggtgcccctactctccaacctgttcgaaagctggttccttcctccagATCGAAAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCTTACCAACGCCGCGGCTATGGTAGGTTGCTTATTGAGTTCAgtaagaatgcgctacctggtcagggtctggtaggatgaggttgggttggt Alignment from Pairagon ---GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ctcggtgcccctactctccaacctgttcgaaagctggttccttcctccagATCGAAAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCTTACCAACGCCGCGGCTATGGTAGGTTGCTTATTGAGTTCAgtaagaatgcgctacctggtcagggtctggtaggatgaggttgggttggt Alignment from Exonerate_protein2genome ---GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ctcggtgcccctactctccaacctgttcgaaagctggttccttcctccagATCGAAAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCTTACCAACGCCGCGGCTATGGTAGGTTGCTTATTGAGTTCAgtaagaatgcgctacctggtcagggtctggtaggatgaggttgggttggt Alignment from Exonerate_coding2genome ---GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ctcggtgcccctactctccaacctgttcgaaagctggttccttcctccagATCGAAAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCTTACCAACGCCGCGGCTATGGTAGGTTGCTTATTGAGTTCAgtaagaatgcgctacctggtcagggtctggtaggatgaggttgggttggt Alignment from GeneWise -----------------------------------------------------GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA CTCGGTGCCCCTACTCTCCAACCTGTTCGAAAGCTGGTTCCTTCCTCCAGATCGAAAAAGAGTCCACAGAAGATTACAACATTGCTTGCATTTTAACTCTACCCCCTTACCAACGCCGCGGCTATGGTAGGTTGCTTATTGAGTTCAgtaagaatgcgctacctggtcagggtctggtaggatgaggttgggttggt #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- cttccttgagaacaatctcacactcactcatgtttttttttccgccacagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGGATgtgaggccccagcaagggtggaattaaaatctaactgctaactgcttggg Alignment from CESAR AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- cttccttgagaacaatctcacactcactcatgtttttttttccgccacagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGGATgtgaggccccagcaagggtggaattaaaatctaactgctaactgcttggg Alignment from Spaln_aa2Genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- cttccttgagaacaatctcacactcactcatgtttttttttccgccacagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGGATgtgaggccccagcaagggtggaattaaaatctaactgctaactgcttggg Alignment from Spaln_nt2Genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- cttccttgagaacaatctcacactcactcatgtttttttttccgccacagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGGATgtgaggccccagcaagggtggaattaaaatctaactgctaactgcttggg Alignment from Pairagon AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG--- cttccttgagaacaatctcacactcactcatgtttttttttccgccacagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGGATgtgaggccccagcaagggtggaattaaaatctaactgctaactgcttggg Alignment from Exonerate_protein2genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAGGAT cttccttgagaacaatctcacactcactcatgtttttttttccgccacagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGGATgtgaggccccagcaagggtggaattaaaatctaactgctaactgcttggg Alignment from Exonerate_coding2genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAGGAT cttccttgagaacaatctcacactcactcatgtttttttttccgccacagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGGATgtgaggccccagcaagggtggaattaaaatctaactgctaactgcttggg Alignment from GeneWise AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAGGAT cttccttgagaacaatctcacactcactcatgtttttttttccgccacagAATGGATCAACATGTAGAGCTGTAGCAGCCCAGCCAGGGTGGAAGCGAAAATCTAACTGCTTGGGCACTGATGAGGATgtgaggccccagcaagggtggaattaaaatctaactgctaactgcttggg #### Kazald1_ID9301_3 --> 0 - 1 Original Alignment CTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg CCTTGCAGgttagtgacagggttattggtctctctctctctctctttcagTTCAGAGGTGGACCACAAGAATTCGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCTGCAACCCTGACGGTACTT------ggtaagtattgggattagctctgggtgctaagatgaggcatgatttgggct Alignment from CESAR CTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg CCTTGCAGgtgagcgacagggttattggtctctctctctctctctttcagTTCAGAGGTGGACCACAAGAATTCGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCTGCAACCCTGACGGTACTT------ggtaagtattgggattagctctgggtgctaagatgaggcatgatttgggct Alignment from Spaln_aa2Genome CTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTC- CCTTGCAGgttagtgacagggttattggtctctctctctctctctttcagTTCAGAGGTGGACCACAAGAATTCGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCTGCAACCCTGACGGTACTTGgtaagtattgggattagctctgggtgctaagatgaggcatgatttgggct Alignment from Spaln_nt2Genome CTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG CCTTGCAGgttagtgacagggttattggtctctctctctctctctttcagTTCAGAGGTGGACCACAAGAATTCGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCTGCAACCCTGACGGT------ACTTGgtaagtattgggattagctctgggtgctaagatgaggcatgatttgggct Alignment from Pairagon CTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG CCTTGCAGgttagtgacagggttattggtctctctctctctctctttcagTTCAGAGGTGGACCACAAGAATTCGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCTGCAACCCTGACGGTACTT------Ggtaagtattgggattagctctgggtgctaagatgaggcatgatttgggct Alignment from Exonerate_protein2genome CTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCA CCTTGCAGgttagtgacagggttattggtctctctctctctctctttcagTTCAGAGGTGGACCACAAGAATTCGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCTGCAACCCTGACGGTACTTGgtaagtattgggattagctctgggtgctaagatgaggcatgatttgggct Alignment from Exonerate_coding2genome CTGTGCAG TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCA CCTTGCAGgttagtgacagggttattggtctctctctctctctctttcagTTCAGAGGTGGACCACAAGAATTCGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCTGCAACCCTGACGGTACTTGgtaagtattgggattagctctgggtgctaagatgaggcatgatttgggct Alignment from GeneWise CTGTGCAG------------------------------------------TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCA CCTTGCAGGTTAGTGACAGGGTTATTGGTCTCTCTCTCTCTCTCTTTCAGTTCAGAGGTGGACCACAAGAATTCGAAGTGACCAGTTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTCACCCGAAATGCTCTTGGCCAAGCTGAAGCCTCTGCAACCCTGACGGTACTTGgtaagtattgggattagctctgggtgctaagatgaggcatgatttgggct #### Kcnip2_ID9603_9 --> 0 - 0 Original Alignment AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG--------- tgaggaagggtttcactcaactactcatctacccaacctttctttcgcagAAGATGGACAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGGGAACACCCgtatccaaatgagcaagaagggtgggggtctgaaaggctgttctagatcc Alignment from CESAR AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG--------- tgaggaagggtttcactcaactactcatctacccaacctttctttcgcagAAGATGGACAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGGGAACACCCgtatccaaatgagcaagaagggtgggggtctgaaaggctgttctagatcc Alignment from Spaln_aa2Genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG--------- tgaggaagggtttcactcaactactcatctacccaacctttctttcgcagAAGATGGACAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGGGAACACCCgtatccaaatgagcaagaagggtgggggtctgaaaggctgttctagatcc Alignment from Spaln_nt2Genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG--------- tgaggaagggtttcactcaactactcatctacccaacctttctttcgcagAAGATGGACAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGGGAACACCCgtatccaaatgagcaagaagggtgggggtctgaaaggctgttctagatcc Alignment from Pairagon AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG------------------------------ tgaggaagggtttcactcaactactcatctacccaacctttctttcgcagAAGATGGACAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGGGAACACCCGTATCCAAATGAGCAAGAAGGgtgggggtctgaaaggctgttctagatcc Alignment from Exonerate_protein2genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG tgaggaagggtttcactcaactactcatctacccaacctttctttcgcagAAGATGGACAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGggaacacccgtatccaaatgagcaagaagggtgggggtctgaaaggctgttctagatcc Alignment from Exonerate_coding2genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG tgaggaagggtttcactcaactactcatctacccaacctttctttcgcagAAGATGGACAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGggaacacccgtatccaaatgagcaagaagggtgggggtctgaaaggctgttctagatcc Alignment from GeneWise AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG--------- tgaggaagggtttcactcaactactcatctacccaacctttctttcgcagAAGATGGACAGAATCAAGGATGGTGTGGTGACCATTGAGGAATTCATTGCGTCTTGTCAACAGGGAACACCCgtatccaaatgagcaagaagggtgggggtctgaaaggctgttctagatcc #### Kcnip2_ID9605_7 --> 0 - 0 Original Alignment GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG ccaatgtgtgttagaagagtaaattatgtgtctatttttcctctccctag---------GCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtgagtggccactaatgtgacagattatgctaacacatgtcatcaaacac Alignment from CESAR GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG gcatccacaccaatgtgtgttagaaatgtgtctatttttcctctccctag---------GCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtgagtggccactaatgtgacagattatgctaacacatgtcatcaaacac Alignment from Spaln_aa2Genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG ccaatgtgtgttagaagagtaaattatgtgtctatttttcctctccctag---------GCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtgagtggccactaatgtgacagattatgctaacacatgtcatcaaacac Alignment from Spaln_nt2Genome GCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG ccaatgtgtgttagaagagtaaattatgtgtctatttttcctctccctagGCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtgagtggccactaatgtgacagattatgctaacacatgtcatcaaacac Alignment from Pairagon GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG ccaatgtgtgttagaagagtaaattatgtgtctatttttcctctccctag---------GCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtgagtggccactaatgtgacagattatgctaacacatgtcatcaaacac Alignment from Exonerate_protein2genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG ccaatgtgtgttagaagagtaaattatgtgtctatttttcctctccctag---------GCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtgagtggccactaatgtgacagattatgctaacacatgtcatcaaacac Alignment from Exonerate_coding2genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG ccaatgtgtgttagaagagtaaattatgtgtctatttttcctctccctag---------GCAGGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtgagtggccactaatgtgacagattatgctaacacatgtcatcaaacac Alignment from GeneWise GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG ccaatgtgtgttagaagagtaaattatgtgtctatttttcctctccctagGCA---------GGTTTGTCAGTAATCCTTCGAGCAACTATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtgagtggccactaatgtgacagattatgctaacacatgtcatcaaacac #### Kcnip2_ID9607_5 --> 0 - 1 Original Alignment GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAg tggtgggtcagcccatgtttatgttagctagtattaaattttgttttcag---TGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAAGTTTATTCACAGTTCTTTCCACAAGAGggtaaggggcaggcatccaagaaatctacactgcccataggctgcacaggt Alignment from CESAR GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAg atgtggtgggtcagcccatgtttatagctagtattaaattttgttttcag---TGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAAGTTTATTCACAGTTCTTTCCACAAGAGggtaaggggcaggcatccaagaaatctacactgcccataggctgcacaggt Alignment from Spaln_aa2Genome GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG tggtgggtcagcccatgtttatgttagctagtattaaattttgttttcag---TGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAAGTTTATTCACAGTTCTTTCCACAAGAGGgtaaggggcaggcatccaagaaatctacactgcccataggctgcacaggt Alignment from Spaln_nt2Genome TGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG tggtgggtcagcccatgtttatgttagctagtattaaattttgttttcagTGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAAGTTTATTCACAGTTCTTTCCACAAGAGGgtaaggggcaggcatccaagaaatctacactgcccataggctgcacaggt Alignment from Pairagon GAATGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG tggtgggtcagcccatgtttatgttagctagtattaaattttgttttcag---TGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAAGTTTATTCACAGTTCTTTCCACAAGAGGgtaaggggcaggcatccaagaaatctacactgcccataggctgcacaggt Alignment from Exonerate_protein2genome TGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG tggtgggtcagcccatgtttatgttagctagtattaaattttgttttcagTGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAAGTTTATTCACAGTTCTTTCCACAAGAGGgtaaggggcaggcatccaagaaatctacactgcccataggctgcacaggt Alignment from Exonerate_coding2genome TGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG tggtgggtcagcccatgtttatgttagctagtattaaattttgttttcagTGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAAGTTTATTCACAGTTCTTTCCACAAGAGGgtaaggggcaggcatccaagaaatctacactgcccataggctgcacaggt Alignment from GeneWise TGTCCCAGCGGAATTGTCAACGAGGAGAACTTCAAGCAAATTTATTCTCAGTTCTTTCCCCAAGGAG tggtgggtcagcccatgtttatgttagctagtattaaattttgttttcagTGTCCCAGTGGCATTGTCAATGAAAAGAACTTCAAGCAAGTTTATTCACAGTTCTTTCCACAAGAGGgtaaggggcaggcatccaagaaatctacactgcccataggctgcacaggt #### Kif11_ID7318_8 --> 0 - 0 Original Alignment GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttaacatttgccatataaactcttgcctgttttctcattcatttccacag---GATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTAACCCTGGGAAGAGTAATTACTGCTCTCATAGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACAAGGACTTCTATAATTGCAACCATTTCACCTGCATCTTTCAATCTCGAGgtgagtcaactagtagccatggcacttgggagccctttgcagccatggca Alignment from CESAR GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ggtttaacatttgccatataaactccctgttttctcattcatttccacag---GATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTAACCCTGGGAAGAGTAATTACTGCTCTCATAGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACAAGGACTTCTATAATTGCAACCATTTCACCTGCATCTTTCAATCTCGAGgtgagtcaactagtagccatggcacttgggagccctttgcagccatggca Alignment from Spaln_aa2Genome GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttaacatttgccatataaactcttgcctgttttctcattcatttccacagGATCTTGCTGGAAGTGAAAAT---ATTGGGCATTCTGGAGCGGTAGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTAACCCTGGGAAGAGTAATTACTGCTCTCATAGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACAAGGACTTCTATAATTGCAACCATTTCACCTGCATCTTTCAATCTCGAGgtgagtcaactagtagccatggcacttgggagccctttgcagccatggca Alignment from Spaln_nt2Genome GATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttaacatttgccatataaactcttgcctgttttctcattcatttccacagGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTAACCCTGGGAAGAGTAATTACTGCTCTCATAGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACAAGGACTTCTATAATTGCAACCATTTCACCTGCATCTTTCAATCTCGAGgtgagtcaactagtagccatggcacttgggagccctttgcagccatggca Alignment from Pairagon GTTGATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttaacatttgccatataaactcttgcctgttttctcattcatttccacag---GATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTAACCCTGGGAAGAGTAATTACTGCTCTCATAGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACAAGGACTTCTATAATTGCAACCATTTCACCTGCATCTTTCAATCTCGAGgtgagtcaactagtagccatggcacttgggagccctttgcagccatggca Alignment from Exonerate_protein2genome GATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttaacatttgccatataaactcttgcctgttttctcattcatttccacagGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTAACCCTGGGAAGAGTAATTACTGCTCTCATAGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACAAGGACTTCTATAATTGCAACCATTTCACCTGCATCTTTCAATCTCGAGgtgagtcaactagtagccatggcacttgggagccctttgcagccatggca Alignment from Exonerate_coding2genome GATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttaacatttgccatataaactcttgcctgttttctcattcatttccacagGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTAACCCTGGGAAGAGTAATTACTGCTCTCATAGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACAAGGACTTCTATAATTGCAACCATTTCACCTGCATCTTTCAATCTCGAGgtgagtcaactagtagccatggcacttgggagccctttgcagccatggca Alignment from GeneWise GATCTTGCAGGAAGTGAAAATATTGGGCGTTCTGGAGCTGTTGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTGACTCTGGGAAGAGTTATTACTGCTCTTGTGGAAAGAACACCTCATATTCCTTATCGAGAATCTAAACTAACTAGAATCCTGCAAGATTCTCTTGGGGGACGTACAAGAACATCTATAATTGCAACCATTTCCCCTGCATCTTTCAATCTTGAG ttaacatttgccatataaactcttgcctgttttctcattcatttccacagGATCTTGCTGGAAGTGAAAATATTGGGCATTCTGGAGCGGTAGACAAGAGGGCCCGGGAAGCTGGAAATATCAACCAATCCCTCTTAACCCTGGGAAGAGTAATTACTGCTCTCATAGAGAGAACACCTCATATTCCCTATCGAGAATCTAAACTAACCAGAATCCTACAAGATTCTCTTGGCGGACGTACAAGGACTTCTATAATTGCAACCATTTCACCTGCATCTTTCAATCTCGAGgtgagtcaactagtagccatggcacttgggagccctttgcagccatggca #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggtgagtgttaaaactaccatgagtcaacttacctagcctttaccaacagGATGGCAGTGGTTCCCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAGCTGCAG------------------------------aggtgaggcatcacctctcccttcattctgttttgtctggcgttttgatcat Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggtgagtgttaaaactaccatgagtcaacttacctagcctttaccaacagGATGGCAGTGGTTCCCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAGCTGCAG------------------------------aggtgaggcatcacctctcccttcattctgttttgtctggcgttttgatcat Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGG ggtgagtgttaaaactaccatgagtcaacttacctagcctttaccaacagGATGGCAGTGGTTCCCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAGCTGCAGAGgtgaggcatcacctctcccttcattctgttttgtctggcgttttgatcat Alignment from Spaln_nt2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCT ggtgagtgttaaaactaccatgagtcaacttacctagcctttaccaacagGATGGCAGTGGTTCCCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAGCTGCAGAG-GTGAGGCATCACCTCTCCCTTCATTCTgttttgtctggcgttttgatca Alignment from Pairagon GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ggtgagtgttaaaactaccatgagtcaacttacctagcctttaccaacagGATGGCAGTGGTTCCCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAGCTGCAG------------------------------AGgtgaggcatcacctctcccttcattctgttttgtctggcgttttgatcat Alignment from Exonerate_protein2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGG ggtgagtgttaaaactaccatgagtcaacttacctagcctttaccaacagGATGGCAGTGGTTCCCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAGCTGCAGAGgtgaggcatcacctctcccttcattctgttttgtctggcgttttgatcat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAG-- ggtgagtgttaaaactaccatgagtcaacttacctagcctttaccaacagGATGGCAGTGGTTCCCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGAGATGCTCTAAGACGTAGCAGTGAAATGCTTGTAAGGAAGCTGCAGAGgtgaggcatcacctctcccttcattctgttttgtctggcgttttgatcat #### Klc2_ID863_3 --> 0 - 1 Original Alignment ---------GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAg gctatctgcatgtgccatctgctgcttacatttctgttcttccttgcaagTCTCGGTTGAAGGAGAAGGGTGATGTTCCCAAAGACTCCCTCGATGACCTGTTTCCCAATGAAGATGAACAGAGGTCGggtaaagaggggtaattagctatggcagttagctaggagtttggagagggt Alignment from CESAR ---------GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAg gctatctgcatgtgccatctgctgcttacatttctgttcttccttgcaagTCTCGGTTGAAGGAGAAGGGTGATGTTCCCAAAGACTCCCTCGATGACCTGTTTCCCAATGAAGATGAACAGAGGTCGggtaaagaggggtaattagctatggcagttagctaggagtttggagagggt Alignment from Spaln_aa2Genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG gctatctgcatgtgccatctgctgcttacatttctgttcttccttgcaagtctcggttgaag---GAGAAGGGTGATGTTCCCAAAGACTCCCTCGATGACCTGTTTCCCAATGAAGATGAACAGAGGTCGGgtaaagaggggtaattagctatggcagttagctaggagtttggagagggt Alignment from Spaln_nt2Genome GAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG gctatctgcatgtgccatctgctgcttacatttctgttcttccttgcaagtctcggttgaagGAGAAGGGTGATGTTCCCAAAGACTCCCTCGATGACCTGTTTCCCAATGAAGATGAACAGAGGTCGGgtaaagaggggtaattagctatggcagttagctaggagtttggagagggt Alignment from Pairagon ------------------------------------------------------------AGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG GCTATCTGCATGTGCCATCTGCTGCTTACATTTCTGTTCTTCCTTGCAAGTCTCGGTTGAAGGAGAAGGGTGATGTTCCCAAAGACTCCCTCGATGACCTGTTTCCCAATGAAGATGAACAGAGGTCGGgtaaagaggggtaattagctatggcagttagctaggagtttggagagggt Alignment from Exonerate_protein2genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG gctatctgcatgtgccatctgctgcttacatttctgttcttccttgcaagtctcggttgAAGGAGAAGGGTGATGTTCCCAAAGACTCCCTCGATGACCTGTTTCCCAATGAAGATGAACAGAGGTCGGgtaaagaggggtaattagctatggcagttagctaggagtttggagagggt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ---------GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG gctatctgcatgtgccatctgctgcttacatttctgttcttccttgcaagTCTCGGTTGAAGGAGAAGGGTGATGTTCCCAAAGACTCCCTCGATGACCTGTTTCCCAATGAAGATGAACAGAGGTCGGgtaaagaggggtaattagctatggcagttagctaggagtttggagagggt #### Ldb1_ID9695_5 --> 0 - 1 Original Alignment GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa tgcctggggggcctcttatctaagccattgtctggctgttgcttttctagGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATTACCTTTTGC------------------------agtaagctagctctctgggagacgccgcatgagaccttatgcccgagcatg Alignment from CESAR GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATa tgcctggggggcctcttatctaagccattgtctggctgttgcttttctagGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATTACCTTTTGC------------------------agtaagctagctctctgggagacgccgcatgagaccttatgcccgagcatg Alignment from Spaln_aa2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCT tgcctggggggcctcttatctaagccattgtctggctgttgcttttctagGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATTACCTTTTGCAgtaagctagctctctgggagacgccgcatgagaccttatgcccgagcatg Alignment from Spaln_nt2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGA tgcctggggggcctcttatctaagccattgtctggctgttgcttttctagGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATTACCTT----TTGCAgtaagctagctctctgggagacgccgcatgagaccttatgcccgagcatg Alignment from Pairagon GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA tgcctggggggcctcttatctaagccattgtctggctgttgcttttctagGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATTACCTTTTGC------------------------Agtaagctagctctctgggagacgccgcatgagaccttatgcccgagcatg Alignment from Exonerate_protein2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGG tgcctggggggcctcttatctaagccattgtctggctgttgcttttctagGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATTACCTTTTGC---Agtaagctagctctctgggagacgccgcatgagaccttatgcccgagcatg Alignment from Exonerate_coding2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGG tgcctggggggcctcttatctaagccattgtctggctgttgcttttctagGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATTACCTTTTGC---Agtaagctagctctctgggagacgccgcatgagaccttatgcccgagcatg Alignment from GeneWise GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCT tgcctggggggcctcttatctaagccattgtctggctgttgcttttctagGAGTGTGATAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTCACTATTACCTTTTGCAgtaagctagctctctgggagacgccgcatgagaccttatgcccgagcatg #### Ldb1_ID9696_4 --> 1 - 0 Original Alignment g------AGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctccatatgccagcacacctatttcttcacgtgtgccttcttttacaggTCACGGAGGCACACTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTGCAGAATTGGACAGAAgtaaaacaggaagagaggttgagaggggagtgcctggggggcctcttatc Alignment from CESAR g------AGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctccatatgccagcacacctatttcttcacgtgtgccttcttttacaggTCACGGAGGCACACTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTGCAGAATTGGACAGAAgtaaaacaggaagagaggttgagaggggagtgcctggggggcctcttatc Alignment from Spaln_aa2Genome GAGGCACACACCA------TATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctccatatgccagcacacctatttcttcacgtgtgccttcttttacagGTCACGGAGGCACACTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTGCAGAATTGGACAGAAgtaaaacaggaagagaggttgagaggggagtgcctggggggcctcttatc Alignment from Spaln_nt2Genome GGAGGCACACACC-----ATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctccatatgccagcacacctatttcttcacgtgtgccttcttttacagGTCACGGAGGCACACTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTGCAGAATTGGACAGAAgtaaaacaggaagagaggttgagaggggagtgcctggggggcctcttatc Alignment from Pairagon ------GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctccatatgccagcacacctatttcttcacgtgtgccttcttttacagGTCACGGAGGCACACTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTGCAGAATTGGACAGAAgtaaaacaggaagagaggttgagaggggagtgcctggggggcctcttatc Alignment from Exonerate_protein2genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctccatatgccagcacacctatttcttcacgtgtgccttcttttacaggtcacgGAGGCACACTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTGCAGAATTGGACAGAAgtaaaacaggaagagaggttgagaggggagtgcctggggggcctcttatc Alignment from Exonerate_coding2genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctccatatgccagcacacctatttcttcacgtgtgccttcttttacaggtcacgGAGGCACACTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTGCAGAATTGGACAGAAgtaaaacaggaagagaggttgagaggggagtgcctggggggcctcttatc Alignment from GeneWise ----GGGAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG ggctccatatgccagcacacctatttcttcacgtgtgccttcttttacagGTCACGGAGGCACACTCCATATGGTAATCAAACTGACTATAGGATATTTGAGCTTAACAAGCGGCTGCAGAATTGGACAGAAgtaaaacaggaagagaggttgagaggggagtgcctggggggcctcttatc #### Ldb1_ID9697_3 --> 1 - 2 Original Alignment c---------------CCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg aagtttggcattcatttctgttctactgttgctttccaatcaccttttagcGGTCAGGCAACCTGCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTgggtaaacggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from CESAR c---------------CCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg aagtttggcattcatttctgttctactgttgctttccaatcaccttttagcGGTCAGGCAACCTGCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTgggtaaacggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Spaln_aa2Genome GTGGGCCCAACTCCCATG---TACCCACCTACATACCTGGAGCCTGGGATCGG aagtttggcattcatttctgttctactgttgctttccaatcaccttttagcggtcagGCAACCTGCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaaacggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Spaln_nt2Genome GTGG---GCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG aagtttggcattcatttctgttctactgttgctttccaatcaccttttagcggtcagGCAACCTGCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaaacggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Pairagon ----------------------------------------------------------------GCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG AAGTTTGGCATTCATTTCTGTTCTACTGTTGCTTTCCAATCACCTTTTAGCGGTCAGGCAACCTGCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaaacggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Exonerate_protein2genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG aagtttggcattcatttctgttctactgttgctttccaatcaccttttagcggtcaggcaacctgCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaaacggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from Exonerate_coding2genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG aagtttggcattcatttctgttctactgttgctttccaatcaccttttagcggtcaggcaacctgCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaaacggactgcattataccattaagtcttgtctctacatcatctgtcc Alignment from GeneWise ---GTGGGCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG aagtttggcattcatttctgttctactgttgctttccaatcaccttttagcggtcagGCAACCTGCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATTGGgtaaacggactgcattataccattaagtcttgtctctacatcatctgtcc #### Lipa_ID6938_5 --> 2 - 0 Original Alignment gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG--- ttgattgaaacctgttcaagctcaggtctcaactctcttctctctttaaggtTTCATAGCTTTTTCACAAATGCCTGAGTTGGCCAAGAAGATCAAAATGTTTTTAGCCTTGTCTCCAGTGTTGTCTCTCAATTTTGCTTCTGGTCCACTATTGCAATTGGGACACTTGCCTGATCCACTGCTCAAAGTGgtaattggtttactgatgtcttgtagatttgatagtctatttgaaagtgc Alignment from CESAR gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgattgaaacctgttcaagctcaggtctcaactctcttctctctttaaggtTTCATAGCTTTTTCACAAATGCCTGAGTTGGCCAAGAAGATCAAAATGTTTTTAGCCTTGTCTCCAGTGTTGTCTCTCAATTTTGCTTCTGGTCCACTATTGCAATTGGGACACTTGCCTGATCCACTGCTCAAAgtggtaattggtttactgatgtcttgtagatttgatagtctatttgaaagtgc Alignment from Spaln_aa2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgattgaaacctgttcaagctcaggtctcaactctcttctctctttaagGTTTCATAGCTTTTTCACAAATGCCTGAGTTGGCCAAGAAGATCAAAATGTTTTTAGCCTTGTCTCCAGTGTTGTCTCTCAATTTTGCTTCTGGTCCACTATTGCAATTGGGACACTTGCCTGATCCACTGCTCAAAgtggtaattggtttactgatgtcttgtagatttgatagtctatttgaaagtgc Alignment from Spaln_nt2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgattgaaacctgttcaagctcaggtctcaactctcttctctctttaagGTTTCATAGCTTTTTCACAAATGCCTGAGTTGGCCAAGAAGATCAAAATGTTTTTAGCCTTGTCTCCAGTGTTGTCTCTCAATTTTGCTTCTGGTCCACTATTGCAATTGGGACACTTGCCTGATCCACTGCTCAAAgtggtaattggtttactgatgtcttgtagatttgatagtctatttgaaagtgc Alignment from Pairagon GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgattgaaacctgttcaagctcaggtctcaactctcttctctctttaagGTTTCATAGCTTTTTCACAAATGCCTGAGTTGGCCAAGAAGATCAAAATGTTTTTAGCCTTGTCTCCAGTGTTGTCTCTCAATTTTGCTTCTGGTCCACTATTGCAATTGGGACACTTGCCTGATCCACTGCTCAAAgtggtaattggtttactgatgtcttgtagatttgatagtctatttgaaagtgc Alignment from Exonerate_protein2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgattgaaacctgttcaagctcaggtctcaactctcttctctctttaagGTTTCATAGCTTTTTCACAAATGCCTGAGTTGGCCAAGAAGATCAAAATGTTTTTAGCCTTGTCTCCAGTGTTGTCTCTCAATTTTGCTTCTGGTCCACTATTGCAATTGGGACACTTGCCTGATCCACTGCTCAAAgtggtaattggtttactgatgtcttgtagatttgatagtctatttgaaagtgc Alignment from Exonerate_coding2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgattgaaacctgttcaagctcaggtctcaactctcttctctctttaagGTTTCATAGCTTTTTCACAAATGCCTGAGTTGGCCAAGAAGATCAAAATGTTTTTAGCCTTGTCTCCAGTGTTGTCTCTCAATTTTGCTTCTGGTCCACTATTGCAATTGGGACACTTGCCTGATCCACTGCTCAAAgtggtaattggtttactgatgtcttgtagatttgatagtctatttgaaagtgc Alignment from GeneWise GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ttgattgaaacctgttcaagctcaggtctcaactctcttctctctttaagGTTTCATAGCTTTTTCACAAATGCCTGAGTTGGCCAAGAAGATCAAAATGTTTTTAGCCTTGTCTCCAGTGTTGTCTCTCAATTTTGCTTCTGGTCCACTATTGCAATTGGGACACTTGCCTGATCCACTGCTCAAAgtggtaattggtttactgatgtcttgtagatttgatagtctatttgaaagtgc #### Loxl4_ID8561_12 --> 2 - 0 Original Alignment gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG tccgcctctgcgacaccgttgttctggtcatcctaacttccgtgtttcaggg------CGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCTGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCTTCCAGgtaaacatcactccaggagatatgctccaggtattactgtaaggcagttc Alignment from CESAR gaGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG ggcatatccgcctctgcgacaccgtggtcatcctaacttccgtgtttcaggg------CGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCTGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCTTCCAGgtaaacatcactccaggagatatgctccaggtattactgtaaggcagttc Alignment from Spaln_aa2Genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG tccgcctctgcgacaccgttgttctggtcatcctaacttccgtgtttcagGG------CGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCTGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCTTCCAGgtaaacatcactccaggagatatgctccaggtattactgtaaggcagttc Alignment from Spaln_nt2Genome GCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG tccgcctctgcgacaccgttgttctggtcatcctaacttccgtgtttcagG--GCGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCTGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGA---GGGTCCAGGGGACTACATCTTCCAGgtaaacatcactccaggagatatgctccaggtattactgtaaggcagttc Alignment from Pairagon GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG tccgcctctgcgacaccgttgttctggtcatcctaacttccgtgtttcagG------GCGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCTGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGA---GGGTCCAGGGGACTACATCTTCCAGgtaaacatcactccaggagatatgctccaggtattactgtaaggcagttc Alignment from Exonerate_protein2genome tccgcctctgcgacaccgttgttctggtcatcctaacttccgtgtttcagggcgtcgctatgcatgtgctaactttggagaacaaggggttgctgtaggctgctgggacacctaccggcatgacagtgattgtcagtgggtggatatcaaagagggtccaggggactacatcttccaggtaaacatcactccaggagatatgctccaggtattactgtaaggcagttc Alignment from Exonerate_coding2genome GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG tccgcctctgcgacaccgttgttctggtcatcctaacttccgtgtttcAGGGCGTCGCTATGCATGT----GCTAACTTTGGAGAACAAGGGGTTGCTGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCTTCCAGgtaaacatcactccaggagatatgctccaggtattactgtaaggcagttc Alignment from GeneWise GAGTGCAGCGGCGCTATGCATGTGCCAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCATGACATCGATTGCCAGTGGGTGGATATCACAGATGTGGGTCCAGGGGACTATATCTTCCAG tccgcctctgcgacaccgttgttctggtcatcctaacttccgtgtttcagGG------CGTCGCTATGCATGTGCTAACTTTGGAGAACAAGGGGTTGCTGTAGGCTGCTGGGACACCTACCGGCATGACAGTGATTGTCAGTGGGTGGATATCAAAGAG---GGTCCAGGGGACTACATCTTCCAGgtaaacatcactccaggagatatgctccaggtattactgtaaggcagttc #### Ltbp3_ID1254_6 --> 2 - 1 Original Alignment atATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg gtttgctgccaagtcatgtcctcaactgtggcctcttccctctgttttagatATAAATGAATGTGTGATGCCTGGGATGTGTCGTCACGGCGACTGTCTGACCAACCCTGGCTCTTATCACTGTGTCTGCCCGCCTGGTCATAGCTTGGGTCCTTTCCGCAAACAGTGT---ggtgaggaggtcgggaacaattttggattagccaaaggggagcaaaagggg Alignment from CESAR atATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg gtttgctgccaagtcatgtcctcaactgtggcctcttccctctgttttagatATAAATGAATGTGTGATGCCTGGGATGTGTCGTCACGGCGACTGTCTGACCAACCCTGGCTCTTATCACTGTGTCTGCCCGCCTGGTCATAGCTTGGGTCCTTTCCGCAAACAGTGT---ggtgaggaggtcgggaacaattttggattagccaaaggggagcaaaagggg Alignment from Spaln_aa2Genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGC- gtttgctgccaagtcatgtcctcaactgtggcctcttccctctgttttagATATAAATGAATGTGTGATGCCTGGGATGTGTCGTCACGGCGACTGTCTGACCAACCCTGGCTCTTATCACTGTGTCTGCCCGCCTGGTCATAGCTTGGGTCCTTTCCGCAAACAGTGTGgtgaggaggtcgggaacaattttggattagccaaaggggagcaaaagggg Alignment from Spaln_nt2Genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gtttgctgccaagtcatgtcctcaactgtggcctcttccctctgttttagATATAAATGAATGTGTGATGCCTGGGATGTGTCGTCACGGCGACTGTCTGACCAACCCTGGCTCTTATCACTGTGTCTGCCCGCCTGGTCATAGCTTGGGTCCTTTCCGCAAACAGTG---TGgtgaggaggtcgggaacaattttggattagccaaaggggagcaaaagggg Alignment from Pairagon ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG gtttgctgccaagtcatgtcctcaactgtggcctcttccctctgttttagATATAAATGAATGTGTGATGCCTGGGATGTGTCGTCACGGCGACTGTCTGACCAACCCTGGCTCTTATCACTGTGTCTGCCCGCCTGGTCATAGCTTGGGTCCTTTCCGCAAACAGTG---TGgtgaggaggtcgggaacaattttggattagccaaaggggagcaaaagggg Alignment from Exonerate_protein2genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCA gtttgctgccaagtcatgtcctcaactgtggcctcttccctctgttttagATATAAATGAATGTGTGATGCCTGGGATGTGTCGTCACGGCGACTGTCTGACCAACCCTGGCTCTTATCACTGTGTCTGCCCGCCTGGTCATAGCTTGGGTCCTTTCCGCAAACAGTGTGgtgaggaggtcgggaacaattttggattagccaaaggggagcaaaagggg Alignment from Exonerate_coding2genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCA gtttgctgccaagtcatgtcctcaactgtggcctcttccctctgttttagATATAAATGAATGTGTGATGCCTGGGATGTGTCGTCACGGCGACTGTCTGACCAACCCTGGCTCTTATCACTGTGTCTGCCCGCCTGGTCATAGCTTGGGTCCTTTCCGCAAACAGTGTGgtgaggaggtcgggaacaattttggattagccaaaggggagcaaaagggg Alignment from GeneWise ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCA gtttgctgccaagtcatgtcctcaactgtggcctcttccctctgttttagATATAAATGAATGTGTGATGCCTGGGATGTGTCGTCACGGCGACTGTCTGACCAACCCTGGCTCTTATCACTGTGTCTGCCCGCCTGGTCATAGCTTGGGTCCTTTCCGCAAACAGTGTGgtgaggaggtcgggaacaattttggattagccaaaggggagcaaaagggg #### Ltbp3_ID1258_10 --> 0 - 1 Original Alignment ---CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg ggtgaaagctcatggtatcatcatgaggcaaagagcatgaccctctccagCAACCAGTGAGTGAAGAGCGATCCGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTAggtaagttggtgggaggggatgagcaaatcatacaggcaggggtgagccta Alignment from CESAR ---CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg ggtgaaagctcatggtatcatcatgaggcaaagagcatgaccctctccagCAACCAGTGAGTGAAGAGCGATCCGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTAggtaagttggtgggaggggatgagcaaatcatacaggcaggggtgagccta Alignment from Spaln_aa2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG ggtgaaagctcatggtatcatcatgaggcaaagagcatgaccctctccagCAACCAGTGAGTGAAGAGCGATCCGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTAGgtaagttggtgggaggggatgagcaaatcatacaggcaggggtgagccta Alignment from Spaln_nt2Genome C---CAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG ggtgaaagctcatggtatcatcatgaggcaaagagcatgaccctctccagCAACCAGTGAGTGAAGAGCGATCCGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTAGgtaagttggtgggaggggatgagcaaatcatacaggcaggggtgagccta Alignment from Pairagon ----------------------------------------------------ACCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG GGTGAAAGCTCATGGTATCATCATGAGGCAAAGAGCATGACCCTCTCCAGCAACCAGTGAGTGAAGAGCGATCCGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTAGgtaagttggtgggaggggatgagcaaatcatacaggcaggggtgagccta Alignment from Exonerate_protein2genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG ggtgaaagctcatggtatcatcatgaggcaaagagcatgaccctctccagcaaCCAGTGAGTGAAGAGCGATCCGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTAGgtaagttggtgggaggggatgagcaaatcatacaggcaggggtgagccta Alignment from Exonerate_coding2genome CCACCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG ggtgaaagctcatggtatcatcatgaggcaaagagcatgaccctctccagCAACCAGTGAGTGAAGAGCGATCCGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTAGgtaagttggtgggaggggatgagcaaatcatacaggcaggggtgagccta Alignment from GeneWise GAGTGACCATGGATCCA---------CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG ggtgaaagctcatggtatcatcatgagGCAAAGAGCATGACCCTCTCCAGCAACCAGTGAGTGAAGAGCGATCCGTGCAACAGAGCCATCCCACTACCATTACCTCACCTTCTCGGCCTTTCCTAGgtaagttggtgggaggggatgagcaaatcatacaggcaggggtgagccta #### Ltbp3_ID1263_15 --> 2 - 1 Original Alignment acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT---------g tggcaccagatttgaatcacaccaccttcatttcttggtatcgcctacagacATTGACGAATGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAATAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTCACACACCAggtaagccaagtctagtcccccccaaaggggtggcctgtcctggatagggt Alignment from CESAR acATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT---------g tggcaccagatttgaatcacaccaccttcatttcttggtatcgcctacagacATTGACGAATGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAATAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTCACACACCAggtaagccaagtctagtcccccccaaaggggtggcctgtcctggatagggt Alignment from Spaln_aa2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT---------G tggcaccagatttgaatcacaccaccttcatttcttggtatcgcctacagACATTGACGAATGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAATAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTCACACACCAGgtaagccaagtctagtcccccccaaaggggtggcctgtcctggatagggt Alignment from Spaln_nt2Genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT---------G tggcaccagatttgaatcacaccaccttcatttcttggtatcgcctacagACATTGACGAATGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAATAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTCACACACCAGgtaagccaagtctagtcccccccaaaggggtggcctgtcctggatagggt Alignment from Pairagon ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT---------G tggcaccagatttgaatcacaccaccttcatttcttggtatcgcctacagACATTGACGAATGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAATAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTCACACACCAGgtaagccaagtctagtcccccccaaaggggtggcctgtcctggatagggt Alignment from Exonerate_protein2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT---------G tggcaccagatttgaatcacaccaccttcatttcttggtatcgcctacagACATTGACGAATGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAATAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTCACACACCAGgtaagccaagtctagtcccccccaaaggggtggcctgtcctggatagggt Alignment from Exonerate_coding2genome ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT---------G tggcaccagatttgaatcacaccaccttcatttcttggtatcgcctacagACATTGACGAATGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAATAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTCACACACCAGgtaagccaagtctagtcccccccaaaggggtggcctgtcctggatagggt Alignment from GeneWise ACATCGACGAGTGTCGCGACCCTAGCACCTGCCCTGATGGCAAATGTGAAAACAAACCTGGCAGCTTCAAGTGCATCGCCTGCCAGCCTGGCTACCGTAGCCAGGGGGGCGGGGCCTGTCGT---------G tggcaccagatttgaatcacaccaccttcatttcttggtatcgcctacagACATTGACGAATGTCATGACCCTAGCACCTGCCCTGATGGCAAGTGTGAAAATAAACTTGGTAGCTTCAAGTGCATTGCCTGCCAGCCTGGCTACCGAAGCCAGGGGGGTGGGACATGTCGTCACACACCAGgtaagccaagtctagtcccccccaaaggggtggcctgtcctggatagggt #### Ltbp3_ID1269_21 --> 2 - 1 Original Alignment ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg tggagacatgggagtataagcgaacccactgccttgccttactcctgcagctGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAAGACAACAACATTGTGAACTATGGCATTCCT---------ggtaagtaagcaatttaccctagtttagtttaagggttcttgatgagaatg Alignment from CESAR ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg tggagacatgggagtataagcgaacccactgccttgccttactcctgcagctGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAAGACAACAACATTGTGAACTATGGCATTCCT---------ggtaagtaagcaatttaccctagtttagtttaagggttcttgatgagaatg Alignment from Spaln_aa2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCT- tggagacatgggagtataagcgaacccactgccttgccttactcctgcagCTGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAAGACAACAACATTGTGAACTATGGCATTCCTGgtaagtaagcaatttaccctagtttagtttaagggttcttgatgagaatg Alignment from Spaln_nt2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTG tggagacatgggagtataagcgaacccactgccttgccttactcctgcagCTGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATACTCAAGACAACAACATTGTGAACTATGGCATTCCTGgtaagtaagcaatttaccctagtttagtttaagggttcttgatgagaatg Alignment from Pairagon CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTG tggagacatgggagtataagcgaacccactgccttgccttactcctgcagCTGAATTTCATAG---GTGTCCTGATGGTAAAGGCTATACTCAAGACAACAACATTGTGAACTATGGCATTCCTGgtaagtaagcaatttaccctagtttagtttaagggttcttgatgagaatg Alignment from Exonerate_protein2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTG tggagacatgggagtataagcgaacccactgccttgccttactcctgcagCTGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAAGACAACAACATTGTGAACTATGGCATTCCTGgtaagtaagcaatttaccctagtttagtttaagggttcttgatgagaatg Alignment from Exonerate_coding2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTG tggagacatgggagtataagcgaacccactgccttgccttactcctgcagCTGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAAGACAACAACATTGTGAACTATGGCATTCCTGgtaagtaagcaatttaccctagtttagtttaagggttcttgatgagaatg Alignment from GeneWise CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCC-- tggagacatgggagtataagcgaacccactgccttgccttactcctgcagCTGAATTTCATAGG---TGTCCTGATGGTAAAGGCTATACTCAAGACAACAACATTGTGAACTATGGCATTCCTGGTAAgtaagcaatttaccctagtttagtttaagggttcttgatgagaatg #### Ltbp3_ID1270_22 --> 2 - 1 Original Alignment acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTG------g acatctgagtaataggccactgcgaacttttatttatttttcctttgcagacATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTTTAGAGTGTGTACTGGATggtaagttagactatagtgctacccaaggaacagctgaacaaagctgtctt Alignment from CESAR acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTG------g acatctgagtaataggccactgcgaacttttatttatttttcctttgcagacATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTTTAGAGTGTGTACTGGATggtaagttagactatagtgctacccaaggaacagctgaacttttttttttt Alignment from Spaln_aa2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTG------G acatctgagtaataggccactgcgaacttttatttatttttcctttgcagACATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTTTAGAGTGTGTACTGGATGgtaagttagactatagtgctacccaaggaacagctgaacaaagctgtctt Alignment from Spaln_nt2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGGACGTGG acatctgagtaataggccactgcgaacttttatttatttttcctttgcagACATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTTTAGAGTGTGTACTGGATGgtaagttagactatagtgctacccaaggaacagctgaacaaagctgtctt Alignment from Pairagon ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCG---TGGACG acatctgagtaataggccactgcgaacttttatttatttttcctttgcagACATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTTTAGAGTGTGTACTGGATGgtaagttagactatagtgctacccaaggaacagctgaacaaagctgtctt Alignment from Exonerate_protein2genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGGACGTGG acatctgagtaataggccactgcgaacttttatttatttttcctttgcagACATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTTTAGAGTGTGTACTGGATGgtaagttagactatagtgctacccaaggaacagctgaacaaagctgtctt Alignment from Exonerate_coding2genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGGACGTGG acatctgagtaataggccactgcgaacttttatttatttttcctttgcagACATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTTTAGAGTGTGTACTGGATGgtaagttagactatagtgctacccaaggaacagctgaacaaagctgtctt Alignment from GeneWise ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTG---GAC- acatctgagtaataggccactgcgaacttttatttatttttcctttgcagACATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGTAATCTTTTAGAGTGTGTACTGGATGgtaagttagactatagtgctacccaaggaacagctgaacaaagctgtctt #### Ltbp3_ID1271_23 --> 2 - 1 Original Alignment ac---GTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg tatagtgctacccaaggaacagctgaactctaaatgtgtaccccttgcagatGCTTTAGATGAGTGCTTAGATGAGTCTAACTGCAGAAATGGTGTGTTTGAGAACACACATGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTATAGTTCAGCACAACACCAATGTCTGAGCCCTGAGGAGATGggtaggtgctagaaaaacagtttggtaaggcaggaactgccaaggggtgga Alignment from CESAR acGTG---GATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg tatagtgctacccaaggaacagctgaactctaaatgtgtaccccttgcagatGCTTTAGATGAGTGCTTAGATGAGTCTAACTGCAGAAATGGTGTGTTTGAGAACACACATGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTATAGTTCAGCACAACACCAATGTCTGAGCCCTGAGGAGATGggtaggtgctagaaaaacagtttggtaaggcaggaactgccaaggggtgga Alignment from Spaln_aa2Genome AC---GTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tatagtgctacccaaggaacagctgaactctaaatgtgtaccccttgcagATGCTTTAGATGAGTGCTTAGATGAGTCTAACTGCAGAAATGGTGTGTTTGAGAACACACATGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTATAGTTCAGCACAACACCAATGTCTGAGCCCTGAGGAGATGGgtaggtgctagaaaaacagtttggtaaggcaggaactgccaaggggtgga Alignment from Spaln_nt2Genome ACG---TGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tatagtgctacccaaggaacagctgaactctaaatgtgtaccccttgcagATGCTTTAGATGAGTGCTTAGATGAGTCTAACTGCAGAAATGGTGTGTTTGAGAACACACATGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTATAGTTCAGCACAACACCAATGTCTGAGCCCTGAGGAGATGGgtaggtgctagaaaaacagtttggtaaggcaggaactgccaaggggtgga Alignment from Pairagon GTGGACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tatagtgctacccaaggaacagctgaactctaaatgtgtaccccttgcagatgctttag----------ATGAGTGCTTAGATGAGTCTAACTGCAGAAATGGTGTGTTTGAGAACACACATGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTATAGTTCAGCACAACACCAATGTCTGAGCCCTGAGGAGATGGgtaggtgctagaaaaacagtttggtaaggcaggaactgccaaggggtgga Alignment from Exonerate_protein2genome AC---GTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tatagtgctacccaaggaacagctgaactctaaatgtgtaccccttgcagATGCTTTAGATGAGTGCTTAGATGAGTCTAACTGCAGAAATGGTGTGTTTGAGAACACACATGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTATAGTTCAGCACAACACCAATGTCTGAGCCCTGAGGAGATGGgtaggtgctagaaaaacagtttggtaaggcaggaactgccaaggggtgga Alignment from Exonerate_coding2genome AC---GTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tatagtgctacccaaggaacagctgaactctaaatgtgtaccccttgcagATGCTTTAGATGAGTGCTTAGATGAGTCTAACTGCAGAAATGGTGTGTTTGAGAACACACATGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTATAGTTCAGCACAACACCAATGTCTGAGCCCTGAGGAGATGGgtaggtgctagaaaaacagtttggtaaggcaggaactgccaaggggtgga Alignment from GeneWise --GACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tatagtgctacccaaggaacagctgaactctaaatgtgtaccccttgcagATGCTTTAGATGAGTGCTTAGATGAGTCTAACTGCAGAAATGGTGTGTTTGAGAACACACATGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTATAGTTCAGCACAACACCAATGTCTGAGCCCTGAGGAGATGGgtaggtgctagaaaaacagtttggtaaggcaggaactgccaaggggtgga #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment GCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg GTACTggtaagctattgaaggatgaggatttcttttgtgattaaaattaggg---CAGTGCCCAACTTTACAAAGTGAGATCAACTCATTTTGGGACACCACTCCCCTGCTACTTGGT---------CGAggtgagtgaggctaaggggaccaatgtatacaaatcctactatagatcttg Alignment from CESAR GCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg GTACTggtatgtatttattgaaggaggatttcttttgtgattaaaattaggg---CAGTGCCCAACTTTACAAAGTGAGATCAACTCATTTTGGGACACCACTCCCCTGCTACTTGGT---------CGAggtgagtgaggctaaggggaccaatgtatacaaatcctactatagatgtgt Alignment from Spaln_aa2Genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGgtaagctattgaaggatgaggatttcttttgtgattaaaattagGG---CAGTGCCCAACTTTACAAAGTGAGATCAACTCATTTTGGGACACCACTCCCCTGCTACTTGGT---------CGAGgtgagtgaggctaaggggaccaatgtatacaaatcctactatagatcttg Alignment from Spaln_nt2Genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGgtaagctattgaaggatgaggatttcttttgtgattaaaattagGG---CAGTGCCCAACTTTACAAAGTGAGATCAACTCATTTTGGGACACCACTCCCCTGCTACTTGG---------TCGAGgtgagtgaggctaaggggaccaatgtatacaaatcctactatagatcttg Alignment from Pairagon GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGgtaagctattgaaggatgaggatttcttttgtgattaaaattagGG---CAGTGCCCAACTTTACAAAGTGAGATCAACTCATTTTGGGACACCACTCCCCTGCTACTTGG---------TCGAGgtgagtgaggctaaggggaccaatgtatacaaatcctactatagatcttg Alignment from Exonerate_protein2genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGgtaagctattgaaggatgaggatttcttttgtgattaaaatTAGGGCAGTGCCCAACTTTACAAAGTGAGATCAACTCATTTTGGGACACCACTCCCCTGCTACTTGGTCGAGGTGAGTGAGgctaaggggaccaatgtatacaaatcctactatagatcttg Alignment from Exonerate_coding2genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTAC GTACTGgtaagctattgaaggatgaggatttcttttgtgattaaaattagggcagtgcccaactttacaaagtgagatcaactcattttgggacaccactcccctgCTACTTGGTCGAGGTGAGTGAGGCTAAGGGGACCAATGTATACAAATCCTACTATAGATCTTG Alignment from GeneWise CACCGGG------------------------------------------TCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG TACTGGTAAGCTATTGAAGGATGAGGATTTCTTTTGTGA-TTAAAATTAGGGCAGTGCCCAACTTTACAAAGTGAGATCAACTCATTTTGGGACACCACTCCCCTGCTACTTGGT---------CGAGgtgagtgaggctaaggggaccaatgtatacaaatcctactatagatcttg #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg accaatgtatacaaatcctactatagatgtgttacctctgctttcttcagacGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTCGT---ggtaagtatgatgacattagggggtgagggacagtgtgcactcatcacaga Alignment from CESAR acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGg accaatgtatacaaatcctactatagatgtgttacctctgctttcttcagacGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTCGT---ggtaagtatgatgacattagggggtgagggacagtgtgcactcatcacaga Alignment from Spaln_aa2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGC- accaatgtatacaaatcctactatagatgtgttacctctgctttcttcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTCGTGgtaagtatgatgacattagggggtgagggacagtgtgcactcatcacaga Alignment from Spaln_nt2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG accaatgtatacaaatcctactatagatgtgttacctctgctttcttcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCG--TCGTGgtaagtatgatgacattagggggtgagggacagtgtgcactcatcacaga Alignment from Pairagon ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCG accaatgtatacaaatcctactatagatgtgttacctctgctttcttcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTCGTGgtaagtatgatgacattagggggtgagggacagtgtgcactcatcacaga Alignment from Exonerate_protein2genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCG accaatgtatacaaatcctactatagatgtgttacctctgctttcttcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTCGTGgtaagtatgatgacattagggggtgagggacagtgtgcactcatcacaga Alignment from Exonerate_coding2genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCG accaatgtatacaaatcctactatagatgtgttacctctgctttcttcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTCGTGgtaagtatgatgacattagggggtgagggacagtgtgcactcatcacaga Alignment from GeneWise --------------TCTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCT accaatgtatacaaatcctactatagATGTGTTACCTCTGCTTTCTTCAGACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTCATTGGGCACTGTGCACCACGTCCAGGTGGGGCAGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCTCGTCgtggtaagtatgatgacattagggggtgagggacagtgtgcactcatcacaga #### Macrod1_ID2052_7 --> 0 - 1 Original Alignment GCTTTCCCGTGCATCTCCACAGGCGTGTTT---g aagagaaaaaccacatgcttgtctgtatattaattttctttttctttcagGCCTTTCCATGCATCTCCACAGGGGTGATTGCAagtaaaatcagaagaactcggaatatggaattgtggaaaattgagtaggat Alignment from CESAR GCTTTCCCGTGCATCTCCACAGGCGTGTTT---g aagagaaaaaccacatgcttgtctgtatattaattttctttttctttcagGCCTTTCCATGCATCTCCACAGGGGTGATTGCAagtaaaatcagaagaactcggaatatggaattgtggaaaattgagtaggat Alignment from Spaln_aa2Genome GCTTTCCCGTGCATCTCCACAGGCGTGTTTGGC- aagagaaaaaccacatgcttgtctgtatattaattttctttttctttcagGCCTTTCCATGCATCTCCACAGGGGTGATTGCAAgtaaaatcagaagaactcggaatatggaattgtggaaaattgagtaggat Alignment from Spaln_nt2Genome GCTTTCCCGTGCATCTCCACAGGCGTGTTTG--- aagagaaaaaccacatgcttgtctgtatattaattttctttttctttcagGCCTTTCCATGCATCTCCACAGGGGTGATTGCAAgtaaaatcagaagaactcggaatatggaattgtggaaaattgagtaggat Alignment from Pairagon GCTTTCCCGTGCATCTCCACAGGCGTGTTTG--- aagagaaaaaccacatgcttgtctgtatattaattttctttttctttcagGCCTTTCCATGCATCTCCACAGGGGTGATTGCAAgtaaaatcagaagaactcggaatatggaattgtggaaaattgagtaggat Alignment from Exonerate_protein2genome GCTTTCCCGTGCATCTCCACAGGCGTGTTT---G aagagaaaaaccacatgcttgtctgtatattaattttctttttctttcagGCCTTTCCATGCATCTCCACAGGGGTGATTGCAAgtaaaatcagaagaactcggaatatggaattgtggaaaattgagtaggat Alignment from Exonerate_coding2genome aagagaaaaaccacatgcttgtctgtatattaattttctttttctttcaggcctttccatgcatctccacaggggtgattgcaagtaaaatcagaagaactcggaatatggaattgtggaaaattgagtaggat Alignment from GeneWise GCTTTCCCGTGCATCTCCACAGGCGTGTTTGGC- aagagaaaaaccacatgcttgtctgtatattaattttctttttctttcagGCCTTTCCATGCATCTCCACAGGGGTGATTGCAAgtaaaatcagaagaactcggaatatggaattgtggaaaattgagtaggat #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG tggggtggggtccaatatgcattcacaggatgcctccgcgtacattacaggcTACCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGAC---gtatggagcccagacagatattacatgatgggagcttggctgctataaac Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG tggggtggggtccaatatgcattcacaggatgcctccgcgtacattacaggcTACCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGAC---gtatggagcccagacagatattacatgatgggagcttggctgctata Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGAC tggggtggggtccaatatgcattcacaggatgcctccgcgtacattacagGCTACCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACgtatggagcccagacagatattacatgatgggagcttggctgctataaac Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGAC--AAG-- tggggtggggtccaatatgcattcacaggatgcctccgcgtacattacagGCTACCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACGTATGGAgcccagacagatattacatgatgggagcttggctgctataaac Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGAC tggggtggggtccaatatgcattcacaggatgcctccgcgtacattacagGCTACCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACgtatggagcccagacagatattacatgatgggagcttggctgctataaac Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG tggggtggggtccaatatgcattcacaggatgcctccgcgtacattacagGCTACCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGAC---gtatggagcccagacagatattacatgatgggagcttggctgctata Alignment from Exonerate_coding2genome tggggtggggtccaatatgcattcacaggatgcctccgcgtacattacaggctaccctaatgaggaggctgcagaggtagtgctggtttcactgcgggaatggctggagcaacacaaggacgtatggagcccagacagatattacatgatgggagcttggctgctataaac Alignment from GeneWise TGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGAC tggggtggggtccaatatgcattcacagGATGCCTCCGCGTACATTACAGGCTACCCTAATGAGGAGGCTGCAGAGGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACgtatggagcccagacagatattacatgatgggagcttggctgctataaac #### Map3k11_ID1204_5 --> 0 - 1 Original Alignment GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ctatgttagttaacagataagttagcttgatgattccgatctatctccagGAACTACTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAATGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGCAAACTTCGAGCAAGAGATAGT------------------------ggtaacagctggggcttcaattctgaagctaggttcgaaaatatgcttacc Alignment from CESAR GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTG------CGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ctatgttagttaacagataagttagcttgatgattccgatctatctccagGAACTACTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAATGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGCAAACTTCGAGCAAGAGATAGT------------------------ggtaacagctggggcttcaattctgaagctaggttcgaaaatatgcttacc Alignment from Spaln_aa2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAG------CTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ctatgttagttaacagataagttagcttgatgattccgatctatctccagGAACTACTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAATGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGCAAACTTCGAGCAAGAGATAGTGGTAAC------------AGCTGGGgcttcaattctgaagctaggttcgaa Alignment from Spaln_nt2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCG------ACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCG ctatgttagttaacagataagttagcttgatgattccgatctatctccagGAACTACTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAATGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGCAAACTTCGAGCAAGAGATAGTGgtaacagctggggcttcaattctgaagctaggttcgaaaatatgcttacc Alignment from Pairagon GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCA------GCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCG ctatgttagttaacagataagttagcttgatgattccgatctatctccagGAACTACTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAATGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGCAAACTTCGAGCAAGAGATAGTGgtaacagctggggcttcaattctgaagctaggttcgaaaatatgcttacc Alignment from Exonerate_protein2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAG------CTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACG ctatgttagttaacagataagttagcttgatgattccgatctatctccagGAACTACTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAATGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGCAAACTTCGAGCAAGAGATAGTGGTAACAGctggggcttcaattctgaagctaggttcgaaaatatgcttacc Alignment from Exonerate_coding2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAG------CTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACG ctatgttagttaacagataagttagcttgatgattccgatctatctccagGAACTACTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAATGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGCAAACTTCGAGCAAGAGATAGTGGTAACAGctggggcttcaattctgaagctaggttcgaaaatatgcttacc Alignment from GeneWise GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCG ctatgttagttaacagataagttagcttgatgattccgatctatctccagGAACTACTTAGTCGAGAGGAAGAATTGACATGGGCTGCATGTGTGCAATGGTCTCAGGCAGAGCAGCTGCGGCTGCGACGGCGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACAACTGCCTGCACTGACATTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGACGCCGGGGCACCTCCAAGTTGAGCAAACTTCGAGCAAGAGATAGTGgtaacagctggggcttcaattctgaagctaggttcgaaaatatgcttacc #### Map4k2_ID1622_2 --> 0 - 1 Original Alignment GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCA---g agggatcccagtgctgccccctatctatatgcttcctttcttcttttcagGCTCGTGACACCGTCACATCTGAACTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAACAggtaagtggatgggcatagagtcctccatacagctagaagggattgacagg Alignment from CESAR GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCA---g agggatcccagtgctgccccctatctatatgcttcctttcttcttttcagGCTCGTGACACCGTCACATCTGAACTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAACAggtaagtggatgggcatagagtcctccatacagctagaagggattgacagg Alignment from Spaln_aa2Genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCA---G agggatcccagtgctgccccctatctatatgcttcctttcttcttttcagGCTCGTGACACCGTCACATCTGAACTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAACAGgtaagtggatgggcatagagtcctccatacagctagaagggattgacagg Alignment from Spaln_nt2Genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCA---G agggatcccagtgctgccccctatctatatgcttcctttcttcttttcagGCTCGTGACACCGTCACATCTGAACTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAACAGgtaagtggatgggcatagagtcctccatacagctagaagggattgacagg Alignment from Pairagon GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACC---CAG agggatcccagtgctgccccctatctatatgcttcctttcttcttttcagGCTCGTGACACCGTCACATCTGAACTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAACAGgtaagtggatgggcatagagtcctccatacagctagaagggattgacagg Alignment from Exonerate_protein2genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCA---G agggatcccagtgctgccccctatctatatgcttcctttcttcttttcagGCTCGTGACACCGTCACATCTGAACTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAACAGgtaagtggatgggcatagagtcctccatacagctagaagggattgacagg Alignment from Exonerate_coding2genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCA---G agggatcccagtgctgccccctatctatatgcttcctttcttcttttcagGCTCGTGACACCGTCACATCTGAACTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAACAGgtaagtggatgggcatagagtcctccatacagctagaagggattgacagg Alignment from GeneWise GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAGGG- agggatcccagtgctgccccctatctatatgcttcctttcttcttttcagGCTCGTGACACCGTCACATCTGAACTGGCTGCAGTGAAGATTGTCAAGCTAGACCCAACAGgtaagtggatgggcatagagtcctccatacagctagaagggattgacagg #### Map4k2_ID1623_3 --> 2 - 2 Original Alignment gg---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag ataccatttaggcactgaacaatgcatccccattccttgtctcattctagggACTTACAACGATGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCTACCTCaggtatgtctgttcacacccccaccctcaggtgtccattgtgctaacaaaat Alignment from CESAR gg---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag ataccatttaggcactgaacaatgcatccccattccttgtctcattctagggACTTACAACGATGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCTACCTCaggtatgtctgttcacacccccaccctcaggtgtccattgtgctagccaccc Alignment from Spaln_aa2Genome GGGACGACATCAGC---------TCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ataccatttaggcactgaacaatgcatccccattccttgtctcattctagGGACTTACAACGATGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCTACCTCAGgtatgtctgttcacacccccaccctcaggtgtccattgtgctaacaaaat Alignment from Spaln_nt2Genome GGGACGACATCAG---------CTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ataccatttaggcactgaacaatgcatccccattccttgtctcattctagGGACTTACAACGATGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCTACCTCAGgtatgtctgttcacacccccaccctcaggtgtccattgtgctaacaaaat Alignment from Pairagon GG---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ataccatttaggcactgaacaatgcatccccattccttgtctcattctagGGACTTACAACGATGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCTACCTCAGgtatgtctgttcacacccccaccctcaggtgtccattgtgctaacaaaat Alignment from Exonerate_protein2genome GG---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ataccatttaggcactgaacaatgcatccccattccttgtctcattctagGGACTTACAACGATGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCTACCTCAGgtatgtctgttcacacccccaccctcaggtgtccattgtgctaacaaaat Alignment from Exonerate_coding2genome GG---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ataccatttaggcactgaacaatgcatccccattccttgtctcattctagGGACTTACAACGATGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCTACCTCAGgtatgtctgttcacacccccaccctcaggtgtccattgtgctaacaaaat Alignment from GeneWise --------GGGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ataccatttaggcactgaacaatgcatccccattccttgtctcattctagGGACTTACAACGATGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCTACCTCAGgtatgtctgttcacacccccaccctcaggtgtccattgtgctaacaaaat #### Map4k2_ID1628_7 --> 0 - 1 Original Alignment GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGg gaagcctagaggtgtacccagcatatatctcctttcttgtttcctcatagGGTGCGAACCTTCTGCTCACTCTGCAGGGTGATGTGCAG---ggtaagaagaagctgggggactttctgggaccacacaactgcatgctgggg Alignment from CESAR GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGg gaagcctagaggtgtacccagcatatatctcctttcttgtttcctcatagGGTGCGAACCTTCTGCTCACTCTGCAGGGTGATGTGCAG---ggtaagaagaagctgggggactttctgggaccacacaactgcatgctgggg Alignment from Spaln_aa2Genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAG- gaagcctagaggtgtacccagcatatatctcctttcttgtttcctcatagGGTGCGAACCTTCTGCTCACTCTGCAGGGTGATGTGCAGGgtaagaagaagctgggggactttctgggaccacacaactgcatgctgggg Alignment from Spaln_nt2Genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG gaagcctagaggtgtacccagcatatatctcctttcttgtttcctcatagGGTGCGAACCTTCTGCTCACTCTGCAGGGTGATGT---GCAGGgtaagaagaagctgggggactttctgggaccacacaactgcatgctgggg Alignment from Pairagon GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG gaagcctagaggtgtacccagcatatatctcctttcttgtttcctcatagGGTGCGAACCTTCTGCTCACTCTGCAGGGTGATGT---GCAGGgtaagaagaagctgggggactttctgggaccacacaactgcatgctgggg Alignment from Exonerate_protein2genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG gaagcctagaggtgtacccagcatatatctcctttcttgtttcctcatagGGTGCGAACCTTCTGCTCACTCTGCAGGGTGATGTGCAG---Ggtaagaagaagctgggggactttctgggaccacacaactgcatgctgggg Alignment from Exonerate_coding2genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG gaagcctagaggtgtacccagcatatatctcctttcttgtttcctcatagGGTGCGAACCTTCTGCTCACTCTGCAGGGTGATGTGCAG---Ggtaagaagaagctgggggactttctgggaccacacaactgcatgctgggg Alignment from GeneWise GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGC gaagcctagaggtgtacccagcatatatctcctttcttgtttcctcatagGGTGCGAACCTTCTGCTCACTCTGCAGGGTGATGTGCAGGgtaagaagaagctgggggactttctgggaccacacaactgcatgctgggg #### Map4k2_ID1631_10 --> 1 - 2 Original Alignment gGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTtg gcttgtccccctgatgacccttgacggtcctcctctctctctctccacagg---CTGATGCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTtggtatggctccactcacaactgagaaatttccagcctactgtatgagagag Alignment from CESAR gGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTtg cttgcttgtccccctgatgacccttggtcctcctctctctctctccacagg---CTGATGCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTtggtatggctccactcacaactgagaaatttccagcctactgtatgagagag Alignment from Spaln_aa2Genome GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcttgtccccctgatgacccttgacggtcctcctctctctctctccacagG---CTGATGCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtatggctccactcacaactgagaaatttccagcctactgtatgagagag Alignment from Spaln_nt2Genome GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcttgtccccctgatgacccttgacggtcctcctctctctctctccacagG---CTGATGCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtatggctccactcacaactgagaaatttccagcctactgtatgagagag Alignment from Pairagon ----------------------------------------------------TGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG GCTTGTCCCCCTGATGACCCTTGACGGTCCTCCTCTCTCTCTCTCCACAGGCTGATGCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtatggctccactcacaactgagaaatttccagcctactgtatgagagag Alignment from Exonerate_protein2genome GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcttgtccccctgatgacccttgacggtcctcctctctctctctccacagG---CTGATGCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtatggctccactcacaactgagaaatttccagcctactgtatgagagag Alignment from Exonerate_coding2genome GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcttgtccccctgatgacccttgacggtcctcctctctctctctccacagG---CTGATGCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtatggctccactcacaactgagaaatttccagcctactgtatgagagag Alignment from GeneWise GGCCTTGATGCTCATGTCGAAAAGCAGCTTCCAGCCACCCAAGCTAAGAGATAAGACGCGTTG gcttgtccccctgatgacccttgacggtcctcctctctctctctccacagG---CTGATGCTCATGTCAAAGAGTAGTTTCCAGCCACCTAAGCTAAGAGATAAGACACGTTGgtatggctccactcacaactgagaaatttccagcctactgtatgagagag #### Map4k2_ID1638_17 --> 1 - 0 Original Alignment gAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG------ acagtccctcttacaaataataataccataaatactttctttttcaataggAGCCTGGCTATCCGGCCAGCCTTAGAACTTCAGGGGATTgtatgggttgataagtgtgatactagaaatggactcataaactagtgcgc Alignment from CESAR gAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG------ acagtccctcttacaaataataataccataaatactttctttttcaataggAGCCTGGCTATCCGGCCAGCCTTAGAACTTCAGGGGATTgtatgggttgataagtgtgatactagaaatggactcataaactagtgcgc Alignment from Spaln_aa2Genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG------ acagtccctcttacaaataataataccataaatactttctttttcaatagGAGCCTGGCTATCCGGCCAGCCTTAGAACTTCAGGGGATTgtatgggttgataagtgtgatactagaaatggactcataaactagtgcgc Alignment from Spaln_nt2Genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG------ acagtccctcttacaaataataataccataaatactttctttttcaatagGAGCCTGGCTATCCGGCCAGCCTTAGAACTTCAGGGGATTgtatgggttgataagtgtgatactagaaatggactcataaactagtgcgc Alignment from Pairagon GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG------ acagtccctcttacaaataataataccataaatactttctttttcaatagGAGCCTGGCTATCCGGCCAGCCTTAGAACTTCAGGGGATTgtatgggttgataagtgtgatactagaaatggactcataaactagtgcgc Alignment from Exonerate_protein2genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG acagtccctcttacaaataataataccataaatactttctttttcaatagGAGCCTGGCTATCCGGCCAGCCTTAGAACTTCAGgggattgtatgggttgataagtgtgatactagaaatggactcataaactagtgcgc Alignment from Exonerate_coding2genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG acagtccctcttacaaataataataccataaatactttctttttcaatagGAGCCTGGCTATCCGGCCAGCCTTAGAACTTCAGgggattgtatgggttgataagtgtgatactagaaatggactcataaactagtgcgc Alignment from GeneWise acagtccctcttacaaataataataccataaatactttctttttcaataggagcctggctatccggccagccttagaacttcaggggattgtatgggttgataagtgtgatactagaaatggactcataaactagtgcgc #### Map4k2_ID1640_19 --> 2 - 0 Original Alignment gt------ACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCTACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG ttggggacgtgccaggggctggcatcactgtgtgtgttttcttttttcaggcACATCTACCTTGTCAGCCCCCCCAGCTGGTCCTGATAGCCACGCACTGCTACCAACTGCTTGGGCTACCCTAAAGCAGCAAGAGGATCGTGAGgtaaaagagataacagaagggtaagggtgggagacctgtactgttgtggg Alignment from CESAR gt------ACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCTACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG ttggggacgtgccaggggctggcatcactgtgtgtgttttcttttttcaggcACATCTACCTTGTCAGCCCCCCCAGCTGGTCCTGATAGCCACGCACTGCTACCAACTGCTTGGGCTACCCTAAAGCAGCAAGAGGATCGTGAGgtaaaagagataacagaagggtaagggtgggagacctgttcctctgtctc Alignment from Spaln_aa2Genome GTACCCTGTCAGCACCT------CCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCTACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG ttggggacgtgccaggggctggcatcactgtgtgtgttttcttttttcagGCACATCTACCTTGTCAGCCCCCCCAGCTGGTCCTGATAGCCACGCACTGCTACCAACTGCTTGGGCTACCCTAAAGCAGCAAGAGGATCGTGAGgtaaaagagataacagaagggtaagggtgggagacctgtactgttgtggg Alignment from Spaln_nt2Genome GTACCCTGTCAGCACC------TCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCTACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG ttggggacgtgccaggggctggcatcactgtgtgtgttttcttttttcagGCACATCTACCTTGTCAGCCCCCCCAGCTGGTCCTGATAGCCACGCACTGCTACCAACTGCTTGGGCTACCCTAAAGCAGCAAGAGGATCGTGAGgtaaaagagataacagaagggtaagggtgggagacctgtactgttgtggg Alignment from Pairagon ---------------------------------------------------------TACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCTACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG TTGGGGACGTGCCAGGGGCTGGCATCACTGTGTGTGTTTTCTTTTTTCAGGCACATCTACCTTGTCAGCCCCCCCAGCTGGTCCTGATAGCCACGCACTGCTACCAACTGCTTGGGCTACCCTAAAGCAGCAAGAGGATCGTGAGgtaaaagagataacagaagggtaagggtgggagacctgtactgttgtggg Alignment from Exonerate_protein2genome GT------ACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCTACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG ttggggacgtgccaggggctggcatcactgtgtgtgttttcttttttcagGCACATCTACCTTGTCAGCCCCCCCAGCTGGTCCTGATAGCCACGCACTGCTACCAACTGCTTGGGCTACCCTAAAGCAGCAAGAGGATCGTGAGgtaaaagagataacagaagggtaagggtgggagacctgtactgttgtggg Alignment from Exonerate_coding2genome GT------ACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCTACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG ttggggacgtgccaggggctggcatcactgtgtgtgttttcttttttcagGCACATCTACCTTGTCAGCCCCCCCAGCTGGTCCTGATAGCCACGCACTGCTACCAACTGCTTGGGCTACCCTAAAGCAGCAAGAGGATCGTGAGgtaaaagagataacagaagggtaagggtgggagacctgtactgttgtggg Alignment from GeneWise -----GGTACCCTGTCAGCACCTCCAGCTGGCCCTGGCAGCCCCGCATTGCTGCCTACCGCCTGGGCTACTCTGAAGCAACAGGAGGATCGTGAG ttggggacgtgccaggggctggcatcactgtgtgtgttttcttttttcagGCACATCTACCTTGTCAGCCCCCCCAGCTGGTCCTGATAGCCACGCACTGCTACCAACTGCTTGGGCTACCCTAAAGCAGCAAGAGGATCGTGAGgtaaaagagataacagaagggtaagggtgggagacctgtactgttgtggg #### Map4k2_ID1644_23 --> 0 - 1 Original Alignment CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAg gtgattcctccctcttgttcttaaaaaatcctctttcctttttttttcag---------CAGCGCTACTCATGGCTCTACTGTGTGAACAATGTATTGCTGGCACTCTCAggtgagtgatggcagttgtagaggcagccgggataacatgttcccaaggtt Alignment from CESAR CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAg gtgacgcttgttggccctccctcttaaatcctctttcctttttttttcag---------CAGCGCTACTCATGGCTCTACTGTGTGAACAATGTATTGCTGGCACTCTCAggtgagtgatggcagttgtagaggcagccgggataacatgttcccaaggtt Alignment from Spaln_aa2Genome CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAG gtgattcctccctcttgttcttaaaaaatcctctttcctttttttttcag---------CAGCGCTACTCATGGCTCTACTGTGTGAACAATGTATTGCTGGCACTCTCAGgtgagtgatggcagttgtagaggcagccgggataacatgttcccaaggtt Alignment from Spaln_nt2Genome CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAG gtgattcctccctcttgttcttaaaaaatcctctttcctttttttttcag---------CAGCGCTACTCATGGCTCTACTGTGTGAACAATGTATTGCTGGCACTCTCAGgtgagtgatggcagttgtagaggcagccgggataacatgttcccaaggtt Alignment from Pairagon CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAG gtgattcctccctcttgttcttaaaaaatcctctttcctttttttttcag---------CAGCGCTACTCATGGCTCTACTGTGTGAACAATGTATTGCTGGCACTCTCAGgtgagtgatggcagttgtagaggcagccgggataacatgttcccaaggtt Alignment from Exonerate_protein2genome CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAG gtgattcctccctcttgttcttaaaaaatcctctttcctttTTTTTTCAGCAGCGCTACTCATGGCTCTACTGTGTGAACAATGTATTGCTGGCACTCTCAGgtgagtgatggcagttgtagaggcagccgggataacatgttcccaaggtt Alignment from Exonerate_coding2genome CTCATCTCCCAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAG gtgattcctccctcttgttcttaaaaaatcctctttcctttTTTTTTCAGCAGCGCTACTCATGGCTCTACTGTGTGAACAATGTATTGCTGGCACTCTCAGgtgagtgatggcagttgtagaggcagccgggataacatgttcccaaggtt Alignment from GeneWise CTCATC--TCC---------------------------------------CAGCGCTGCTCCTGGCTCTACTGTGTGAACAATGTGTTGCTGTCGCTCTCAG GTGATTCCTCCCTCTTGTTCTTAAAAAATCCTCTTTCCTTTTTTTTTCAGCAGCGCTACTCATGGCTCTACTGTGTGAACAATGTATTGCTGGCACTCTCAGgtgagtgatggcagttgtagaggcagccgggataacatgttcccaaggtt #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtcccacctcaacccttgtgtttttttcagtgCACAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGGAGATCAGTgtcccggactggaggaccattaagggggtggggacccaacagactgagaa Alignment from CESAR ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtcccacctcaacccttgtgtttttttcagtgCACAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGGAGATCAGTgtcccggactggaggaccattaagggggtggggacccaacagactgagaa Alignment from Spaln_aa2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtcccacctcaacccttgtgtttttttcagTGCACAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGGAGATCAGTgtcccggactggaggaccattaagggggtggggacccaacagactgagaa Alignment from Spaln_nt2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG------- gcagggatgctgtgaggctggtcccacctcaacccttgtgtttttttcagTGCACAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGGAGATCAgtgtcccggactggaggaccattaagggggtggggacccaacagactgagaa Alignment from Pairagon TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG------------------------------------ gcagggatgctgtgaggctggtcccacctcaacccttgtgtttttttcagTGCACAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGGAGATCAGTGTCCCGGACTGGAGGACCATTAAGGGGgtggggacccaacagactgagaa Alignment from Exonerate_protein2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcagggatgctgtgaggctggtcccacctcaacccttgtgtttttttcagTGCACAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGgagatcagtgtcccggactggaggaccattaagggggtggggacccaacagactgagaa Alignment from Exonerate_coding2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG gcagggatgctgtgaggctggtcccacctcaacccttgtgtttttttcagTGCACAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGgagatcagtgtcccggactggaggaccattaagggggtggggacccaacagactgagaa Alignment from GeneWise TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG--------- gcagggatgctgtgaggctggtcccacctcaacccttgtgtttttttcagTGCACAATCCCTATACCAGCAGCACATTCCTGCTGGCTGCCCTGCCTGCAAGCCTCCTACTTTTGGAATGGTATGAGCCTCTGCAGAAATTTCTGCTGCTTAAGGAGATCAGTgtcccggactggaggaccattaagggggtggggacccaacagactgagaa #### Map4k2_ID1652_31 --> 0 - 2 Original Alignment GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC------ag ctgagaaggacattgggacggcctcaggtatgtttgttctctacttacagGTGACGCAGGAGATAACAGATGATGCTAGGATCTTCCGAGTGCTTGGAGCCCATGCACTGaggttagagcaaaacaggcctccttgatttgtaaagttgtagggtaaaacct Alignment from CESAR GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC------ag ctgagaaggacattgggacggcctcaggtatgtttgttctctacttacagGTGACGCAGGAGATAACAGATGATGCTAGGATCTTCCGAGTGCTTGGAGCCCATGCACTGaggttagagcaaaacaggcctccttgatttgtaaagttgtaggggaactcag Alignment from Spaln_aa2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAGG----- ctgagaaggacattgggacggcctcaggtatgtttgttctctacttacagGTGACGCAGGAGATAACAGATGATGCTAGGATCTTCCGAGTGCTTGGAGCCCATGCACTGAGgttagagcaaaacaggcctccttgatttgtaaagttgtagggtaaaacct Alignment from Spaln_nt2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC------AG ctgagaaggacattgggacggcctcaggtatgtttgttctctacttacagGTGACGCAGGAGATAACAGATGATGCTAGGATCTTCCGAGTGCTTGGAGCCCATGCACTGAGgttagagcaaaacaggcctccttgatttgtaaagttgtagggtaaaacct Alignment from Pairagon GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCA----------------------------------------------------------- ctgagaaggacattgggacggcctcaggtatgtttgttctctacttacagGTGACGCAGGAGATAACAGATGATGCTAGGATCTTCCGAGTGCTTGGAGCCCATGCACTGAGGTTAGAGCAAAACAGGCCTCCTTGATTTGTAAAGTTGTAGGGTAAAACCT Alignment from Exonerate_protein2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC------AG ctgagaaggacattgggacggcctcaggtatgtttgttctctacttacagGTGACGCAGGAGATAACAGATGATGCTAGGATCTTCCGAGTGCTTGGAGCCCATGCACTGAGgttagagcaaaacaggcctccttgatttgtaaagttgtagggtaaaacct Alignment from Exonerate_coding2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC------AG ctgagaaggacattgggacggcctcaggtatgtttgttctctacttacagGTGACGCAGGAGATAACAGATGATGCTAGGATCTTCCGAGTGCTTGGAGCCCATGCACTGAGgttagagcaaaacaggcctccttgatttgtaaagttgtagggtaaaacct Alignment from GeneWise GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCAC------AG ctgagaaggacattgggacggcctcaggtatgtttgttctctacttacagGTGACGCAGGAGATAACAGATGATGCTAGGATCTTCCGAGTGCTTGGAGCCCATGCACTGAGgttagagcaaaacaggcctccttgatttgtaaagttgtagggtaaaacct #### March5_ID7302_4 --> 0 - 1 Original Alignment GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg cataactcccggggtagtaacgcaaaggtgtgtcctttgccttgacccag---GTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACTCAAATAAACTACAGATCTTGAACAGTATATTTCCAggtatgttactgcattgttggcactcaaagcatacataggatagatgctca Alignment from CESAR GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg attcataactcccggggtagtaacgaggtgtgtcctttgccttgacccag---GTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACTCAAATAAACTACAGATCTTGAACAGTATATTTCCAggtatgttactgcattgttggcactcaaagcatacataggatagatgctca Alignment from Spaln_aa2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG cataactcccggggtagtaacgcaaaggtgtgtcctttgccttgacccagGTAGGCCATAAA---GAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACTCAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtatgttactgcattgttggcactcaaagcatacataggatagatgctca Alignment from Spaln_nt2Genome GTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG cataactcccggggtagtaacgcaaaggtgtgtcctttgccttgacccagGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACTCAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtatgttactgcattgttggcactcaaagcatacataggatagatgctca Alignment from Pairagon GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG cataactcccggggtagtaacgcaaaggtgtgtcctttgccttgacccag---GTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACTCAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtatgttactgcattgttggcactcaaagcatacataggatagatgctca Alignment from Exonerate_protein2genome GTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG cataactcccggggtagtaacgcaaaggtgtgtcctttgccttgacccagGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACTCAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtatgttactgcattgttggcactcaaagcatacataggatagatgctca Alignment from Exonerate_coding2genome GTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG cataactcccggggtagtaacgcaaaggtgtgtcctttgccttgacccagGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACTCAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtatgttactgcattgttggcactcaaagcatacataggatagatgctca Alignment from GeneWise GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG cataactcccggggtagtaacgcaaaggtgtgtcctttgccttgacccagGTA---GGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGACCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACCATGTGCTTAGACTATGGCGTAAATACTCAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtatgttactgcattgttggcactcaaagcatacataggatagatgctca #### Mark2_ID2111_10 --> 0 - 1 Original Alignment ---CAAATTATG---------------AAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAg tgctaagttttctttctgcctgtaccctcacaatgtctcttggtgcctagTTTCAAATTATGAAAGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCTTTTCCTGACTATAGGGAACCACGGCGAACAggtgaggccgtgatgctgtgagcctgagatacccccacattgggagctagc Alignment from CESAR ---CAAATTATGAAAGATCGGTGGATG---------------AACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAg tgctaagttttctttctgcctgtaccctcacaatgtctcttggtgcctagTTTCAAATTATGAAAGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCTTTTCCTGACTATAGGGAACCACGGCGAACAggtgaggccgtgatgctgtgagcctgagatacccccacattgggagctagc Alignment from Spaln_aa2Genome CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctaagttttctttctgcctgtaccctcacaatgtctcttggtgcctagtttcaaattatgaaagatcagTGG---ATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCTTTTCCTGACTATAGGGAACCACGGCGAACAGgtgaggccgtgatgctgtgagcctgagatacccccacattgggagctagc Alignment from Spaln_nt2Genome CAAATT--ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctaagttttctttctgcctgtaccctcacaatgtctcttggtgcctagtttcaaattatgaaagATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCTTTTCCTGACTATAGGGAACCACGGCGAACAGgtgaggccgtgatgctgtgagcctgagatacccccacattgggagctagc Alignment from Pairagon ---CAAATT---------------ATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctaagttttctttctgcctgtaccctcacaatgtctcttggtgcctagTTTCAAATTATGAAAGATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCTTTTCCTGACTATAGGGAACCACGGCGAACAGgtgaggccgtgatgctgtgagcctgagatacccccacattgggagctagc Alignment from Exonerate_protein2genome AGCAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctaagttttctttctgcctgtaccctcacaatgtctcttggtgcctagtttcaaattatgaaagATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCTTTTCCTGACTATAGGGAACCACGGCGAACAGgtgaggccgtgatgctgtgagcctgagatacccccacattgggagctagc Alignment from Exonerate_coding2genome AGCAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctaagttttctttctgcctgtaccctcacaatgtctcttggtgcctagtttcaaattatgaaagATCAGTGGATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCTTTTCCTGACTATAGGGAACCACGGCGAACAGgtgaggccgtgatgctgtgagcctgagatacccccacattgggagctagc Alignment from GeneWise CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctaagttttctttctgcctgtaccctcacaatgtctcttggtgcctagtttcaaattatgaaagatcagTGG---ATGAAAGATCAGTGGATGAATGTGGGACATGAGGATGTTGAACTAAAGCTTTATGTGGAACCTTTTCCTGACTATAGGGAACCACGGCGAACAGgtgaggccgtgatgctgtgagcctgagatacccccacattgggagctagc #### Mark2_ID2112_9 --> 0 - 0 Original Alignment GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttctcacaaagccttatatgtcagtcaaatgtgtttcttgtgtttcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGC---------gtaactaaccgtctctctctaagatcctagtcagcaaaggaaaatgccaa Alignment from CESAR GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG ccttctcacaaagccttatatgtcagtcaaatgtgtttcttgtgtttcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGC---------gtaactaaccgtctctctctaagatcctagtcagcaaagga Alignment from Spaln_aa2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC---ACTTTAG ccttctcacaaagccttatatgtcagtcaaatgtgtttcttgtgtttcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCGTAACTAACCgtctctctctaagatcctagtcagcaaaggaaaatgccaa Alignment from Spaln_nt2Genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttctcacaaagccttatatgtcagtcaaatgtgtttcttgtgtttcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtaactaaccgtctctctctaagatcctagtcagcaaaggaaaatgccaa Alignment from Pairagon GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttctcacaaagccttatatgtcagtcaaatgtgtttcttgtgtttcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtaactaaccgtctctctctaagatcctagtcagcaaaggaaaatgccaa Alignment from Exonerate_protein2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttctcacaaagccttatatgtcagtcaaatgtgtttcttgtgtttcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtaactaaccgtctctctctaagatcctagtcagcaaaggaaaatgccaa Alignment from Exonerate_coding2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGC ccttctcacaaagccttatatgtcagtcaaatgtgtttcttgtgtttcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCgtaactaaccgtctctctctaagatcctagtcagcaaaggaaaatgccaa Alignment from GeneWise GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG- ccttctcacaaagccttatatgtcagtcaaatgtgtttcttgtgtttcagGAGCTACGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACTGACTGTGAAAATCTACTTAAGAAATTCCTCATACTTAATCCTAGTAAAAGAGGCGTAACTAACCgtctctctctaagatcctagtcagcaaaggaaaatgccaa #### Mark2_ID2114_7 --> 0 - 0 Original Alignment ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgttatgcctccttgtctcactctcagttccccctccccccttccccagATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGGAAGAAGAGgtataatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from CESAR ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgttatgcctccttgtctcactctcagttccccctccccccttccccagATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGGAAGAAGAGgtataatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from Spaln_aa2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgttatgcctccttgtctcactctcagttccccctccccccttccccagATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGGAAGAAGAGgtataatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from Spaln_nt2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGG-------- ctgttatgcctccttgtctcactctcagttccccctccccccttccccagATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGGAAGAAGAGgtataatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from Pairagon ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGGCAG------------------------------------ ctgttatgcctccttgtctcactctcagttccccctccccccttccccagATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGGAAGAAGAGGTATAATATGTTCCTGTCCCTATAACCTGCTgtgagtgggccaggtggcc Alignment from Exonerate_protein2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcctccttgtctcactctcagttccccctccccccttccccagATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgaagaagaggtataatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from Exonerate_coding2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgttatgcctccttgtctcactctcagttccccctccccccttccccagATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgaagaagaggtataatatgttcctgtccctataacctgctgtgagtgggccaggtggcc Alignment from GeneWise ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgttatgcctccttgtctcactctcagttccccctccccccttccccagATAGTGTCTGCTGTGCAATACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGGAAGAAGAGgtataatatgttcctgtccctataacctgctgtgagtgggccaggtggcc #### Mark2_ID2115_6 --> 2 - 0 Original Alignment ga------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG caaccctcacccatgattctcacagtcgcatgcactccctgtaccctcaggaTATGACGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCGCCAGgtgagagtgtccccaatcttggctctagatctcggatgagaatatggcat Alignment from CESAR ga------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG caaccctcacccatgattctcacagtcgcatgcactccctgtaccctcaggaTATGACGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCGCCAGgtgagagtgtccccaatcttggctctagatctcggatgagaatatggcat Alignment from Spaln_aa2Genome GAGAGGTGTTTGAT------TACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG caaccctcacccatgattctcacagtcgcatgcactccctgtaccctcagGATATGACGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCGCCAGgtgagagtgtccccaatcttggctctagatctcggatgagaatatggcat Alignment from Spaln_nt2Genome GA------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG caaccctcacccatgattctcacagtcgcatgcactccctgtaccctcagGATATGACGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCGCCAGgtgagagtgtccccaatcttggctctagatctcggatgagaatatggcat Alignment from Pairagon GA------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG caaccctcacccatgattctcacagtcgcatgcactccctgtaccctcagGATATGACGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCGCCAGgtgagagtgtccccaatcttggctctagatctcggatgagaatatggcat Alignment from Exonerate_protein2genome GA------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG caaccctcacccatgattctcacagtcgcatgcactccctgtaccctcagGATATGACGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCGCCAGgtgagagtgtccccaatcttggctctagatctcggatgagaatatggcat Alignment from Exonerate_coding2genome GA------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG caaccctcacccatgattctcacagtcgcatgcactccctgtaccctcagGATATGACGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCGCCAGgtgagagtgtccccaatcttggctctagatctcggatgagaatatggcat Alignment from GeneWise -----GGAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG caaccctcacccatgattctcacagtcgcatgcactccctgtaccctcagGATATGACGAGGTGTTTGATTATCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAGGCTCGAGCCAAATTCCGCCAGgtgagagtgtccccaatcttggctctagatctcggatgagaatatggcat #### Men1_ID1613_4 --> 0 - 0 Original Alignment AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG------ gttggggtgcaggccaaggccatactttctggtctaatttacagcaaatttcgcagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGACCTTCACACAGACTCTTTGGAACTGCTGCTACTACAACAGACCGGTgtaaggagactgccatagcctaggtacttccctcacacctctat Alignment from CESAR AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG------ gttggggtgcaggccaaggccatactttctggtctaatttacagcaaatttcgcagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGACCTTCACACAGACTCTTTGGAACTGCTGCTACTACAACAGACCGGTgtaaggagactgccatagcctaggtacttccctcacacctctat Alignment from Spaln_aa2Genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG------ gttggggtgcaggccaaggccatactttctggtctaatttacagcaaatttcgcagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGACCTTCACACAGACTCTTTGGAACTGCTGCTACTACAACAGACCGGTgtaaggagactgccatagcctaggtacttccctcacacctctat Alignment from Spaln_nt2Genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAGA----- gttggggtgcaggccaaggccatactttctggtctaatttacagcaaatttcgcagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGACCTTCACACAGACTCTTTGGAACTGCTGCTACTACAACAGACCGGTgtaaggagactgccatagcctaggtacttccctcacacctctat Alignment from Pairagon AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG------ gttggggtgcaggccaaggccatactttctggtctaatttacagcaaatttcgcagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGACCTTCACACAGACTCTTTGGAACTGCTGCTACTACAACAGACCGGTgtaaggagactgccatagcctaggtacttccctcacacctctat Alignment from Exonerate_protein2genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG gttggggtgcaggccaaggccatactttctggtctaatttacagcaaatttcgcagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGACCTTCACACAGACTCTTTGGAACTGCTGCTACTACAACAGaccggtgtaaggagactgccatagcctaggtacttccctcacacctctat Alignment from Exonerate_coding2genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG gttggggtgcaggccaaggccatactttctggtctaatttacagcaaatttcgcagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGACCTTCACACAGACTCTTTGGAACTGCTGCTACTACAACAGaccggtgtaaggagactgccatagcctaggtacttccctcacacctctat Alignment from GeneWise AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG------ gttggggtgcaggccaaggccatactttctggtctaatttacagcaaatttcgcagAGCTGGTTATATCTCAAGGGGTCATATATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCAATCAATTCTTCTATTGACCTTCACACAGACTCTTTGGAACTGCTGCTACTACAACAGACCGGTgtaaggagactgccatagcctaggtacttccctcacacctctat #### Mrpl11_ID768_3 --> 0 - 1 Original Alignment CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg atgggaaatgagtagattcctagtctctatgtctttcgcttattttacag---------ACTTTTGAACTCAAT---------------GTTTCTTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAggtgggcagtctggcggccatctgggtgtgtgaggaatcaagaaatcgaat Alignment from CESAR CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ttgaactgtatgggaaatgagtagatctatgtctttcgcttattttacag---------ACTTTTGAACTC---------------AATGTTTCTTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAggtgggcagtctggcggccatctgggtgtgtgaggaatcaagaaatcgaat Alignment from Spaln_aa2Genome CCCGACAGG---ACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgagtagattcctagTCTCTATGTCTTTCGCTTATTTTACAGACTTTTGAACTCAATGTTTCTTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgggcagtctggcggccatctgggtgtgtgaggaatcaagaaatcgaat Alignment from Spaln_nt2Genome ATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgagtagattcctagtctctatgtctttcgcttattttacagACTTTTGAACTCAATGTTTCTTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgggcagtctggcggccatctgggtgtgtgaggaatcaagaaatcgaat Alignment from Pairagon CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgagtagattcctagtctctatgtctttcgcttattttacag---------ACTTTTGAACTCAA---------------TGTTTCTTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgggcagtctggcggccatctgggtgtgtgaggaatcaagaaatcgaat Alignment from Exonerate_protein2genome TTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgagtagattcctagtctctatgtctttcgCTTATTTTACAGACTTTTGAACTCAATGTTTCTTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgggcagtctggcggccatctgggtgtgtgaggaatcaagaaatcgaat Alignment from Exonerate_coding2genome TTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgagtagattcctagtctctatgtctttcgCTTATTTTACAGACTTTTGAACTCAATGTTTCTTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgggcagtctggcggccatctgggtgtgtgaggaatcaagaaatcgaat Alignment from GeneWise ACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG atgggaaatgagtagattcctagtctctatgtctttcgcttattttacagACTTTTGAACTC---------------AATGTTTCTTACTTGCTTAAGGCAGCTTCTGGCATTGAGAAGGGAGCCCGGCATACAGgtgggcagtctggcggccatctgggtgtgtgaggaatcaagaaatcgaat #### Mta2_ID2532_5 --> 1 - 0 Original Alignment g------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttctcatcccaggttaacatacaatatttgttcacaggAACTGGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtacagacccattggcgtaaaagggggggtggccactggaggtaggtgag Alignment from CESAR gGGG------AAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttctcatcccaggttaacatacaatatttgttcacaggAACTGGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtacagacccattggcgtaaaagggggggtggccactggaggtaggtgag Alignment from Spaln_aa2Genome GGGG------AAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttctcatcccaggttaacatacaatatttgttcacagGAACTGGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtacagacccattggcgtaaaagggggggtggccactggaggtaggtgag Alignment from Spaln_nt2Genome G----GGG--AAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttctcatcccaggttaacatacaatatttgttcacagGAACTGGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtacagacccattggcgtaaaagggggggtggccactggaggtaggtgag Alignment from Pairagon ------GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttctcatcccaggttaacatacaatatttgttcacagGAACTGGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtacagacccattggcgtaaaagggggggtggccactggaggtaggtgag Alignment from Exonerate_protein2genome GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttctcatcccaggttaacatacaatatttgttcacaggaactgGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtacagacccattggcgtaaaagggggggtggccactggaggtaggtgag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ----AGGGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG aatgactggtgttttctcatcccaggttaacatacaatatttgttcacagGAACTGGGTAAAGTGCAGTGTGAGTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAAgtacagacccattggcgtaaaagggggggtggccactggaggtaggtgag #### Mta2_ID2536_9 --> 0 - 0 Original Alignment ---TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gactgaaaagagagtagcaagccctcaccacacgtgcctttccctttcagACGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCgtgagtgatcaagaccaagaagggaaagaacgatgaggagactgaaaaca Alignment from CESAR ---TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gactgaaaagagagtagcaagccctcaccacacgtgcctttccctttcagACGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCgtgagtgatcaagaccaagaagggaaagaacgatgaggagactgaaaaca Alignment from Spaln_aa2Genome TTCCATGCC---ATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gactgaaaagagagtagcaagccctcaccacacgtgcctttccctttcagACGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCgtgagtgatcaagaccaagaagggaaagaacgatgaggagactgaaaaca Alignment from Spaln_nt2Genome ---TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gactgaaaagagagtagcaagccctcaccacacgtgcctttccctttcagACGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCgtgagtgatcaagaccaagaagggaaagaacgatgaggagactgaaaaca Alignment from Pairagon ---TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gactgaaaagagagtagcaagccctcaccacacgtgcctttccctttcagACGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCgtgagtgatcaagaccaagaagggaaagaacgatgaggagactgaaaaca Alignment from Exonerate_protein2genome ---TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gactgaaaagagagtagcaagccctcaccacacgtgcctttccctttcagACGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCgtgagtgatcaagaccaagaagggaaagaacgatgaggagactgaaaaca Alignment from Exonerate_coding2genome GGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTGTTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGA-GGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT TGAAAAGAGAGTAGCAAGCCCTCACCACACGTGCCTT---TCCCTTTCAGACGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACA-GGGAGGCCCAGTTCTTTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCgtgagtgatcaagaccaagaagggaaagaacgatgaggagactgaaaaca Alignment from GeneWise ---TTCCATGCCATGGATACCTTGCAAAGGAATGGCTATGACTTGGCCAAGGCTATGTCAACCCTAGTACCACAGGGAGGCCCGGTGCTCTGTCGGGATGAGATGGAGGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAGGCTCTGGAGAAGTACGGGAAGGATTTCAATGATATCCGCCAGGACTTT gactgaaaagagagtagcaagccctcaccacacgtgcctttccctttcagACGTTTCATGCTATGGATACCTTGCAAAGGAATGGATATGACCTGGCCAAGGCTATGTCAACTCTAGTACCACAGGGAGGCCCAGTTCTTTGTCGAGATGAGATGGGAGAATGGTCTGCTTCTGAAGCCATGCTGTTTGAAGAAGCTTTGGAGAAGTATGGAAAAGATTTCAATGACATCCGCCAGGACTTCgtgagtgatcaagaccaagaagggaaagaacgatgaggagactgaaaaca #### Mta2_ID2539_12 --> 1 - 1 Original Alignment tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa gcctatttcctttactacaaactttctatgtcctctttattttctttcagtACTAAGCCAAATCCGAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAG---------agtaggctggaattcgaggaagtgtgaacatggttggttagtgtggtccca Alignment from CESAR tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa gcctatttcctttactacaaactttctatgtcctctttattttctttcagtACTAAGCCAAATCCGAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAG---------agtaggctggaattcgaggaagtgtgaacatggttggttagtgtggtccca Alignment from Spaln_aa2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAG- gcctatttcctttactacaaactttctatgtcctctttattttctttcagTACTAAGCCAAATCCGAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAgtaggctggaattcgaggaagtgtgaacatggttggttagtgtggtccca Alignment from Spaln_nt2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGA GCTGC-CACA gcctatttcctttactacaaactttctatgtcctctttattttctttcagTACTAAGCCAAATCCGAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAgtaggctggaattcgaggaagtgtgaacatggttggttagTGTGGTCCCA Alignment from Pairagon TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGA gcctatttcctttactacaaactttctatgtcctctttattttctttcagTACTAAGCCAAATCCGAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAgtaggctggaattcgaggaagtgtgaacatggttggttagtgtggtccca Alignment from Exonerate_protein2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGA gcctatttcctttactacaaactttctatgtcctctttattttctttcagTACTAAGCCAAATCCGAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAgtaggctggaattcgaggaagtgtgaacatggttggttagtgtggtccca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGA gcctatttcctttactacaaactttctatgtcctctttattttctttcagTACTAAGCCAAATCCGAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGACTGACTTGTGAGAgtaggctggaattcgaggaagtgtgaacatggttggttagtgtggtccca #### Mta2_ID2542_15 --> 2 - 1 Original Alignment gcTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg taagcacccaggagattcttctctccttacctgaagttgtgttttaccaggc---ATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATCTGggttggcaggatgactttttcgagcaaggtcagatcttctatttcaaagtt Alignment from CESAR gcTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg ggctaagcacccaggagattcttctcttacctgaagttgtgttttaccaggc---ATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATCTGggttggcaggatgactttttcgagcaaggtcagatcttctatttctcaagg Alignment from Spaln_aa2Genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG taagcacccaggagattcttctctccttacctgaagttgtgttttaccagGC---ATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATCTGGgttggcaggatgactttttcgagcaaggtcagatcttctatttcaaagtt Alignment from Spaln_nt2Genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG taagcacccaggagattcttctctccttacctgaagttgtgttttaccagGC---ATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATCTGGgttggcaggatgactttttcgagcaaggtcagatcttctatttcaaagtt Alignment from Pairagon GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG taagcacccaggagattcttctctccttacctgaagttgtgttttaccagGC---ATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATCTGGgttggcaggatgactttttcgagcaaggtcagatcttctatttcaaagtt Alignment from Exonerate_protein2genome CGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG taagcacccaggagattcttctctccttacctgaagttgtgttttaccagGCATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATCTGGgttggcaggatgactttttcgagcaaggtcagatcttctatttcaaagtt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTG--------------------------------------------------- taagcacccaggagattcttctctccttacctgaagttgtgttttaccagGCATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTTGTGCGGCTGCCCTTGGCAACTATCATCAAAGATCTGGGTTGGCAGGATGACTTTTTCGAGCAAGGTCAGATCTTCTATTTCAAAGTT #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT tttcgagcaaggtcagatcttctatttctcaaggcgttctccttctgcagtgGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCATATGAG---gtaactggatgagcagaataaaagcatagcaggttaattatttttttttt Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT tttcgagcaaggtcagatcttctatttctcaaggcgttctccttctgcagtgGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCATATGAG---gtaactggatgagcagaataaaagcatagcaggttaattattttttt Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG tttcgagcaaggtcagatcttctatttctcaaggcgttctccttctgcagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCATATGAGgtaactggatgagcagaataaaagcatagcaggttaattatttttttttt Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG tttcgagcaaggtcagatcttctatttctcaaggcgttctccttctgcagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCATATGAGgtaactggatgagcagaataaaagcatagcaggttaattatttttttttt Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG tttcgagcaaggtcagatcttctatttctcaaggcgttctccttctgcagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCATATGAGgtaactggatgagcagaataaaagcatagcaggttaattatttttttttt Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT tttcgagcaaggtcagatcttctatttctcaaggcgttctccttctgcagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCATATGAG---gtaactggatgagcagaataaaagcatagcaggttaattattttttt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT tttcgagcaaggtcagatcttctatttctcaaggcgttctccttctgcagTGGCTCAGGCACTTCTAAAGCCAAAAACGCCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCATAT---GAGgtaactggatgagcagaataaaagcatagcaggttaattatttttttttt #### Mus81_ID1043_13 --> 0 - 0 Original Alignment GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG--------- gtagtgcttagccttcagagcctgcccatccactttcactttcttcatagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGAACAAAATCCCAGAAgtgagtacctcacttcactcctttactgaatgacaccaatgaatggaaaa Alignment from CESAR GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG--------- gtagtgcttagccttcagagcctgcccatccactttcactttcttcatagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGAACAAAATCCCAGAAgtgagtacctcacttcactcctttactgaatgacaccaatgaatggaaaa Alignment from Spaln_aa2Genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG--------- gtagtgcttagccttcagagcctgcccatccactttcactttcttcatagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGAACAAAATCCCAGAAgtgagtacctcacttcactcctttactgaatgacaccaatgaatggaaaa Alignment from Spaln_nt2Genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG--------- gtagtgcttagccttcagagcctgcccatccactttcactttcttcatagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGAACAAAATCCCAGAAgtgagtacctcacttcactcctttactgaatgacaccaatgaatggaaaa Alignment from Pairagon GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACA------------------------------------------------------------- gtagtgcttagccttcagagcctgcccatccactttcactttcttcatagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGAACAAAATCCCAGAAGTGAGTACCTCACTTCACTCCTTTACTGAATGACACCAATGAATGGAAAA Alignment from Exonerate_protein2genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG gtagtgcttagccttcagagcctgcccatccactttcactttcttcatagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGAACAAAatcccagaagtgagtacctcacttcactcctttactgaatgacaccaatgaatggaaaa Alignment from Exonerate_coding2genome GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG gtagtgcttagccttcagagcctgcccatccactttcactttcttcatagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCA---CTCACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGAACAAAatcccagaagtgagtacctcacttcactcctttactgaatgacaccaatgaatggaaaa Alignment from GeneWise GGCCACACCCTACGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAATCAGAAGCAAAGCCTTCCACAAACCCTCTCTGCTCACTCCTCACCTTCAGTGACTTCAATGCAGAAGCTGTCAAGAACAAG--------- gtagtgcttagccttcagagcctgcccatccactttcactttcttcatagGGTCATACCCTTCGCAGCCGCCCTTGGGGGGCCCCAGGGGCTGCTGAGTCCGAAGCAAAACCATCCAGAAACCCTCTATGCTCACTC---ACCTTCAGTGACTTTAATGCAGAAGCTGTCAAGAACAAAATCCCAGAAgtgagtacctcacttcactcctttactgaatgacaccaatgaatggaaaa #### Mus81_ID1044_12 --> 0 - 0 Original Alignment GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gacaagagcacaggctagtggctcatgaagctgacttctgcttgctgcag---ATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGTATGAGgtcagtagatgcggagccttgcctggctttgattgtagaagtagggacaa Alignment from CESAR GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gcagacaagagcacaggctagtggctgaagctgacttctgcttgctgcag---ATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGTATGAGgtcagtagatgcggagccttgcctggctttgattgtagaagtagggacaa Alignment from Spaln_aa2Genome ATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gacaagagcacaggctagtggctcatgaagctgacttctgcttgctgcagATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGTATGAGgtcagtagatgcggagccttgcctggctttgattgtagaagtagggacaa Alignment from Spaln_nt2Genome ATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gacaagagcacaggctagtggctcatgaagctgacttctgcttgctgcagATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGTATGAGgtcagtagatgcggagccttgcctggctttgattgtagaagtagggacaa Alignment from Pairagon ATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gacaagagcacaggctagtggctcatgaagctgacttctgcttgctgcagATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGTATGAGgtcagtagatgcggagccttgcctggctttgattgtagaagtagggacaa Alignment from Exonerate_protein2genome ATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gacaagagcacaggctagtggctcatgaagctgacttctgcttgctgcagATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGTATGAGgtcagtagatgcggagccttgcctggctttgattgtagaagtagggacaa Alignment from Exonerate_coding2genome ATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG gacaagagcacaggctagtggctcatgaagctgacttctgcttgctgcagATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGTATGAGgtcagtagatgcggagccttgcctggctttgattgtagaagtagggacaa Alignment from GeneWise --------------------------------------------------ATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG GACAAGAGCACAGGCTAGTGGCTCATGAAGCTGACTTCTGCTTGCTGCAGATTGATGGGTTCTTTGTAAAGCGAACTATGGACATTAAGGAGTCAGCTGGATTCCTTTCACTTTTGACAAAGGGCCTGGAGCGTTTGTATGAGgtcagtagatgcggagccttgcctggctttgattgtagaagtagggacaa #### Mus81_ID1045_11 --> 0 - 0 Original Alignment TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG------ cctggaactcgggtatttagacccaaacgctgacctccttcatttcccagTTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGCGGAGAgtaggtcatgtgggcagcccagtaagcagatactgcagacaagagcacag Alignment from CESAR TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG------ cctggaactcgggtatttagacccaaacgctgacctccttcatttcccagTTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGCGGAGAgtaggtcatgtgggcagcccagtaagcagatactgcagacaagagcacag Alignment from Spaln_aa2Genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG------ cctggaactcgggtatttagacccaaacgctgacctccttcatttcccagTTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGCGGAGAgtaggtcatgtgggcagcccagtaagcagatactgcagacaagagcacag Alignment from Spaln_nt2Genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG------ cctggaactcgggtatttagacccaaacgctgacctccttcatttcccagTTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGCGGAGAgtaggtcatgtgggcagcccagtaagcagatactgcagacaagagcacag Alignment from Pairagon TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACC----------------------------------------------------------- cctggaactcgggtatttagacccaaacgctgacctccttcatttcccagTTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGCGGAGAGTAGGTCATGTGGGCAGCCCAGTAAGCAGATACTGCAGACAAGAGCACAG Alignment from Exonerate_protein2genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctggaactcgggtatttagacccaaacgctgacctccttcatttcccagTTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGcggagagtaggtcatgtgggcagcccagtaagcagatactgcagacaagagcacag Alignment from Exonerate_coding2genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG cctggaactcgggtatttagacccaaacgctgacctccttcatttcccagTTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGcggagagtaggtcatgtgggcagcccagtaagcagatactgcagacaagagcacag Alignment from GeneWise TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG-------------------------------------------------------- cctggaactcgggtatttagacccaaacgctgacctccttcatttcccagTTTCGCCTGAAGCGCTGTGTCCTGGGGCACCGAGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCAGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGCGGAGAGTAGGTCATGTGGGCAGCCCAGTAAGCAGATACTGCAGACAAGAGCACAG #### Mus81_ID1046_10 --> 2 - 0 Original Alignment aaAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG attggaagaggcagggaaataccagaaagcccctgctgtgtttcttgtagagAGACCTGGGGAGTTAGTCCTGGATCACATTGTAGAACATAAGCGGATAGACGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGG---------gttggcatgtctcgagattgccctaggcaagatttgctccttgcatgctt Alignment from CESAR aaAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG attggaagaggcagggaaataccagaaagcccctgctgtgtttcttgtagagAGACCTGGGGAGTTAGTCCTGGATCACATTGTAGAACATAAGCGGATAGACGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGG---------gttggcatgtctcgagattgccctaggcaagatttgctcct Alignment from Spaln_aa2Genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGG attggaagaggcagggaaataccagaaagcccctgctgtgtttcttgtagAGAGACCTGGGGAGTTAGTCCTGGATCACATTGTAGAACATAAGCGGATAGACGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGgttggcatgtctcgagattgccctaggcaagatttgctccttgcatgctt Alignment from Spaln_nt2Genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGG attggaagaggcagggaaataccagaaagcccctgctgtgtttcttgtagAGAGACCTGGGGAGTTAGTCCTGGATCACATTGTAGAACATAAGCGGATAGACGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGgttggcatgtctcgagattgccctaggcaagatttgctccttgcatgctt Alignment from Pairagon AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGG attggaagaggcagggaaataccagaaagcccctgctgtgtttcttgtagAGAGACCTGGGGAGTTAGTCCTGGATCACATTGTAGAACATAAGCGGATAGACGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGgttggcatgtctcgagattgccctaggcaagatttgctccttgcatgctt Alignment from Exonerate_protein2genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGC attggaagaggcagggaaataccagaaagcccctgctgtgtttcttgtagAGAGACCTGGGGAGTTAGTCCTGGATCACATTGTAGAACATAAGCGGATAGACGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGTTGgcatgtctcgagattgccctaggcaagatttgctccttgcatgctt Alignment from Exonerate_coding2genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGC attggaagaggcagggaaataccagaaagcccctgctgtgtttcttgtagAGAGACCTGGGGAGTTAGTCCTGGATCACATTGTAGAACATAAGCGGATAGACGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGTTGgcatgtctcgagattgccctaggcaagatttgctccttgcatgctt Alignment from GeneWise AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG attggaagaggcagggaaataccagaaagcccctgctgtgtttcttgtagAGAGACCTGGGGAGTTAGTCCTGGATCACATTGTAGAACATAAGCGGATAGACGACCTCTGCAGCAGCATCATTGGTGGACGCTTT---------CGGgttggcatgtctcgagattgccctaggcaagatttgctccttgcatgctt #### Mus81_ID1047_9 --> 1 - 1 Original Alignment gGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAg ggccctgtcaacaggctctcttacctcattgaaccctcttgttaccgtagtGCAGGCCACCGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACACGACCTAGAGAC---ggtaagtgggtactccaagagtgatctgagaggtgagtattggaagaggca Alignment from CESAR gGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAg ggccctgtcaacaggctctcttacctcattgaaccctcttgttaccgtagtGCAGGCCACCGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACACGACCTAGAGAC---ggtaagtgggtactccaagagtgatctgagaggtgagtattggaagaggca Alignment from Spaln_aa2Genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGAC- ggccctgtcaacaggctctcttacctcattgaaccctcttgttaccgtagTGCAGGCCACCGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACACGACCTAGAGACGgtaagtgggtactccaagagtgatctgagaggtgagtattggaagaggca Alignment from Spaln_nt2Genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG ggccctgtcaacaggctctcttacctcattgaaccctcttgttaccgtagTGCAGGCCACCGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACACGACCTAGAGAC---Ggtaagtgggtactccaagagtgatctgagaggtgagtattggaagaggca Alignment from Pairagon GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG ggccctgtcaacaggctctcttacctcattgaaccctcttgttaccgtagTGCAGGCCACCGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACACGACCTAGAGAC---Ggtaagtgggtactccaagagtgatctgagaggtgagtattggaagaggca Alignment from Exonerate_protein2genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG ggccctgtcaacaggctctcttacctcattgaaccctcttgttaccgtagTGCAGGCCACCGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACACGACCTAGAGAC---Ggtaagtgggtactccaagagtgatctgagaggtgagtattggaagaggca Alignment from Exonerate_coding2genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG ggccctgtcaacaggctctcttacctcattgaaccctcttgttaccgtagTGCAGGCCACCGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACACGACCTAGAGAC---Ggtaagtgggtactccaagagtgatctgagaggtgagtattggaagaggca Alignment from GeneWise GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAGAAAGA ggccctgtcaacaggctctcttacctcattgaaccctcttgttaccgtagTGCAGGCCACCGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTCCATGTGCCCCACACTGTACGCAAGCTACATGTTGGAGACTTTGTTTGGGTAGCACAGGAGACACGACCTAGAGACGGTAAGTGGgtactccaagagtgatctgagaggtgagtattggaagaggca #### Mus81_ID1051_5 --> 0 - 0 Original Alignment AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ atttgtgttacacaggcacacattccactcacctgttgtatgctttgcagAATTTTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGGTCCCTgtgctattcattcaaaagggagaaggtatatcccataacagttctccctc Alignment from CESAR AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG atttgtgttacacaggcacacattccactcacctgttgtatgctttgcagAATTTTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtccctgtgctattcattcaaaagggagaaggtatatcccataacagttctccctc Alignment from Spaln_aa2Genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG atttgtgttacacaggcacacattccactcacctgttgtatgctttgcagAATTTTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtccctgtgctattcattcaaaagggagaaggtatatcccataacagttctccctc Alignment from Spaln_nt2Genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG atttgtgttacacaggcacacattccactcacctgttgtatgctttgcagAATTTTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtccctgtgctattcattcaaaagggagaaggtatatcccataacagttctccctc Alignment from Pairagon AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG atttgtgttacacaggcacacattccactcacctgttgtatgctttgcagAATTTTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtccctgtgctattcattcaaaagggagaaggtatatcccataacagttctccctc Alignment from Exonerate_protein2genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG atttgtgttacacaggcacacattccactcacctgttgtatgctttgcagAATTTTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtccctgtgctattcattcaaaagggagaaggtatatcccataacagttctccctc Alignment from Exonerate_coding2genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG atttgtgttacacaggcacacattccactcacctgttgtatgctttgcagAATTTTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtccctgtgctattcattcaaaagggagaaggtatatcccataacagttctccctc Alignment from GeneWise AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG atttgtgttacacaggcacacattccactcacctgttgtatgctttgcagAATTTTGATGGTCACAGCTTCCTAGCAAAAGAGGAGTTGCTTCAGAAATGTGCCCAGAAAGCCCCCAGGgtccctgtgctattcattcaaaagggagaaggtatatcccataacagttctccctc #### Mus81_ID1052_4 --> 0 - 0 Original Alignment ---------------------------GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG agtggattccacaggatttcagtggacttttttactcttccgtcctgtagCTGTCTACGTCACTGTGGGAGATGAATGTGCCCACCCAACCCCAAGCAGGAAGTACCAGTGTCGGTTACTGGCCAGCTCAGAACTCAGGTGCTCAAGAGGTCCTGCTGCAACTCTACAGGGAACACCTGgtgaggaagaaagcttcagtgtttgggaatcttttgctaagcctgtcaaa Alignment from CESAR ---------------------------GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG agtggattccacaggatttcagtggacttttttactcttccgtcctgtagCTGTCTACGTCACTGTGGGAGATGAATGTGCCCACCCAACCCCAAGCAGGAAGTACCAGTGTCGGTTACTGGCCAGCTCAGAACTCAGGTGCTCAAGAGGTCCTGCTGCAACTCTACAGGGAACACCTGgtgaggaagaaagcttcagtgtttgggaatcttttgctaagcctgtcaaa Alignment from Spaln_aa2Genome GTTCCCACCCAGCCT------CAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG agtggattccacaggatttcagtggacttttttactcttccgtcctgtagctgtctacgtcactgtgggagATGAATGTGCCCACCCAACCCCAAGCAGGAAGTACCAGTGTCGGTTACTGGCCAGCTCAGAACTCAGGTGCTCAAGAGGTCCTGCTGCAACTCTACAGGGAACACCTGgtgaggaagaaagcttcagtgtttgggaatcttttgctaagcctgtcaaa Alignment from Spaln_nt2Genome GTTCCCACCCAGCC------TCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG agtggattccacaggatttcagtggacttttttactcttccgtcctgtagctgtctacgtcactgtgggagATGAATGTGCCCACCCAACCCCAAGCAGGAAGTACCAGTGTCGGTTACTGGCCAGCTCAGAACTCAGGTGCTCAAGAGGTCCTGCTGCAACTCTACAGGGAACACCTGgtgaggaagaaagcttcagtgtttgggaatcttttgctaagcctgtcaaa Alignment from Pairagon ---------------------------GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG agtggattccacaggatttcagtggacttttttactcttccgtcctgtagCTGTCTACGTCACTGTGGGAGATGAATGTGCCCACCCAACCCCAAGCAGGAAGTACCAGTGTCGGTTACTGGCCAGCTCAGAACTCAGGTGCTCAAGAGGTCCTGCTGCAACTCTACAGGGAACACCTGgtgaggaagaaagcttcagtgtttgggaatcttttgctaagcctgtcaaa Alignment from Exonerate_protein2genome GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG agtggattccacaggatttcagtggacttttttactcttccgtcctgtagctgtctacgtcactgtgggagatgaatGTGCCCACCCAACCCCAAGCAGGAAGTACCAGTGTCGGTTACTGGCCAGCTCAGAACTCAGGTGCTCAAGAGGTCCTGCTGCAACTCTACAGGGAACACCTGgtgaggaagaaagcttcagtgtttgggaatcttttgctaagcctgtcaaa Alignment from Exonerate_coding2genome GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG agtggattccacaggatttcagtggacttttttactcttccgtcctgtagctgtctacgtcactgtgggagatgaatGTGCCCACCCAACCCCAAGCAGGAAGTACCAGTGTCGGTTACTGGCCAGCTCAGAACTCAGGTGCTCAAGAGGTCCTGCTGCAACTCTACAGGGAACACCTGgtgaggaagaaagcttcagtgtttgggaatcttttgctaagcctgtcaaa Alignment from GeneWise ------GTTCCCACCCAGCCTCAAGCAGGAAGCACCAGTGTTGGCTATTGGCCAGCTCAGAACTCAGGTGCTCGAGAGATCCTGCTGCAACTCTACAGGGAGCACCTG agtggattccacaggatttcagtggacttttttactcttccgtcctgtagctgtctacgtcactgtgggagATGAATGTGCCCACCCAACCCCAAGCAGGAAGTACCAGTGTCGGTTACTGGCCAGCTCAGAACTCAGGTGCTCAAGAGGTCCTGCTGCAACTCTACAGGGAACACCTGgtgaggaagaaagcttcagtgtttgggaatcttttgctaagcctgtcaaa #### Mus81_ID1054_2 --> 0 - 1 Original Alignment ------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCg tgatgtgtggagcttaattagacaaacttaaccattatattttctttcagCCAATTGTATTACGCTCCCTGCAAAAGTATCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTggtgagtgcttcacagcggtctcctgactccttcctgcacactgtggctat Alignment from CESAR ------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCg tgatgtgtggagcttaattagacaaacttaaccattatattttctttcagCCAATTGTATTACGCTCCCTGCAAAAGTATCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTggtgagtgcttcacagcggtctcctgactccttcctgcacactgtggctat Alignment from Spaln_aa2Genome ----GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaacttaaccattatattttctttcagCCAATTGTATTACGCTCCCTGCAAAAGTATCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgcttcacagcggtctcctgactccttcctgcacactgtggctat Alignment from Spaln_nt2Genome GCA------TTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaacttaaccattatattttctttcagCCAATTGTATTACGCTCCCTGCAAAAGTATCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgcttcacagcggtctcctgactccttcctgcacactgtggctat Alignment from Pairagon ------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaacttaaccattatattttctttcagCCAATTGTATTACGCTCCCTGCAAAAGTATCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgcttcacagcggtctcctgactccttcctgcacactgtggctat Alignment from Exonerate_protein2genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaacttaaccattatattttctttcagccaattGTATTACGCTCCCTGCAAAAGTATCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgcttcacagcggtctcctgactccttcctgcacactgtggctat Alignment from Exonerate_coding2genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaacttaaccattatattttctttcagccaattGTATTACGCTCCCTGCAAAAGTATCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgcttcacagcggtctcctgactccttcctgcacactgtggctat Alignment from GeneWise ------GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG tgatgtgtggagcttaattagacaaacttaaccattatattttctttcagCCAATTGTATTACGCTCCCTGCAAAAGTATCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATCCTCCAGCATTTTGGGGATAGGCTCTGCTGTATGCTGGATAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTGgtgagtgcttcacagcggtctcctgactccttcctgcacactgtggctat #### Myof_ID7468_34 --> 0 - 0 Original Alignment GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG--------------------- tctgttttaatgaaagggaagaattgttacctgcctgttttctttttcagGATGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACAGCTCACTGCCATTGAAGATGAAAGCTCTTCCACTACGgtcagcatttgagaaccctcattaagctgtgcacatgcaggctgtaggac Alignment from CESAR GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tctgttttaatgaaagggaagaattgttacctgcctgttttctttttcagGATGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACAGCTCACTGCCATTGAAgatgaaagctcttccactacggtcagcatttgagaaccctcattaagctgtgcacatgcaggctgtaggac Alignment from Spaln_aa2Genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG--------------------- tctgttttaatgaaagggaagaattgttacctgcctgttttctttttcagGATGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACAGCTCACTGCCATTGAAGATGAAAGCTCTTCCACTACGgtcagcatttgagaaccctcattaagctgtgcacatgcaggctgtaggac Alignment from Spaln_nt2Genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG------- tctgttttaatgaaagggaagaattgttacctgcctgttttctttttcagGATGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACAGCTCACTGCCATTGAAGATGAAAgctcttccactacggtcagcatttgagaaccctcattaagctgtgcacatgcaggctgtaggac Alignment from Pairagon GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGA---------------------G tctgttttaatgaaagggaagaattgttacctgcctgttttctttttcagGATGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACAGCTCACTGCCATTGAAGATGAAAGCTCTTCCACTACGgtcagcatttgagaaccctcattaagctgtgcacatgcaggctgtaggac Alignment from Exonerate_protein2genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tctgttttaatgaaagggaagaattgttacctgcctgttttctttttcagGATGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACAGCTCACTGCCATTGAAgatgaaagctcttccactacggtcagcatttgagaaccctcattaagctgtgcacatgcaggctgtaggac Alignment from Exonerate_coding2genome GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG tctgttttaatgaaagggaagaattgttacctgcctgttttctttttcagGATGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACAGCTCACTGCCATTGAAgatgaaagctcttccactacggtcagcatttgagaaccctcattaagctgtgcacatgcaggctgtaggac Alignment from GeneWise GATGGCTCCAACCTTCCCATCCTCCCCTCTCAAAGAGCACCAAACTTATACATGGTCCCTCAGGGGATCAGGCCTGTGGTTCAGCTCACTGCCATTGAG--------------------- tctgttttaatgaaagggaagaattgttacctgcctgttttctttttcagGATGGATCCAATCTTCCCATCCTTCCATCTCAGAGAGCACCAAACCTATACATGGTCCCACAGGGGATCAGACCTGTGGTACAGCTCACTGCCATTGAAGATGAAAGCTCTTCCACTACGgtcagcatttgagaaccctcattaagctgtgcacatgcaggctgtaggac #### Myof_ID7469_33 --> 0 - 0 Original Alignment GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataaaggtatctgctggaacaatgggtgccctctatcactgtcgttgcagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGAAAC---gtgagcaggtatattcatatttgtacatttcttagtcaagtaaccaggta Alignment from CESAR GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataaaggtatctgctggaacaatgggtgccctctatcactgtcgttgcagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGAAAC---gtgagcaggtatattcatatttgtacatttcttagtcaagtaaccag Alignment from Spaln_aa2Genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAAC ataaaggtatctgctggaacaatgggtgccctctatcactgtcgttgcagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGAAACgtgagcaggtatattcatatttgtacatttcttagtcaagtaaccaggta Alignment from Spaln_nt2Genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACA-----AG ataaaggtatctgctggaacaatgggtgccctctatcactgtcgttgcagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGAAACGTGAGCAGgtatattcatatttgtacatttcttagtcaagtaaccaggta Alignment from Pairagon GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAAC ataaaggtatctgctggaacaatgggtgccctctatcactgtcgttgcagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGAAACgtgagcaggtatattcatatttgtacatttcttagtcaagtaaccaggta Alignment from Exonerate_protein2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataaaggtatctgctggaacaatgggtgccctctatcactgtcgttgcagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGAAAC---gtgagcaggtatattcatatttgtacatttcttagtcaagtaaccag Alignment from Exonerate_coding2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataaaggtatctgctggaacaatgggtgccctctatcactgtcgttgcagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGAAAC---gtgagcaggtatattcatatttgtacatttcttagtcaagtaaccag Alignment from GeneWise GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataaaggtatctgctggaacaatgggtgccctctatcactgtcgttgcagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCCCCCCTGGTGAAACTGAACTCCCAAACAGATATTACACCCAAGCCTCTCTGGCATCCTGTTATGAATGGGGACAAGGCTTGTGCAGATGTCCTTATCACAGCAGAGTTGATTTTGAGA---AACgtgagcaggtatattcatatttgtacatttcttagtcaagtaaccaggta #### Myrf_ID2720_17 --> 0 - 2 Original Alignment TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---ag gcatcctgactctatctagtgctgtgttcctcccctgcctgtccctgcagTCATCATCCGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTCGTGGTAGTCATGGCCTTCGCTaggtgagtcccttcaccagggcgacttctttaaaacgccacacagtgagtca Alignment from CESAR TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---ag gcatcctgactctatctagtgctgtgttcctcccctgcctgtccctgcagTCATCATCCGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTCGTGGTAGTCATGGCCTTCGCTaggtgagtcccttcaccagggcgacttctttaaaacgccacacagtgagtca Alignment from Spaln_aa2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAGC-- gcatcctgactctatctagtgctgtgttcctcccctgcctgtccctgcagTCATCATCCGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTCGTGGTAGTCATGGCCTTCGCTAGgtgagtcccttcaccagggcgacttctttaaaacgccacacagtgagtca Alignment from Spaln_nt2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---AG gcatcctgactctatctagtgctgtgttcctcccctgcctgtccctgcagTCATCATCCGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTCGTGGTAGTCATGGCCTTCGCTAGgtgagtcccttcaccagggcgacttctttaaaacgccacacagtgagtca Alignment from Pairagon TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---AG gcatcctgactctatctagtgctgtgttcctcccctgcctgtccctgcagTCATCATCCGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTCGTGGTAGTCATGGCCTTCGCTAGgtgagtcccttcaccagggcgacttctttaaaacgccacacagtgagtca Alignment from Exonerate_protein2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---AG gcatcctgactctatctagtgctgtgttcctcccctgcctgtccctgcagTCATCATCCGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTCGTGGTAGTCATGGCCTTCGCTAGgtgagtcccttcaccagggcgacttctttaaaacgccacacagtgagtca Alignment from Exonerate_coding2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---AG gcatcctgactctatctagtgctgtgttcctcccctgcctgtccctgcagTCATCATCCGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTCGTGGTAGTCATGGCCTTCGCTAGgtgagtcccttcaccagggcgacttctttaaaacgccacacagtgagtca Alignment from GeneWise TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAGC-- gcatcctgactctatctagtgctgtgttcctcccctgcctgtccctgcagTCATCATCCGCAGTCCCAGACCAAGCCTGCATCAGTCAGCATTTTCTGCAGGGAACTATCATAGCTCTCGTGGTAGTCATGGCCTTCGCTAGgtgagtcccttcaccagggcgacttctttaaaacgccacacagtgagtca #### Myrf_ID2721_16 --> 1 - 0 Original Alignment c---------CATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaggtgcagtaggtgagcatgcatttcttgatcttgtttttccttccagtATGCAGTACCATGCTGGTAGTGAGTTTAGTAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGgtaagacagtgcaagagtgaaggcttctactcacctgcgttctatctctg Alignment from CESAR c---------CATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaggtgcagtaggtgagcatgcatttcttgatcttgtttttccttccagtATGCAGTACCATGCTGGTAGTGAGTTTAGTAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGgtaagacagtgcaagagtgaaggcttctactcacctgcgttctatctctg Alignment from Spaln_aa2Genome C---------CATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaggtgcagtaggtgagcatgcatttcttgatcttgtttttccttccagTATGCAGTACCATGCTGGTAGTGAGTTTAGTAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGgtaagacagtgcaagagtgaaggcttctactcacctgcgttctatctctg Alignment from Spaln_nt2Genome --CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaggtgcagtaggtgagcatgcatttcttgatcttgtttttccttccagtatgcagTACCATGCTGGTAGTGAGTTTAGTAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGgtaagacagtgcaagagtgaaggcttctactcacctgcgttctatctctg Alignment from Pairagon ---------CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaggtgcagtaggtgagcatgcatttcttgatcttgtttttccttccagTATGCAGTACCATGCTGGTAGTGAGTTTAGTAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGgtaagacagtgcaagagtgaaggcttctactcacctgcgttctatctctg Alignment from Exonerate_protein2genome C---------CATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaggtgcagtaggtgagcatgcatttcttgatcttgtttttccttccagTATGCAGTACCATGCTGGTAGTGAGTTTAGTAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGgtaagacagtgcaagagtgaaggcttctactcacctgcgttctatctctg Alignment from Exonerate_coding2genome C---------CATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaggtgcagtaggtgagcatgcatttcttgatcttgtttttccttccagTATGCAGTACCATGCTGGTAGTGAGTTTAGTAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGgtaagacagtgcaagagtgaaggcttctactcacctgcgttctatctctg Alignment from GeneWise -------AGCCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaggtgcagtaggtgagcatgcatttcttgatcttgtttttccttccagTATGCAGTACCATGCTGGTAGTGAGTTTAGTAGGGCAGGCAGTGTCCCTCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGgtaagacagtgcaagagtgaaggcttctactcacctgcgttctatctctg #### Myrf_ID2722_15 --> 0 - 2 Original Alignment GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCag gagtgattatcattaccttgaacgcttgctctcctctcttctttccacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGTTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGG------aggtaggtggcagggcaccagggaggtgggcaggagtgggcaagataagaag Alignment from CESAR GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCag gagtgattatcattaccttgaacgcttgctctcctctcttctttccacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGTTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGG------aggtaggtggcagggcaccagggaggtgggcaggagtgggcaagataagaag Alignment from Spaln_aa2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGC gagtgattatcattaccttgaacgcttgctctcctctcttctttccacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGTTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGAGgtaggtggcagggcaccagggaggtgggcaggagtgggcaagataagaag Alignment from Spaln_nt2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gagtgattatcattaccttgaacgcttgctctcctctcttctttccacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGTTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGG------AGgtaggtggcagggcaccagggaggtgggcaggagtgggcaagataagaag Alignment from Pairagon GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gagtgattatcattaccttgaacgcttgctctcctctcttctttccacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGTTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGG------AGgtaggtggcagggcaccagggaggtgggcaggagtgggcaagataagaag Alignment from Exonerate_protein2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGC gagtgattatcattaccttgaacgcttgctctcctctcttctttccacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGTTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGAGgtaggtggcagggcaccagggaggtgggcaggagtgggcaagataagaag Alignment from Exonerate_coding2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGC gagtgattatcattaccttgaacgcttgctctcctctcttctttccacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGTTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGAGgtaggtggcagggcaccagggaggtgggcaggagtgggcaagataagaag Alignment from GeneWise GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGC gagtgattatcattaccttgaacgcttgctctcctctcttctttccacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTGAAGGAGTTATGCAAACTGAGAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGTTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGAGgtaggtggcagggcaccagggaggtgggcaggagtgggcaagataagaag #### Myrf_ID2723_14 --> 2 - 0 Original Alignment gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG--------- ggtagagtcctggttccaagaccatacatgagttgttattttcatttcaggtGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAGGGCGGAGAgtagcttataggatctgatgtgactccgagcatggcaagctggagcttct Alignment from CESAR gtGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG--------- ggtagagtcctggttccaagaccatacatgagttgttattttcatttcaggtGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAGGGCGGAGAgtagcttataggatctgatgtgactccgagcatggcaagctggagcttct Alignment from Spaln_aa2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG--------- ggtagagtcctggttccaagaccatacatgagttgttattttcatttcagGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAGGGCGGAGAgtagcttataggatctgatgtgactccgagcatggcaagctggagcttct Alignment from Spaln_nt2Genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAA--G ggtagagtcctggttccaagaccatacatgagttgttattttcatttcagGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAGGgcggagagtagcttataggatctgatgtgactccgagcatggcaagctggagcttct Alignment from Pairagon GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG--------- ggtagagtcctggttccaagaccatacatgagttgttattttcatttcagGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAGGGCGGAGAgtagcttataggatctgatgtgactccgagcatggcaagctggagcttct Alignment from Exonerate_protein2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagagtcctggttccaagaccatacatgagttgttattttcatttcagGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgggcggagagtagcttataggatctgatgtgactccgagcatggcaagctggagcttct Alignment from Exonerate_coding2genome GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG ggtagagtcctggttccaagaccatacatgagttgttattttcatttcagGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAgggcggagagtagcttataggatctgatgtgactccgagcatggcaagctggagcttct Alignment from GeneWise GTGTCATCGCCCAGGAAGTGAAGGAGATCCTGCCTGAAGCTGTGAAGGACACAGGGGATGTAGTCTTTGCCAATGGGAAAACCATAGAGAACTTCCTTGTAGTGAACAAG--------- ggtagagtcctggttccaagaccatacatgagttgttattttcatttcagGTGTCATTGCCCAGGAGGTGAAGGAGATTTTGCCTGAAGCTGTGGAGGACACAGGGGATGTTGTCTTTGCAAATGGAAAAAGCATAGAGAACTTCCTTGTAGTGAACAAAGGGCGGAGAgtagcttataggatctgatgtgactccgagcatggcaagctggagcttct #### Myrf_ID2726_11 --> 1 - 0 Original Alignment g---------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gagaatgggtacaggtatccttggaggtaaccatgccttcctccatgcaggGGCTCTGGATATTTCATGCTGGTGGTCGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCGGAGCGTATCATTGTGCGGgtaagtaccactcctccttatccttaaagctaatgtcctccccatcctct Alignment from CESAR g---------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gagaatgggtacaggtatccttggaggtaaccatgccttcctccatgcaggGGCTCTGGATATTTCATGCTGGTGGTCGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCGGAGCGTATCATTGTGCGGgtaagtaccactcctccttatccttaaagctaatgtcctccccatcctct Alignment from Spaln_aa2Genome GTATTTCATG---------CTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gagaatgggtacaggtatccttggaggtaaccatgccttcctccatgcagGGGCTCTGGATATTTCATGCTGGTGGTCGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCGGAGCGTATCATTGTGCGGgtaagtaccactcctccttatccttaaagctaatgtcctccccatcctct Alignment from Spaln_nt2Genome GTATTTCATG---------CTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gagaatgggtacaggtatccttggaggtaaccatgccttcctccatgcagGGGCTCTGGATATTTCATGCTGGTGGTCGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCGGAGCGTATCATTGTGCGGgtaagtaccactcctccttatccttaaagctaatgtcctccccatcctct Alignment from Pairagon ----------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gagaatgggtacaggtatccttggaggtaaccatgccttcctccatgcagGGGCTCTGGATATTTCATGCTGGTGGTCGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCGGAGCGTATCATTGTGCGGgtaagtaccactcctccttatccttaaagctaatgtcctccccatcctct Alignment from Exonerate_protein2genome TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gagaatgggtacaggtatccttggaggtaaccatgccttcctccatgcaggggctctggatatTTCATGCTGGTGGTCGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCGGAGCGTATCATTGTGCGGgtaagtaccactcctccttatccttaaagctaatgtcctccccatcctct Alignment from Exonerate_coding2genome TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gagaatgggtacaggtatccttggaggtaaccatgccttcctccatgcaggggctctggatatTTCATGCTGGTGGTCGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCGGAGCGTATCATTGTGCGGgtaagtaccactcctccttatccttaaagctaatgtcctccccatcctct Alignment from GeneWise ----------TATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gagaatgggtacaggtatccttggaggtaaccatgccttcctccatgcagGGGCTCTGGATATTTCATGCTGGTGGTCGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCGGAGCGTATCATTGTGCGGgtaagtaccactcctccttatccttaaagctaatgtcctccccatcctct #### Myrf_ID2732_6 --> 1 - 1 Original Alignment aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg gttggaccaatatttcctgcaatctagcaaccttgtccttgcatatgcaga---CCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTAAATGGGATGATCAAGCAGGAACCTGGAACTGTCACAACCTTACCTCTGCACCCCGCCAGAGCCCCATCACCTCCATGGCTACCTCAAGGCCCACTTTCACCTGGCACTGGATCTTTGCCCCTCAGCATTGCTCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTggtatgcgagcaactaacatagactggaccacagtgcaggtttaattcata Alignment from CESAR aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg aaggttggaccaatatttcctgcaaagcaaccttgtccttgcatatgcaga---CCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTAAATGGGATGATCAAGCAGGAACCTGGAACTGTCACAACCTTACCTCTGCACCCCGCCAGAGCCCCATCACCTCCATGGCTACCTCAAGGCCCACTTTCACCTGGCACTGGATCTTTGCCCCTCAGCATTGCTCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTggtatgcgagcaactaacatagactggaccacagtgcaggtttaatgttaa Alignment from Spaln_aa2Genome CCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gttggaccaatatttcctgcaatctagcaaccttgtccttgcatatgcagACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTAAATGGGATGATCAAGCAGGAACCTGGAACTGTCACAACCTTACCTCTGCACCCCGCCAGAGCCCCATCACCTCCATGGCTACCTCAAGGCCCACTTTCACCTGGCACTGGATCTTTGCCCCTCAGCATTGCTCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtatgcgagcaactaacatagactggaccacagtgcaggtttaattcata Alignment from Spaln_nt2Genome CCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gttggaccaatatttcctgcaatctagcaaccttgtccttgcatatgcagACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTAAATGGGATGATCAAGCAGGAACCTGGAACTGTCACAACCTTACCTCTGCACCCCGCCAGAGCCCCATCACCTCCATGGCTACCTCAAGGCCCACTTTCACCTGGCACTGGATCTTTGCCCCTCAGCATTGCTCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtatgcgagcaactaacatagactggaccacagtgcaggtttaattcata Alignment from Pairagon CCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gttggaccaatatttcctgcaatctagcaaccttgtccttgcatatgcagACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTAAATGGGATGATCAAGCAGGAACCTGGAACTGTCACAACCTTACCTCTGCACCCCGCCAGAGCCCCATCACCTCCATGGCTACCTCAAGGCCCACTTTCACCTGGCACTGGATCTTTGCCCCTCAGCATTGCTCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtatgcgagcaactaacatagactggaccacagtgcaggtttaattcata Alignment from Exonerate_protein2genome CCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gttggaccaatatttcctgcaatctagcaaccttgtccttgcatatgcagACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTAAATGGGATGATCAAGCAGGAACCTGGAACTGTCACAACCTTACCTCTGCACCCCGCCAGAGCCCCATCACCTCCATGGCTACCTCAAGGCCCACTTTCACCTGGCACTGGATCTTTGCCCCTCAGCATTGCTCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtatgcgagcaactaacatagactggaccacagtgcaggtttaattcata Alignment from Exonerate_coding2genome CCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gttggaccaatatttcctgcaatctagcaaccttgtccttgcatatgcagACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTAAATGGGATGATCAAGCAGGAACCTGGAACTGTCACAACCTTACCTCTGCACCCCGCCAGAGCCCCATCACCTCCATGGCTACCTCAAGGCCCACTTTCACCTGGCACTGGATCTTTGCCCCTCAGCATTGCTCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtatgcgagcaactaacatagactggaccacagtgcaggtttaattcata Alignment from GeneWise CCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG gttggaccaatatttcctgcaatctagcaaccttgtccttgcatatgcagACCACCACACCCCTCCAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGTTAAATGGGATGATCAAGCAGGAACCTGGAACTGTCACAACCTTACCTCTGCACCCCGCCAGAGCCCCATCACCTCCATGGCTACCTCAAGGCCCACTTTCACCTGGCACTGGATCTTTGCCCCTCAGCATTGCTCGGGCTCAAACTCCACCCTGGCACCCACCAGGTGCACCCTCCCCTGgtatgcgagcaactaacatagactggaccacagtgcaggtttaattcata #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag taagcccctctatggggtcaaagccctcgtatgtgtgttttgtgtttcagcTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTC---------aggtcagtagtacgctaagcatcttgccggaattggcttgctgggagaggtt Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag taagcccctctatggggtcaaagccctcgtatgtgtgttttgtgtttcagcTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTC---------aggtcagtagtacgctaagcatcttgccggaattggcttgctgggagaggtt Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCAT taagcccctctatggggtcaaagccctcgtatgtgtgttttgtgtttcagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTCAGgtcagtagtacgctaagcatcttgccggaattggcttgctgggagaggtt Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCA- taagcccctctatggggtcaaagccctcgtatgtgtgttttgtgtttcagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTCAGgtcagtagtacgctaagcatcttgccggaattggcttgctgggagaggtt Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCAT taagcccctctatggggtcaaagccctcgtatgtgtgttttgtgtttcagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTCAGgtcagtagtacgctaagcatcttgccggaattggcttgctgggagaggtt Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCAT taagcccctctatggggtcaaagccctcgtatgtgtgttttgtgtttcagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTCAGgtcagtagtacgctaagcatcttgccggaattggcttgctgggagaggtt Alignment from Exonerate_coding2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCAT taagcccctctatggggtcaaagccctcgtatgtgtgttttgtgtttcagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTCAGgtcagtagtacgctaagcatcttgccggaattggcttgctgggagaggtt Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCAT taagcccctctatggggtcaaagccctcgtatgtgtgttttgtgtttcagCTATGAAGTACAGCTGGAAAGCAAGGTAAGGCAGAAAGGTCTAGAGAAGTTTCTCATTCAGATTCTCCAGCTCAGgtcagtagtacgctaagcatcttgccggaattggcttgctgggagaggtt #### Naa40_ID2075_5 --> 1 - 2 Original Alignment gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg atctggtactagggggcagtctaccgatacactcccttctccacccttaggTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGCAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGATGAG---------tggtaagcactggttccccttatgtcttcagtataagcacttacgccattag Alignment from CESAR gTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg atctggtactagggggcagtctaccgatacactcccttctccacccttaggTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGCAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGATGAG---------tggtaagcactggttccccttatgtcttcagtataagcacttacgccattag Alignment from Spaln_aa2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGT atctggtactagggggcagtctaccgatacactcccttctccacccttagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGCAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGATGAGTGgtaagcactggttccccttatgtcttcagtataagcacttacgccattag Alignment from Spaln_nt2Genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCT--GTACTG atctggtactagggggcagtctaccgatacactcccttctccacccttagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGCAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGATG-AGTGGTAAGCACTGgttccccttatgtcttcagtataagcacttacgccattag Alignment from Pairagon GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG atctggtactagggggcagtctaccgatacactcccttctccacccttagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGCAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGATG---------AGTGgtaagcactggttccccttatgtcttcagtataagcacttacgccattag Alignment from Exonerate_protein2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGT atctggtactagggggcagtctaccgatacactcccttctccacccttagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGCAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGATGAGTGgtaagcactggttccccttatgtcttcagtataagcacttacgccattag Alignment from Exonerate_coding2genome GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGT atctggtactagggggcagtctaccgatacactcccttctccacccttagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGCAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGATGAGTGgtaagcactggttccccttatgtcttcagtataagcacttacgccattag Alignment from GeneWise GTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGT atctggtactagggggcagtctaccgatacactcccttctccacccttagGTATGAGCAAAGTGAATGGGGCTGGAAGGACCGGCAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTCTCTCACTTCCGATTTGATGTGGAGTGTGGGGATGAGTGgtaagcactggttccccttatgtcttcagtataagcacttacgccattag #### Naaladl1_ID1443_2 --> 1 - 1 Original Alignment aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg cttcatctgctgatggattttagtttttcccttctgcccgttgctttcaga------GCAAAGGAACCACATGTGGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCTCTTTCCCGAATGCAGAGCAGGCTAACAGTGTGGAAGTTggtaggttcaagtctaggaatgtcaaggggcgatggtgaatccatctctct Alignment from CESAR aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg cagagtcttcatctgctgatggatttttcccttctgcccgttgctttcaga------GCAAAGGAACCACATGTGGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCTCTTTCCCGAATGCAGAGCAGGCTAACAGTGTGGAAGTTggtaggttcaagtctaggaatgtcaaggggcgatggcataagcaatatttc Alignment from Spaln_aa2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG cttcatctgctgatggattttagtttttcccttctgcccgttgctttcagA------GCAAAGGAACCACATGTGGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCTCTTTCCCGAATGCAGAGCAGGCTAACAGTGTGGAAGTTGgtaggttcaagtctaggaatgtcaaggggcgatggtgaatccatctctct Alignment from Spaln_nt2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG cttcatctgctgatggattttagtttttcccttctgcccgttgctttcagAG------CAAAGGAACCACATGTGGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCTCTTTCCCGAATGCAGAGCAGGCTAACAGTGTGGAAGTTGgtaggttcaagtctaggaatgtcaaggggcgatggtgaatccatctctct Alignment from Pairagon AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG cttcatctgctgatggattttagtttttcccttctgcccgttgctttcagAG------CAAAGGAACCACATGTGGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCTCTTTCCCGAATGCAGAGCAGGCTAACAGTGTGGAAGTTGgtaggttcaagtctaggaatgtcaaggggcgatggtgaatccatctctct Alignment from Exonerate_protein2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG cttcatctgctgatggattttagtttttcccttctgcccgttgctttcagA------GCAAAGGAACCACATGTGGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCTCTTTCCCGAATGCAGAGCAGGCTAACAGTGTGGAAGTTGgtaggttcaagtctaggaatgtcaaggggcgatggtgaatccatctctct Alignment from Exonerate_coding2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG cttcatctgctgatggattttagtttttcccttctgcccgttgctttcagA------GCAAAGGAACCACATGTGGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCTCTTTCCCGAATGCAGAGCAGGCTAACAGTGTGGAAGTTGgtaggttcaagtctaggaatgtcaaggggcgatggtgaatccatctctct Alignment from GeneWise AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG cttcatctgctgatggattttagtttttcccttctgcccgttgctttcagA------GCAAAGGAACCACATGTGGCCACCAGCACTCGAGATGATGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCGGGACTGGACTCAGCCAAGACCTATGAATATCGGGTGTTGCTCTCTTTCCCGAATGCAGAGCAGGCTAACAGTGTGGAAGTTGgtaggttcaagtctaggaatgtcaaggggcgatggtgaatccatctctct #### Naaladl1_ID1452_11 --> 2 - 0 Original Alignment ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggtgatgcgttagcagccaacagttttgctggttttctctccttccagca---ACTACTCTGCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTTTCTTCGACCAAAGATgtaagtaggtgatcttcaaaggagtaaggtcggaccacaccatctcgggc Alignment from CESAR ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gggaaggtgatgcgttagcagccaattttgctggttttctctccttccagca---ACTACTCTGCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTTTCTTCGACCAAAGATgtaagtaggtgatcttcaaaggagtaaggtcggaccacaccatctcgggc Alignment from Spaln_aa2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggtgatgcgttagcagccaacagttttgctggttttctctccttccagCA---ACTACTCTGCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTTTCTTCGACCAAAGATgtaagtaggtgatcttcaaaggagtaaggtcggaccacaccatctcgggc Alignment from Spaln_nt2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggtgatgcgttagcagccaacagttttgctggttttctctccttccagCAA---CTACTCTGCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTTTCTTCGACCAAAGATgtaagtaggtgatcttcaaaggagtaaggtcggaccacaccatctcgggc Alignment from Pairagon CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggtgatgcgttagcagccaacagttttgctggttttctctccttccagCAA---CTACTCTGCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTTTCTTCGACCAAAGATgtaagtaggtgatcttcaaaggagtaaggtcggaccacaccatctcgggc Alignment from Exonerate_protein2genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggtgatgcgttagcagccaacagttttgctggttttctctccttccagCA---ACTACTCTGCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTTTCTTCGACCAAAGATgtaagtaggtgatcttcaaaggagtaaggtcggaccacaccatctcgggc Alignment from Exonerate_coding2genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggtgatgcgttagcagccaacagttttgctggttttctctccttccagCA---ACTACTCTGCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTTTCTTCGACCAAAGATgtaagtaggtgatcttcaaaggagtaaggtcggaccacaccatctcgggc Alignment from GeneWise CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggtgatgcgttagcagccaacagttttgctggttttctctccttccagCA---ACTACTCTGCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTTTCTTCGACCAAAGATgtaagtaggtgatcttcaaaggagtaaggtcggaccacaccatctcgggc #### Naaladl1_ID1453_12 --> 0 - 2 Original Alignment ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag ggtttgctaatcactcatcagggtgtcatcagaaagtccccttcttgcagGCATTGATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTCCCCaggtaggttcagattgaggtcaggtgggcctgtttgcacagcatgtccgctc Alignment from CESAR ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag ggtttgctaatcactcatcagggtgtcatcagaaagtccccttcttgcagGCATTGATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTCCCCaggtaggttcagattgaggtcaggtgggcctgtttgcacagcatgtccgcca Alignment from Spaln_aa2Genome ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtttgctaatcactcatcagggtgtcatcagaaagtccccttcttgcagGCATTGATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTCCCCAGgtaggttcagattgaggtcaggtgggcctgtttgcacagcatgtccgctc Alignment from Spaln_nt2Genome -----GATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtttgctaatcactcatcagggtgtcatcagaaagtccccttcttgcagGCATTGATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTCCCCAGgtaggttcagattgaggtcaggtgggcctgtttgcacagcatgtccgctc Alignment from Pairagon -------------------------------------------------------GATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG GGTTTGCTAATCACTCATCAGGGTGTCATCAGAAAGTCCCCTTCTTGCAGGCATTGATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTCCCCAGgtaggttcagattgaggtcaggtgggcctgtttgcacagcatgtccgctc Alignment from Exonerate_protein2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtttgctaatcactcatcagggtgtcatcagaaagtccccttcttgcaggcattgATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTCCCCAGgtaggttcagattgaggtcaggtgggcctgtttgcacagcatgtccgctc Alignment from Exonerate_coding2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtttgctaatcactcatcagggtgtcatcagaaagtccccttcttgcaggcattgATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTCCCCAGgtaggttcagattgaggtcaggtgggcctgtttgcacagcatgtccgctc Alignment from GeneWise ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtttgctaatcactcatcagggtgtcatcagaaagtccccttcttgcagGCATTGATCAGTGCACCAGGATCCAGTGGTCTCAGGATCTATGATAATTGGATCCGATATACTAACCGTGCCAGCCCAGTATATGGGCTGGTCCCCAGgtaggttcagattgaggtcaggtgggcctgtttgcacagcatgtccgctc #### Ndufs8_ID193_3 --> 2 - 1 Original Alignment ag---------TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATT---CTGATGTGGACAGAACTCATCCGAg ttgccactaacctccttttgccattaactttgtctctttggtctccccagagATGGAGTGGTATGTAAACAAAAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGggtaagaaccagcgcagggccataaggggagaattcaagcagcagtgtgtg Alignment from CESAR ag---------TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAg ttgccactaacctccttttgccattaactttgtctctttggtctccccagagATGGAGTGGTATGTAAACAAAAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGggtaagaaccagcgcagggccataaggggagaattcaagcagcagtgtgtg Alignment from Spaln_aa2Genome AG---------TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG ttgccactaacctccttttgccattaactttgtctctttggtctccccagAGATGGAGTGGTATGTAAACAAAAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagaaccagcgcagggccataaggggagaattcaagcagcagtgtgtg Alignment from Spaln_nt2Genome AG---------TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAG ttgccactaacctccttttgccattaactttgtctctttggtctccccagAGATGGAGTGGTATGTAAACAAAAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagaaccagcgcagggccataaggggagaattcaagcagcagtgtgtg Alignment from Pairagon A---------GTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAG ttgccactaacctccttttgccattaactttgtctctttggtctccccagAGATGGAGTGGTATGTAAACAAAAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagaaccagcgcagggccataaggggagaattcaagcagcagtgtgtg Alignment from Exonerate_protein2genome AG---------TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG ttgccactaacctccttttgccattaactttgtctctttggtctccccagAGATGGAGTGGTATGTAAACAAAAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagaaccagcgcagggccataaggggagaattcaagcagcagtgtgtg Alignment from Exonerate_coding2genome AG---------TATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGAG ttgccactaacctccttttgccattaactttgtctctttggtctccccagAGATGGAGTGGTATGTAAACAAAAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagaaccagcgcagggccataaggggagaattcaagcagcagtgtgtg Alignment from GeneWise --------AAGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGAG ttgccactaacctccttttgccattaactttgtctctttggtctccccagAGATGGAGTGGTATGTAAACAAAAAAGAACAAGAGTCTGAAGTAGACATGAAGTCTGCTACTGACAATGCTGCACAGATTCTGATGATGTGGACAGAACTAATCCGGGgtaagaaccagcgcagggccataaggggagaattcaagcagcagtgtgtg #### Ndufs8_ID194_2 --> 2 - 1 Original Alignment ga---------CATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACa tcctgggggttgaggaacaggtcttccatgttttgtttttctttgtacaggaTTGGTGGCCCATCTTAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACagtaagtagccgaaattcaaatcaggcttatacaacccttagcacgctgaa Alignment from CESAR ga---------CATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACa tcctgggggttgaggaacaggtcttccatgttttgtttttctttgtacaggaTTGGTGGCCCATCTTAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACagtaagtagccgaaattcaaatcaggcttatacaacccttagcacgctgaa Alignment from Spaln_aa2Genome GACATCTTAATGGA---------CAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA tcctgggggttgaggaacaggtcttccatgttttgtttttctttgtacagGATTGGTGGCCCATCTTAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACAgtaagtagccgaaattcaaatcaggcttatacaacccttagcacgctgaa Alignment from Spaln_nt2Genome GACATCTTAAT---------GGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA tcctgggggttgaggaacaggtcttccatgttttgtttttctttgtacagGATTGGTGGCCCATCTTAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACAgtaagtagccgaaattcaaatcaggcttatacaacccttagcacgctgaa Alignment from Pairagon GA---------CATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA tcctgggggttgaggaacaggtcttccatgttttgtttttctttgtacagGATTGGTGGCCCATCTTAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACAgtaagtagccgaaattcaaatcaggcttatacaacccttagcacgctgaa Alignment from Exonerate_protein2genome GA---------CATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA tcctgggggttgaggaacaggtcttccatgttttgtttttctttgtacagGATTGGTGGCCCATCTTAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACAgtaagtagccgaaattcaaatcaggcttatacaacccttagcacgctgaa Alignment from Exonerate_coding2genome GA---------CATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA tcctgggggttgaggaacaggtcttccatgttttgtttttctttgtacagGATTGGTGGCCCATCTTAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACAgtaagtagccgaaattcaaatcaggcttatacaacccttagcacgctgaa Alignment from GeneWise --------GGACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA tcctgggggttgaggaacaggtcttccatgttttgtttttctttgtacagGATTGGTGGCCCATCTTAATGGACAGAGCCTGCACAGCAGTGCTGTGGCATCAACATACAgtaagtagccgaaattcaaatcaggcttatacaacccttagcacgctgaa #### Ndufv1_ID274_8 --> 0 - 1 Original Alignment ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGg agggtgatggccagaatgtctgatagctctctctctttccacctttgcag------ATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGGCAGTGTACCCCATGCCGAGAAggtaggttttctttaagtattgttgtgttgttgtaatgttcacaagatgct Alignment from CESAR ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGg tgttctagggtgatggccagaatgtgctctctctctttccacctttgcag------ATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGGCAGTGTACCCCATGCCGAGAAggtaggttttctttaagtattgttgtgttgttgtaatgttcacaagatgct Alignment from Spaln_aa2Genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGG agggtgatggccagaatgtctgatagctctctctctttccacctttgcag------ATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGGCAGTGTACCCCATGCCGAGAAGgtaggttttctttaagtattgttgtgttgttgtaatgttcacaagatgct Alignment from Spaln_nt2Genome ATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGG agggtgatggccagaatgtctgatagctctctctctttccacctttgcagATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGGCAGTGTACCCCATGCCGAGAAGgtaggttttctttaagtattgttgtgttgttgtaatgttcacaagatgct Alignment from Pairagon ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGG agggtgatggccagaatgtctgatagctctctctctttccacctttgcag------ATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGGCAGTGTACCCCATGCCGAGAAGgtaggttttctttaagtattgttgtgttgttgtaatgttcacaagatgct Alignment from Exonerate_protein2genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGG agggtgatggccagaatgtctgatagctctctctctttccacctTTGCAGATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGGCAGTGTACCCCATGCCGAGAAGgtaggttttctttaagtattgttgtgttgttgtaatgttcacaagatgct Alignment from Exonerate_coding2genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGG agggtgatggccagaatgtctgatagctctctctctttccacctTTGCAGATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGGCAGTGTACCCCATGCCGAGAAGgtaggttttctttaagtattgttgtgttgttgtaatgttcacaagatgct Alignment from GeneWise ---GTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGG agggtgatggccagaatgtctgatagctctctctctttccacctttgcagATTGTGAAAGCCATTGCTCATCTCATTGGGTTTTACAAGTATGAGAGCTGTGGGCAGTGTACCCCATGCCGAGAAGgtaggttttctttaagtattgttgtgttgttgtaatgttcacaagatgct #### Ndufv1_ID275_7 --> 2 - 0 Original Alignment gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG--------- agagggggccttgtaaagagccctgacacctttcttttttttttttttaggtGGTGTCACAGGTGGCTGGGACAATCTCCTTGCTGTGACCCCAGGTGGATCATCC---ACATTGATTCCCAAATCTGTTTGTGAGACGGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGCCTAGGAACAGCTACAGTTATTGTCATGGATCGCCTGCCTCGATTGgtgagtgaccatgaacccccttgcacttgtcacaggtaggagtgtgtttc Alignment from CESAR gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGC---------TCG agagggggccttgtaaagagccctgacacctttcttttttttttttttaggtGGTGTCACAGGTGGCTGGGACAATCTCCTTGCTGTGACCCCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACGGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGCCTAGGAACAGCTACAGTTATTGTCATGGATCGCCTGCCTCGATTGgtgagtgaccatgaacccccttgcacttgtcacaggtaggagtgtgtttc Alignment from Spaln_aa2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGAT---------CGCTCG agagggggccttgtaaagagccctgacacctttcttttttttttttttagGTGGTGTCACAGGTGGCTGGGACAATCTCCTTGCTGTGACCCCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACGGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGCCTAGGAACAGCTACAGTTATTGTCATGGATCGCCTGCCTCGATTGgtgagtgaccatgaacccccttgcacttgtcacaggtaggagtgtgtttc Alignment from Spaln_nt2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGC-----TCGA--- agagggggccttgtaaagagccctgacacctttcttttttttttttttagGTGGTGTCACAGGTGGCTGGGACAATCTCCTTGCTGTGACCCCAGGTGGATCATCCA---CATTGATTCCCAAATCTGTTTGTGAGACGGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGCCTAGGAACAGCTACAGTTATTGTCATGGATCGCCTGCCTCGATTGgtgagtgaccatgaacccccttgcacttgtcacaggtaggagtgtgtttc Alignment from Pairagon GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGC---------TCG agagggggccttgtaaagagccctgacacctttcttttttttttttttagGTGGTGTCACAGGTGGCTGGGACAATCTCCTTGCTGTGACCCCAGGTGGATCATCCA---CATTGATTCCCAAATCTGTTTGTGAGACGGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGCCTAGGAACAGCTACAGTTATTGTCATGGATCGCCTGCCTCGATTGgtgagtgaccatgaacccccttgcacttgtcacaggtaggagtgtgtttc Alignment from Exonerate_protein2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agagggggccttgtaaagagccctgacacctttcttttttttttttttagGTGGTGTCACAGGTGGCTGGGACAATCTCCTTGCTGTGACCCCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACGGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGCCTAGGAACAGCTACAGTTATTGTCATGGATCGCCTGcctcgattggtgagtgaccatgaacccccttgcacttgtcacaggtaggagtgtgtttc Alignment from Exonerate_coding2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG agagggggccttgtaaagagccctgacacctttcttttttttttttttagGTGGTGTCACAGGTGGCTGGGACAATCTCCTTGCTGTGACCCCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACGGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGCCTAGGAACAGCTACAGTTATTGTCATGGATCGCCTGcctcgattggtgagtgaccatgaacccccttgcacttgtcacaggtaggagtgtgtttc Alignment from GeneWise GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG--------- agagggggccttgtaaagagccctgacacctttcttttttttttttttagGTGGTGTCACAGGTGGCTGGGACAATCTCCTTGCTGTGACCCCAGGTGGATCATCCACA---TTGATTCCCAAATCTGTTTGTGAGACGGTGCTAATGGATTTTGATGCTCTAGTGCAGGCTCAGACAGGCCTAGGAACAGCTACAGTTATTGTCATGGATCGCCTGCCTCGATTGgtgagtgaccatgaacccccttgcacttgtcacaggtaggagtgtgtttc #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment ga---GTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gacagtgtttaatcacgccctagttaatgttactctttattttattccaggaTTGGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACACAATTCAGGCACCAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtaaggctgaagccaactcaagatcagggcatcagagggggccttgtaaa Alignment from CESAR ga---GTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gacagtgtttaatcacgccctagttaatgttactctttattttattccaggaTTGGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACACAATTCAGGCACCAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTggtaaggctgaagccaactcaagatcagggcatcagagggggccttgtaaa Alignment from Spaln_aa2Genome GAGTGTTTGGA---TGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacagtgtttaatcacgccctagttaatgttactctttattttattccagGATTGGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACACAATTCAGGCACCAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaaggctgaagccaactcaagatcagggcatcagagggggccttgtaaa Alignment from Spaln_nt2Genome GAGTGTTTGGATG---CCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacagtgtttaatcacgccctagttaatgttactctttattttattccagGATTGGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACACAATTCAGGCACCAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaaggctgaagccaactcaagatcagggcatcagagggggccttgtaaa Alignment from Pairagon GA---GTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacagtgtttaatcacgccctagttaatgttactctttattttattccagGATTGGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACACAATTCAGGCACCAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaaggctgaagccaactcaagatcagggcatcagagggggccttgtaaa Alignment from Exonerate_protein2genome GA---GTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacagtgtttaatcacgccctagttaatgttactctttattttattccagGATTGGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACACAATTCAGGCACCAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaaggctgaagccaactcaagatcagggcatcagagggggccttgtaaa Alignment from Exonerate_coding2genome GA---GTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacagtgtttaatcacgccctagttaatgttactctttattttattccagGATTGGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACACAATTCAGGCACCAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaaggctgaagccaactcaagatcagggcatcagagggggccttgtaaa Alignment from GeneWise --GGAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gacagtgtttaatcacgccctagttaatgttactctttattttattccagGATTGGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACACAATTCAGGCACCAAATTGTTCAACATCTTTGGCCATGTCAACCACCCATGCACTGTGGAGGAAGAGATGTCCGTCCCCCTCAAAGAGCTGATTGAGAAACATACTGgtaaggctgaagccaactcaagatcagggcatcagagggggccttgtaaa #### Ndufv1_ID280_2 --> 0 - 2 Original Alignment ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGag gccactctcatggttgctaaccagcggcagtgtattgtgctgtttttcag---------AAGAAAACCTCATTTGGCTCAGTGAAGGATGATGACCGTATTTTTACCAATCTCTATGGGCGCCATGACTGGaggtaaggcaaagccatgacctcggcacgaactcaccttcctctcggtccca Alignment from CESAR ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGag gtgccgactgccactctcatggttgggcagtgtattgtgctgtttttcag---------AAGAAAACCTCATTTGGCTCAGTGAAGGATGATGACCGTATTTTTACCAATCTCTATGGGCGCCATGACTGGaggtaaggcaaagccatgacctcggcacgaactatcccacatgatcccaatg Alignment from Spaln_aa2Genome AAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG gccactctcatggttgctaaccagcggcagtgtattgtgctgtttttcagAAGAAAACCTCATTTGGCTCAGTGAAGGATGATGACCGTATTTTTACCAATCTCTATGGGCGCCATGACTGGAGgtaaggcaaagccatgacctcggcacgaactcaccttcctctcggtccca Alignment from Spaln_nt2Genome CAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG gccactctcatggttgctaaccagcggcagtgtattgtgctgtttttcag-AAGAAAACCTCATTTGGCTCAGTGAAGGATGATGACCGTATTTTTACCAATCTCTATGGGCGCCATGACTGGAGgtaaggcaaagccatgacctcggcacgaactcaccttcctctcggtccca Alignment from Pairagon ACAGCACCCAAGAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG gccactctcatggttgctaaccagcggcagtgtattgtgctgtttttcag---------AAGAAAACCTCATTTGGCTCAGTGAAGGATGATGACCGTATTTTTACCAATCTCTATGGGCGCCATGACTGGAGgtaaggcaaagccatgacctcggcacgaactcaccttcctctcggtccca Alignment from Exonerate_protein2genome GAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG gccactctcatggttgctaaccagcggcagtgtattgtgctgtttttcagaaGAAAACCTCATTTGGCTCAGTGAAGGATGATGACCGTATTTTTACCAATCTCTATGGGCGCCATGACTGGAGgtaaggcaaagccatgacctcggcacgaactcaccttcctctcggtccca Alignment from Exonerate_coding2genome GAAAACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG gccactctcatggttgctaaccagcggcagtgtattgtgctgtttttcagaaGAAAACCTCATTTGGCTCAGTGAAGGATGATGACCGTATTTTTACCAATCTCTATGGGCGCCATGACTGGAGgtaaggcaaagccatgacctcggcacgaactcaccttcctctcggtccca Alignment from GeneWise ---ACCTCATTTGGCTCACTGAAGGATGAAGACCGGATCTTTACCAACCTGTATGGGCGCCATGACTGGAG gccactctcatggttgctaaccagcggcagtgtattgtgctgtttttcagaagAAAACCTCATTTGGCTCAGTGAAGGATGATGACCGTATTTTTACCAATCTCTATGGGCGCCATGACTGGAGgtaaggcaaagccatgacctcggcacgaactcaccttcctctcggtccca #### Nfkb2_ID9826_4 --> 0 - 0 Original Alignment CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG------ gggggtttgcttctcctccttattaccgcccctatctctgccctctccagCGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCGGGTGCATCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTAAAGCTCTTGgtaagatcagatgacacaggtgaccatgctctgtagagtgcatgattttc Alignment from CESAR CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG------ gggggtttgcttctcctccttattaccgcccctatctctgccctctccagCGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCGGGTGCATCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTAAAGCTCTTGgtaagatcagatgacacaggtgaccatgctctgtagagtgcatgaatctc Alignment from Spaln_aa2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG------ gggggtttgcttctcctccttattaccgcccctatctctgccctctccagCGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCGGGTGCATCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTAAAGCTCTTGgtaagatcagatgacacaggtgaccatgctctgtagagtgcatgattttc Alignment from Spaln_nt2Genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG------ gggggtttgcttctcctccttattaccgcccctatctctgccctctccagCGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCGGGTGCATCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTAAAGCTCTTGgtaagatcagatgacacaggtgaccatgctctgtagagtgcatgattttc Alignment from Pairagon CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAGATC----------------------------------------------------- gggggtttgcttctcctccttattaccgcccctatctctgccctctccagCGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCGGGTGCATCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTAAAGCTCTTGGTAAGATCAGATGACACAGGTGACCATGCTCTGTAGAGTGCATGATTTTC Alignment from Exonerate_protein2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggggtttgcttctcctccttattaccgcccctatctctgccctctccagCGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCGGGTGCATCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTAAAGctcttggtaagatcagatgacacaggtgaccatgctctgtagagtgcatgattttc Alignment from Exonerate_coding2genome CGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAG gggggtttgcttctcctccttattaccgcccctatctctgccctctccagCGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCGGGTGCATCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTAAAGctcttggtaagatcagatgacacaggtgaccatgctctgtagagtgcatgattttc Alignment from GeneWise --------GCTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAGCGAGGCTTCAGATTTCGATATGGCTGTGAAGGCCCCTCCCATGGAGGTTTGCCAGGTGCCTCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTCAAGATC--- GGGGGTTTGCTTCTCCTCCTTATTACCGCCCCTATCTCTGCCCTCTCCAGCGAGGCTATAGATTCCGATATGGCTGTGAGGGCCCCTCCCATGGTGGCTTGCCGGGTGCATCCAGTGAGAAGGGCCGGAAGACCTATCCTACTGTAAAGCTCTTGgtaagatcagatgacacaggtgaccatgctctgtagagtgcatgattttc #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ---ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca aggtgaccatgctctgtagagtgcatgagtcctctcactctctcccacagCAAATATGTAACTATGAGGGACCAGCCAAGATTGCGGTTGACCTGGCGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTcagtaagggatgcttctctgtcttggagtggcatgattttctggatagccca Alignment from CESAR ---ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca aggtgaccatgctctgtagagtgcatgagtcctctcactctctcccacagCAAATATGTAACTATGAGGGACCAGCCAAGATTGCGGTTGACCTGGCGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTcagtaagggatgcttctctgtcttggagtggcatgattttctggatagccca Alignment from Spaln_aa2Genome ATCTGTAACTAT---GAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA aggtgaccatgctctgtagagtgcatgagtcctctcactctctcccacagCAAATATGTAACTATGAGGGACCAGCCAAGATTGCGGTTGACCTGGCGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagggatgcttctctgtcttggagtggcatgattttctggatagccca Alignment from Spaln_nt2Genome ATCTGTAACTA---TGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA aggtgaccatgctctgtagagtgcatgagtcctctcactctctcccacagCAAATATGTAACTATGAGGGACCAGCCAAGATTGCGGTTGACCTGGCGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagggatgcttctctgtcttggagtggcatgattttctggatagccca Alignment from Pairagon -----------------------------------------------------ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA AGGTGACCATGCTCTGTAGAGTGCATGAGTCCTCTCACTCTCTCCCACAGCAAATATGTAACTATGAGGGACCAGCCAAGATTGCGGTTGACCTGGCGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagggatgcttctctgtcttggagtggcatgattttctggatagccca Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA aggtgaccatgctctgtagagtgcatgagtcctctcactctctcccacagcaaATATGTAACTATGAGGGACCAGCCAAGATTGCGGTTGACCTGGCGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagggatgcttctctgtcttggagtggcatgattttctggatagccca Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA aggtgaccatgctctgtagagtgcatgagtcctctcactctctcccacagcaaATATGTAACTATGAGGGACCAGCCAAGATTGCGGTTGACCTGGCGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagggatgcttctctgtcttggagtggcatgattttctggatagccca Alignment from GeneWise ---ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA aggtgaccatgctctgtagagtgcatgagtcctctcactctctcccacagCAAATATGTAACTATGAGGGACCAGCCAAGATTGCGGTTGACCTGGCGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATTTCTGTAGGACCCAAGGACATGACTGCTCAgtaagggatgcttctctgtcttggagtggcatgattttctggatagccca #### Nfkb2_ID9830_8 --> 2 - 1 Original Alignment agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg cacctgtaggtcaatcgacatgctcgtttgtaccttgcccccttctttagaaTCTTCAGGGGCCTTGAACTTGAAGATCTCTGAGATGGACAAGACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAG---ggtaagcagtcaccctgtttgggcaggctgtagtggtacaaatctagaaat Alignment from CESAR agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg cacctgtaggtcaatcgacatgctcgtttgtaccttgcccccttctttagaaTCTTCAGGGGCCTTGAACTTGAAGATCTCTGAGATGGACAAGACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAG---ggtaagcagtcaccctgtttgggcaggctgtagtggtacaaatctagaaat Alignment from Spaln_aa2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAA- cacctgtaggtcaatcgacatgctcgtttgtaccttgcccccttctttagAATCTTCAGGGGCCTTGAACTTGAAGATCTCTGAGATGGACAAGACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAGGgtaagcagtcaccctgtttgggcaggctgtagtggtacaaatctagaaat Alignment from Spaln_nt2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG cacctgtaggtcaatcgacatgctcgtttgtaccttgcccccttctttagAATCTTCAGGGGCCTTGAACTTGAAGATCTCTGAGATGGACAAGACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGC---AGGgtaagcagtcaccctgtttgggcaggctgtagtggtacaaatctagaaat Alignment from Pairagon AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG cacctgtaggtcaatcgacatgctcgtttgtaccttgcccccttctttagAATCTTCAGGGGCCTTGAACTTGAAGATCTCTGAGATGGACAAGACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGC---AGGgtaagcagtcaccctgtttgggcaggctgtagtggtacaaatctagaaat Alignment from Exonerate_protein2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG cacctgtaggtcaatcgacatgctcgtttgtaccttgcccccttctttagAATCTTCAGGGGCCTTGAACTTGAAGATCTCTGAGATGGACAAGACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAG---Ggtaagcagtcaccctgtttgggcaggctgtagtggtacaaatctagaaat Alignment from Exonerate_coding2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG cacctgtaggtcaatcgacatgctcgtttgtaccttgcccccttctttagAATCTTCAGGGGCCTTGAACTTGAAGATCTCTGAGATGGACAAGACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAG---Ggtaagcagtcaccctgtttgggcaggctgtagtggtacaaatctagaaat Alignment from GeneWise AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAA cacctgtaggtcaatcgacatgctcgtttgtaccttgcccccttctttagAATCTTCAGGGGCCTTGAACTTGAAGATCTCTGAGATGGACAAGACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAGGgtaagcagtcaccctgtttgggcaggctgtagtggtacaaatctagaaat #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment ac------GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agaaatcacttgccccctccatatggcttcctgtggctttgcatgtctagatATGGCCGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGgtaagacagcctgagccttattccctctcttcagtgaaaacatgctggcc Alignment from CESAR ac------GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agaaatcacttgccccctccatatggcttcctgtggctttgcatgtctagatATGGCCGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGgtaagacagcctgagccttattccctctcttcagtgaaaacatgctggcc Alignment from Spaln_aa2Genome ACGACATTGAGGTTCGGTTC------TATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agaaatcacttgccccctccatatggcttcctgtggctttgcatgtctagATATGGCCGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGgtaagacagcctgagccttattccctctcttcagtgaaaacatgctggcc Alignment from Spaln_nt2Genome A------CGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agaaatcacttgccccctccatatggcttcctgtggctttgcatgtctagATATGGCCGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGgtaagacagcctgagccttattccctctcttcagtgaaaacatgctggcc Alignment from Pairagon A------CGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agaaatcacttgccccctccatatggcttcctgtggctttgcatgtctagATATGGCCGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGgtaagacagcctgagccttattccctctcttcagtgaaaacatgctggcc Alignment from Exonerate_protein2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agaaatcacttgccccctccatatggcttcctgtggctttgcatgtctagatatggCCGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGgtaagacagcctgagccttattccctctcttcagtgaaaacatgctggcc Alignment from Exonerate_coding2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agaaatcacttgccccctccatatggcttcctgtggctttgcatgtctagatatggCCGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGgtaagacagcctgagccttattccctctcttcagtgaaaacatgctggcc Alignment from GeneWise -----GACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG agaaatcacttgccccctccatatggcttcctgtggctttgcatgtctagATATGGCCGACATTGAGGTTCAATTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTTATAAACAGgtaagacagcctgagccttattccctctcttcagtgaaaacatgctggcc #### Nfkb2_ID9832_10 --> 0 - 1 Original Alignment ---TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTAC---CCTCTGGTGGAAg ctatagacatacttgctggtgctaaatctctctatttttgggttttccagGAATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAAAGACCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGggtaagacagggttcagtatttctaaaagctaggtgaactcaagcctgtca Alignment from CESAR ---TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAg ctatagacatacttgctggtgctaaatctctctatttttgggttttccagGAATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAAAGACCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGggtaagacagggttcagtatttctaaaagctaggtgaactcaagcctgtca Alignment from Spaln_aa2Genome TATGCCATTGTG---TTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG ctatagacatacttgctggtgctaaatctctctatttttgggttttccagGAATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAAAGACCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacagggttcagtatttctaaaagctaggtgaactcaagcctgtca Alignment from Spaln_nt2Genome TATGCCATT---GTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTA---CCCTCTGGTGGAAG ctatagacatacttgctggtgctaaatctctctatttttgggttttccagGAATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAAAGACCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacagggttcagtatttctaaaagctaggtgaactcaagcctgtca Alignment from Pairagon ---TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG ctatagacatacttgctggtgctaaatctctctatttttgggttttccagGAATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAAAGACCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacagggttcagtatttctaaaagctaggtgaactcaagcctgtca Alignment from Exonerate_protein2genome ---TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG ctatagacatacttgctggtgctaaatctctctatttttgggttttccagGAATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAAAGACCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacagggttcagtatttctaaaagctaggtgaactcaagcctgtca Alignment from Exonerate_coding2genome ---TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG ctatagacatacttgctggtgctaaatctctctatttttgggttttccagGAATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAAAGACCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacagggttcagtatttctaaaagctaggtgaactcaagcctgtca Alignment from GeneWise ---TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTAC---CCTCTGGTGGAAG ctatagacatacttgctggtgctaaatctctctatttttgggttttccagGAATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAAAGACCCGTGACAGTGTTCCTTCAGCTGAAGCGTAAACGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacagggttcagtatttctaaaagctaggtgaactcaagcctgtca #### Nfkb2_ID9835_13 --> 2 - 2 Original Alignment ctCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACac gttgaggttaacatgcagcaaagcagtccccctttcttttgcttattaagcc------TACAATGCATGCCTGTTTGGCCTGGCGCAGCGTAGTGCCCGAGTCCTGCTGGACTATGGTGTCACTTCAGATGCACGTGCTCTGTTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGAATGGAGACacgtaaggctgagtttgggctaccatgagatccccagggtgttaggtttcaa Alignment from CESAR ctCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACac ggcagggttgaggttaacatgcagcgtccccctttcttttgcttattaagcc------TACAATGCATGCCTGTTTGGCCTGGCGCAGCGTAGTGCCCGAGTCCTGCTGGACTATGGTGTCACTTCAGATGCACGTGCTCTGTTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGAATGGAGACacgtaaggctgagtttgggctaccatgagatccccagggtgttaggtttcaa Alignment from Spaln_aa2Genome AGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACAC gttgaggttaacatgcagcaaagcagtccccctttcttttgcttattaagCCTACAATGCATGCCTGTTTGGCCTGGCGCAGCGTAGTGCCCGAGTCCTGCTGGACTATGGTGTCACTTCAGATGCACGTGCTCTGTTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGAATGGAGACACgtaaggctgagtttgggctaccatgagatccccagggtgttaggtttcaa Alignment from Spaln_nt2Genome AGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACAC gttgaggttaacatgcagcaaagcagtccccctttcttttgcttattaagCCTACAATGCATGCCTGTTTGGCCTGGCGCAGCGTAGTGCCCGAGTCCTGCTGGACTATGGTGTCACTTCAGATGCACGTGCTCTGTTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGAATGGAGACACgtaaggctgagtttgggctaccatgagatccccagggtgttaggtttcaa Alignment from Pairagon ----------------------------------------------------TACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACAC GTTGAGGTTAACATGCAGCAAAGCAGTCCCCCTTTCTTTTGCTTATTAAGCCTACAATGCATGCCTGTTTGGCCTGGCGCAGCGTAGTGCCCGAGTCCTGCTGGACTATGGTGTCACTTCAGATGCACGTGCTCTGTTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGAATGGAGACACgtaaggctgagtttgggctaccatgagatccccagggtgttaggtttcaa Alignment from Exonerate_protein2genome AGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACAC gttgaggttaacatgcagcaaagcagtccccctttcttttgcttattaagCCTACAATGCATGCCTGTTTGGCCTGGCGCAGCGTAGTGCCCGAGTCCTGCTGGACTATGGTGTCACTTCAGATGCACGTGCTCTGTTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGAATGGAGACACgtaaggctgagtttgggctaccatgagatccccagggtgttaggtttcaa Alignment from Exonerate_coding2genome AGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACAC gttgaggttaacatgcagcaaagcagtccccctttcttttgcttattaagCCTACAATGCATGCCTGTTTGGCCTGGCGCAGCGTAGTGCCCGAGTCCTGCTGGACTATGGTGTCACTTCAGATGCACGTGCTCTGTTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGAATGGAGACACgtaaggctgagtttgggctaccatgagatccccagggtgttaggtttcaa Alignment from GeneWise AGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACAC gttgaggttaacatgcagcaaagcagtccccctttcttttgcttattaagCCTACAATGCATGCCTGTTTGGCCTGGCGCAGCGTAGTGCCCGAGTCCTGCTGGACTATGGTGTCACTTCAGATGCACGTGCTCTGTTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGAATGGAGACACgtaaggctgagtttgggctaccatgagatccccagggtgttaggtttcaa #### Nfkb2_ID9836_14 --> 1 - 0 Original Alignment g---CCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG atgaaaataggggtctgcagtagtgtggaggttagcctttccttttatagcGTTCCATTACACTTAGCCATTATCCATGGGCAGATAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGTGTAATAAACCTCACCAACCACCTGCATCAGgtacagagaagttaaaaattgaaagcaagaagtcgaaggctgacctgact Alignment from CESAR g---CCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG atgaaaataggggtctgcagtagtgtggaggttagcctttccttttatagcGTTCCATTACACTTAGCCATTATCCATGGGCAGATAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGTGTAATAAACCTCACCAACCACCTGCATCAGgtacagagaagttaaaaattgaaagcaagaagtcgaaggctgaccactcc Alignment from Spaln_aa2Genome GCCACTGCAC---CTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG atgaaaataggggtctgcagtagtgtggaggttagcctttccttttatagCGTTCCATTACACTTAGCCATTATCCATGGGCAGATAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGTGTAATAAACCTCACCAACCACCTGCATCAGgtacagagaagttaaaaattgaaagcaagaagtcgaaggctgacctgact Alignment from Spaln_nt2Genome G---CCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG atgaaaataggggtctgcagtagtgtggaggttagcctttccttttatagCGTTCCATTACACTTAGCCATTATCCATGGGCAGATAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGTGTAATAAACCTCACCAACCACCTGCATCAGgtacagagaagttaaaaattgaaagcaagaagtcgaaggctgacctgact Alignment from Pairagon ---GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG atgaaaataggggtctgcagtagtgtggaggttagcctttccttttatagCGTTCCATTACACTTAGCCATTATCCATGGGCAGATAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGTGTAATAAACCTCACCAACCACCTGCATCAGgtacagagaagttaaaaattgaaagcaagaagtcgaaggctgacctgact Alignment from Exonerate_protein2genome G---CCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG atgaaaataggggtctgcagtagtgtggaggttagcctttccttttatagCGTTCCATTACACTTAGCCATTATCCATGGGCAGATAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGTGTAATAAACCTCACCAACCACCTGCATCAGgtacagagaagttaaaaattgaaagcaagaagtcgaaggctgacctgact Alignment from Exonerate_coding2genome G---CCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG atgaaaataggggtctgcagtagtgtggaggttagcctttccttttatagCGTTCCATTACACTTAGCCATTATCCATGGGCAGATAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGTGTAATAAACCTCACCAACCACCTGCATCAGgtacagagaagttaaaaattgaaagcaagaagtcgaaggctgacctgact Alignment from GeneWise -ACGCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG atgaaaataggggtctgcagtagtgtggaggttagcctttccttttatagCGTTCCATTACACTTAGCCATTATCCATGGGCAGATAGGTATCATTGAACAGATTGCCCATGTCATTTACCATGCTCAGTACCTTGGTGTAATAAACCTCACCAACCACCTGCATCAGgtacagagaagttaaaaattgaaagcaagaagtcgaaggctgacctgact #### Nfkb2_ID9837_15 --> 0 - 1 Original Alignment ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAG---g attgaaagcaagaagtcgaaggctgaccactcccaacctctgatccacagACCCCACTACATCTTGCCATAATCACTGGGCAGACAAGAGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACACTGCTGGAGAGGCATGGAGACTCTGCACTCCACTTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCCCATGAGCTCAGAGCAGGAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTGCGCAGTGAAGCCCATGCTGTACCCCAAATA---CATATGCCTGAGTTTGAGGCCggtaagttgccaattactcttgtaccagaaacaatgatgtaaacccagagg Alignment from CESAR ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAG---g attgaaagcaagaagtcgaaggctgaccactcccaacctctgatccacagACCCCACTACATCTTGCCATAATCACTGGGCAGACAAGAGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACACTGCTGGAGAGGCATGGAGACTCTGCACTCCACTTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCCCATGAGCTCAGAGCAGGAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTGCGCAGTGAAGCCCATGCTGTACCCCAAATA---CATATGCCTGAGTTTGAGGCCggtaagttgccaattactcttgtaccagaaacaatgatgtaaacccagagg Alignment from Spaln_aa2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGG CAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAG---G attgaaagcaagaagtcgaaggctgaccactcccaacctctgatccacagACCCCACTACATCTTGCCATAATCACTGGGCAGACAAGAGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACACTGCTGGAGAGGCATGGAGACTCTGCACTCCACTTGGCTCACACCTgtgaaaatttcttgccatcttggacctcccatgagctcagagCAGGAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTGCGCAGTGAAGCCCATGCTGTACCCCAAATA---CATATGCCTGAGTTTGAGGCCGgtaagttgccaattactcttgtaccagaaacaatgatgtaaacccagagg Alignment from Spaln_nt2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTC--CG GGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG--- attgaaagcaagaagtcgaaggctgaccactcccaacctctgatccacagACCCCACTACATCTTGCCATAATCACTGGGCAGACAAGAGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACACTGCTGGAGAGGCATGGAGACTCTGCACTCCACTTGGCTCACACCTgtgaaaatttcttgccatcttggacctcccatgagctcagAGCAGGAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTGCGCAGTGAAGCCCATGCTGTACCCCAAATA---CATATGCCTGAGTTTGAGGCCGgtaagttgccaattactcttgtaccagaaacaatgatgtaaacccagagg Alignment from Pairagon ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG--- attgaaagcaagaagtcgaaggctgaccactcccaacctctgatccacagACCCCACTACATCTTGCCATAATCACTGGGCAGACAAGAGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACACTGCTGGAGAGGCATGGAGACTCTGCACTCCACTTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCCCATGAGCTCAGAGCAGGAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTGCGCAGTGAAGCCCATGCTGTACCCCAAATA---CATATGCCTGAGTTTGAGGCCGgtaagttgccaattactcttgtaccagaaacaatgatgtaaacccagagg Alignment from Exonerate_protein2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCG GGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAG---G attgaaagcaagaagtcgaaggctgaccactcccaacctctgatccacagACCCCACTACATCTTGCCATAATCACTGGGCAGACAAGAGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACACTGCTGGAGAGGCATGGAGACTCTGCACTCCACTTGGCTCACACctgtgaaaatttcttgccatcttggacctcccatgagctcagAGCAGGAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTGCGCAGTGAAGCCCATGCTGTACCCCAAATA---CATATGCCTGAGTTTGAGGCCGgtaagttgccaattactcttgtaccagaaacaatgatgtaaacccagagg Alignment from Exonerate_coding2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCG GGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAG---G attgaaagcaagaagtcgaaggctgaccactcccaacctctgatccacagACCCCACTACATCTTGCCATAATCACTGGGCAGACAAGAGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACACTGCTGGAGAGGCATGGAGACTCTGCACTCCACTTGGCTCACACctgtgaaaatttcttgccatcttggacctcccatgagctcagAGCAGGAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTGCGCAGTGAAGCCCATGCTGTACCCCAAATA---CATATGCCTGAGTTTGAGGCCGgtaagttgccaattactcttgtaccagaaacaatgatgtaaacccagagg Alignment from GeneWise ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGGGA- attgaaagcaagaagtcgaaggctgaccactcccaacctctgatccacagACCCCACTACATCTTGCCATAATCACTGGGCAGACAAGAGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACACTGCTGGAGAGGCATGGAGACTCTGCACTCCACTTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCCCATGAGCTCAGAGCAGGAGCAGCTGCCCCTGAGTTGTTGCAGGCATTGTTGCGCAGTGAAGCCCATGCTGTACCCCAAATA---CATATGCCTGAGTTTGAGGCCGgtaagttgccaattactcttgtaccagaaacaatgatgtaaacccagagg #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment ---CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gctttagttggttgtggccagactttgtagtgccatcttcaaccccatagTTACTCCATGCCAATGTGAATGCTTGGACCTTTGCTGCAAATACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTggtaagtcttgcaattagaaaatggcaggccaggggaggaaggggacaggg Alignment from CESAR ---CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gctttagttggttgtggccagactttgtagtgccatcttcaaccccatagTTACTCCATGCCAATGTGAATGCTTGGACCTTTGCTGCAAATACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTggtaagtcttgcaattagaaaatggcaggccaggggaggaaggggacaggg Alignment from Spaln_aa2Genome CTCCATGCTAAT---GTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gctttagttggttgtggccagactttgtagtgccatcttcaaccccatagTTACTCCATGCCAATGTGAATGCTTGGACCTTTGCTGCAAATACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaagtcttgcaattagaaaatggcaggccaggggaggaaggggacaggg Alignment from Spaln_nt2Genome CTCCATGCTAA---TGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gctttagttggttgtggccagactttgtagtgccatcttcaaccccatagTTACTCCATGCCAATGTGAATGCTTGGACCTTTGCTGCAAATACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaagtcttgcaattagaaaatggcaggccaggggaggaaggggacaggg Alignment from Pairagon ---CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gctttagttggttgtggccagactttgtagtgccatcttcaaccccatagTTACTCCATGCCAATGTGAATGCTTGGACCTTTGCTGCAAATACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaagtcttgcaattagaaaatggcaggccaggggaggaaggggacaggg Alignment from Exonerate_protein2genome ---CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gctttagttggttgtggccagactttgtagtgccatcttcaaccccatagTTACTCCATGCCAATGTGAATGCTTGGACCTTTGCTGCAAATACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaagtcttgcaattagaaaatggcaggccaggggaggaaggggacaggg Alignment from Exonerate_coding2genome ---CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gctttagttggttgtggccagactttgtagtgccatcttcaaccccatagTTACTCCATGCCAATGTGAATGCTTGGACCTTTGCTGCAAATACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaagtcttgcaattagaaaatggcaggccaggggaggaaggggacaggg Alignment from GeneWise ---CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gctttagttggttgtggccagactttgtagtgccatcttcaaccccatagTTACTCCATGCCAATGTGAATGCTTGGACCTTTGCTGCAAATACACCACTCCATCTGGCAGCTGGACTTGGATCCCCAACACTTTCTCACCTCCTTCTAAAGGCTGgtaagtcttgcaattagaaaatggcaggccaggggaggaaggggacaggg #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagtttaggaattgtaactagtcttttcatccccatctttcctccacaaggtGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGTCATACCCCTCTTGATCTCACTTGCAGTACAAAGAACgtaagtttacccttggagaagattggctgaagagcagggtctgctgcagt Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagtttaggaattgtaactagtcttttcatccccatctttcctccacaaggtGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGTCATACCCCTCTTGATCTCACTTGCAGTACAAAGAACgtaagtttacccttggagaagattggctgaagagcagggtctgctgcagt Alignment from Spaln_aa2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagtttaggaattgtaactagtcttttcatccccatctttcctccacaagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGTCATACCCCTCTTGATCTCACTTGCAGTACAAAGAACgtaagtttacccttggagaagattggctgaagagcagggtctgctgcagt Alignment from Spaln_nt2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagtttaggaattgtaactagtcttttcatccccatctttcctccacaagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGTCATACCCCTCTTGATCTCACTTGCAGTACAAAGAACgtaagtttacccttggagaagattggctgaagagcagggtctgctgcagt Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagtttaggaattgtaactagtcttttcatccccatctttcctccacaagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGTCATACCCCTCTTGATCTCACTTGCAGTACAAAGAACgtaagtttacccttggagaagattggctgaagagcagggtctgctgcagt Alignment from Exonerate_protein2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagtttaggaattgtaactagtcttttcatccccatctttcctccacaagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGTCATACCCCTCTTGATCTCACTTGCAGTACAAAGAACgtaagtttacccttggagaagattggctgaagagcagggtctgctgcagt Alignment from Exonerate_coding2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG--- cagtttaggaattgtaactagtcttttcatccccatctttcctccacaagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGTCATACCCCTCTTGATCTCACTTGCAGTACAAAGAACgtaagtttacccttggagaagattggctgaagagcagggtctgctgcagt Alignment from GeneWise GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAGGTG cagtttaggaattgtaactagtcttttcatccccatctttcctccacaagGTGCTGATATCCACACAGAGAATGAAGAACCTCTGTGTCCACTGCCATCCCCCTCAACTTCTGGGAGTGACTCTGACTCTGAGGGGCCTGAAAGAGACACTCAAAGAACCTTCCGAGGTCATACCCCTCTTGATCTCACTTGCAGTACAAAGAACgtaagtttacccttggagaagattggctgaagagcagggtctgctgcagt #### Nfkb2_ID9842_20 --> 2 - 0 Original Alignment ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG tgctcctgcacgtatgttagactactgcctgcatccttttgtccttgcaggg---GGGCTGTCCCTAGGGGATACAGCCCTACAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaggacagttagacactatgctgaagcctcaatcactaaaatactttct Alignment from CESAR ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG acatgctcctgcacgtatgttagactgcctgcatccttttgtccttgcaggg---GGGCTGTCCCTAGGGGATACAGCCCTACAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaggacagttagacactatgctgaagcctcaatcagtgcccgggcctcc Alignment from Spaln_aa2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG tgctcctgcacgtatgttagactactgcctgcatccttttgtccttgcagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaggacagttagacactatgctgaagcctcaatcactaaaatactttct Alignment from Spaln_nt2Genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG tgctcctgcacgtatgttagactactgcctgcatccttttgtccttgcagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaggacagttagacactatgctgaagcctcaatcactaaaatactttct Alignment from Pairagon GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG tgctcctgcacgtatgttagactactgcctgcatccttttgtccttgcagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaggacagttagacactatgctgaagcctcaatcactaaaatactttct Alignment from Exonerate_protein2genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG tgctcctgcacgtatgttagactactgcctgcatccttttgtccttgcagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaggacagttagacactatgctgaagcctcaatcactaaaatactttct Alignment from Exonerate_coding2genome GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG tgctcctgcacgtatgttagactactgcctgcatccttttgtccttgcagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaggacagttagacactatgctgaagcctcaatcactaaaatactttct Alignment from GeneWise GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG tgctcctgcacgtatgttagactactgcctgcatccttttgtccttgcagGG---GGGCTGTCCCTAGGGGATACAGCCCTACAAAACTTGCAGCAACTGTTAGATGGTCCTGAAGCGCAAGGTAGCTGGGCAGAGCTAGCAGAGCGTCTGGGATTGAGAAGCCTGGTGGACACATACAGGAAAACTCCGTCTCCCAGTGGTAGTCTCCTGCGTAGCTACAAGgtaggacagttagacactatgctgaagcctcaatcactaaaatactttct #### Nmrk1_ID4439_5 --> 1 - 2 Original Alignment g---CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGag aggagatgggaagaacattgtcttgggcccacctttttttgtgtgtataggGCTCTTCTGGATACGATATGGAATAGAAGTTACTGCCTAACTGTTCAATATGACCAATGTAAGAGGAGAAGGaggtaagcctggaggctgtctgtgaattgtaagcagaatcatgaccctcaag Alignment from CESAR gCCT---CTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGag aggagatgggaagaacattgtcttgggcccacctttttttgtgtgtataggGCTCTTCTGGATACGATATGGAATAGAAGTTACTGCCTAACTGTTCAATATGACCAATGTAAGAGGAGAAGGaggtaagcctggaggctgtctgtgaattgtaagcagaatcatgaccctcaag Alignment from Spaln_aa2Genome GCCT---CTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG aggagatgggaagaacattgtcttgggcccacctttttttgtgtgtatagGGCTCTTCTGGATACGATATGGAATAGAAGTTACTGCCTAACTGTTCAATATGACCAATGTAAGAGGAGAAGGAGgtaagcctggaggctgtctgtgaattgtaagcagaatcatgaccctcaag Alignment from Spaln_nt2Genome GCCTCT---GGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG aggagatgggaagaacattgtcttgggcccacctttttttgtgtgtatagGGCTCTTCTGGATACGATATGGAATAGAAGTTACTGCCTAACTGTTCAATATGACCAATGTAAGAGGAGAAGGAGgtaagcctggaggctgtctgtgaattgtaagcagaatcatgaccctcaag Alignment from Pairagon G---CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG aggagatgggaagaacattgtcttgggcccacctttttttgtgtgtatagGGCTCTTCTGGATACGATATGGAATAGAAGTTACTGCCTAACTGTTCAATATGACCAATGTAAGAGGAGAAGGAGgtaagcctggaggctgtctgtgaattgtaagcagaatcatgaccctcaag Alignment from Exonerate_protein2genome GCCT---CTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG aggagatgggaagaacattgtcttgggcccacctttttttgtgtgtatagGGCTCTTCTGGATACGATATGGAATAGAAGTTACTGCCTAACTGTTCAATATGACCAATGTAAGAGGAGAAGGAGgtaagcctggaggctgtctgtgaattgtaagcagaatcatgaccctcaag Alignment from Exonerate_coding2genome GCCT---CTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG aggagatgggaagaacattgtcttgggcccacctttttttgtgtgtatagGGCTCTTCTGGATACGATATGGAATAGAAGTTACTGCCTAACTGTTCAATATGACCAATGTAAGAGGAGAAGGAGgtaagcctggaggctgtctgtgaattgtaagcagaatcatgaccctcaag Alignment from GeneWise -AAGCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG aggagatgggaagaacattgtcttgggcccacctttttttgtgtgtatagGGCTCTTCTGGATACGATATGGAATAGAAGTTACTGCCTAACTGTTCAATATGACCAATGTAAGAGGAGAAGGAGgtaagcctggaggctgtctgtgaattgtaagcagaatcatgaccctcaag #### Noc3l_ID7660_15 --> 0 - 1 Original Alignment GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA---------g ggaacagaaagcatgcatttttgttcctatagagcaatttctttccttagGAACTTAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCAGTGGCCACGggtgaggtagtccatttggtctccctttcatttaactaaattttctgccct Alignment from CESAR GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA---------g ggaacagaaagcatgcatttttgttcctatagagcaatttctttccttagGAACTTAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCAGTGGCCACGggtgaggtagtccatttggtctccctttcatttaactaaatttgttttttc Alignment from Spaln_aa2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA---------G ggaacagaaagcatgcatttttgttcctatagagcaatttctttccttagGAACTTAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCAGTGGCCACGGgtgaggtagtccatttggtctccctttcatttaactaaattttctgccct Alignment from Spaln_nt2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA ggaacagaaagcatgcatttttgttcctatagagcaatttctttccttagGAACTTAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCAgtggccacgggtgaggtagtccatttggtctccctttcatttaactaaattttctgccct Alignment from Pairagon GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG--------- ggaacagaaagcatgcatttttgttcctatagagcaatttctttccttagGAACTTAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCAGTGGCCACGGgtgaggtagtccatttggtctccctttcatttaactaaattttctgccct Alignment from Exonerate_protein2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG ggaacagaaagcatgcatttttgttcctatagagcaatttctttccttagGAACTTAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCAGtggccacgggtgaggtagtccatttggtctccctttcatttaactaaattttctgccct Alignment from Exonerate_coding2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG ggaacagaaagcatgcatttttgttcctatagagcaatttctttccttagGAACTTAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCAGtggccacgggtgaggtagtccatttggtctccctttcatttaactaaattttctgccct Alignment from GeneWise GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAA---------G ggaacagaaagcatgcatttttgttcctatagagcaatttctttccttagGAACTTAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACCAGTGGCCACGGgtgaggtagtccatttggtctccctttcatttaactaaattttctgccct #### Npas4_ID775_6 --> 2 - 2 Original Alignment tg------GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtgggtggcctggtagcccttgaggtgtaggtttcttttctctttctcagtgTTTGGAGCTGAAAGTGGAGATATCCAGGCTGAAATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGCTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACCGCCAATAATTACCCTAATaggtaatgtggaagccatcagatgatgacaacagctgtgtttggtttaagac Alignment from CESAR tg------GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCag gtgggtggcctggtagcccttgaggtgtaggtttcttttctctttctcagtgTTTGGAGCTGAAAGTGGAGATATCCAGGCTGAAATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGCTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACCGCCAATAATTACCCTAATaggtaatgtggaagccatcagatgatgacaacagctgtgtttggtttaagac Alignment from Spaln_aa2Genome TG------GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtgggtggcctggtagcccttgaggtgtaggtttcttttctctttctcagTGTTTGGAGCTGAAAGTGGAGATATCCAGGCTGAAATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGCTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACCGCCAATAATTACCCTAATAGgtaatgtggaagccatcagatgatgacaacagctgtgtttggtttaagac Alignment from Spaln_nt2Genome TG------GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtgggtggcctggtagcccttgaggtgtaggtttcttttctctttctcagTGTTTGGAGCTGAAAGTGGAGATATCCAGGCTGAAATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGCTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACCGCCAATAATTACCCTAATAGgtaatgtggaagccatcagatgatgacaacagctgtgtttggtttaagac Alignment from Pairagon TG------GCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtgggtggcctggtagcccttgaggtgtaggtttcttttctctttctcagTGTTTGGAGCTGAAAGTGGAGATATCCAGGCTGAAATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGCTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACCGCCAATAATTACCCTAATAGgtaatgtggaagccatcagatgatgacaacagctgtgtttggtttaagac Alignment from Exonerate_protein2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtgggtggcctggtagcccttgaggtgtaggtttcttttctctttctcagtgtttgGAGCTGAAAGTGGAGATATCCAGGCTGAAATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGCTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACCGCCAATAATTACCCTAATAGgtaatgtggaagccatcagatgatgacaacagctgtgtttggtttaagac Alignment from Exonerate_coding2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtgggtggcctggtagcccttgaggtgtaggtttcttttctctttctcagtgtttgGAGCTGAAAGTGGAGATATCCAGGCTGAAATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGCTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACCGCCAATAATTACCCTAATAGgtaatgtggaagccatcagatgatgacaacagctgtgtttggtttaagac Alignment from GeneWise -----TTGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAG gtgggtggcctggtagcccttgaggtgtaggtttcttttctctttctcagTGTTTGGAGCTGAAAGTGGAGATATCCAGGCTGAAATGTTGGTGAGGCTTCAGGCCAAGCATGGAGGCTGGACATGGATTTATTGCATGTTATGCTCAGAGGGGCCAGAAGGACCTTTTACCGCCAATAATTACCCTAATAGgtaatgtggaagccatcagatgatgacaacagctgtgtttggtttaagac #### Npas4_ID777_4 --> 2 - 2 Original Alignment atCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAA---ag ctggtctttaatacccactgctttaattgacccactgtgttctctcgtagatCACCTTTTTCATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGTACACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCAGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAACCCaggtgaatcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from CESAR atCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAA---ag ctggtctttaatacccactgctttaattgacccactgtgttctctcgtagatCACCTTTTTCATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGTACACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCAGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAACCCaggtgaatcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Spaln_aa2Genome ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAGT-- ctggtctttaatacccactgctttaattgacccactgtgttctctcgtagATCACCTTTTTCATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGTACACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCAGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAACCCAGgtgaatcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Spaln_nt2Genome ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAA---AG ctggtctttaatacccactgctttaattgacccactgtgttctctcgtagATCACCTTTTTCATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGTACACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCAGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAACCCAGgtgaatcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Pairagon ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAA---AG ctggtctttaatacccactgctttaattgacccactgtgttctctcgtagATCACCTTTTTCATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGTACACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCAGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAACCCAGgtgaatcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Exonerate_protein2genome ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAA---AG ctggtctttaatacccactgctttaattgacccactgtgttctctcgtagATCACCTTTTTCATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGTACACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCAGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAACCCAGgtgaatcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from Exonerate_coding2genome ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAA---AG ctggtctttaatacccactgctttaattgacccactgtgttctctcgtagATCACCTTTTTCATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGTACACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCAGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAACCCAGgtgaatcttaagcaggatgcaggaaaaaagggcacactatattcacaatt Alignment from GeneWise ATCGCCTTTTCCGTTGTCGATTCAACACCTCCAAGTCCCTCCGGCGCCAGAGTTCAGGAAACAAACTGGTGCTTATTCGAGGTCGATTCCATGCTCACCCACCTGGGGCCTACTGGGCAGGAAACCCTGTGTTCACCGCTTTCTGCGCCCCACTGGAGCCAAGACCCCGCCCTGGCCCCGGCCCTGGCCCTGGCCCTGGTCCTGCTTCTCTCTTCCTGGCCATGTTCCAGAGCCGGCATGCTAAGGACCTAGCCCTACTGGACGTTTCTGAAAGT-- ctggtctttaatacccactgctttaattgacccactgtgttctctcgtagATCACCTTTTTCATTGCCGATTCAATGCTTCAAAGTCCCTCCGACGCCAGAGTTCTGGAAACAAACTGGTGCTTATAAGAGGACAGTTCCATGCCCACCCACCTGGGGCCTACTGGGCAGGAAATCCTGTGTTCACTGCTTTTTGTACACCCCCAAAGCCAAGACCCCGCCCAGGACCTGGTCCTGGTCCTGGCTCAGGTCCTGCTTCTCTTTTCCTGGCCATGTTTCAGAGTCGGCATGCGAAGGACTTAGCCCTACTGGATGTTTCTGAACCCAGgtgaatcttaagcaggatgcaggaaaaaagggcacactatattcacaatt #### Npm3_ID9576_4 --> 0 - 1 Original Alignment ------------------------CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg attcaagggtgcaagccaatggtactcaacactcggttgctctcttgtagTTTGCGGGTTCTAAGCCTGTGCCACTCAGTGTGGATGATCTACAACTCCAACCACCAGTTTCCTTTCGATTAAGGTCAGGTTCAGGGCCAGTTCGAATC---------CATCAGATTggtgataggggagaatgtctcagatcctggtgtggcctgcattccagacta Alignment from CESAR ---------CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg aagtactaatattgaattcaagggtgcaagccaatggtactctcttgtagtttgcgggttctaagCCTGTGCCACTCAGTGTGGATGATCTACAACTCCAACCACCAGTTTCCTTTCGATTAAGGTCAGGTTCAGGGCCAGTTCGAATC---------CATCAGATTggtgataggggagaatgtctcagatcctggtgtggcctgcattccagacta Alignment from Spaln_aa2Genome CTCAGTGTGGAT---------GATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG attcaagggtgcaagccaatggtactcaacactcggttgctctcttgtagtttgcgggttctaagCCTGTGCCACTCAGTGTGGATGATCTACAACTCCAACCACCAGTTTCCTTTCGATTAAGGTCAGGTTCAGGGCCAGTTCGAATC---------CATCAGATTGgtgataggggagaatgtctcagatcctggtgtggcctgcattccagacta Alignment from Spaln_nt2Genome CTCAGTGTG---------GATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG attcaagggtgcaagccaatggtactcaacactcggttgctctcttgtagtttgcgggttctaagCCTGTGCCACTCAGTGTGGATGATCTACAACTCCAACCACCAGTTTCCTTTCGATTAAGGTCAGGTTCAGGGCCAGTTCGAATC---------CATCAGATTGgtgataggggagaatgtctcagatcctggtgtggcctgcattccagacta Alignment from Pairagon ------------------------CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG attcaagggtgcaagccaatggtactcaacactcggttgctctcttgtagTTTGCGGGTTCTAAGCCTGTGCCACTCAGTGTGGATGATCTACAACTCCAACCACCAGTTTCCTTTCGATTAAGGTCAGGTTCAGGGCCAGTTCGAATC---------CATCAGATTGgtgataggggagaatgtctcagatcctggtgtggcctgcattccagacta Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG attcaagggtgcaagccaatggtactcaacactcggttgctctcttgtagtttgcgggttctaagcctgtgccaCTCAGTGTGGATGATCTACAACTCCAACCACCAGTTTCCTTTCGATTAAGGTCAGGTTCAGGGCCAGTTCGAATC---------CATCAGATTGgtgataggggagaatgtctcagatcctggtgtggcctgcattccagacta Alignment from Exonerate_coding2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG attcaagggtgcaagccaatggtactcaacactcggttgctctcttgtagtttgcgggttctaagcctgtgccaCTCAGTGTGGATGATCTACAACTCCAACCACCAGTTTCCTTTCGATTAAGGTCAGGTTCAGGGCCAGTTCGAATC---------CATCAGATTGgtgataggggagaatgtctcagatcctggtgtggcctgcattccagacta Alignment from GeneWise ---------CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG attcaagggtgcaagccaatggtactcaacactcggttgctctcttgtagtttgcgggttctaagCCTGTGCCACTCAGTGTGGATGATCTACAACTCCAACCACCAGTTTCCTTTCGATTAAGGTCAGGTTCAGGGCCAGTTCGAATC---------CATCAGATTGgtgataggggagaatgtctcagatcctggtgtggcctgcattccagacta #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG attgcagaggctttgacatagttgcaccttggcgtgttgctttcactcag---GTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGCAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTGGTTATGCGCTATGCAGACCTCTATGCAGCCTCATTCATCAACCTGCTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtaagtaatgttcctcacaactgacagttgactgaatgccatagttgcta Alignment from CESAR AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG tttattgcagaggctttgacatagtaccttggcgtgttgctttcactcag---GTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGCAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTGGTTATGCGCTATGCAGACCTCTATGCAGCCTCATTCATCAACCTGCTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtaagtaatgttcctcacaactgacagttgactgaatgccatagttgcta Alignment from Spaln_aa2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG attgcagaggctttgacatagttgcaccttggcgtgttgctttcactcag---GTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGCAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTGGTTATGCGCTATGCAGACCTCTATGCAGCCTCATTCATCAACCTGCTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtaagtaatgttcctcacaactgacagttgactgaatgccatagttgcta Alignment from Spaln_nt2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG attgcagaggctttgacatagttgcaccttggcgtgttgctttcactcag---GTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGCAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTGGTTATGCGCTATGCAGACCTCTATGCAGCCTCATTCATCAACCTGCTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtaagtaatgttcctcacaactgacagttgactgaatgccatagttgcta Alignment from Pairagon AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG attgcagaggctttgacatagttgcaccttggcgtgttgctttcactcag---GTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGCAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTGGTTATGCGCTATGCAGACCTCTATGCAGCCTCATTCATCAACCTGCTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtaagtaatgttcctcacaactgacagttgactgaatgccatagttgcta Alignment from Exonerate_protein2genome GTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG attgcagaggctttgacatagttgcaccttggcgtgttgctttcactcagGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGCAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTGGTTATGCGCTATGCAGACCTCTATGCAGCCTCATTCATCAACCTGCTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtaagtaatgttcctcacaactgacagttgactgaatgccatagttgcta Alignment from Exonerate_coding2genome GTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG attgcagaggctttgacatagttgcaccttggcgtgttgctttcactcagGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGCAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTGGTTATGCGCTATGCAGACCTCTATGCAGCCTCATTCATCAACCTGCTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtaagtaatgttcctcacaactgacagttgactgaatgccatagttgcta Alignment from GeneWise GTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAGAAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG --------------------GTTGCACCTTGGCGTGTTGCTTTCACTCAGGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGTCTGTTCCGCAGTAGCTCCCAGCAGACACTCTTTGCCAGCCTGGTTATGCGCTATGCAGACCTCTATGCAGCCTCATTCATCAACCTGCTGTACTACCCGTTCAGTTACCTCTTCAGAGCTGCCCATGTCCTGgtaagtaatgttcctcacaactgacagttgactgaatgccatagttgcta #### Nt5c2_ID10037_16 --> 1 - 0 Original Alignment gCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG caacctagggagtgtgttctcttagaccctgatctcccttgtcatcgcaggCATTTGGACAGCAGTAGC------------AATATTAGTCCTATCCAGAGACAG------gtgagtccagcgagattgcatctggggggcaatatcaggtgtaagttgtt Alignment from CESAR gCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG caacctagggagtgtgttctcttagaccctgatctcccttgtcatcgcaggCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAGAGACAG------gtgagtccagcgagattgcatctggggggcaatatcaggtgtaa Alignment from Spaln_aa2Genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG--- caacctagggagtgtgttctcttagaccctgatctcccttgtcatcgcagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAGAGACAGGTGAGTCCAgcgagattgcatctggggggcaatatcaggtgtaagttgtt Alignment from Spaln_nt2Genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG caacctagggagtgtgttctcttagaccctgatctcccttgtcatcgcagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAGAGAC------AGgtgagtccagcgagattgcatctggggggcaatatcaggtgtaagttgtt Alignment from Pairagon GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG caacctagggagtgtgttctcttagaccctgatctcccttgtcatcgcagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAGAGAC------AGgtgagtccagcgagattgcatctggggggcaatatcaggtgtaagttgtt Alignment from Exonerate_protein2genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGG caacctagggagtgtgttctcttagaccctgatctcccttgtcatcgcagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAGAGACAGgtgagtccagcgagattgcatctggggggcaatatcaggtgtaagttgtt Alignment from Exonerate_coding2genome caacctagggagtgtgttctcttagaccctgatctcccttgtcatcgcaggcatttggacagcagtagcaatattagtcctatccagagacaggtgagtccagcgagattgcatctggggggcaatatcaggtgtaagttgtt Alignment from GeneWise GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG caacctagggagtgtgttctcttagaccctgatctcccttgtcatcgcagGCATTTGGACAGCAGTAGCAAT------------ATTAGTCCTATCCAGAGA------CAGgtgagtccagcgagattgcatctggggggcaatatcaggtgtaagttgtt #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment ------AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgaataccagtctaacgagaaaactgaatgtattattgggttcatttcagCAATATAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCAGGGggtacgaatgctgcttggcagcttcttattcttacgatgactctgtatggt Alignment from CESAR ------AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgaataccagtctaacgagaaaactgaatgtattattgggttcatttcagCAATATAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCAGGGggtacgaatgctgcttggcagcttcttattcttacgatgactctgtatggt Alignment from Spaln_aa2Genome AAAACTGGAAAA------CTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagtctaacgagaaaactgaatgtattattgggttcatttcagCAATATAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCAGGGGgtacgaatgctgcttggcagcttcttattcttacgatgactctgtatggt Alignment from Spaln_nt2Genome TAAAACTGGA-----AAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagtctaacgagaaaactgaatgtattattgggttcatttcagCAATATAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCATG---TTGTATATTCAGGGGgtacgaatgctgcttggcagcttcttattcttacgatgactctgtatggt Alignment from Pairagon ------AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagtctaacgagaaaactgaatgtattattgggttcatttcagCAATATAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCATG---TTGTATATTCAGGGGgtacgaatgctgcttggcagcttcttattcttacgatgactctgtatggt Alignment from Exonerate_protein2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagtctaacgagaaaactgaatgtattattgggttcatttcagcaatatAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCAGGGGgtacgaatgctgcttggcagcttcttattcttacgatgactctgtatggt Alignment from Exonerate_coding2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagtctaacgagaaaactgaatgtattattgggttcatttcagcaatatAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCAGGGGgtacgaatgctgcttggcagcttcttattcttacgatgactctgtatggt Alignment from GeneWise ------AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgaataccagtctaacgagaaaactgaatgtattattgggttcatttcagCAATATAAAACTGGAAAACTGAAGATTGGCTCCTACACAGGCCCTCTGCAGCAT---GTTGTATATTCAGGGGgtacgaatgctgcttggcagcttcttattcttacgatgactctgtatggt #### Nt5c2_ID10046_7 --> 2 - 2 Original Alignment agACCTACCTGTTGGCCTGCCTCGTAGATTTTTTTACTAATTGTCCCAGATACACCag tggtctgcttgtgttgttaccatctgccaccgtttgcttatctattacagag------CTGTTGGCCTGCCTTGTAGATTTTTTTACTAACTGTCCCAGATACACCaggtgagcttatattatacttcactacagctaatgtgtggagttttatggag Alignment from CESAR agACCTACCTGTTGGCCTGCCTCGTAGATTTTTTTACTAATTGTCCCAGATACACCag gtgaagtggtctgcttgtgttgttagccaccgtttgcttatctattacagag------CTGTTGGCCTGCCTTGTAGATTTTTTTACTAACTGTCCCAGATACACCaggtgagcttatattatacttcactacagctaatgtgtggagttttatggag Alignment from Spaln_aa2Genome CTGTTGGCCTGCCTCGTAGATTTTTTTACTAATTGTCCCAGATACACCAG tggtctgcttgtgttgttaccatctgccaccgtttgcttatctattacagagCTGTTGGCCTGCCTTGTAGATTTTTTTACTAACTGTCCCAGATACACCAGgtgagcttatattatacttcactacagctaatgtgtggagttttatggag Alignment from Spaln_nt2Genome AGACCTACCTGTTGGCCTGCCTCGTAGATTTTTTTACTAATTGTCCCAGATACACCAG tggtctgcttgtgttgttaccatctgccaccgtttgcttatctattacagAG------CTGTTGGCCTGCCTTGTAGATTTTTTTACTAACTGTCCCAGATACACCAGgtgagcttatattatacttcactacagctaatgtgtggagttttatggag Alignment from Pairagon AGACCTACCTGTTGGCCTGCCTCGTAGATTTTTTTACTAATTGTCCCAGATACACCAG tggtctgcttgtgttgttaccatctgccaccgtttgcttatctattacagAG------CTGTTGGCCTGCCTTGTAGATTTTTTTACTAACTGTCCCAGATACACCAGgtgagcttatattatacttcactacagctaatgtgtggagttttatggag Alignment from Exonerate_protein2genome AGACCTACCTGTTGGCCTGCCTCGTAGATTTTTTTACTAATTGTCCCAGATACACCAG tggtctgcttgtgttgttaccatctgccaccgtttgcttatctaTTACAGAGCTGTTGGCCTGCCTTGTAGATTTTTTTACTAACTGTCCCAGATACACCAGgtgagcttatattatacttcactacagctaatgtgtggagttttatggag Alignment from Exonerate_coding2genome AGACCTACCTGTTGGCCTGCCTCGTAGATTTTTTTACTAATTGTCCCAGATACACCAG tggtctgcttgtgttgttaccatctgccaccgtttgcttatctaTTACAGAGCTGTTGGCCTGCCTTGTAGATTTTTTTACTAACTGTCCCAGATACACCAGgtgagcttatattatacttcactacagctaatgtgtggagttttatggag Alignment from GeneWise AGACCTACCTGTTGGCCTGCCTCGTAGATTTTTTTACTAATTGTCCCAGATACACCAG tggtctgcttgtgttgttaccatctgccaccgtttgcttatctattacagAG------CTGTTGGCCTGCCTTGTAGATTTTTTTACTAACTGTCCCAGATACACCAGgtgagcttatattatacttcactacagctaatgtgtggagttttatggag #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG--------- gtgttctgcaccatggatatgtcctgggtgactttttcttcccatgttaggTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGTCTCTAGATgtgcgtgaatttaccttccagctggctgctattacattcagggttattaa Alignment from CESAR gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG--------- gtgttctgcaccatggatatgtcctgggtgactttttcttcccatgttaggTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGTCTCTAGATgtgcgtgaatttaccttccagctggctgctattacattcagggttattaa Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAGAGGGTACAG gtgttctgcaccatggatatgtcctgggtgactttttcttcccatgttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGTCTCTAGATgtgcgtgaatttaccttccagctggctgctattacattcagggttattaa Alignment from Spaln_nt2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACA gtgttctgcaccatggatatgtcctgggtgactttttcttcccatgttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAgtctctagatgtgcgtgaatttaccttccagctggctgctattacattcagggttattaa Alignment from Pairagon GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG--------- gtgttctgcaccatggatatgtcctgggtgactttttcttcccatgttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGTCTCTAGATgtgcgtgaatttaccttccagctggctgctattacattcagggttattaa Alignment from Exonerate_protein2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gtgttctgcaccatggatatgtcctgggtgactttttcttcccatgttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGtctctagatgtgcgtgaatttaccttccagctggctgctattacattcagggttattaa Alignment from Exonerate_coding2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gtgttctgcaccatggatatgtcctgggtgactttttcttcccatgttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGtctctagatgtgcgtgaatttaccttccagctggctgctattacattcagggttattaa Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAGAGGGTACAG gtgttctgcaccatggatatgtcctgggtgactttttcttcccatgttagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGCTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGTCTCTAGATgtgcgtgaatttaccttccagctggctgctattacattcagggttattaa #### Nudt8_ID267_2 --> 1 - 0 Original Alignment tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaactttataaacctagctgtggtcccctcctgtttctgccttcttcagtTTCCCAGGTGGTAAGTGCGATCCTGATGACCGAGATGTGGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTAGACTTG---GTACCCAAGGAGCATGTTTGGGGGGTGCTGCAACCAGTG---------gtaagttttagcgttccattacactcccatagcacaaccctatcgtccag Alignment from CESAR tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaactttataaacctagctgtggtcccctcctgtttctgccttcttcagtTTCCCAGGTGGTAAGTGCGATCCTGATGACCGAGATGTGGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTAGACTTG---GTACCCAAGGAGCATGTTTGGGGGGTGCTGCAACCAGTG---------gtaagttttagcgttccattacactcccatagcacaaccct Alignment from Spaln_aa2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG taaactttataaacctagctgtggtcccctcctgtttctgccttcttcagTTTCCCAGGTGGTAAGTGCGATCCTGATGACCGAGATGTGGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTAGACTTGGTACCCAAGGAGCATGTTTGGGGGGTGCTGCAACCAGTGgtaagttttagcgttccattacactcccatagcacaaccctatcgtccag Alignment from Spaln_nt2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG taaactttataaacctagctgtggtcccctcctgtttctgccttcttcagTTTCCCAGGTGGTAAGTGCGATCCTGATGACCGAGATGTGGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTAGACTT---GGTACCCAAGGAGCATGTTTGGGGGGTGCTGCAACCAGTGgtaagttttagcgttccattacactcccatagcacaaccctatcgtccag Alignment from Pairagon TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG taaactttataaacctagctgtggtcccctcctgtttctgccttcttcagTTTCCCAGGTGGTAAGTGCGATCCTGATGACCGAGATGTGGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTAGACTT---GGTACCCAAGGAGCATGTTTGGGGGGTGCTGCAACCAGTGgtaagttttagcgttccattacactcccatagcacaaccctatcgtccag Alignment from Exonerate_protein2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG taaactttataaacctagctgtggtcccctcctgtttctgccttcttcagTTTCCCAGGTGGTAAGTGCGATCCTGATGACCGAGATGTGGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTAGACTTG---GTACCCAAGGAGCATGTTTGGGGGGTGCTGCAACCAGTGgtaagttttagcgttccattacactcccatagcacaaccctatcgtccag Alignment from Exonerate_coding2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG taaactttataaacctagctgtggtcccctcctgtttctgccttcttcagTTTCCCAGGTGGTAAGTGCGATCCTGATGACCGAGATGTGGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTAGACTTG---GTACCCAAGGAGCATGTTTGGGGGGTGCTGCAACCAGTGgtaagttttagcgttccattacactcccatagcacaaccctatcgtccag Alignment from GeneWise TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGGGAA taaactttataaacctagctgtggtcccctcctgtttctgccttcttcagTTTCCCAGGTGGTAAGTGCGATCCTGATGACCGAGATGTGGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTAGACTTG---GTACCCAAGGAGCATGTTTGGGGGGTGCTGCAACCAGTGGTAAGTTTTAGCgttccattacactcccatagcacaaccctatcgtccag #### Nudt8_ID268_3 --> 0 - 0 Original Alignment GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG------ ttgccaaaggacacctggacctgagtgcggaacccaactctgctccacagGACAAGGCAATCTTAGTCCCTGTTCTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAGCGACCgtaactggtgaactttgaggatagggagacctaagagtggatgcatggcc Alignment from CESAR GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG------ ttgccaaaggacacctggacctgagtgcggaacccaactctgctccacagGACAAGGCAATCTTAGTCCCTGTTCTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAGCGACCgtaactggtgaactttgaggatagggagacctaagagtggatgcatggcc Alignment from Spaln_aa2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttgccaaaggacacctggacctgagtgcggaacccaactctgctccacagGACAAGGCAATCTTAGTCCCTGTTCTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgcgaccgtaactggtgaactttgaggatagggagacctaagagtggatgcatggcc Alignment from Spaln_nt2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttgccaaaggacacctggacctgagtgcggaacccaactctgctccacagGACAAGGCAATCTTAGTCCCTGTTCTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgcgaccgtaactggtgaactttgaggatagggagacctaagagtggatgcatggcc Alignment from Pairagon GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGG---------------------------------------------------------- ttgccaaaggacacctggacctgagtgcggaacccaactctgctccacagGACAAGGCAATCTTAGTCCCTGTTCTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAGCGACCGTAACTGGTGAACTTTGAGGATAGGGAGACCTAAGAGTGGATGCATGGCC Alignment from Exonerate_protein2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttgccaaaggacacctggacctgagtgcggaacccaactctgctccacagGACAAGGCAATCTTAGTCCCTGTTCTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgcgaccgtaactggtgaactttgaggatagggagacctaagagtggatgcatggcc Alignment from Exonerate_coding2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ttgccaaaggacacctggacctgagtgcggaacccaactctgctccacagGACAAGGCAATCTTAGTCCCTGTTCTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAgcgaccgtaactggtgaactttgaggatagggagacctaagagtggatgcatggcc Alignment from GeneWise GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG------ ttgccaaaggacacctggacctgagtgcggaacccaactctgctccacagGACAAGGCAATCTTAGTCCCTGTTCTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTGAGGCCCAACCTTGAGGAAGCGACCgtaactggtgaactttgaggatagggagacctaagagtggatgcatggcc #### Nxf1_ID2353_13 --> 0 - 2 Original Alignment GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAG---ca gatagaagagatcactggtcctatgattcttctgtctactcatcccacagGGAAGTTACTTTGGAACTGAGAATCTAAAAAGTCTGGTCCTACACTTCTTGCAGAATcagtaaaagccccacacaatagtcatcagggtaacaactggactatgcatat Alignment from CESAR GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAG---ca gatagaagagatcactggtcctatgattcttctgtctactcatcccacagGGAAGTTACTTTGGAACTGAGAATCTAAAAAGTCTGGTCCTACACTTCTTGCAGAATcagtaaaagccccacacaatagtcatcagggtaacaactggactatgcatat Alignment from Spaln_aa2Genome GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCAG-- gatagaagagatcactggtcctatgattcttctgtctactcatcccacagGGAAGTTACTTTGGAACTGAGAATCTAAAAAGTCTGGTCCTACACTTCTTGCAGAATCAgtaaaagccccacacaatagtcatcagggtaacaactggactatgcatat Alignment from Spaln_nt2Genome GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAG---CA gatagaagagatcactggtcctatgattcttctgtctactcatcccacagGGAAGTTACTTTGGAACTGAGAATCTAAAAAGTCTGGTCCTACACTTCTTGCAGAATCAgtaaaagccccacacaatagtcatcagggtaacaactggactatgcatat Alignment from Pairagon GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAG---CA gatagaagagatcactggtcctatgattcttctgtctactcatcccacagGGAAGTTACTTTGGAACTGAGAATCTAAAAAGTCTGGTCCTACACTTCTTGCAGAATCAgtaaaagccccacacaatagtcatcagggtaacaactggactatgcatat Alignment from Exonerate_protein2genome GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAG---CA gatagaagagatcactggtcctatgattcttctgtctactcatcccacagGGAAGTTACTTTGGAACTGAGAATCTAAAAAGTCTGGTCCTACACTTCTTGCAGAATCAgtaaaagccccacacaatagtcatcagggtaacaactggactatgcatat Alignment from Exonerate_coding2genome GGAAGCTATTTTGGAACCGAGAACCTAAAG gatagaagagatcactggtcctatgattcttctgtctactcatcccacagggaagttactttggaactgagaatctaaaaagtctggtcctacacttcttgcagaatcagtaaaagccccacacaatagTCATCAGGGTAACAACTGGACTATGCATAT Alignment from GeneWise GGAAGCTATTTTGGAACCGAGAACCTAAAGAGTCTGGTCCTGCGCTTCTTGCAGCAG-- gatagaagagatcactggtcctatgattcttctgtctactcatcccacagGGAAGTTACTTTGGAACTGAGAATCTAAAAAGTCTGGTCCTACACTTCTTGCAGAATCAgtaaaagccccacacaatagtcatcagggtaacaactggactatgcatat #### Nxf1_ID2355_15 --> 1 - 1 Original Alignment aAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCC------a agagattatgggttacatcaactcctatcttgtgggctttgtttttaaagaAAAAACCTAGCAGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAACCGGagtatgaggattctatgagaattcctggatggaggaatatggacaagcaag Alignment from CESAR aAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCC------a agagattatgggttacatcaactcctatcttgtgggctttgtttttaaagaAAAAACCTAGCAGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAACCGGagtatgaggattctatgagaattcctggatggaggaatatggacaagcaag Alignment from Spaln_aa2Genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCC------A agagattatgggttacatcaactcctatcttgtgggctttgtttttaaagAAAAAACCTAGCAGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAACCGGAgtatgaggattctatgagaattcctggatggaggaatatggacaagcaag Alignment from Spaln_nt2Genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA------ agagattatgggttacatcaactcctatcttgtgggctttgtttttaaagAAAAAACCTAGCAGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAACCGGAgtatgaggattctatgagaattcctggatggaggaatatggacaagcaag Alignment from Pairagon AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA------ agagattatgggttacatcaactcctatcttgtgggctttgtttttaaagAAAAAACCTAGCAGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAACCGGAgtatgaggattctatgagaattcctggatggaggaatatggacaagcaag Alignment from Exonerate_protein2genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA agagattatgggttacatcaactcctatcttgtgggctttgtttttaaagAAAAAACCTAGCAGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAaccggagtatgaggattctatgagaattcctggatggaggaatatggacaagcaag Alignment from Exonerate_coding2genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA agagattatgggttacatcaactcctatcttgtgggctttgtttttaaagAAAAAACCTAGCAGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAaccggagtatgaggattctatgagaattcctggatggaggaatatggacaagcaag Alignment from GeneWise AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCACCCAG- agagattatgggttacatcaactcctatcttgtgggctttgtttttaaagAAAAAACCTAGCAGAATATGTTAAAGACTGTAGAAATGTAAAGAAGCTTAAGGAACCCAACCGGAgtatgaggattctatgagaattcctggatggaggaatatggacaagcaag #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA---------------------------------------------gg agactccctggctcctcgagccatttgattctttgctttgtcttttaaagtgGATGGGAAGTCTCGAGACTCTTTACATGCTTTCGCAAGGACATTCATTGCTGTTCCTGCAAGCAATACGGCACTTGGCATTCTTGGAAGGCATAAACACGGCCGACGGTTGTCTgggtgagaagttccgattaagttgagtctatgacgggagtggctggaaaagg Alignment from CESAR tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg agactccctggctcctcgagccatttgattctttgctttgtcttttaaagtgGATGGGAAGTCTCGAGACTCTTTACATGCTTTCGCAAGGACATTCATTGCTGTTCCTGCAAGCAATACGgcacttggcattcttggaaggcataaacacggccgacggttgtctgggtgagaagttccgattaagttgagtctatgacgggagtggctggaaaagg Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA agactccctggctcctcgagccatttgattctttgctttgtcttttaaagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTCGCAAGGACATTCATTGCTGTTCCTGCAAGCAATACGgcacttggcattcttggaaggcataaacacggccgacggttgtctgggtgagaagttccgattaagttgagtctatgacgggagtggctggaaaagg Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG agactccctggctcctcgagccatttgattctttgctttgtcttttaaagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTCGCAAGGACATTCATTGCTGTTCCTGCAAGCAAT--ACGgcacttggcattcttggaaggcataaacacggccgacggttgtctgggtgagaagttccgattaagttgagtctatgacgggagtggctggaaaagg Alignment from Pairagon TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAAT---------------------------------------------TCAGG agactccctggctcctcgagccatttgattctttgctttgtcttttaaagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTCGCAAGGACATTCATTGCTGTTCCTGCAAGCAATACGGCACTTGGCATTCTTGGAAGGCATAAACACGGCCGACGGTTGTCTGGgtgagaagttccgattaagttgagtctatgacgggagtggctggaaaagg Alignment from Exonerate_protein2genome GAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA agactccctggctcctcgagccatttgattctttgCTTTGTCTTTTAAAGTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTCGCAAGGACATTCATTGCTGTTCCTGCAAGCAATACGgcacttggcattcttggaaggcataaacacggccgacggttgtctgggtgagaagttccgattaagttgagtctatgacgggagtggctggaaaagg Alignment from Exonerate_coding2genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA agactccctggctcctcgagccatttgattctttgctttgtcttttaaagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTCGCAAGGACATTCATTGCTGTTCCTGCAAGCAATACGgcacttggcattcttggaaggcataaacacggccgacggttgtctgggtgagaagttccgattaagttgagtctatgacgggagtggctggaaaagg Alignment from GeneWise TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA------------------------------------GG agactccctggctcctcgagccatttgattctttgctttgtcttttaaagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTCGCAAGGACATTCATTGCTGTTCCTGCAAGCAATACGGCACTTGGCATTCTTGGAAGGCATAAACACGGCCGACGgttgtctgggtgagaagttccgattaagttgagtctatgacgggagtggctggaaaagg #### Otub1_ID2060_6 --> 0 - 0 Original Alignment TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG actagcttggtactgttgtcatttagtgaactcttctgtttttcctttagTTCATGGACTTTATCGAGCAGGTGGAGAAACAGACCTCTGTCACTGACCTGCTGGCCTCCTTCAATGACCAAAGCACTTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGGCTACGTACAGCGGAAAAGCAAGTTCTTTGAGCATTTCATTGAAGGCGGCCGGACTGTTAAGGAATTTTGT------gtaagcaatgtgcctcccctatcatctgcactggggcccccctttttttt Alignment from CESAR TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAG actagcttggtactgttgtcatttagtgaactcttctgtttttcctttagTTCATGGACTTTATCGAGCAGGTGGAGAAACAGACCTCTGTCACTGACCTGCTGGCCTCCTTCAATGACCAAAGCACTTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGGCTACGTACAGCGGAAAAGCAAGTTCTTTGAGCATTTCATTGAAGGCGGCCGGACTGTTAAGGAATTTTGT------gtaagcaatgtgcctcccctatcatctgcactggggcccccctt Alignment from Spaln_aa2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGC---CAGCAG actagcttggtactgttgtcatttagtgaactcttctgtttttcctttagTTCATGGACTTTATCGAGCAGGTGGAGAAACAGACCTCTGTCACTGACCTGCTGGCCTCCTTCAATGACCAAAGCACTTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGGCTACGTACAGCGGAAAAGCAAGTTCTTTGAGCATTTCATTGAAGGCGGCCGGACTGTTAAGGAATTTTGTGTAAGCAATgtgcctcccctatcatctgcactggggcccccctttttttt Alignment from Spaln_nt2Genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGC actagcttggtactgttgtcatttagtgaactcttctgtttttcctttagTTCATGGACTTTATCGAGCAGGTGGAGAAACAGACCTCTGTCACTGACCTGCTGGCCTCCTTCAATGACCAAAGCACTTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGGCTACGTACAGCGGAAAAGCAAGTTCTTTGAGCATTTCATTGAAGGCGGCCGGACTGTTAAGGAATTTTGTgtaagcaatgtgcctcccctatcatctgcactggggcccccctttttttt Alignment from Pairagon TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGC actagcttggtactgttgtcatttagtgaactcttctgtttttcctttagTTCATGGACTTTATCGAGCAGGTGGAGAAACAGACCTCTGTCACTGACCTGCTGGCCTCCTTCAATGACCAAAGCACTTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGGCTACGTACAGCGGAAAAGCAAGTTCTTTGAGCATTTCATTGAAGGCGGCCGGACTGTTAAGGAATTTTGTgtaagcaatgtgcctcccctatcatctgcactggggcccccctttttttt Alignment from Exonerate_protein2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGC actagcttggtactgttgtcatttagtgaactcttctgtttttcctttagTTCATGGACTTTATCGAGCAGGTGGAGAAACAGACCTCTGTCACTGACCTGCTGGCCTCCTTCAATGACCAAAGCACTTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGGCTACGTACAGCGGAAAAGCAAGTTCTTTGAGCATTTCATTGAAGGCGGCCGGACTGTTAAGGAATTTTGTgtaagcaatgtgcctcccctatcatctgcactggggcccccctttttttt Alignment from Exonerate_coding2genome TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGC actagcttggtactgttgtcatttagtgaactcttctgtttttcctttagTTCATGGACTTTATCGAGCAGGTGGAGAAACAGACCTCTGTCACTGACCTGCTGGCCTCCTTCAATGACCAAAGCACTTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGGCTACGTACAGCGGAAAAGCAAGTTCTTTGAGCATTTCATTGAAGGCGGCCGGACTGTTAAGGAATTTTGTgtaagcaatgtgcctcccctatcatctgcactggggcccccctttttttt Alignment from GeneWise TTCATGGACCTTATCGAGCAGGTGGAGAAGCAGACCTCAGTAGCTGACCTGCTGGCCTCCTTCAATGACCAGAGCACCTCAGACTACCTTGTGGTCTACCTGCGACTGCTCACCTCAGGCTACCTACAGCGGGAGAGCAAGTTCTTCGAGCACTTCATCGAGGGTGGCCGGACTGTTAAGGAGTTCTGCCAGCAGGAG actagcttggtactgttgtcatttagtgaactcttctgtttttcctttagTTCATGGACTTTATCGAGCAGGTGGAGAAACAGACCTCTGTCACTGACCTGCTGGCCTCCTTCAATGACCAAAGCACTTCAGACTACCTTGTGGTCTACCTGCAGCTGCTAACCTCAGGCTACGTACAGCGGAAAAGCAAGTTCTTTGAGCATTTCATTGAAGGCGGCCGGACTGTTAAGGAATTTTGTGTAAGCAATgtgcctcccctatcatctgcactggggcccccctttttttt #### Pcgf6_ID10083_4 --> 1 - 1 Original Alignment gTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAa aagaggtaatattatgctgaccataaatccacctttttttgtgtgtataggTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTG---------------agtaaatattagttatctttatatgagaaagctcatagctatgaatcccaa Alignment from CESAR gTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAa aagaggtaatattatgctgaccataaatccacctttttttgtgtgtataggTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTG---------------agtaaatattagttatctttatatgagaaagctcatagctatgaatcccaa Alignment from Spaln_aa2Genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTG- aagaggtaatattatgctgaccataaatccacctttttttgtgtgtatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGAgtaaatattagttatctttatatgagaaagctcatagctatgaatcccaa Alignment from Spaln_nt2Genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA aagaggtaatattatgctgaccataaatccacctttttttgtgtgtatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGA-----GTAAATATTAgttatctttatatgagaaagctcatagctatgaat Alignment from Pairagon GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGA aagaggtaatattatgctgaccataaatccacctttttttgtgtgtatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGAgtaaatattagttatctttatatgagaaagctcatagctatgaatcccaa Alignment from Exonerate_protein2genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGA aagaggtaatattatgctgaccataaatccacctttttttgtgtgtatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGAgtaaatattagttatctttatatgagaaagctcatagctatgaatcccaa Alignment from Exonerate_coding2genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGA aagaggtaatattatgctgaccataaatccacctttttttgtgtgtatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGAgtaaatattagttatctttatatgagaaagctcatagctatgaatcccaa Alignment from GeneWise GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGA aagaggtaatattatgctgaccataaatccacctttttttgtgtgtatagGTTGGACCGGCAGTTACAAGACATAGTATACAAGTTAGTGAgtaaatattagttatctttatatgagaaagctcatagctatgaatcccaa #### Pcgf6_ID10084_3 --> 2 - 2 Original Alignment ttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAag taatgtgaaactggacaaccataaagtagaaatgttttcccttgctttagttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAAT---aggtgagtagtatgtatggacttgaacattagctgtgtttaatttttctttt Alignment from CESAR ttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAag taatgtgaaactggacaaccataaagtagaaatgttttcccttgctttagttTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAAT---aggtgagtagtatgtatggacttgaacattagctgtgtttaatttttctttt Alignment from Spaln_aa2Genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATAT taatgtgaaactggacaaccataaagtagaaatgttttcccttgctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATAGgtgagtagtatgtatggacttgaacattagctgtgtttaatttttctttt Alignment from Spaln_nt2Genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATAT taatgtgaaactggacaaccataaagtagaaatgttttcccttgctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATAGgtgagtagtatgtatggacttgaacattagctgtgtttaatttttctttt Alignment from Pairagon TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG taatgtgaaactggacaaccataaagtagaaatgttttcccttgctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAAT---AGgtgagtagtatgtatggacttgaacattagctgtgtttaatttttctttt Alignment from Exonerate_protein2genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG taatgtgaaactggacaaccataaagtagaaatgttttcccttgctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAAT---AGgtgagtagtatgtatggacttgaacattagctgtgtttaatttttctttt Alignment from Exonerate_coding2genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG taatgtgaaactggacaaccataaagtagaaatgttttcccttgctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAAT---AGgtgagtagtatgtatggacttgaacattagctgtgtttaatttttctttt Alignment from GeneWise TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATAT taatgtgaaactggacaaccataaagtagaaatgttttcccttgctttagTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGCAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATAGgtgagtagtatgtatggacttgaacattagctgtgtttaatttttctttt #### Pcnxl3_ID1160_33 --> 1 - 1 Original Alignment aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAg taagccacataatgccttaccatacaccaatctatgtattgtcattgcagaCTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGACTCTGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACAT---------------------ggtgaatgcaaggtttcagggacgacatccgtccaattcctacaattatag Alignment from CESAR aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAg taagccacataatgccttaccatacaccaatctatgtattgtcattgcagaCTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGACTCTGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACAT---------------------ggtgaatgcaaggtttcagggacgacatccgtccaattcctacaattatag Alignment from Spaln_aa2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTG taagccacataatgccttaccatacaccaatctatgtattgtcattgcagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGACTCTGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGgtacatggtgaatgcaaggtttcagggacgacatccgtccaattcctacaattatag Alignment from Spaln_nt2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG taagccacataatgccttaccatacaccaatctatgtattgtcattgcagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGACTCTGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACA--------TGGTGAATGCA--AGgtttcagggacgacatccgtccaattcctacaattat Alignment from Pairagon ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG taagccacataatgccttaccatacaccaatctatgtattgtcattgcagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGACTCTGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACAT---------------------Ggtgaatgcaaggtttcagggacgacatccgtccaattcctacaattatag Alignment from Exonerate_protein2genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG taagccacataatgccttaccatacaccaatctatgtattgtcattgcagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGACTCTGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATGGTGAATGCAAG---GTTTCAGggacgacatccgtccaattcctacaatta Alignment from Exonerate_coding2genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG taagccacataatgccttaccatacaccaatctatgtattgtcattgcagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGACTCTGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATGGTGAATGCAAG---GTTTCAGggacgacatccgtccaattcctacaatta Alignment from GeneWise ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAA taagccacataatgccttaccatacaccaatctatgtattgtcattgcagACTCCACAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATCTCGATGACTCTGATTGTGGTGGGGGTGGTGGCCTGGCTTCCCTCAGCAACCATCCTCCCTTGGTACATGGTGAATGCAAGgtttcagggacgacatccgtccaattcctacaattatag #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ggctacagaggagaggagagggaggcagttccacacttttctgtttgcagacTCAGCTATGTTGTTCCTTCAAGCCCTGCTTTCAGGTCTTTTCTCTACCCCGCTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACGAGACCCCTCAAGTTCTGGGAG---------aagtacggcagtgggcgatgcgaggaggagcactgttgtcccagagagacct Alignment from CESAR acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ggctacagaggagaggagagggaggcagttccacacttttctgtttgcagacTCAGCTATGTTGTTCCTTCAAGCCCTGCTTTCAGGTCTTTTCTCTACCCCGCTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACGAGACCCCTCAAGTTCTGGGAG---------aagtacggcagtgggcgatgcgaggaggagcactgttgtcccagagagacct Alignment from Spaln_aa2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGG---GACTACAA ggctacagaggagaggagagggaggcagttccacacttttctgtttgcagACTCAGCTATGTTGTTCCTTCAAGCCCTGCTTTCAGGTCTTTTCTCTACCCCGCTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACGAGACCCCTCAAGTTCTGGGAGAAGTACGGCAGTGGgcgatgcgaggaggagcactgttgtcccagagagacct Alignment from Spaln_nt2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACA ggctacagaggagaggagagggaggcagttccacacttttctgtttgcagACTCAGCTATGTTGTTCCTTCAAGCCCTGCTTTCAGGTCTTTTCTCTACCCCGCTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACGAGACCCCTCAAGTTCTGGGAGAAGTACGGCAgtgggcgatgcgaggaggagcactgttgtcccagagagacct Alignment from Pairagon ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcagttccacacttttctgtttgcagACTCAGCTATGTTGTTCCTTCAAGCCCTGCTTTCAGGTCTTTTCTCTACCCCGCTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACGAGACCCCTCAAGTTCTGGGAG---------AAgtacggcagtgggcgatgcgaggaggagcactgttgtcccagagagacct Alignment from Exonerate_protein2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAG ggctacagaggagaggagagggaggcagttccacacttttctgtttgcagACTCAGCTATGTTGTTCCTTCAAGCCCTGCTTTCAGGTCTTTTCTCTACCCCGCTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACGAGACCCCTCAAGTTCTGGGAGAAgtacggcagtgggcgatgcgaggaggagcactgttgtcccagagagacct Alignment from Exonerate_coding2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAG ggctacagaggagaggagagggaggcagttccacacttttctgtttgcagACTCAGCTATGTTGTTCCTTCAAGCCCTGCTTTCAGGTCTTTTCTCTACCCCGCTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACGAGACCCCTCAAGTTCTGGGAGAAgtacggcagtgggcgatgcgaggaggagcactgttgtcccagagagacct Alignment from GeneWise ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAG ggctacagaggagaggagagggaggcagttccacacttttctgtttgcagACTCAGCTATGTTGTTCCTTCAAGCCCTGCTTTCAGGTCTTTTCTCTACCCCGCTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACGAGACCCCTCAAGTTCTGGGAGAAgtacggcagtgggcgatgcgaggaggagcactgttgtcccagagagacct #### Pcnxl3_ID1174_19 --> 0 - 0 Original Alignment CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG ctgttacagtgctattggcagtcactgtttaaccaaatcttcctctgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGCATTGTGTTCATT---------gtgagtgcacccagggtagcatgggcacagctttgatagatcaggatgct Alignment from CESAR CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG ctgttacagtgctattggcagtcactgtttaaccaaatcttcctctgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGCATTGTGTTCATT---------gtgagtgcacccagggtagcatgggcacagctttgatagat Alignment from Spaln_aa2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATT------GCCCTGAAG ctgttacagtgctattggcagtcactgtttaaccaaatcttcctctgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGCATTGTGTTCATTGTGAGTGCACCCAGGgtagcatgggcacagctttgatagatcaggatgct Alignment from Spaln_nt2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTG------CCCTGAAG ctgttacagtgctattggcagtcactgtttaaccaaatcttcctctgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGCATTGTGTTCATTGTGAGTGCACCCAGGgtagcatgggcacagctttgatagatcaggatgct Alignment from Pairagon CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATT ctgttacagtgctattggcagtcactgtttaaccaaatcttcctctgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGCATTGTGTTCATTgtgagtgcacccagggtagcatgggcacagctttgatagatcaggatgct Alignment from Exonerate_protein2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATT ctgttacagtgctattggcagtcactgtttaaccaaatcttcctctgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGCATTGTGTTCATTgtgagtgcacccagggtagcatgggcacagctttgatagatcaggatgct Alignment from Exonerate_coding2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATT ctgttacagtgctattggcagtcactgtttaaccaaatcttcctctgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGCATTGTGTTCATTgtgagtgcacccagggtagcatgggcacagctttgatagatcaggatgct Alignment from GeneWise CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATT------GCCCTGAAG ctgttacagtgctattggcagtcactgtttaaccaaatcttcctctgcagAGGGAAGTCTTGCACTCTGACCTGGTAATGTGTGTGGTGATCGCTGTGCTCATCTTTGCTGTCAGTGCTAGCATTGTGTTCATTGTGAGTGCACCCAGGgtagcatgggcacagctttgatagatcaggatgct #### Pcnxl3_ID1179_14 --> 0 - 1 Original Alignment GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTg atggtccagaatcctcattagcctactcgccgggctttctctctctgcagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTCTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCCCTTGGGACCACTCAACCCTTCCCACCTGTTTCTCTGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGAT---------ggtgagtcggatgggatggtacaagatagatcaagggactgagtctgaatg Alignment from CESAR GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTg atggtccagaatcctcattagcctactcgccgggctttctctctctgcagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTCTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCCCTTGGGACCACTCAACCCTTCCCACCTGTTTCTCTGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGAT---------ggtgagtcggatgggatggtacaagatagatcaagggactgagtctgaact Alignment from Spaln_aa2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGAT- atggtccagaatcctcattagcctactcgccgggctttctctctctgcagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTCTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCCCTTGGGACCACTCAACCCTTCCCACCTGTTTCTCTGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGgtgagtcggatgggatggtacaagatagatcaagggactgagtctgaatg Alignment from Spaln_nt2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATG atggtccagaatcctcattagcctactcgccgggctttctctctctgcagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTCTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCCCTTGGGACCACTCAACCCTTCCCACCTGTTTCTCTGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGgtgagtcggatgggatggtacaagatagatcaagggactgagtctgaatg Alignment from Pairagon GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATG atggtccagaatcctcattagcctactcgccgggctttctctctctgcagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTCTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCCCTTGGGACCACTCAACCCTTCCCACCTGTTTCTCTGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGgtgagtcggatgggatggtacaagatagatcaagggactgagtctgaatg Alignment from Exonerate_protein2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG atggtccagaatcctcattagcctactcgccgggctttctctctctgcagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTCTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCCCTTGGGACCACTCAACCCTTCCCACCTGTTTCTCTGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGGTGAGTCGGatgggatggtacaagatagatcaagggactgagtctgaatg Alignment from Exonerate_coding2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG atggtccagaatcctcattagcctactcgccgggctttctctctctgcagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTCTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCCCTTGGGACCACTCAACCCTTCCCACCTGTTTCTCTGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGGTGAGTCGGatgggatggtacaagatagatcaagggactgagtctgaatg Alignment from GeneWise GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATG atggtccagaatcctcattagcctactcgccgggctttctctctctgcagGGTCACAACTGGGTGATTGCATACAGCCGTCCTGTCTACTTTTGTATTTGTTGCCTGCTCATCTGGTTGCTGGATGCCCTTGGGACCACTCAACCCTTCCCACCTGTTTCTCTGTATGGCCTAACCCTCTTTTCTGCCTCTTTCTTCTTTTGTGCACGAGATGgtgagtcggatgggatggtacaagatagatcaagggactgagtctgaatg #### Pcnxl3_ID1185_8 --> 1 - 1 Original Alignment cAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTg ggagggactgggtctcctaatgccacaggatgtttttgtctcatttgtagc---CTG---AAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCCTTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCTGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCCTATGATGAGAGTggtaactccttcccgagccgaccacttattatgcctgtttgtggtgactga Alignment from CESAR cAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTg gaaggagggactgggtctcctaatgcaggatgtttttgtctcatttgtagc---CTGAAA---GCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCCTTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCTGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCCTATGATGAGAGTggtaactccttcccgagccgaccacttattatgcctgtttgtggtgactga Alignment from Spaln_aa2Genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG ggagggactgggtctcctaatgccacaggatgtttttgtctcatttgtagC------CTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCCTTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCTGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCCTATGATGAGAGTGgtaactccttcccgagccgaccacttattatgcctgtttgtggtgactga Alignment from Spaln_nt2Genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG ggagggactgggtctcctaatgccacaggatgtttttgtctcatttgtagC------CTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCCTTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCTGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCCTATGATGAGAGTGgtaactccttcccgagccgaccacttattatgcctgtttgtggtgactga Alignment from Pairagon CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG ggagggactgggtctcctaatgccacaggatgtttttgtctcatttgtagcctgaaag--------------CCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCCTTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCTGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCCTATGATGAGAGTGgtaactccttcccgagccgaccacttattatgcctgtttgtggtgactga Alignment from Exonerate_protein2genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG ggagggactgggtctcctaatgccacaggatgtttttgtctcatTTGTAGCCTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCCTTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCTGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCCTATGATGAGAGTGgtaactccttcccgagccgaccacttattatgcctgtttgtggtgactga Alignment from Exonerate_coding2genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG ggagggactgggtctcctaatgccacaggatgtttttgtctcatTTGTAGCCTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCCTTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCTGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCCTATGATGAGAGTGgtaactccttcccgagccgaccacttattatgcctgtttgtggtgactga Alignment from GeneWise CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG ggagggactgggtctcctaatgccacaggatgtttttgtctcatttgtagC------CTGAAAGCCCAGCGTGGCCAGGCTGCTTCTCACTGCAGGGCACTAACTCTGCCCTCTGCCTTACACTTTGCATCTTCCTTGCTGCTCACCCGAGCTGGCCCCAATGTCCATGAAGCAAGCAATTTCCATGATACCTCCGAGGGTGCTGTCCACTATTCCTATGATGAGAGTGgtaactccttcccgagccgaccacttattatgcctgtttgtggtgactga #### Pcnxl3_ID1188_5 --> 2 - 1 Original Alignment ac------ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa ccatgattggaagaagactggttagaattctgtccacctgcttgttctagacGTGAATATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTGagtgagtggcaagctggcaagcacatctgctgtgataacagtcatcctcat Alignment from CESAR ac------ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa ccatgattggaagaagactggttagaattctgtccacctgcttgttctagacGTGAATATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTGagtgagtggcaagctggcaagcacatctgctgtgataacagtcatcctcat Alignment from Spaln_aa2Genome AC------ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattggaagaagactggttagaattctgtccacctgcttgttctagACGTGAATATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTGAgtgagtggcaagctggcaagcacatctgctgtgataacagtcatcctcat Alignment from Spaln_nt2Genome AC------ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattggaagaagactggttagaattctgtccacctgcttgttctagACGTGAATATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTGAgtgagtggcaagctggcaagcacatctgctgtgataacagtcatcctcat Alignment from Pairagon AC------ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattggaagaagactggttagaattctgtccacctgcttgttctagACGTGAATATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTGAgtgagtggcaagctggcaagcacatctgctgtgataacagtcatcctcat Alignment from Exonerate_protein2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattggaagaagactggttagaattctgtccacctgcttgttctagacgtgaATATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTGAgtgagtggcaagctggcaagcacatctgctgtgataacagtcatcctcat Alignment from Exonerate_coding2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattggaagaagactggttagaattctgtccacctgcttgttctagacgtgaATATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTGAgtgagtggcaagctggcaagcacatctgctgtgataacagtcatcctcat Alignment from GeneWise -----GACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA ccatgattggaagaagactggttagaattctgtccacctgcttgttctagACGTGAATATCAAGGAGCTGGTACGGGAGCAGAGCAGCAACAATGTAATTGTTACGTCTGCAGGCCGAGAAATGCTGAGGCTCAGCTCCAAGGAGAAACTGAgtgagtggcaagctggcaagcacatctgctgtgataacagtcatcctcat #### Pcnxl3_ID1189_4 --> 0 - 1 Original Alignment ---GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAg ttgctctctcacctggttgctgatctattctgacggcttttggtttgcagTGGGAGTTGCTATCACGGATGGAGGATTCTGGGCCTCTCAGAggtgagttgcttcagcgcttttggcatggtggtcattgtgtggtgcagaat Alignment from CESAR ---GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAg ttgctctctcacctggttgctgatctattctgacggcttttggtttgcagTGGGAGTTGCTATCACGGATGGAGGATTCTGGGCCTCTCAGAggtgagttgcttcagcgcttttggcatggtggtcattgtgtggtgcagaat Alignment from Spaln_aa2Genome GAGTTGCTGCCCCGG---ATGGAGGATTCTGGGCCCCTCAGAG ttgctctctcacctggttgctgatctattctgacggcttttggtttgcagTGGGAGTTGCTATCACGGATGGAGGATTCTGGGCCTCTCAGAGgtgagttgcttcagcgcttttggcatggtggtcattgtgtggtgcagaat Alignment from Spaln_nt2Genome ---GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttgctctctcacctggttgctgatctattctgacggcttttggtttgcagTGGGAGTTGCTATCACGGATGGAGGATTCTGGGCCTCTCAGAGgtgagttgcttcagcgcttttggcatggtggtcattgtgtggtgcagaat Alignment from Pairagon ---GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttgctctctcacctggttgctgatctattctgacggcttttggtttgcagTGGGAGTTGCTATCACGGATGGAGGATTCTGGGCCTCTCAGAGgtgagttgcttcagcgcttttggcatggtggtcattgtgtggtgcagaat Alignment from Exonerate_protein2genome GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttgctctctcacctggttgctgatctattctgacggcttttggtttgcagtggGAGTTGCTATCACGGATGGAGGATTCTGGGCCTCTCAGAGgtgagttgcttcagcgcttttggcatggtggtcattgtgtggtgcagaat Alignment from Exonerate_coding2genome GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttgctctctcacctggttgctgatctattctgacggcttttggtttgcagtggGAGTTGCTATCACGGATGGAGGATTCTGGGCCTCTCAGAGgtgagttgcttcagcgcttttggcatggtggtcattgtgtggtgcagaat Alignment from GeneWise ttgctctctcacctggttgctgatctattctgacggcttttggtttgcagtgggagttgctatcacggatggaggattctgggcctctcagaggtgagttgcttcagcgcttttggcatggtggtcattgtgtggtgcagaat #### Pcnxl3_ID1190_3 --> 1 - 0 Original Alignment g------GACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aacataactgacaagataggaacataattatgtggattccttttctacaggTGGAAGGATCCTGGTATAGAGACGACAGTGTTTCAGAAAGTTAGTTCCTCACCTCCTGTACACTGCAGTTTCCAGCGTTCTGAAATAGGATTTAACCATGTGTCGgtaagaaggctcccccttttgctggcatcagagtctgccatgggtgttgg Alignment from CESAR g------GACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aacataactgacaagataggaacataattatgtggattccttttctacaggTGGAAGGATCCTGGTATAGAGACGACAGTGTTTCAGAAAGTTAGTTCCTCACCTCCTGTACACTGCAGTTTCCAGCGTTCTGAAATAGGATTTAACCATGTGTCGgtaagaaggctcccccttttgctggcatcagagtctgccatgggtgttgg Alignment from Spaln_aa2Genome GGACCCTGGTGTG------GAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aacataactgacaagataggaacataattatgtggattccttttctacagGTGGAAGGATCCTGGTATAGAGACGACAGTGTTTCAGAAAGTTAGTTCCTCACCTCCTGTACACTGCAGTTTCCAGCGTTCTGAAATAGGATTTAACCATGTGTCGgtaagaaggctcccccttttgctggcatcagagtctgccatgggtgttgg Alignment from Spaln_nt2Genome GGACCCTGGTGTGGAG------ATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aacataactgacaagataggaacataattatgtggattccttttctacagGTGGAAGGATCCTGGTATAGAGACGACAGTGTTTCAGAAAGTTAGTTCCTCACCTCCTGTACACTGCAGTTTCCAGCGTTCTGAAATAGGATTTAACCATGTGTCGgtaagaaggctcccccttttgctggcatcagagtctgccatgggtgttgg Alignment from Pairagon ------GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aacataactgacaagataggaacataattatgtggattccttttctacagGTGGAAGGATCCTGGTATAGAGACGACAGTGTTTCAGAAAGTTAGTTCCTCACCTCCTGTACACTGCAGTTTCCAGCGTTCTGAAATAGGATTTAACCATGTGTCGgtaagaaggctcccccttttgctggcatcagagtctgccatgggtgttgg Alignment from Exonerate_protein2genome G------GACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aacataactgacaagataggaacataattatgtggattccttttctacagGTGGAAGGATCCTGGTATAGAGACGACAGTGTTTCAGAAAGTTAGTTCCTCACCTCCTGTACACTGCAGTTTCCAGCGTTCTGAAATAGGATTTAACCATGTGTCGgtaagaaggctcccccttttgctggcatcagagtctgccatgggtgttgg Alignment from Exonerate_coding2genome aacataactgacaagataggaacataattatgtggattccttttctacaggtggaaggatcctggtatagagacgacagtgtttcagaaagttagttcctcacctcctgtacactgcagtttccagcgttctgaaataggatttaaccatgtgtcggtaagaaggctcccccttttgctggcatcagagtctgccatgggtgttgg Alignment from GeneWise ----AGGGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG aacataactgacaagataggaacataattatgtggattccttttctacagGTGGAAGGATCCTGGTATAGAGACGACAGTGTTTCAGAAAGTTAGTTCCTCACCTCCTGTACACTGCAGTTTCCAGCGTTCTGAAATAGGATTTAACCATGTGTCGgtaagaaggctcccccttttgctggcatcagagtctgccatgggtgttgg #### Pcnxl3_ID1191_2 --> 0 - 2 Original Alignment GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAag aaacaatactgtgagaagggataagcccacgtgtctgtgcatttttgcag------CCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAaggtagtcaatcccaggctgtgtcagagtcaggccttgctgtgaacttatga Alignment from CESAR GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAag tcttgcaaacaatactgtgagaaggcccacgtgtctgtgcatttttgcag------CCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAaggtagtcaatcccaggctgtgtcagagtcaggccttgctgtgaacttatga Alignment from Spaln_aa2Genome CCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG aaacaatactgtgagaagggataagcccacgtgtctgtgcatttttgcagCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtagtcaatcccaggctgtgtcagagtcaggccttgctgtgaacttatga Alignment from Spaln_nt2Genome GCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG aaacaatactgtgagaagggataagcccacgtgtctgtgcatttttgcag-CCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtagtcaatcccaggctgtgtcagagtcaggccttgctgtgaacttatga Alignment from Pairagon GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG aaacaatactgtgagaagggataagcccacgtgtctgtgcatttttgcag------CCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtagtcaatcccaggctgtgtcagagtcaggccttgctgtgaacttatga Alignment from Exonerate_protein2genome CCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG aaacaatactgtgagaagggataagcccacgtgtctgtgcatttttgcagCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtagtcaatcccaggctgtgtcagagtcaggccttgctgtgaacttatga Alignment from Exonerate_coding2genome CCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG aaacaatactgtgagaagggataagcccacgtgtctgtgcatttttgcagCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtagtcaatcccaggctgtgtcagagtcaggccttgctgtgaacttatga Alignment from GeneWise CCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAGG-- aaacaatactgtgagaagggataagcccacgtgtctgtgcatttttgcagCCCCCCAGTCTCATGGTGGCTGGGGTGTATTGCCTAGTGGTGGCTGTTATTTTTGCTACCATCAAGACTGTGAACTATCGCCTCCATGCCACATTTGACCAGGGTGAGATCGTGGAAAAACGCAATTCCACCATGGGGGAGAAAGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGGTAgtcaatcccaggctgtgtcagagtcaggccttgctgtgaacttatga #### Pcx_ID556_6 --> 0 - 1 Original Alignment GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg aatgctgcctcatgcctgctcacttggttttgcttccccgtgtcttccag---------GAGAATTATACCCGAGCCTACTCCGAGGCCTTGGCAGCTTTTGGGAACAGAGCACTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCACATTGAGGTGCAGATCCTAggtgagtgaggaactgtctgcaactgcccgacacatctgagaccttgccat Alignment from CESAR GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg cacatccaaaatgctgcctcatgccggttttgcttccccgtgtcttccag---------GAGAATTATACCCGAGCCTACTCCGAGGCCTTGGCAGCTTTTGGGAACAGAGCACTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCACATTGAGGTGCAGATCCTAggtgagtgaggaactgtctgcaactgcccgacacatctgagaccttgccat Alignment from Spaln_aa2Genome GAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG aatgctgcctcatgcctgctcacttggttttgcttccccgtgtcttccagGAGAATTATACCCGAGCCTACTCCGAGGCCTTGGCAGCTTTTGGGAACAGAGCACTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCACATTGAGGTGCAGATCCTAGgtgagtgaggaactgtctgcaactgcccgacacatctgagaccttgccat Alignment from Spaln_nt2Genome GAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG aatgctgcctcatgcctgctcacttggttttgcttccccgtgtcttccagGAGAATTATACCCGAGCCTACTCCGAGGCCTTGGCAGCTTTTGGGAACAGAGCACTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCACATTGAGGTGCAGATCCTAGgtgagtgaggaactgtctgcaactgcccgacacatctgagaccttgccat Alignment from Pairagon GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG aatgctgcctcatgcctgctcacttggttttgcttccccgtgtcttccag---------GAGAATTATACCCGAGCCTACTCCGAGGCCTTGGCAGCTTTTGGGAACAGAGCACTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCACATTGAGGTGCAGATCCTAGgtgagtgaggaactgtctgcaactgcccgacacatctgagaccttgccat Alignment from Exonerate_protein2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG aatgctgcctcatgcctgctcacttggttttgcttccccgtGTCTTCCAGGAGAATTATACCCGAGCCTACTCCGAGGCCTTGGCAGCTTTTGGGAACAGAGCACTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCACATTGAGGTGCAGATCCTAGgtgagtgaggaactgtctgcaactgcccgacacatctgagaccttgccat Alignment from Exonerate_coding2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG aatgctgcctcatgcctgctcacttggttttgcttccccgtGTCTTCCAGGAGAATTATACCCGAGCCTACTCCGAGGCCTTGGCAGCTTTTGGGAACAGAGCACTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCACATTGAGGTGCAGATCCTAGgtgagtgaggaactgtctgcaactgcccgacacatctgagaccttgccat Alignment from GeneWise GAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG aatgctgcctcatgcctgctcacttggttttgcttccccgtgtcttccagGAGAATTATACCCGAGCCTACTCCGAGGCCTTGGCAGCTTTTGGGAACAGAGCACTGTTTGTCGAGAAGTTTATTGGACAGCCAAGCCACATTGAGGTGCAGATCCTAGgtgagtgaggaactgtctgcaactgcccgacacatctgagaccttgccat #### Pcx_ID563_12 --> 2 - 1 Original Alignment ga---------CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg tctctggactcccagaagcagccgtgactttctaaaacattccctttcaggaCCCGGGTCCCATGTTATGGTTAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCAGTTCCTGCAGTCCCTATAggtaagttatggtacctgtttatatcttaatgagaagatgtgggatggttt Alignment from CESAR ga---------CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg tctctggactcccagaagcagccgtgactttctaaaacattccctttcaggaCCCGGGTCCCATGTTATGGTTAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCAGTTCCTGCAGTCCCTATAggtaagttatggtacctgtttatatcttaatgagaagatgtgggatggttt Alignment from Spaln_aa2Genome GACATGTCATGGTG---------AATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG tctctggactcccagaagcagccgtgactttctaaaacattccctttcagGACCCGGGTCCCATGTTATGGTTAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCAGTTCCTGCAGTCCCTATAGgtaagttatggtacctgtttatatcttaatgagaagatgtgggatggttt Alignment from Spaln_nt2Genome GAC---------ATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG tctctggactcccagaagcagccgtgactttctaaaacattccctttcagGACCCGGGTCCCATGTTATGGTTAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCAGTTCCTGCAGTCCCTATAGgtaagttatggtacctgtttatatcttaatgagaagatgtgggatggttt Alignment from Pairagon GA---------CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG tctctggactcccagaagcagccgtgactttctaaaacattccctttcagGACCCGGGTCCCATGTTATGGTTAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCAGTTCCTGCAGTCCCTATAGgtaagttatggtacctgtttatatcttaatgagaagatgtgggatggttt Alignment from Exonerate_protein2genome GA---------CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG tctctggactcccagaagcagccgtgactttctaaaacattccctttcagGACCCGGGTCCCATGTTATGGTTAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCAGTTCCTGCAGTCCCTATAGgtaagttatggtacctgtttatatcttaatgagaagatgtgggatggttt Alignment from Exonerate_coding2genome GA---------CATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG tctctggactcccagaagcagccgtgactttctaaaacattccctttcagGACCCGGGTCCCATGTTATGGTTAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCAGTTCCTGCAGTCCCTATAGgtaagttatggtacctgtttatatcttaatgagaagatgtgggatggttt Alignment from GeneWise --------GGACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG tctctggactcccagaagcagccgtgactttctaaaacattccctttcagGACCCGGGTCCCATGTTATGGTTAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCAGTTCCTGCAGTCCCTATAGgtaagttatggtacctgtttatatcttaatgagaagatgtgggatggttt #### Pcx_ID564_13 --> 2 - 2 Original Alignment gc---CCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCaa tgggatggtttattttctaagacaggtcatttctcatggttccatataaggaCCGCCACCCCCAGCTGGATTCAGGGACACCCTTTTGCGAGAAGGACCAGAGGGCTTTGCTCATGCAGTGCGGAATCACCATGGGCTGTTGTTGACGGACACAATGTTCAGGGATGCTCACCAGTCATTACTGGCCAGTCGAGTGCGCACACATGATCTCAAGAAGATAGCGTCCTATGTTGCCCACAACTTTAACAAACTCTTCAGCATGGAAAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAATGCCCTTGGCGGCGGCTCCAGAAACTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAACGCTGTGGGCTATACCAACTATGTTGACAATGTTGTCTTTaagtaaggctgagtctgttaagacccggacagtggatgctagagtgtttttc Alignment from CESAR gc---CCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCaa tgggatggtttattttctaagacaggtcatttctcatggttccatataaggaCCGCCACCCCCAGCTGGATTCAGGGACACCCTTTTGCGAGAAGGACCAGAGGGCTTTGCTCATGCAGTGCGGAATCACCATGGGCTGTTGTTGACGGACACAATGTTCAGGGATGCTCACCAGTCATTACTGGCCAGTCGAGTGCGCACACATGATCTCAAGAAGATAGCGTCCTATGTTGCCCACAACTTTAACAAACTCTTCAGCATGGAAAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAATGCCCTTGGCGGCGGCTCCAGAAACTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAACGCTGTGGGCTATACCAACTATGTTGACAATGTTGTCTTTaagtaaggctgagtctgttaagacccggacagtggatgctagagtgtttttc Alignment from Spaln_aa2Genome GCCCACCTCCA---GCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgggatggtttattttctaagacaggtcatttctcatggttccatataagGACCGCCACCCCCAGCTGGATTCAGGGACACCCTTTTGCGAGAAGGACCAGAGGGCTTTGCTCATGCAGTGCGGAATCACCATGGGCTGTTGTTGACGGACACAATGTTCAGGGATGCTCACCAGTCATTACTGGCCAGTCGAGTGCGCACACATGATCTCAAGAAGATAGCGTCCTATGTTGCCCACAACTTTAACAAACTCTTCAGCATGGAAAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAATGCCCTTGGCGGCGGCTCCAGAAACTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAACGCTGTGGGCTATACCAACTATGTTGACAATGTTGTCTTTAAgtaaggctgagtctgttaagacccggacagtggatgctagagtgtttttc Alignment from Spaln_nt2Genome GCCC---ACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgggatggtttattttctaagacaggtcatttctcatggttccatataagGACCGCCACCCCCAGCTGGATTCAGGGACACCCTTTTGCGAGAAGGACCAGAGGGCTTTGCTCATGCAGTGCGGAATCACCATGGGCTGTTGTTGACGGACACAATGTTCAGGGATGCTCACCAGTCATTACTGGCCAGTCGAGTGCGCACACATGATCTCAAGAAGATAGCGTCCTATGTTGCCCACAACTTTAACAAACTCTTCAGCATGGAAAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAATGCCCTTGGCGGCGGCTCCAGAAACTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAACGCTGTGGGCTATACCAACTATGTTGACAATGTTGTCTTTAAgtaaggctgagtctgttaagacccggacagtggatgctagagtgtttttc Alignment from Pairagon -------------------------------------------------------CCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA TGGGATGGTTTATTTTCTAAGACAGGTCATTTCTCATGGTTCCATATAAGGACCGCCACCCCCAGCTGGATTCAGGGACACCCTTTTGCGAGAAGGACCAGAGGGCTTTGCTCATGCAGTGCGGAATCACCATGGGCTGTTGTTGACGGACACAATGTTCAGGGATGCTCACCAGTCATTACTGGCCAGTCGAGTGCGCACACATGATCTCAAGAAGATAGCGTCCTATGTTGCCCACAACTTTAACAAACTCTTCAGCATGGAAAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAATGCCCTTGGCGGCGGCTCCAGAAACTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAACGCTGTGGGCTATACCAACTATGTTGACAATGTTGTCTTTAAgtaaggctgagtctgttaagacccggacagtggatgctagagtgtttttc Alignment from Exonerate_protein2genome GC---CCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgggatggtttattttctaagacaggtcatttctcatggttccatataagGACCGCCACCCCCAGCTGGATTCAGGGACACCCTTTTGCGAGAAGGACCAGAGGGCTTTGCTCATGCAGTGCGGAATCACCATGGGCTGTTGTTGACGGACACAATGTTCAGGGATGCTCACCAGTCATTACTGGCCAGTCGAGTGCGCACACATGATCTCAAGAAGATAGCGTCCTATGTTGCCCACAACTTTAACAAACTCTTCAGCATGGAAAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAATGCCCTTGGCGGCGGCTCCAGAAACTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAACGCTGTGGGCTATACCAACTATGTTGACAATGTTGTCTTTAAgtaaggctgagtctgttaagacccggacagtggatgctagagtgtttttc Alignment from Exonerate_coding2genome GC---CCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgggatggtttattttctaagacaggtcatttctcatggttccatataagGACCGCCACCCCCAGCTGGATTCAGGGACACCCTTTTGCGAGAAGGACCAGAGGGCTTTGCTCATGCAGTGCGGAATCACCATGGGCTGTTGTTGACGGACACAATGTTCAGGGATGCTCACCAGTCATTACTGGCCAGTCGAGTGCGCACACATGATCTCAAGAAGATAGCGTCCTATGTTGCCCACAACTTTAACAAACTCTTCAGCATGGAAAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAATGCCCTTGGCGGCGGCTCCAGAAACTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAACGCTGTGGGCTATACCAACTATGTTGACAATGTTGTCTTTAAgtaaggctgagtctgttaagacccggacagtggatgctagagtgtttttc Alignment from GeneWise --GGCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgggatggtttattttctaagacaggtcatttctcatggttccatataagGACCGCCACCCCCAGCTGGATTCAGGGACACCCTTTTGCGAGAAGGACCAGAGGGCTTTGCTCATGCAGTGCGGAATCACCATGGGCTGTTGTTGACGGACACAATGTTCAGGGATGCTCACCAGTCATTACTGGCCAGTCGAGTGCGCACACATGATCTCAAGAAGATAGCGTCCTATGTTGCCCACAACTTTAACAAACTCTTCAGCATGGAAAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAATGCCCTTGGCGGCGGCTCCAGAAACTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAACGCTGTGGGCTATACCAACTATGTTGACAATGTTGTCTTTAAgtaaggctgagtctgttaagacccggacagtggatgctagagtgtttttc #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG gtgcttgcctgacaagcctcttcctccagattctggccttgttctcacag---------TCTTCCAAGATTGTGGGAGACCTAGCTCAGTTCATGGTGCAGAATGGGTCAAGCCGGACCGAGACAGAAGCTCAGGCAGAAGAGCTCTCCTTCCCCTGTTCTGTAGTGGAGTTCCTACAGGGCTATATTGGCATCCCACATGGAGGTTTCCCTAAGCCATTTCATTCTAAAgtactgtaggttggtcagggtggaaacagaccttaggtcttgacgttttc Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG ttatctctggtgcttgcctgacaagccagattctggccttgttctcacag---------TCTTCCAAGATTGTGGGAGACCTAGCTCAGTTCATGGTGCAGAATGGGTCAAGCCGGACCGAGACAGAAGCTCAGGCAGAAGAGCTCTCCTTCCCCTGTTCTGTAGTGGAGTTCCTACAGGGCTATATTGGCATCCCACATGGAGGTTTCCCTAAGCCATTTCATTCTAAAgtactgtaggttggtcagggtggaaacagaccttattaccccacccctat Alignment from Spaln_aa2Genome TCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG gtgcttgcctgacaagcctcttcctccagattctggccttgttctcacagTCTTCCAAGATTGTGGGAGACCTAGCTCAGTTCATGGTGCAGAATGGGTCAAGCCGGACCGAGACAGAAGCTCAGGCAGAAGAGCTCTCCTTCCCCTGTTCTGTAGTGGAGTTCCTACAGGGCTATATTGGCATCCCACATGGAGGTTTCCCTAAGCCATTTCATTCTAAAgtactgtaggttggtcagggtggaaacagaccttaggtcttgacgttttc Alignment from Spaln_nt2Genome CACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG gtgcttgcctgacaagcctcttcctccagattctggccttgttctcacag-----TCTTCCAAGATTGTGGGAGACCTAGCTCAGTTCATGGTGCAGAATGGGTCAAGCCGGACCGAGACAGAAGCTCAGGCAGAAGAGCTCTCCTTCCCCTGTTCTGTAGTGGAGTTCCTACAGGGCTATATTGGCATCCCACATGGAGGTTTCCCTAAGCCATTTCATTCTAAAgtactgtaggttggtcagggtggaaacagaccttaggtcttgacgttttc Alignment from Pairagon CACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTA---------------------------------------------------- gtgcttgcctgacaagcctcttcctccagattctggccttgttctcacag-----TCTTCCAAGATTGTGGGAGACCTAGCTCAGTTCATGGTGCAGAATGGGTCAAGCCGGACCGAGACAGAAGCTCAGGCAGAAGAGCTCTCCTTCCCCTGTTCTGTAGTGGAGTTCCTACAGGGCTATATTGGCATCCCACATGGAGGTTTCCCTAAGCCATTTCATTCTAAAGTACTGTAGGTTGGTCAGGGTGGAAACAGACCTTAGGTCTTGACGTTTTC Alignment from Exonerate_protein2genome CACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG gtgcttgcctgacaagcctcttcctccagattctggccttgttctCACAGTCTTCCAAGATTGTGGGAGACCTAGCTCAGTTCATGGTGCAGAATGGGTCAAGCCGGACCGAGACAGAAGCTCAGGCAGAAGAGCTCTCCTTCCCCTGTTCTGTAGTGGAGTTCCTACAGGGCTATATTGGCATCCCACATGGAGGTTTCCCTAAGCCATTTCATTCTAAAgtactgtaggttggtcagggtggaaacagaccttaggtcttgacgttttc Alignment from Exonerate_coding2genome CACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG gtgcttgcctgacaagcctcttcctccagattctggccttgttctCACAGTCTTCCAAGATTGTGGGAGACCTAGCTCAGTTCATGGTGCAGAATGGGTCAAGCCGGACCGAGACAGAAGCTCAGGCAGAAGAGCTCTCCTTCCCCTGTTCTGTAGTGGAGTTCCTACAGGGCTATATTGGCATCCCACATGGAGGTTTCCCTAAGCCATTTCATTCTAAAgtactgtaggttggtcagggtggaaacagaccttaggtcttgacgttttc Alignment from GeneWise --------------------------------------------ACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG GTGCTTGCCTGACAAGCCTCTTCCTCCAGATTCTGGCCTTGTTCTCACAGTCTTCCAAGATTGTGGGAGACCTAGCTCAGTTCATGGTGCAGAATGGGTCAAGCCGGACCGAGACAGAAGCTCAGGCAGAAGAGCTCTCCTTCCCCTGTTCTGTAGTGGAGTTCCTACAGGGCTATATTGGCATCCCACATGGAGGTTTCCCTAAGCCATTTCATTCTAAAgtactgtaggttggtcagggtggaaacagaccttaggtcttgacgttttc #### Pcx_ID569_18 --> 0 - 0 Original Alignment ------------------GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtggaaacagaccttagttacttttcccctcttctcagCACCTTCTGGACTCCTTTGTGCTAAAGGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTAATTGATAGACACGGCGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCCATGTACCCATATGTTTTTACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgaggggcttctatatttgtgtctactcatccccagggcctccagtaat Alignment from CESAR ------------------GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtggaaacagaccttagttacttttcccctcttctcagCACCTTCTGGACTCCTTTGTGCTAAAGGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTAATTGATAGACACGGCGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCCATGTACCCATATGTTTTTACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgaggggcttctatatttgtgtctactcatccccagggcctccagtaat Alignment from Spaln_aa2Genome ------------------GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtggaaacagaccttagttacttttcccctcttctcagCACCTTCTGGACTCCTTTGTGCTAAAGGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTAATTGATAGACACGGCGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCCATGTACCCATATGTTTTTACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgaggggcttctatatttgtgtctactcatccccagggcctccagtaat Alignment from Spaln_nt2Genome AG GACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG AGgttggtcagggtggaaacagaccttagttacttttcccctcttctcagcaccttctggactcctttgtgctaaagGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTAATTGATAGACACGGCGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCCATGTACCCATATGTTTTTACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgaggggcttctatatttgtgtctactcatccccagggcctccagtaat Alignment from Pairagon --------------------------------------------------------------------GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG AGGTTGGTCAGGGTGGAAACAGACCTTAGTTACTTTTCCCCTCTTCTCAGCACCTTCTGGACTCCTTTGTGCTAAAGGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTAATTGATAGACACGGCGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCCATGTACCCATATGTTTTTACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgaggggcttctatatttgtgtctactcatccccagggcctccagtaat Alignment from Exonerate_protein2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtggaaacagaccttagttacttttcccctcttctcagcaccttctggactcctttGTGCTAAAGGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTAATTGATAGACACGGCGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCCATGTACCCATATGTTTTTACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgaggggcttctatatttgtgtctactcatccccagggcctccagtaat Alignment from Exonerate_coding2genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtggaaacagaccttagttacttttcccctcttctcagcaccttctggactcctttGTGCTAAAGGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTAATTGATAGACACGGCGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCCATGTACCCATATGTTTTTACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgaggggcttctatatttgtgtctactcatccccagggcctccagtaat Alignment from GeneWise ------------------GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggttggtcagggtggaaacagaccttagttacttttcccctcttctcagCACCTTCTGGACTCCTTTGTGCTAAAGGACCTGCCAAGAATTGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTAAACCTGAAGGAGTTGGATAAGGGCCTAATTGATAGACACGGCGAAGATGTTTCACAAGAGGAAGTGCTCTCTGCAGCCATGTACCCATATGTTTTTACACAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTAGATAGCCTAAATACTCGTCTGTTTCTTCAAGGACCCAAAATTGCAGAAGAATTTGAGgtgaggggcttctatatttgtgtctactcatccccagggcctccagtaat #### Pdcd11_ID10119_13 --> 0 - 0 Original Alignment GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG------------------ tcctgaagacctactgccgcaaggaggtcactttgacattcttctgaaagGTGGTAAAGGTGGCTGTGCTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCGGGTGTTGAAAGCAGTCAGAAAAAAACAGAAGCCGTGCGCATTGGTCAGGGAAATATTTCTCTGTCTgtggggacccaatgactttgactaatggtgacagcatttgagggggaagg Alignment from CESAR GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG------------------ tcctgaagacctactgccgcaaggaggtcactttgacattcttctgaaagGTGGTAAAGGTGGCTGTGCTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCGGGTGTTGAAAGCAGTCAGAAAAAAACAGAAGCCGTGCGCATTGGTCAGGGAAATATTTCTCTGTCTgtggggacccaatgactttgactaatggtgacagcatttgagggggaagg Alignment from Spaln_aa2Genome GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG------------------ tcctgaagacctactgccgcaaggaggtcactttgacattcttctgaaagGTGGTAAAGGTGGCTGTGCTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCGGGTGTTGAAAGCAGTCAGAAAAAAACAGAAGCCGTGCGCATTGGTCAGGGAAATATTTCTCTGTCTgtggggacccaatgactttgactaatggtgacagcatttgagggggaagg Alignment from Spaln_nt2Genome GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG-------------- tcctgaagacctactgccgcaaggaggtcactttgacattcttctgaaagGTGGTAAAGGTGGCTGTGCTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCGGGTGTTGAAAGCAGTCAGAAAAAAACAGAAGCCGTGCGCATTGGTCAGGGAAATATTTCTCTgtctgtggggacccaatgactttgactaatggtgacagcatttgagggggaagg Alignment from Pairagon GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG------------------ tcctgaagacctactgccgcaaggaggtcactttgacattcttctgaaagGTGGTAAAGGTGGCTGTGCTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCGGGTGTTGAAAGCAGTCAGAAAAAAACAGAAGCCGTGCGCATTGGTCAGGGAAATATTTCTCTGTCTgtggggacccaatgactttgactaatggtgacagcatttgagggggaagg Alignment from Exonerate_protein2genome GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG tcctgaagacctactgccgcaaggaggtcactttgacattcttctgaaagGTGGTAAAGGTGGCTGTGCTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCGGGTGTTGAAAGCAGTCAGAAAAAAACAGAAGCCGTGCGCATTGGTCAGggaaatatttctctgtctgtggggacccaatgactttgactaatggtgacagcatttgagggggaagg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG------------------ tcctgaagacctactgccgcaaggaggtcactttgacattcttctgaaagGTGGTAAAGGTGGCTGTGCTGAGCTGTGAGCCTTCCAAGGAAAAAATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACAGCCAAAAGATCCGGGTGTTGAAAGCAGTCAGAAAAAAACAGAAGCCGTGCGCATTGGTCAGGGAAATATTTCTCTGTCTgtggggacccaatgactttgactaatggtgacagcatttgagggggaagg #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment c---GTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggttgcccagacaccttctcccccatcccttctgtctgttatgttggcagcCTGATCAATCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCCAGATGTTTCCTCTCCTGCCCCAGAACCAAAACAAGAGGAAGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaggcagtatgtattgcctcatctcactcaggagacatgggaca Alignment from CESAR c---GTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggttgcccagacaccttctcccccatcccttctgtctgttatgttggcagcCTGATCAATCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCCAGATGTTTCCTCTCCTGCCCCAGAACCAAAACAAGAGGAAGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaggcagtatgtattgcctcatctcactcaggagacatgggaca Alignment from Spaln_aa2Genome GCGCGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggttgcccagacaccttctcccccatcccttctgtctgttatgttggcagCCTGATCAATCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCCAGATGTTTCCTCTCCTGCCCCAGAACCAAAACAAGAGGAAGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaggcagtatgtattgcctcatctcactcaggagacatgggaca Alignment from Spaln_nt2Genome CGTGAAC---CCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggttgcccagacaccttctcccccatcccttctgtctgttatgttggcagCCTGATCAATCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCCAGATGTTTCCTCTCCTGCCCCAGAACCAAAACAAGAGGAAGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaggcagtatgtattgcctcatctcactcaggagacatgggaca Alignment from Pairagon CGTG---AACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggttgcccagacaccttctcccccatcccttctgtctgttatgttggcagCCTGATCAATCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCCAGATGTTTCCTCTCCTGCCCCAGAACCAAAACAAGAGGAAGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaggcagtatgtattgcctcatctcactcaggagacatgggaca Alignment from Exonerate_protein2genome C---GTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggttgcccagacaccttctcccccatcccttctgtctgttatgttggcagCCTGATCAATCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCCAGATGTTTCCTCTCCTGCCCCAGAACCAAAACAAGAGGAAGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaggcagtatgtattgcctcatctcactcaggagacatgggaca Alignment from Exonerate_coding2genome C---GTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggttgcccagacaccttctcccccatcccttctgtctgttatgttggcagCCTGATCAATCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCCAGATGTTTCCTCTCCTGCCCCAGAACCAAAACAAGAGGAAGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaggcagtatgtattgcctcatctcactcaggagacatgggaca Alignment from GeneWise -CGCGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG ggttgcccagacaccttctcccccatcccttctgtctgttatgttggcagCCTGATCAATCCCATGAAGAACCTGATAGAGTTGTCCCTCCTTCCAAGTGACACTGGGAGGCCAGATGTTTCCTCTCCTGCCCCAGAACCAAAACAAGAGGAAGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAATCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGTAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaggcagtatgtattgcctcatctcactcaggagacatgggaca #### Pdcd11_ID10140_34 --> 2 - 2 Original Alignment atGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTC---ag tctaatcagccactcttggggtcttgccctctgtttcctcctgagtgaagatGTGGATGTGATTGTTAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCATGGCAGCCATACAGCAGTCGAAaggtatgtgcaacaacagggataattgcaacagagcaaggggtaggaggtga Alignment from CESAR atGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTC---ag tctaatcagccactcttggggtcttgccctctgtttcctcctgagtgaagatGTGGATGTGATTGTTAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCATGGCAGCCATACAGCAGTCGAAaggtatgtgcaacaacagggataattgcaacagagcaaggggtaggaggtga Alignment from Spaln_aa2Genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAGGGA tctaatcagccactcttggggtcttgccctctgtttcctcctgagtgaagATGTGGATGTGATTGTTAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCATGGCAGCCATACAGCAGTCGAAAGgtatgtgcaacaacagggataattgcaacagagcaaggggtaggaggtga Alignment from Spaln_nt2Genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTC---AG tctaatcagccactcttggggtcttgccctctgtttcctcctgagtgaagATGTGGATGTGATTGTTAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCATGGCAGCCATACAGCAGTCGAAAGgtatgtgcaacaacagggataattgcaacagagcaaggggtaggaggtga Alignment from Pairagon ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTC---AG tctaatcagccactcttggggtcttgccctctgtttcctcctgagtgaagATGTGGATGTGATTGTTAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCATGGCAGCCATACAGCAGTCGAAAGgtatgtgcaacaacagggataattgcaacagagcaaggggtaggaggtga Alignment from Exonerate_protein2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAGGGA tctaatcagccactcttggggtcttgccctctgtttcctcctgagtgaagATGTGGATGTGATTGTTAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCATGGCAGCCATACAGCAGTCGAAAGgtatgtgcaacaacagggataattgcaacagagcaaggggtaggaggtga Alignment from Exonerate_coding2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAGGGA tctaatcagccactcttggggtcttgccctctgtttcctcctgagtgaagATGTGGATGTGATTGTTAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCATGGCAGCCATACAGCAGTCGAAAGgtatgtgcaacaacagggataattgcaacagagcaaggggtaggaggtga Alignment from GeneWise ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAGGGA tctaatcagccactcttggggtcttgccctctgtttcctcctgagtgaagATGTGGATGTGATTGTTAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGAAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGTGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCATGGCAGCCATACAGCAGTCGAAAGgtatgtgcaacaacagggataattgcaacagagcaaggggtaggaggtga #### Pdcd4_ID11402_9 --> 0 - 0 Original Alignment GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gagttgtttaccataggttgattcagcgtaaacatttttaaaatatacag---ATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAGTCTCTATGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtatgtgttattcactagggagggatagtcttattattaattaagatgtg Alignment from CESAR GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gatgagttgtttaccataggttgatgcgtaaacatttttaaaatatacag---ATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAGTCTCTATGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtatgtgttattcactagggagggatagtcttattattaattaagatgtg Alignment from Spaln_aa2Genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gagttgtttaccataggttgattcagcgtaaacatttttaaaatatacag---ATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAGTCTCTATGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtatgtgttattcactagggagggatagtcttattattaattaagatgtg Alignment from Spaln_nt2Genome ATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gagttgtttaccataggttgattcagcgtaaacatttttaaaatatacagATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAGTCTCTATGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtatgtgttattcactagggagggatagtcttattattaattaagatgtg Alignment from Pairagon GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gagttgtttaccataggttgattcagcgtaaacatttttaaaatatacag---ATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAGTCTCTATGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtatgtgttattcactagggagggatagtcttattattaattaagatgtg Alignment from Exonerate_protein2genome ATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gagttgtttaccataggttgattcagcgtaaacatttttaaaatatacagATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAGTCTCTATGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtatgtgttattcactagggagggatagtcttattattaattaagatgtg Alignment from Exonerate_coding2genome ATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gagttgtttaccataggttgattcagcgtaaacatttttaaaatatacagATTGTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAGTCTCTATGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtatgtgttattcactagggagggatagtcttattattaattaagatgtg Alignment from GeneWise GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA gagttgtttaccataggttgattcagcgtaaacatttttaaaatatacagATT---GTGATGGTGTTAGAGTCAACTGGGGAGAGTGCATTTAAGATGATCTTAGATTTATTTAAGTCTCTATGGAAGTCTTCTACAATTACTATAGACCAAATGAAACGAgtatgtgttattcactagggagggatagtcttattattaattaagatgtg #### Peo1_ID9266_3 --> 1 - 2 Original Alignment gTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGAC---------------------------------------------------ag ttcttcaattgagtcccaatagtacgagcttgttgttattcttcctacaggTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGACATCTGTCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTTTCCTCGGACGACTTTGGGAGGTCAGGCGATCTGACGGCACAACCCATCTCAGACGCAGGGaggtgagttgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from CESAR gTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGAC---------ag ttcttcaattgagtcccaatagtacgagcttgttgttattcttcctacaggTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGACATCTGTCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTTTCCTCGGACGACTTTGGGaggtcaggcgatctgacggcacaacccatctcagacgcagggaggtgagttgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Spaln_aa2Genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAGG-------- ttcttcaattgagtcccaatagtacgagcttgttgttattcttcctacagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGACATCTGTCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTTTCCTCGGACGACTTTGGGAGgtcaggcgatctgacggcacaacccatctcagacgcagggaggtgagttgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Spaln_nt2Genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGAC---------AG ttcttcaattgagtcccaatagtacgagcttgttgttattcttcctacagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGACATCTGTCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTTTCCTCGGACGACTTTGGGAGgtcaggcgatctgacggcacaacccatctcagacgcagggaggtgagttgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Pairagon GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGAC---------------------------------------------------AG ttcttcaattgagtcccaatagtacgagcttgttgttattcttcctacagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGACATCTGTCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTTTCCTCGGACGACTTTGGGAGGTCAGGCGATCTGACGGCACAACCCATCTCAGACGCAGGGAGgtgagttgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Exonerate_protein2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG ttcttcaattgagtcccaatagtacgagcttgttgttattcttcctacagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGACATCTGTCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTTTCCTCGGACGActttgggaggtcaggcgatctgacggcacaacccatctcagacgcagggaggtgagttgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from Exonerate_coding2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG ttcttcaattgagtcccaatagtacgagcttgttgttattcttcctacagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGACATCTGTCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTTTCCTCGGACGActttgggaggtcaggcgatctgacggcacaacccatctcagacgcagggaggtgagttgatgaattcatgggtctgactgacagatgttggctcactttaa Alignment from GeneWise GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGAC---------AG ttcttcaattgagtcccaatagtacgagcttgttgttattcttcctacagGTCTGTCATAGACACAATGCAACATGCAGTATATGTCTATGACATCTGTCATGTAGTCATTGACAACTTGCAATTCATGATGGGTCATGAGCAGCTTTCCTCGGACGACTTTGGGAGgtcaggcgatctgacggcacaacccatctcagacgcagggaggtgagttgatgaattcatgggtctgactgacagatgttggctcactttaa #### Pitpnm1_ID313_10 --> 1 - 0 Original Alignment c---CTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggagtgttagacctgatatgttttacctaccgaccattggtcacctgcagtATGCTGAGTCCTTACAGCCATGATGGGGACCGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcccaaaagttagtcaatacctatgctgcagc Alignment from CESAR c---CTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggagtgttagacctgatatgttttacctaccgaccattggtcacctgcagtATGCTGAGTCCTTACAGCCATGATGGGGACCGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcccaaaagttagtcaatacctatgctgcagc Alignment from Spaln_aa2Genome C----CTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggagtgttagacctgatatgttttacctaccgaccattggtcacctgcagTATGCTGAGTCCTTACAGCCATGATGGGGACCGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcccaaaagttagtcaatacctatgctgcagc Alignment from Spaln_nt2Genome CCTGAGCCCCTACA---GCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggagtgttagacctgatatgttttacctaccgaccattggtcacctgcagTATGCTGAGTCCTTACAGCCATGATGGGGACCGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcccaaaagttagtcaatacctatgctgcagc Alignment from Pairagon ---CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggagtgttagacctgatatgttttacctaccgaccattggtcacctgcagTATGCTGAGTCCTTACAGCCATGATGGGGACCGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcccaaaagttagtcaatacctatgctgcagc Alignment from Exonerate_protein2genome C---CTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggagtgttagacctgatatgttttacctaccgaccattggtcacctgcagTATGCTGAGTCCTTACAGCCATGATGGGGACCGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcccaaaagttagtcaatacctatgctgcagc Alignment from Exonerate_coding2genome C---CTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggagtgttagacctgatatgttttacctaccgaccattggtcacctgcagTATGCTGAGTCCTTACAGCCATGATGGGGACCGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcccaaaagttagtcaatacctatgctgcagc Alignment from GeneWise -AACCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ggagtgttagacctgatatgttttacctaccgaccattggtcacctgcagTATGCTGAGTCCTTACAGCCATGATGGGGACCGTCTATCCCGTTCCCAAGACCACATTCCATTGGCTACCCTGCCTCTCCTGGCCACCTTATCCTCTCAATACCAGGGTGCAGTGGCCACTGTCATTGCTCACACCAACCAGGCCTTTGCAGCCTTCCTGCGTTCATCAGAGGGCACTGGTTTCTGTGGACAAgtaggtggctgactgtgttcccaaaagttagtcaatacctatgctgcagc #### Pitpnm1_ID314_11 --> 0 - 0 Original Alignment GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tccatacaggtaaaaaaaccaccatattcggagcctcctgtttgtctcagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATCCTTGGCTTTGATGCTCTCTGCCACAGTGCAAGCGCAGGCCCAGGGAGCCAGGGCAGCAGCCGCCGTGGGAGC---gtgagtggcgtccggcccagggagccagggcagcaaccaccatgccagca Alignment from CESAR GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tccatacaggtaaaaaaaccaccatattcggagcctcctgtttgtctcagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATCCTTGGCTTTGATGCTCTCTGCCACAGTGCAAGCGCAGGCCCAGGGAGCCAGGGCAGCAGCCGCCGTGGGAGC---gtgagtggcgtccggcccagggagccagggcagcaaccaccatgcca Alignment from Spaln_aa2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGC tccatacaggtaaaaaaaccaccatattcggagcctcctgtttgtctcagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATCCTTGGCTTTGATGCTCTCTGCCACAGTGCAAGCGCAGGCCCAGGGAGCCAGGGCAGCAGCCGCCGTGGGAGCgtgagtggcgtccggcccagggagccagggcagcaaccaccatgccagca Alignment from Spaln_nt2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGC tccatacaggtaaaaaaaccaccatattcggagcctcctgtttgtctcagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATCCTTGGCTTTGATGCTCTCTGCCACAGTGCAAGCGCAGGCCCAGGGAGCCAGGGCAGCAGCCGCCGTGGGAGCgtgagtggcgtccggcccagggagccagggcagcaaccaccatgccagca Alignment from Pairagon GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGC tccatacaggtaaaaaaaccaccatattcggagcctcctgtttgtctcagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATCCTTGGCTTTGATGCTCTCTGCCACAGTGCAAGCGCAGGCCCAGGGAGCCAGGGCAGCAGCCGCCGTGGGAGCgtgagtggcgtccggcccagggagccagggcagcaaccaccatgccagca Alignment from Exonerate_protein2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGC tccatacaggtaaaaaaaccaccatattcggagcctcctgtttgtctcagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATCCTTGGCTTTGATGCTCTCTGCCACAGTGCAAGCGCAGGCCCAGGGAGCCAGGGCAGCAGCCGCCGTGGGAGCgtgagtggcgtccggcccagggagccagggcagcaaccaccatgccagca Alignment from Exonerate_coding2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGC tccatacaggtaaaaaaaccaccatattcggagcctcctgtttgtctcagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATCCTTGGCTTTGATGCTCTCTGCCACAGTGCAAGCGCAGGCCCAGGGAGCCAGGGCAGCAGCCGCCGTGGGAGCgtgagtggcgtccggcccagggagccagggcagcaaccaccatgccagca Alignment from GeneWise GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATGAACAAT tccatacaggtaaaaaaaccaccatattcggagcctcctgtttgtctcagGTGGTCTTAATTGGAGATGGGGTTGGTGGCATCCTTGGCTTTGATGCTCTCTGCCACAGTGCAAGCGCAGGCCCAGGGAGCCAGGGCAGCAGCCGCCGTGGGAGCGTGAGTGGCgtccggcccagggagccagggcagcaaccaccatgccagca #### Pitpnm1_ID324_21 --> 1 - 0 Original Alignment gCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG--------- tgcgacttgtcttctgtgtggataggagaaatacacaatctttcttacaggCACTGGCAGGACTCTGACTACTTGATTGTCTATGCAACTGGTCGGCCAGATATGCAAAAACACCGTGTTGTGGCCTGGTTATCACAACATACCTTCCCCCATGGAGTTGATTCGTTCTGTGATGTCCTTATGCATGACCCATTGCGCCAGAAAGCCATGTTTTTGCAGAGCCTGGTCCAGGAGCGTGAGTACgtgagctgacttgggcagggcctgtcctgcttgggtctaacctagtttga Alignment from CESAR gCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG--------- tgcgacttgtcttctgtgtggataggagaaatacacaatctttcttacaggCACTGGCAGGACTCTGACTACTTGATTGTCTATGCAACTGGTCGGCCAGATATGCAAAAACACCGTGTTGTGGCCTGGTTATCACAACATACCTTCCCCCATGGAGTTGATTCGTTCTGTGATGTCCTTATGCATGACCCATTGCGCCAGAAAGCCATGTTTTTGCAGAGCCTGGTCCAGGAGCGTGAGTACgtgagctgacttgggcagggcctgtcctgcttgggtctaacctagtttga Alignment from Spaln_aa2Genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG--------- tgcgacttgtcttctgtgtggataggagaaatacacaatctttcttacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGCAACTGGTCGGCCAGATATGCAAAAACACCGTGTTGTGGCCTGGTTATCACAACATACCTTCCCCCATGGAGTTGATTCGTTCTGTGATGTCCTTATGCATGACCCATTGCGCCAGAAAGCCATGTTTTTGCAGAGCCTGGTCCAGGAGCGTGAGTACgtgagctgacttgggcagggcctgtcctgcttgggtctaacctagtttga Alignment from Spaln_nt2Genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG- tgcgacttgtcttctgtgtggataggagaaatacacaatctttcttacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGCAACTGGTCGGCCAGATATGCAAAAACACCGTGTTGTGGCCTGGTTATCACAACATACCTTCCCCCATGGAGTTGATTCGTTCTGTGATGTCCTTATGCATGACCCATTGCGCCAGAAAGCCATGTTTTTGCAGAGCCTGGTCCAGGAGCgtgagtacgtgagctgacttgggcagggcctgtcctgcttgggtctaacctagtttga Alignment from Pairagon GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG- tgcgacttgtcttctgtgtggataggagaaatacacaatctttcttacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGCAACTGGTCGGCCAGATATGCAAAAACACCGTGTTGTGGCCTGGTTATCACAACATACCTTCCCCCATGGAGTTGATTCGTTCTGTGATGTCCTTATGCATGACCCATTGCGCCAGAAAGCCATGTTTTTGCAGAGCCTGGTCCAGGAGCgtgagtacgtgagctgacttgggcagggcctgtcctgcttgggtctaacctagtttga Alignment from Exonerate_protein2genome tgcgacttgtcttctgtgtggataggagaaatacacaatctttcttacaggcactggcaggactctgactacttgattgtctatgcaactggtcggccagatatgcaaaaacaccgtgttgtggcctggttatcacaacataccttcccccatggagttgattcgttctgtgatgtccttatgcatgacccattgcgccagaaagccatgtttttgcagagcctggtccaggagcgtgagtacgtgagctgacttgggcagggcctgtcctgcttgggtctaacctagtttga Alignment from Exonerate_coding2genome tgcgacttgtcttctgtgtggataggagaaatacacaatctttcttacaggcactggcaggactctgactacttgattgtctatgcaactggtcggccagatatgcaaaaacaccgtgttgtggcctggttatcacaacataccttcccccatggagttgattcgttctgtgatgtccttatgcatgacccattgcgccagaaagccatgtttttgcagagcctggtccaggagcgtgagtacgtgagctgacttgggcagggcctgtcctgcttgggtctaacctagtttga Alignment from GeneWise GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG--------- tgcgacttgtcttctgtgtggataggagaaatacacaatctttcttacagGCACTGGCAGGACTCTGACTACTTGATTGTCTATGCAACTGGTCGGCCAGATATGCAAAAACACCGTGTTGTGGCCTGGTTATCACAACATACCTTCCCCCATGGAGTTGATTCGTTCTGTGATGTCCTTATGCATGACCCATTGCGCCAGAAAGCCATGTTTTTGCAGAGCCTGGTCCAGGAGCGTGAGTACgtgagctgacttgggcagggcctgtcctgcttgggtctaacctagtttga #### Pkd2l1_ID8958_10 --> 0 - 0 Original Alignment AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG------------------------ gaagaatggagagcttcagagactgctgtatttctgctttctcatcttagAATATGTTCCTGGCCATTATCAATGACACATACTCTGAAGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTCTGCCTGGATCCACTGGGTACAgtatgagccctaagctctgcatagccaccatacagtatcctcagttttgg Alignment from CESAR AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG------------------------ gaagaatggagagcttcagagactgctgtatttctgctttctcatcttagAATATGTTCCTGGCCATTATCAATGACACATACTCTGAAGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTCTGCCTGGATCCACTGGGTACAgtatgagccctaagctctgcatagccaccatacagtatcctcagttttgg Alignment from Spaln_aa2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACA gaagaatggagagcttcagagactgctgtatttctgctttctcatcttagAATATGTTCCTGGCCATTATCAATGACACATACTCTGAAGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAgctctgcctggatccactgggtacagtatgagccctaagctctgcatagccaccatacagtatcctcagttttgg Alignment from Spaln_nt2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACA gaagaatggagagcttcagagactgctgtatttctgctttctcatcttagAATATGTTCCTGGCCATTATCAATGACACATACTCTGAAGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAgctctgcctggatccactgggtacagtatgagccctaagctctgcatagccaccatacagtatcctcagttttgg Alignment from Pairagon AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG------------------------ gaagaatggagagcttcagagactgctgtatttctgctttctcatcttagAATATGTTCCTGGCCATTATCAATGACACATACTCTGAAGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTCTGCCTGGATCCACTGGGTACAgtatgagccctaagctctgcatagccaccatacagtatcctcagttttgg Alignment from Exonerate_protein2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gaagaatggagagcttcagagactgctgtatttctgctttctcatcttagAATATGTTCCTGGCCATTATCAATGACACATACTCTGAAGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGctctgcctggatccactgggtacagtatgagccctaagctctgcatagccaccatacagtatcctcagttttgg Alignment from Exonerate_coding2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gaagaatggagagcttcagagactgctgtatttctgctttctcatcttagAATATGTTCCTGGCCATTATCAATGACACATACTCTGAAGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGctctgcctggatccactgggtacagtatgagccctaagctctgcatagccaccatacagtatcctcagttttgg Alignment from GeneWise AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG------------------------ gaagaatggagagcttcagagactgctgtatttctgctttctcatcttagAATATGTTCCTGGCCATTATCAATGACACATACTCTGAAGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTCTGCCTGGATCCACTGGGTACAgtatgagccctaagctctgcatagccaccatacagtatcctcagttttgg #### Plcb3_ID1902_29 --> 1 - 0 Original Alignment g---GAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gtcagtgggtgcagggaaatagtttagcgtcttctcttccctctatgcaggTACGAATTGACAGAGATTAATCGGCAACACATCACTGAGTCTGTAAACTCCAACAGACGGgtgagtgggtcttatctctctgtcaccaacaggagctatcctttactgtt Alignment from CESAR g---GAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gtcagtgggtgcagggaaatagtttagcgtcttctcttccctctatgcaggTACGAATTGACAGAGATTAATCGGCAACACATCACTGAGTCTGTAAACTCCAACAGACGGgtgagtgggtcttatctctctgtcaccaacaggagctatcctttactgtt Alignment from Spaln_aa2Genome GGAACTGACAGAG---ATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gtcagtgggtgcagggaaatagtttagcgtcttctcttccctctatgcagGTACGAATTGACAGAGATTAATCGGCAACACATCACTGAGTCTGTAAACTCCAACAGACGGgtgagtgggtcttatctctctgtcaccaacaggagctatcctttactgtt Alignment from Spaln_nt2Genome GGAACTGACAGA---GATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gtcagtgggtgcagggaaatagtttagcgtcttctcttccctctatgcagGTACGAATTGACAGAGATTAATCGGCAACACATCACTGAGTCTGTAAACTCCAACAGACGGgtgagtgggtcttatctctctgtcaccaacaggagctatcctttactgtt Alignment from Pairagon ------------------------------------------------------GAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG GTCAGTGGGTGCAGGGAAATAGTTTAGCGTCTTCTCTTCCCTCTATGCAGGTACGAATTGACAGAGATTAATCGGCAACACATCACTGAGTCTGTAAACTCCAACAGACGGgtgagtgggtcttatctctctgtcaccaacaggagctatcctttactgtt Alignment from Exonerate_protein2genome G---GAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gtcagtgggtgcagggaaatagtttagcgtcttctcttccctctatgcagGTACGAATTGACAGAGATTAATCGGCAACACATCACTGAGTCTGTAAACTCCAACAGACGGgtgagtgggtcttatctctctgtcaccaacaggagctatcctttactgtt Alignment from Exonerate_coding2genome G---GAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gtcagtgggtgcagggaaatagtttagcgtcttctcttccctctatgcagGTACGAATTGACAGAGATTAATCGGCAACACATCACTGAGTCTGTAAACTCCAACAGACGGgtgagtgggtcttatctctctgtcaccaacaggagctatcctttactgtt Alignment from GeneWise -GTGGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gtcagtgggtgcagggaaatagtttagcgtcttctcttccctctatgcagGTACGAATTGACAGAGATTAATCGGCAACACATCACTGAGTCTGTAAACTCCAACAGACGGgtgagtgggtcttatctctctgtcaccaacaggagctatcctttactgtt #### Plcb3_ID1904_27 --> 0 - 2 Original Alignment GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag gatatagagatcatcactcgaatcgagcctgtgtttcatcttgcctacag---------------------------CTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAaggtacctacagatagaaagtcagtaggaccccctttacccaatgtctgagt Alignment from CESAR GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag gcgaacacaacagccccatactgcgagcctgtgtttcatcttgcctacag---------------------------CTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAaggtacctacagatagaaagtcagtaggaccccctttacccaatgtctgagt Alignment from Spaln_aa2Genome AGCGGCTCAAGGAGGTTGTC---CTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gatatagagatcatcactcgaatcgagCCTGTGTTTCATCTTGCCTACAGCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtacctacagatagaaagtcagtaggaccccctttacccaatgtctgagt Alignment from Spaln_nt2Genome CCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gatatagagatcatcactcgaatcgagcctgtgtttcatcttgcctacag-CTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtacctacagatagaaagtcagtaggaccccctttacccaatgtctgagt Alignment from Pairagon GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gatatagagatcatcactcgaatcgagcctgtgtttcatcttgcctacag---------------------------CTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtacctacagatagaaagtcagtaggaccccctttacccaatgtctgagt Alignment from Exonerate_protein2genome GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gatatagagatcatcactcgaatCGAGCCTGTGTTTCATCTTGCCTACAGCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtacctacagatagaaagtcagtaggaccccctttacccaatgtctgagt Alignment from Exonerate_coding2genome GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gatatagagatcatcactcgaatCGAGCCTGTGTTTCATCTTGCCTACAGCTGGATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtacctacagatagaaagtcagtaggaccccctttacccaatgtctgagt Alignment from GeneWise GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gatatagagatcatcactcgaatcgagcctgtgtttcatcttgcctacagCTG---------------------------GATACACACACAACCCAATTCAAGAGGCTAAGGGAACTGAAAGAAAGgtacctacagatagaaagtcagtaggaccccctttacccaatgtctgagt #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG caagttgtggcattcagagagtatcttttttaacattgcattttctatagg------GCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGGGAAGCCCAGGGTGATGTGGAAACCAAACGCAAGCTGGAACATCTACGACAGgtaagagataggtgtggggcatgtgacattgaaggcaaggactgacatcc Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG ttgtgacaagttgtggcattcagagttttttaacattgcattttctatagg------GCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGGGAAGCCCAGGGTGATGTGGAAACCAAACGCAAGCTGGAACATCTACGACAGgtaagagataggtgtggggcatgtgacattgaaggcaaggactgacatcc Alignment from Spaln_aa2Genome -GCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG caagttgtggcattcagagagtatcttttttaacattgcattttctatagGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGGGAAGCCCAGGGTGATGTGGAAACCAAACGCAAGCTGGAACATCTACGACAGgtaagagataggtgtggggcatgtgacattgaaggcaaggactgacatcc Alignment from Spaln_nt2Genome GGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG caagttgtggcattcagagagtatcttttttaacattgcattttctatagGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGGGAAGCCCAGGGTGATGTGGAAACCAAACGCAAGCTGGAACATCTACGACAGgtaagagataggtgtggggcatgtgacattgaaggcaaggactgacatcc Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG caagttgtggcattcagagagtatcttttttaacattgcattttctatag------GGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGGGAAGCCCAGGGTGATGTGGAAACCAAACGCAAGCTGGAACATCTACGACAGgtaagagataggtgtggggcatgtgacattgaaggcaaggactgacatcc Alignment from Exonerate_protein2genome AAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG caagttgtggcattcagagagtatcttttttaacattgcattttctatAGGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGGGAAGCCCAGGGTGATGTGGAAACCAAACGCAAGCTGGAACATCTACGACAGgtaagagataggtgtggggcatgtgacattgaaggcaaggactgacatcc Alignment from Exonerate_coding2genome AAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG caagttgtggcattcagagagtatcttttttaacattgcattttctatAGGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGGGAAGCCCAGGGTGATGTGGAAACCAAACGCAAGCTGGAACATCTACGACAGgtaagagataggtgtggggcatgtgacattgaaggcaaggactgacatcc Alignment from GeneWise GGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG caagttgtggcattcagagagtatcttttttaacattgcattttctatagGGCCTCCAACTCAGAGGATGTGAAGGATGAAGAAGAAGCCAAGCAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCTTGTTGGAGCTGAGGGAAGCCCAGGGTGATGTGGAAACCAAACGCAAGCTGGAACATCTACGACAGgtaagagataggtgtggggcatgtgacattgaaggcaaggactgacatcc #### Plcb3_ID1906_25 --> 2 - 2 Original Alignment agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC------ct ggcccccctcaacagccacaccaatttgaatgtacaactttttcccacagaaGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTGTAGCCCTCACACGCCGTCTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCCCCCAGTGCCGCACTGctgtatatgtacttcaacgtgctgtaacttggcagtgtgtacttactggcat Alignment from CESAR agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC------ct ggcccccctcaacagccacaccaatttgaatgtacaactttttcccacagaaGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTGTAGCCCTCACACGCCGTCTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCCCCCAGTGCCGCACTGctgtatatgtacttcaacgtgctgtaacttggcagtgtgtacttactggcat Alignment from Spaln_aa2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGT---GCCCT ggcccccctcaacagccacaccaatttgaatgtacaactttttcccacagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTGTAGCCCTCACACGCCGTCTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCCCCCAGTGCCGCACTgctgtatatgtacttcaacgtgctgtaacttggcagtgtgtacttactggcat Alignment from Spaln_nt2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC ggcccccctcaacagccacaccaatttgaatgtacaactttttcccacagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTGTAGCCCTCACACGCCGTCTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCCCCCAGTGCCgcactgctgtatatgtacttcaacgtgctgtaacttggcagtgtgtacttactggcat Alignment from Pairagon AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC------CT ggcccccctcaacagccacaccaatttgaatgtacaactttttcccacagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTGTAGCCCTCACACGCCGTCTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCCCCCAGTGCCGCACTGCTgtatatgtacttcaacgtgctgtaacttggcagtgtgtacttactggcat Alignment from Exonerate_protein2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC ggcccccctcaacagccacaccaatttgaatgtacaactttttcccacagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTGTAGCCCTCACACGCCGTCTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCCCCCAGTGCCgcactgctgtatatgtacttcaacgtgctgtaacttggcagtgtgtacttactggcat Alignment from Exonerate_coding2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC ggcccccctcaacagccacaccaatttgaatgtacaactttttcccacagAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTGTAGCCCTCACACGCCGTCTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCCCCCAGTGCCgcactgctgtatatgtacttcaacgtgctgtaacttggcagtgtgtacttactggcat Alignment from GeneWise -------------TTGATTGCCAGCATCCTCTCTGAGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC---CTG-- ggcccccctcaacagCCACACCAATTTGAATGTACAACTTTTTCCCACAGAAGTAATCCCCACACCTCTAGAAGAGCTCAGAAGTCACAAGGCCATGGTGAAACTTCGCAGCCGACAGGACCAAGACTTACGGGAATTACATAAGAAGCACCAACGTAAGGCTGTAGCCCTCACACGCCGTCTGCTGGATGGCCTAGCCCAGACAAGAGCTGAGGGGAAGTGCCGGCCATCCCCCAGTGCCGCACTGCTgtatatgtacttcaacgtgctgtaacttggcagtgtgtacttactggcat #### Plcb3_ID1910_21 --> 2 - 1 Original Alignment gaTACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg ctgcactaaagcaattacaaagttgtgttgtctttgtttcttccctccaggaTACCACTATGTTTGCTTGCGAAATGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCCGACTACATCCCAGAT---------ggtaagagagttatgagacatgaccaccagggtgggggacaaggtaaaggt Alignment from CESAR gaTACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGAT---------------------GACCACCAGg ctgcactaaagcaattacaaagttgtgttgtctttgtttcttccctccaggaTACCACTATGTTTGCTTGCGAAATGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGGTAAGAGAGTTATGAGACATGACCACCAGggtgggggacaaggtaaaggt Alignment from Spaln_aa2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGAT---------------------GACCACCAGG ctgcactaaagcaattacaaagttgtgttgtctttgtttcttccctccagGATACCACTATGTTTGCTTGCGAAATGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGGTAAGAGAGTTATGAGACATGACCACCAGGgtgggggacaaggtaaaggt Alignment from Spaln_nt2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATG ctgcactaaagcaattacaaagttgtgttgtctttgtttcttccctccagGATACCACTATGTTTGCTTGCGAAATGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGgtaagagagttatgagacatgaccaccagggtgggggacaaggtaaaggt Alignment from Pairagon GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAG---------------------ATGACCACCAGG ctgcactaaagcaattacaaagttgtgttgtctttgtttcttccctccagGATACCACTATGTTTGCTTGCGAAATGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGGTAAGAGAGTTATGAGACATGACCACCAGGgtgggggacaaggtaaaggt Alignment from Exonerate_protein2genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG ctgcactaaagcaattacaaagttgtgttgtctttgtttcttccctccagGATACCACTATGTTTGCTTGCGAAATGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGGTAAGAGAGttatgagacatgaccaccagggtgggggacaaggtaaaggt Alignment from Exonerate_coding2genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG ctgcactaaagcaattacaaagttgtgttgtctttgtttcttccctccagGATACCACTATGTTTGCTTGCGAAATGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGGTAAGAGAGttatgagacatgaccaccagggtgggggacaaggtaaaggt Alignment from GeneWise GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGAT---------------------GACCACCAGG ctgcactaaagcaattacaaagttgtgttgtctttgtttcttccctccagGATACCACTATGTTTGCTTGCGAAATGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCCGACTACATCCCAGATGGTAAGAGAGTTATGAGACATGACCACCAGGgtgggggacaaggtaaaggt #### Plcb3_ID1911_20 --> 0 - 1 Original Alignment GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAg cagtcttgtcctatgcatagtcttgtacagtcctaatatttttcctgcag---GTACTACCCACAGTGGCCTCACTCCGCATTGCAGTCTTTGAGAAAGGTGGCAAGTTTGTTGGGCACCGAACCCTACCTGTATCTGCAATCCACTCAggtaagcctgggggctctgcactaaagcaattacaaagttgtgtgcctctt Alignment from CESAR GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAg gctcagtcttgtcctatgcatagtctacagtcctaatatttttcctgcag---GTACTACCCACAGTGGCCTCACTCCGCATTGCAGTCTTTGAGAAAGGTGGCAAGTTTGTTGGGCACCGAACCCTACCTGTATCTGCAATCCACTCAggtaagcctgggggctctgcactaaagcaattacaaagttgtgttgtcttt Alignment from Spaln_aa2Genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG cagtcttgtcctatgcatagtcttgtacagtcctaatatttttcctgcagGTACTACCCACAGTGGCCTCACTC---CGCATTGCAGTCTTTGAGAAAGGTGGCAAGTTTGTTGGGCACCGAACCCTACCTGTATCTGCAATCCACTCAGgtaagcctgggggctctgcactaaagcaattacaaagttgtgtgcctctt Alignment from Spaln_nt2Genome GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG cagtcttgtcctatgcatagtcttgtacagtcctaatatttttcctgcag---GTACTACCCACAGTGGCCTCACTCCGCATTGCAGTCTTTGAGAAAGGTGGCAAGTTTGTTGGGCACCGAACCCTACCTGTATCTGCAATCCACTCAGgtaagcctgggggctctgcactaaagcaattacaaagttgtgtgcctctt Alignment from Pairagon GTTGTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG cagtcttgtcctatgcatagtcttgtacagtcctaatatttttcctgcag---GTACTACCCACAGTGGCCTCACTCCGCATTGCAGTCTTTGAGAAAGGTGGCAAGTTTGTTGGGCACCGAACCCTACCTGTATCTGCAATCCACTCAGgtaagcctgggggctctgcactaaagcaattacaaagttgtgtgcctctt Alignment from Exonerate_protein2genome GTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG cagtcttgtcctatgcatagtcttgtacagtcctaatatttttcctgcagGTACTACCCACAGTGGCCTCACTCCGCATTGCAGTCTTTGAGAAAGGTGGCAAGTTTGTTGGGCACCGAACCCTACCTGTATCTGCAATCCACTCAGgtaagcctgggggctctgcactaaagcaattacaaagttgtgtgcctctt Alignment from Exonerate_coding2genome GTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG cagtcttgtcctatgcatagtcttgtacagtcctaatatttttcctgcagGTACTACCCACAGTGGCCTCACTCCGCATTGCAGTCTTTGAGAAAGGTGGCAAGTTTGTTGGGCACCGAACCCTACCTGTATCTGCAATCCACTCAGgtaagcctgggggctctgcactaaagcaattacaaagttgtgtgcctctt Alignment from GeneWise GTGCTGCCCACGCTGGCCTCACTTCGCATCGCAGCCTTTGAGGAGGGTGGCAAATTTGTTGGGCACCGTATCCTGCCTGTCTCTGCTATCCGCTCAG cagtcttgtcctatgcatagtcttgtacagtcctaatatttttcctgcagGTACTACCCACAGTGGCCTCACTCCGCATTGCAGTCTTTGAGAAAGGTGGCAAGTTTGTTGGGCACCGAACCCTACCTGTATCTGCAATCCACTCAGgtaagcctgggggctctgcactaaagcaattacaaagttgtgtgcctctt #### Plcb3_ID1913_18 --> 2 - 0 Original Alignment atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tatgatgatctctggctgctgtgtttgcttacacatcctgctccctccagat---------CAGCTCAATGCAGGTGTCGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATCGTAGATGGCATAGTGGCCAACGCATTGCGGGTCAAGgtaagggggcaagggttttggcaaagggtgttttgaacaagatacaccaa Alignment from CESAR atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tcctggatctatgatgatctctggctgcttacacatcctgctccctccagat---------CAGCTCAATGCAGGTGTCGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATCGTAGATGGCATAGTGGCCAACGCATTGCGGGTCAAGgtaagggggcaagggttttggcaaagggtgttttgaacaagatacaccaa Alignment from Spaln_aa2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tatgatgatctctggctgctgtgtttgcttacacatcctgctccctccagAT---------CAGCTCAATGCAGGTGTCGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATCGTAGATGGCATAGTGGCCAACGCATTGCGGGTCAAGgtaagggggcaagggttttggcaaagggtgttttgaacaagatacaccaa Alignment from Spaln_nt2Genome --CAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tatgatgatctctggctgctgtgtttgcttacacatcctgctccctccagATCAGCTCAATGCAGGTGTCGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATCGTAGATGGCATAGTGGCCAACGCATTGCGGGTCAAGgtaagggggcaagggttttggcaaagggtgttttgaacaagatacaccaa Alignment from Pairagon TGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tatgatgatctctggctgctgtgtttgcttacacatcctgctccctccagATCAGCTCAATGCAGGTGTCGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATCGTAGATGGCATAGTGGCCAACGCATTGCGGGTCAAGgtaagggggcaagggttttggcaaagggtgttttgaacaagatacaccaa Alignment from Exonerate_protein2genome TGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tatgatgatctctggctgctgtgtttgcttacacatcctgctccctccagATCAGCTCAATGCAGGTGTCGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATCGTAGATGGCATAGTGGCCAACGCATTGCGGGTCAAGgtaagggggcaagggttttggcaaagggtgttttgaacaagatacaccaa Alignment from Exonerate_coding2genome TGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tatgatgatctctggctgctgtgtttgcttacacatcctgctccctccagATCAGCTCAATGCAGGTGTCGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATCGTAGATGGCATAGTGGCCAACGCATTGCGGGTCAAGgtaagggggcaagggttttggcaaagggtgttttgaacaagatacaccaa Alignment from GeneWise ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tatgatgatctctggctgctgtgtttgcttacacatcctgctccctccagAT---------CAGCTCAATGCAGGTGTCGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGAACCTTTCGCTGAGGTCATCGTAGATGGCATAGTGGCCAACGCATTGCGGGTCAAGgtaagggggcaagggttttggcaaagggtgttttgaacaagatacaccaa #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aaAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga aataggtctgccaggccattgctgtttgctttgttttcttcctcctgtagaa------AAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTTGTGgagtgagctcaccaatggcatggctggtgtggggccaggaggcctaccttgt Alignment from CESAR aaAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catgacaataggtctgccaggccatttgctttgttttcttcctcctgtagaa------AAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTTGTGgagtgagctcaccaatggcatggctggtgtggggccaggaggcctaccttgt Alignment from Spaln_aa2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA aataggtctgccaggccattgctgtttgctttgttttcttcctcctgtagAA------AAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTTGTGGAgtgagctcaccaatggcatggctggtgtggggccaggaggcctaccttgt Alignment from Spaln_nt2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA aataggtctgccaggccattgctgtttgctttgttttcttcctcctgtagAA------AAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTTGTGGAgtgagctcaccaatggcatggctggtgtggggccaggaggcctaccttgt Alignment from Pairagon AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA aataggtctgccaggccattgctgtttgctttgttttcttcctcctgtagAA------AAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTTGTGGAgtgagctcaccaatggcatggctggtgtggggccaggaggcctaccttgt Alignment from Exonerate_protein2genome GAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA aataggtctgccaggccattgctgtttgctttgttttcttcctcctgtAGAAAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTTGTGGAgtgagctcaccaatggcatggctggtgtggggccaggaggcctaccttgt Alignment from Exonerate_coding2genome GAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA aataggtctgccaggccattgctgtttgctttgttttcttcctcctgtAGAAAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTTGTGGAgtgagctcaccaatggcatggctggtgtggggccaggaggcctaccttgt Alignment from GeneWise ACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA aataggtctgccaggccattgctgtttgctttgttttcttcctcctgtagAAAAGTGCTTTAGGATGTCATCCTTTGTGGAAACCAAAGCAATGGACCAACTGACCAAGAGCCCTATGGAGTTTGTGGAgtgagctcaccaatggcatggctggtgtggggccaggaggcctaccttgt #### Plcb3_ID1922_9 --> 1 - 1 Original Alignment aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAAC------CAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGC---------g catatcttgtggctaccatcaggagagttttcttttatcccttcttttagaGGCATGAAGGGCAAGCCCTACCTT---CTTGAGCAGCTGATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGATTG---------------------------TCCTCACAAGCCCGTCTACTTATTGAGGAGTATGAGACAAACAAACAGTTTCTGGAGCGTGTAGACTGGggtgagtctgtataggcaagatggcagtgtgggtgggatccacctagctta Alignment from CESAR aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGC---------g catatcttgtggctaccatcaggagagttttcttttatcccttcttttagaGGCATGAAGGGCAAGCCCTACCTT---CTTGAGCAGCTGATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGATTG---------------------------TCCTCACAAGCCCGTCTACTTATTGAGGAGTATGAGACAAACAAACAGTTTCTGGAGCGTGTAGACTGGggtgagtctgtataggcaagatggcagtgtgggtgggatccacctagctta Alignment from Spaln_aa2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGC---------G catatcttgtggctaccatcaggagagttttcttttatcccttcttttagAGGCATGAAGGGCAAGCCCTACCTT---CTTGAGCAGCTGATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGATTG---------------------------TCCTCACAAGCCCGTCTACTTATTGAGGAGTATGAGACAAACAAACAGTTTCTGGAGCGTGTAGACTGGGgtgagtctgtataggcaagatggcagtgtgggtgggatccacctagctta Alignment from Spaln_nt2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCA------GAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGC catatcttgtggctaccatcaggagagttttcttttatcccttcttttagAGGCATGAAGGGCAAGCCCTACCT---TCTTGAGCAGCTGATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGATT---------------------------GTCCTCACAAGCCCGTCTACTTATTGAGGAGTATGAGACAAACAAACAGTTTCTGGAGCGTgtagactggggtgagtctgtataggcaagatggcagtgtgggtgggatccacctagctta Alignment from Pairagon AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACC------AGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG--------- catatcttgtggctaccatcaggagagttttcttttatcccttcttttagAGGCATGAAGGGCAAGCCCTACCT---TCTTGAGCAGCTGATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGATT---------------------------GTCCTCACAAGCCCGTCTACTTATTGAGGAGTATGAGACAAACAAACAGTTTCTGGAGCGTGTAGACTGGGgtgagtctgtataggcaagatggcagtgtgggtgggatccacctagctta Alignment from Exonerate_protein2genome CACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG catatcttgtggctaccatcaggagagttttcttttatcccttcttttagAGGCATGAAGGGCAAGCCCTACCTTCTTGAGCAGCTGATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGATTGTCCTCACAAGCCCGTCTACTTATTGAGGAGTATGAGACAAACAAACAGTTTCTGGAGCGTGtagactggggtgagtctgtataggcaagatggcagtgtgggtgggatccacctagctta Alignment from Exonerate_coding2genome catatcttgtggctaccatcaggagagttttcttttatcccttcttttagaggcatgaagggcaagccctaccttcttgagcagctgatggactttgtgaaccaacaagagaagcagagagacccaagattgtcctcacaagcccgtctacttattgaggagtatgagacaaacaaacagtttctggagcgtgtagactggggtgagtctgtataggcaagatggcagtgtgggtgggatccacctagctta Alignment from GeneWise AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGC---------G catatcttgtggctaccatcaggagagttttcttttatcccttcttttagAGGCATGAAGGGCAAGCCCTACCTT---CTTGAGCAGCTGATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAGATTG---------------------------TCCTCACAAGCCCGTCTACTTATTGAGGAGTATGAGACAAACAAACAGTTTCTGGAGCGTGTAGACTGGGgtgagtctgtataggcaagatggcagtgtgggtgggatccacctagctta #### Plcb3_ID1926_5 --> 0 - 2 Original Alignment GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc cccttgctcccttcaactatttttctttattttttctccttgggggtcag---------GAGGAGTTGTTTAGACTAGCCATGAACATATTGGCTCAGAATGCATCCCAGAACACATTCCTGCGTAAAgcgtattactgcaaccacttaggggagtgctggaatgtcccactgtgcacat Alignment from CESAR GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc gggttaacccccttgctcccttcaatttattttttctccttgggggtcag---------GAGGAGTTGTTTAGACTAGCCATGAACATATTGGCTCAGAATGCATCCCAGAACACATTCCTGCGTAAAgcgtattactgcaaccacttaggggagtgctggaatgtcccactgtgcacat Alignment from Spaln_aa2Genome GAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC cccttgctcccttcaactatttttctttattttttctccttgggggtcagGAGGAGTTGTTTAGACTAGCCATGAACATATTGGCTCAGAATGCATCCCAGAACACATTCCTGCGTAAAGCgtattactgcaaccacttaggggagtgctggaatgtcccactgtgcacat Alignment from Spaln_nt2Genome GAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC cccttgctcccttcaactatttttctttattttttctccttgggggtcagGAGGAGTTGTTTAGACTAGCCATGAACATATTGGCTCAGAATGCATCCCAGAACACATTCCTGCGTAAAGCgtattactgcaaccacttaggggagtgctggaatgtcccactgtgcacat Alignment from Pairagon GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC cccttgctcccttcaactatttttctttattttttctccttgggggtcag---------GAGGAGTTGTTTAGACTAGCCATGAACATATTGGCTCAGAATGCATCCCAGAACACATTCCTGCGTAAAGCgtattactgcaaccacttaggggagtgctggaatgtcccactgtgcacat Alignment from Exonerate_protein2genome cccttgctcccttcaactatttttctttattttttctccttgggggtcaggaggagttgtttagactagccatgaacatattggctcagaatgcatcccagaacacattcctgcgtaaagcgtattactgcaaccacttaggggagtgctggaatgtcccactgtgcacat Alignment from Exonerate_coding2genome cccttgctcccttcaactatttttctttattttttctccttgggggtcaggaggagttgtttagactagccatgaacatattggctcagaatgcatcccagaacacattcctgcgtaaagcgtattactgcaaccacttaggggagtgctggaatgtcccactgtgcacat Alignment from GeneWise GAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC cccttgctcccttcaactatttttctttattttttctccttgggggtcagGAGGAGTTGTTTAGACTAGCCATGAACATATTGGCTCAGAATGCATCCCAGAACACATTCCTGCGTAAAGCgtattactgcaaccacttaggggagtgctggaatgtcccactgtgcacat #### Plcb3_ID1928_3 --> 0 - 0 Original Alignment ---------------------GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgaacacgaccttgtacctttaaacgggtttgtctgccctgtagGGATGGAGAAGGAAAGAACTAGAGGTGGACACACTGGATATCAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtatatcagctagttttgcagtatataagcaccataacagttacaaggat Alignment from CESAR ---------------------GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgaacacgaccttgtacctttaaacgggtttgtctgccctgtagGGATGGAGAAGGAAAGAACTAGAGGTGGACACACTGGATATCAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtatatcagctagttttgcagtatataagcaccataacagttacaaggat Alignment from Spaln_aa2Genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgaacacgaccttgtacctttaaacgggtttgtctgccctgtagggatggagaaggaaagaactagagGTGGACACA---CTGGATATCAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtatatcagctagttttgcagtatataagcaccataacagttacaaggat Alignment from Spaln_nt2Genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgaacacgaccttgtacctttaaacgggtttgtctgccctgtagggatggagaaggaaagaactagAGGTGGACA-CACTGGATATCAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtatatcagctagttttgcagtatataagcaccataacagttacaaggat Alignment from Pairagon ---------------------GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgaacacgaccttgtacctttaaacgggtttgtctgccctgtagGGATGGAGAAGGAAAGAACTAGAGGTGGACACACTGGATATCAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtatatcagctagttttgcagtatataagcaccataacagttacaaggat Alignment from Exonerate_protein2genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgaacacgaccttgtacctttaaacgggtttgtctgccctgtagggatggagaaggaaagaactaGAGGTGGACACACTGGATATCAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtatatcagctagttttgcagtatataagcaccataacagttacaaggat Alignment from Exonerate_coding2genome tagtactgaacacgaccttgtacctttaaacgggtttgtctgccctgtagggatggagaaggaaagaactagaggtggacacactggatatcagctcaatcagagacacaagaacaggtcgttatgctcgcctgcccaaagtatatcagctagttttgcagtatataagcaccataacagttacaaggat Alignment from GeneWise --GTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG tagtactgaacacgaccttgtacctttaaacgggtttgtctgccctgtagggatggagaaggaaagaactagAGGTGGACACACTGGATATCAGCTCAATCAGAGACACAAGAACAGGTCGTTATGCTCGCCTGCCCAAAgtatatcagctagttttgcagtatataagcaccataacagttacaaggat #### Plce1_ID7626_12 --> 1 - 1 Original Alignment c---ATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg catatttttattccgacataaaggctacttctaatattattattcttcagcCACATTAGGAGCCGAAAGGACTTGAAGGACATCTTTGACATCTACACTGTG---------AGATCTACCTCAGAGTCCACCCCTCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGATCTTCAGCCAGACCTGggtacagtcctcagtccactgctccccttgaagctagaaagtaattttgct Alignment from CESAR c---ATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg catatttttattccgacataaaggctacttctaatattattattcttcagcCACATTAGGAGCCGAAAGGACTTGAAGGACATCTTTGACATCTACACTGTG---------AGATCTACCTCAGAGTCCACCCCTCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGATCTTCAGCCAGACCTGggtacagtcctcagtccactgctccccttgaagctagaaagtaattttgct Alignment from Spaln_aa2Genome C----ATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCA catatttttattccgacataaaggctacttctaatattattattcttcagCCACATTAGGAGCCGAAAGGACTTGAAGGACATCTTTGACATCTACACTGTG---------AGATCTACCTCAGAGTCCACCCCTCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGATCTTCAgccagacctgggtacagtcctcagtccactgctccccttgaagctagaaagtaattttgct Alignment from Spaln_nt2Genome CATCAGGAGCC---GCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG catatttttattccgacataaaggctacttctaatattattattcttcagCCACATTAGGAGCCGAAAGGACTTGAAGGACATCTTTGACATCTACACTGT---------GAGATCTACCTCAGAGTCCACCCCTCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGATCTTCAGCCAGACCTGGgtacagtcctcagtccactgctccccttgaagctagaaagtaattttgct Alignment from Pairagon ---CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG catatttttattccgacataaaggctacttctaatattattattcttcagCCACATTAGGAGCCGAAAGGACTTGAAGGACATCTTTGACATCTACACTGTG---------AGATCTACCTCAGAGTCCACCCCTCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGATCTTCAGCCAGACCTGGgtacagtcctcagtccactgctccccttgaagctagaaagtaattttgct Alignment from Exonerate_protein2genome C---ATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG catatttttattccgacataaaggctacttctaatattattattcttcagCCACATTAGGAGCCGAAAGGACTTGAAGGACATCTTTGACATCTACACTGTG---------AGATCTACCTCAGAGTCCACCCCTCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGATCTTCAGCCAGACCTGGgtacagtcctcagtccactgctccccttgaagctagaaagtaattttgct Alignment from Exonerate_coding2genome C---ATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG catatttttattccgacataaaggctacttctaatattattattcttcagCCACATTAGGAGCCGAAAGGACTTGAAGGACATCTTTGACATCTACACTGTG---------AGATCTACCTCAGAGTCCACCCCTCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGATCTTCAGCCAGACCTGGgtacagtcctcagtccactgctccccttgaagctagaaagtaattttgct Alignment from GeneWise -AGCATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG catatttttattccgacataaaggctacttctaatattattattcttcagCCACATTAGGAGCCGAAAGGACTTGAAGGACATCTTTGACATCTACACTGTG---------AGATCTACCTCAGAGTCCACCCCTCTCTATACCAACTGGACAATTGAGGAAAATACCAGTGATCTTCAGCCAGACCTGGgtacagtcctcagtccactgctccccttgaagctagaaagtaattttgct #### Pnliprp1_ID12765_2 --> 2 - 0 Original Alignment ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG--------------- cccagtgattatggaccttcctgttcagtcttgacttcttgttcccgcagggAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGACAGACCTCCACATAgtaggtcttcatgggccctagccaagaaccaggcgatcctaccacttgga Alignment from CESAR ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG--------------- cccagtgattatggaccttcctgttcagtcttgacttcttgttcccgcagggAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGACAGACCTCCACATAgtaggtcttcatgggccctagccaagaaccaggcgatcctaccacttgga Alignment from Spaln_aa2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG--------------- cccagtgattatggaccttcctgttcagtcttgacttcttgttcccgcagGGAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGACAGACCTCCACATAgtaggtcttcatgggccctagccaagaaccaggcgatcctaccacttgga Alignment from Spaln_nt2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAGA-------------- cccagtgattatggaccttcctgttcagtcttgacttcttgttcccgcagGGAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGACAGACCTCCACATAgtaggtcttcatgggccctagccaagaaccaggcgatcctaccacttgga Alignment from Pairagon GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG--------------- cccagtgattatggaccttcctgttcagtcttgacttcttgttcccgcagGGAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGACAGACCTCCACATAgtaggtcttcatgggccctagccaagaaccaggcgatcctaccacttgga Alignment from Exonerate_protein2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagtcttgacttcttgttcccgcagGGAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGacagacctccacatagtaggtcttcatgggccctagccaagaaccaggcgatcctaccacttgga Alignment from Exonerate_coding2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG cccagtgattatggaccttcctgttcagtcttgacttcttgttcccgcagGGAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGacagacctccacatagtaggtcttcatgggccctagccaagaaccaggcgatcctaccacttgga Alignment from GeneWise GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAGACT------------ cccagtgattatggaccttcctgttcagtcttgacttcttgttcccgcagGGAAAGAATTTTGTTACCACAACCTGGGGTGCTTTTCTGATGCAGAACCCTGGGCAGGCACAGCCAATAGACCTCTAAAACTTCTCCCTTGGAGTCCTGAGAAGATCAACACTTGCTTCTTGCTCTACACTAATGAGAACCCAATTGCTTTCCAGACAGACCTCCACATAgtaggtcttcatgggccctagccaagaaccaggcgatcctaccacttgga #### Pold4_ID437_2 --> 2 - 1 Original Alignment ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg aggcttaggtggagcagggggatacggatcttttgtttgtttgtgcacaggg------ACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAGTATGGGCCTTGTACAggtaataatcccctgtaaccatccttgaatcagtctttcatgaagtacttt Alignment from CESAR ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg gtataaaggcttaggtggagcagggggatcttttgtttgtttgtgcacaggg------ACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAGTATGGGCCTTGTACAggtaataatcccctgtaaccatccttgaatcagtctttcatgaagtacttt Alignment from Spaln_aa2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggcttaggtggagcagggggatacggatcttttgtttgtttgtgcacagGG------ACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAGTATGGGCCTTGTACAGgtaataatcccctgtaaccatccttgaatcagtctttcatgaagtacttt Alignment from Spaln_nt2Genome AGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggcttaggtggagcagggggatacggatcttttgtttgtttgtgcacagGGACA--CAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAGTATGGGCCTTGTACAGgtaataatcccctgtaaccatccttgaatcagtctttcatgaagtacttt Alignment from Pairagon GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggcttaggtggagcagggggatacggatcttttgtttgtttgtgcacagGG------ACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAGTATGGGCCTTGTACAGgtaataatcccctgtaaccatccttgaatcagtctttcatgaagtacttt Alignment from Exonerate_protein2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggcttaggtggagcagggggatacggatcttttgtttgtttgtGCACAGGGACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAGTATGGGCCTTGTACAGgtaataatcccctgtaaccatccttgaatcagtctttcatgaagtacttt Alignment from Exonerate_coding2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggcttaggtggagcagggggatacggatcttttgtttgtttgtGCACAGGGACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAGTATGGGCCTTGTACAGgtaataatcccctgtaaccatccttgaatcagtctttcatgaagtacttt Alignment from GeneWise ACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggcttaggtggagcagggggatacggatcttttgtttgtttgtgcacagGGACACAGTCCCTCAGCCAAGAGGAGACTGAGCTGGAGCTGCTACGGCAGTTTGACTTGACATGGCAGTATGGGCCTTGTACAGgtaataatcccctgtaaccatccttgaatcagtctttcatgaagtacttt #### Polr2g_ID2377_6 --> 0 - 0 Original Alignment ---------GACATTGTGATTCAGCAG---GACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT ctgataagaagcctgagtctggctgaccttttttttttttttttttacagATCGCCGTAGGCATATTGATTCAGCTGGATGAG------ATACGGCTAAAGATTGTAGGGACACATGTAGATAAAAACGATGTTgtacgtctaggtaggcttttgttctttgtctatatgacagcacagatccg Alignment from CESAR ---------GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT ctgataagaagcctgagtctggctgaccttttttttttttttttttacagATCGCCGTAGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATTGTAGGGACACATGTAGATAAAAACGATGTTgtacgtctaggtaggcttttgttctttgtctatatgacagcacagatccg Alignment from Spaln_aa2Genome GACATTGTG------ATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT ctgataagaagcctgagtctggctgaccttttttttttttttttttacagATCGCCGTAGGCATATTGATTCAGCTGGATGAGATACGGCTAAAGATTGTAGGGACACATGTAGATAAAAACGATGTTgtacgtctaggtaggcttttgttctttgtctatatgacagcacagatccg Alignment from Spaln_nt2Genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT ctgataagaagcctgagtctggctgaccttttttttttttttttttacagatcgccgtagG-CATATTGATTCAGCTG---GATGAGATACGGCTAAAGATTGTAGGGACACATGTAGATAAAAACGATGTTgtacgtctaggtaggcttttgttctttgtctatatgacagcacagatccg Alignment from Pairagon ---------GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT ctgataagaagcctgagtctggctgaccttttttttttttttttttacagATCGCCGTAGGCATATTGATTCAGCTG---GATGAGATACGGCTAAAGATTGTAGGGACACATGTAGATAAAAACGATGTTgtacgtctaggtaggcttttgttctttgtctatatgacagcacagatccg Alignment from Exonerate_protein2genome TTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT ctgataagaagcctgagtctggctgaccttttttttttttttttttacagatcgccgtagGCATATTGATTCAGCTGGATGAGATACGGCTAAAGATTGTAGGGACACATGTAGATAAAAACGATGTTgtacgtctaggtaggcttttgttctttgtctatatgacagcacagatccg Alignment from Exonerate_coding2genome ctgataagaagcctgagtctggctgaccttttttttttttttttttacagatcgccgtaggcatattgattcagctggatgagatacggctaaagattgtagggacacatgtagataaaaacgatgttgtacgtctaggtaggcttttgttctttgtctatatgacagcacagatccg Alignment from GeneWise ---------GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATTTTTGCCATTGGCTCTCTGATGGACGACTACTTGGGGCTCGTGAGC ctgataagaagcctgagtctggctgaccttttttttttttttttttacagATCGCCGTAGGCATATTGATTCAGCTGGAT---GAGATACGGCTAAAGATTGTAGGGACACATGTAGATAAAAACGATGTTGTACGTCTAGGTAGGCTTTTGTTC---TTTGTCTATATGACAGCAcagat #### Polr2g_ID2381_2 --> 0 - 2 Original Alignment ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa tcctgtccctcgtgcacctggttaatgtcctctttctttttccttttaagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCATTTACTGAAGTGGAGGGGACCTGCACT---aagtgagtagactcctctttacagcaggttctgttgaatgcatcaataatga Alignment from CESAR ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa tcctgtccctcgtgcacctggttaatgtcctctttctttttccttttaagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCATTTACTGAAGTGGAGGGGACCTGCACT---aagtgagtagactcctctttacagcaggttctgttgaatgcatcaataatga Alignment from Spaln_aa2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGG tcctgtccctcgtgcacctggttaatgtcctctttctttttccttttaagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTAAgtgagtagactcctctttacagcaggttctgttgaatgcatcaataatga Alignment from Spaln_nt2Genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTG- tcctgtccctcgtgcacctggttaatgtcctctttctttttccttttaagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTAAgtgagtagactcctctttacagcaggttctgttgaatgcatcaataatga Alignment from Pairagon ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA tcctgtccctcgtgcacctggttaatgtcctctttctttttccttttaagATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCATTTACTGAAGTGGAGGGGACCTGCACT---AAgtgagtagactcctctttacagcaggttctgttgaatgcatcaataatga Alignment from Exonerate_protein2genome TATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGG tcctgtccctcgtgcacctggttaatgtcctctttctttttcctTTTAAGATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTAAgtgagtagactcctctttacagcaggttctgttgaatgcatcaataatga Alignment from Exonerate_coding2genome TATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGG tcctgtccctcgtgcacctggttaatgtcctctttctttttcctTTTAAGATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTAAgtgagtagactcctctttacagcaggttctgttgaatgcatcaataatga Alignment from GeneWise TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGG tgtccctcgtgcacctggttaatgtcctctttctttttcct---TTTAAGATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCCATTTACTGAAGTGGAGGGGACCTGCACTAAgtgagtagactcctctttacagcaggttctgttgaatgcatcaataatga #### Ppp1ca_ID409_3 --> 2 - 1 Original Alignment gt---------GACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAt catccaatttacttaatatacttccttactcattcttttcctttgtgcaggtGCCACATTCGACATCCAGGGACAGTACTATGACCTTCTGCACCTGTTTGAATATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGGGCGATTATTTAGACCGTGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACTTAGAGAATTTCTATGTACTTCGTGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTTTATGATGCAtgtgcgcgattggaaccctgacatcttactggctcatttaacattgcctct Alignment from CESAR gt---------GACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAt catccaatttacttaatatacttccttactcattcttttcctttgtgcaggtGCCACATTCGACATCCAGGGACAGTACTATGACCTTCTGCACCTGTTTGAATATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGGGCGATTATTTAGACCGTGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACTTAGAGAATTTCTATGTACTTCGTGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTTTATGATGCAtgtgcgcgattggaaccctgacatcttactggctcatttaacattgcctct Alignment from Spaln_aa2Genome GT---------GACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT catccaatttacttaatatacttccttactcattcttttcctttgtgcagGTGCCACATTCGACATCCAGGGACAGTACTATGACCTTCTGCACCTGTTTGAATATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGGGCGATTATTTAGACCGTGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACTTAGAGAATTTCTATGTACTTCGTGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTTTATGATGCATgtgcgcgattggaaccctgacatcttactggctcatttaacattgcctct Alignment from Spaln_nt2Genome GTGACATCCATGG---------CCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCA---ACCGCATTTATGGCTTCTATGATGAAT catccaatttacttaatatacttccttactcattcttttcctttgtgcagGTGCCACATTCGACATCCAGGGACAGTACTATGACCTTCTGCACCTGTTTGAATATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGGGCGATTATTTAGACCGTGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACTTAGAGAATTTCTATGTACTTCGTGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTTTATGATGCATgtgcgcgattggaaccctgacatcttactggctcatttaacattgcctct Alignment from Pairagon GTG---------ACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT catccaatttacttaatatacttccttactcattcttttcctttgtgcagGTGCCACATTCGACATCCAGGGACAGTACTATGACCTTCTGCACCTGTTTGAATATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGGGCGATTATTTAGACCGTGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACTTAGAGAATTTCTATGTACTTCGTGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTTTATGATGCATgtgcgcgattggaaccctgacatcttactggctcatttaacattgcctct Alignment from Exonerate_protein2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT catccaatttacttaatatacttccttactcattcttttcctttgtgcaggtgccacatTCGACATCCAGGGACAGTACTATGACCTTCTGCACCTGTTTGAATATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGGGCGATTATTTAGACCGTGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACTTAGAGAATTTCTATGTACTTCGTGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTTTATGATGCATgtgcgcgattggaaccctgacatcttactggctcatttaacattgcctct Alignment from Exonerate_coding2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGC---ATCAACCGCATTTATGGCTTCTATGATGAAT catccaatttacttaatatacttccttactcattcttttcctttgtgcaggtgccacatTCGACATCCAGGGACAGTACTATGACCTTCTGCACCTGTTTGAATATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGGGCGATTATTTAGACCGTGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACTTAGAGAATTTCTATGTACTTCGTGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTTTATGATGCATgtgcgcgattggaaccctgacatcttactggctcatttaacattgcctct Alignment from GeneWise --------GGTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATC---AACCGCATTTATGGCTTCTATGATGAAT catccaatttacttaatatacttccttactcattcttttcctttgtgcagGTGCCACATTCGACATCCAGGGACAGTACTATGACCTTCTGCACCTGTTTGAATATGGTGGTTTCCCACCAGAGAGCAACTACCTCTGCCTGGGCGATTATTTAGACCGTGGCAAGCAATCCTTGGAGACCATCTGCCTATTGCTGACCTATAAGATCAGATACTTAGAGAATTTCTATGTACTTCGTGGAAATCATGAGTGTGCCAGCATTATTAACCGCATTTATGGGTTTTATGATGCATgtgcgcgattggaaccctgacatcttactggctcatttaacattgcctct #### Ppp1ca_ID412_6 --> 0 - 0 Original Alignment GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAG---AGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG ggtctcatgcctaacttaaagagttagtgcttccccaccccgcctctcag---GTA---GGTGGATATGAGTTCTTTGCAAAGAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAATTACTGTGGAGAATTTGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCATATGCTCCAGAGCTTTCCCAgtagagacagggaatagcctgtccttagaatctggctcaaccttagacct Alignment from CESAR GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG catggtctcatgcctaacttaaagaagtgcttccccaccccgcctctcagGTA------GGTGGATATGAGTTCTTTGCAAAGAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAATTACTGTGGAGAATTTGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCATATGCTCCAGAGCTTTCCCAgtagagacagggaatagcctgtccttagaatctggctcaaccttagacct Alignment from Spaln_aa2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG ggtctcatgcctaacttaaagagttagtgcttccccaccccgcctctcagGTA------GGTGGATATGAGTTCTTTGCAAAGAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAATTACTGTGGAGAATTTGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCATATGCTCCAGAGCTTTCCCAgtagagacagggaatagcctgtccttagaatctggctcaaccttagacct Alignment from Spaln_nt2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAG---ACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG ggtctcatgcctaacttaaagagttagtgcttccccaccccgcctctcagGT------AGGTGGATATGAGTTCTTTGCAAAGAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAATTACTGTGGAGAATTTGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCATATGCTCCAGAGCTTTCCCAgtagagacagggaatagcctgtccttagaatctggctcaaccttagacct Alignment from Pairagon GTTGTAGAAGATGGCTATGAGTTCTTTGC---CAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTC--------------------------------------------------------------- ggtctcatgcctaacttaaagagttagtgcttccccaccccgcctctcagGT------AGGTGGATATGAGTTCTTTGCAAAGAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAATTACTGTGGAGAATTTGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCATATGCTCCAGAGCTTTCCCAGTAGAGACAGGGAATAGCCTGTCCTTAGAATCTGGCTCAACCTTAGACCT Alignment from Exonerate_protein2genome GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCT ggtctcatgcctaacttaaagagttagtgcttccccaccccgcctctcagGTA------GGTGGATATGAGTTCTTTGCAAAGAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAATTACTGTGGAGAATTTGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCATATGCTCCAgagctttcccagtagagacagggaatagcctgtccttagaatctggctcaaccttagacct Alignment from Exonerate_coding2genome GTTGTAGAAGATGGCTATGAGTTCTTTGCC---AAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCT ggtctcatgcctaacttaaagagttagtgcttccccaccccgcctctcagGTA------GGTGGATATGAGTTCTTTGCAAAGAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAATTACTGTGGAGAATTTGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCATATGCTCCAgagctttcccagtagagacagggaatagcctgtccttagaatctggctcaaccttagacct Alignment from GeneWise TAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAG---TTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCC------TTCCAG ggtctcatgcctaacttaaagagttagtgcttccccaccccgcctctcaggtagGT------GGATATGAGTTCTTTGCAAAGAAGAAAAAGCTGGTAACACTCTTCTCGGCTCCCAATTACTGTGGAGAATTTGAAAATGCTGGTGCCATGATGAGTGTAGACAAGACCCTCATATGCTCCAGAGCTTTCCCAgtagagacagggaatagcctgtccttagaatctggctcaaccttagacct #### Ppp1r14b_ID1940_3 --> 0 - 0 Original Alignment GAGCTGTTAGTTGACTGTTACAAACCCACTGAG agaaaccctgtgcccaagaagccatattaataaccttggttcttccccag---CTATTAGTTGACTGTTATAAACCCACCGAGgtaacctactctccttccccacaggccttgggtgattgtgcacacaagca Alignment from CESAR GAGCTGTTAGTTGACTGTTACAAACCCACTGAG atgagaaaccctgtgcccaagaagcattaataaccttggttcttccccag---CTATTAGTTGACTGTTATAAACCCACCGAGgtaacctactctccttccccacaggccttgggtgattgtgcacacaagca Alignment from Spaln_aa2Genome GAGCTGTTAGTTGACTGTTACAAACCCACTGAG agaaaccctgtgcccaagaagccatattaataaccttggttcttccccagCTATTAGTTGAC---TGTTATAAACCCACCGAGgtaacctactctccttccccacaggccttgggtgattgtgcacacaagca Alignment from Spaln_nt2Genome CTGTTAGTTGACTGTTACAAACCCACTGAG agaaaccctgtgcccaagaagccatattaataaccttggttcttccccagCTATTAGTTGACTGTTATAAACCCACCGAGgtaacctactctccttccccacaggccttgggtgattgtgcacacaagca Alignment from Pairagon GAGCTGTTAGTTGACTGTTACAAACCCACTGAG agaaaccctgtgcccaagaagccatattaataaccttggttcttccccag---CTATTAGTTGACTGTTATAAACCCACCGAGgtaacctactctccttccccacaggccttgggtgattgtgcacacaagca Alignment from Exonerate_protein2genome CTGTTAGTTGACTGTTACAAACCCACTGAG agaaaccctgtgcccaagaagccatattaataaccttggttcttccccagCTATTAGTTGACTGTTATAAACCCACCGAGgtaacctactctccttccccacaggccttgggtgattgtgcacacaagca Alignment from Exonerate_coding2genome CTGTTAGTTGACTGTTACAAACCCACTGAG agaaaccctgtgcccaagaagccatattaataaccttggttcttccccagCTATTAGTTGACTGTTATAAACCCACCGAGgtaacctactctccttccccacaggccttgggtgattgtgcacacaagca Alignment from GeneWise CTGTTAGTTGACTGTTACAAACCCACTGAG agaaaccctgtgcccaagaagccatattaataaccttggttcttccccagCTATTAGTTGACTGTTATAAACCCACCGAGgtaacctactctccttccccacaggccttgggtgattgtgcacacaagca #### Ppp1r32_ID2842_9 --> 0 - 0 Original Alignment GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG tggaatatatcctaaagtgtaccttgcactttctccttttccccatgcagGTTCCTGCCTCAGCCCCCCAATCTGCCAGCATGAGCCACAGATCCTACCGCCCCCCCCAGCGGATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCCGTGGGGAAT---gtgagcaggattctaacactaatcctagtcccagcctatcttctcaaatc Alignment from CESAR GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG tggaatatatcctaaagtgtaccttgcactttctccttttccccatgcagGTTCCTGCCTCAGCCCCCCAATCTGCCAGCATGAGCCACAGATCCTACCGCCCCCCCCAGCGGATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCCGTGGGGAAT---gtgagcaggattctaacactaatcctagtcccagcctatcttctcaa Alignment from Spaln_aa2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAAC tggaatatatcctaaagtgtaccttgcactttctccttttccccatgcagGTTCCTGCCTCAGCCCCCCAATCTGCCAGCATGAGCCACAGATCCTACCGCCCCCCCCAGCGGATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCCGTGGGGAATgtgagcaggattctaacactaatcctagtcccagcctatcttctcaaatc Alignment from Spaln_nt2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAAC tggaatatatcctaaagtgtaccttgcactttctccttttccccatgcagGTTCCTGCCTCAGCCCCCCAATCTGCCAGCATGAGCCACAGATCCTACCGCCCCCCCCAGCGGATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCCGTGGGGAATgtgagcaggattctaacactaatcctagtcccagcctatcttctcaaatc Alignment from Pairagon GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAA--------------------------------------------------- tggaatatatcctaaagtgtaccttgcactttctccttttccccatgcagGTTCCTGCCTCAGCCCCCCAATCTGCCAGCATGAGCCACAGATCCTACCGCCCCCCCCAGCGGATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCCGTGGGGAATGTGAGCAGGATTCTAACACTAATCCTAGTCCCAGCCTATCTTCTCAAATC Alignment from Exonerate_protein2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG tggaatatatcctaaagtgtaccttgcactttctccttttccccatgcagGTTCCTGCCTCAGCCCCCCAATCTGCCAGCATGAGCCACAGATCCTACCGCCCCCCCCAGCGGATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCCGTGGGGAAT---gtgagcaggattctaacactaatcctagtcccagcctatcttctcaa Alignment from Exonerate_coding2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG tggaatatatcctaaagtgtaccttgcactttctccttttccccatgcagGTTCCTGCCTCAGCCCCCCAATCTGCCAGCATGAGCCACAGATCCTACCGCCCCCCCCAGCGGATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCCGTGGGGAAT---gtgagcaggattctaacactaatcctagtcccagcctatcttctcaa Alignment from GeneWise GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAAC tggaatatatcctaaagtgtaccttgcactttctccttttccccatgcagGTTCCTGCCTCAGCCCCCCAATCTGCCAGCATGAGCCACAGATCCTACCGCCCCCCCCAGCGGATGCAACAGGCTAATGTTGCCCTGCTTGGAAGGGAGTCCGTGGGGAATgtgagcaggattctaacactaatcctagtcccagcctatcttctcaaatc #### Ppp1r32_ID2845_6 --> 2 - 0 Original Alignment atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT gatggagaactgaagcgaccagtcctggaatacctttttatgccttttagat------------AAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagtgaatggttaagggtcctacttgaccattcacgatgttgagat Alignment from CESAR atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT catggggtgaaggatggagaactgatggaatacctttttatgccttttagat------------AAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagtgaatggttaagggtcctacttgaccattcacgatgttgagat Alignment from Spaln_aa2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT gatggagaactgaagcgaccagtcctggaatacctttttatgccttttagAT------------AAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagtgaatggttaagggtcctacttgaccattcacgatgttgagat Alignment from Spaln_nt2Genome AGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT gatggagaactgaagcgaccagtcctggaatacctttttatgccttttagATAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagtgaatggttaagggtcctacttgaccattcacgatgttgagat Alignment from Pairagon ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT gatggagaactgaagcgaccagtcctggaatacctttttatgccttttagAT------------AAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagtgaatggttaagggtcctacttgaccattcacgatgttgagat Alignment from Exonerate_protein2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT ggagaactgaagcgaccagtcctggaatacctttttatGC---CTTTTAGATAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagtgaatggttaagggtcctacttgaccattcacgatgttgagat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise -------------------------CTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT gatggagaactgaagCGACCAGTCCTGGAATACCTTTTTATGCCTTTTAGATAAAACAATTGGATCCAAGGAGGAGATTGGCTTCATAGAAGAGTCTACAAAGAATCCTATTGTTTTCCAGCCACCTTCACAGACCTTCCCTGGGAAGCCTgtaagagtgaatggttaagggtcctacttgaccattcacgatgttgagat #### Pprc1_ID9716_4 --> 0 - 0 Original Alignment CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG------------------------ CAGCTCGGGAGAGTTCATCTgtaagtaactgatgtgctccctgatggcagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAGTCTTTTATCCAGTCTTGGAAAAgtaagtaatctagggcccttctgacagagggcaaaggcgtggataggcag Alignment from CESAR CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG------------------------ CAGCTCGGGAGAGTTCATCTgtaagtaactgatgtgctccctgatggcagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAGTCTTTTATCCAGTCTTGGAAAAgtaagtaatctagggcccttctgacagagggcaaaggcgtggataggcag Alignment from Spaln_aa2Genome CCCCTCGGGAGAGCTCCTCT------------------------------CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTG GG CAGCTCGGGAGAGTTCATCTGTAAGTAACTGATGTGCTCCCTGATGGCAGTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGgtagtcttttatccagtcttggaaaagtaagtaatctagggcccttctgacagagggcaaagGCgtggataggcag Alignment from Spaln_nt2Genome CCCCTCGGGAGA GCTCCTCTCTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGG CAGCTCGGGAGAgttcatctgtaagtaactgatgtgctccctgatggcag--------TTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTG-gtagtcttttatccagtcttggaaaagtaagtaatctagggcccttctgacagagggcaaaggcgtggataggcag Alignment from Pairagon CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGG--------------------------------------------------------------------------- CAGCTCGGGAGAGTTCATCTgtaagtaactgatgtgctccctgatggcagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAGTCTTTTATCCAGTCTTGGAAAAGTAAGTAATCTAGGGCCCTTCTGACAGAGGGCAAAGGCGTGGATAGGCAG Alignment from Exonerate_protein2genome CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGGG CAGCTCGGGAGAGTTCATCTgtaagtaactgatgtgctccctgatggcagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAgtcttttatccagtcttggaaaagtaagtaatctagggcccttctgacagagggcaaaggcgtggataggcag Alignment from Exonerate_coding2genome CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGGG CAGCTCGGGAGAGTTCATCTgtaagtaactgatgtgctccctgatggcagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAgtcttttatccagtcttggaaaagtaagtaatctagggcccttctgacagagggcaaaggcgtggataggcag Alignment from GeneWise CCCCTCGGGAGAGCTCCTCT CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG------------------------ CAGCTCGGGAGAGTTCATCTgtaagtaactgatgtgctccctgatggcagTTGCACAAGCTCCTGAATCTGTCTCGCACACCCCCAGAATGTGATCTTGTCACCCCAATTGATCCTTTGGGGCCTAGCACTGGAAGTAGTCGAGTGAGTGGTAGTCTTTTATCCAGTCTTGGAAAAgtaagtaatctagggcccttctgacagagggcaaaggcgtggataggcag #### Prdx5_ID1853_4 --> 0 - 0 Original Alignment GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG agagtcagcacctccactcaccaagagtatgctctctttctgtgtttcag---CGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagtgtaccttgccatgcgatcagtctttggggaaccatatacagggg Alignment from CESAR GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG ctgagagtcagcacctccactcaccagtatgctctctttctgtgtttcag---CGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagtgtaccttgccatgcgatcagtctttggggaaccatatacagggg Alignment from Spaln_aa2Genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG agagtcagcacctccactcaccaagagtatgctctctttctgtgtttcagCGGCTCCTGGCTGACCCC---ACTGGAGCCTTTGGGAAGgtaagtgtaccttgccatgcgatcagtctttggggaaccatatacagggg Alignment from Spaln_nt2Genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG agagtcagcacctccactcaccaagagtatgctctctttctgtgtttcag---CGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagtgtaccttgccatgcgatcagtctttggggaaccatatacagggg Alignment from Pairagon GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG agagtcagcacctccactcaccaagagtatgctctctttctgtgtttcag---CGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagtgtaccttgccatgcgatcagtctttggggaaccatatacagggg Alignment from Exonerate_protein2genome CGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG agagtcagcacctccactcaccaagagtatgctctctttctgtgtttcagCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagtgtaccttgccatgcgatcagtctttggggaaccatatacagggg Alignment from Exonerate_coding2genome CGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG agagtcagcacctccactcaccaagagtatgctctctttctgtgtttcagCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagtgtaccttgccatgcgatcagtctttggggaaccatatacagggg Alignment from GeneWise CGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG agagtcagcacctccactcaccaagagtatgctctctttctgtgtttcagCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGgtaagtgtaccttgccatgcgatcagtctttggggaaccatatacagggg #### Prpf19_ID3045_4 --> 0 - 1 Original Alignment CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg CCTTGCAAGATGAGTGGgtagggcttttactcaccctcggcttcctacag---------ATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtatgtcacatttcattgtagagtccctatgatttgtttgaacctggccc Alignment from CESAR CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg CCTTGCAAGATGAGTGGgtaaggcctttactcaccctcggcttcctacag---------ATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtatgtcacatttcattgtagagtccctatatcctcctcccgctttcccc Alignment from Spaln_aa2Genome CCTTGCAGGATGAGTGGGATGCAGTC------------------------ATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CCTTGCAAGATGAGTGGGTAGGGCTTTTACTCACCCTCGGCTTCCTACAGATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtatgtcacatttcattgtagagtccctatgatttgtttgaacctggccc Alignment from Spaln_nt2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CCTTGCAAGATGAGTGGgtagggcttttactcaccctcggcttcctacag---------ATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtatgtcacatttcattgtagagtccctatgatttgtttgaacctggccc Alignment from Pairagon CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CCTTGCAAGATGAGTGGgtagggcttttactcaccctcggcttcctacag---------ATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtatgtcacatttcattgtagagtccctatgatttgtttgaacctggccc Alignment from Exonerate_protein2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CCTTGCAAGATGAGTGGgtagggcttttactcaccctcggcttcctacag---------ATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtatgtcacatttcattgtagagtccctatgatttgtttgaacctggccc Alignment from Exonerate_coding2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CCTTGCAAGATGAGTGGgtagggcttttactcaccctcggcttcctacag---------ATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtatgtcacatttcattgtagagtccctatgatttgtttgaacctggccc Alignment from GeneWise CCTTGCAGGATGAGTGGGATGCAGTC------------------------ATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CCTTGCAAGATGAGTGGGTAGGGCTTTTACTCACCCTCGGCTTCCTACAGATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtatgtcacatttcattgtagagtccctatgatttgtttgaacctggccc #### Prpf19_ID3046_5 --> 2 - 0 Original Alignment ctCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--- aaggcacatttcattgtagagtccctatatcctcctcccgctttccccagccCTGGCCACCCTAAAACCACAAGCTGGCCTTATCGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGCTTgtgaggtttgcaccctcagcaccccactagcaaatgacacttcacgagag Alignment from CESAR ctCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--- atgtcacatttcattgtagagtccctatatcctcctcccgctttccccagccCTGGCCACCCTAAAACCACAAGCTGGCCTTATCGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGCTTgtgaggtttgcaccctcagcaccccactagcaaatgacacttcacgagag Alignment from Spaln_aa2Genome CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--- aaggcacatttcattgtagagtccctatatcctcctcccgctttccccagCCCTGGCCACCCTAAAACCACAAGCTGGCCTTATCGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGCTTgtgaggtttgcaccctcagcaccccactagcaaatgacacttcacgagag Alignment from Spaln_nt2Genome CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--- aaggcacatttcattgtagagtccctatatcctcctcccgctttccccagCCCTGGCCACCCTAAAACCACAAGCTGGCCTTATCGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGCTTgtgaggtttgcaccctcagcaccccactagcaaatgacacttcacgagag Alignment from Pairagon CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--- aaggcacatttcattgtagagtccctatatcctcctcccgctttccccagCCCTGGCCACCCTAAAACCACAAGCTGGCCTTATCGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGCTTgtgaggtttgcaccctcagcaccccactagcaaatgacacttcacgagag Alignment from Exonerate_protein2genome CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--- aaggcacatttcattgtagagtccctatatcctcctcccgctttccccagCCCTGGCCACCCTAAAACCACAAGCTGGCCTTATCGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGCTTgtgaggtttgcaccctcagcaccccactagcaaatgacacttcacgagag Alignment from Exonerate_coding2genome CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG--- aaggcacatttcattgtagagtccctatatcctcctcccgctttccccagCCCTGGCCACCCTAAAACCACAAGCTGGCCTTATCGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGCTTgtgaggtttgcaccctcagcaccccactagcaaatgacacttcacgagag Alignment from GeneWise CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTGGGT aaggcacatttcattgtagagtccctatatcctcctcccgctttccccagCCCTGGCCACCCTAAAACCACAAGCTGGCCTTATCGTACCTCAAGCTGTGCCAAGCTCACCACCCAGTGTAGTGCTTgtgaggtttgcaccctcagcaccccactagcaaatgacacttcacgagag #### Prpf19_ID3047_6 --> 0 - 0 Original Alignment GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG--- tcttgttgtagtgagattgccccactctgtcttttctcttgatcccacagGGGGCTGGAGAGGCCATGGACTTGGGTGAGCTGGTGGGGGGAATGACCCCTGAGATTATCCAGAAAGCCgtagattgagagcccgcctcccatgaaactgcaatctcatcatcacaacc Alignment from CESAR GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAGATTATCCAGAAG--- tcttgttgtagtgagattgccccactctgtcttttctcttgatcccacagGGGGCTGGAGAGGCCATGGACTTGGGTGAGCTGGTGGGGGGAATGACCCCTGAGATTATCCAGAAAGCCgtagattgagagcccgcctcccatgaaactgcaatctcatcatcacaacc Alignment from Spaln_aa2Genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAG tcttgttgtagtgagattgccccactctgtcttttctcttgatcccacagGGGGCTGGAGAGGCCATGGACTTGGGTGAGCTGGTGGGGGGAATGACCCCTGAGATTATCCAGAAAgccgtagattgagagcccgcctcccatgaaactgcaatctcatcatcacaacc Alignment from Spaln_nt2Genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGC---TGGTGGGAATGACCCCTGAGATTATCCAGAAG tcttgttgtagtgagattgccccactctgtcttttctcttgatcccacagGGGGCTGGAGAGGCCATGGACTTGGGTGAGCTGGTGGGGGGAATGACCCCTGAGATTATCCAGAAAgccgtagattgagagcccgcctcccatgaaactgcaatctcatcatcacaacc Alignment from Pairagon GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGT---GGGAATGACCCCTGAGATTATCCAGAAG--- tcttgttgtagtgagattgccccactctgtcttttctcttgatcccacagGGGGCTGGAGAGGCCATGGACTTGGGTGAGCTGGTGGGGGGAATGACCCCTGAGATTATCCAGAAAGCCgtagattgagagcccgcctcccatgaaactgcaatctcatcatcacaacc Alignment from Exonerate_protein2genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAGATTATCCAGAAG tcttgttgtagtgagattgccccactctgtcttttctcttgatcccacagGGGGCTGGAGAGGCCATGGACTTGGGTGAGCTGGTGGGGGGAATGACCCCTGAGATTATCCAGAAAgccgtagattgagagcccgcctcccatgaaactgcaatctcatcatcacaacc Alignment from Exonerate_coding2genome GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTG---GGAATGACCCCTGAGATTATCCAGAAG tcttgttgtagtgagattgccccactctgtcttttctcttgatcccacagGGGGCTGGAGAGGCCATGGACTTGGGTGAGCTGGTGGGGGGAATGACCCCTGAGATTATCCAGAAAgccgtagattgagagcccgcctcccatgaaactgcaatctcatcatcacaacc Alignment from GeneWise GGTGCAGGAGAGCCCATGGATTTGGGTGAGCTGGTGGGA---ATGACCCCTGAGATTATCCAGAAGCTT tcttgttgtagtgagattgccccactctgtcttttctcttgatcccacagGGGGCTGGAGAGGCCATGGACTTGGGTGAGCTGGTGGGGGGAATGACCCCTGAGATTATCCAGAAAGCCgtagattgagagcccgcctcccatgaaactgcaatctcatcatcacaacc #### Prpf19_ID3048_7 --> 0 - 0 Original Alignment ---CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG aaaatacagcccactctataattatttggggctcctcctgcctcttgcagACTCTTCAAGACAAGGCCACTGTGTTAACCACGGAACAAAAGAAAgtaagtctgtctgttatgaggatatctgcatctttggagagaagtgtgag Alignment from CESAR ---CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG aaaatacagcccactctataattatttggggctcctcctgcctcttgcagACTCTTCAAGACAAGGCCACTGTGTTAACCACGGAACAAAAGAAAgtaagtctgtctgttatgaggatatctgcatctttggagagaagtgtgag Alignment from Spaln_aa2Genome CTTCAAGACAAGGCT---ACTGTGCTAACCACGGAGCGTAAGAAG aaaatacagcccactctataattatttggggctcctcctgcctcttgcagACTCTTCAAGACAAGGCCACTGTGTTAACCACGGAACAAAAGAAAgtaagtctgtctgttatgaggatatctgcatctttggagagaagtgtgag Alignment from Spaln_nt2Genome GCTTCAAGAC--AAGGCTACTGTGCTAACCACGGAGCGTAAGAAG aaaatacagcccactctataattatttggggctcctcctgcctcttgcagACTCTTCAAGACAAGGCCACTGTGTTAACCACGGAACAAAAGAAAgtaagtctgtctgttatgaggatatctgcatctttggagagaagtgtgag Alignment from Pairagon ---CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG aaaatacagcccactctataattatttggggctcctcctgcctcttgcagACTCTTCAAGACAAGGCCACTGTGTTAACCACGGAACAAAAGAAAgtaagtctgtctgttatgaggatatctgcatctttggagagaagtgtgag Alignment from Exonerate_protein2genome ---CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG aaaatacagcccactctataattatttggggctcctcctgcctcttgcagACTCTTCAAGACAAGGCCACTGTGTTAACCACGGAACAAAAGAAAgtaagtctgtctgttatgaggatatctgcatctttggagagaagtgtgag Alignment from Exonerate_coding2genome ---CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG aaaatacagcccactctataattatttggggctcctcctgcctcttgcagACTCTTCAAGACAAGGCCACTGTGTTAACCACGGAACAAAAGAAAgtaagtctgtctgttatgaggatatctgcatctttggagagaagtgtgag Alignment from GeneWise ---CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG aaaatacagcccactctataattatttggggctcctcctgcctcttgcagACTCTTCAAGACAAGGCCACTGTGTTAACCACGGAACAAAAGAAAgtaagtctgtctgttatgaggatatctgcatctttggagagaagtgtgag #### Prpf19_ID3049_8 --> 0 - 0 Original Alignment ------------------------AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgctggttggggttttttttattgtactttcttcacagCATCTGGGCCTAAATCCTTTCATCAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaagggctaagggactcccactgttccccaaacaacatggatgggttag Alignment from CESAR ------------------------AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgctggttggggttttttttattgtactttcttcacagCATCTGGGCCTAAATCCTTTCATCAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaagggctaagggactcccactgttccccaaacaacatggatgggttag Alignment from Spaln_aa2Genome -GGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgctggttggggttttttttattgtactttcttcacagcatctgggcctaaatcctttcatcagAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaagggctaagggactcccactgttccccaaacaacatggatgggttag Alignment from Spaln_nt2Genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgctggttggggttttttttattgtactttcttcacagcatctgggcctaaatcctttcatcag--AGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaagggctaagggactcccactgttccccaaacaacatggatgggttag Alignment from Pairagon ------------------------AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgctggttggggttttttttattgtactttcttcacagCATCTGGGCCTAAATCCTTTCATCAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaagggctaagggactcccactgttccccaaacaacatggatgggttag Alignment from Exonerate_protein2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgctggttggggttttttttattgtactttcttcacagcatctgggcctaaatcctttcatcAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaagggctaagggactcccactgttccccaaacaacatggatgggttag Alignment from Exonerate_coding2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgctggttggggttttttttattgtactttcttcacagcatctgggcctaaatcctttcatcAGAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaagggctaagggactcccactgttccccaaacaacatggatgggttag Alignment from GeneWise AGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cactttatttgctgctggttggggttttttttattgtactttcttcacagcatctgggcctaaatcctttcatcagAGGAAAGACCGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaagggctaagggactcccactgttccccaaacaacatggatgggttag #### Pygm_ID1679_3 --> 0 - 1 Original Alignment CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA------g gtcttgttatgttagcatttgggttttagtctatttgtcttgtgttgcagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAAGATTAggtactgccacagcttgcagaggtgtggtatttactgactttaggtttatg Alignment from CESAR CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA------g gtcttgttatgttagcatttgggttttagtctatttgtcttgtgttgcagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAAGATTAggtactgccacagcttgcagaggtgtggtatttactgactttaggtttatg Alignment from Spaln_aa2Genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA------G gtcttgttatgttagcatttgggttttagtctatttgtcttgtgttgcagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAAGATTAGgtactgccacagcttgcagaggtgtggtatttactgactttaggtttatg Alignment from Spaln_nt2Genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA------G gtcttgttatgttagcatttgggttttagtctatttgtcttgtgttgcagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAAGATTAGgtactgccacagcttgcagaggtgtggtatttactgactttaggtttatg Alignment from Pairagon CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGC---------------------------------------------------------- gtcttgttatgttagcatttgggttttagtctatttgtcttgtgttgcagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAAGATTAGGTACTGCCACAGCTTGCAGAGGTGTGGTATTTACTGACTTTAGGTTTATG Alignment from Exonerate_protein2genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG gtcttgttatgttagcatttgggttttagtctatttgtcttgtgttgcagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAAgattaggtactgccacagcttgcagaggtgtggtatttactgactttaggtttatg Alignment from Exonerate_coding2genome CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCAG gtcttgttatgttagcatttgggttttagtctatttgtcttgtgttgcagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAAgattaggtactgccacagcttgcagaggtgtggtatttactgactttaggtttatg Alignment from GeneWise CTGGGCTTGGACATGGAGGAGTTGGAGGAGATCGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTGGCA--------------------------------------------------------- gtcttgttatgttagcatttgggttttagtctatttgtcttgtgttgcagCTGGGCTTGGACATGGAGGAGTTGGAGGAGATTGAGGAGGATGCAGGGTTGGGCAATGGGGGCCTGGGACGCCTAGCAAGATTAGGTACTGCCACAGCTTGCAGAGGTGTGGTATTTACTGACTTTAGGTTTATG #### Pygm_ID1683_7 --> 2 - 0 Original Alignment tcAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--------- aataccatctgttgcagttagcactgagacatttctgttttgtatttcagtcAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATCTGTTGCCCgtaagtcaccctccaccagaggcaataaacctaggcaaccatgaagggga Alignment from CESAR tcAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--------- aagtccatctgttgcagttagcactgagacatttctgttttgtatttcagtcAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATCTGTTGCCCgtaagtcaccctccaccagaggcaataaacctaggcaaccatgaagggga Alignment from Spaln_aa2Genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--------- aataccatctgttgcagttagcactgagacatttctgttttgtatttcagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATCTGTTGCCCgtaagtcaccctccaccagaggcaataaacctaggcaaccatgaagggga Alignment from Spaln_nt2Genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT-- aataccatctgttgcagttagcactgagacatttctgttttgtatttcagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATCTgttgcccgtaagtcaccctccaccagaggcaataaacctaggcaaccatgaagggga Alignment from Pairagon TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--------- aataccatctgttgcagttagcactgagacatttctgttttgtatttcagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATCTGTTGCCCgtaagtcaccctccaccagaggcaataaacctaggcaaccatgaagggga Alignment from Exonerate_protein2genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT aataccatctgttgcagttagcactgagacatttctgttttgtatttcagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATctgttgcccgtaagtcaccctccaccagaggcaataaacctaggcaaccatgaagggga Alignment from Exonerate_coding2genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT aataccatctgttgcagttagcactgagacatttctgttttgtatttcagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATctgttgcccgtaagtcaccctccaccagaggcaataaacctaggcaaccatgaagggga Alignment from GeneWise TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT--------- aataccatctgttgcagttagcactgagacatttctgttttgtatttcagTCAATGTTGGTGGCTACATTCTGGCTGTGCTGGACCGGAACCTAGCTGAGAACATCTCCCGTGTATTATACCCCAATGATAATCTGTTGCCCgtaagtcaccctccaccagaggcaataaacctaggcaaccatgaagggga #### Pygm_ID1685_9 --> 0 - 0 Original Alignment GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTG---GCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggagcatttactataatcccctctgctactaacctctccacattttagGTGGTGATCCAACTCAATGACACACATCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGAC---------gtgaggcttatgggggacgtcaccatcacccccggaagcacctgttccac Alignment from CESAR GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggagcatttactataatcccctctgctactaacctctccacattttagGTGGTGATCCAACTCAATGACACACATCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGAC---------gtgaggcttatgggggacgtcaccatcacccccggaagcac Alignment from Spaln_aa2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGAC atggagcatttactataatcccctctgctactaacctctccacattttagGTGGTGATCCAACTCAATGACACACATCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACgtgaggcttatgggggacgtcaccatcacccccggaagcacctgttccac Alignment from Spaln_nt2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATC---CCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGAC atggagcatttactataatcccctctgctactaacctctccacattttagGTGGTGATCCAACTCAATGACACACATCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACgtgaggcttatgggggacgtcaccatcacccccggaagcacctgttccac Alignment from Pairagon GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATC---CCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGAC atggagcatttactataatcccctctgctactaacctctccacattttagGTGGTGATCCAACTCAATGACACACATCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACgtgaggcttatgggggacgtcaccatcacccccggaagcacctgttccac Alignment from Exonerate_protein2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggagcatttactataatcccctctgctactaacctctccacattttagGTGGTGATCCAACTCAATGACACACATCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACGTGAGGCTTatgggggacgtcaccatcacccccggaagcacctgttccac Alignment from Exonerate_coding2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG atggagcatttactataatcccctctgctactaacctctccacattttagGTGGTGATCCAACTCAATGACACACATCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACGTGAGGCTTatgggggacgtcaccatcacccccggaagcacctgttccac Alignment from GeneWise GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCC---ATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGAC---------TGGGACAAG atggagcatttactataatcccctctgctactaacctctccacattttagGTGGTGATCCAACTCAATGACACACATCATTCTTTGGCCACCATTCCAGAGCTGATGAGGATTCCAGTAGACCTTGAACAACTAGACGTGAGGCTTATGGGGGACgtcaccatcacccccggaagcacctgttccac #### Pygm_ID1686_10 --> 0 - 0 Original Alignment GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggaggtcaactgaaatccaatctataacactgtttcagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCCGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGTAACgtgagtatgggacaatgagaaaggagccccagcatgagggagcatatgta Alignment from CESAR GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTT------AAC gcaaagatgtgtggaggtcaactgaaatccaatctataacactgtttcagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCCGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGTAACgtgagtatgggacaatgagaaaggagccccagcatgagggagcatatgta Alignment from Spaln_aa2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggaggtcaactgaaatccaatctataacactgtttcagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCCGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGTAACgtgagtatgggacaatgagaaaggagccccagcatgagggagcatatgta Alignment from Spaln_nt2Genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCT------TAAC gcaaagatgtgtggaggtcaactgaaatccaatctataacactgtttcagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCCGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGTAACgtgagtatgggacaatgagaaaggagccccagcatgagggagcatatgta Alignment from Pairagon GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCT------TAAC gcaaagatgtgtggaggtcaactgaaatccaatctataacactgtttcagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCCGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGTAACgtgagtatgggacaatgagaaaggagccccagcatgagggagcatatgta Alignment from Exonerate_protein2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTT------AAC gcaaagatgtgtggaggtcaactgaaatccaatctataacactgtttcagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCCGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGTAACgtgagtatgggacaatgagaaaggagccccagcatgagggagcatatgta Alignment from Exonerate_coding2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTT------AAC gcaaagatgtgtggaggtcaactgaaatccaatctataacactgtttcagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCCGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGTAACgtgagtatgggacaatgagaaaggagccccagcatgagggagcatatgta Alignment from GeneWise GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC------ gcaaagatgtgtggaggtcaactgaaatccaatctataacactgtttcagGCCTGGGATGTTACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCCGTGCATCTCATGGAGACACTGCTACCCCGTCACTTGCAGATAATTTATGAGATTAATCAGTGTTTCCTAAATAGTAACgtgagtatgggacaatgagaaaggagccccagcatgagggagcatatgta #### Pygm_ID1695_19 --> 1 - 0 Original Alignment g---TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcatttcctgttacagatctgctgtgacagcattgtatctacagaGTGTTTAAAGTGTTTGTAGATCACGAGGAATATATTAAATGCCAGGACAAAGTCAGTGGGTTATATAATgtgagttagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from CESAR g---TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcatttcctgttacagatctgctgtgacagcattgtatctacagaGTGTTTAAAGTGTTTGTAGATCACGAGGAATATATTAAATGCCAGGACAAAGTCAGTGGGTTATATAATgtgagttagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Spaln_aa2Genome GTTTAAAGTC---TTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcatttcctgttacagatctgctgtgacagcattgtatctacagAGTGTTTAAAGTGTTTGTAGATCACGAGGAATATATTAAATGCCAGGACAAAGTCAGTGGGTTATATAATgtgagttagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Spaln_nt2Genome GTTTAAAGTCTTT---GCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcatttcctgttacagatctgctgtgacagcattgtatctacagAGTGTTTAAAGTGTTTGTAGATCACGAGGAATATATTAAATGCCAGGACAAAGTCAGTGGGTTATATAATgtgagttagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Pairagon ---GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcatttcctgttacagatctgctgtgacagcattgtatctacagAGTGTTTAAAGTGTTTGTAGATCACGAGGAATATATTAAATGCCAGGACAAAGTCAGTGGGTTATATAATgtgagttagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Exonerate_protein2genome G---TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcatttcctgttacagatctgctgtgacagcattgtatctacagAGTGTTTAAAGTGTTTGTAGATCACGAGGAATATATTAAATGCCAGGACAAAGTCAGTGGGTTATATAATgtgagttagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from Exonerate_coding2genome G---TTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcatttcctgttacagatctgctgtgacagcattgtatctacagAGTGTTTAAAGTGTTTGTAGATCACGAGGAATATATTAAATGCCAGGACAAAGTCAGTGGGTTATATAATgtgagttagtgttcagtaaccagggatggggaagacccattgctcttggc Alignment from GeneWise -CGGTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG aacctagcatttcctgttacagatctgctgtgacagcattgtatctacagAGTGTTTAAAGTGTTTGTAGATCACGAGGAATATATTAAATGCCAGGACAAAGTCAGTGGGTTATATAATgtgagttagtgttcagtaaccagggatggggaagacccattgctcttggc #### Rab3il1_ID2652_7 --> 0 - 2 Original Alignment CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCaa tctgatagtgatctgtcaccatctcaatcaccctaccccatgtcccacagCTTTCAGCTTTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATTGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGT---------aagtaggttcacgcgtgtggggctcaggggggcagtggaggagggatatcag Alignment from CESAR CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCaa tctgatagtgatctgtcaccatctcaatcaccctaccccatgtcccacagCTTTCAGCTTTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATTGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGT---------aagtaggttcacgcgtgtggggctcaggggggcagtggaggagggatatcag Alignment from Spaln_aa2Genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAA tctgatagtgatctgtcaccatctcaatcaccctaccccatgtcccacagCTTTCAGCTTTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATTGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAAgtaggttcacgcgtgtggggctcaggggggcagtggaggagggatatcag Alignment from Spaln_nt2Genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAA tctgatagtgatctgtcaccatctcaatcaccctaccccatgtcccacagCTTTCAGCTTTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATTGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAAgtaggttcacgcgtgtggggctcaggggggcagtggaggagggatatcag Alignment from Pairagon CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAA tctgatagtgatctgtcaccatctcaatcaccctaccccatgtcccacagCTTTCAGCTTTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATTGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAAgtaggttcacgcgtgtggggctcaggggggcagtggaggagggatatcag Alignment from Exonerate_protein2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAACACAT tctgatagtgatctgtcaccatctcaatcaccctaccccatgtcccacagCTTTCAGCTTTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATTGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAAGTAGGTTCACGCGTgtggggctcaggggggcagtggaggagggatatcag Alignment from Exonerate_coding2genome CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAACAACACCAACACAT tctgatagtgatctgtcaccatctcaatcaccctaccccatgtcccacagCTTTCAGCTTTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATTGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAAGTAGGTTCACGCGTgtggggctcaggggggcagtggaggagggatatcag Alignment from GeneWise CTCTCAGCTCTGGTTCGGACTGCTGTGGAGGACAACACACTCACCATTGAGCCTGTGGCTTCACAGACACTGCCCGCTGTGAAGGTGCCCACTGTTGAGTGTAA tctgatagtgatctgtcaccatctcaatcaccctaccccatgtcccacagCTTTCAGCTTTGGTTCGAACTGCTGTAGAGGACAATACACTCACCATTGAGCCTGTAGCTTCACAGACATTGCCTGCAGTGAAGGTGCCTAGTGTTGAGTGTAAgtaggttcacgcgtgtggggctcaggggggcagtggaggagggatatcag #### Rasgrp2_ID1711_10 --> 0 - 0 Original Alignment ---CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttcaactacaactctctggtttctctgtcttcttggtccgcagAACCCTACCAGCCCTACCAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAGGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtgcgcgtgcactgggttttctgaagctctacccggcacccaatggtcca Alignment from CESAR ---CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttcaactacaactctctggtttctctgtcttcttggtccgcagAACCCTACCAGCCCTACCAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAGGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtgcgcgtgcactgggttttctgaagctctacccggcacccaatggtcca Alignment from Spaln_aa2Genome TCGCCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttcaactacaactctctggtttctctgtcttcttggtccgcagAACCCTACCAGCCCTACCAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAGGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtgcgcgtgcactgggttttctgaagctctacccggcacccaatggtcca Alignment from Spaln_nt2Genome ---CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttcaactacaactctctggtttctctgtcttcttggtccgcagAACCCTACCAGCCCTACCAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAGGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtgcgcgtgcactgggttttctgaagctctacccggcacccaatggtcca Alignment from Pairagon ---CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttcaactacaactctctggtttctctgtcttcttggtccgcagAACCCTACCAGCCCTACCAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAGGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtgcgcgtgcactgggttttctgaagctctacccggcacccaatggtcca Alignment from Exonerate_protein2genome TCGCCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttcaactacaactctctggtttctctgtcttcttggtccgcagAACCCTACCAGCCCTACCAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAGGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtgcgcgtgcactgggttttctgaagctctacccggcacccaatggtcca Alignment from Exonerate_coding2genome TCGCCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttcaactacaactctctggtttctctgtcttcttggtccgcagAACCCTACCAGCCCTACCAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAGGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtgcgcgtgcactgggttttctgaagctctacccggcacccaatggtcca Alignment from GeneWise ---CCAACCAGCCCCACCAGCTGCACCCCGCCTCCCCGGCCCCCTGTGTTGGAAGAGTGGACCTCAGTTGCCAAGCCTAAGCTGGACCAAGCCTTGGTGGCAGAGCACATTGAGAAGATGGTGGAG ggttgacttcaactacaactctctggtttctctgtcttcttggtccgcagAACCCTACCAGCCCTACCAGCTGTATGTCACCTCCTCGACCCCCAGTGTTAGAAGAGTGGACATCAGCTGCTAAACCTAATCTTGATCAGGCCTTAGTGGCAGAGCATATTGAGAGGATGGTTGAGgtgcgcgtgcactgggttttctgaagctctacccggcacccaatggtcca #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag atcttgcaggtgggaggtgaacctagactttttctttcatcttttaaaagTTTTCAGGGCTCTGGTACACTATTGCA---AAGGACCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGTCATATGAGTGCCACTGCCAAGGGACAGGTC---------aggtactcgactctcgcgggcctgattggaggtggtagataggaaagggaaa Alignment from CESAR TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag atcttgcaggtgggaggtgaacctagactttttctttcatcttttaaaagTTTTCAGGGCTCTGGTACACTATTGCA---AAGGACCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGTCATATGAGTGCCACTGCCAAGGGACAGGTC---------aggtactcgactctcgcgggcctgattggaggtggtagataggaaagggaaa Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCG atcttgcaggtgggaggtgaacctagactttttctttcatcttttaaaagTTTTCAGGGCTCTGGTACACTATTGCA---AAGGACCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGTCATATGAGTGCCACTGCCAAGGGACAGGTCAGgtactcgactctcgcgggcctgattggaggtggtagataggaaagggaaa Alignment from Spaln_nt2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCG atcttgcaggtgggaggtgaacctagactttttctttcatcttttaaaagTTTTCAGGGCTCTGGTACACTATTGC---AAAGGACCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGTCATATGAGTGCCACTGCCAAGGGACAGGTCAGgtactcgactctcgcgggcctgattggaggtggtagataggaaagggaaa Alignment from Pairagon TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG atcttgcaggtgggaggtgaacctagactttttctttcatcttttaaaagTTTTCAGGGCTCTGGTACACTATTGC---AAAGGACCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGTCATATGAGTGCCACTGCCAAGGGAC--------------AGgtcaggtactcgactctcgcgggcctgattggaggtggtagataggaaagggaaa Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGA atcttgcaggtgggaggtgaacctagactttttctttcatcttttaaaagTTTTCAGGGCTCTGGTACACTATTGCA---AAGGACCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGTCATATGAGTGCCACTGCCAAGGGACAGGTCAGGTACTCGActctcgcgggcctgattggaggtggtagataggaaagggaaa Alignment from Exonerate_coding2genome CGTTTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGA atcttgcaggtgggaggtgaacctagactttttctttcatcttttaaAAGTTTTCAGGGCTCTGGTACACTATTGCA---AAGGACCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGTCATATGAGTGCCACTGCCAAGGGACAGGTCAGGTACTCGActctcgcgggcctgattggaggtggtagataggaaagggaaa Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCG atcttgcaggtgggaggtgaacctagactttttctttcatcttttaaaagTTTTCAGGGCTCTGGTACACTATTGCAAAG---GACCCCAAGGGGCTCTTTTTGCAAGACAATATCATTGCTGAGTTTTCCGTAGATGAGAAGGGTCATATGAGTGCCACTGCCAAGGGACAGGTCAGgtactcgactctcgcgggcctgattggaggtggtagataggaaagggaaa #### Rce1_ID575_7 --> 2 - 1 Original Alignment cg------TTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg tgagggtgtggtgggtgtgatcttgtggacattccaactcttctcttcagcaATCGAATTTCAGTTCTCGTACACCGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATCCGCACAggtgagtcaccaccccatcatgaacaaaggcaaaagtttgatcaccatctt Alignment from CESAR cg------TTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg tgagggtgtggtgggtgtgatcttgtggacattccaactcttctcttcagcaATCGAATTTCAGTTCTCGTACACCGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATCCGCACAggtgagtcaccaccccatcatgaacaaaggcaaaagtttgatcaccatctt Alignment from Spaln_aa2Genome CG------TTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG tgagggtgtggtgggtgtgatcttgtggacattccaactcttctcttcagCAATCGAATTTCAGTTCTCGTACACCGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgagtcaccaccccatcatgaacaaaggcaaaagtttgatcaccatctt Alignment from Spaln_nt2Genome CGTTC------CAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG tgagggtgtggtgggtgtgatcttgtggacattccaactcttctcttcagCAATCGAATTTCAGTTCTCGTACACCGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgagtcaccaccccatcatgaacaaaggcaaaagtttgatcaccatctt Alignment from Pairagon C------GTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG tgagggtgtggtgggtgtgatcttgtggacattccaactcttctcttcagCAATCGAATTTCAGTTCTCGTACACCGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgagtcaccaccccatcatgaacaaaggcaaaagtttgatcaccatctt Alignment from Exonerate_protein2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG tgagggtgtggtgggtgtgatcttgtggacattccaactcttctcttcagcaatcgAATTTCAGTTCTCGTACACCGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgagtcaccaccccatcatgaacaaaggcaaaagtttgatcaccatctt Alignment from Exonerate_coding2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG tgagggtgtggtgggtgtgatcttgtggacattccaactcttctcttcagcaatcgAATTTCAGTTCTCGTACACCGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgagtcaccaccccatcatgaacaaaggcaaaagtttgatcaccatctt Alignment from GeneWise -----GCGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG tgagggtgtggtgggtgtgatcttgtggacattccaactcttctcttcagCAATCGAATTTCAGTTCTCGTACACCGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATCCGCACAGgtgagtcaccaccccatcatgaacaaaggcaaaagtttgatcaccatctt #### Rce1_ID577_5 --> 2 - 1 Original Alignment cc---------CCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCACATTATT aatagatatggaagtcagggctagcttactgctggttccttttctttcagccCCGGTCTTTCCTTGTTCGTGGGCTCGATGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACGGGGGAGCTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTggtgagtctgcatacttttttttccatgcagccCATTTTCAGCACATTATA Alignment from CESAR cc---------CCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg ccCATTTTCACCACATTATT aatagatatggaagtcagggctagcttactgctggttccttttctttcagccCCGGTCTTTCCTTGTTCGTGGGCTCGATGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACGGGGGAGCTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTggtgagcctacccactcttgctattttccagccCATTTTCAGCACATTATA Alignment from Spaln_aa2Genome CC---------CCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------------------------------GCCCATTTTCACCACATTATT aatagatatggaagtcagggctagcttactgctggttccttttctttcagCCCCGGTCTTTCCTTGTTCGTGGGCTCGATGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACGGGGGAGCTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGGTGAGTCTGCATACTTTTTTTTCCATGCAGCCCATTTTCAGCACATTATA Alignment from Spaln_nt2Genome CCCC---------TCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATT aatagatatggaagtcagggctagcttactgctggttccttttctttcagCCCCGGTCTTTCCTTGTTCGTGGGCTCGATGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACGGGGGAGCTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGG----GgttggtgagtctgcatacttttttttccatgcagCCCATTTTCAGCACATTATA Alignment from Pairagon CC---------CCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATT aatagatatggaagtcagggctagcttactgctggttccttttctttcagCCCCGGTCTTTCCTTGTTCGTGGGCTCGATGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACGGGGGAGCTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGgtgagtctgcatacttttttttccatgcagCCCATTTTCAGCACATTATA Alignment from Exonerate_protein2genome TTGTCCTGGCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATT aatagatatggaagtcagggctagcttactgctggttccttttctttcagCCCCGGTCTTTCCTTGTTCGTGGGCTCGATGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACGGGGGAGCTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGgtgagtctgcatacttttttttccatgcagCCCATTTTCAGCACATTATA Alignment from Exonerate_coding2genome TTGTCCTGGCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCG CCCATTTTCACCACATTATT aatagatatggaagtcagggctagcttactgctggttccttttctttcagCCCCGGTCTTTCCTTGTTCGTGGGCTCGATGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACGGGGGAGCTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGgtgagtctgcatacttttttttccatgcagCCCATTTTCAGCACATTATA Alignment from GeneWise --------GCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC------------------------------GCCCATTTTCACCACATTATT aatagatatggaagtcagggctagcttactgctggttccttttctttcagCCCCGGTCTTTCCTTGTTCGTGGGCTCGATGCCTCACAGACATGCGCTGGCTAAGAAACAAAGTTATTGCACCACTGACGGGGGAGCTGGTGTTCCGGGCATGCATGTTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCAGCTGTGTTCACATGCCCACTCTTTTTTGGGGTTGGTGAGTCTGCATACTTTTTTTTCCATGCAGCCCATTTTCAGCACATTATA #### Rce1_ID579_3 --> 0 - 0 Original Alignment CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG taaccaatgggctccgattatcccttattttctgaccttttttgttacag---------------------TTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCACTGCTACTAACTATGgtaaaacatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from CESAR CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG tctattttgctcacaaaagcataactattttctgaccttttttgttacag---------------------TTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCACTGCTACTAACTATGgtaaaacatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Spaln_aa2Genome TTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG taaccaatgggctccgattatcccttattttctgaccttttttgttacagTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCACTGCTACTAACTATGgtaaaacatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Spaln_nt2Genome TTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG taaccaatgggctccgattatcccttattttctgaccttttttgttacagTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCACTGCTACTAACTATGgtaaaacatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Pairagon CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG taaccaatgggctccgattatcccttattttctgaccttttttgttacag---------------------TTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCACTGCTACTAACTATGgtaaaacatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Exonerate_protein2genome TTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG taaccaatgggctccgattatcccttattttctgaccttttttgttacagTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCACTGCTACTAACTATGgtaaaacatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from Exonerate_coding2genome TTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG taaccaatgggctccgattatcccttattttctgaccttttttgttacagTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCACTGCTACTAACTATGgtaaaacatgcttgatattttcactactctattgtaactagtgtaatgga Alignment from GeneWise TTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG taaccaatgggctccgattatcccttattttctgaccttttttgttacagTTGATGGGTTTCAGGCTTGAGGGCATTTTCCCAGCAGCACTGCTGCCACTGCTACTAACTATGgtaaaacatgcttgatattttcactactctattgtaactagtgtaatgga #### Rcor2_ID2093_4 --> 0 - 0 Original Alignment ---------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatttagcattggcatggccagtgcttatgtgtcttaatgaatctacagTGTCCAAATGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTTCAGCGTATCCAGCAAATGgtaagcctgtaattaggcccccttgaatactcctcagccctttaggcaga Alignment from CESAR ---------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatttagcattggcatggccagtgcttatgtgtcttaatgaatctacagTGTCCAAATGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTTCAGCGTATCCAGCAAATGgtaagcctgtaattaggcccccttgaatactcctcagccctttaggcaga Alignment from Spaln_aa2Genome GCACTCGGCATG---------CTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatttagcattggcatggccagtgcttatgtgtcttaatgaatctacagTGTCCAAATGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTTCAGCGTATCCAGCAAATGgtaagcctgtaattaggcccccttgaatactcctcagccctttaggcaga Alignment from Spaln_nt2Genome GCACTCGGCATG---------CTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatttagcattggcatggccagtgcttatgtgtcttaatgaatctacagTGTCCAAATGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTTCAGCGTATCCAGCAAATGgtaagcctgtaattaggcccccttgaatactcctcagccctttaggcaga Alignment from Pairagon ---------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatttagcattggcatggccagtgcttatgtgtcttaatgaatctacagTGTCCAAATGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTTCAGCGTATCCAGCAAATGgtaagcctgtaattaggcccccttgaatactcctcagccctttaggcaga Alignment from Exonerate_protein2genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatttagcattggcatggccagtgcttatgtgtcttaatgaatctacagtgtccaaatGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTTCAGCGTATCCAGCAAATGgtaagcctgtaattaggcccccttgaatactcctcagccctttaggcaga Alignment from Exonerate_coding2genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatttagcattggcatggccagtgcttatgtgtcttaatgaatctacagtgtccaaatGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTTCAGCGTATCCAGCAAATGgtaagcctgtaattaggcccccttgaatactcctcagccctttaggcaga Alignment from GeneWise ---------GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG taatttagcattggcatggccagtgcttatgtgtcttaatgaatctacagTGTCCAAATGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTGGCCAATTTCACTCCCTTTCCTGATGAGTGGACAGTGGAAGATAAGGTGTTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTTCAGCGTATCCAGCAAATGgtaagcctgtaattaggcccccttgaatactcctcagccctttaggcaga #### Rcor2_ID2098_9 --> 0 - 1 Original Alignment GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAg tcattttttgctttcattgatgtttcttaactcactttcaacatttttag------ACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTCAAggtaagggaggctatcgtgagactccaaaattctggggacctttgggacct Alignment from CESAR GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAg ctttcctcattttttgctttcattgcttaactcactttcaacatttttag------ACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTCAAggtaagggaggctatcgtgagactccaaaattctggggacctttgggacct Alignment from Spaln_aa2Genome GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG tcattttttgctttcattgatgtttcttaactcactttcaacatttttag------ACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTCAAGgtaagggaggctatcgtgagactccaaaattctggggacctttgggacct Alignment from Spaln_nt2Genome GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG tcattttttgctttcattgatgtttcttaactcactttcaacatttttag------ACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTCAAGgtaagggaggctatcgtgagactccaaaattctggggacctttgggacct Alignment from Pairagon GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG tcattttttgctttcattgatgtttcttaactcactttcaacatttttag------ACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTCAAGgtaagggaggctatcgtgagactccaaaattctggggacctttgggacct Alignment from Exonerate_protein2genome GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG tcattttttgctttcattgatgtttcttaactcactttcaacatTTTTAGACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTCAAGgtaagggaggctatcgtgagactccaaaattctggggacctttgggacct Alignment from Exonerate_coding2genome GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG tcattttttgctttcattgatgtttcttaactcactttcaacatTTTTAGACCAAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTCAAGgtaagggaggctatcgtgagactccaaaattctggggacctttgggacct Alignment from GeneWise GCTAATACCAAGTTCAACTCCCGCTGGACCACTGATGAGCAACTTCTAGCTGTTCAAG tcattttttgctttcattgatgtttcttaactcactttcaacatttttagACC------AAGTTCAACTCCCGCTGGACCACTGATGAGGAACTTCTAGCAGTTCAAGgtaagggaggctatcgtgagactccaaaattctggggacctttgggacct #### Rcor2_ID2099_10 --> 2 - 0 Original Alignment ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG acaggccattctagatctacagtcagatctgctgcctcccttgctcacagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCCGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAA---------gtaccggaagataaactggggtctcaaggaggaggtgactctctatggaa Alignment from CESAR ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG acaggccattctagatctacagtcagatctgctgcctcccttgctcacagccATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCCGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAA---------gtaccggaagataaactggggtctcaaggaggaggtgactc Alignment from Spaln_aa2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAA acaggccattctagatctacagtcagatctgctgcctcccttgctcacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCCGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAgtaccggaagataaactggggtctcaaggaggaggtgactctctatggaa Alignment from Spaln_nt2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAA acaggccattctagatctacagtcagatctgctgcctcccttgctcacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCCGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAgtaccggaagataaactggggtctcaaggaggaggtgactctctatggaa Alignment from Pairagon CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAG-------------------------ATGATGAG acaggccattctagatctacagtcagatctgctgcctcccttgctcacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCCGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGTACCGGAAGATAAACTGGGGTCTCAAGGAGGAGgtgactctctatggaa Alignment from Exonerate_protein2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG acaggccattctagatctacagtcagatctgctgcctcccttgctcacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCCGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGTACCGGAAgataaactggggtctcaaggaggaggtgactctctatggaa Alignment from Exonerate_coding2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG acaggccattctagatctacagtcagatctgctgcctcccttgctcacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCCGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGTACCGGAAgataaactggggtctcaaggaggaggtgactctctatggaa Alignment from GeneWise CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG acaggccattctagatctacagtcagatctgctgcctcccttgctcacagCCATTTGTAGATATGGGACAGACTTTGGGGCTATTGCAGAAGTGATCGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGCCGCCACTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCCGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAA---------GAAgtaccggaagataaactggggtctcaaggaggaggtgactctctatggaa #### Rin1_ID808_3 --> 0 - 1 Original Alignment ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg cagggatgaacatagagacccagaaacctgacttttttttcctcttccag---TTTGTGGTACGCAAATACAACACCCGCCAGTGCCAGGCTCTGTGTGTGCGGTTGCCAGAACCTAGCGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGCggtaagcagggtatctaaggggtcggggcacaatgacaagtacatgaatgg Alignment from CESAR ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg ggacagggatgaacatagagacccaacctgacttttttttcctcttccag---TTTGTGGTACGCAAATACAACACCCGCCAGTGCCAGGCTCTGTGTGTGCGGTTGCCAGAACCTAGCGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGCggtaagcagggtatctaaggggtcggggcacaatgacaagtacatgaatgg Alignment from Spaln_aa2Genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG cagggatgaacatagagacccagaaacctgacttttttttcctcttccag---TTTGTGGTACGCAAATACAACACCCGCCAGTGCCAGGCTCTGTGTGTGCGGTTGCCAGAACCTAGCGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGCGgtaagcagggtatctaaggggtcggggcacaatgacaagtacatgaatgg Alignment from Spaln_nt2Genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG cagggatgaacatagagacccagaaacctgacttttttttcctcttccag---TTTGTGGTACGCAAATACAACACCCGCCAGTGCCAGGCTCTGTGTGTGCGGTTGCCAGAACCTAGCGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGCGgtaagcagggtatctaaggggtcggggcacaatgacaagtacatgaatgg Alignment from Pairagon ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG cagggatgaacatagagacccagaaacctgacttttttttcctcttccag---TTTGTGGTACGCAAATACAACACCCGCCAGTGCCAGGCTCTGTGTGTGCGGTTGCCAGAACCTAGCGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGCGgtaagcagggtatctaaggggtcggggcacaatgacaagtacatgaatgg Alignment from Exonerate_protein2genome TTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG cagggatgaacatagagacccagaaacctgacttttttttcctcttccagTTTGTGGTACGCAAATACAACACCCGCCAGTGCCAGGCTCTGTGTGTGCGGTTGCCAGAACCTAGCGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGCGgtaagcagggtatctaaggggtcggggcacaatgacaagtacatgaatgg Alignment from Exonerate_coding2genome TTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG cagggatgaacatagagacccagaaacctgacttttttttcctcttccagTTTGTGGTACGCAAATACAACACCCGCCAGTGCCAGGCTCTGTGTGTGCGGTTGCCAGAACCTAGCGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGCGgtaagcagggtatctaaggggtcggggcacaatgacaagtacatgaatgg Alignment from GeneWise --------------------------------------------------TTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG CAGGGATGAACATAGAGACCCAGAAACCTGACTTTTTTTTCCTCTTCCAGTTTGTGGTACGCAAATACAACACCCGCCAGTGCCAGGCTCTGTGTGTGCGGTTGCCAGAACCTAGCGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGCGgtaagcagggtatctaaggggtcggggcacaatgacaagtacatgaatgg #### Rin1_ID809_4 --> 2 - 2 Original Alignment gt---------------------------GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tggggaccccaatgagctaaacagatagagtactttttatttgatcacaggaGCAATGGAGGTGAGCTGTGAGGTCGTAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGTCGTACCaggtgagtctgtctgtgagcacctgctgagctttcaagccaactcactgcac Alignment from CESAR gt---------------------------GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag tggggaccccaatgagctaaacagatagagtactttttatttgatcacaggaGCAATGGAGGTGAGCTGTGAGGTCGTAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGTCGTACCaggtgagtctgtctgtgagcacctgctgagctttcaagccaactcactgcac Alignment from Spaln_aa2Genome GT---------------------------GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tggggaccccaatgagctaaacagatagagtactttttatttgatcacagGAGCAATGGAGGTGAGCTGTGAGGTCGTAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGTCGTACCAGgtgagtctgtctgtgagcacctgctgagctttcaagccaactcactgcac Alignment from Spaln_nt2Genome GTGTCTCTTTGG----AGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tggggaccccaatgagctaaacagatagagtactttttatttgatcacaggagcaatggaggtgagctgtgagGTCGTAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGTCGTACCAGgtgagtctgtctgtgagcacctgctgagctttcaagccaactcactgcac Alignment from Pairagon --------------------------------------------------------------------------------TCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG TGGGGACCCCAATGAGCTAAACAGATAGAGTACTTTTTATTTGATCACAGGAGCAATGGAGGTGAGCTGTGAGGTCGTAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGTCGTACCAGgtgagtctgtctgtgagcacctgctgagctttcaagccaactcactgcac Alignment from Exonerate_protein2genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tggggaccccaatgagctaaacagatagagtactttttatttgatcacaggagcaatggaggtgagctgtgaggtcgTAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGTCGTACCAGgtgagtctgtctgtgagcacctgctgagctttcaagccaactcactgcac Alignment from Exonerate_coding2genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tggggaccccaatgagctaaacagatagagtactttttatttgatcacaggagcaatggaggtgagctgtgaggtcgTAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGTCGTACCAGgtgagtctgtctgtgagcacctgctgagctttcaagccaactcactgcac Alignment from GeneWise -----------------------GGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG tggggaccccaatgagctaaacagatagagtactttttatttgatcacaggagCAATGGAGGTGAGCTGTGAGGTCGTAATCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTTGTACAACTCATC------TATTGTCGTACCAGgtgagtctgtctgtgagcacctgctgagctttcaagccaactcactgcac #### Rin1_ID810_5 --> 1 - 1 Original Alignment aGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg cctccctggagacctttccctagactcttaaatattgtattaaattttagg---ATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGggtgagcatatcctgtagccttttatataagacatgttgaggttacttggt Alignment from CESAR aGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg cttcctccctggagacctttccctatcttaaatattgtattaaattttagg---ATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGggtgagcatatcctgtagccttttatataagacatgttgaggttacttggt Alignment from Spaln_aa2Genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG cctccctggagacctttccctagactcttaaatattgtattaaattttagG---ATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcatatcctgtagccttttatataagacatgttgaggttacttggt Alignment from Spaln_nt2Genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG cctccctggagacctttccctagactcttaaatattgtattaaattttag---GATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcatatcctgtagccttttatataagacatgttgaggttacttggt Alignment from Pairagon AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG cctccctggagacctttccctagactcttaaatattgtattaaattttag---GATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcatatcctgtagccttttatataagacatgttgaggttacttggt Alignment from Exonerate_protein2genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG cctccctggagacctttccctagactcttaaatattgtattaaattttagG---ATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcatatcctgtagccttttatataagacatgttgaggttacttggt Alignment from Exonerate_coding2genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG cctccctggagacctttccctagactcttaaatattgtattaaattttagG---ATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcatatcctgtagccttttatataagacatgttgaggttacttggt Alignment from GeneWise AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG cctccctggagacctttccctagactcttaaatattgtattaaattttagG---ATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagcatatcctgtagccttttatataagacatgttgaggttacttggt #### Rnaseh2c_ID1103_2 --> 2 - 0 Original Alignment ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC--------- tgtaggtcttgagctccatgggctgcacttaatctcttttctttgcccaggaTTACAGGCACCATTTCATGGTCGTGGTCTGTGGGGTGAGGAGGTAGCTGTGCCACCAGAGTTTGCGGGATTTGTGATGGTGACAGAG------------------------------------------------------------GACGATGCCCAAGAGCCATTAGAGAGAGACTTGAAAATCCATgtgagcatggagagatagtacaggtgagagcattttgcatgagggtgtct Alignment from CESAR ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC--------- tgtaggtcttgagctccatgggctgcacttaatctcttttctttgcccaggaTTACAGGCACCATTTCATGGTCGTGGTCTGTGGGGTGAGGAGGTAGCTGTGCCACCAGAGTTTGCGGGATTTGTGATGGTGACAGAG------------------------------------------------------------GACGATGCCCAAGAGCCATTAGAGAGAGACTTGAAAATCCATgtgagcatggagagatagtacaggtgagagcattttgcatgagggtgtct Alignment from Spaln_aa2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC--------- tgtaggtcttgagctccatgggctgcacttaatctcttttctttgcccagGATTACAGGCACCATTTCATGGTCGTGGTCTGTGGGGTGAGGAGGTAGCTGTGCCACCAGAGTTTGCGGGATTTGTGATGGTGACAGAG------------------------------------------------------------GACGATGCCCAAGAGCCATTAGAGAGAGACTTGAAAATCCATgtgagcatggagagatagtacaggtgagagcattttgcatgagggtgtct Alignment from Spaln_nt2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGT--TGATAGGGAAACT-GAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGA tgtaggtcttgagctccatgggctgcacttaatctcttttctttgcccagGATTACAGGCACCATTTCATGGTCGTGGTCTGTGGGGTGAGGAGGTAGCTGTGCCACCAGAGTTTGCGGGATTTGTGATGGTGACAGAGGACGATGCCCAAGAGCCATTAGAGAGAGACTTGAAAATCCATGTGAGCATGGAG---AGATAGTAC-AGGTG--AGAGCATTTTGCATGAGG Alignment from Pairagon GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC--------- tgtaggtcttgagctccatgggctgcacttaatctcttttctttgcccagGATTACAGGCACCATTTCATGGTCGTGGTCTGTGGGGTGAGGAGGTAGCTGTGCCACCAGAGTTTGCGGGATTTGTGATGGTGACAGA------------------------------------------------------------GGACGATGCCCAAGAGCCATTAGAGAGAGACTTGAAAATCCATgtgagcatggagagatagtacaggtgagagcattttgcatgagggtgtct Alignment from Exonerate_protein2genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAG tgtaggtcttgagctccatgggctgcacttaatctcttttctttgcccagGATTACAGGCACCATTTCATGGTCGTGGTCTGTGGGGTGAGGAGGTAGCTGTGCCACCAGAGTTTGCGGGATTTGTGATGGTGACAGAGGACGATGCCCAAgagccattagagagagacttgaaaatccatgtgagcatggagagatagtacaggtgagagcattttgcatgagggtgtct Alignment from Exonerate_coding2genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAG tgtaggtcttgagctccatgggctgcacttaatctcttttctttgcccagGATTACAGGCACCATTTCATGGTCGTGGTCTGTGGGGTGAGGAGGTAGCTGTGCCACCAGAGTTTGCGGGATTTGTGATGGTGACAGAGGACGATGCCCAAgagccattagagagagacttgaaaatccatgtgagcatggagagatagtacaggtgagagcattttgcatgagggtgtct Alignment from GeneWise GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC--------- tgtaggtcttgagctccatgggctgcacttaatctcttttctttgcccagGATTACAGGCACCATTTCATGGTCGTGGTCTGTGGGGTGAGGAGGTAGCTGTGCCACCAGAGTTTGCGGGATTTGTGATGGTGACAGAG------------------------------------------------------------GACGATGCCCAAGAGCCATTAGAGAGAGACTTGAAAATCCATgtgagcatggagagatagtacaggtgagagcattttgcatgagggtgtct #### Rpp30_ID7089_9 --> 0 - 2 Original Alignment ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACtt gtaaacaagctgtgtactggttcaaacactctatcccgtgcccactttagTATGACTTTCCCTTGGAAATACGAGGACCATACGATGTGGCAAATttgtgatgtatcagtataagttcattagtatgatatttggggtagtcctctc Alignment from CESAR ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACtt gtaaacaagctgtgtactggttcaaacactctatcccgtgcccactttagTATGACTTTCCCTTGGAAATACGAGGACCATACGATGTGGCAAATttgtgatgtatcagtataagttcattagtatgatatttggggtagtcctctc Alignment from Spaln_aa2Genome ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACT gtaaacaagctgtgtactggttcaaacactctatcccgtgcccactttagTATGACTTTCCCTTGGAAATACGAGGACCATACGATGTGGCAAATTTgtgatgtatcagtataagttcattagtatgatatttggggtagtcctctc Alignment from Spaln_nt2Genome GCCTTTGGAAAT--------AAGAGGACCATATGACGTGGCAAACTT gtaaacaagctgtgtactggttcaaacactctatcccgtgcccactttagTATGACTTTCCCTTGGAAATACGAGGACCATACGATGTGGCAAATTTgtgatgtatcagtataagttcattagtatgatatttggggtagtcctctc Alignment from Pairagon ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT gtaaacaagctgtgtactggttcaaacactctatcccgtgcccactttagTATGACTTTCCCTTGGAAATACGAGGACCATACGATGTGGCAAATTTgtgatgtatcagtataagttcattagtatgatatttggggtagtcctctc Alignment from Exonerate_protein2genome CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT gtaaacaagctgtgtactggttcaaacactctatcccgtgcccactttagtatgactttCCCTTGGAAATACGAGGACCATACGATGTGGCAAATTTgtgatgtatcagtataagttcattagtatgatatttggggtagtcctctc Alignment from Exonerate_coding2genome GCAGAAAGGCCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT gtaaacaagctgtgtactggttcaaacactctatcccgtgcccactttagTATGACTTTCCCTTGGAAATACGAGGACCATACGATGTGGCAAATTTgtgatgtatcagtataagttcattagtatgatatttggggtagtcctctc Alignment from GeneWise AATGTAATTCTGTCCAGTGCTGCAGAAAGGCCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT gtaaacaagctgtgtactggttcaaacactctatcccgtgcccactttagTAT---------------------GACTTTCCCTTGGAAATACGAGGACCATACGATGTGGCAAATTTgtgatgtatcagtataagttcattagtatgatatttggggtagtcctctc #### Rps6ka4_ID1805_15 --> 0 - 1 Original Alignment TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAg gttctacctgctggcagtgaggaatggttagtgttgcctgtgccttgcagTACATGATGCTCTCTAGCCAGGTTCCGTTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGTT---ggtgagaaggtgttggaggatgggatctgattaaggaaggagcaatgtagg Alignment from CESAR TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAg gttctacctgctggcagtgaggaatggttagtgttgcctgtgccttgcagTACATGATGCTCTCTAGCCAGGTTCCGTTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGTT---ggtgagaaggtgttggaggatgggatctgattaaggaaggagcaatgtagg Alignment from Spaln_aa2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTC- gttctacctgctggcagtgaggaatggttagtgttgcctgtgccttgcagTACATGATGCTCTCTAGCCAGGTTCCGTTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGTTGgtgagaaggtgttggaggatgggatctgattaaggaaggagcaatgtagg Alignment from Spaln_nt2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAG gttctacctgctggcagtgaggaatggttagtgttgcctgtgccttgcagTACATGATGCTCTCTAGCCAGGTTCCGTTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGT---TGgtgagaaggtgttggaggatgggatctgattaaggaaggagcaatgtagg Alignment from Pairagon TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCG------------------------------------------------- gttctacctgctggcagtgaggaatggttagtgttgcctgtgccttgcagTACATGATGCTCTCTAGCCAGGTTCCGTTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGTTGGTGAGAAGGTGTTGGAGGATGGGATCTGATTAAGGAAGGAGCAATGTAGG Alignment from Exonerate_protein2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCC gttctacctgctggcagtgaggaatggttagtgttgcctgtgccttgcagTACATGATGCTCTCTAGCCAGGTTCCGTTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGTTGgtgagaaggtgttggaggatgggatctgattaaggaaggagcaatgtagg Alignment from Exonerate_coding2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCC gttctacctgctggcagtgaggaatggttagtgttgcctgtgccttgcagTACATGATGCTCTCTAGCCAGGTTCCGTTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGTTGgtgagaaggtgttggaggatgggatctgattaaggaaggagcaatgtagg Alignment from GeneWise TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCC gttctacctgctggcagtgaggaatggttagtgttgcctgtgccttgcagTACATGATGCTCTCTAGCCAGGTTCCGTTCCAAGGCGCTCCAGGCCAGGGTGGACAGAGCCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGACGTTTTTCTCTGGATGGGGAGGCTTGGCAGGGTGTTTTGGAGGAAGCCAAGGAGCTGGTTGgtgagaaggtgttggaggatgggatctgattaaggaaggagcaatgtagg #### Rps6ka4_ID1806_14 --> 0 - 0 Original Alignment ---------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gtatagttgatgggcctgacccctgactttcatactttcttctttaatagGACGACATCAATATCTTATATGCAGATGATCCACCCGGAGCACCACTCAAAATCATTGACTTTGGATTCACACAACTGCGGCCCCAAAGTCCAGCAGGACCAATGCGAGCTCCCTGCTTTACACTACAGTACACTGCCCCTGAGCTACTGGCACAGCAAGGTTATGACGAAGCTTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagcttctcagtggagggtattattccttgtaccaaataatttccatt Alignment from CESAR ---------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gtatagttgatgggcctgacccctgactttcatactttcttctttaatagGACGACATCAATATCTTATATGCAGATGATCCACCCGGAGCACCACTCAAAATCATTGACTTTGGATTCACACAACTGCGGCCCCAAAGTCCAGCAGGACCAATGCGAGCTCCCTGCTTTACACTACAGTACACTGCCCCTGAGCTACTGGCACAGCAAGGTTATGACGAAGCTTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagcttctcagtggagggtattattccttgtaccaaataatttccatt Alignment from Spaln_aa2Genome AACATCTTGTAC---------GCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gtatagttgatgggcctgacccctgactttcatactttcttctttaatagGACGACATCAATATCTTATATGCAGATGATCCACCCGGAGCACCACTCAAAATCATTGACTTTGGATTCACACAACTGCGGCCCCAAAGTCCAGCAGGACCAATGCGAGCTCCCTGCTTTACACTACAGTACACTGCCCCTGAGCTACTGGCACAGCAAGGTTATGACGAAGCTTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagcttctcagtggagggtattattccttgtaccaaataatttccatt Alignment from Spaln_nt2Genome AAC---------ATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gtatagttgatgggcctgacccctgactttcatactttcttctttaatagGACGACATCAATATCTTATATGCAGATGATCCACCCGGAGCACCACTCAAAATCATTGACTTTGGATTCACACAACTGCGGCCCCAAAGTCCAGCAGGACCAATGCGAGCTCCCTGCTTTACACTACAGTACACTGCCCCTGAGCTACTGGCACAGCAAGGTTATGACGAAGCTTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagcttctcagtggagggtattattccttgtaccaaataatttccatt Alignment from Pairagon -----------------------------------------------------------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG GTATAGTTGATGGGCCTGACCCCTGACTTTCATACTTTCTTCTTTAATAGGACGACATCAATATCTTATATGCAGATGATCCACCCGGAGCACCACTCAAAATCATTGACTTTGGATTCACACAACTGCGGCCCCAAAGTCCAGCAGGACCAATGCGAGCTCCCTGCTTTACACTACAGTACACTGCCCCTGAGCTACTGGCACAGCAAGGTTATGACGAAGCTTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagcttctcagtggagggtattattccttgtaccaaataatttccatt Alignment from Exonerate_protein2genome ---------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gtatagttgatgggcctgacccctgactttcatactttcttctttaatagGACGACATCAATATCTTATATGCAGATGATCCACCCGGAGCACCACTCAAAATCATTGACTTTGGATTCACACAACTGCGGCCCCAAAGTCCAGCAGGACCAATGCGAGCTCCCTGCTTTACACTACAGTACACTGCCCCTGAGCTACTGGCACAGCAAGGTTATGACGAAGCTTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagcttctcagtggagggtattattccttgtaccaaataatttccatt Alignment from Exonerate_coding2genome ---------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gtatagttgatgggcctgacccctgactttcatactttcttctttaatagGACGACATCAATATCTTATATGCAGATGATCCACCCGGAGCACCACTCAAAATCATTGACTTTGGATTCACACAACTGCGGCCCCAAAGTCCAGCAGGACCAATGCGAGCTCCCTGCTTTACACTACAGTACACTGCCCCTGAGCTACTGGCACAGCAAGGTTATGACGAAGCTTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagcttctcagtggagggtattattccttgtaccaaataatttccatt Alignment from GeneWise ---------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gtatagttgatgggcctgacccctgactttcatactttcttctttaatagGACGACATCAATATCTTATATGCAGATGATCCACCCGGAGCACCACTCAAAATCATTGACTTTGGATTCACACAACTGCGGCCCCAAAGTCCAGCAGGACCAATGCGAGCTCCCTGCTTTACACTACAGTACACTGCCCCTGAGCTACTGGCACAGCAAGGTTATGACGAAGCTTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagcttctcagtggagggtattattccttgtaccaaataatttccatt #### Rps6ka4_ID1807_13 --> 0 - 0 Original Alignment CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagtacactatgcagcaaccctttctgactttgtttcctttctttag---------TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaaatggaggaacaaggacatggagctcagtatagttgatgggcctgac Alignment from CESAR CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG agatgaatacctgagtacactatgcttctgactttgtttcctttctttag---------TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaaatggaggaacaaggacatggagctcagtatagttgatgggcctgac Alignment from Spaln_aa2Genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagtacactatgcagcaaccctttctgactttgtttcctttctttag---------TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaaatggaggaacaaggacatggagctcagtatagttgatgggcctgac Alignment from Spaln_nt2Genome TACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagtacactatgcagcaaccctttctgactttgtttcctttctttagTACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaaatggaggaacaaggacatggagctcagtatagttgatgggcctgac Alignment from Pairagon CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagtacactatgcagcaaccctttctgactttgtttcctttctttag---------TACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaaatggaggaacaaggacatggagctcagtatagttgatgggcctgac Alignment from Exonerate_protein2genome TTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagtacactatgcagcaaccctttctgactttgtttcctttctttaGTACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaaatggaggaacaaggacatggagctcagtatagttgatgggcctgac Alignment from Exonerate_coding2genome TTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagtacactatgcagcaaccctttctgactttgtttcctttctttaGTACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaaatggaggaacaaggacatggagctcagtatagttgatgggcctgac Alignment from GeneWise TACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG cctgagtacactatgcagcaaccctttctgactttgtttcctttctttagTACCTGGTCCTGGAGTTGCTACGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAATCAGAGGCCAGCCAGATCCTTCGGAGTCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtaaatggaggaacaaggacatggagctcagtatagttgatgggcctgac #### Rps6ka4_ID1808_12 --> 1 - 0 Original Alignment g------CTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG gaaaccaggccctggattccctcactgttaaagccgtgcttccttcacaggAGTCCGCTGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGCCAGTCACACCCCAATGTGGTGAATCTGCATGAGGTGCTTCATGATCAGgtaagcaaggcttgttagtgacaacctgtgtagagtgggagagagatgga Alignment from CESAR g------CTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG gaaaccaggccctggattccctcactgttaaagccgtgcttccttcacaggAGTCCGCTGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGCCAGTCACACCCCAATGTGGTGAATCTGCATGAGGTGCTTCATGATCAGgtaagcaaggcttgttagtgacaacctgtgtagagtgggagagagatgga Alignment from Spaln_aa2Genome GCTGGAGGAGAAC------ACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG gaaaccaggccctggattccctcactgttaaagccgtgcttccttcacagGAGTCCGCTGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGCCAGTCACACCCCAATGTGGTGAATCTGCATGAGGTGCTTCATGATCAGgtaagcaaggcttgttagtgacaacctgtgtagagtgggagagagatgga Alignment from Spaln_nt2Genome G------CTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG gaaaccaggccctggattccctcactgttaaagccgtgcttccttcacagGAGTCCGCTGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGCCAGTCACACCCCAATGTGGTGAATCTGCATGAGGTGCTTCATGATCAGgtaagcaaggcttgttagtgacaacctgtgtagagtgggagagagatgga Alignment from Pairagon ------GCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG gaaaccaggccctggattccctcactgttaaagccgtgcttccttcacagGAGTCCGCTGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGCCAGTCACACCCCAATGTGGTGAATCTGCATGAGGTGCTTCATGATCAGgtaagcaaggcttgttagtgacaacctgtgtagagtgggagagagatgga Alignment from Exonerate_protein2genome G------CTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG gaaaccaggccctggattccctcactgttaaagccgtgcttccttcacagGAGTCCGCTGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGCCAGTCACACCCCAATGTGGTGAATCTGCATGAGGTGCTTCATGATCAGgtaagcaaggcttgttagtgacaacctgtgtagagtgggagagagatgga Alignment from Exonerate_coding2genome G------CTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG gaaaccaggccctggattccctcactgttaaagccgtgcttccttcacagGAGTCCGCTGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGCCAGTCACACCCCAATGTGGTGAATCTGCATGAGGTGCTTCATGATCAGgtaagcaaggcttgttagtgacaacctgtgtagagtgggagagagatgga Alignment from GeneWise -AGGCTGGAGGAGAACACTCAGCGAGAGGTGGCTGCTCTTCGCCTGTGCCAGTCACACCCCAACGTGGTGAATCTGCATGAGGTGCTTCATGACCAG gaaaccaggccctggattccctcactgttaaagccgtgcttccttcacaggagTCCGCTGGAGGAGAACACACAGCAAGAGGTGGCTGCTCTTCGCCTTTGCCAGTCACACCCCAATGTGGTGAATCTGCATGAGGTGCTTCATGATCAGgtaagcaaggcttgttagtgacaacctgtgtagagtgggagagagatgga #### Rps6ka4_ID1809_11 --> 0 - 2 Original Alignment GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGC---------ag attttggcttgtgtgagtgtataaatatctgatcactgtgcttattttagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTCTCAGTTGCCTCTTTGGAaggtaaaggccacctctatgagcagaggcctcccaagaggaccacaggtgtt Alignment from CESAR GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGC---------ag attttggcttgtgtgagtgtataaatatctgatcactgtgcttattttagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTCTCAGTTGCCTCTTTGGAaggtaaaggccacctctatgagcagaggcctcccaagaggaccacaggtgtt Alignment from Spaln_aa2Genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGC---------CGCAG attttggcttgtgtgagtgtataaatatctgatcactgtgcttattttagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTCTCAGTTGCCTCTTTGGAAGgtaaaggccacctctatgagcagaggcctcccaagaggaccacaggtgtt Alignment from Spaln_nt2Genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGC---------AG attttggcttgtgtgagtgtataaatatctgatcactgtgcttattttagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTCTCAGTTGCCTCTTTGGAAGgtaaaggccacctctatgagcagaggcctcccaagaggaccacaggtgtt Alignment from Pairagon GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGC---------AG attttggcttgtgtgagtgtataaatatctgatcactgtgcttattttagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTCTCAGTTGCCTCTTTGGAAGgtaaaggccacctctatgagcagaggcctcccaagaggaccacaggtgtt Alignment from Exonerate_protein2genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCAG attttggcttgtgtgagtgtataaatatctgatcactgtgcttattttagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTCTCAGTTGCCTctttggaaggtaaaggccacctctatgagcagaggcctcccaagaggaccacaggtgtt Alignment from Exonerate_coding2genome GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGCAG attttggcttgtgtgagtgtataaatatctgatcactgtgcttattttagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTCTCAGTTGCCTctttggaaggtaaaggccacctctatgagcagaggcctcccaagaggaccacaggtgtt Alignment from GeneWise GACTCGCCTTTCTTCCAGCAGTACGAACTGGACCTTCGGGAGCCAGCGCTGGGGCAGGGCAGCTTCTCTGTGTGTCGGAGATGTAGGCAGCGCCAGAGCGGCCAGGAGTTTGCTGTCAAGATCCTCAGCCGC---------AG attttggcttgtgtgagtgtataaatatctgatcactgtgcttattttagGACTCACCCTTGTTACAGCAGTACGAGCTTGACCTTTGGGAACCAGCACTGGGGCAGGGCAGCTTCTCTGTGTGCCGGAGATGTAGACAGCGTCAGACTGGCCGGGAGTTTGCTGTCAAGATTCTCAGTTGCCTCTTTGGAAGgtaaaggccacctctatgagcagaggcctcccaagaggaccacaggtgtt #### Rps6ka4_ID1813_7 --> 0 - 2 Original Alignment GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCC---cg tggtggacaaaggttgcgtataaggtctgtgatggcttctgcctccccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCACcggtgaggtggatttgttattgaggttgccagatttagtatagcagtgctgt Alignment from CESAR GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCC---cg tggtggacaaaggttgcgtataaggtctgtgatggcttctgcctccccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCACcggtgaggtggatttgttattgaggttgccagatttagtatagcagtgctgc Alignment from Spaln_aa2Genome GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCGA-- tggtggacaaaggttgcgtataaggtctgtgatggcttctgcctccccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCACCGgtgaggtggatttgttattgaggttgccagatttagtatagcagtgctgt Alignment from Spaln_nt2Genome GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTC---CCG tggtggacaaaggttgcgtataaggtctgtgatggcttctgcctccccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCACCGgtgaggtggatttgttattgaggttgccagatttagtatagcagtgctgt Alignment from Pairagon GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTC---CCG tggtggacaaaggttgcgtataaggtctgtgatggcttctgcctccccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCACCGgtgaggtggatttgttattgaggttgccagatttagtatagcagtgctgt Alignment from Exonerate_protein2genome GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCC---CG tggtggacaaaggttgcgtataaggtctgtgatggcttctgcctccccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCACCGgtgaggtggatttgttattgaggttgccagatttagtatagcagtgctgt Alignment from Exonerate_coding2genome GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCC---CG tggtggacaaaggttgcgtataaggtctgtgatggcttctgcctccccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCACCGgtgaggtggatttgttattgaggttgccagatttagtatagcagtgctgt Alignment from GeneWise GCTGTGGACTGGTGGAGCCTGGGTATCCTGCTCTTCGAGCTGCTGACAGGGGCCTCACCCTTCACACTGGAGGGAGAGAGGAACACTCAGGCTGAGGTGTCCCGA-- tggtggacaaaggttgcgtataaggtctgtgatggcttctgcctccccagGCTGTGGACTGGTGGAGCCTTGGTATACTTCTCTTTGGGTTGCTTACAGGGGCTTCACCCTTCACACTGGAGAGGGAGAGGAACACTCAGGCTGAGGTGTCTCACCGgtgaggtggatttgttattgaggttgccagatttagtatagcagtgctgt #### Rps6ka4_ID1814_6 --> 0 - 0 Original Alignment ------AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagctagatgtgttccatttttatgttgtagTTATCAAAAGAATGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGACATGGTAAGgtgagttgcattggtggacaaaggttgcgtataaggtctactggaccacc Alignment from CESAR ------AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagctagatgtgttccatttttatgttgtagTTATCAAAAGAATGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGACATGGTAAGgtgagttgcattggtggacaaaggttgcgtataaggtctgtgatggcttc Alignment from Spaln_aa2Genome ------AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAA gtgggggcaagaattgactaagctagatgtgttccatttttatgttgtagTTATCAAAAGAATGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGACATGGTAAGgtgagttgcattggtggacaaaggttgcgtataaggtctactggaccacc Alignment from Spaln_nt2Genome AAAGAGCGGACCT------TCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagctagatgtgttccatttttatgttgtagTTATCAAAAGAATGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGACATGGTAAGgtgagttgcattggtggacaaaggttgcgtataaggtctactggaccacc Alignment from Pairagon ------AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagctagatgtgttccatttttatgttgtagTTATCAAAAGAATGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGACATGGTAAGgtgagttgcattggtggacaaaggttgcgtataaggtctactggaccacc Alignment from Exonerate_protein2genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagctagatgtgttccatttttatgttgtagttatcaAAAGAATGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGACATGGTAAGgtgagttgcattggtggacaaaggttgcgtataaggtctactggaccacc Alignment from Exonerate_coding2genome gtgggggcaagaattgactaagctagatgtgttccatttttatgttgtagttatcaaaagaatggaccttttccttctgtggtacagttgaatacatggctcctgaaattgtccgtagcaaagctggacatggtaaggtgagttgcattggtggacaaaggttgcgtataaggtctactggaccacc Alignment from GeneWise ------AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG gtgggggcaagaattgactaagctagatgtgttccatttttatgttgtagTTATCAAAAGAATGGACCTTTTCCTTCTGTGGTACAGTTGAATACATGGCTCCTGAAATTGTCCGTAGCAAAGCTGGACATGGTAAGgtgagttgcattggtggacaaaggttgcgtataaggtctactggaccacc #### Rps6ka4_ID1818_2 --> 2 - 1 Original Alignment ccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAg gggcataggtgtcctcaacatcctccctaaaaagtacttgttcattttagcc------ACTGGGCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAggtattgaacaacttttgtgagctggatgttgaggggttgagggcattgca Alignment from CESAR ccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAg attgaggggcataggtgtcctcaaccctaaaaagtacttgttcattttagcc------ACTGGGCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAggtattgaacaacttttgtgagctggatgttgaggggttgagggcattgca Alignment from Spaln_aa2Genome TCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG gggcataggtgtcctcaacatcctccctaaaaagtacttgttcattttagCCACTGGGCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtattgaacaacttttgtgagctggatgttgaggggttgagggcattgca Alignment from Spaln_nt2Genome CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG gggcataggtgtcctcaacatcctccctaaaaagtacttgttcattttagC------CACTGGGCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtattgaacaacttttgtgagctggatgttgaggggttgagggcattgca Alignment from Pairagon CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG gggcataggtgtcctcaacatcctccctaaaaagtacttgttcattttagC------CACTGGGCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtattgaacaacttttgtgagctggatgttgaggggttgagggcattgca Alignment from Exonerate_protein2genome TCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG gggcataggtgtcctcaacatcctccctaaaaagtacttgttcattttagCCACTGGGCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtattgaacaacttttgtgagctggatgttgaggggttgagggcattgca Alignment from Exonerate_coding2genome ACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG gggcataggtgtcctcaacatcctccctaaaaagtacttgttcattttagccACTGGGCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtattgaacaacttttgtgagctggatgttgaggggttgagggcattgca Alignment from GeneWise TCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG gggcataggtgtcctcaacatcctccctaaaaagtacttgttcattttagCCACTGGGCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtattgaacaacttttgtgagctggatgttgaggggttgagggcattgca #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---ag tgcaagggattgcgatacctgcattacttttgtctctataaaataaacagGGTTTTACGTATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCCAAGCTGCGCTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCTATCACTaggtaaggggcaaggcagataaatgtctagtcaggcactcccaaaaatggat Alignment from CESAR GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---ag tgcaagggattgcgatacctgcattacttttgtctctataaaataaacagGGTTTTACGTATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCCAAGCTGCGCTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCTATCACTaggtaaggggcaaggcagataaatgtctagtcaggcactcccaaaaatggat Alignment from Spaln_aa2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAGC-- tgcaagggattgcgatacctgcattacttttgtctctataaaataaacagGGTTTTACGTATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCCAAGCTGCGCTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCTATCACTAGgtaaggggcaaggcagataaatgtctagtcaggcactcccaaaaatggat Alignment from Spaln_nt2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCA---G tgcaagggattgcgatacctgcattacttttgtctctataaaataaacagGGTTTTACGTATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCCAAGCTGCGCTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCTATCACTAGgtaaggggcaaggcagataaatgtctagtcaggcactcccaaaaatggat Alignment from Pairagon GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---AG tgcaagggattgcgatacctgcattacttttgtctctataaaataaacagGGTTTTACGTATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCCAAGCTGCGCTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCTATCACTAGgtaaggggcaaggcagataaatgtctagtcaggcactcccaaaaatggat Alignment from Exonerate_protein2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---AG tgcaagggattgcgatacctgcattacttttgtctctataaaataaacagGGTTTTACGTATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCCAAGCTGCGCTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCTATCACTAGgtaaggggcaaggcagataaatgtctagtcaggcactcccaaaaatggat Alignment from Exonerate_coding2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---AG tgcaagggattgcgatacctgcattacttttgtctctataaaataaacagGGTTTTACGTATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCCAAGCTGCGCTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCTATCACTAGgtaaggggcaaggcagataaatgtctagtcaggcactcccaaaaatggat Alignment from GeneWise GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAGC-- tgcaagggattgcgatacctgcattacttttgtctctataaaataaacagGGTTTTACGTATGTGGCACCTTTCGTCCTGGATAGCATCAAAGAGGGTTTTTCATTCCAACCCAAGCTGCGCTCTCCACGATGCCTTAACAGCAGTCCCCGCACACCTATCACTAGgtaaggggcaaggcagataaatgtctagtcaggcactcccaaaaatggat #### Rps6kb2_ID370_12 --> 0 - 0 Original Alignment AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gcaggtagacaagctgagttgacatagtccagtatccttctaatccacagAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTAGCCTGCCGCGTGGACCCTCTCTTCAGGCCAAGTCTGTCTTGGGGAgtaagaatatggacgttgttttgactacataatatagagattacctctgt Alignment from CESAR AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gcaggtagacaagctgagttgacatagtccagtatccttctaatccacagAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTAGCCTGCCGCGTGGACCCTCTCTTCAGGCCAAGTCTGTCTTGGGGAgtaagaatatggacgttgttttgactacataatatagagattacctctgt Alignment from Spaln_aa2Genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gcaggtagacaagctgagttgacatagtccagtatccttctaatccacagAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTAGCCTGCCGCGTGGACCCTCTCTTCAGGCCAAGTCTGTCTTGGGGAgtaagaatatggacgttgttttgactacataatatagagattacctctgt Alignment from Spaln_nt2Genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCT gcaggtagacaagctgagttgacatagtccagtatccttctaatccacagAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTAGCCTGCCGCGTGGACCCTCTCTTCAGGCCAAGTCTgtcttggggagtaagaatatggacgttgttttgactacataatatagagattacctctgt Alignment from Pairagon AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gcaggtagacaagctgagttgacatagtccagtatccttctaatccacagAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTAGCCTGCCGCGTGGACCCTCTCTTCAGGCCAAGTCTGTCTTGGGGAgtaagaatatggacgttgttttgactacataatatagagattacctctgt Alignment from Exonerate_protein2genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcaggtagacaagctgagttgacatagtccagtatccttctaatccacagAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTAGCCTGCCGCGTGGACCCTCTCTTCAGGCCAAGTCTGtcttggggagtaagaatatggacgttgttttgactacataatatagagattacctctgt Alignment from Exonerate_coding2genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcaggtagacaagctgagttgacatagtccagtatccttctaatccacagAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTAGCCTGCCGCGTGGACCCTCTCTTCAGGCCAAGTCTGtcttggggagtaagaatatggacgttgttttgactacataatatagagattacctctgt Alignment from GeneWise AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gcaggtagacaagctgagttgacatagtccagtatccttctaatccacagAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTAGCCTGCCGCGTGGACCCTCTCTTCAGGCCAAGTCTGTCTTGGGGAgtaagaatatggacgttgttttgactacataatatagagattacctctgt #### Rps6kb2_ID374_8 --> 2 - 2 Original Alignment gcCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACat gctagtgtccattgatcagtcctctactaaccccagagttttctttgcaggt---------CTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCAACCATACTTTCTGTGGCACCATTGAGTACatgtgagtttggaaggagtaccacaaagggactacaattatgtgatgctcct Alignment from CESAR gcCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACat ttcagttttgctagtgtccattgatactaaccccagagttttctttgcaggt---------CTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCAACCATACTTTCTGTGGCACCATTGAGTACatgtgagtttggaaggagtaccacaaagggactacaattatgttgttttatt Alignment from Spaln_aa2Genome AACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT gctagtgtccattgatcagtcctctactaaccccagagttttctttgcagGTCTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCAACCATACTTTCTGTGGCACCATTGAGTACATgtgagtttggaaggagtaccacaaagggactacaattatgtgatgctcct Alignment from Spaln_nt2Genome GCCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT gctagtgtccattgatcagtcctctactaaccccagagttttctttgcagG---------TCTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCAACCATACTTTCTGTGGCACCATTGAGTACATgtgagtttggaaggagtaccacaaagggactacaattatgtgatgctcct Alignment from Pairagon GCCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT gctagtgtccattgatcagtcctctactaaccccagagttttctttgcagGT---------CTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCAACCATACTTTCTGTGGCACCATTGAGTACATgtgagtttggaaggagtaccacaaagggactacaattatgtgatgctcct Alignment from Exonerate_protein2genome AACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT gctagtgtccattgatcagtcctctactaaccccagagttttctttgcagGTCTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCAACCATACTTTCTGTGGCACCATTGAGTACATgtgagtttggaaggagtaccacaaagggactacaattatgtgatgctcct Alignment from Exonerate_coding2genome AACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT gctagtgtccattgatcagtcctctactaaccccagagttttctttgcagGTCTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCAACCATACTTTCTGTGGCACCATTGAGTACATgtgagtttggaaggagtaccacaaagggactacaattatgtgatgctcct Alignment from GeneWise AACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT gctagtgtccattgatcagtcctctactaaccccagagttttctttgcagGTCTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCAACCATACTTTCTGTGGCACCATTGAGTACATgtgagtttggaaggagtaccacaaagggactacaattatgtgatgctcct #### Rps6kb2_ID379_3 --> 1 - 0 Original Alignment gACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG--------------------------------- ctttggagtacataagatcttttccctctacacctacccaattcctacaggACAGTGGGACACTATGAAGAAGTGGAACTGACAGAGAGCAGTGTAAACCTTGATCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGTTATGGAAAGAAGTTTATTATGGAAGGATTTAACACCATGGAAgtaagtccatcttactcccagcgacttcagcccaagtgcaagtgcaatta Alignment from CESAR gACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG--------------------------------- ctttggagtacataagatcttttccctctacacctacccaattcctacaggACAGTGGGACACTATGAAGAAGTGGAACTGACAGAGAGCAGTGTAAACCTTGATCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGTTATGGAAAGAAGTTTATTATGGAAGGATTTAACACCATGGAAgtaagtccatcttactcccagcgacttcagcccaagtgcaagtgcaatta Alignment from Spaln_aa2Genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG------ ctttggagtacataagatcttttccctctacacctacccaattcctacagGACAGTGGGACACTATGAAGAAGTGGAACTGACAGAGAGCAGTGTAAACCTTGATCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGTTATGGAAAGAAGTTTattatggaaggatttaacaccatggaagtaagtccatcttactcccagcgacttcagcccaagtgcaagtgcaatta Alignment from Spaln_nt2Genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG-- ctttggagtacataagatcttttccctctacacctacccaattcctacagGACAGTGGGACACTATGAAGAAGTGGAACTGACAGAGAGCAGTGTAAACCTTGATCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGTTATGGAAAGAAgtttattatggaaggatttaacaccatggaagtaagtccatcttactcccagcgacttcagcccaagtgcaagtgcaatta Alignment from Pairagon GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG--------------------------------- ctttggagtacataagatcttttccctctacacctacccaattcctacagGACAGTGGGACACTATGAAGAAGTGGAACTGACAGAGAGCAGTGTAAACCTTGATCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGTTATGGAAAGAAGTTTATTATGGAAGGATTTAACACCATGGAAgtaagtccatcttactcccagcgacttcagcccaagtgcaagtgcaatta Alignment from Exonerate_protein2genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG ctttggagtacataagatcttttccctctacacctacccaattcctacagGACAGTGGGACACTATGAAGAAGTGGAACTGACAGAGAGCAGTGTAAACCTTGATCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGTTATGGAAAGaagtttattatggaaggatttaacaccatggaagtaagtccatcttactcccagcgacttcagcccaagtgcaagtgcaatta Alignment from Exonerate_coding2genome GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG ctttggagtacataagatcttttccctctacacctacccaattcctacagGACAGTGGGACACTATGAAGAAGTGGAACTGACAGAGAGCAGTGTAAACCTTGATCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGTTATGGAAAGaagtttattatggaaggatttaacaccatggaagtaagtccatcttactcccagcgacttcagcccaagtgcaagtgcaatta Alignment from GeneWise GACAGTGGGACACTATGAAGAAGTAGAGCTGACAGAGAGCAGCGTGAACCTGGGTCCTGAGCGCATCGGGCCCCACTGCTTTGAGCTACTGAGTGTACTGGGCAAGGGGGGCTATGGCAAG--------------------------------- ctttggagtacataagatcttttccctctacacctacccaattcctacagGACAGTGGGACACTATGAAGAAGTGGAACTGACAGAGAGCAGTGTAAACCTTGATCCTGAACGTATTGGGCCCCACTGCTTTGAGTTACTTAGTGTCCTGGTCAAAGGGGGTTATGGAAAGAAGTTTATTATGGAAGGATTTAACACCATGGAAgtaagtccatcttactcccagcgacttcagcccaagtgcaagtgcaatta #### Rrp12_ID8304_19 --> 0 - 2 Original Alignment TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCag gtcacttcatttactcatgaagcctttttctggcctgggatggcatatag---------------CTAGACAAGGCAACTGAAAAGGTTCTTGACCCCGCCAGTTCAGATTTCACTaggtgagtctgctgagtttccgatgtgtcatcatgtgcgatgcagggtacct Alignment from CESAR TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCag gtgcctgaggtcatggtcacttcatttttctggcctgggatggcatatag---------------CTAGACAAGGCAACTGAAAAGGTTCTTGACCCCGCCAGTTCAGATTTCACTaggtgagtctgctgagtttccgatgtgtcatcatgtgcgatgcagggtacct Alignment from Spaln_aa2Genome CTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcacttcatttactcatgaagcctttttctggcctgggatggcatatagCTAGACAAGGCAACTGAAAAGGTTCTTGACCCCGCCAGTTCAGATTTCACTAGgtgagtctgctgagtttccgatgtgtcatcatgtgcgatgcagggtacct Alignment from Spaln_nt2Genome CTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcacttcatttactcatgaagcctttttctggcctgggatggcatatagCTAGACAAGGCAACTGAAAAGGTTCTTGACCCCGCCAGTTCAGATTTCACTAGgtgagtctgctgagtttccgatgtgtcatcatgtgcgatgcagggtacct Alignment from Pairagon TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcacttcatttactcatgaagcctttttctggcctgggatggcatatag---------------CTAGACAAGGCAACTGAAAAGGTTCTTGACCCCGCCAGTTCAGATTTCACTAGgtgagtctgctgagtttccgatgtgtcatcatgtgcgatgcagggtacct Alignment from Exonerate_protein2genome ATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcacttcatttactcatgaagcctttttctggcctgggatgGCATATAGCTAGACAAGGCAACTGAAAAGGTTCTTGACCCCGCCAGTTCAGATTTCACTAGgtgagtctgctgagtttccgatgtgtcatcatgtgcgatgcagggtacct Alignment from Exonerate_coding2genome gtcacttcatttactcatgaagcctttttctggcctgggatggcatatagctagacaaggcaactgaaaaggttcttgaccccgccagttcagatttcactaggtgagtctgctgagtttccgatgtgtcatcatgtgcgatgcagggtacct Alignment from GeneWise gtcacttcatttactcatgaagcctttttctggcctgggatggcatatagctagacaaggcaactgaaaaggttcttgaccccgccagttcagatttcactaggtgagtctgctgagtttccgatgtgtcatcatgtgcgatgcagggtacct #### Sart1_ID956_19 --> 0 - 2 Original Alignment ------------------------CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ataatatgtcagacctggtagcactgactgtgattctctctcctccccagGTGAATACGTGTGACATGGGAGCCCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCATATTGTACTCAGTGGCAGTGGTAAGAGTATGAATgcgtaagtgtgggtaggagttggcagggtggatggtatgctgaataattagt Alignment from CESAR ------------------------CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ataatatgtcagacctggtagcactgactgtgattctctctcctccccagGTGAATACGTGTGACATGGGAGCCCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCATATTGTACTCAGTGGCAGTGGTAAGAGTATGAATgcgtaagtgtgggtaggagttggcagggtggatggtatgctgaataattagt Alignment from Spaln_aa2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ataatatgtcagacctggtagcactgactgtgattctctctcctccccaggtgaatacgtgtgacatgggagcccttcgtaag---------AAAATGAGCTCTAGTGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCATATTGTACTCAGTGGCAGTGGTAAGAGTATGAATGCgtaagtgtgggtaggagttggcagggtggatggtatgctgaataattagt Alignment from Spaln_nt2Genome CTCCTG--AAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ataatatgtcagacctggtagcactgactgtgattctctctcctccccaggtgaatacgtgtgacatgggagCCCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCATATTGTACTCAGTGGCAGTGGTAAGAGTATGAATGCgtaagtgtgggtaggagttggcagggtggatggtatgctgaataattagt Alignment from Pairagon ------------------------CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ataatatgtcagacctggtagcactgactgtgattctctctcctccccagGTGAATACGTGTGACATGGGAGCCCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCATATTGTACTCAGTGGCAGTGGTAAGAGTATGAATGCgtaagtgtgggtaggagttggcagggtggatggtatgctgaataattagt Alignment from Exonerate_protein2genome AAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ataatatgtcagacctggtagcactgactgtgattctctctcctccccaggtgaatacgtgtgacatgggagcccttcgtaagAAAATGAGCTCTAGTGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCATATTGTACTCAGTGGCAGTGGTAAGAGTATGAATGCGtaagtgtgggtaggagttggcagggtggatggtatgctgaataattagt Alignment from Exonerate_coding2genome AAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ataatatgtcagacctggtagcactgactgtgattctctctcctccccaggtgaatacgtgtgacatgggagcccttcgtaagAAAATGAGCTCTAGTGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCATATTGTACTCAGTGGCAGTGGTAAGAGTATGAATGCGtaagtgtgggtaggagttggcagggtggatggtatgctgaataattagt Alignment from GeneWise ------------------------CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ataatatgtcagacctggtagcactgactgtgattctctctcctccccagGTGAATACGTGTGACATGGGAGCCCTTCGTAAGAAAATGAGCTCTAGTGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCATATTGTACTCAGTGGCAGTGGTAAGAGTATGAATGCGtaagtgtgggtaggagttggcagggtggatggtatgctgaataattagt #### Sart1_ID958_17 --> 1 - 0 Original Alignment gGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gaagtcctcagaggacctgatgaagctgctttcttttggggatgctgcaggGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAAAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACT---------gtaccacgataggatatagcctgtggaaatggtcaatccactggcaacag Alignment from CESAR gGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGGAG gaagtcctcagaggacctgatgaagctgctttcttttggggatgctgcaggGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAAAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACT---------gtaccacgataggatatagcctgtggaaatggtcaatccac Alignment from Spaln_aa2Genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACT gaagtcctcagaggacctgatgaagctgctttcttttggggatgctgcagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAAAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTgtaccacgataggatatagcctgtggaaatggtcaatccactggcaacag Alignment from Spaln_nt2Genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACT gaagtcctcagaggacctgatgaagctgctttcttttggggatgctgcagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAAAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTgtaccacgataggatatagcctgtggaaatggtcaatccactggcaacag Alignment from Pairagon GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACT gaagtcctcagaggacctgatgaagctgctttcttttggggatgctgcagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAAAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTgtaccacgataggatatagcctgtggaaatggtcaatccactggcaacag Alignment from Exonerate_protein2genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGG gaagtcctcagaggacctgatgaagctgctttcttttggggatgctgcagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAAAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTGTACCACgataggatatagcctgtggaaatggtcaatccactggcaacag Alignment from Exonerate_coding2genome GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACTCCCAAGG gaagtcctcagaggacctgatgaagctgctttcttttggggatgctgcagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAAAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTGTACCACgataggatatagcctgtggaaatggtcaatccactggcaacag Alignment from GeneWise GGCCATTGATGACAAGTACAGCCGACGGGAGGAGTACAGGGGCTTCACCCAGGACTTCAAGGAGAAAGATGGCTACAAGCCTGATGTTAAGATTGAATACGTGGATGAGACGGGCAGGAAACTGACT gaagtcctcagaggacctgatgaagctgctttcttttggggatgctgcagGGCCATTGATGACAAGTACAGTCAACAGGAGGAGTATAGGGACTTCACCCAGGACTTTAAGGAGAAAGATGGGTATAAGCCTGATGTTAAGATTGAATATGTAGATAAGACAAGCAGGAAGCTGACTgtaccacgataggatatagcctgtggaaatggtcaatccactggcaacag #### Sart1_ID959_16 --> 2 - 2 Original Alignment ga------CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGat gctccaagaattcaacctgagcccaggagccttcatggtttttctttcaggaGATCCTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGatgtacagtttatcaaggcaagatgccatagtaactgctatgaacatgggga Alignment from CESAR ga------CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGat gctccaagaattcaacctgagcccaggagccttcatggtttttctttcaggaGATCCTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGatgtacagtttatcaaggcaagatgccatagtaactgctatgaacatgggga Alignment from Spaln_aa2Genome GACTGCTGGAGACC------ACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctccaagaattcaacctgagcccaggagccttcatggtttttctttcagGAGATCCTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacagtttatcaaggcaagatgccatagtaactgctatgaacatgggga Alignment from Spaln_nt2Genome GACTGCTGGAGACCA------CAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctccaagaattcaacctgagcccaggagccttcatggtttttctttcagGAGATCCTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacagtttatcaaggcaagatgccatagtaactgctatgaacatgggga Alignment from Pairagon GA------CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctccaagaattcaacctgagcccaggagccttcatggtttttctttcagGAGATCCTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacagtttatcaaggcaagatgccatagtaactgctatgaacatgggga Alignment from Exonerate_protein2genome GA------CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctccaagaattcaacctgagcccaggagccttcatggtttttctttcagGAGATCCTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacagtttatcaaggcaagatgccatagtaactgctatgaacatgggga Alignment from Exonerate_coding2genome GA------CTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctccaagaattcaacctgagcccaggagccttcatggtttttctttcagGAGATCCTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacagtttatcaaggcaagatgccatagtaactgctatgaacatgggga Alignment from GeneWise --------CTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT gctccaagaattcaacctgagcccaggagccttcatggtttttctttcaggagATCCTCTGCTAGAAACCACAGTACAAAAGGTTGCCTGGGTGGAGGCTCCCAATAGGACCTTGCCTTCAGCAGTGTACTGCATAGAGGATAAGATgtacagtttatcaaggcaagatgccatagtaactgctatgaacatgggga #### Sart1_ID960_15 --> 0 - 1 Original Alignment TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAA---g tggcagggggatatggggctaccttctcgctgactgttctcgccatgcagTTCTCTGCTTCTTCTACGACTATCCTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAATGggtgagcgtttgggagggctgctatcgcagttgtatatttcatccatcaca Alignment from CESAR TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAA---g tggcagggggatatggggctaccttctcgctgactgttctcgccatgcagTTCTCTGCTTCTTCTACGACTATCCTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAATGggtgagcgtttgggagggctgctatcgcagttgtatatttcatccatcaca Alignment from Spaln_aa2Genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAA---G tggcagggggatatggggctaccttctcgctgactgttctcgccatgcagTTCTCTGCTTCTTCTACGACTATCCTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAATGGgtgagcgtttgggagggctgctatcgcagttgtatatttcatccatcaca Alignment from Spaln_nt2Genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAA---G tggcagggggatatggggctaccttctcgctgactgttctcgccatgcagTTCTCTGCTTCTTCTACGACTATCCTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAATGGgtgagcgtttgggagggctgctatcgcagttgtatatttcatccatcaca Alignment from Pairagon TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAA---G tggcagggggatatggggctaccttctcgctgactgttctcgccatgcagTTCTCTGCTTCTTCTACGACTATCCTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAATGGgtgagcgtttgggagggctgctatcgcagttgtatatttcatccatcaca Alignment from Exonerate_protein2genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAA---G tggcagggggatatggggctaccttctcgctgactgttctcgccatgcagTTCTCTGCTTCTTCTACGACTATCCTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAATGGgtgagcgtttgggagggctgctatcgcagttgtatatttcatccatcaca Alignment from Exonerate_coding2genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAA---G tggcagggggatatggggctaccttctcgctgactgttctcgccatgcagTTCTCTGCTTCTTCTACGACTATCCTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAATGGgtgagcgtttgggagggctgctatcgcagttgtatatttcatccatcaca Alignment from GeneWise TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAGGA- tggcagggggatatggggctaccttctcgctgactgttctcgccatgcagTTCTCTGCTTCTTCTACGACTATCCTGGATGAGGAGCCCATTGTGAACCGAGGGCTAGCTGCTGCCCTGCTCCTATGTCAGAACAGAATGGgtgagcgtttgggagggctgctatcgcagttgtatatttcatccatcaca #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG--------------------------- gttaggttaccctgtgaactgtctataaacataattgtgtttttatatagGTGCTGGAGATTGTGAAGAAATTAGAGTCCCGTCAGCGCGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTATTCAACGCCACCTCAGAATTTTGCTGTACACTAGGGGAATCTCCCACATATGAGTTGGCGGGTAACCGTGAGGGGCAGGAGGAGCTGATGCAGACTGTGAATGATCTTGCTACAAATgtaagtcaagcatttcctagcttttattgtaaggctgatgatgcttctag Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG------ gttaggttaccctgtgaactgtctataaacataattgtgtttttatatagGTGCTGGAGATTGTGAAGAAATTAGAGTCCCGTCAGCGCGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTATTCAACGCCACCTCAGAATTTTGCTGTACACTAGGGGAATCTCCCACATATGAGTTGGCGGGTAACCGTGAGGGGCAGGAGGAGCTGATGCAGACTgtgaatgatcttgctacaaatgtaagtcaagcatttcctagcttttattgtaaggctgatgatgcttctag Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG------ gttaggttaccctgtgaactgtctataaacataattgtgtttttatatagGTGCTGGAGATTGTGAAGAAATTAGAGTCCCGTCAGCGCGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTATTCAACGCCACCTCAGAATTTTGCTGTACACTAGGGGAATCTCCCACATATGAGTTGGCGGGTAACCGTGAGGGGCAGGAGGAGCTGATGCAGACTgtgaatgatcttgctacaaatgtaagtcaagcatttcctagcttttattgtaaggctgatgatgcttctag Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG------ gttaggttaccctgtgaactgtctataaacataattgtgtttttatatagGTGCTGGAGATTGTGAAGAAATTAGAGTCCCGTCAGCGCGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTATTCAACGCCACCTCAGAATTTTGCTGTACACTAGGGGAATCTCCCACATATGAGTTGGCGGGTAACCGTGAGGGGCAGGAGGAGCTGATGCAGACTgtgaatgatcttgctacaaatgtaagtcaagcatttcctagcttttattgtaaggctgatgatgcttctag Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG--------------------------- gttaggttaccctgtgaactgtctataaacataattgtgtttttatatagGTGCTGGAGATTGTGAAGAAATTAGAGTCCCGTCAGCGCGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTATTCAACGCCACCTCAGAATTTTGCTGTACACTAGGGGAATCTCCCACATATGAGTTGGCGGGTAACCGTGAGGGGCAGGAGGAGCTGATGCAGACTGTGAATGATCTTGCTACAAATgtaagtcaagcatttcctagcttttattgtaaggctgatgatgcttctag Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG gttaggttaccctgtgaactgtctataaacataattgtgtttttatatagGTGCTGGAGATTGTGAAGAAATTAGAGTCCCGTCAGCGCGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTATTCAACGCCACCTCAGAATTTTGCTGTACACTAGGGGAATCTCCCACATATGAGTTGGCGGGTAACCGTGAGGGGCAGGAGGAGCTGATGcagactgtgaatgatcttgctacaaatgtaagtcaagcatttcctagcttttattgtaaggctgatgatgcttctag Alignment from Exonerate_coding2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG gttaggttaccctgtgaactgtctataaacataattgtgtttttatatagGTGCTGGAGATTGTGAAGAAATTAGAGTCCCGTCAGCGCGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTATTCAACGCCACCTCAGAATTTTGCTGTACACTAGGGGAATCTCCCACATATGAGTTGGCGGGTAACCGTGAGGGGCAGGAGGAGCTGATGcagactgtgaatgatcttgctacaaatgtaagtcaagcatttcctagcttttattgtaaggctgatgatgcttctag Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG------ gttaggttaccctgtgaactgtctataaacataattgtgtttttatatagGTGCTGGAGATTGTGAAGAAATTAGAGTCCCGTCAGCGCGGCTGGGAGGAGGGGGAGGACCCAAAGAGGAAGGGGACATCAGTATTCAACGCCACCTCAGAATTTTGCTGTACACTAGGGGAATCTCCCACATATGAGTTGGCGGGTAACCGTGAGGGGCAGGAGGAGCTGATGCAGACTgtgaatgatcttgctacaaatgtaagtcaagcatttcctagcttttattgtaaggctgatgatgcttctag #### Sart1_ID963_12 --> 2 - 0 Original Alignment agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG--- tgcaggcaagggcacttgtgaaggcacaaatgtcttcacctctcttctagaaGATGGGGGGGCTCTCCCGCCAGGGGCACCAGATGGACTGGAGGAAGATGAGGCAGAGCTGGAACTACAAAAGCAGCTAGAGAAGGGGCGTCGGCTGCGGCAACTACAGCAACTGCAGCAGCTCAGAGATAGTGGGGAGAAGTCCgtaacactcagcaggtacattgtcatgaggggactttggcattcttgaga Alignment from CESAR agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG--- tgcaggcaagggcacttgtgaaggcacaaatgtcttcacctctcttctagaaGATGGGGGGGCTCTCCCGCCAGGGGCACCAGATGGACTGGAGGAAGATGAGGCAGAGCTGGAACTACAAAAGCAGCTAGAGAAGGGGCGTCGGCTGCGGCAACTACAGCAACTGCAGCAGCTCAGAGATAGTGGGGAGAAGTCCgtaacactcagcaggtacattgtcatgaggggactttggcattcttgaga Alignment from Spaln_aa2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG--- tgcaggcaagggcacttgtgaaggcacaaatgtcttcacctctcttctagAAGATGGGGGGGCTCTCCCGCCAGGGGCACCAGATGGACTGGAGGAAGATGAGGCAGAGCTGGAACTACAAAAGCAGCTAGAGAAGGGGCGTCGGCTGCGGCAACTACAGCAACTGCAGCAGCTCAGAGATAGTGGGGAGAAGTCCgtaacactcagcaggtacattgtcatgaggggactttggcattcttgaga Alignment from Spaln_nt2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAA tgcaggcaagggcacttgtgaaggcacaaatgtcttcacctctcttctagAAGATGGGGGGGCTCTCCCGCCAGGGGCACCAGATGGACTGGAGGAAGATGAGGCAGAGCTGGAACTACAAAAGCAGCTAGAGAAGGGGCGTCGGCTGCGGCAACTACAGCAACTGCAGCAGCTCAGAGATAGTGGGGAGAAgtccgtaacactcagcaggtacattgtcatgaggggactttggcattcttgaga Alignment from Pairagon AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG--- tgcaggcaagggcacttgtgaaggcacaaatgtcttcacctctcttctagAAGATGGGGGGGCTCTCCCGCCAGGGGCACCAGATGGACTGGAGGAAGATGAGGCAGAGCTGGAACTACAAAAGCAGCTAGAGAAGGGGCGTCGGCTGCGGCAACTACAGCAACTGCAGCAGCTCAGAGATAGTGGGGAGAAGTCCgtaacactcagcaggtacattgtcatgaggggactttggcattcttgaga Alignment from Exonerate_protein2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG--- tgcaggcaagggcacttgtgaaggcacaaatgtcttcacctctcttctagAAGATGGGGGGGCTCTCCCGCCAGGGGCACCAGATGGACTGGAGGAAGATGAGGCAGAGCTGGAACTACAAAAGCAGCTAGAGAAGGGGCGTCGGCTGCGGCAACTACAGCAACTGCAGCAGCTCAGAGATAGTGGGGAGAAGTCCgtaacactcagcaggtacattgtcatgaggggactttggcattcttgaga Alignment from Exonerate_coding2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG--- tgcaggcaagggcacttgtgaaggcacaaatgtcttcacctctcttctagAAGATGGGGGGGCTCTCCCGCCAGGGGCACCAGATGGACTGGAGGAAGATGAGGCAGAGCTGGAACTACAAAAGCAGCTAGAGAAGGGGCGTCGGCTGCGGCAACTACAGCAACTGCAGCAGCTCAGAGATAGTGGGGAGAAGTCCgtaacactcagcaggtacattgtcatgaggggactttggcattcttgaga Alignment from GeneWise -------------------------------------------------GAGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGGTG TGCAGGCAAGGGCACTTGTGAAGGCACAAATGTCTTCACCTCTCTTCTAGAAGATGGGGGGGCTCTCCCGCCAGGGGCACCAGATGGACTGGAGGAAGATGAGGCAGAGCTGGAACTACAAAAGCAGCTAGAGAAGGGGCGTCGGCTGCGGCAACTACAGCAACTGCAGCAGCTCAGAGATAGTGGGGAGAAGTCCgtaacactcagcaggtacattgtcatgaggggactttggcattcttgaga #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAg ggggtaattcaaaagacataatttacacactgacaactatgtccccacaggCTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACGCTTGAGGATGAGGAGAAGGACCTCGTGGCCAAGCCACCACCATCAGATGACACTCGAGTC------ATGGACATCAGT------ggtaagtctgcatggttgagtaataggggccagggtaaatctgcaggcaag Alignment from CESAR gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAAg ggggtaattcaaaagacataatttacacactgacaactatgtccccacaggCTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACGCTTGAGGATGAGGAGAAGGACCTCGTGGCCAAGCCACCACCATCAGATGACACTCGAGTC------ATGGACATCAGT------ggtaagtctgcatggttgagtaataggggccagggtaaatctgcaggcaag Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGT- ggggtaattcaaaagacataatttacacactgacaactatgtccccacagGCTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACGCTTGAGGATGAGGAGAAGGACCTCGTGGCCAAGCCACCACCATCAGATGACACTCGAGTC------ATGGACATCAGTGgtaagtctgcatggttgagtaataggggccagggtaaatctgcaggcaag Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTG ggggtaattcaaaagacataatttacacactgacaactatgtccccacagGCTTCGGGGCCGGGGTAGGCACCAAGTTCC------CAAGGAGGAGACGCTTGAGGATGAGGAGAAGGACCTCGTGGCCAAGCCACCACCATCAGATGACACTCGAGT------CATGGACATCAGTGgtaagtctgcatggttgagtaataggggccagggtaaatctgcaggcaag Alignment from Pairagon GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTG ggggtaattcaaaagacataatttacacactgacaactatgtccccacagGCTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACGCTTGAGGATGAGGAGAAGGACCTCGTGGCCAAGCCACCACCATCAGATGACACTCGAGT------CATGGACATCAGTGgtaagtctgcatggttgagtaataggggccagggtaaatctgcaggcaag Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTG ggggtaattcaaaagacataatttacacactgacaactatgtccccacagGCTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACGCTTGAGGATGAGGAGAAGGACCTCGTGGCCAAGCCACCACCATCAGATGACACTCGAGTC------ATGGACATCAGTGgtaagtctgcatggttgagtaataggggccagggtaaatctgcaggcaag Alignment from Exonerate_coding2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTG ggggtaattcaaaagacataatttacacactgacaactatgtccccacagGCTTCGGGGCCGGGGTAGGCACCAAGTTCCC------AAGGAGGAGACGCTTGAGGATGAGGAGAAGGACCTCGTGGCCAAGCCACCACCATCAGATGACACTCGAGTC------ATGGACATCAGTGgtaagtctgcatggttgagtaataggggccagggtaaatctgcaggcaag Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTAGAGAACATGGACATCAGTGATGAA--------------------------------------------- ggggtaattcaaaagacataatttacacactgacaactatgtccccacagGCTTCGGGGCCGGGGTAGGCACCAAGTTCCCAAG------GAGGAGACGCTTGAGGATGAGGAGAAGGACCTCGTGGCCAAGCCACCACCATCAGATGACACTCGAGTC------ATGGACATCAGTGGTAAGTCTGCATGGTTGAGTAATAGGGGCCAGGGTAAATCTGCAGGCAAG #### Sart1_ID965_10 --> 0 - 2 Original Alignment GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCC------ag tctaaaactaagagggcatactcactcccttggttttacctttcttgcagGTGACCTTCAAGAAGACCAAGCGGAGAGTGAAAAAAACCAGAAAGAAGGAGCAGGAGGTGATAATGCGGGCTGATGACTTACTGCCTCTGGGTGATCAGACACAGGATGGG---TTTGGATCACCACCCaggtaagaatggatgcagtagtgggtatgaggtggggtaattcaaaagacat Alignment from CESAR GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCC------ag tctaaaactaagagggcatactcactcccttggttttacctttcttgcagGTGACCTTCAAGAAGACCAAGCGGAGAGTGAAAAAAACCAGAAAGAAGGAGCAGGAGGTGATAATGCGGGCTGATGACTTACTGCCTCTGGGTGATCAGACACAGGATGGG---TTTGGATCACCACCCaggtaagaatggatgcagtagtgggtatgaggtggggtaattcaaaagacat Alignment from Spaln_aa2Genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAGG----- tctaaaactaagagggcatactcactcccttggttttacctttcttgcagGTGACCTTCAAGAAGACCAAGCGGAGAGTGAAAAAAACCAGAAAGAAGGAGCAGGAGGTGATAATGCGGGCTGATGACTTACTGCCTCTGGGTGATCAGACACAGGATGGG---TTTGGATCACCACCCAGgtaagaatggatgcagtagtgggtatgaggtggggtaattcaaaagacat Alignment from Spaln_nt2Genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATC------CAG tctaaaactaagagggcatactcactcccttggttttacctttcttgcagGTGACCTTCAAGAAGACCAAGCGGAGAGTGAAAAAAACCAGAAAGAAGGAGCAGGAGGTGATAATGCGGGCTGATGACTTACTGCCTCTGGGTGATCAGACACAGGATGGG---TTTGGATCACCACCCAGgtaagaatggatgcagtagtgggtatgaggtggggtaattcaaaagacat Alignment from Pairagon GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGAT------CCAG tctaaaactaagagggcatactcactcccttggttttacctttcttgcagGTGACCTTCAAGAAGACCAAGCGGAGAGTGAAAAAAACCAGAAAGAAGGAGCAGGAGGTGATAATGCGGGCTGATGACTTACTGCCTCTGGGTGATCAGACACAGGATGGG---TTTGGATCACCACCCAGgtaagaatggatgcagtagtgggtatgaggtggggtaattcaaaagacat Alignment from Exonerate_protein2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAGGCTCCG tctaaaactaagagggcatactcactcccttggttttacctttcttgcagGTGACCTTCAAGAAGACCAAGCGGAGAGTGAAAAAAACCAGAAAGAAGGAGCAGGAGGTGATAATGCGGGCTGATGACTTACTGCCTCTGGGTGATCAGACACAGGATGGG---TTTGGATCACCACCCAGgtaagaatggatgcagtagtgggtatgaggtggggtaattcaaaagacat Alignment from Exonerate_coding2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAGGCTCCG tctaaaactaagagggcatactcactcccttggttttacctttcttgcagGTGACCTTCAAGAAGACCAAGCGGAGAGTGAAAAAAACCAGAAAGAAGGAGCAGGAGGTGATAATGCGGGCTGATGACTTACTGCCTCTGGGTGATCAGACACAGGATGGG---TTTGGATCACCACCCAGgtaagaatggatgcagtagtgggtatgaggtggggtaattcaaaagacat Alignment from GeneWise GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCC------AG tctaaaactaagagggcatactcactcccttggttttacctttcttgcagGTGACCTTCAAGAAGACCAAGCGGAGAGTGAAAAAAACCAGAAAGAAGGAGCAGGAGGTGATAATGCGGGCTGATGACTTACTGCCTCTGGGTGATCAGACACAGGATGGG---TTTGGATCACCACCCAGgtaagaatggatgcagtagtgggtatgaggtggggtaattcaaaagacat #### Sart1_ID966_9 --> 0 - 0 Original Alignment ACAG ---CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtctggtaagtctgggagaacagttgctcaaacacttcacagAAGCAAAAACCTCGCTCAATTCTAGCTAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAAGGTGGGATGGCTGATGGACTGAGGGAACAAGAGCTAGAAGAAATCCGCACCAAGCTACGACTACCAGCCCAATCTCTAAGTTCCATGGGCCCCAGGCTTGCTTCTCAGTATCTCAGTCCTGAAGAGATGgtgaggcaccagtatgtgatcatatattcagcaggcagctaatccaagca Alignment from CESAR GGCACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG AGCACAGgtaagactggtaagtctgggacagttgctcaaacacttcacagaagCAAAAACCTCGCTCAATTCTAGCTAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAAGGTGGGATGGCTGATGGACTGAGGGAACAAGAGCTAGAAGAAATCCGCACCAAGCTACGACTACCAGCCCAATCTCTAAGTTCCATGGGCCCCAGGCTTGCTTCTCAGTATCTCAGTCCTGAAGAGATGgtgaggcaccagtatgtgatcatatattcagcaggcagctaatccaagca Alignment from Spaln_aa2Genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtctggtaagtctgggagaacagttgctcaaacacttcacagaagCAAAAACCTCGCTCAATTCTAGCTAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAAGGTGGGATGGCTGATGGACTGAGGGAACAAGAGCTAGAAGAAATCCGCACCAAGCTACGACTACCAGCCCAATCTCTAAGTTCCATGGGCCCCAGGCTTGCTTCTCAGTATCTCAGTCCTGAAGAGATGgtgaggcaccagtatgtgatcatatattcagcaggcagctaatccaagca Alignment from Spaln_nt2Genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtctggtaagtctgggagaacagttgctcaaacacttcacagaagCAAAAACCTCGCTCAATTCTAGCTAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAAGGTGGGATGGCTGATGGACTGAGGGAACAAGAGCTAGAAGAAATCCGCACCAAGCTACGACTACCAGCCCAATCTCTAAGTTCCATGGGCCCCAGGCTTGCTTCTCAGTATCTCAGTCCTGAAGAGATGgtgaggcaccagtatgtgatcatatattcagcaggcagctaatccaagca Alignment from Pairagon ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtctggtaagtctgggagaacagttgctcaaacacttcacagaagCAAAAACCTCGCTCAATTCTAGCTAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAAGGTGGGATGGCTGATGGACTGAGGGAACAAGAGCTAGAAGAAATCCGCACCAAGCTACGACTACCAGCCCAATCTCTAAGTTCCATGGGCCCCAGGCTTGCTTCTCAGTATCTCAGTCCTGAAGAGATGgtgaggcaccagtatgtgatcatatattcagcaggcagctaatccaagca Alignment from Exonerate_protein2genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtctggtaagtctgggagaacagttgctcaaacacttcacagaagCAAAAACCTCGCTCAATTCTAGCTAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAAGGTGGGATGGCTGATGGACTGAGGGAACAAGAGCTAGAAGAAATCCGCACCAAGCTACGACTACCAGCCCAATCTCTAAGTTCCATGGGCCCCAGGCTTGCTTCTCAGTATCTCAGTCCTGAAGAGATGgtgaggcaccagtatgtgatcatatattcagcaggcagctaatccaagca Alignment from Exonerate_coding2genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtctggtaagtctgggagaacagttgctcaaacacttcacagaagCAAAAACCTCGCTCAATTCTAGCTAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAAGGTGGGATGGCTGATGGACTGAGGGAACAAGAGCTAGAAGAAATCCGCACCAAGCTACGACTACCAGCCCAATCTCTAAGTTCCATGGGCCCCAGGCTTGCTTCTCAGTATCTCAGTCCTGAAGAGATGgtgaggcaccagtatgtgatcatatattcagcaggcagctaatccaagca Alignment from GeneWise ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtctggtaagtctgggagaacagttgctcaaacacttcacagaagCAAAAACCTCGCTCAATTCTAGCTAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAAGGTGGGATGGCTGATGGACTGAGGGAACAAGAGCTAGAAGAAATCCGCACCAAGCTACGACTACCAGCCCAATCTCTAAGTTCCATGGGCCCCAGGCTTGCTTCTCAGTATCTCAGTCCTGAAGAGATGgtgaggcaccagtatgtgatcatatattcagcaggcagctaatccaagca #### Sec31b_ID9028_24 --> 0 - 0 Original Alignment ------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcgggagccaatattaggatcaacgcaaatgtttgaattcctagCTTTGGAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTATATGAGAAGCTTTGTGAAGGGACAgtgaggcctctgtgcaggggacctacacttctacctagttccgaggagat Alignment from CESAR ------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcgggagccaatattaggatcaacgcaaatgtttgaattcctagCTTTGGAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTATATGAGAAGCTTTGTGAAGGGACAgtgaggcctctgtgcaggggacctacacttctacctagttccgaggagat Alignment from Spaln_aa2Genome ----AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcgggagccaatattaggatcaacgcaaatgtttgaattcctagCTTTGGAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTATATGAGAAGCTTTGTGAAGGGACAgtgaggcctctgtgcaggggacctacacttctacctagttccgaggagat Alignment from Spaln_nt2Genome ------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcgggagccaatattaggatcaacgcaaatgtttgaattcctagCTTTGGAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTATATGAGAAGCTTTGTGAAGGGACAgtgaggcctctgtgcaggggacctacacttctacctagttccgaggagat Alignment from Pairagon ------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcgggagccaatattaggatcaacgcaaatgtttgaattcctagCTTTGGAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTATATGAGAAGCTTTGTGAAGGGACAgtgaggcctctgtgcaggggacctacacttctacctagttccgaggagat Alignment from Exonerate_protein2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcgggagccaatattaggatcaacgcaaatgtttgaattcctagctttggAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTATATGAGAAGCTTTGTGAAGGGACAgtgaggcctctgtgcaggggacctacacttctacctagttccgaggagat Alignment from Exonerate_coding2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcgggagccaatattaggatcaacgcaaatgtttgaattcctagctttggAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTATATGAGAAGCTTTGTGAAGGGACAgtgaggcctctgtgcaggggacctacacttctacctagttccgaggagat Alignment from GeneWise ------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcgggagccaatattaggatcaacgcaaatgtttgaattcctagCTTTGGAAAACAAAAAAGAAGCTAGAGGAGGCAGCCCGACACCTTGAATGTCTATATGAGAAGCTTTGTGAAGGGACAgtgaggcctctgtgcaggggacctacacttctacctagttccgaggagat #### Sec31b_ID9031_21 --> 2 - 0 Original Alignment gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG acattgttaaggctgctaatgcctagaaagcctgagctgtctgtccacaggaCCCCAAGACTCATGGAAAGTCTCTCCTGCCTCCCAG---------------------gtatccgcaccattccctaaccacttagtcatagttgcctcacattaacc Alignment from CESAR gaCCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAAAGGAAAAAG acattgttaaggctgctaatgcctagaaagcctgagctgtctgtccacaggaCCCCAAGACTCATGGAAAGTCTCTCCTGCCTCCCAG---------------------gtatccgcaccattccctaaccacttagt Alignment from Spaln_aa2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAAC------CTCCAAAGGAAAAAG acattgttaaggctgctaatgcctagaaagcctgagctgtctgtccacagGACCCCAAGACTCATGGAAAGTCTCTCCTGCCTCCCAGGTATCCGCACCATTCCCTAACCACTTAgtcatagttgcctcacattaacc Alignment from Spaln_nt2Genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAG acattgttaaggctgctaatgcctagaaagcctgagctgtctgtccacagGACCCCAAGACTCATGGAAAGTCTCTCCTGCCTCCCAGgtatccgcaccattccctaaccacttagtcatagttgcctcacattaacc Alignment from Pairagon GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAG acattgttaaggctgctaatgcctagaaagcctgagctgtctgtccacagGACCCCAAGACTCATGGAAAGTCTCTCCTGCCTCCCAGgtatccgcaccattccctaaccacttagtcatagttgcctcacattaacc Alignment from Exonerate_protein2genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCA acattgttaaggctgctaatgcctagaaagcctgagctgtctgtccacagGACCCCAAGACTCATGGAAAGTCTCTCCTGCCTCCCAggtatccgcaccattccctaaccacttagtcatagttgcctcacattaacc Alignment from Exonerate_coding2genome GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCA acattgttaaggctgctaatgcctagaaagcctgagctgtctgtccacagGACCCCAAGACTCATGGAAAGTCTCTCCTGCCTCCCAggtatccgcaccattccctaaccacttagtcatagttgcctcacattaacc Alignment from GeneWise GACCCCAGGACTCCTGGAAAGTTTCTCCAGCCTCCCAGGGAAACCTCCAA---AGGAAAAAGCTG acattgttaaggctgctaatgcctagaaagcctgagctgtctgtccacagGACCCCAAGACTCATGGAAAGTCTCTCCTGCCTCCCAGGTATCCGCACCATTCCCTAACCACTTAgtcatagttgcctcacattaacc #### Sec31b_ID9038_14 --> 2 - 0 Original Alignment acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG--------- ggaagcaattgggtgagtgtgagacagccccactgcccttctccccctagatACTGATGGACTCCTGAGCCAGGCTCTACTACTTGGGGAACTGCAATCTGCTGTAGAGCTGTGTTTGAAGGAGGAACGATTTGCAGATGCTGTCATTCTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATCTAGCCAAGAGGAGAACAAAAACCTCTTCAGGCTATGAGgtacaccctgtcatccataattgggagtggggatggtctgcaagagggca Alignment from CESAR acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG--------- ggaagcaattgggtgagtgtgagacagccccactgcccttctccccctagatACTGATGGACTCCTGAGCCAGGCTCTACTACTTGGGGAACTGCAATCTGCTGTAGAGCTGTGTTTGAAGGAGGAACGATTTGCAGATGCTGTCATTCTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATCTAGCCAAGAGGAGAACAAAAACCTCTTCAGGCTATGAGgtacaccctgtcatccataattgggagtggggatggtctgcaagagggca Alignment from Spaln_aa2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG--------- ggaagcaattgggtgagtgtgagacagccccactgcccttctccccctagATACTGATGGACTCCTGAGCCAGGCTCTACTACTTGGGGAACTGCAATCTGCTGTAGAGCTGTGTTTGAAGGAGGAACGATTTGCAGATGCTGTCATTCTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATCTAGCCAAGAGGAGAACAAAAACCTCTTCAGGCTATGAGgtacaccctgtcatccataattgggagtggggatggtctgcaagagggca Alignment from Spaln_nt2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTC-G ggaagcaattgggtgagtgtgagacagccccactgcccttctccccctagATACTGATGGACTCCTGAGCCAGGCTCTACTACTTGGGGAACTGCAATCTGCTGTAGAGCTGTGTTTGAAGGAGGAACGATTTGCAGATGCTGTCATTCTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATCTAGCCAAGAGGAGAACAAAAACCTCTTCAGgctatgaggtacaccctgtcatccataattgggagtggggatggtctgcaagagggca Alignment from Pairagon ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTC---------G ggaagcaattgggtgagtgtgagacagccccactgcccttctccccctagATACTGATGGACTCCTGAGCCAGGCTCTACTACTTGGGGAACTGCAATCTGCTGTAGAGCTGTGTTTGAAGGAGGAACGATTTGCAGATGCTGTCATTCTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATCTAGCCAAGAGGAGAACAAAAACCTCTTCAGGCTATGAGgtacaccctgtcatccataattgggagtggggatggtctgcaagagggca Alignment from Exonerate_protein2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG ggaagcaattgggtgagtgtgagacagccccactgcccttctccccctagATACTGATGGACTCCTGAGCCAGGCTCTACTACTTGGGGAACTGCAATCTGCTGTAGAGCTGTGTTTGAAGGAGGAACGATTTGCAGATGCTGTCATTCTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATCTAGCCAAGAGGAGAACAAAAACCTCTTCAggctatgaggtacaccctgtcatccataattgggagtggggatggtctgcaagagggca Alignment from Exonerate_coding2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG ggaagcaattgggtgagtgtgagacagccccactgcccttctccccctagATACTGATGGACTCCTGAGCCAGGCTCTACTACTTGGGGAACTGCAATCTGCTGTAGAGCTGTGTTTGAAGGAGGAACGATTTGCAGATGCTGTCATTCTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATCTAGCCAAGAGGAGAACAAAAACCTCTTCAggctatgaggtacaccctgtcatccataattgggagtggggatggtctgcaagagggca Alignment from GeneWise ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG--------- ggaagcaattgggtgagtgtgagacagccccactgcccttctccccctagATACTGATGGACTCCTGAGCCAGGCTCTACTACTTGGGGAACTGCAATCTGCTGTAGAGCTGTGTTTGAAGGAGGAACGATTTGCAGATGCTGTCATTCTGGCTCAGGGTGGGGATGCAGAGTTGCTTAAATGGACCCAAGAGCGGTATCTAGCCAAGAGGAGAACAAAAACCTCTTCAGGCTATGAGgtacaccctgtcatccataattgggagtggggatggtctgcaagagggca #### Sec31b_ID9039_13 --> 0 - 1 Original Alignment GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCACCACAGAAg ggcttaagtgcctcacttcacacatgattactctgctgcctctttcttagGCCTCCAAACACACTGCCAAGGAAACCTCTGAGTCCTCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCC---------ggtaatgtgcccatcccattcctgggcaaggagatataactgtataggggt Alignment from CESAR GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCACCACAGAAg ggcttaagtgcctcacttcacacatgattactctgctgcctctttcttagGCCTCCAAACACACTGCCAAGGAAACCTCTGAGTCCTCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCC---------ggtaatgtgcccatcccattcctgggcaaggagatataactgtataggggt Alignment from Spaln_aa2Genome GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCC- ggcttaagtgcctcacttcacacatgattactctgctgcctctttcttagGCCTCCAAACACACTGCCAAGGAAACCTCTGAGTCCTCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtaatgtgcccatcccattcctgggcaaggagatataactgtataggggt Alignment from Spaln_nt2Genome GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCA ggcttaagtgcctcacttcacacatgattactctgctgcctctttcttagGCCTCCAAACACACTGCCAAGGAAACCTCTGAGTCCTCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtaatgtgcccatcccattcctgggcaaggagatataactgtataggggt Alignment from Pairagon GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCACCACAGAAG ggcttaagtgcctcacttcacacatgattactctgctgcctctttcttagGCCTCCAAACACACTGCCAAGGAAACCTCTGAGTCCTCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCC---------Ggtaatgtgcccatcccattcctgggcaaggagatataactgtataggggt Alignment from Exonerate_protein2genome GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCA ggcttaagtgcctcacttcacacatgattactctgctgcctctttcttagGCCTCCAAACACACTGCCAAGGAAACCTCTGAGTCCTCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtaatgtgcccatcccattcctgggcaaggagatataactgtataggggt Alignment from Exonerate_coding2genome GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCCA ggcttaagtgcctcacttcacacatgattactctgctgcctctttcttagGCCTCCAAACACACTGCCAAGGAAACCTCTGAGTCCTCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtaatgtgcccatcccattcctgggcaaggagatataactgtataggggt Alignment from GeneWise GCCTCCAAACACACTGCCAAGGAAGCCTCTGAGTCCTCAGCCTTCTTTGATGAGCTGATACCTCAGAACATGACTCCCTGGGAGATCCCC- ggcttaagtgcctcacttcacacatgattactctgctgcctctttcttagGCCTCCAAACACACTGCCAAGGAAACCTCTGAGTCCTCAGCTTTCTTTGATGAGCTAATACCTGAAAACATGACCCCCTGGGTGATCCCCGgtaatgtgcccatcccattcctgggcaaggagatataactgtataggggt #### Sec31b_ID9047_5 --> 0 - 0 Original Alignment AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG gtttggtgggacaatatggacagtatcctcttttctttcttcctttgtagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCAGTAGTCACAGTAGC---gtgagaagtaatggttgagcaatgacggcaatcggctgtcaaagtgacag Alignment from CESAR AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG gtttggtgggacaatatggacagtatcctcttttctttcttcctttgtagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCAGTAGTCACAGTAGC---gtgagaagtaatggttgagcaatgacggcaatcggctgtcaaagtga Alignment from Spaln_aa2Genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGC gtttggtgggacaatatggacagtatcctcttttctttcttcctttgtagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCAGTAGTCACAGTAGCgtgagaagtaatggttgagcaatgacggcaatcggctgtcaaagtgacag Alignment from Spaln_nt2Genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGC gtttggtgggacaatatggacagtatcctcttttctttcttcctttgtagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCAGTAGTCACAGTAGCgtgagaagtaatggttgagcaatgacggcaatcggctgtcaaagtgacag Alignment from Pairagon AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGC gtttggtgggacaatatggacagtatcctcttttctttcttcctttgtagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCAGTAGTCACAGTAGCgtgagaagtaatggttgagcaatgacggcaatcggctgtcaaagtgacag Alignment from Exonerate_protein2genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG gtttggtgggacaatatggacagtatcctcttttctttcttcctttgtagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCAGTAGTCACAGTAGCGTGagaagtaatggttgagcaatgacggcaatcggctgtcaaagtgacag Alignment from Exonerate_coding2genome AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG gtttggtgggacaatatggacagtatcctcttttctttcttcctttgtagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCAGTAGTCACAGTAGCGTGagaagtaatggttgagcaatgacggcaatcggctgtcaaagtgacag Alignment from GeneWise AACCCCCCAGAGGACATCAAGGCATTGTCTTGGAACCTCCAAGTCCAGCACATCCTGGCTTCCGCTCACCCCAGCGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAGCCCATCATTAAAGTCAGCAGCCACAGCAGCAGG gtttggtgggacaatatggacagtatcctcttttctttcttcctttgtagAACCCCCCAGAGGATATCAAGGTGTTGTCTTGGAACCTCCAAGTCCAGCACATCCTTGCTTCTGCTCACCCCAGTGGCAAGGCGGTGGTGTGGGATCTCAGAAAGAATGAACCCATCATAAAGGTCAGTAGTCACAGT---AGCgtgagaagtaatggttgagcaatgacggcaatcggctgtcaaagtgacag #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gctggcttattaggtgttattttcacagcaccaggcctgtgtttgagcagag---------------------AGGGGGCAGGCCCAAAATTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCATTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtgcgccactgatgtttggcttacgggacctctagctatggcaccaggat Alignment from CESAR agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG ggcatagtaaagtatttcccagctgcagcaccaggcctgtgtttgagcagag---------------------AGGGGGCAGGCCCAAAATTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCATTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtgcgccactgatgtttggcttacgggacctctagctatggcaccaggat Alignment from Spaln_aa2Genome ---AAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGA gctggcttattaggtgttattttcacagcaccaggcctgtgtttgagcagAGAGGGGGCAGGCCCAAAATTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCATTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtgcgccactgatgtttggcttacgggacctctagctatggcaccaggat Alignment from Spaln_nt2Genome CAAGGGC-CAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gctggcttattaggtgttattttcacagcaccaggcctgtgtttgagcagAGAGGGGGCAGGCCCAAAATTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCATTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtgcgccactgatgtttggcttacgggacctctagctatggcaccaggat Alignment from Pairagon AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gctggcttattaggtgttattttcacagcaccaggcctgtgtttgagcagAG---------------------AGGGGGCAGGCCCAAAATTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCATTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtgcgccactgatgtttggcttacgggacctctagctatggcaccaggat Alignment from Exonerate_protein2genome GAGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gctggcttattaggtgttattttcacagCACCAGGCCTGTGTTTGAGCAGAGAGGGGGCAGGCCCAAAATTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCATTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtgcgccactgatgtttggcttacgggacctctagctatggcaccaggat Alignment from Exonerate_coding2genome GAGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gctggcttattaggtgttattttcacagCACCAGGCCTGTGTTTGAGCAGAGAGGGGGCAGGCCCAAAATTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCATTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtgcgccactgatgtttggcttacgggacctctagctatggcaccaggat Alignment from GeneWise --AAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gctggcttattaggtgttattttcacagcaccaggcctgtgtttgagcagAGAGGGGGCAGGCCCAAAATTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAAGCTGCTAGTGGGGGCTCGAGGTTCATTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACACATAAAGAGgtgcgccactgatgtttggcttacgggacctctagctatggcaccaggat #### Sema4g_ID9247_5 --> 0 - 1 Original Alignment GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATT------g aagccttgttgcccctcatgtaccattacctcttcattgtcctttcccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGTGGTAggtaagaatagtgtaaccaggccaccagccccacaattctgtgccctgaat Alignment from CESAR GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATT------g aagccttgttgcccctcatgtaccattacctcttcattgtcctttcccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGTGGTAggtaagaatagtgtaaccaggccaccagccccacaattctgtgccctgaat Alignment from Spaln_aa2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATT------G aagccttgttgcccctcatgtaccattacctcttcattgtcctttcccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGTGGTAGgtaagaatagtgtaaccaggccaccagccccacaattctgtgccctgaat Alignment from Spaln_nt2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG-- aagccttgttgcccctcatgtaccattacctcttcattgtcctttcccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGTGgtaggtaagaatagtgtaaccaggccaccagccccacaattctgtgccctgaat Alignment from Pairagon GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG------ aagccttgttgcccctcatgtaccattacctcttcattgtcctttcccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGTGGTAGgtaagaatagtgtaaccaggccaccagccccacaattctgtgccctgaat Alignment from Exonerate_protein2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATT------G aagccttgttgcccctcatgtaccattacctcttcattgtcctttcccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGTGGTAGgtaagaatagtgtaaccaggccaccagccccacaattctgtgccctgaat Alignment from Exonerate_coding2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATT------G aagccttgttgcccctcatgtaccattacctcttcattgtcctttcccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGTGGTAGgtaagaatagtgtaaccaggccaccagccccacaattctgtgccctgaat Alignment from GeneWise GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATT------G aagccttgttgcccctcatgtaccattacctcttcattgtcctttcccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTTGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTGTGGTAGgtaagaatagtgtaaccaggccaccagccccacaattctgtgccctgaat #### Sema4g_ID9249_7 --> 2 - 0 Original Alignment atGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG aaatccgccaccctttagaacgcccccgctaaaagtcctctgtgtttcagat------------------------GTGCGACAGAGTGAGACAAGTACTGTGGGTGGTGATGACAGGATTTATTTCTTCTTCAAGGAGCATGAGGAGGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtaatactgatgcactacaagactggggtaattcaaagaggccttcggtc Alignment from CESAR atGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG caggcttgactcatttcataaatcaccgctaaaagtcctctgtgtttcagat------------------------GTGCGACAGAGTGAGACAAGTACTGTGGGTGGTGATGACAGGATTTATTTCTTCTTCAAGGAGCATGAGGAGGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtaatactgatgcactacaagactggggtaattcaaagaggccttcggtc Alignment from Spaln_aa2Genome GATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG accctttagaacgcccccgctaaaa gTCCTCTGTGTTTCAGATGTGCGACAGAGTGAGACAAGTACTGTGGGTGGTGATGACAGGATTTATTTCTTCTTCAAGGAGCATGAGGAGGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtaatactgatgcactacaagactggggtaattcaaagaggccttcggtc Alignment from Spaln_nt2Genome TGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG aaatccgccaccctttagaacgcccccgctaaaagtcctctgtgtttcagATGTGCGACAGAGTGAGACAAGTACTGTGGGTGGTGATGACAGGATTTATTTCTTCTTCAAGGAGCATGAGGAGGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtaatactgatgcactacaagactggggtaattcaaagaggccttcggtc Alignment from Pairagon ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG aaatccgccaccctttagaacgcccccgctaaaagtcctctgtgtttcagAT------------------------GTGCGACAGAGTGAGACAAGTACTGTGGGTGGTGATGACAGGATTTATTTCTTCTTCAAGGAGCATGAGGAGGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtaatactgatgcactacaagactggggtaattcaaagaggccttcggtc Alignment from Exonerate_protein2genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG aaatccgccaccctttagaacgccccCGCTAAAAGTCCTCTGTGTTTCAGATGTGCGACAGAGTGAGACAAGTACTGTGGGTGGTGATGACAGGATTTATTTCTTCTTCAAGGAGCATGAGGAGGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtaatactgatgcactacaagactggggtaattcaaagaggccttcggtc Alignment from Exonerate_coding2genome ATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG aaatccgccaccctttagaacgccccCGCTAAAAGTCCTCTGTGTTTCAGATGTGCGACAGAGTGAGACAAGTACTGTGGGTGGTGATGACAGGATTTATTTCTTCTTCAAGGAGCATGAGGAGGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtaatactgatgcactacaagactggggtaattcaaagaggccttcggtc Alignment from GeneWise --GTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG aaatccgccaccctttagaacgcccccgctaaaagtcctctgtgtttcagATGTGCGACAGAGTGAGACAAGTACTGTGGGTGGTGATGACAGGATTTATTTCTTCTTCAAGGAGCATGAGGAGGGCTCCAGCAGTTTCACACAAAGTTGCAGCAGCCACCGGGTAGCTAGAGCACCCCGAGTCTGCAAGgtaatactgatgcactacaagactggggtaattcaaagaggccttcggtc #### Sema4g_ID9250_8 --> 0 - 2 Original Alignment GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg acctcccagactcctgaactgacagtgttgttactctggatgcattgtag------CTGGGTGGGGAAAAGATCTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCACAGTATGAGACATTACGGGGAGTCTGCAGTCTTAATGCCGACACATCATCCCACACACATTTCTATTCTGTCTTTATGCTAACAACCCAGtggtgagttaggagaatgggcacagacattgggtaaagacaaaagaactgat Alignment from CESAR GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg aatttgacctcccagactcctgaactgttgttactctggatgcattgtag------CTGGGTGGGGAAAAGATCTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCACAGTATGAGACATTACGGGGAGTCTGCAGTCTTAATGCCGACACATCATCCCACACACATTTCTATTCTGTCTTTATGCTAACAACCCAGtggtgagttaggagaatgggcacagacattgggtaaagacaaaagaactgat Alignment from Spaln_aa2Genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG acctcccagactcctgaactgacagtgttgttactctggatgcattgtag------CTGGGTGGGGAAAAGATCTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCACAGTATGAGACATTACGGGGAGTCTGCAGTCTTAATGCCGACACATCATCCCACACACATTTCTATTCTGTCTTTATGCTAACAACCCAGTGgtgagttaggagaatgggcacagacattgggtaaagacaaaagaactgat Alignment from Spaln_nt2Genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG acctcccagactcctgaactgacagtgttgttactctggatgcattgtag------CTGGGTGGGGAAAAGATCTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCACAGTATGAGACATTACGGGGAGTCTGCAGTCTTAATGCCGACACATCATCCCACACACATTTCTATTCTGTCTTTATGCTAACAACCCAGTGgtgagttaggagaatgggcacagacattgggtaaagacaaaagaactgat Alignment from Pairagon GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG acctcccagactcctgaactgacagtgttgttactctggatgcattgtag------CTGGGTGGGGAAAAGATCTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCACAGTATGAGACATTACGGGGAGTCTGCAGTCTTAATGCCGACACATCATCCCACACACATTTCTATTCTGTCTTTATGCTAACAACCCAGTGgtgagttaggagaatgggcacagacattgggtaaagacaaaagaactgat Alignment from Exonerate_protein2genome GGA---GATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG acctcccagactcctgaactgacagtgttgttactctggatGCATTGTAGCTGGGTGGGGAAAAGATCTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCACAGTATGAGACATTACGGGGAGTCTGCAGTCTTAATGCCGACACATCATCCCACACACATTTCTATTCTGTCTTTATGCTAACAACCCAGTGgtgagttaggagaatgggcacagacattgggtaaagacaaaagaactgat Alignment from Exonerate_coding2genome GGA---GATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG acctcccagactcctgaactgacagtgttgttactctggatGCATTGTAGCTGGGTGGGGAAAAGATCTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCACAGTATGAGACATTACGGGGAGTCTGCAGTCTTAATGCCGACACATCATCCCACACACATTTCTATTCTGTCTTTATGCTAACAACCCAGTGgtgagttaggagaatgggcacagacattgggtaaagacaaaagaactgat Alignment from GeneWise CTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG acctcccagactcctgaactgacagtgttgttactctggatgcattgtagCTGGGTGGGGAAAAGATCTTACAGAAGAAGTGGGAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTTCCACAGTATGAGACATTACGGGGAGTCTGCAGTCTTAATGCCGACACATCATCCCACACACATTTCTATTCTGTCTTTATGCTAACAACCCAGTGgtgagttaggagaatgggcacagacattgggtaaagacaaaagaactgat #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tggggtggctggagagacacaacttgttaactaatatgatttctttacagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTA------aggtaacataagtcagacagggtagataggtgcctgttgaggaggaaaccct Alignment from CESAR CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag tggggtggctggagagacacaacttgttaactaatatgatttctttacagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTA------aggtaacataagtcagacagggtagataggtgcctgttgaggaggaaaccct Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGC tggggtggctggagagacacaacttgttaactaatatgatttctttacagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAAGgtaacataagtcagacagggtagataggtgcctgttgaggaggaaaccct Alignment from Spaln_nt2Genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG tggggtggctggagagacacaacttgttaactaatatgatttctttacagCATAGCCTATACGTGGGGGCTGCTAGTGGA---ATTCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTA------AGgtaacataagtcagacagggtagataggtgcctgttgaggaggaaaccct Alignment from Pairagon CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTA---------------------------------------------------- tggggtggctggagagacacaacttgttaactaatatgatttctttacagCATAGCCTATACGTGGGGGCTGCTAGTGGAA---TTCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAAGGTAACATAAGTCAGACAGGGTAGATAGGTGCCTGTTGAGGAGGAAACCCT Alignment from Exonerate_protein2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGC tggggtggctggagagacacaacttgttaactaatatgatttctttacagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAAGgtaacataagtcagacagggtagataggtgcctgttgaggaggaaaccct Alignment from Exonerate_coding2genome CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGC tggggtggctggagagacacaacttgttaactaatatgatttctttacagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAAGgtaacataagtcagacagggtagataggtgcctgttgaggaggaaaccct Alignment from GeneWise CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGC tggggtggctggagagacacaacttgttaactaatatgatttctttacagCATAGCCTATACGTGGGGGCTGCTAGTGGAATT---CAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCTTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACTGTAAGgtaacataagtcagacagggtagataggtgcctgttgaggaggaaaccct #### Sf1_ID1665_6 --> 1 - 0 Original Alignment aGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG--------------------------- gagtaatctgaacaggagtaatcttgtcatgactcgcctcttgtttgtagaGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCACGCCCTAGTCACTGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGTCTCCAGTTACTTTGTCTCCTACTCCAgtgagggttcagcccaggagatctggtaaccaattcatggtaggtgagtt Alignment from CESAR aGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG------ gagtaatctgaacaggagtaatcttgtcatgactcgcctcttgtttgtagaGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCACGCCCTAGTCACTGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGTCTCCAgttactttgtctcctactccagtgagggttcagcccaggagatctggtaaccaattcatggtaggtgagtt Alignment from Spaln_aa2Genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG------ gagtaatctgaacaggagtaatcttgtcatgactcgcctcttgtttgtagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCACGCCCTAGTCACTGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGTCTCCAgttactttgtctcctactccagtgagggttcagcccaggagatctggtaaccaattcatggtaggtgagtt Alignment from Spaln_nt2Genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACA gagtaatctgaacaggagtaatcttgtcatgactcgcctcttgtttgtagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCACGCCCTAGTCACTGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAgtctccagttactttgtctcctactccagtgagggttcagcccaggagatctggtaaccaattcatggtaggtgagtt Alignment from Pairagon AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG--------------------------- gagtaatctgaacaggagtaatcttgtcatgactcgcctcttgtttgtagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCACGCCCTAGTCACTGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGTCTCCAGTTACTTTGTCTCCTACTCCAgtgagggttcagcccaggagatctggtaaccaattcatggtaggtgagtt Alignment from Exonerate_protein2genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gagtaatctgaacaggagtaatcttgtcatgactcgcctcttgtttgtagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCACGCCCTAGTCACTGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGtctccagttactttgtctcctactccagtgagggttcagcccaggagatctggtaaccaattcatggtaggtgagtt Alignment from Exonerate_coding2genome AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG gagtaatctgaacaggagtaatcttgtcatgactcgcctcttgtttgtagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCACGCCCTAGTCACTGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGtctccagttactttgtctcctactccagtgagggttcagcccaggagatctggtaaccaattcatggtaggtgagtt Alignment from GeneWise AGGGAACACCCTGAAGAACATTGAGAAGGAATGCAACGCCAAGATCATGATTCGGGGGAAAGGATCAGTGAAAGAAGGGAAAGTTGGGCGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCATGCTCTAGTCACTGCCAATACGATGGAGAATGTCAAAAAGGCAGTAGAACAG------ gagtaatctgaacaggagtaatcttgtcatgactcgcctcttgtttgtagAGGGAACACACTGAAGAACATTGATAAGGACTGCAATGCAAAGATCATGATTCGGGGGAAAGGATCCGTGAAAGAGGGGAAAGTTGGACGTAAAGATGGTCAGATGTTGCCAGGCGAAGATGAGCCTCTTCACGCCCTAGTCACTGCCAATACAATGGAGAATGTCAAAAAGGCAGTAGAACAGTCTCCAgttactttgtctcctactccagtgagggttcagcccaggagatctggtaaccaattcatggtaggtgagtt #### Sf1_ID1666_7 --> 0 - 2 Original Alignment ------------------------------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccaagttttttgatgagggccttgccctctacccttgcagGTGGCCGTGATCCTCAGTGGCTGTCGCTGGATCCGAAACATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAATTGGCTCGCCTGAACGGCACTCTAAGGGAGGAA---GCCcggtgagcggaatgttgaagaaaatgcatagaaggtttgagttttattgaag Alignment from CESAR ------------------------------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag agccaaactgccaagttttttgatgagggccttgccctctacccttgcagGTGGCCGTGATCCTCAGTGGCTGTCGCTGGATCCGAAACATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAATTGGCTCGCCTGAACGGCACTCTAAGGGAGGAA---GCCcggtgagcggaatgttgaagaaaatgcatagaaggtttgagttttattgaag Alignment from Spaln_aa2Genome ----------------------------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgagggccttgccctctacccttgcagGTGGCCGTGATCCTCAGTGGCTGTCGCTGGATCCGAAACATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAATTGGCTCGCCTGAACGGCACTCTAAGGGAG---GAAGCCCGgtgagcggaatgttgaagaaaatgcatagaaggtttgagttttattgaag Alignment from Spaln_nt2Genome GATCAGAAACAT------------CCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG agccaaactgccaagttttttgatgagggccttgccctctacccttgcaggtggccgtgatcctcagTGGCTGTCGCTGGATCCGAAACATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAATTGGCTCGCCTGAACGGCACTCTAAGGGAGGAAG---CCCGgtgagcggaatgttgaagaaaatgcatagaaggtttgagttttattgaag Alignment from Pairagon -------------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGA-------------------------------------------------------- agccaaactgccaagttttttgatgagggccttgccctctacccttgcaggtggccgtgatcctcagTGGCTGTCGCTGGATCCGAAACATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAATTGGCTCGCCTGAACGGCACTCTAAGGGAGGAAGCCCGGTGAGCGGAATGTTGAAGAAAATGCATAGAAGGTTTGAGTTTTATTGAAG Alignment from Exonerate_protein2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccaagttttttgatgagggccttgccctctacccttgcaggtggccgtgatcctcagtggctgtcgctggATCCGAAACATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAATTGGCTCGCCTGAACGGCACTCTAAGGGAGGAAGCCCGgtgagcggaatgttgaagaaaatgcatagaaggtttgagttttattgaag Alignment from Exonerate_coding2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccaagttttttgatgagggccttgccctctacccttgcaggtggccgtgatcctcagtggctgtcgctggATCCGAAACATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAATTGGCTCGCCTGAACGGCACTCTAAGGGAGGAAGCCCGgtgagcggaatgttgaagaaaatgcatagaaggtttgagttttattgaag Alignment from GeneWise ------------------------------ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAA agccaaactgccaagttttttgatgagggccttgccctctacccttgcagGTGGCCGTGATCCTCAGTGGCTGTCGCTGGATCCGAAACATCCTAAAGCAAGGTATCGAAACCCCAGAAGGCCAGAATGATCTACAAAAGATGCAGCTTCGAGAATTGGCTCGCCTGAACGGCACTCTAAGGGAGGAAGCCCGgtgagcggaatgttgaagaaaatgcatagaaggtttgagttttattgaag #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgaggcccccatctctaggacctcagagttatttaccttttatgttccagGTTATGAGCCAGAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAGGAACATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCT------------gtaggtgtgattactcaggctatcggtatatttagcatgggggctattct Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG tgaggcccccatctctaggacctcagagttatttaccttttatgttccagGTTATGAGCCAGAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAGGAACATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCT------------gtaggtgtgattactcaggctatcggtatatttagcat Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAG tgaggcccccatctctaggacctcagagttatttaccttttatgttccagGTTATGAGCCAGAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAGGAACATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGTAGGTgtgattactcaggctatcggtatatttagcatgggggctattct Alignment from Spaln_nt2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCT tgaggcccccatctctaggacctcagagttatttaccttttatgttccagGTTATGAGCCAGAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAGGAACATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTgtaggtgtgattactcaggctatcggtatatttagcatgggggctattct Alignment from Pairagon GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCT tgaggcccccatctctaggacctcagagttatttaccttttatgttccagGTTATGAGCCAGAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAGGAACATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTgtaggtgtgattactcaggctatcggtatatttagcatgggggctattct Alignment from Exonerate_protein2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAGC tgaggcccccatctctaggacctcagagttatttaccttttatgttccagGTTATGAGCCAGAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAGGAACATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGTAGgtgtgattactcaggctatcggtatatttagcatgggggctattct Alignment from Exonerate_coding2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAGC tgaggcccccatctctaggacctcagagttatttaccttttatgttccagGTTATGAGCCAGAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAGGAACATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGTAGgtgtgattactcaggctatcggtatatttagcatgggggctattct Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG tgaggcccccatctctaggacctcagagttatttaccttttatgttccagGTTATGAGCCAGAAGGGGGCTGCCCCTGAGTTACAAGGTGTGGAAGTAGCACTGGCACCTGAAGAATTGGACTTGGATTCCATGGCTACAATGCAGAAGTATGAGGAACATGTTCGGGAAAAACAGGCACAAGTGGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGTA------GGTgtgattactcaggctatcggtatatttagcatgggggc #### Sf3b2_ID901_17 --> 0 - 2 Original Alignment ------------------------------ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag gccagattcagcaactccctgccatgaatcacgcgtcatgtctcctctagGGCAGCGACCTCACTGTCGATGCTGTGTCAACCAAAACGGAAGAGGAGGAAATTGACCAAACCCCATGGGGGGAGCTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAAGAGGAGGACAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACaggtaagtacagaggctgtccccctagagttgcttacctgccattgctattg Alignment from CESAR gtaggctggattaaatcttccagcctattccttttccttaatggaggacac Alignment from Spaln_aa2Genome ----------------------------ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagattcagcaactccctgccatgaatcacgcgtcatgtctcctctagGGCAGCGACCTCACTGTCGATGCTGTGTCAACCAAAACGGAAGAGGAGGAAATTGACCAAACCCCATGGGGGGAGCTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAAGAGGAGGACAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgtccccctagagttgcttacctgccattgctattg Alignment from Spaln_nt2Genome CCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagattcagcaactccctgccatgaatcacgcgtcatgtctcctctagggcagcgacctcactgtcgatgctgtgtcaacCAAAACG-GAAGAGGAGGAAATTGACCAAACCCCATGGGGGGAGCTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAAGAGGAGGACAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgtccccctagagttgcttacctgccattgctattg Alignment from Pairagon ------------------------------ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagattcagcaactccctgccatgaatcacgcgtcatgtctcctctagGGCAGCGACCTCACTGTCGATGCTGTGTCAACCAAAACGGAAGAGGAGGAAATTGACCAAACCCCATGGGGGGAGCTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAAGAGGAGGACAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgtccccctagagttgcttacctgccattgctattg Alignment from Exonerate_protein2genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagattcagcaactccctgccatgaatcacgcgtcatgtctcctctagggcagcgacctcactgtcgatgctgtgtcaACCAAAACGGAAGAGGAGGAAATTGACCAAACCCCATGGGGGGAGCTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAAGAGGAGGACAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgtccccctagagttgcttacctgccattgctattg Alignment from Exonerate_coding2genome ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagattcagcaactccctgccatgaatcacgcgtcatgtctcctctagggcagcgacctcactgtcgatgctgtgtcaACCAAAACGGAAGAGGAGGAAATTGACCAAACCCCATGGGGGGAGCTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAAGAGGAGGACAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgtccccctagagttgcttacctgccattgctattg Alignment from GeneWise ------------------------------ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG gccagattcagcaactccctgccatgaatcacgcgtcatgtctcctctagGGCAGCGACCTCACTGTCGATGCTGTGTCAACCAAAACGGAAGAGGAGGAAATTGACCAAACCCCATGGGGGGAGCTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAAGAGGAGGACAGTGATGAAGATAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgtccccctagagttgcttacctgccattgctattg #### Sf3b2_ID904_14 --> 0 - 0 Original Alignment GGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAGCCTGGAGATTTATCTGATGAGCTAAGGATTTCCTTAGGAATGCCAGTAGGACCT gtatgtccccagaaatcctgatgatgaagcatggtgctgccctatgccagGGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAACCTGGAGATTTATCGGATGAGCTAAGGATCTTCTTAGGAATGCCAGTA------gtaagtccgtaagcaggctgagtgcatggcagtgcctgataggggggaaa Alignment from CESAR GGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAGCCTGGAGATTTATCTGATGAGCTAAGGATTTCCTTAGGAATGCCAGTAGGACCT gtatgtccccagaaatcctgatgatgaagcatggtgctgccctatgccagGGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAACCTGGAGATTTATCGGATGAGCTAAGGATCTTCTTAGGAATGCCAGTA------gtaagtccgtaagcaggctgagtgcatggcagtgcctgataggg Alignment from Spaln_aa2Genome GGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAGCCTGGAGATTTATCTGATGAGCTAAGGATTTCCTTAGGAATGCCAGTA gtatgtccccagaaatcctgatgatgaagcatggtgctgccctatgccagGGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAACCTGGAGATTTATCGGATGAGCTAAGGATCTTCTTAGGAATGCCAGTAgtaagtccgtaagcaggctgagtgcatggcagtgcctgataggggggaaa Alignment from Spaln_nt2Genome GGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAGCCTGGAGATTTATCTGATGAGCTAAGGATTTCCTTAGGAATGCCAGTAGGACCT-- gtatgtccccagaaatcctgatgatgaagcatggtgctgccctatgccagGGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAACCTGGAGATTTATCGGATGAGCTAAGGATCTTCTTAGGAATGCCAGTAGTAAGTCCgtaagcaggctgagtgcatggcagtgcctgataggggggaaa Alignment from Pairagon GGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAGCCTGGAGATTTATCTGATGAGCTAAGGATTTCCTTAGGAATGCCAGTA gtatgtccccagaaatcctgatgatgaagcatggtgctgccctatgccagGGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAACCTGGAGATTTATCGGATGAGCTAAGGATCTTCTTAGGAATGCCAGTAgtaagtccgtaagcaggctgagtgcatggcagtgcctgataggggggaaa Alignment from Exonerate_protein2genome GGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAGCCTGGAGATTTATCTGATGAGCTAAGGATTTCCTTAGGAATGCCAGTA gtatgtccccagaaatcctgatgatgaagcatggtgctgccctatgccagGGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAACCTGGAGATTTATCGGATGAGCTAAGGATCTTCTTAGGAATGCCAGTAgtaagtccgtaagcaggctgagtgcatggcagtgcctgataggggggaaa Alignment from Exonerate_coding2genome GGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAGCCTGGAGATTTATCTGATGAGCTAAGGATTTCCTTAGGAATGCCAGTA gtatgtccccagaaatcctgatgatgaagcatggtgctgccctatgccagGGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAACCTGGAGATTTATCGGATGAGCTAAGGATCTTCTTAGGAATGCCAGTAgtaagtccgtaagcaggctgagtgcatggcagtgcctgataggggggaaa Alignment from GeneWise GGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAGCCTGGAGATTTATCTGATGAGCTAAGGATTTCCTTAGGAATGCCAGTAGGACCT gtatgtccccagaaatcctgatgatgaagcatggtgctgccctatgccagGGGAAGGAGTTTGAGACACGGCTGAAGGAGAAGAAACCTGGAGATTTATCGGATGAGCTAAGGATCTTCTTAGGAATG---------CCAgtagtaagtccgtaagcaggctgagtgcatggcagtgcctgataggggggaaa #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--------- tcaggctgcatcacctgatgccacctaaaaacttatttatctttttacagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAGCTGAAGCAGGATTACCTGgtacgttctgggaaggtcaagccagctactccagttctgttgggcattca Alignment from CESAR GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--------- tcaggctgcatcacctgatgccacctaaaaacttatttatctttttacagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAGCTGAAGCAGGATTACCTGgtacgttctgggaaggtcaagccagctactccagttctgttgggcattca Alignment from Spaln_aa2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--------- tcaggctgcatcacctgatgccacctaaaaacttatttatctttttacagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAGCTGAAGCAGGATTACCTGgtacgttctgggaaggtcaagccagctactccagttctgttgggcattca Alignment from Spaln_nt2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--------- tcaggctgcatcacctgatgccacctaaaaacttatttatctttttacagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAGCTGAAGCAGGATTACCTGgtacgttctgggaaggtcaagccagctactccagttctgttgggcattca Alignment from Pairagon GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG--------- tcaggctgcatcacctgatgccacctaaaaacttatttatctttttacagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAGCTGAAGCAGGATTACCTGgtacgttctgggaaggtcaagccagctactccagttctgttgggcattca Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcatcacctgatgccacctaaaaacttatttatctttttacagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAGCTGAAGCAGgattacctggtacgttctgggaaggtcaagccagctactccagttctgttgggcattca Alignment from Exonerate_coding2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcaggctgcatcacctgatgccacctaaaaacttatttatctttttacagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAGCTGAAGCAGgattacctggtacgttctgggaaggtcaagccagctactccagttctgttgggcattca Alignment from GeneWise GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG------CTG tcaggctgcatcacctgatgccacctaaaaacttatttatctttttacagAAGAAGAAGCCAGAGGCCCCCAAACTATCACGAAAGAAGTTGCGCCGAATGAATCGATTTACTGTGGCAGAGCTGAAGCAGGATTACCTGgtacgttctgggaaggtcaagccagctactccagttctgttgggcattca #### Sf3b2_ID908_10 --> 0 - 0 Original Alignment CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggggcaagcggacatattctgaaaggggtaatgttaatttgttctttcag---ACAGATGATGTGAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGACAGTGATGATGATAGCAGTGATGATGAACAAgtgagagcccctatgtggcagtgagctgtagagggggggtctaggcaaat Alignment from CESAR CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aagggggcaagcggacatattctgagggtaatgttaatttgttctttcag---ACAGATGATGTGAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGACAGTGATGATGATAGCAGTGATGATGAACAAgtgagagcccctatgtggcagtgagctgtagagggggggtctaggcaaat Alignment from Spaln_aa2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAGGAAAAG ggggcaagcggacatattctgaaaggggtaatgttaatttgttctttcag---ACAGATGATGTGAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGACAGTGATGATGATAGCAGTGATGATGAACAAGTGAGAgcccctatgtggcagtgagctgtagagggggggtctaggcaaat Alignment from Spaln_nt2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggggcaagcggacatattctgaaaggggtaatgttaatttgttctttcag---ACAGATGATGTGAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGACAGTGATGATGATAGCAGTGATGATGAACAAgtgagagcccctatgtggcagtgagctgtagagggggggtctaggcaaat Alignment from Pairagon CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggggcaagcggacatattctgaaaggggtaatgttaatttgttctttcag---ACAGATGATGTGAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGACAGTGATGATGATAGCAGTGATGATGAACAAgtgagagcccctatgtggcagtgagctgtagagggggggtctaggcaaat Alignment from Exonerate_protein2genome ACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggggcaagcggacatattctgaaaggggtaatgttaatttgttctttcagACAGATGATGTGAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGACAGTGATGATGATAGCAGTGATGATGAACAAgtgagagcccctatgtggcagtgagctgtagagggggggtctaggcaaat Alignment from Exonerate_coding2genome ACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggggcaagcggacatattctgaaaggggtaatgttaatttgttctttcagACAGATGATGTGAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGACAGTGATGATGATAGCAGTGATGATGAACAAgtgagagcccctatgtggcagtgagctgtagagggggggtctaggcaaat Alignment from GeneWise CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG ggggcaagcggacatattctgaaaggggtaatgttaatttgttctttcagACA---GATGATGTGAGGAAAGAAAAAGAAAAAGAGCCTGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCTAAGAAAAAGGGCTATGAAGAGGAGCGTAAGGACAGTGATGATGATAGCAGTGATGATGAACAAgtgagagcccctatgtggcagtgagctgtagagggggggtctaggcaaat #### Sf3b2_ID909_9 --> 0 - 0 Original Alignment ---------------------------------AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattatctcttactctgcccctcacagGATTTGTTGCCCATCCCATTCCAACTACTCGACAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAGGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGT---ATAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTTTGAGGCTTTTAAGgttggctggctcatgcctcttctgaggacctatgttgattaagggggcaa Alignment from CESAR gtaggctggattaaatcttccagcctattccttttccttaatggaggacac Alignment from Spaln_aa2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattatctcttactctgcccctcacaggatttgttgcccatcccattccaactactcgacAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAGGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGT---ATAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTTTGAGGCTTTTAAGgttggctggctcatgcctcttctgaggacctatgttgattaagggggcaa Alignment from Spaln_nt2Genome AAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattatctcttactctgcccctcacaggatttgttgcccatcccattccaactactcgacaaaaaccgaaaacatcaaaaccggaagAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAGGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGT---ATAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTTTGAGGCTTTTAAGgttggctggctcatgcctcttctgaggacctatgttgattaagggggcaa Alignment from Pairagon ---------------------------------AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTG------------GAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattatctcttactctgcccctcacagGATTTGTTGCCCATCCCATTCCAACTACTCGACAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAGGACTCTGGTCGGTCCCAAGGGTCAGGCCC---------------GCCCACAGGTATAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTTTGAGGCTTTTAAGgttggctggctcatgcctcttctgaggacctatgttgattaagggggcaa Alignment from Exonerate_protein2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattatctcttactctgcccctcacaggatttgttgcccatcccattccaactactcgacAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAGGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGT---ATAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTTTGAGGCTTTTAAGgttggctggctcatgcctcttctgaggacctatgttgattaagggggcaa Alignment from Exonerate_coding2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattatctcttactctgcccctcacaggatttgttgcccatcccattccaactactcgacAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAGGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGT---ATAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTTTGAGGCTTTTAAGgttggctggctcatgcctcttctgaggacctatgttgattaagggggcaa Alignment from GeneWise ---------------------------------AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG caattggggcattaggatcccagaattatctcttactctgcccctcacagGATTTGTTGCCCATCCCATTCCAACTACTCGACAAAAACCGAAAACATCAAAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAAAGAGCTCTGGGGATAGAGAAAAGGACTCTGGTCGGTCCCAAGGGTCAGGCCCGCCCACAGGT---ATAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGGTGTTTGAGGCTTTTAAGgttggctggctcatgcctcttctgaggacctatgttgattaagggggcaa #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ---ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg gagcatggcatttttgagtttcagcccctcccaattttatctatgtgcagTATATT---GACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATCCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCTCAG---ggtaagcgagattaaacattgccttgatacttcaacagcacattagctggg Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg gagcatggcatttttgagtttcagcccctcccaattttatctatgtgcagTATATTGACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATCCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGggtaagcgagattaaacattgccttgatacttcaacagcacattagctggg Alignment from Spaln_aa2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG- gagcatggcatttttgagtttcagcccctcccaattttatctatgtgcagTATATTGACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATCCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCTCAGGgtaagcgagattaaacattgccttgatacttcaacagcacattagctggg Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gagcatggcatttttgagtttcagcccctcccaattttatctatgtgcagTATATTGACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATCCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaagcgagattaaacattgccttgatacttcaacagcacattagctggg Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gagcatggcatttttgagtttcagcccctcccaattttatctatgtgcagtatattgacccctcag----------------TGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATCCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaagcgagattaaacattgccttgatacttcaacagcacattagctggg Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gagcatggcatttttgagtttcagcccctcccaattttatctatgtgcagTATATTGACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATCCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaagcgagattaaacattgccttgatacttcaacagcacattagctggg Alignment from Exonerate_coding2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gagcatggcatttttgagtttcagcccctcccaattttatctatgtgcagTATATTGACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATCCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaagcgagattaaacattgccttgatacttcaacagcacattagctggg Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gagcatggcatttttgagtttcagcccctcccaattttatctatgtgcagTATATTGACCCCTCAGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATCCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaagcgagattaaacattgccttgatacttcaacagcacattagctggg #### Sfxn2_ID9970_8 --> 2 - 0 Original Alignment tcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG cggcagcatacttaggttggtgcgccctagccgcagttcctctcttctagcc---------GTCATTATGGAGAGACTAGAGAGACTACATCTGATGAAGgtgagccgttccactctccctgtaattcttgcacacttcttctttctgct Alignment from CESAR tcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG cttcttggtcggcagcatacttaggcctagccgcagttcctctcttctagcc---------GTCATTATGGAGAGACTAGAGAGACTACATCTGATGAAGgtgagccgttccactctccctgtaattcttgcacacttcttctttctgct Alignment from Spaln_aa2Genome CTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG cggcagcatacttaggttggtgcgccctagccgcagttcctctcttctagCCGTCATTATGGAGAGACTAGAGAGACTACATCTGATGAAGgtgagccgttccactctccctgtaattcttgcacacttcttctttctgct Alignment from Spaln_nt2Genome CCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG cggcagcatacttaggttggtgcgccctagccgcagttcctctcttctagCC-GTCATTATGGAGAGACTAGAGAGACTACATCTGATGAAGgtgagccgttccactctccctgtaattcttgcacacttcttctttctgct Alignment from Pairagon TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG cggcagcatacttaggttggtgcgccctagccgcagttcctctcttctag---------CCGTCATTATGGAGAGACTAGAGAGACTACATCTGATGAAGgtgagccgttccactctccctgtaattcttgcacacttcttctttctgct Alignment from Exonerate_protein2genome CTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG cggcagcatacttaggttggtgcgccctagccgcagttcctctcttctagCCGTCATTATGGAGAGACTAGAGAGACTACATCTGATGAAGgtgagccgttccactctccctgtaattcttgcacacttcttctttctgct Alignment from Exonerate_coding2genome cggcagcatacttaggttggtgcgccctagccgcagttcctctcttctagccgtcattatggagagactagagagactacatctgatgaaggtgagccgttccactctccctgtaattcttgcacacttcttctttctgct Alignment from GeneWise -------CTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG cggcagcatacttaggttggtgcgccctagccgcagTTCCTCTCTTCTAGCCGTCATTATGGAGAGACTAGAGAGACTACATCTGATGAAGgtgagccgttccactctccctgtaattcttgcacacttcttctttctgct #### Sfxn2_ID9971_9 --> 0 - 2 Original Alignment ------AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCtt ctggctctctgctcctggcttcatggcaatctgtttttacaatctaacagATCGAAAAAGTCAAAGTGATGCATGCCCCCCTGCAAGTG---CTTTGTGGTTGTtcgtaaactgatctcccaatgcagtgagctcttcagtatcaaaccagtggtc Alignment from CESAR ------AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCtt ctggctctctgctcctggcttcatggcaatctgtttttacaatctaacagATCGAAAAAGTCAAAGTGATGCATGCCCCCCTGCAAGTG---CTTTGTGGTTGTtcgtaaactgatctcccaatgcagtgagctcttcagtatcaaaccagtggtc Alignment from Spaln_aa2Genome AAGGTCAAAGTG------ATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ctggctctctgctcctggcttcatggcaatctgtttttacaatctaacagATCGAAAAAGTCAAAGTGATGCATGCCCCCCTGCAAGTG---CTTTGTGGTTGTTCgtaaactgatctcccaatgcagtgagctcttcagtatcaaaccagtggtc Alignment from Spaln_nt2Genome AAGGTCAAAGT------GATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ctggctctctgctcctggcttcatggcaatctgtttttacaatctaacagATCGAAAAAGTCAAAGTGATGCATGCCCCCCTGCAAG---TGCTTTGTGGTTGTTCgtaaactgatctcccaatgcagtgagctcttcagtatcaaaccagtggtc Alignment from Pairagon ------AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ctggctctctgctcctggcttcatggcaatctgtttttacaatctaacagATCGAAAAAGTCAAAGTGATGCATGCCCCCCTGCAAG---TGCTTTGTGGTTGTTCgtaaactgatctcccaatgcagtgagctcttcagtatcaaaccagtggtc Alignment from Exonerate_protein2genome AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ctggctctctgctcctggcttcatggcaatctgtttttacaatctaacagatcgaaAAAGTCAAAGTGATGCATGCCCCCCTGCAAGTG---CTTTGTGGTTGTTCgtaaactgatctcccaatgcagtgagctcttcagtatcaaaccagtggtc Alignment from Exonerate_coding2genome ctggctctctgctcctggcttcatggcaatctgtttttacaatctaacagatcgaaaaagtcaaagtgatgcatgcccccctgcaagtgctttgtggttgttcgtaaactgatctcccaatgcagtgagctcttcagtatcaaaccagtggtc Alignment from GeneWise ------AAGGTCAAAGTGATGCACGCCCCCCTGCAGGTCTTGCTGTGTGGCTGCTT ctggctctctgctcctggcttcatggcaatctgtttttacaatctaacagATCGAAAAAGTCAAAGTGATGCATGCCCCCCTGCAAGTGCTT---TGTGGTTGTTCgtaaactgatctcccaatgcagtgagctcttcagtatcaaaccagtggtc #### Sfxn3_ID9285_3 --> 1 - 2 Original Alignment gAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGca tcagtggactgggtttgggggtatagacaacgatgctgttccccccccaga---ACTCCCACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAACTACTCTAATCGGAGTGGAGATGCCCCCATCACTGTCaggtaaatcaccctcatccacaggcattcctggtccccatggctcccgtgtc Alignment from CESAR gAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGca ggatcagtggactgggtttgggggtgacaacgatgctgttccccccccaga---ACTCCCACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAACTACTCTAATCGGAGTGGAGATGCCCCCATCACTGTCaggtaaatcaccctcatccacaggcattcctggtccccatggctcccgtgtc Alignment from Spaln_aa2Genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA tcagtggactgggtttgggggtatagacaacgatgctgttccccccccagAACTCCCACTGTG---GTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAACTACTCTAATCGGAGTGGAGATGCCCCCATCACTGTCAGgtaaatcaccctcatccacaggcattcctggtccccatggctcccgtgtc Alignment from Spaln_nt2Genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA tcagtggactgggtttgggggtatagacaacgatgctgttccccccccag---AACTCCCACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAACTACTCTAATCGGAGTGGAGATGCCCCCATCACTGTCAGgtaaatcaccctcatccacaggcattcctggtccccatggctcccgtgtc Alignment from Pairagon GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA tcagtggactgggtttgggggtatagacaacgatgctgttccccccccag---AACTCCCACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAACTACTCTAATCGGAGTGGAGATGCCCCCATCACTGTCAGgtaaatcaccctcatccacaggcattcctggtccccatggctcccgtgtc Alignment from Exonerate_protein2genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA tcagtggactgggtttgggggtatagacaacgatgctgttccccccccagA---ACTCCCACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAACTACTCTAATCGGAGTGGAGATGCCCCCATCACTGTCAGgtaaatcaccctcatccacaggcattcctggtccccatggctcccgtgtc Alignment from Exonerate_coding2genome GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA tcagtggactgggtttgggggtatagacaacgatgctgttccccccccagA---ACTCCCACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAACTACTCTAATCGGAGTGGAGATGCCCCCATCACTGTCAGgtaaatcaccctcatccacaggcattcctggtccccatggctcccgtgtc Alignment from GeneWise GAAGACTCCGACTGTGGTGTTCTGGCAGTGGGTCAATCAGTCCTTCAATGCTATTGTGAATTACTCTAATCGCAGCGGCGATGCTCCCATCACTGTGCA tcagtggactgggtttgggggtatagacaacgatgctgttccccccccagA---ACTCCCACTGTGGTGTTTTGGCAGTGGGTCAATCAATCATTTAATGCTATCGTTAACTACTCTAATCGGAGTGGAGATGCCCCCATCACTGTCAGgtaaatcaccctcatccacaggcattcctggtccccatggctcccgtgtc #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment g---------------------CAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaattttggggcactacggacttcacaccaattgctctgttcccaggTGGCGGATCATTCCGGGGCACCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtctccctccactctaagcctttcctgaattatttatcccatgtc Alignment from CESAR g---------------------CAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaattttggggcactacggacttcacaccaattgctctgttcccaggTGGCGGATCATTCCGGGGCACCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtctccctccactctaagcctttcctgaattatttatcccatgtc Alignment from Spaln_aa2Genome G---------------------CAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaattttggggcactacggacttcacaccaattgctctgttcccagGTGGCGGATCATTCCGGGGCACCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtctccctccactctaagcctttcctgaattatttatcccatgtc Alignment from Spaln_nt2Genome CTGTGCAGCAGTTGGGG--------------ACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaattttggggcactacggacttcacaccaattgctctgttcccagGTGGCGGATCATTCCGGGGCACCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtctccctccactctaagcctttcctgaattatttatcccatgtc Alignment from Pairagon GT----------------GCAGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaattttggggcactacggacttcacaccaattgctctgttcccagGTGGCGGATCATTCCGGGGCACCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtctccctccactctaagcctttcctgaattatttatcccatgtc Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaattttggggcactacggacttcacaccaattgctctgttcccaggtggcggatcattccggggcaCCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtctccctccactctaagcctttcctgaattatttatcccatgtc Alignment from Exonerate_coding2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaattttggggcactacggacttcacaccaattgctctgttcccaggtggcggatcattccggggcaCCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtctccctccactctaagcctttcctgaattatttatcccatgtc Alignment from GeneWise -------------------CAGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cttttaattttggggcactacggacttcacaccaattgctctgttcccagGTGGCGGATCATTCCGGGGCACCAGTTAGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTCTGACCAAGgtgaggtctccctccactctaagcctttcctgaattatttatcccatgtc #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaatgctaccgcatgaaggaccatctcatgtcctcctttctgtcccagc---CTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTCCTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaagctgtcaagttaacattgaatgccatattatactgagtctctacgc Alignment from CESAR cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG aaaggaaatgctaccgcatgaaggatctcatgtcctcctttctgtcccagc---CTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTCCTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaagctgtcaagttaacattgaatgccatattatatgttcaccactacc Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaatgctaccgcatgaaggaccatctcatgtcctcctttctgtcccagC---CTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTCCTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaagctgtcaagttaacattgaatgccatattatactgagtctctacgc Alignment from Spaln_nt2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaatgctaccgcatgaaggaccatctcatgtcctcctttctgtcccag---CCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTCCTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaagctgtcaagttaacattgaatgccatattatactgagtctctacgc Alignment from Pairagon CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaatgctaccgcatgaaggaccatctcatgtcctcctttctgtcccag---CCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTCCTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaagctgtcaagttaacattgaatgccatattatactgagtctctacgc Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaatgctaccgcatgaaggaccatctcatgtcctcctttctgtccCAGCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTCCTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaagctgtcaagttaacattgaatgccatattatactgagtctctacgc Alignment from Exonerate_coding2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaatgctaccgcatgaaggaccatctcatgtcctcctttctgtccCAGCCTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTCCTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaagctgtcaagttaacattgaatgccatattatactgagtctctacgc Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCC----------------------------------------------------- ggaaatgctaccgcatgaaggaccatctcatgtcctcctttctgtcccagC---CTGTCTGATGAGGTCCCTGTCCTACCCAAGATTACACCAGATCTCCTCCTTATTACAACAGCTAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGGTAAGCTGTCAAGTTAACATTGAATGCCATATTATACTGAGTCTCTACGC #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---------ag ttgggcacactaaagatcatagattttttgattctcacttcattccaaagCTCCTAAGGAAACGTCACATCAGCAATGATATTGTGACCATTGTGTTCCAGGAGCCCGGCAGCAAGCCCTTCTGTCCTATGACAATCTGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCACATGCACCTTGCACTCCCCACACCTCATACGTTACAACCaggtaagtacttgggtgaacttgtgtcatagggtggggtcaactatcatcat Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---------ag ttgggcacactaaagatcatagattttttgattctcacttcattccaaagCTCCTAAGGAAACGTCACATCAGCAATGATATTGTGACCATTGTGTTCCAGGAGCCCGGCAGCAAGCCCTTCTGTCCTATGACAATCTGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCACATGCACCTTGCACTCCCCACACCTCATACGTTACAACCaggtaagtacttgggtgaacttgtgtcatagggtggggtcaactatcatcat Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAGG-------- ttgggcacactaaagatcatagattttttgattctcacttcattccaaagCTCCTAAGGAAACGTCACATCAGCAATGATATTGTGACCATTGTGTTCCAGGAGCCCGGCAGCAAGCCCTTCTGTCCTATGACAATCTGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCACATGCACCTTGCACTCCCCACACCTCATACGTTACAACCAGgtaagtacttgggtgaacttgtgtcatagggtggggtcaactatcatcat Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---------AG ttgggcacactaaagatcatagattttttgattctcacttcattccaaagCTCCTAAGGAAACGTCACATCAGCAATGATATTGTGACCATTGTGTTCCAGGAGCCCGGCAGCAAGCCCTTCTGTCCTATGACAATCTGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCACATGCACCTTGCACTCCCCACACCTCATACGTTACAACCAGgtaagtacttgggtgaacttgtgtcatagggtggggtcaactatcatcat Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATA---------CAG ttgggcacactaaagatcatagattttttgattctcacttcattccaaagCTCCTAAGGAAACGTCACATCAGCAATGATATTGTGACCATTGTGTTCCAGGAGCCCGGCAGCAAGCCCTTCTGTCCTATGACAATCTGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCACATGCACCTTGCACTCCCCACACCTCATACGTTACAACCAGgtaagtacttgggtgaacttgtgtcatagggtggggtcaactatcatcat Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---------AG ttgggcacactaaagatcatagattttttgattctcacttcattccaaagCTCCTAAGGAAACGTCACATCAGCAATGATATTGTGACCATTGTGTTCCAGGAGCCCGGCAGCAAGCCCTTCTGTCCTATGACAATCTGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCACATGCACCTTGCACTCCCCACACCTCATACGTTACAACCAGgtaagtacttgggtgaacttgtgtcatagggtggggtcaactatcatcat Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---------AG ttgggcacactaaagatcatagattttttgattctcacttcattccaaagCTCCTAAGGAAACGTCACATCAGCAATGATATTGTGACCATTGTGTTCCAGGAGCCCGGCAGCAAGCCCTTCTGTCCTATGACAATCTGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCACATGCACCTTGCACTCCCCACACCTCATACGTTACAACCAGgtaagtacttgggtgaacttgtgtcatagggtggggtcaactatcatcat Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATAC---------AG ttgggcacactaaagatcatagattttttgattctcacttcattccaaagCTCCTAAGGAAACGTCACATCAGCAATGATATTGTGACCATTGTGTTCCAGGAGCCCGGCAGCAAGCCCTTCTGTCCTATGACAATCTGCTCTCACTTCCAGCATGTTTTCTTGGTGGTGCGAGCACATGCACCTTGCACTCCCCACACCTCATACGTTACAACCAGgtaagtacttgggtgaacttgtgtcatagggtggggtcaactatcatcat #### Slc15a3_ID3029_4 --> 0 - 0 Original Alignment ---------ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ggctctacctacctcactatgtatcgtcatgtttcttgcctcttatatagCACACACCAATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGATAGCAGTAACTACAGAgtgagttgctacaacatgattagatcacaataaggacacttggtggggca Alignment from CESAR ---------ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ggctctacctacctcactatgtatcgtcatgtttcttgcctcttatatagCACACACCAATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGATAGCAGTAACTACAGAgtgagttgctacaacatgattagatcacaataaggacacttggtggggca Alignment from Spaln_aa2Genome ATGCAGTCCACC---------TATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ggctctacctacctcactatgtatcgtcatgtttcttgcctcttatatagCACACACCAATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGATAGCAGTAACTACAGAgtgagttgctacaacatgattagatcacaataaggacacttggtggggca Alignment from Spaln_nt2Genome ---------ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ggctctacctacctcactatgtatcgtcatgtttcttgcctcttatatagCACACACCAATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGATAGCAGTAACTACAGAgtgagttgctacaacatgattagatcacaataaggacacttggtggggca Alignment from Pairagon ---------ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ggctctacctacctcactatgtatcgtcatgtttcttgcctcttatatagCACACACCAATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGATAGCAGTAACTACAGAgtgagttgctacaacatgattagatcacaataaggacacttggtggggca Alignment from Exonerate_protein2genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ggctctacctacctcactatgtatcgtcatgtttcttgcctcttatatagcacacaccaATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGATAGCAGTAACTACAGAgtgagttgctacaacatgattagatcacaataaggacacttggtggggca Alignment from Exonerate_coding2genome ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ggctctacctacctcactatgtatcgtcatgtttcttgcctcttatatagcacacaccaATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGATAGCAGTAACTACAGAgtgagttgctacaacatgattagatcacaataaggacacttggtggggca Alignment from GeneWise ---------ATGCAGTCCACCTATGTCCTCCAAGGTCTCCACCTCCATATCCCCAACATCTTCAGGACCAACCCTAACATCTCTTTGTTGCTGAGATCAGATAGCAGTAACTACAGG ggctctacctacctcactatgtatcgtcatgtttcttgcctcttatatagCACACACCAATGCAGTCAACTTACATCCTCCAAGGTCTACACCTCCATATCCCAAACATCTTCAGGACTAATCCTAACATATCTCTGTTGCTGAGATCAGATAGCAGTAACTACAGAgtgagttgctacaacatgattagatcacaataaggacacttggtggggca #### Slc18a2_ID12939_7 --> 2 - 0 Original Alignment ct---------ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaggtatgggatgcttgtgttatatctgtcttttctttatttcatcagctATTCTCAATATTCAGCTCTTTGTAATTCAA---TCCTGCGTACTACCAGATgtaatgagctgggagttacaacatggttaagtttttcgctcttgcgcatt Alignment from CESAR ct---------ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaggtatgggatgcttgtgttatatctgtcttttctttatttcatcagctATTCTCAATATTCAGCTCTTTGTAATTCAA---TCCTGCGTACTACCAGATgtaatgagctgggagttacaacatggttaagtttttctgctaattgtctc Alignment from Spaln_aa2Genome CT---------ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaggtatgggatgcttgtgttatatctgtcttttctttatttcatcagCTATTCTCAATATTCAGCTCTTTGTAATTCAA---TCCTGCGTACTACCAGATgtaatgagctgggagttacaacatggttaagtttttcgctcttgcgcatt Alignment from Spaln_nt2Genome GCCAG AA GCCAGgtatgggatgcttgtgttatatctgtcttttctttatttcatcagctattctcaatattcagctctttgtaattcaatcctgcgtactaccagATgtaatgagctgggagttacaacatggttaagtttttcgctcttgcgcatt Alignment from Pairagon gccaggtatgggatgcttgtgttatatctgtcttttctttatttcatcagctattctcaatattcagctctttgtaattcaatcctgcgtactaccagatgtaatgagctgggagttacaacatggttaagtttttcgctcttgcgcatt Alignment from Exonerate_protein2genome CGAGTG gccaggtatgggatgcttgtgttatatctgtcttttctttatttcatcagctattctcaatattcagctctttgtaattcaatcctgcgtactaccagatgtaatgagctgggagttacaacatggttaagtttttcgctcttgCGCATT Alignment from Exonerate_coding2genome CGAGTG gccaggtatgggatgcttgtgttatatctgtcttttctttatttcatcagctattctcaatattcagctctttgtaattcaatcctgcgtactaccagatgtaatgagctgggagttacaacatggttaagtttttcgctcttgCGCATT Alignment from GeneWise --------GCTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA gccaggtatgggatgcttgtgttatatctgtcttttctttatttcatcagCTATTCTCAATATTCAGCTCTTTGTAATTCAA---TCCTGCGTACTACCAGATgtaatgagctgggagttacaacatggttaagtttttcgctcttgcgcatt #### Slc18a2_ID12940_8 --> 0 - 1 Original Alignment AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAg tgggagttacaacatggttaagtttttctgctaattgtctctcctttcagAGTCAGAAGGGGACACCTCTCACAACCTTACTG---------------------------ggttagaggactttaattttttggcagctcactcgccgcgtattgtgattc Alignment from CESAR AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAg tgggagttacaacatggttaagtttttctgctaattgtctctcctttcagAGTCAGAAGGGGACACCTCTCACAACCTTACTG---------------------------ggttagaggactttaattttttggcagctcactcgccgcgtattgtgattc Alignment from Spaln_aa2Genome AGTCAGAAGGGGACACCTCTTACGACCTTGCTGA tgggagttacaacatggttaagtttttctgctaattgtctctcctttcagAGTCAGAAGGGGACACCTCTCACAACCTTACTGGgttagaggactttaattttttggcagctcactcgccgcgtattgtgattc Alignment from Spaln_nt2Genome AGTCAGAAGGGGACACCTCTTACGACCTTGCTG- tgggagttacaacatggttaagtttttctgctaattgtctctcctttcagAGTCAGAAGGGGACACCTCTCACAACCTTACTGGgttagaggactttaattttttggcagctcactcgccgcgtattgtgattc Alignment from Pairagon AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAG tgggagttacaacatggttaagtttttctgctaattgtctctcctttcagAGTCAGAAGGGGACACCTCTCACAACCTTACTG---------------------------Ggttagaggactttaattttttggcagctcactcgccgcgtattgtgattc Alignment from Exonerate_protein2genome AGTCAGAAGGGGACACCTCTTACGACCTTGCTG tgggagttacaacatggttaagtttttctgctaattgtctctcctttcagAGTCAGAAGGGGACACCTCTCACAACCTTACTGggttagaggactttaattttttggcagctcactcgccgcgtattgtgattc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise tgggagttacaacatggttaagtttttctgctaattgtctctcctttcagagtcagaaggggacacctctcacaaccttactgggttagaggactttaattttttggcagctcactcgccgcgtattgtgattc #### Slc22a20_ID1344_9 --> 1 - 2 Original Alignment gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGA---------cg gagcatttttggaccaggcccatctcctctgactgacaatgcctttccaggCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---CTTGGAGGTTTGGTGGCCCCACTGATCACATCACTAGGAGAGATCAGCCCAGTCCTGCCACCAGTATCCTTTGGTGCCACATCTGTTCTGGCTGGCATGGCTGTGGCTTGCTTCCTGACTGAGACCCGTAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAGTTGATGAAcggtgagtacaccctattgccacaaccagtaatcaaccctgaaactagcaaa Alignment from CESAR gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGA---------cg gagcatttttggaccaggcccatctcctctgactgacaatgcctttccaggCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---CTTGGAGGTTTGGTGGCCCCACTGATCACATCACTAGGAGAGATCAGCCCAGTCCTGCCACCAGTATCCTTTGGTGCCACATCTGTTCTGGCTGGCATGGCTGTGGCTTGCTTCCTGACTGAGACCCGTAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAGTTGATGAAcggtgagtacaccctattgccacaaccagtaatcaaccctgaaactagcaaa Alignment from Spaln_aa2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACGA-------- gagcatttttggaccaggcccatctcctctgactgacaatgcctttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---CTTGGAGGTTTGGTGGCCCCACTGATCACATCACTAGGAGAGATCAGCCCAGTCCTGCCACCAGTATCCTTTGGTGCCACATCTGTTCTGGCTGGCATGGCTGTGGCTTGCTTCCTGACTGAGACCCGTAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAGTTGATGAACGgtgagtacaccctattgccacaaccagtaatcaaccctgaaactagcaaa Alignment from Spaln_nt2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGA---------CG gagcatttttggaccaggcccatctcctctgactgacaatgcctttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGC---TCTTGGAGGTTTGGTGGCCCCACTGATCACATCACTAGGAGAGATCAGCCCAGTCCTGCCACCAGTATCCTTTGGTGCCACATCTGTTCTGGCTGGCATGGCTGTGGCTTGCTTCCTGACTGAGACCCGTAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAGTTGATGAACGgtgagtacaccctattgccacaaccagtaatcaaccctgaaactagcaaa Alignment from Pairagon GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAG---------ACG gagcatttttggaccaggcccatctcctctgactgacaatgcctttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGC---TCTTGGAGGTTTGGTGGCCCCACTGATCACATCACTAGGAGAGATCAGCCCAGTCCTGCCACCAGTATCCTTTGGTGCCACATCTGTTCTGGCTGGCATGGCTGTGGCTTGCTTCCTGACTGAGACCCGTAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAGTTGATGAACGgtgagtacaccctattgccacaaccagtaatcaaccctgaaactagcaaa Alignment from Exonerate_protein2genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGA gagcatttttggaccaggcccatctcctctgactgacaatgcctttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---CTTGGAGGTTTGGTGGCCCCACTGATCACATCACTAGGAGAGATCAGCCCAGTCCTGCCACCAGTATCCTTTGGTGCCACATCTGTTCTGGCTGGCATGGCTGTGGCTTGCTTCCTGACTGAGACCCGTAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAgttgatgaacggtgagtacaccctattgccacaaccagtaatcaaccctgaaactagcaaa Alignment from Exonerate_coding2genome gagcatttttggaccaggcccatctcctctgactgacaatgcctttccaggcaaatgggtatggagtttgcttctgtcaatgctcttggaggtttggtggccccactgatcacatcactaggagagatcagcccagtcctgccaccagtatcctttggtgccacatctgttctggctggcatggctgtggcttgcttcctgactgagacccgtaatgtgccactggtagaaactattgctgcaatggagagagttgatgaacggtgagtacaccctattgccacaaccagtaatcaaccctgaaactagcaaa Alignment from GeneWise GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGA---------CG gagcatttttggaccaggcccatctcctctgactgacaatgcctttccagGCAAATGGGTATGGAGTTTGCTTCTGTCAATGCT---CTTGGAGGTTTGGTGGCCCCACTGATCACATCACTAGGAGAGATCAGCCCAGTCCTGCCACCAGTATCCTTTGGTGCCACATCTGTTCTGGCTGGCATGGCTGTGGCTTGCTTCCTGACTGAGACCCGTAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAGTTGATGAACGgtgagtacaccctattgccacaaccagtaatcaaccctgaaactagcaaa #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGAC------------------------------------------ag agggtggcgacctcacaatcaaagcctacatgtgtttcttttcttaccagTGGGACCTGGTGTGCGAGACCCGCACTCTACATGACCTGGCTCAGTCTATCTATATGTCTGGAGTGTTGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACGTCCTCTATGGCAACCCCATTACAGACCTGGTGGGGCGTCATaggtgagtttcttggatggcaactatttcctcactctttattgtcatttcta Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag agggtggcgacctcacaatcaaagcctacatgtgtttcttttcttaccagTGGGACCTGGTGTGCGAGACCCGCACTCTACATGACCTGGCTCAGTCTATCTATATGTCTGGAGTGTTGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACgtcctctatggcaaccccattacagacctggtggggcgtcataggtgagtttcttggatggcaactatttcctcactctttattgtcatttcta Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAGGTTG---G agggtggcgacctcacaatcaaagcctacatgtgtttcttttcttaccagTGGGACCTGGTGTGCGAGACCCGCACTCTACATGACCTGGCTCAGTCTATCTATATGTCTGGAGTGTTGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACGTCCTCTATGgcaaccccattacagacctggtggggcgtcataggtgagtttcttggatggcaactatttcctcactctttattgtcatttcta Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGAC agggtggcgacctcacaatcaaagcctacatgtgtttcttttcttaccagTGGGACCTGGTGTGCGAGACCCGCACTCTACATGACCTGGCTCAGTCTATCTATATGTCTGGAGTGTTGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACgtcctctatggcaaccccattacagacctggtggggcgtcataggtgagtttcttggatggcaactatttcctcactctttattgtcatttcta Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGAC------------------------------------------AG agggtggcgacctcacaatcaaagcctacatgtgtttcttttcttaccagTGGGACCTGGTGTGCGAGACCCGCACTCTACATGACCTGGCTCAGTCTATCTATATGTCTGGAGTGTTGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACGTCCTCTATGGCAACCCCATTACAGACCTGGTGGGGCGTCATAGgtgagtttcttggatggcaactatttcctcactctttattgtcatttcta Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGAC agggtggcgacctcacaatcaaagcctacatgtgtttcttttcttaccagTGGGACCTGGTGTGCGAGACCCGCACTCTACATGACCTGGCTCAGTCTATCTATATGTCTGGAGTGTTGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACgtcctctatggcaaccccattacagacctggtggggcgtcataggtgagtttcttggatggcaactatttcctcactctttattgtcatttcta Alignment from Exonerate_coding2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGAC agggtggcgacctcacaatcaaagcctacatgtgtttcttttcttaccagTGGGACCTGGTGTGCGAGACCCGCACTCTACATGACCTGGCTCAGTCTATCTATATGTCTGGAGTGTTGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACgtcctctatggcaaccccattacagacctggtggggcgtcataggtgagtttcttggatggcaactatttcctcactctttattgtcatttcta Alignment from GeneWise TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGAC agggtggcgacctcacaatcaaagcctacatgtgtttcttttcttaccagTGGGACCTGGTGTGCGAGACCCGCACTCTACATGACCTGGCTCAGTCTATCTATATGTCTGGAGTGTTGGTTGGGGCTGCCTTGTTTGGTTGCCTAGCAGACgtcctctatggcaaccccattacagacctggtggggcgtcataggtgagtttcttggatggcaactatttcctcactctttattgtcatttcta #### Slc22a8_ID2273_6 --> 0 - 2 Original Alignment GAGCTGAAGTTCAACTTGCAGAAGGACATCACCTCAGCCAAGGTCAAATATGGCTTATCTGACTTGTTCCGAGTGTCCATCCTGCGCCGT---GTGACCTTCTGTCTCTCTCTGGCC---tg ttttttccagtgtaagccattgatgatactttccctctggttttgtttagGAGCTGAAGTTTAACTTGCAGAGAGACATCACCTCAGCTGAGGTCAAATATGGCTTATCTGACTTGTTTCAAGTG---TTCCTACGACGACGAGTGACTTACTGTCTTTCTCTTTCCGCAtggtgagcttgcactgtttcaaatcatgttccacattaggattgactaagaa Alignment from CESAR GAGCTGAAGTTCAACTTGCAGAAGGACATCACCTCAGCCAAGGTCAAATATGGCTTATCTGACTTGTTCCGAGTGTCCATCCTGCGCCGTGTGACCTTCTGTCTCTCTCTG---GCCtg ttttttccagtgtaagccattgatgatactttccctctggttttgtttagGAGCTGAAGTTTAACTTGCAGAGAGACATCACCTCAGCTGAGGTCAAATATGGCTTATCTGACTTGTTTCAAGTGTTCCTACGACGACGAGTGACTTACTGTCTTTCTCTTTCCGCAtggtgagcttgcactgtttcaaatcatgttccacattaggattgactaagaa Alignment from Spaln_aa2Genome GAGCTGAAGTTCAACTTGCAGAAGGACATCACCTCAGCCAAGGTCAAATATGGCTTATCTGACTTGTTCCGAGTGTCCATCCTGCGCCGTGTGACCTTCTGTCTCTCTCTG---GCCTG ttttttccagtgtaagccattgatgatactttccctctggttttgtttagGAGCTGAAGTTTAACTTGCAGAGAGACATCACCTCAGCTGAGGTCAAATATGGCTTATCTGACTTGTTTCAAGTGTTCCTACGACGACGAGTGACTTACTGTCTTTCTCTTTCCGCATGgtgagcttgcactgtttcaaatcatgttccacattaggattgactaagaa Alignment from Spaln_nt2Genome GAGCTGAAGTTCAACTTGCAGAAGGACATCACCTCAGCCAAGGTCAAATATGGCTTATCTGACTTGTTCCGAGTGTCCATCCTGCGCCGTGTGACCTTCTGTCTCTCTCTGGCC---TG ttttttccagtgtaagccattgatgatactttccctctggttttgtttagGAGCTGAAGTTTAACTTGCAGAGAGACATCACCTCAGCTGAGGTCAAATATGGCTTATCTGACTTGTTTCAAGTGTTCCTACGACGACGAGTGACTTACTGTCTTTCTCTTTCCGCATGgtgagcttgcactgtttcaaatcatgttccacattaggattgactaagaa Alignment from Pairagon GAGCTGAAGTTCAACTTGCAGAAGGACATCACCTCAGCCAAGGTCAAATATGGCTTATCTGACTTGTTCCGAGTGTCCATCCTGCGCCGTGTGACCTTCTGTCTCTCTCT---GGCCTG ttttttccagtgtaagccattgatgatactttccctctggttttgtttagGAGCTGAAGTTTAACTTGCAGAGAGACATCACCTCAGCTGAGGTCAAATATGGCTTATCTGACTTGTTTCAAGTGTTCCTACGACGACGAGTGACTTACTGTCTTTCTCTTTCCGCATGgtgagcttgcactgtttcaaatcatgttccacattaggattgactaagaa Alignment from Exonerate_protein2genome GAGCTGAAGTTCAACTTGCAGAAGGACATCACCTCAGCCAAGGTCAAATATGGCTTATCTGACTTGTTCCGAGTGTCCATCCTGCGCCGTGTGACCTTCTGTCTCTCTCTG---GCCTG ttttttccagtgtaagccattgatgatactttccctctggttttgtttagGAGCTGAAGTTTAACTTGCAGAGAGACATCACCTCAGCTGAGGTCAAATATGGCTTATCTGACTTGTTTCAAGTGTTCCTACGACGACGAGTGACTTACTGTCTTTCTCTTTCCGCATGgtgagcttgcactgtttcaaatcatgttccacattaggattgactaagaa Alignment from Exonerate_coding2genome GAGCTGAAGTTCAACTTGCAGAAGGACATCACCTCAGCCAAGGTCAAATATGGCTTATCTGACTTGTTCCGAGTGTCCATCCTGCGCCGTGTGACCTTCTGTCTCTCTCTG---GCCTG ttttttccagtgtaagccattgatgatactttccctctggttttgtttagGAGCTGAAGTTTAACTTGCAGAGAGACATCACCTCAGCTGAGGTCAAATATGGCTTATCTGACTTGTTTCAAGTGTTCCTACGACGACGAGTGACTTACTGTCTTTCTCTTTCCGCATGgtgagcttgcactgtttcaaatcatgttccacattaggattgactaagaa Alignment from GeneWise GAGCTGAAGTTCAACTTGCAGAAGGACATCACCTCAGCCAAGGTCAAATATGGCTTATCTGACTTGTTCCGAGTGTCCATCCTGCGCCGTGTGACCTTCTGTCTCTCTCTGGCCTGG-- ttttttccagtgtaagccattgatgatactttccctctggttttgtttagGAGCTGAAGTTTAACTTGCAGAGAGACATCACCTCAGCTGAGGTCAAATATGGCTTATCTGACTTGTTTCAAGTGTTCCTACGACGACGAGTGACTTACTGTCTTTCTCTTTCCGCATGgtgagcttgcactgtttcaaatcatgttccacattaggattgactaagaa #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aa---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtctcctagcaaatttacatgcagaggaatttttcctctggggttccagaaTGTATGGAGATAGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCTTATCCGGCTCCTTCAGCTGCCTCTTCTTCTACACCAGTGAGCTCTACCCCACAGTCCTCaggtaagaggtgcacttgggtcaggagtccatctgaagagctgaattctcaa Alignment from CESAR aa---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tgtctcctagcaaatttacatgcagaggaatttttcctctggggttccagaaTGTATGGAGATAGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCTTATCCGGCTCCTTCAGCTGCCTCTTCTTCTACACCAGTGAGCTCTACCCCACAGTCCTCaggtaagaggtgcacttgggtcaggagtccatctgaagagctgaattctcaa Alignment from Spaln_aa2Genome AA---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtctcctagcaaatttacatgcagaggaatttttcctctggggttccagAATGTATGGAGATAGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCTTATCCGGCTCCTTCAGCTGCCTCTTCTTCTACACCAGTGAGCTCTACCCCACAGTCCTCAGgtaagaggtgcacttgggtcaggagtccatctgaagagctgaattctcaa Alignment from Spaln_nt2Genome AA---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtctcctagcaaatttacatgcagaggaatttttcctctggggttccagAATGTATGGAGATAGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCTTATCCGGCTCCTTCAGCTGCCTCTTCTTCTACACCAGTGAGCTCTACCCCACAGTCCTCAGgtaagaggtgcacttgggtcaggagtccatctgaagagctgaattctcaa Alignment from Pairagon AA---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtctcctagcaaatttacatgcagaggaatttttcctctggggttccagAATGTATGGAGATAGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCTTATCCGGCTCCTTCAGCTGCCTCTTCTTCTACACCAGTGAGCTCTACCCCACAGTCCTCAGgtaagaggtgcacttgggtcaggagtccatctgaagagctgaattctcaa Alignment from Exonerate_protein2genome AA---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtctcctagcaaatttacatgcagaggaatttttcctctggggttccagAATGTATGGAGATAGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCTTATCCGGCTCCTTCAGCTGCCTCTTCTTCTACACCAGTGAGCTCTACCCCACAGTCCTCAGgtaagaggtgcacttgggtcaggagtccatctgaagagctgaattctcaa Alignment from Exonerate_coding2genome AA---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtctcctagcaaatttacatgcagaggaatttttcctctggggttccagAATGTATGGAGATAGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCTTATCCGGCTCCTTCAGCTGCCTCTTCTTCTACACCAGTGAGCTCTACCCCACAGTCCTCAGgtaagaggtgcacttgggtcaggagtccatctgaagagctgaattctcaa Alignment from GeneWise --GAAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tgtctcctagcaaatttacatgcagaggaatttttcctctggggttccagAATGTATGGAGATAGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCTTATCCGGCTCCTTCAGCTGCCTCTTCTTCTACACCAGTGAGCTCTACCCCACAGTCCTCAGgtaagaggtgcacttgggtcaggagtccatctgaagagctgaattctcaa #### Slc25a45_ID1293_4 --> 0 - 0 Original Alignment GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG------ aagcttcactaatgtttttggacacaaatactgtatttttgtaatcctagGTTCTAGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCGCTAACAGCCACATCTCATCAGGAGCGCCAGGTCCAGCCCCCAAGCCACACAAATATCTTTATAGCAGGTTGTACCGGGGGCCTCCGTCAGTGGTCTgtgagagtatcattgttgcgggataattgatatacttttagttcatcgaa Alignment from CESAR GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG------ aagcttcactaatgtttttggacacaaatactgtatttttgtaatcctagGTTCTAGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCGCTAACAGCCACATCTCATCAGGAGCGCCAGGTCCAGCCCCCAAGCCACACAAATATCTTTATAGCAGGTTGTACCGGGGGCCTCCGTCAGTGGTCTgtgagagtatcattgttgcgggataattgatatacttttagttcatcgaa Alignment from Spaln_aa2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG------ aagcttcactaatgtttttggacacaaatactgtatttttgtaatcctagGTTCTAGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCGCTAACAGCCACATCTCATCAGGAGCGCCAGGTCCAGCCCCCAAGCCACACAAATATCTTTATAGCAGGTTGTACCGGGGGCCTCCGTCAGTGGTCTgtgagagtatcattgttgcgggataattgatatacttttagttcatcgaa Alignment from Spaln_nt2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCC aagcttcactaatgtttttggacacaaatactgtatttttgtaatcctagGTTCTAGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCGCTAACAGCCACATCTCATCAGGAGCGCCAGGTCCAGCCCCCAAGCCACACAAATATCTTTATAGCAGGTTGTACCGGGGGCCTCCgtcagtggtctgtgagagtatcattgttgcgggataattgatatacttttagttcatcgaa Alignment from Pairagon GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCC aagcttcactaatgtttttggacacaaatactgtatttttgtaatcctagGTTCTAGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCGCTAACAGCCACATCTCATCAGGAGCGCCAGGTCCAGCCCCCAAGCCACACAAATATCTTTATAGCAGGTTGTACCGGGGGCCTCCgtcagtggtctgtgagagtatcattgttgcgggataattgatatacttttagttcatcgaa Alignment from Exonerate_protein2genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG aagcttcactaatgtttttggacacaaatactgtatttttgtaatcctagGTTCTAGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCGCTAACAGCCACATCTCATCAGGAGCGCCAGGTCCAGCCCCCAAGCCACACAAATATCTTTATAGCAGGTTGTACCGGGGGCCTCCGTCAGtggtctgtgagagtatcattgttgcgggataattgatatacttttagttcatcgaa Alignment from Exonerate_coding2genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG aagcttcactaatgtttttggacacaaatactgtatttttgtaatcctagGTTCTAGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCGCTAACAGCCACATCTCATCAGGAGCGCCAGGTCCAGCCCCCAAGCCACACAAATATCTTTATAGCAGGTTGTACCGGGGGCCTCCGTCAGtggtctgtgagagtatcattgttgcgggataattgatatacttttagttcatcgaa Alignment from GeneWise GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG------ aagcttcactaatgtttttggacacaaatactgtatttttgtaatcctagGTTCTAGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTTAACTCTGTCTTGTTTGGAGTGTACAGCAACACACTCCTGGCGCTAACAGCCACATCTCATCAGGAGCGCCAGGTCCAGCCCCCAAGCCACACAAATATCTTTATAGCAGGTTGTACCGGGGGCCTCCGTCAGTGGTCTgtgagagtatcattgttgcgggataattgatatacttttagttcatcgaa #### Slc29a2_ID792_6 --> 2 - 0 Original Alignment gt------------------GGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacgaaggagcagcattgggagacttgaagctctttgtttcattcccaggtTGCGGGTTGCATTCCAAGGGTGTGGATGCCCAGACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGCCTCACCTGgtgagttgctgcatagtttaggttatgctatgcaccattttaacatcaaa Alignment from CESAR gt------------------GGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacgaaggagcagcattgggagacttgaagctctttgtttcattcccaggtTGCGGGTTGCATTCCAAGGGTGTGGATGCCCAGACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGCCTCACCTGgtgagttgctgcatagtttaggttatgctatgcaccattttaacatcaaa Alignment from Spaln_aa2Genome GGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacgaaggagcagcattgggagacttgaagctctttgtttcattcccaggttgcgggttgcattccaagGGTGTGGATGCCCAGACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGCCTCACCTGgtgagttgctgcatagtttaggttatgctatgcaccattttaacatcaaa Alignment from Spaln_nt2Genome TGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacgaaggagcagcattgggagacttgaagctctttgtttcattcccaggttgcgggttgcattccaagGGTGTGGATGC-CCAGACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGCCTCACCTGgtgagttgctgcatagtttaggttatgctatgcaccattttaacatcaaa Alignment from Pairagon GT------------------GGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacgaaggagcagcattgggagacttgaagctctttgtttcattcccagGTTGCGGGTTGCATTCCAAGGGTGTGGATGCCCAGACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGCCTCACCTGgtgagttgctgcatagtttaggttatgctatgcaccattttaacatcaaa Alignment from Exonerate_protein2genome GGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacgaaggagcagcattgggagacttgaagctctttgtttcattcccaggttgcgggttgcattccaagGGTGTGGATGCCCAGACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGCCTCACCTGgtgagttgctgcatagtttaggttatgctatgcaccattttaacatcaaa Alignment from Exonerate_coding2genome GGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacgaaggagcagcattgggagacttgaagctctttgtttcattcccaggttgcgggttgcattccaagGGTGTGGATGCCCAGACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGCCTCACCTGgtgagttgctgcatagtttaggttatgctatgcaccattttaacatcaaa Alignment from GeneWise -----------------AGTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG gtacgaaggagcagcattgggagacttgaagctctttgtttcattcccagGTTGCGGGTTGCATTCCAAGGGTGTGGATGCCCAGACCTCTGCTCTGGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCCCCATTGTATGTTACCTCAGCCTGCCTCACCTGgtgagttgctgcatagtttaggttatgctatgcaccattttaacatcaaa #### Slc3a2_ID2302_7 --> 1 - 0 Original Alignment gCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGCAGCTGGAGT ctcttattcctcactttgtactgttgtacttttgtgtcccctaccctcagaCTTTTGATTGCAGGGACTGAATCCTCCGACCTGCAGCAGATTCTCAATATACTAGAGTCTACCAGTGACCTGCTGTTGACTAGCTCCTATCTTTCAAATTCTACATACACTGGGGAACGCACAGAATCTTTAGTAACTAGTTTTTTGAACACAACTGGCAGTCAATGGTGC---------gtaagaggcgtcgccgcgatgatgaccagcctagacctgtaagtgtaggt Alignment from CESAR gCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGCAGCTGGAGT ctcttattcctcactttgtactgttgtacttttgtgtcccctaccctcagaCTTTTGATTGCAGGGACTGAATCCTCCGACCTGCAGCAGATTCTCAATATACTAGAGTCTACCAGTGACCTGCTGTTGACTAGCTCCTATCTTTCAAATTCTACATACACTGGGGAACGCACAGAATCTTTAGTAACTAGTTTTTTGAACACAACTGGCAGTCAATGGTGC---------gtaagaggcgtcgccgcgatgatgaccagcctagacctgta Alignment from Spaln_aa2Genome GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGCAGCTGGAGT ctcttattcctcactttgtactgttgtacttttgtgtcccctaccctcagACTTTTGATTGCAGGGACTGAATCCTCCGACCTGCAGCAGATTCTCAATATACTAGAGTCTACCAGTGACCTGCTGTTGACTAGCTCCTATCTTTCAAATTCTACATACACTGGGGAACGCACAGAATCTTTAGTAACTAGTTTTTTGAACACAACTGGCAGTCAATGGTGCGTAAGAGGCgtcgccgcgatgatgaccagcctagacctgtaagtgtaggt Alignment from Spaln_nt2Genome GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGC AGCTGGA-GT ctcttattcctcactttgtactgttgtacttttgtgtcccctaccctcagACTTTTGATTGCAGGGACTGAATCCTCCGACCTGCAGCAGATTCTCAATATACTAGAGTCTACCAGTGACCTGCTGTTGACTAGCTCCTATCTTTCAAATTCTACATACACTGGGGAACGCACAGAATCTTTAGTAACTAGTTTTTTGAACACAACTGGCAGTCAATGGTGCgtaagaggcgtcgccgcgatgatgaccagcctagACCTGTAAGTgtaggt Alignment from Pairagon GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGC ctcttattcctcactttgtactgttgtacttttgtgtcccctaccctcagACTTTTGATTGCAGGGACTGAATCCTCCGACCTGCAGCAGATTCTCAATATACTAGAGTCTACCAGTGACCTGCTGTTGACTAGCTCCTATCTTTCAAATTCTACATACACTGGGGAACGCACAGAATCTTTAGTAACTAGTTTTTTGAACACAACTGGCAGTCAATGGTGCgtaagaggcgtcgccgcgatgatgaccagcctagacctgtaagtgtaggt Alignment from Exonerate_protein2genome GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGC ctcttattcctcactttgtactgttgtacttttgtgtcccctaccctcagACTTTTGATTGCAGGGACTGAATCCTCCGACCTGCAGCAGATTCTCAATATACTAGAGTCTACCAGTGACCTGCTGTTGACTAGCTCCTATCTTTCAAATTCTACATACACTGGGGAACGCACAGAATCTTTAGTAACTAGTTTTTTGAACACAACTGGCAGTCAATGGTGCgtaagaggcgtcgccgcgatgatgaccagcctagacctgtaagtgtaggt Alignment from Exonerate_coding2genome GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGC ctcttattcctcactttgtactgttgtacttttgtgtcccctaccctcagACTTTTGATTGCAGGGACTGAATCCTCCGACCTGCAGCAGATTCTCAATATACTAGAGTCTACCAGTGACCTGCTGTTGACTAGCTCCTATCTTTCAAATTCTACATACACTGGGGAACGCACAGAATCTTTAGTAACTAGTTTTTTGAACACAACTGGCAGTCAATGGTGCgtaagaggcgtcgccgcgatgatgaccagcctagacctgtaagtgtaggt Alignment from GeneWise GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGCAGCTGGAGT ctcttattcctcactttgtactgttgtacttttgtgtcccctaccctcagACTTTTGATTGCAGGGACTGAATCCTCCGACCTGCAGCAGATTCTCAATATACTAGAGTCTACCAGTGACCTGCTGTTGACTAGCTCCTATCTTTCAAATTCTACATACACTGGGGAACGCACAGAATCTTTAGTAACTAGTTTTTTGAACACAACTGGCAGTCAATGGTGCGTAAGAGGCgtcgccgcgatgatgaccagcctagacctgtaagtgtaggt #### Snx15_ID1465_7 --> 2 - 1 Original Alignment aaAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCT------GCCCCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAg agtcatgaataaataggtccccatggggattcaaatattcttcattttagaaAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACAGCCATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAGCCAGGTGGACAGGAGCAGGAGGAAGCTGAGGATGGAGAGCCTGCTCCAGCTCCACCTTATCTTGGCCAGGCAACAGAGCTTATCACTCAAACTGTGCGAAATGAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGATGGAGTGCACATCCTTCTGCAG---------ggtaagtagtttccaacacaaggaggctaagtggaaaacaaaagtccaaat Alignment from CESAR aaAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCT------TACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGGGTGTCTCAg agtcatgaataaataggtccccatggggattcaaatattcttcattttagaaAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACAGCCATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAGCCAGGTGGACAGGAGCAGGAGGAAGCTGAGGATGGAGAGCCTGCTCCAGCTCCACCTTATCTTGGCCAGGCAACAGAGCTTATCACTCAAACTGTGCGAAATGAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGATGGAGTGCACATCCTTCTGCAG---------ggtaagtagtttccaacacaaggaggctaagtggaaaacaaaagtccaaat Alignment from Spaln_aa2Genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAG------CCTGCCCCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAG- agtcatgaataaataggtccccatggggattcaaatattcttcattttagAAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACAGCCATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAGCCAGGTGGACAGGAGCAGGAGGAAGCTGAGGATGGAGAGCCTGCTCCAGCTCCACCTTATCTTGGCCAGGCAACAGAGCTTATCACTCAAACTGTGCGAAATGAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGATGGAGTGCACATCCTTCTGCAGGgtaagtagtttccaacacaaggaggctaagtggaaaacaaaagtccaaat Alignment from Spaln_nt2Genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCC------CCAGCTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGG agtcatgaataaataggtccccatggggattcaaatattcttcattttagAAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACAGCCATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAGCCAGGTGGACAGGAGCAGGAGGAAGCTGAGGATGGAGAGCCTGCTCCAGCTCCACCTTATCTTGGCCAGGCAACAGAGCTTATCACTCAAACTGTGCGAAATGAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGATGGAGTGCACATCCTTCTGCAGGgtaagtagtttccaacacaaggaggctaagtggaaaacaaaagtccaaat Alignment from Pairagon AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAG------CTTACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGG agtcatgaataaataggtccccatggggattcaaatattcttcattttagAAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACAGCCATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAGCCAGGTGGACAGGAGCAGGAGGAAGCTGAGGATGGAGAGCCTGCTCCAGCTCCACCTTATCTTGGCCAGGCAACAGAGCTTATCACTCAAACTGTGCGAAATGAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGATGGAGTGCACATCCTTCTGCAGGgtaagtagtttccaacacaaggaggctaagtggaaaacaaaagtccaaat Alignment from Exonerate_protein2genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCT------TACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGG agtcatgaataaataggtccccatggggattcaaatattcttcattttagAAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACAGCCATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAGCCAGGTGGACAGGAGCAGGAGGAAGCTGAGGATGGAGAGCCTGCTCCAGCTCCACCTTATCTTGGCCAGGCAACAGAGCTTATCACTCAAACTGTGCGAAATGAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGATGGAGTGCACATCCTTCTGCAGGgtaagtagtttccaacacaaggaggctaagtggaaaacaaaagtccaaat Alignment from Exonerate_coding2genome AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCT------TACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGG agtcatgaataaataggtccccatggggattcaaatattcttcattttagAAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACAGCCATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAGCCAGGTGGACAGGAGCAGGAGGAAGCTGAGGATGGAGAGCCTGCTCCAGCTCCACCTTATCTTGGCCAGGCAACAGAGCTTATCACTCAAACTGTGCGAAATGAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGATGGAGTGCACATCCTTCTGCAGGgtaagtagtttccaacacaaggaggctaagtggaaaacaaaagtccaaat Alignment from GeneWise AAAGTACAGGCCCCAGCCCTACCCACACAGGTGAGCTGGCAGCCATTGAGGTAGAGTCCAAAAGGCTGGACCAGGAACCCTGGGAGCCAGGAGGACAGGAGGAGGAAGAAGCTGAGGATGGAGAGCCTGCCCCAGCT------TACCTTGGCCAGGCCACAGAGCTCATCACTCAAGCCCTGCGGAATGAAAAGGCTGGCGCCTACGCTGCTGCTCTCCAAGGCTACCAAGATGGGGTGCACATTCTTCTGCAGG agtcatgaataaataggtccccatggggattcaaatattcttcattttagAAAGTACAGGCCCCAGCCCAACCCATCCTGGTGAGTTAACAGCCATTGAGGTAGGGGCTAAGAAGCTGGATCATGAACCCTGGGAGCCAGGTGGACAGGAGCAGGAGGAAGCTGAGGATGGAGAGCCTGCTCCAGCTCCACCTTATCTTGGCCAGGCAACAGAGCTTATCACTCAAACTGTGCGAAATGAAAAGGCAGGCACCTACACTGCTGCCCTCCAAGGCTACCAAGATGGAGTGCACATCCTTCTGCAGGgtaagtagtttccaacacaaggaggctaagtggaaaacaaaagtccaaat #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg tcaaaatcgtcataaataggtaacgtaacctcctgcttcctgttctccagtg------------------------CAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCCAAAGAGggttagactggctggagtggcagtcctaagggctttgaagaacacccacaa Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGg atgttttcacccctagggtgagtcttaacctcctgcttcctgttctccagtg------------------------CAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCCAAAGAGggttagactggctggagtggcagtcctaagggctttgaagaacacccacaa Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG aaatcgtcataaataggtaacgtaacCT---CCTGCTTCCTGTTCTCCAGTGCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCCAAAGAGGgttagactggctggagtggcagtcctaagggctttgaagaacacccacaa Alignment from Spaln_nt2Genome TGGA--TCCCCTCCCG--TCCAGCCCTGCC---CAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG tcaaaatcgtcataaatagGTAACGTAACCTCCTGCTTCCTGTTCTCCAGTGCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCCAAAGAGGgttagactggctggagtggcagtcctaagggctttgaagaacacccacaa Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG tcaaaatcgtcataaataggtaacgtaacctcctgcttcctgttctccagTG------------------------CAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCCAAAGAGGgttagactggctggagtggcagtcctaagggctttgaagaacacccacaa Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG tcaaaatcgtcataaataggtaacgtAACCTCCTGCTTCCTGTTCTCCAGTGCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCCAAAGAGGgttagactggctggagtggcagtcctaagggctttgaagaacacccacaa Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG tcaaaatcgtcataaataggtaacgtAACCTCCTGCTTCCTGTTCTCCAGTGCAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCCAAAGAGGgttagactggctggagtggcagtcctaagggctttgaagaacacccacaa Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAGG tcaaaatcgtcataaataggtaacgtaacctcctgcttcctgttctccagTG------------------------CAGGAGGCCCTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGATCTTACACTTTTTGACCCTTACTCCAAAGAGGgttagactggctggagtggcagtcctaagggctttgaagaacacccacaa #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg cggtgtcttacccggctctcactcaggttctggcctccctgtttccacagGTAGTAGTCTGGAAGCAGTACAGTGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCAGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCC---------ggtcagttttgataacaacggactctgtacctctccagctcagggcatcaa Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg cggtgtcttacccggctctcactcaggttctggcctccctgtttccacagGTAGTAGTCTGGAAGCAGTACAGTGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCAGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCC---------ggtcagttttgataacaacggactctgtacctctccagctcagggcatcaa Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGT cggtgtcttacccggctctcactcaggttctggcctccctgtttccacagGTAGTAGTCTGGAAGCAGTACAGTGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCAGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAgccggtcagttttgataacaacggactctgtacctctccagctcagggcatcaa Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCC cggtgtcttacccggctctcactcaggttctggcctccctgtttccacagGTAGTAGTCTGGAAGCAGTACAGTGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCAGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCGgtcagttttgataacaacggactctgtacctctccagctcagggcatcaa Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG cggtgtcttacccggctctcactcaggttctggcctccctgtttccacagGTAGTAGTCTGGAAGCAGTACAGTGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCAGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCC---------Ggtcagttttgataacaacggactctgtacctctccagctcagggcatcaa Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGT cggtgtcttacccggctctcactcaggttctggcctccctgtttccacagGTAGTAGTCTGGAAGCAGTACAGTGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCAGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAgccggtcagttttgataacaacggactctgtacctctccagctcagggcatcaa Alignment from Exonerate_coding2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGT cggtgtcttacccggctctcactcaggttctggcctccctgtttccacagGTAGTAGTCTGGAAGCAGTACAGTGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCAGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAgccggtcagttttgataacaacggactctgtacctctccagctcagggcatcaa Alignment from GeneWise TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCC cggtgtcttacccggctctcactcagGTTCTGGCCTCCCTGTTTCCACAG------------GTAGTAGTCTGGAAGCAGTACAGTGACTTCCGTAAGCTTCATGGGGACTTAGCCTATACTCACCGGAATCTCTTTCAGCATCTAGAGGAGTTCCCAGCCTTCCCCCAAGCCGgtcagttttgataacaacggactctgtacctctccagctcagggcatcaa #### Snx32_ID1069_9 --> 1 - 0 Original Alignment gAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgggtgaacccttgagccccagatctgtttgggtcgggggccaggAGCTTTCTAAAACTGGCAGAA------------------gtgagtactaccttcaaccaccaggatgtgtgcgagactaggtcttctca Alignment from CESAR gAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgggtgaacccttgagccccagatctgtttgggtcgggggccaggAGCTTTCTAAAACTGGCAGAA------------------gtgagtactaccttcaaccaccaggatgtgtg Alignment from Spaln_aa2Genome GAGCTTCCTGAAGCTGGCAGAGCTC---------TTTGAACGGCTGAGA tgcatgtgggtgaacccttgagccccagatctgtttgggtcgggggccagGAGCTTTCTAAAACTGGCAGAAGTGAGTACTACCTTCAACCACCAGGATgtgtgcgagactaggtcttctca Alignment from Spaln_nt2Genome GAGCTTCCTGAAGCTGGCAGAG CTCTTTGAA tgcatgtgggtgaacccttgagccccagatctgtttgggtcgggggccagGAGCTTTCTAAAACTGGCAGAAgtgagtactaccttcaaccaccaggatgtgtgcgagactagGTCTTCTCA Alignment from Pairagon GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA tgcatgtgggtgaacccttgagccccagatctgtttgggtcgggggccagGAGCTTTCTAAAACTGGCAGA------------------Agtgagtactaccttcaaccaccaggatgtgtgcgagactaggtcttctca Alignment from Exonerate_protein2genome GAGCTTCCTGAAGCTGGCAGAG tgcatgtgggtgaacccttgagccccagatctgtttgggtcgggggccagGAGCTTTCTAAAACTGGCAGAAgtgagtactaccttcaaccaccaggatgtgtgcgagactaggtcttctca Alignment from Exonerate_coding2genome tgcatgtgggtgaacccttgagccccagatctgtttgggtcgggggccaggagctttctaaaactggcagaagtgagtactaccttcaaccaccaggatgtgtgcgagactaggtcttctca Alignment from GeneWise GAGCTTCCTGAAGCTGGCAGAGCTC---------TTTGAACGGCTGAGA tgcatgtgggtgaacccttgagccccagatctgtttgggtcgggggccagGAGCTTTCTAAAACTGGCAGAAGTGAGTACTACCTTCAACCACCAGGATgtgtgcgagactaggtcttctca #### Snx32_ID1070_8 --> 2 - 2 Original Alignment gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag gcacacatacatccaattacgactgcccatgccctgccctgttcccacaggcCTGGCAGACAACTATATTCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAAC---------aggtaagtgtcgcaaactggacgccatgctgccttgctcactcttgtaccat Alignment from CESAR gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag gcacacatacatccaattacgactgcccatgccctgccctgttcccacaggcCTGGCAGACAACTATATTCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAAC---------aggtaagtgtcgcaaactggacgccatgctgccttgctcactcttgtaccat Alignment from Spaln_aa2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCA gcacacatacatccaattacgactgcccatgccctgccctgttcccacagGCCTGGCAGACAACTATATTCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGgtaagtgtcgcaaactggacgccatgctgccttgctcactcttgtaccat Alignment from Spaln_nt2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAA gcacacatacatccaattacgactgcccatgccctgccctgttcccacagGCCTGGCAGACAACTATATTCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAA-CAGgtaagtgtcgcaaactggacgccatgctgccttgctcactcttgtaccat Alignment from Pairagon GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG gcacacatacatccaattacgactgcccatgccctgccctgttcccacagGCCTGGCAGACAACTATATTCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAAC---------AGgtaagtgtcgcaaactggacgccatgctgccttgctcactcttgtaccat Alignment from Exonerate_protein2genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCA gcacacatacatccaattacgactgcccatgccctgccctgttcccacagGCCTGGCAGACAACTATATTCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGgtaagtgtcgcaaactggacgccatgctgccttgctcactcttgtaccat Alignment from Exonerate_coding2genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCA gcacacatacatccaattacgactgcccatgccctgccctgttcccacagGCCTGGCAGACAACTATATTCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGgtaagtgtcgcaaactggacgccatgctgccttgctcactcttgtaccat Alignment from GeneWise GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCA gcacacatacatccaattacgactgcccatgccctgccctgttcccacagGCCTGGCAGACAACTATATTCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGgtaagtgtcgcaaactggacgccatgctgccttgctcactcttgtaccat #### Snx32_ID1071_7 --> 0 - 1 Original Alignment GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAG---t tgtactgcccccctcagacctggaagatgtgaatcattgctaactttcagGAGGTAGATGACTTCTTTGAGCATGAGAGGCCTTTCCTAGTTGAATATCATACCCGAATTCGCGATACCTGCCAGAGAGCAGACCGTGTGATACACTCCCACAAATTCtgtaaggtacatttgaggctagagcactgaatgcacacatacatccaatta Alignment from CESAR GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAG---t tgtactgcccccctcagacctggaagatgtgaatcattgctaactttcagGAGGTAGATGACTTCTTTGAGCATGAGAGGCCTTTCCTAGTTGAATATCATACCCGAATTCGCGATACCTGCCAGAGAGCAGACCGTGTGATACACTCCCACAAATTCtgtaaggtacatttgaggctagagcactgaatgcacacatacatccaatta Alignment from Spaln_aa2Genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAG---T tgtactgcccccctcagacctggaagatgtgaatcattgctaactttcagGAGGTAGATGACTTCTTTGAGCATGAGAGGCCTTTCCTAGTTGAATATCATACCCGAATTCGCGATACCTGCCAGAGAGCAGACCGTGTGATACACTCCCACAAATTCTgtaaggtacatttgaggctagagcactgaatgcacacatacatccaatta Alignment from Spaln_nt2Genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT--- tgtactgcccccctcagacctggaagatgtgaatcattgctaactttcagGAGGTAGATGACTTCTTTGAGCATGAGAGGCCTTTCCTAGTTGAATATCATACCCGAATTCGCGATACCTGCCAGAGAGCAGACCGTGTGATACACTCCCACAAATTCTgtaaggtacatttgaggctagagcactgaatgcacacatacatccaatta Alignment from Pairagon GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGT--- tgtactgcccccctcagacctggaagatgtgaatcattgctaactttcagGAGGTAGATGACTTCTTTGAGCATGAGAGGCCTTTCCTAGTTGAATATCATACCCGAATTCGCGATACCTGCCAGAGAGCAGACCGTGTGATACACTCCCACAAATTCTgtaaggtacatttgaggctagagcactgaatgcacacatacatccaatta Alignment from Exonerate_protein2genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAG---T tgtactgcccccctcagacctggaagatgtgaatcattgctaactttcagGAGGTAGATGACTTCTTTGAGCATGAGAGGCCTTTCCTAGTTGAATATCATACCCGAATTCGCGATACCTGCCAGAGAGCAGACCGTGTGATACACTCCCACAAATTCTgtaaggtacatttgaggctagagcactgaatgcacacatacatccaatta Alignment from Exonerate_coding2genome GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAG---T tgtactgcccccctcagacctggaagatgtgaatcattgctaactttcagGAGGTAGATGACTTCTTTGAGCATGAGAGGCCTTTCCTAGTTGAATATCATACCCGAATTCGCGATACCTGCCAGAGAGCAGACCGTGTGATACACTCCCACAAATTCTgtaaggtacatttgaggctagagcactgaatgcacacatacatccaatta Alignment from GeneWise GAGGTAGATGACTTCTTTGAGCACGAGAGGACCTTCCTAGTAGAATACCACACCCGAATCCGAGACACCTGCCAGAGGGCCGACCGTGTTATGCACTCCCACAAGTGC- tgtactgcccccctcagacctggaagatgtgaatcattgctaactttcagGAGGTAGATGACTTCTTTGAGCATGAGAGGCCTTTCCTAGTTGAATATCATACCCGAATTCGCGATACCTGCCAGAGAGCAGACCGTGTGATACACTCCCACAAATTCTgtaaggtacatttgaggctagagcactgaatgcacacatacatccaatta #### Snx32_ID1072_6 --> 0 - 0 Original Alignment CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacactattgagattacccaagtctctttaactttttttcccataaagCTGAGTGTCCAGGAAAAGAACAGGAAGGAAGTATCTGGGGGGCTCCTGAGAGGCATTGTAAGGTATGCAGACGAAATCCTCATCACCGGTGGCATATCAGGGCTC---gtaggttggattatctcttttgtggtaggaggaacatgccaggtagccct Alignment from CESAR CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acaacactattgagattacccaagtctctttaactttttttcccataaagCTGAGTGTCCAGGAAAAGAACAGGAAGGAAGTATCTGGGGGGCTCCTGAGAGGCATTGTAAGGTATGCAGACGAAATCCTCATCACCGGTGGCATATCAGGGCTC---gtaggttggattatctcttttgtggtaggaggaacatgccaggtagc Alignment from Spaln_aa2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTC acaacactattgagattacccaagtctctttaactttttttcccataaagCTGAGTGTCCAGGAAAAGAACAGGAAGGAAGTATCTGGGGGGCTCCTGAGAGGCATTGTAAGGTATGCAGACGAAATCCTCATCACCGGTGGCATATCAGGGCTCgtaggttggattatctcttttgtggtaggaggaacatgccaggtagccct Alignment from Spaln_nt2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGG---CATATCAGGGCTCA-AG acaacactattgagattacccaagtctctttaactttttttcccataaagCTGAGTGTCCAGGAAAAGAACAGGAAGGAAGTATCTGGGGGGCTCCTGAGAGGCATTGTAAGGTATGCAGACGAAATCCTCATCACCGGTGGCATATCAGGGCTCGTAGgttggattatctcttttgtggtaggaggaacatgccaggtagccct Alignment from Pairagon CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTC acaacactattgagattacccaagtctctttaactttttttcccataaagCTGAGTGTCCAGGAAAAGAACAGGAAGGAAGTATCTGGGGGGCTCCTGAGAGGCATTGTAAGGTATGCAGACGAAATCCTCATCACCGGTGGCATATCAGGGCTCgtaggttggattatctcttttgtggtaggaggaacatgccaggtagccct Alignment from Exonerate_protein2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGCATATCAGGGCTCAAG acaacactattgagattacccaagtctctttaactttttttcccataaagCTGAGTGTCCAGGAAAAGAACAGGAAGGAAGTATCTGGGGGGCTCCTGAGAGGCATTGTAAGGTATGCAGACGAAATCCTCATCACCGGTGGCATATCAGGGCTCgtaggttggattatctcttttgtggtaggaggaacatgccaggtagccct Alignment from Exonerate_coding2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGCATATCAGGGCTCAAG acaacactattgagattacccaagtctctttaactttttttcccataaagCTGAGTGTCCAGGAAAAGAACAGGAAGGAAGTATCTGGGGGGCTCCTGAGAGGCATTGTAAGGTATGCAGACGAAATCCTCATCACCGGTGGCATATCAGGGCTCgtaggttggattatctcttttgtggtaggaggaacatgccaggtagccct Alignment from GeneWise CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGC---ATATCAGGGCTC acaacactattgagattacccaagtctctttaactttttttcccataaagCTGAGTGTCCAGGAAAAGAACAGGAAGGAAGTATCTGGGGGGCTCCTGAGAGGCATTGTAAGGTATGCAGACGAAATCCTCATCACCGGTGGCATATCAGGGCTCgtaggttggattatctcttttgtggtaggaggaacatgccaggtagccct #### Snx32_ID1074_4 --> 0 - 2 Original Alignment ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc ggatgtcgtgtcaacccttgggtttatttttcctccttctctctatgcag------CCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGAAgcgtaaggatctccttcagcactcctgatttctctagggtctcctgagagac Alignment from CESAR ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aagggtggatgtcgtgtcaacccttatttttcctccttctctctatgcag------CCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGAAgcgtaaggatctccttcagcactcctgatttctctagggtctcctgagagac Alignment from Spaln_aa2Genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC ggatgtcgtgtcaacccttgggtttatttttcctccttctctctatgcagCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGAAGCgtaaggatctccttcagcactcctgatttctctagggtctcctgagagac Alignment from Spaln_nt2Genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC ggatgtcgtgtcaacccttgggtttatttttcctccttctctctatgcagCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGAAGCgtaaggatctccttcagcactcctgatttctctagggtctcctgagagac Alignment from Pairagon GTACGCCGGCCTCATCATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC ggatgtcgtgtcaacccttgggtttatttttcctccttctctctatgcag----------------------CCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGAAGCgtaaggatctccttcagcactcctgatttctctagggtctcctgagagac Alignment from Exonerate_protein2genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC ggatgtcgtgtcaacccttgggtttatttttcctccttctctctatgcagCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGAAGCgtaaggatctccttcagcactcctgatttctctagggtctcctgagagac Alignment from Exonerate_coding2genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC ggatgtcgtgtcaacccttgggtttatttttcctccttctctctatgcagCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGAAGCgtaaggatctccttcagcactcctgatttctctagggtctcctgagagac Alignment from GeneWise CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC ggatgtcgtgtcaacccttgggtttatttttcctccttctctctatgcagCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGTAACAGTTCAATCACCCGGGAAGAGTTCTCTAAGATGAAACCGGAGCTAGAAGCgtaaggatctccttcagcactcctgatttctctagggtctcctgagagac #### Sptbn2_ID615_10 --> 0 - 0 Original Alignment GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacctgttctgccactacctccacttagtaaacactcttctgttttagGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACGGAGCTGATTCGCCAGAAAAAACTAGAGCAACTAGCTGCTCGATTTGACCACAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGACTTGTT------gtaatgccgaaatttgcatgggctcatggttcagacacatccaggctggt Alignment from CESAR GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacctgttctgccactacctccacttagtaaacactcttctgttttagGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACGGAGCTGATTCGCCAGAAAAAACTAGAGCAACTAGCTGCTCGATTTGACCACAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGACTTGTT------gtaatgccgaaatttgcatgggctcatggttcagacacatccag Alignment from Spaln_aa2Genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTG ctaacctgttctgccactacctccacttagtaaacactcttctgttttagGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACGGAGCTGATTCGCCAGAAAAAACTAGAGCAACTAGCTGCTCGATTTGACCACAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGACTTGTTgtaatgccgaaatttgcatgggctcatggttcagacacatccaggctggt Alignment from Spaln_nt2Genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTG ctaacctgttctgccactacctccacttagtaaacactcttctgttttagGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACGGAGCTGATTCGCCAGAAAAAACTAGAGCAACTAGCTGCTCGATTTGACCACAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGACTTGTTgtaatgccgaaatttgcatgggctcatggttcagacacatccaggctggt Alignment from Pairagon GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTG ctaacctgttctgccactacctccacttagtaaacactcttctgttttagGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACGGAGCTGATTCGCCAGAAAAAACTAGAGCAACTAGCTGCTCGATTTGACCACAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGACTTGTTgtaatgccgaaatttgcatgggctcatggttcagacacatccaggctggt Alignment from Exonerate_protein2genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTG ctaacctgttctgccactacctccacttagtaaacactcttctgttttagGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACGGAGCTGATTCGCCAGAAAAAACTAGAGCAACTAGCTGCTCGATTTGACCACAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGACTTGTTgtaatgccgaaatttgcatgggctcatggttcagacacatccaggctggt Alignment from Exonerate_coding2genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTG ctaacctgttctgccactacctccacttagtaaacactcttctgttttagGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACGGAGCTGATTCGCCAGAAAAAACTAGAGCAACTAGCTGCTCGATTTGACCACAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGACTTGTTgtaatgccgaaatttgcatgggctcatggttcagacacatccaggctggt Alignment from GeneWise GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ctaacctgttctgccactacctccacttagtaaacactcttctgttttagGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACGGAGCTGATTCGCCAGAAAAAACTAGAGCAACTAGCTGCTCGATTTGACCACAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGACTT------GTTgtaatgccgaaatttgcatgggctcatggttcagacacatccaggctggt #### Sptbn2_ID628_23 --> 0 - 2 Original Alignment GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag ctcttactccaaaagacctgaagttttgtctgagatctaccctcccacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGCAGTCAAGATATGATTGACCATGAA---------aggtgagtgcagtcgtcaaatgtatgtgactctctttcttttgtaattctag Alignment from CESAR GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag ctcttactccaaaagacctgaagttttgtctgagatctaccctcccacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGCAGTCAAGATATGATTGACCATGAA---------aggtgagtgcagtcgtcaaatgtatgtcagttaaacttttcttgcatcctag Alignment from Spaln_aa2Genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactccaaaagacctgaagttttgtctgagatctaccctcccacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGCAGTCAAGATATGATTGACCAT---------GAAAGgtgagtgcagtcgtcaaatgtatgtgactctctttcttttgtaattctag Alignment from Spaln_nt2Genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactccaaaagacctgaagttttgtctgagatctaccctcccacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGCAGTCAAGATATGATTGACCATGAA---------AGgtgagtgcagtcgtcaaatgtatgtgactctctttcttttgtaattctag Alignment from Pairagon GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactccaaaagacctgaagttttgtctgagatctaccctcccacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGCAGTCAAGATATGATTGACCATGAA---------AGgtgagtgcagtcgtcaaatgtatgtgactctctttcttttgtaattctag Alignment from Exonerate_protein2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACA TCCAGAGAG ctcttactccaaaagacctgaagttttgtctgagatctaccctcccacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGCAGTCAAGATATGATTGACCATGAAAGgtgagtgcagtcgtcaaatgtatgtgactctctttcttttgTAATTCTAG Alignment from Exonerate_coding2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACA TCCAGAGAG ctcttactccaaaagacctgaagttttgtctgagatctaccctcccacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGCAGTCAAGATATGATTGACCATGAAAGgtgagtgcagtcgtcaaatgtatgtgactctctttcttttgTAATTCTAG Alignment from GeneWise GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttactccaaaagacctgaagttttgtctgagatctaccctcccacagGATGAGCTGAGTGCCCAGGCAGAGGTAAGGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAAACCATTAAACAACTATCTGCCAGCAGTCAAGATATGATTGACCAT---------GAAAGgtgagtgcagtcgtcaaatgtatgtgactctctttcttttgtaattctag #### Sptbn2_ID633_28 --> 0 - 1 Original Alignment ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg cacgtcatcatggtcaagtcccaatatccacacctgtgtcttctttgcag---TCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTggtagtttaattagcaatatcgcaggaggtaggggttattggagggtgtac Alignment from CESAR ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg atccacgtcatcatggtcaagtcccatccacacctgtgtcttctttgcag---TCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTggtagtttaattagcaatatcgcaggaggtaggggttattggagggtgtac Alignment from Spaln_aa2Genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG cacgtcatcatggtcaagtcccaatatccacacctgtgtcttctttgcagTCAGAGAAGCTG---TCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtagtttaattagcaatatcgcaggaggtaggggttattggagggtgtac Alignment from Spaln_nt2Genome TCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG cacgtcatcatggtcaagtcccaatatccacacctgtgtcttctttgcagTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtagtttaattagcaatatcgcaggaggtaggggttattggagggtgtac Alignment from Pairagon ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG cacgtcatcatggtcaagtcccaatatccacacctgtgtcttctttgcag---TCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtagtttaattagcaatatcgcaggaggtaggggttattggagggtgtac Alignment from Exonerate_protein2genome TCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG cacgtcatcatggtcaagtcccaatatccacacctgtgtcttctttgcagTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtagtttaattagcaatatcgcaggaggtaggggttattggagggtgtac Alignment from Exonerate_coding2genome TCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG cacgtcatcatggtcaagtcccaatatccacacctgtgtcttctttgcagTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtagtttaattagcaatatcgcaggaggtaggggttattggagggtgtac Alignment from GeneWise ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG cacgtcatcatggtcaagtcccaatatccacacctgtgtcttctttgcagTCA---GAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACTGCTGACAAGTGGCAGGAGAAAATGGACTGGTTACAACTTGgtagtttaattagcaatatcgcaggaggtaggggttattggagggtgtac #### Sptbn2_ID634_29 --> 2 - 0 Original Alignment tt---------------TTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaactaacctatgaagtctctataactgaccctgtctttttcttagttAGTACGGAGTTGCTTTTGGAGGTGCTTGTATTCGGGAAGGACGCAGGGATGGCAGAGGCCTGGCTGTGCAGCCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGACGAAGTAGAGGCCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAgtatgagctgcagtaacccagaggctcccaaccctgtcactgccattcta Alignment from CESAR tt---------------TTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaactaacctatgaagtctctataactgaccctgtctttttcttagttAGTACGGAGTTGCTTTTGGAGGTGCTTGTATTCGGGAAGGACGCAGGGATGGCAGAGGCCTGGCTGTGCAGCCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGACGAAGTAGAGGCCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAgtatgagctgcagtaacccagaggctcccaaccctgtcactgccattcta Alignment from Spaln_aa2Genome TT---------------TTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaactaacctatgaagtctctataactgaccctgtctttttcttagTTAGTACGGAGTTGCTTTTGGAGGTGCTTGTATTCGGGAAGGACGCAGGGATGGCAGAGGCCTGGCTGTGCAGCCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGACGAAGTAGAGGCCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAgtatgagctgcagtaacccagaggctcccaaccctgtcactgccattcta Alignment from Spaln_nt2Genome TTTTGGAGG-----------TGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaactaacctatgaagtctctataactgaccctgtctttttcttagttagTACGGAGTTGCTTTTGGAGGTGCTTGTATTCGGGAAGGACGCAGGGATGGCAGAGGCCTGGCTGTGCAGCCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGACGAAGTAGAGGCCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAgtatgagctgcagtaacccagaggctcccaaccctgtcactgccattcta Alignment from Pairagon ---------------TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaactaacctatgaagtctctataactgaccctgtctttttcttagTTAGTACGGAGTTGCTTTTGGAGGTGCTTGTATTCGGGAAGGACGCAGGGATGGCAGAGGCCTGGCTGTGCAGCCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGACGAAGTAGAGGCCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAgtatgagctgcagtaacccagaggctcccaaccctgtcactgccattcta Alignment from Exonerate_protein2genome GCTACAGCTTGTTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaactaacctatgaagtctctataactgaccctgtctttttcttagttagTACGGAGTTGCTTTTGGAGGTGCTTGTATTCGGGAAGGACGCAGGGATGGCAGAGGCCTGGCTGTGCAGCCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGACGAAGTAGAGGCCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAgtatgagctgcagtaacccagaggctcccaaccctgtcactgccattcta Alignment from Exonerate_coding2genome GCTACAGCTTGTTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaactaacctatgaagtctctataactgaccctgtctttttcttagttagTACGGAGTTGCTTTTGGAGGTGCTTGTATTCGGGAAGGACGCAGGGATGGCAGAGGCCTGGCTGTGCAGCCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGACGAAGTAGAGGCCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAgtatgagctgcagtaacccagaggctcccaaccctgtcactgccattcta Alignment from GeneWise --------------GTTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ctgtcaactaacctatgaagtctctataactgaccctgtctttttcttagTTAGTACGGAGTTGCTTTTGGAGGTGCTTGTATTCGGGAAGGACGCAGGGATGGCAGAGGCCTGGCTGTGCAGCCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGACGAAGTAGAGGCCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAgtatgagctgcagtaacccagaggctcccaaccctgtcactgccattcta #### Ssh3_ID444_12 --> 1 - 2 Original Alignment aGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCag agcttatttggggtagaaacacatggacttactaatgttctttcttgcagaGCACAGGGCACACGTGTACTAGTCCACTGCAAGACAGGTGTCAGTCGATCAGCTGCAACAGTACTAGCCTATGCTATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAAAAGCTACGCCCCATAGTCCACCCCAATCACAGTTTTCTGCATCAGCTACAGACCTACCAAGGCAGTTTG------aggtacgaaggcgggtggtgaattgaaggttgaatatgcatatattgaggtg Alignment from CESAR aGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCag agcttatttggggtagaaacacatggacttactaatgttctttcttgcagaGCACAGGGCACACGTGTACTAGTCCACTGCAAGACAGGTGTCAGTCGATCAGCTGCAACAGTACTAGCCTATGCTATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAAAAGCTACGCCCCATAGTCCACCCCAATCACAGTTTTCTGCATCAGCTACAGACCTACCAAGGCAGTTTG------aggtacgaaggcgggtggtgaattgaaggttgaatatgcatatattgaggtg Alignment from Spaln_aa2Genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGAC agcttatttggggtagaaacacatggacttactaatgttctttcttgcagAGCACAGGGCACACGTGTACTAGTCCACTGCAAGACAGGTGTCAGTCGATCAGCTGCAACAGTACTAGCCTATGCTATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAAAAGCTACGCCCCATAGTCCACCCCAATCACAGTTTTCTGCATCAGCTACAGACCTACCAAGGCAGTTTGAGgtacgaaggcgggtggtgaattgaaggttgaatatgcatatattgaggtg Alignment from Spaln_nt2Genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG agcttatttggggtagaaacacatggacttactaatgttctttcttgcagAGCACAGGGCACACGTGTACTAGTCCACTGCAAGACAGGTGTCAGTCGATCAGCTGCAACAGTACTAGCCTATGCTATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAAAAGCTACGCCCCATAGTCCACCCCAATCACAGTTTTCTGCATCAGCTACAGACCTACCAAGGCAGTTTG------AGgtacgaaggcgggtggtgaattgaaggttgaatatgcatatattgaggtg Alignment from Pairagon AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG agcttatttggggtagaaacacatggacttactaatgttctttcttgcagAGCACAGGGCACACGTGTACTAGTCCACTGCAAGACAGGTGTCAGTCGATCAGCTGCAACAGTACTAGCCTATGCTATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAAAAGCTACGCCCCATAGTCCACCCCAATCACAGTTTTCTGCATCAGCTACAGACCTACCAAGGCAGTTTG------AGgtacgaaggcgggtggtgaattgaaggttgaatatgcatatattgaggtg Alignment from Exonerate_protein2genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGAC agcttatttggggtagaaacacatggacttactaatgttctttcttgcagAGCACAGGGCACACGTGTACTAGTCCACTGCAAGACAGGTGTCAGTCGATCAGCTGCAACAGTACTAGCCTATGCTATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAAAAGCTACGCCCCATAGTCCACCCCAATCACAGTTTTCTGCATCAGCTACAGACCTACCAAGGCAGTTTGAGgtacgaaggcgggtggtgaattgaaggttgaatatgcatatattgaggtg Alignment from Exonerate_coding2genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGAC agcttatttggggtagaaacacatggacttactaatgttctttcttgcagAGCACAGGGCACACGTGTACTAGTCCACTGCAAGACAGGTGTCAGTCGATCAGCTGCAACAGTACTAGCCTATGCTATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAAAAGCTACGCCCCATAGTCCACCCCAATCACAGTTTTCTGCATCAGCTACAGACCTACCAAGGCAGTTTGAGgtacgaaggcgggtggtgaattgaaggttgaatatgcatatattgaggtg Alignment from GeneWise AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGC- agcttatttggggtagaaacacatggacttactaatgttctttcttgcagAGCACAGGGCACACGTGTACTAGTCCACTGCAAGACAGGTGTCAGTCGATCAGCTGCAACAGTACTAGCCTATGCTATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAAAAGCTACGCCCCATAGTCCACCCCAATCACAGTTTTCTGCATCAGCTACAGACCTACCAAGGCAgtttgaggtacgaaggcgggtggtgaattgaaggttgaatatgcatatattgaggtg #### Ssh3_ID445_11 --> 1 - 2 Original Alignment a---GTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCag tgagagagtcattggtggttccctattgtttcacagcctctctcctccagaAACGTAAGTCACATCTTGAACATGGCCCAGGAGATTGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAAAAATCGGCACAGCTTTTGCCTCACTGGAAGGAGACACATCGATTTATTGAGGATGCCaggtaggcctgctccccaggtttgatgccccatccactagtatagactggga Alignment from CESAR a---GTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCag tgagagagtcattggtggttccctattgtttcacagcctctctcctccagaAACGTAAGTCACATCTTGAACATGGCCCAGGAGATTGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAAAAATCGGCACAGCTTTTGCCTCACTGGAAGGAGACACATCGATTTATTGAGGATGCCaggtaggcctgctccccaggtttgatgccccatccactagtatagactggga Alignment from Spaln_aa2Genome AGTAAGTCACATC---TTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG tgagagagtcattggtggttccctattgtttcacagcctctctcctccagAAACGTAAGTCACATCTTGAACATGGCCCAGGAGATTGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAAAAATCGGCACAGCTTTTGCCTCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaggcctgctccccaggtttgatgccccatccactagtatagactggga Alignment from Spaln_nt2Genome A---GTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG tgagagagtcattggtggttccctattgtttcacagcctctctcctccagAAACGTAAGTCACATCTTGAACATGGCCCAGGAGATTGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAAAAATCGGCACAGCTTTTGCCTCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaggcctgctccccaggtttgatgccccatccactagtatagactggga Alignment from Pairagon A---GTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG tgagagagtcattggtggttccctattgtttcacagcctctctcctccagAAACGTAAGTCACATCTTGAACATGGCCCAGGAGATTGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAAAAATCGGCACAGCTTTTGCCTCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaggcctgctccccaggtttgatgccccatccactagtatagactggga Alignment from Exonerate_protein2genome A---GTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG tgagagagtcattggtggttccctattgtttcacagcctctctcctccagAAACGTAAGTCACATCTTGAACATGGCCCAGGAGATTGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAAAAATCGGCACAGCTTTTGCCTCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaggcctgctccccaggtttgatgccccatccactagtatagactggga Alignment from Exonerate_coding2genome A---GTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG tgagagagtcattggtggttccctattgtttcacagcctctctcctccagAAACGTAAGTCACATCTTGAACATGGCCCAGGAGATTGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAAAAATCGGCACAGCTTTTGCCTCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaggcctgctccccaggtttgatgccccatccactagtatagactggga Alignment from GeneWise -AGAGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG tgagagagtcattggtggttccctattgtttcacagcctctctcctccagAAACGTAAGTCACATCTTGAACATGGCCCAGGAGATTGACAACTTCTTCCCTGAGCGTTTTACCTATTACAATGTACGTGTCTGGGATGAAAAATCGGCACAGCTTTTGCCTCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaggcctgctccccaggtttgatgccccatccactagtatagactggga #### Ssh3_ID446_10 --> 0 - 2 Original Alignment CCCACCTCTACTTG ---------GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag CACACCTCTACTTGgtgagcggtcctttgattgcctgttctgtcttgcagAAATCAGATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACaggtgtgttttctggctgtgagtgcctctttttccttccagcttcccagcct Alignment from CESAR CCCACCTCTACTTG ---------GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag CACACCTCTACTTGgtaagcggtcctttgattgcctgttctgtcttgcagAAATCAGATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACaggtgtgttttctggctgtgagtgcctctttttccttccagcttcccagcct Alignment from Spaln_aa2Genome CCCACCTCTACTTG GGCTCTGAGTGGAAT---------GCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGgtgagcggtcctttgattgcctgttctgtcttgcagAAATCAGATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACAGgtgtgttttctggctgtgagtgcctctttttccttccagcttcccagcct Alignment from Spaln_nt2Genome CCCACCTCTACTTG GGCTCTGAGTGG--AATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGgtgagcggtcctttgattgcctgttctgtcttgcagaaatcagATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACAGgtgtgttttctggctgtgagtgcctctttttccttccagcttcccagcct Alignment from Pairagon CCCACCTCTACTTG---------------------------------------------GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGGTGAGCGGTCCTTTGATTGCCTGTTCTGTCTTGCAGAAATCAGATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACAGgtgtgttttctggctgtgagtgcctctttttccttccagcttcccagcct Alignment from Exonerate_protein2genome CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGgtgagcggtcctttgattgcctgttctgtcttgcagaaatcagatGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACAGgtgtgttttctggctgtgagtgcctctttttccttccagcttcccagcct Alignment from Exonerate_coding2genome CCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG CACACCTCTACTTGgtgagcggtcctttgattgcctgttctgtcttgcagaaatcagatGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACAGgtgtgttttctggctgtgagtgcctctttttccttccagcttcccagcct Alignment from GeneWise CCCACCTCTACTTG---------------------------------------------GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAGAG CACACCTCTACTTGGTGAGCGGTCCTTTGATTGCCTGTTCTGTCTTGCAGAAATCAGATGGCTCTGAATGGAATGCTGCCAACCTAGAGGAACTTCAAAAGAACAGGTgtgttttctggctgtgagtgcctctttttccttccagcttcccagcct #### Stambpl1_ID6902_9 --> 1 - 0 Original Alignment cACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tcctgaatggtccttaattatgtgctcgctgctcactcattggaatccagc---GGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtaaggagacaccatgggaatgggattgttaatgtatttgatcaaatgac Alignment from CESAR cACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tgttcctgaatggtccttaattatgtcgctgctcactcattggaatccagc---GGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtaaggagacaccatgggaatgggattgttaatgtatttgatcaaatgac Alignment from Spaln_aa2Genome CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tcctgaatggtccttaattatgtgctcgctgctcactcattggaatccagCGGCATCTTC---AGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtaaggagacaccatgggaatgggattgttaatgtatttgatcaaatgac Alignment from Spaln_nt2Genome CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tcctgaatggtccttaattatgtgctcgctgctcactcattggaatccag---CGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtaaggagacaccatgggaatgggattgttaatgtatttgatcaaatgac Alignment from Pairagon CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tcctgaatggtccttaattatgtgctcgctgctcactcattggaatccag---CGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtaaggagacaccatgggaatgggattgttaatgtatttgatcaaatgac Alignment from Exonerate_protein2genome AAGACACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tcctgaatggtccttaattatgtgctcgctgctcactcattggAATCCAGCGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtaaggagacaccatgggaatgggattgttaatgtatttgatcaaatgac Alignment from Exonerate_coding2genome AAGACACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tcctgaatggtccttaattatgtgctcgctgctcactcattggAATCCAGCGGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtaaggagacaccatgggaatgggattgttaatgtatttgatcaaatgac Alignment from GeneWise CACCGGCATTTTCAGGCTCACCAACGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTGTTCAGT tcctgaatggtccttaattatgtgctcgctgctcactcattggaatccagC---GGCATCTTCAGGCTCACCAATGCTGGCATGCTTGAGGTTTCTACTTGTAAAAAGAAGGGCTTCCATCCTCACACCAAGGACCCCAAGCTCTTCAGTgtaaggagacaccatgggaatgggattgttaatgtatttgatcaaatgac #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG------ agagtgagagaagggtagtaggaccagccacctgtacctctcccctgcagacAAGGGTTATACCCGGCAAGCAGCTGCTCTAGAAGCCATGAAGGACTATACAAAAGCGATGCAC------CAAAAGGCATTAGACCTGGACTCCAGTTGCAAACTTCAGgtatgttgctgctagcttatacacagatccctgcttatgtgacctaggat Alignment from CESAR tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG------ agagtgagagaagggtagtaggaccagccacctgtacctctcccctgcagacAAGGGTTATACCCGGCAAGCAGCTGCTCTAGAAGCCATGAAGGACTATACAAAAGCGATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGCAAACTTCAGgtatgttgctgctagcttatacacagatccctgcttatgtgacctaggat Alignment from Spaln_aa2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG------ agagtgagagaagggtagtaggaccagccacctgtacctctcccctgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTAGAAGCCATGAAGGACTATACAAAAGCGATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGCAAACTTCAGgtatgttgctgctagcttatacacagatccctgcttatgtgacctaggat Alignment from Spaln_nt2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAA------G agagtgagagaagggtagtaggaccagccacctgtacctctcccctgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTAGAAGCCATGAAGGACTATACAAAAGCGA------TGCACCAAAAGGCATTAGACCTGGACTCCAGTTGCAAACTTCAGgtatgttgctgctagcttatacacagatccctgcttatgtgacctaggat Alignment from Pairagon TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTA------AG agagtgagagaagggtagtaggaccagccacctgtacctctcccctgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTAGAAGCCATGAAGGACTATACAAAAGCGA------TGCACCAAAAGGCATTAGACCTGGACTCCAGTTGCAAACTTCAGgtatgttgctgctagcttatacacagatccctgcttatgtgacctaggat Alignment from Exonerate_protein2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG------ agagtgagagaagggtagtaggaccagccacctgtacctctcccctgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTAGAAGCCATGAAGGACTATACAAAAGCGATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGCAAACTTCAGgtatgttgctgctagcttatacacagatccctgcttatgtgacctaggat Alignment from Exonerate_coding2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG------ agagtgagagaagggtagtaggaccagccacctgtacctctcccctgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTAGAAGCCATGAAGGACTATACAAAAGCGATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGCAAACTTCAGgtatgttgctgctagcttatacacagatccctgcttatgtgacctaggat Alignment from GeneWise TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG------ agagtgagagaagggtagtaggaccagccacctgtacctctcccctgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTAGAAGCCATGAAGGACTATACAAAAGCGATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGCAAACTTCAGgtatgttgctgctagcttatacacagatccctgcttatgtgacctaggat #### Stip1_ID1993_8 --> 1 - 0 Original Alignment aGCTTATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTCTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAG ggtggaacttgcttttaacactcttgagatatgttttcttctctgtctaga---TATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTTTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAGgtaaatatgaaaagattgtgccttccccaaaaccttatgctcaatgctgg Alignment from CESAR aGCTTATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTCTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAG aatggtggaacttgcttttaacactgagatatgttttcttctctgtctaga---TATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTTTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAGgtaaatatgaaaagattgtgccttccccaaaaccttatgctcaatgctgg Alignment from Spaln_aa2Genome AGCTTATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTCTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAG ggtggaacttgcttttaacactcttgagatatgttttcttctctgtctagA---TATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTTTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAGgtaaatatgaaaagattgtgccttccccaaaaccttatgctcaatgctgg Alignment from Spaln_nt2Genome AGCTTATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTCTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAG ggtggaacttgcttttaacactcttgagatatgttttcttctctgtctagA---TATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTTTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAGgtaaatatgaaaagattgtgccttccccaaaaccttatgctcaatgctgg Alignment from Pairagon AGCTTATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTCTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAG ggtggaacttgcttttaacactcttgagatatgttttcttctctgtctagA---TATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTTTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAGgtaaatatgaaaagattgtgccttccccaaaaccttatgctcaatgctgg Alignment from Exonerate_protein2genome AGCTTATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTCTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAG ggtggaacttgcttttaacactcttgagatatgttttcttctctgtctagA---TATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTTTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAGgtaaatatgaaaagattgtgccttccccaaaaccttatgctcaatgctgg Alignment from Exonerate_coding2genome AGCTTATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTCTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAG ggtggaacttgcttttaacactcttgagatatgttttcttctctgtctagA---TATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTTTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAGgtaaatatgaaaagattgtgccttccccaaaaccttatgctcaatgctgg Alignment from GeneWise AGCTTATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTCTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAG ggtggaacttgcttttaacactcttgagatatgttttcttctctgtctagA---TATGCCCGAATTGGCAATTCCTATTTCAAAGAAGAAAAGTACAAGGATGCTATACATTTTTACAACAAGTCTCTAGCAGAGCACCGAACCCCAGATGTGCTCAAGAAGTGCCAGCAGgtaaatatgaaaagattgtgccttccccaaaaccttatgctcaatgctgg #### Stx5a_ID2330_2 --> 0 - 2 Original Alignment ------AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag gaataactaggcaagggtgactagattaaagcttgcttttctttccacagACCTACAATGGAATCCAAACAAGCAAACCAGCTCTGCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTaggtaggctgtaggagttttggtgggcggactgttttttgaaatttgtaagg Alignment from CESAR ------AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCag gaataactaggcaagggtgactagattaaagcttgcttttctttccacagACCTACAATGGAATCCAAACAAGCAAACCAGCTCTGCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTaggtaggctgtaggagttttggtgggcggactgttttttgaaatttgtaagg Alignment from Spaln_aa2Genome AATGGAATCCAA------ACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gaataactaggcaagggtgactagattaaagcttgcttttctttccacagACCTACAATGGAATCCAAACAAGCAAACCAGCTCTGCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaggctgtaggagttttggtgggcggactgttttttgaaatttgtaagg Alignment from Spaln_nt2Genome A------ATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gaataactaggcaagggtgactagattaaagcttgcttttctttccacagACCTACAATGGAATCCAAACAAGCAAACCAGCTCTGCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaggctgtaggagttttggtgggcggactgttttttgaaatttgtaagg Alignment from Pairagon ------AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gaataactaggcaagggtgactagattaaagcttgcttttctttccacagACCTACAATGGAATCCAAACAAGCAAACCAGCTCTGCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaggctgtaggagttttggtgggcggactgttttttgaaatttgtaagg Alignment from Exonerate_protein2genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gaataactaggcaagggtgactagattaaagcttgcttttctttccacagacctacAATGGAATCCAAACAAGCAAACCAGCTCTGCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaggctgtaggagttttggtgggcggactgttttttgaaatttgtaagg Alignment from Exonerate_coding2genome AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gaataactaggcaagggtgactagattaaagcttgcttttctttccacagacctacAATGGAATCCAAACAAGCAAACCAGCTCTGCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaggctgtaggagttttggtgggcggactgttttttgaaatttgtaagg Alignment from GeneWise ------AATGGAATCCAAACAAGCAAACCGGCTCTGCACGCAGCCCGACAGTGCAGTGAATTTACCCTCATGGCCAG gaataactaggcaagggtgactagattaaagcttgcttttctttccacagACCTACAATGGAATCCAAACAAGCAAACCAGCTCTGCATGCAGCCCGTCAGTGCAGTGAACTTACCCTTATGGCTAGgtaggctgtaggagttttggtgggcggactgttttttgaaatttgtaagg #### Stx5a_ID2334_6 --> 0 - 0 Original Alignment TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG------------ gggggggaaagcaaaataaattctccaccgcttccctttctgtttgcaagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGTCTTTATTTAGGgtactggggataagtagtagggttaaggagtttttttagggtataccaca Alignment from CESAR TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG------------ gggggggaaagcaaaataaattctccaccgcttccctttctgtttgcaagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGTCTTTATTTAGGgtactggggataagtagtagggttaaggagtttttttagggtataccaca Alignment from Spaln_aa2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGAATCTGAAACAG gggggggaaagcaaaataaattctccaccgcttccctttctgtttgcaagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGTCTTTATTTAGGgtactggggataagtagtagggttaaggagtttttttagggtataccaca Alignment from Spaln_nt2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGA gggggggaaagcaaaataaattctccaccgcttccctttctgtttgcaagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAgtctttatttagggtactggggataagtagtagggttaaggagtttttttagggtataccaca Alignment from Pairagon TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTG---------------------------------------------------------------- gggggggaaagcaaaataaattctccaccgcttccctttctgtttgcaagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGTCTTTATTTAGGGTACTGGGGATAAGTAGTAGGGTTAAGGAGTTTTTTTAGGGTATACCACA Alignment from Exonerate_protein2genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG gggggggaaagcaaaataaattctccaccgcttccctttctgtttgcaagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGtctttatttagggtactggggataagtagtagggttaaggagtttttttagggtataccaca Alignment from Exonerate_coding2genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG gggggggaaagcaaaataaattctccaccgcttccctttctgtttgcaagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGtctttatttagggtactggggataagtagtagggttaaggagtttttttagggtataccaca Alignment from GeneWise --------------------------------------------------TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG------------ GGGGGGGAAAGCAAAATAAATTCTCCACCGCTTCCCTTTCTGTTTGCAAGTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAGTCTTTATTTAGGgtactggggataagtagtagggttaaggagtttttttagggtataccaca #### Stx5a_ID2335_7 --> 0 - 1 Original Alignment AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg cacaaatattctcagggcctcgactgtgcatctccccatcgtttttgcagAATTTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCTTGCCACTAGCACCC---------ggtagatttgtgcaaatgacattaactatgtgtaggggatatgatctgacc Alignment from CESAR AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg cacaaatattctcagggcctcgactgtgcatctccccatcgtttttgcagAATTTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCTTGCCACTAGCACCC---------ggtagatttgtgcaaatgacattaactatgtgtaggggatatgatctgacc Alignment from Spaln_aa2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCC- cacaaatattctcagggcctcgactgtgcatctccccatcgtttttgcagAATTTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCTTGCCACTAGCACCCGgtagatttgtgcaaatgacattaactatgtgtaggggatatgatctgacc Alignment from Spaln_nt2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT cacaaatattctcagggcctcgactgtgcatctccccatcgtttttgcagAATTTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCTTGCCACTAGCACCCGGTAGATTTgtgcaaatgacattaactatgtgtaggggatatgatctgacc Alignment from Pairagon AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG cacaaatattctcagggcctcgactgtgcatctccccatcgtttttgcagAATTTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCTTGCCACTAGCACCC---------Ggtagatttgtgcaaatgacattaactatgtgtaggggatatgatctgacc Alignment from Exonerate_protein2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAA cacaaatattctcagggcctcgactgtgcatctccccatcgtttttgcagAATTTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCTTGCCACTAGCACCCGGTAGatttgtgcaaatgacattaactatgtgtaggggatatgatctgacc Alignment from Exonerate_coding2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAA cacaaatattctcagggcctcgactgtgcatctccccatcgtttttgcagAATTTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCTTGCCACTAGCACCCGGTAGatttgtgcaaatgacattaactatgtgtaggggatatgatctgacc Alignment from GeneWise AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT cacaaatattctcagggcctcgactgtgcatctccccatcgtttttgcagAATTTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCTTGCCACTAGCACCCGGTAGATTTgtgcaaatgacattaactatgtgtaggggatatgatctgacc #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment ---GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagtcagaatttggcagtaacctcaaaaagaaaccaccatgtctttccagGAAGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAGgtaaaagaaagacaggattcagggcaaggtgtctaaatgctgtttcatac Alignment from CESAR ---GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagtcagaatttggcagtaacctcaaaaagaaaccaccatgtctttccagGAAGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAGgtaaaagaaagacaggattcagggcaaggtgtctaaatgctgtttcatac Alignment from Spaln_aa2Genome GCAGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagtcagaatttggcagtaacctcaaaaagaaaccaccatgtctttccagGAAGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAGgtaaaagaaagacaggattcagggcaaggtgtctaaatgctgtttcatac Alignment from Spaln_nt2Genome GCAGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagtcagaatttggcagtaacctcaaaaagaaaccaccatgtctttccagGAAGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAGgtaaaagaaagacaggattcagggcaaggtgtctaaatgctgtttcatac Alignment from Pairagon ---GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagtcagaatttggcagtaacctcaaaaagaaaccaccatgtctttccagGAAGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAGgtaaaagaaagacaggattcagggcaaggtgtctaaatgctgtttcatac Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagtcagaatttggcagtaacctcaaaaagaaaccaccatgtctttccaggaaGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAGgtaaaagaaagacaggattcagggcaaggtgtctaaatgctgtttcatac Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagtcagaatttggcagtaacctcaaaaagaaaccaccatgtctttccaggaaGTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAGgtaaaagaaagacaggattcagggcaaggtgtctaaatgctgtttcatac Alignment from GeneWise --CTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG cagtcagaatttggcagtaacctcaaaaagaaaccaccatgtctttccaggaagTCCTGTACATACAGGCCTTTGTCCTTGTCTTCCTCTTGGGGAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCTGAGGGCACCAGAGATGGAGgtaaaagaaagacaggattcagggcaaggtgtctaaatgctgtttcatac #### Syvn1_ID1384_3 --> 0 - 0 Original Alignment CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gggcaaggtgtctaaatgctgtttcatacacttatcttttttttccccagCACCTCCTGGAACGGTGCTGGTATGCTGTTACAGAAACTTGTTTGGCCTTTACTGTTATTGGAGATGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAGTGCTTCCAGTGGCTAGCTGAAGACCATGTGGAT---gtaagaagattagatctcctgatgaacatgtgggtgtctcttgtgggaaa Alignment from CESAR CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gggcaaggtgtctaaatgctgtttcatacacttatcttttttttccccagCACCTCCTGGAACGGTGCTGGTATGCTGTTACAGAAACTTGTTTGGCCTTTACTGTTATTGGAGATGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAGTGCTTCCAGTGGCTAGCTGAAGACCATGTGGAT---gtaagaagattagatctcctgatgaacatgtgggtgtctcttgtacc Alignment from Spaln_aa2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGAC gggcaaggtgtctaaatgctgtttcatacacttatcttttttttccccagCACCTCCTGGAACGGTGCTGGTATGCTGTTACAGAAACTTGTTTGGCCTTTACTGTTATTGGAGATGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAGTGCTTCCAGTGGCTAGCTGAAGACCATGTGGATgtaagaagattagatctcctgatgaacatgtgggtgtctcttgtgggaaa Alignment from Spaln_nt2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gggcaaggtgtctaaatgctgtttcatacacttatcttttttttccccagCACCTCCTGGAACGGTGCTGGTATGCTGTTACAGAAACTTGTTTGGCCTTTACTGTTATTGGAGATGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAGTGCTTCCAGTGGCTAGCTGAAGACCATGTGGA---Tgtaagaagattagatctcctgatgaacatgtgggtgtctcttgtgggaaa Alignment from Pairagon CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gggcaaggtgtctaaatgctgtttcatacacttatcttttttttccccagCACCTCCTGGAACGGTGCTGGTATGCTGTTACAGAAACTTGTTTGGCCTTTACTGTTATTGGAGATGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAGTGCTTCCAGTGGCTAGCTGAAGACCATGTGGA---Tgtaagaagattagatctcctgatgaacatgtgggtgtctcttgtgggaaa Alignment from Exonerate_protein2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGAC gggcaaggtgtctaaatgctgtttcatacacttatcttttttttccccagCACCTCCTGGAACGGTGCTGGTATGCTGTTACAGAAACTTGTTTGGCCTTTACTGTTATTGGAGATGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAGTGCTTCCAGTGGCTAGCTGAAGACCATGTGGATgtaagaagattagatctcctgatgaacatgtgggtgtctcttgtgggaaa Alignment from Exonerate_coding2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGAC gggcaaggtgtctaaatgctgtttcatacacttatcttttttttccccagCACCTCCTGGAACGGTGCTGGTATGCTGTTACAGAAACTTGTTTGGCCTTTACTGTTATTGGAGATGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAGTGCTTCCAGTGGCTAGCTGAAGACCATGTGGATgtaagaagattagatctcctgatgaacatgtgggtgtctcttgtgggaaa Alignment from GeneWise CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGAC gggcaaggtgtctaaatgctgtttcatacacttatcttttttttccccagCACCTCCTGGAACGGTGCTGGTATGCTGTTACAGAAACTTGTTTGGCCTTTACTGTTATTGGAGATGACTCAAGTCCCCGATTTGTGGCACTCTTTATGCTCCTTCTCTTCCTCAAGTGCTTCCAGTGGCTAGCTGAAGACCATGTGGATgtaagaagattagatctcctgatgaacatgtgggtgtctcttgtgggaaa #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gc---------TTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ggtgcatctgccaaccccgcagttggctatgtctgtttttatctcatcaggcCTCGCCTTTTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGaggtaggttgggccttgtgtttgtcagtttgtcacttcgatatttgtcttca Alignment from CESAR gc---------TTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ggtgcatctgccaaccccgcagttggctatgtctgtttttatctcatcaggcCTCGCCTTTTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGaggtaggttgggccttgtgtttgtcagtttgtcacttcgatatttgtcttca Alignment from Spaln_aa2Genome GCTTCATCAAG---------GTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatctgccaaccccgcagttggctatgtctgtttttatctcatcagGCCTCGCCTTTTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaggttgggccttgtgtttgtcagtttgtcacttcgatatttgtcttca Alignment from Spaln_nt2Genome GCTTCATCAAG---------GTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatctgccaaccccgcagttggctatgtctgtttttatctcatcagGCCTCGCCTTTTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaggttgggccttgtgtttgtcagtttgtcacttcgatatttgtcttca Alignment from Pairagon GC---------TTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatctgccaaccccgcagttggctatgtctgtttttatctcatcagGCCTCGCCTTTTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaggttgggccttgtgtttgtcagtttgtcacttcgatatttgtcttca Alignment from Exonerate_protein2genome GC---------TTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatctgccaaccccgcagttggctatgtctgtttttatctcatcagGCCTCGCCTTTTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaggttgggccttgtgtttgtcagtttgtcacttcgatatttgtcttca Alignment from Exonerate_coding2genome GC---------TTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatctgccaaccccgcagttggctatgtctgtttttatctcatcagGCCTCGCCTTTTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaggttgggccttgtgtttgtcagtttgtcacttcgatatttgtcttca Alignment from GeneWise --------GGCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgcatctgccaaccccgcagttggctatgtctgtttttatctcatcagGCCTCGCCTTTTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTTCCACTGTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtaggttgggccttgtgtttgtcagtttgtcacttcgatatttgtcttca #### Syvn1_ID1391_10 --> 1 - 1 Original Alignment c------TGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt ggggattggctaacagtgacctactgactatctctccacactcacgccagcTCAGCTTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGTCTGACATGCCATATGGATGTTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCTGCACCTCAGCCCCAACCACTTCTGCCG---CCCCCTAATagtacccgatatttcatagtgcagggccatcggacaagaaactttacccta Alignment from CESAR c------TGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt ggggattggctaacagtgacctactgactatctctccacactcacgccagcTCAGCTTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGTCTGACATGCCATATGGATGTTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCTGCACCTCAGCCCCAACCACTTCTGCCG---CCCCCTAATagtacccgatatttcatagtgcagggccatcggacaagaaactttacccta Alignment from Spaln_aa2Genome -ACGAGCTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacagtgacctactgactatctctccacactcacgccagCTCAGCTTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGTCTGACATGCCATATGGATGTTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCTGCACCTCAGCCCCAACCACTTCTGCCG---CCCCCTAATAgtacccgatatttcatagtgcagggccatcggacaagaaactttacccta Alignment from Spaln_nt2Genome CT-GCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacagtgacctactgactatctctccacactcacgccagctcagCTTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGTCTGACATGCCATATGGATGTTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCTGCACCTCAGCCCCAACCACTTCTGCC---GCCCCCTAATAgtacccgatatttcatagtgcagggccatcggacaagaaactttacccta Alignment from Pairagon --------------------------------------------------------CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT GGGGATTGGCTAACAGTGACCTACTGACTATCTCTCCACACTCACGCCAGCTCAGCTTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGTCTGACATGCCATATGGATGTTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCTGCACCTCAGCCCCAACCACTTCTGCC---GCCCCCTAATAgtacccgatatttcatagtgcagggccatcggacaagaaactttacccta Alignment from Exonerate_protein2genome GCTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacagtgacctactgactatctctccacactcacgccagctcagCTTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGTCTGACATGCCATATGGATGTTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCTGCACCTCAGCCCCAACCACTTCTGCCG---CCCCCTAATAgtacccgatatttcatagtgcagggccatcggacaagaaactttacccta Alignment from Exonerate_coding2genome GCTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacagtgacctactgactatctctccacactcacgccagctcagCTTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGTCTGACATGCCATATGGATGTTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCTGCACCTCAGCCCCAACCACTTCTGCCG---CCCCCTAATAgtacccgatatttcatagtgcagggccatcggacaagaaactttacccta Alignment from GeneWise ----AGCTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT ggggattggctaacagtgacctactgactatctctccacactcacgccagCTCAGCTTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGTCTGACATGCCATATGGATGTTTTGCGGGCATCATTGCCAGCCCAGTTACCACCACCTCCCGAGCCTGCTGAGCAAGGACCCCCCCCTGCACCTCAGCCCCAACCACTTCTGCCG---CCCCCTAATAgtacccgatatttcatagtgcagggccatcggacaagaaactttacccta #### Syvn1_ID1392_11 --> 2 - 1 Original Alignment tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg gacagctgagtcttgtccttaattactatacacttattctcatttcctagtc---------CTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCGAGTTCTGGAAAGGCTGCTGCTGCTCCACCCACCAGTACAggtgagtctgtgtaagccagagtgattgcgaagggtaaaggtggtcgacag Alignment from CESAR tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAg ggtggtactgacagctgagtcttgtctatacacttattctcatttcctagtc---------CTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCGAGTTCTGGAAAGGCTGCTGCTGCTCCACCCACCAGTACAggtgagtctgtgtaagccagagtgattgcgaagggtaaaggtggtcgacag Alignment from Spaln_aa2Genome GCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG gacagctgagtcttgtccttaattactatacacttattctcatttcctagTCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCGAGTTCTGGAAAGGCTGCTGCTGCTCCACCCACCAGTACAGgtgagtctgtgtaagccagagtgattgcgaagggtaaaggtggtcgacag Alignment from Spaln_nt2Genome -CCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG gacagctgagtcttgtccttaattactatacacttattctcatttcctagTCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCGAGTTCTGGAAAGGCTGCTGCTGCTCCACCCACCAGTACAGgtgagtctgtgtaagccagagtgattgcgaagggtaaaggtggtcgacag Alignment from Pairagon TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG gacagctgagtcttgtccttaattactatacacttattctcatttcctagT---------CCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCGAGTTCTGGAAAGGCTGCTGCTGCTCCACCCACCAGTACAGgtgagtctgtgtaagccagagtgattgcgaagggtaaaggtggtcgacag Alignment from Exonerate_protein2genome GCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG gacagctgagtcttgtccttaattactatacacttattctcatttcctagTCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCGAGTTCTGGAAAGGCTGCTGCTGCTCCACCCACCAGTACAGgtgagtctgtgtaagccagagtgattgcgaagggtaaaggtggtcgacag Alignment from Exonerate_coding2genome GCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG gacagctgagtcttgtccttaattactatacacttattctcatttcctagTCCTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCGAGTTCTGGAAAGGCTGCTGCTGCTCCACCCACCAGTACAGgtgagtctgtgtaagccagagtgattgcgaagggtaaaggtggtcgacag Alignment from GeneWise TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG gacagctgagtcttgtccttaattactatacacttattctcatttcctagTC---------CTCCTGCCATCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCGCCTGTCCCACCTCCCCCGAGTTCTGGAAAGGCTGCTGCTGCTCCACCCACCAGTACAGgtgagtctgtgtaagccagagtgattgcgaagggtaaaggtggtcgacag #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCAC---------tg gtgagggtagtgacaggcattcccaagttttcttctccactgttttgcagagCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTAGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCAATTCTGTTAGTAATGGAGGGTCTCTTAGCCTTCTTACATGCTCTGCGGTTGCATTGGAGCAAAtggtgagcacctatttagtgggatttggcagggaacatgggtggatttgtcc Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCAC---------tg gtgagggtagtgacaggcattcccaagttttcttctccactgttttgcagagCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTAGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCAATTCTGTTAGTAATGGAGGGTCTCTTAGCCTTCTTACATGCTCTGCGGTTGCATTGGAGCAAAtggtgagcacctatttagtgggatttggcagggaacatgggtggatttgtcc Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGG-------- gtgagggtagtgacaggcattcccaagttttcttctccactgttttgcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTAGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCAATTCTGTTAGTAATGGAGGGTCTCTTAGCCTTCTTACATGCTCTGCGGTTGCATTGGAGCAAATGgtgagcacctatttagtgggatttggcagggaacatgggtggatttgtcc Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGG- gtgagggtagtgacaggcattcccaagttttcttctccactgttttgcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTAGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCAATTCTGTTAGTAATGGAGGGTCTCTTAGCCTTCTTACATGCTCTGCGGTTGCATTGGAgcaaatggtgagcacctatttagtgggatttggcagggaacatgggtggatttgtcc Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG--------- gtgagggtagtgacaggcattcccaagttttcttctccactgttttgcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTAGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCAATTCTGTTAGTAATGGAGGGTCTCTTAGCCTTCTTACATGCTCTGCGGTTGCATTGGAGCAAATGgtgagcacctatttagtgggatttggcagggaacatgggtggatttgtcc Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG gtgagggtagtgacaggcattcccaagttttcttctccactgttttgcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTAGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCAATTCTGTTAGTAATGGAGGGTCTCTTAGCCTTCTTACATGCTCTGCGGTTGCATTGgagcaaatggtgagcacctatttagtgggatttggcagggaacatgggtggatttgtcc Alignment from Exonerate_coding2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG gtgagggtagtgacaggcattcccaagttttcttctccactgttttgcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTAGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCAATTCTGTTAGTAATGGAGGGTCTCTTAGCCTTCTTACATGCTCTGCGGTTGCATTGgagcaaatggtgagcacctatttagtgggatttggcagggaacatgggtggatttgtcc Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGGGTGGAG-- gtgagggtagtgacaggcattcccaagttttcttctccactgttttgcagAGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTAGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAACTGTGGCAATTCTGTTAGTAATGGAGGGTCTCTTAGCCTTCTTACATGCTCTGCGGTTGCATTGGAGCAAATGgtgagcacctatttagtgggatttggcagggaacatgggtggatttgtcc #### Tcirg1_ID170_17 --> 0 - 1 Original Alignment ------TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc gtggatagatgctcgactggtcagcttcttatttttactttgcactgtagCTTAATTTTGTCCCGTCTGAAATTTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCAcgtaattgatgtttattgtgtgatgatattataatatcctactgggtacca Alignment from CESAR ------TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc gtggatagatgctcgactggtcagcttcttatttttactttgcactgtagCTTAATTTTGTCCCGTCTGAAATTTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCAcgtaattgatgtttattgtgtgatgatattataatatcctactgggtacca Alignment from Spaln_aa2Genome TTTGTCCCT------TCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggatagatgctcgactggtcagcttcttatttttactttgcactgtagCTTAATTTTGTCCCGTCTGAAATTTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtaattgatgtttattgtgtgatgatattataatatcctactgggtacca Alignment from Spaln_nt2Genome AGTTTGTCCCTTC----TGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggatagatgctcgactggtcagcttcttatttttactttgcactgtagCTTAATTTTGTCCCGTCTGAAATTTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtaattgatgtttattgtgtgatgatattataatatcctactgggtacca Alignment from Pairagon ------TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggatagatgctcgactggtcagcttcttatttttactttgcactgtagCTTAATTTTGTCCCGTCTGAAATTTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtaattgatgtttattgtgtgatgatattataatatcctactgggtacca Alignment from Exonerate_protein2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggatagatgctcgactggtcagcttcttatttttactttgcactgtagcttaatTTTGTCCCGTCTGAAATTTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtaattgatgtttattgtgtgatgatattataatatcctactgggtacca Alignment from Exonerate_coding2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggatagatgctcgactggtcagcttcttatttttactttgcactgtagcttaatTTTGTCCCGTCTGAAATTTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtaattgatgtttattgtgtgatgatattataatatcctactgggtacca Alignment from GeneWise ------TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC gtggatagatgctcgactggtcagcttcttatttttactttgcactgtagCTTAATTTTGTCCCGTCTGAAATTTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGTTGCATCTCAAACACAGCCTCTTACCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtaattgatgtttattgtgtgatgatattataatatcctactgggtacca #### Tcirg1_ID171_16 --> 0 - 0 Original Alignment GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG------------------------------------------------ gatagcacagataatttcaggagactgcgtgacctctgctctgcctgcagGATGAGGACACAGATAAACTACTTGCTTCCCCTGATGCATCAACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGGAGGCTGGGAGCCCAGGGGAAGAAGAAACTGATGACTTTGAAAGGGATGACTTGCGCTCGATGTCTGGCAGTACAGATAGTgtaggtagacctatagttgctaaggatggcctgccagaccagattattat Alignment from CESAR GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG gatagcacagataatttcaggagactgcgtgacctctgctctgcctgcagGATGAGGACACAGATAAACTACTTGCTTCCCCTGATGCATCAACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGGAGGCTGGGAGCCCAGGGGAAGAAGAAACTGATgactttgaaagggatgacttgcgctcgatgtctggcagtacagatagtgtaggtagacctatagttgctaaggatggcctgccagaccagattattat Alignment from Spaln_aa2Genome GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTG gatagcacagataatttcaggagactgcgtgacctctgctctgcctgcagGATGAGGACACAGATAAACTACTTGCTTCCCCTGATGCATCAACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGGAGGCTGGGAGCCCAGGGGAAGAAGAAACTGatgactttgaaagggatgacttgcgctcgatgtctggcagtacagatagtgtaggtagacctatagttgctaaggatggcctgccagaccagattattat Alignment from Spaln_nt2Genome GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTG gatagcacagataatttcaggagactgcgtgacctctgctctgcctgcagGATGAGGACACAGATAAACTACTTGCTTCCCCTGATGCATCAACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGGAGGCTGGGAGCCCAGGGGAAGAAGAAACTGatgactttgaaagggatgacttgcgctcgatgtctggcagtacagatagtgtaggtagacctatagttgctaaggatggcctgccagaccagattattat Alignment from Pairagon GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG------------------------------------------------ gatagcacagataatttcaggagactgcgtgacctctgctctgcctgcagGATGAGGACACAGATAAACTACTTGCTTCCCCTGATGCATCAACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGGAGGCTGGGAGCCCAGGGGAAGAAGAAACTGATGACTTTGAAAGGGATGACTTGCGCTCGATGTCTGGCAGTACAGATAGTgtaggtagacctatagttgctaaggatggcctgccagaccagattattat Alignment from Exonerate_protein2genome GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTG gatagcacagataatttcaggagactgcgtgacctctgctctgcctgcagGATGAGGACACAGATAAACTACTTGCTTCCCCTGATGCATCAACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGGAGGCTGGGAGCCCAGGGGAAGAAGAAACTGatgactttgaaagggatgacttgcgctcgatgtctggcagtacagatagtgtaggtagacctatagttgctaaggatggcctgccagaccagattattat Alignment from Exonerate_coding2genome GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTG gatagcacagataatttcaggagactgcgtgacctctgctctgcctgcagGATGAGGACACAGATAAACTACTTGCTTCCCCTGATGCATCAACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGGAGGCTGGGAGCCCAGGGGAAGAAGAAACTGatgactttgaaagggatgacttgcgctcgatgtctggcagtacagatagtgtaggtagacctatagttgctaaggatggcctgccagaccagattattat Alignment from GeneWise GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG------------------------------------------------ gatagcacagataatttcaggagactgcgtgacctctgctctgcctgcagGATGAGGACACAGATAAACTACTTGCTTCCCCTGATGCATCAACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGGAGGCTGGGAGCCCAGGGGAAGAAGAAACTGATGACTTTGAAAGGGATGACTTGCGCTCGATGTCTGGCAGTACAGATAGTgtaggtagacctatagttgctaaggatggcctgccagaccagattattat #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ tgcacaatgtaactccaattcaatgtgcctgttttttctttctcttaaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCTTATACCTCCTACGTGAGCACCGGCACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAACAGATTTCCgtaggaacataaggattgggctaagtggtgacacatgtaacctcttctcc Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ tgcacaatgtaactccaattcaatgtgcctgttttttctttctcttaaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCTTATACCTCCTACGTGAGCACCGGCACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAACAGATTTCCgtaggaacataaggattgggctaagtggtgacacatgtaacctcttctcc Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAG---CAG tgcacaatgtaactccaattcaatgtgcctgttttttctttctcttaaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCTTATACCTCCTACGTGAGCACCGGCACAGAAGAAACTCCCAAAGAAGAGCAGGCCAACAGATTTCCgtaggaacataaggattgggctaagtggtgacacatgtaacctcttctcc Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ tgcacaatgtaactccaattcaatgtgcctgttttttctttctcttaaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCTTATACCTCCTACGTGAGCACCGGCACAGAAGAAACTCCCAAAGAAG---AGCAGGCCAACAGATTTCCgtaggaacataaggattgggctaagtggtgacacatgtaacctcttctcc Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ tgcacaatgtaactccaattcaatgtgcctgttttttctttctcttaaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCTTATACCTCCTACGTGAGCACCGGCACAGAAGAAACTCCCAAAGAAG---AGCAGGCCAACAGATTTCCgtaggaacataaggattgggctaagtggtgacacatgtaacctcttctcc Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG tgcacaatgtaactccaattcaatgtgcctgttttttctttctcttaaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCTTATACCTCCTACGTGAGCACCGGCACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAACAGatttccgtaggaacataaggattgggctaagtggtgacacatgtaacctcttctcc Alignment from Exonerate_coding2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG tgcacaatgtaactccaattcaatgtgcctgttttttctttctcttaaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCTTATACCTCCTACGTGAGCACCGGCACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAACAGatttccgtaggaacataaggattgggctaagtggtgacacatgtaacctcttctcc Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ tgcacaatgtaactccaattcaatgtgcctgttttttctttctcttaaagGAAGTGGTACAGTATGTCCTGGTGGTCTTGGCTTTAGCTACTGTCCCTATTCTGCTGCTGGGCACACCCTTATACCTCCTACGTGAGCACCGGCACAGAAGAAACTCCCAAAGAAGA---GCAGGCCAACAGATTTCCgtaggaacataaggattgggctaagtggtgacacatgtaacctcttctcc #### Tcirg1_ID175_12 --> 1 - 0 Original Alignment tGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG caggttacctgacgtgaagtatagcttagtttttcttacatatctttcagcGATGAGTATCTATCCCAGCACTCGATGCTAACCTTGAACCCTAACATTACTGGAGTCCTCCTTGGACCATACCCCTTTGGCATTGAG---gtaaggagtgagcatacaagtgcacggtaaagaggtgcatgggaaggcag Alignment from CESAR tGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG caggttacctgacgtgaagtatagcttagtttttcttacatatctttcagcGATGAGTATCTATCCCAGCACTCGATGCTAACCTTGAACCCTAACATTACTGGAGTCCTCCTTGGACCATACCCCTTTGGCATTGAG---gtaaggagtgagcatacaagtgcacggtaaagaggtgcatgggaagg Alignment from Spaln_aa2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAC caggttacctgacgtgaagtatagcttagtttttcttacatatctttcagCGATGAGTATCTATCCCAGCACTCGATGCTAACCTTGAACCCTAACATTACTGGAGTCCTCCTTGGACCATACCCCTTTGGCATTGAGgtaaggagtgagcatacaagtgcacggtaaagaggtgcatgggaaggcag Alignment from Spaln_nt2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCGA--- caggttacctgacgtgaagtatagcttagtttttcttacatatctttcagCGATGAGTATCTATCCCAGCACTCGATGCTAACCTTGAACCCTAACATTACTGGAGTCCTCCTTGGACCATACCCCTTTGGCATTGAGGTAAGGAgtgagcatacaagtgcacggtaaagaggtgcatgggaaggcag Alignment from Pairagon ------------------------------------------------AGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAC CAGGTTACCTGACGTGAAGTATAGCTTAGTTTTTCTTACATATCTTTCAGCGATGAGTATCTATCCCAGCACTCGATGCTAACCTTGAACCCTAACATTACTGGAGTCCTCCTTGGACCATACCCCTTTGGCATTGAGgtaaggagtgagcatacaagtgcacggtaaagaggtgcatgggaaggcag Alignment from Exonerate_protein2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAC caggttacctgacgtgaagtatagcttagtttttcttacatatctttcagCGATGAGTATCTATCCCAGCACTCGATGCTAACCTTGAACCCTAACATTACTGGAGTCCTCCTTGGACCATACCCCTTTGGCATTGAGgtaaggagtgagcatacaagtgcacggtaaagaggtgcatgggaaggcag Alignment from Exonerate_coding2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAC caggttacctgacgtgaagtatagcttagtttttcttacatatctttcagCGATGAGTATCTATCCCAGCACTCGATGCTAACCTTGAACCCTAACATTACTGGAGTCCTCCTTGGACCATACCCCTTTGGCATTGAGgtaaggagtgagcatacaagtgcacggtaaagaggtgcatgggaaggcag Alignment from GeneWise TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG caggttacctgacgtgaagtatagcttagtttttcttacatatctttcagCGATGAGTATCTATCCCAGCACTCGATGCTAACCTTGAACCCTAACATTACTGGAGTCCTCCTTGGACCATACCCCTTTGGCATT---GAGgtaaggagtgagcatacaagtgcacggtaaagaggtgcatgggaaggcag #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT caaggagagttgaggggaggctgcatttattcattcaatcttcgttttagc---GTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGACAgtaggcgtaaagggaagacaaggacccataatttgttgcagGGTGAGCCT Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT aggcaaggagagttgaggggaggcttttattcattcaatcttcgttttagc---GTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGACAgtaggcgtaaagggaagactcgccactttcatctctctcagGGTGAGCCT Alignment from Spaln_aa2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT caaggagagttgaggggaggctgcatttattcattcaatcttcgttttagC---GTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGACAgtaggcgtaaagggaagacaaggacccataatttgttgcagGGTGAGCCT Alignment from Spaln_nt2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT caaggagagttgaggggaggctgcatttattcattcaatcttcgttttag---CGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGACAgtaggcgtaaagggaagacaaggacccataatttgttgcagGGTGAGCCT Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT caaggagagttgaggggaggctgcatttattcattcaatcttcgttttag---CGTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGACAgtaggcgtaaagggaagacaaggacccataatttgttgcagGGTGAGCCT Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT caaggagagttgaggggaggctgcatttattcattcaatcttcgttttagC---GTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGACAgtaggcgtaaagggaagacaaggacccataatttgttgcagGGTGAGCCT Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT caaggagagttgaggggaggctgcatttattcattcaatcttcgttttagC---GTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGACAgtaggcgtaaagggaagacaaggacccataatttgttgcagGGTGAGCCT Alignment from GeneWise TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT caaggagagttgaggggaggctgcatttattcattcaatcttcgttttagC---GTGGCAGGTGCAGTGGAGCCCTACAAGGCAGCAGCCTTAGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGTGAGACTGAAGGGCAACTGAAGGACCCAGTGACAgtaggcgtaaagggaagacaaggacccataatttgttgcagGGTGAGCCT #### Tctn3_ID7995_6 --> 2 - 0 Original Alignment gtTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG tttgtgagtttttctcagttactggggctctctctctttgccatcaaaagggTTTCTAGAGACTAAAAGCATGACCTCTCCCCGTTTCTTTAAGGACCTCGCCAGTAGCTGCACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTG---gtaaataggcacaccagctttctgactccttctgatttctccctgatact Alignment from CESAR gtTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG tttgtgagtttttctcagttactggggctctctctctttgccatcaaaagggTTTCTAGAGACTAAAAGCATGACCTCTCCCCGTTTCTTTAAGGACCTCGCCAGTAGCTGCACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTG---gtaaataggcacaccagctttctgactccttctgatttctccctgat Alignment from Spaln_aa2Genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTG tttgtgagtttttctcagttactggggctctctctctttgccatcaaaagGGTTTCTAGAGACTAAAAGCATGACCTCTCCCCGTTTCTTTAAGGACCTCGCCAGTAGCTGCACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGgtaaataggcacaccagctttctgactccttctgatttctccctgatact Alignment from Spaln_nt2Genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGA-----AG tttgtgagtttttctcagttactggggctctctctctttgccatcaaaagGGTTTCTAGAGACTAAAAGCATGACCTCTCCCCGTTTCTTTAAGGACCTCGCCAGTAGCTGCACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGGTAAATAGgcacaccagctttctgactccttctgatttctccctgatact Alignment from Pairagon ----------------------------------------------------TTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTG TTTGTGAGTTTTTCTCAGTTACTGGGGCTCTCTCTCTTTGCCATCAAAAGGGTTTCTAGAGACTAAAAGCATGACCTCTCCCCGTTTCTTTAAGGACCTCGCCAGTAGCTGCACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGgtaaataggcacaccagctttctgactccttctgatttctccctgatact Alignment from Exonerate_protein2genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG tttgtgagtttttctcagttactggggctctctctctttgccatcaaaagGGTTTCTAGAGACTAAAAGCATGACCTCTCCCCGTTTCTTTAAGGACCTCGCCAGTAGCTGCACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTG---gtaaataggcacaccagctttctgactccttctgatttctccctgat Alignment from Exonerate_coding2genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG tttgtgagtttttctcagttactggggctctctctctttgccatcaaaagGGTTTCTAGAGACTAAAAGCATGACCTCTCCCCGTTTCTTTAAGGACCTCGCCAGTAGCTGCACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTG---gtaaataggcacaccagctttctgactccttctgatttctccctgat Alignment from GeneWise GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTG tttgtgagtttttctcagttactggggctctctctctttgccatcaaaagGGTTTCTAGAGACTAAAAGCATGACCTCTCCCCGTTTCTTTAAGGACCTCGCCAGTAGCTGCACCTCTGAGCCAGCTCTGGATGCAGTTTCAGATTACAACTTCAGAGTCTTGgtaaataggcacaccagctttctgactccttctgatttctccctgatact #### Tdrd1_ID12205_6 --> 0 - 0 Original Alignment GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG acatgcagggtgggctgcctcaacccttagcaccccccacattcccacag---GATTGCCCCCCAGGAGTT---AAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtatggggatttgcctcctacttgcctcccacacgtgatcccactgaaat Alignment from CESAR GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG catacatgcagggtgggctgcctcacttagcaccccccacattcccacag---GATTGCCCCCCAGGAGTT---AAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtatggggatttgcctcctacttgcctcccacacgtgatcccactgaaat Alignment from Spaln_aa2Genome GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG acatgcagggtgggctgcctcaacccttagcaccccccacattcccacag---GATTGCCCCCCAGGAGTT---AAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtatggggatttgcctcctacttgcctcccacacgtgatcccactgaaat Alignment from Spaln_nt2Genome GACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG acatgcagggtgggctgcctcaacccttagcaccccccacattcccacagGATTGCCCCCCAGGAGT---TAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtatggggatttgcctcctacttgcctcccacacgtgatcccactgaaat Alignment from Pairagon GTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG acatgcagggtgggctgcctcaacccttagcaccccccacattcccacag---GATTGCCCCCCAGGAGT---TAAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtatggggatttgcctcctacttgcctcccacacgtgatcccactgaaat Alignment from Exonerate_protein2genome GACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG acatgcagggtgggctgcctcaacccttagcaccccccacattcccacagGATTGCCCCCCAGGAGTT---AAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtatggggatttgcctcctacttgcctcccacacgtgatcccactgaaat Alignment from Exonerate_coding2genome TTGAAGTGAAGAGTGAGGTTGACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG acatgcagggtgggctgcctcaacccttagCACCCCCCACATTCCCACAGGATTGCCCCCCAGGAGTT---AAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtatggggatttgcctcctacttgcctcccacacgtgatcccactgaaat Alignment from GeneWise GACTGTCCCCCGGGAGTTACTAAAGAAATAACAGCGGGTGCTGAGAGAGTAATGTTCTCTGATTTGAGAAGTCTCCAACTCAAGAAAACCATGGAGATAAAG acatgcagggtgggctgcctcaacccttagcaccccccacattcccacagGATTGCCCCCCAGGAGTT---AAACAAATAACAGTAGGTGCTGAGAGAGTTATGTTCTCTGATTTGAGAAGTCTTCAACTAAAGAAAACAATGGAGATAAAAgtatggggatttgcctcctacttgcctcccacacgtgatcccactgaaat #### Tdrd1_ID12222_23 --> 2 - 0 Original Alignment ag---ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG ctgtctctactttgaccaagtccattgctggacaccctgtgtgtttgcagagATGATACCTCACAGTAGGGACTGCTGCTGCACAGAATTACAGAAACAGgtaagtatttactgctgctcaaaccagtgcactgcttcccattgacatag Alignment from CESAR ag---ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG ctgtctctactttgaccaagtccattgctggacaccctgtgtgtttgcagagATGATACCTCACAGTAGGGACTGCTGCTGCACAGAATTACAGAAACAGgtaagtatttactgctgctcaaaccagtgcactgcttcccattgacatag Alignment from Spaln_aa2Genome AG---ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG ctgtctctactttgaccaagtccattgctggacaccctgtgtgtttgcagAGATGATACCTCACAGTAGGGACTGCTGCTGCACAGAATTACAGAAACAGgtaagtatttactgctgctcaaaccagtgcactgcttcccattgacatag Alignment from Spaln_nt2Genome AGATACCACACA---GCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG ctgtctctactttgaccaagtccattgctggacaccctgtgtgtttgcagAGATGATACCTCACAGTAGGGACTGCTGCTGCACAGAATTACAGAAACAGgtaagtatttactgctgctcaaaccagtgcactgcttcccattgacatag Alignment from Pairagon A---GATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG ctgtctctactttgaccaagtccattgctggacaccctgtgtgtttgcagAGATGATACCTCACAGTAGGGACTGCTGCTGCACAGAATTACAGAAACAGgtaagtatttactgctgctcaaaccagtgcactgcttcccattgacatag Alignment from Exonerate_protein2genome AG---ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG ctgtctctactttgaccaagtccattgctggacaccctgtgtgtttgcagAGATGATACCTCACAGTAGGGACTGCTGCTGCACAGAATTACAGAAACAGgtaagtatttactgctgctcaaaccagtgcactgcttcccattgacatag Alignment from Exonerate_coding2genome AG---ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG ctgtctctactttgaccaagtccattgctggacaccctgtgtgtttgcagAGATGATACCTCACAGTAGGGACTGCTGCTGCACAGAATTACAGAAACAGgtaagtatttactgctgctcaaaccagtgcactgcttcccattgacatag Alignment from GeneWise --GAGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG ctgtctctactttgaccaagtccattgctggacaccctgtgtgtttgcagAGATGATACCTCACAGTAGGGACTGCTGCTGCACAGAATTACAGAAACAGgtaagtatttactgctgctcaaaccagtgcactgcttcccattgacatag #### Tjp2_ID5278_9 --> 1 - 1 Original Alignment c------TCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg gattaagattttgttattccataaaccattctttttgttccacattgtagcCTTGGATCTAAAGAAGAGACCTCGGGCAGACTATCAAGGATGGGTGCCACACCCACACCATTCAAGTATACAGGCGACCTCACGGCTGCTGGAGTTACG---GCCAGTAAAGAGCCCAGGTACCAGGAAAAAGGCCCAggtaagttgttatgctattcttttgcatgtatgttatacacaggctggtta Alignment from CESAR c------TCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg gattaagattttgttattccataaaccattctttttgttccacattgtagcCTTGGATCTAAAGAAGAGACCTCGGGCAGACTATCAAGGATGGGTGCCACACCCACACCATTCAAGTATACAGGCGACCTCACGGCTGCTGGAGTTACG---GCCAGTAAAGAGCCCAGGTACCAGGAAAAAGGCCCAggtaagttgttatgctattcttttgcatgtatgttatacacaggctggtta Alignment from Spaln_aa2Genome C------TCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCA gattaagattttgttattccataaaccattctttttgttccacattgtagCCTTGGATCTAAAGAAGAGACCTCGGGCAGACTATCAAGGATGGGTGCCACACCCACACCATTCAAGTATACAGGCGACCTCACGGCTGCTGGAGTTACG---GCCAGTAAAGAGCCCAGGTACCAGGAAAAAGGCCCAGgtaagttgttatgctattcttttgcatgtatgttatacacaggctggtta Alignment from Spaln_nt2Genome C------TCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gattaagattttgttattccataaaccattctttttgttccacattgtagCCTTGGATCTAAAGAAGAGACCTCGGGCAGACTATCAAGGATGGGTGCCACACCCACACCATTCAAGTATACAGGCGACCTCACGGCTGCTGGAGTTAC---GGCCAGTAAAGAGCCCAGGTACCAGGAAAAAGGCCCAGgtaagttgttatgctattcttttgcatgtatgttatacacaggctggtta Alignment from Pairagon C------TCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gattaagattttgttattccataaaccattctttttgttccacattgtagCCTTGGATCTAAAGAAGAGACCTCGGGCAGACTATCAAGGATGGGTGCCACACCCACACCATTCAAGTATACAGGCGACCTCACGGCTGCTGGAGTTAC---GGCCAGTAAAGAGCCCAGGTACCAGGAAAAAGGCCCAGgtaagttgttatgctattcttttgcatgtatgttatacacaggctggtta Alignment from Exonerate_protein2genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gattaagattttgttattccataaaccattctttttgttccacattgtagccttggATCTAAAGAAGAGACCTCGGGCAGACTATCAAGGATGGGTGCCACACCCACACCATTCAAGTATACAGGCGACCTCACGGCTGCTGGAGTTACG---GCCAGTAAAGAGCCCAGGTACCAGGAAAAAGGCCCAGgtaagttgttatgctattcttttgcatgtatgttatacacaggctggtta Alignment from Exonerate_coding2genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gattaagattttgttattccataaaccattctttttgttccacattgtagccttggATCTAAAGAAGAGACCTCGGGCAGACTATCAAGGATGGGTGCCACACCCACACCATTCAAGTATACAGGCGACCTCACGGCTGCTGGAGTTACG---GCCAGTAAAGAGCCCAGGTACCAGGAAAAAGGCCCAGgtaagttgttatgctattcttttgcatgtatgttatacacaggctggtta Alignment from GeneWise ----AGCTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG gattaagattttgttattccataaaccattctttttgttccacattgtagCCTTGGATCTAAAGAAGAGACCTCGGGCAGACTATCAAGGATGGGTGCCACACCCACACCATTCAAGTATACAGGCGACCTCACGGCTGCTGGAGTTACG---GCCAGTAAAGAGCCCAGGTACCAGGAAAAAGGCCCAGgtaagttgttatgctattcttttgcatgtatgttatacacaggctggtta #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg tgcctaagtgaacctgagggcctgtagcatctaccctgcttctctttcaggtCTAGACACGATCCCCACTGCCACAGGGAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCC---ggtaactcttaggtgaggggagtgaggaccatatacctgctgtactgagat Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg tgcctaagtgaacctgagggcctgtagcatctaccctgcttctctttcaggtCTAGACACGATCCCCACTGCCACAGGGAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCC---ggtaactcttaggtgaggggagtgaggaccatatacctgctgtactgagat Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCC- tgcctaagtgaacctgagggcctgtagcatctaccctgcttctctttcagGTCTAGACACGATCCCCACTGCCACAGGGAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCGgtaactcttaggtgaggggagtgaggaccatatacctgctgtactgagat Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCT tgcctaagtgaacctgagggcctgtagcatctaccctgcttctctttcagGTCTAGACACGATCCCCACTGCCACAGGGAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCGgtaactcttaggtgaggggagtgaggaccatatacctgctgtactgagat Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGT--------G tgcctaagtgaacctgagggcctgtagcatctaccctgcttctctttcagGTCTAGACACGATCCCCACTGCCACAGGGAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCGGTAACTCTTAGgtgaggggagtgaggaccatatacctgctgtactgagat Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG tgcctaagtgaacctgagggcctgtagcatctaccctgcttctctttcagGTCTAGACACGATCCCCACTGCCACAGGGAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCC---Ggtaactcttaggtgaggggagtgaggaccatatacctgctgtactgagat Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG tgcctaagtgaacctgagggcctgtagcatctaccctgcttctctttcagGTCTAGACACGATCCCCACTGCCACAGGGAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCC---Ggtaactcttaggtgaggggagtgaggaccatatacctgctgtactgagat Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCT tgcctaagtgaacctgagggcctgtagcatctaccctgcttctctttcagGTCTAGACACGATCCCCACTGCCACAGGGAGACATCTGCTAGTGTCTGGGTGGTGGGGTATGGTACAGCATCCCAACTACCTAGGAGACCTCATCATGGCTCTTGCTTGGTCCTTGCCCGgtaactcttaggtgaggggagtgaggaccatatacctgctgtactgagat #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment c---------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccccatccctgctattcttcttacactttcctgttttgtttgtactgtagcGATTTCCTCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtaagttgcaggtatctatcaagataaagcaacaagcttgattttgctca Alignment from CESAR c---------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccccatccctgctattcttcttacactttcctgttttgtttgtactgtagcGATTTCCTCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtaagttgcaggtatctatcaagataaagcaacaagcttgattttgctca Alignment from Spaln_aa2Genome C---------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGA ccccatccctgctattcttcttacactttcctgttttgtttgtactgtagCGATTTCCTCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtaagttgcaggtatctatcaagataaagcaacaagcttgattttgctca Alignment from Spaln_nt2Genome CTGCTCTGA---------AGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccccatccctgctattcttcttacactttcctgttttgtttgtactgtagCGATTTCCTCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtaagttgcaggtatctatcaagataaagcaacaagcttgattttgctca Alignment from Pairagon ---------CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccccatccctgctattcttcttacactttcctgttttgtttgtactgtagCGATTTCCTCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtaagttgcaggtatctatcaagataaagcaacaagcttgattttgctca Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccccatccctgctattcttcttacactttcctgttttgtttgtactgtagcgatttcctCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtaagttgcaggtatctatcaagataaagcaacaagcttgattttgctca Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccccatccctgctattcttcttacactttcctgttttgtttgtactgtagcgatttcctCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtaagttgcaggtatctatcaagataaagcaacaagcttgattttgctca Alignment from GeneWise -------AGCTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccccatccctgctattcttcttacactttcctgttttgtttgtactgtagCGATTTCCTCTGCTCTGAAGCACAGAAGACTGCTTGGACACCTTCAGGAACTGCTGTGCAGCTTTACTCCAACCTACATACTGCTGAAgtaagttgcaggtatctatcaagataaagcaacaagcttgattttgctca #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATT------ag tgtggtaaattctattcaggctaatccatcatgtgctttctcctgtctagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACAGCTATCTTCCTAATCTTAGTATCTGCCTGCATAGTTAGATTTGGCACGAATTCTTTCTGTAATTCCATCATCTCTTTGAATCTTACAATTCGTTTGaggtaagttgagggacaggttcacttggaggtgcaagctaagttcatttcct Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATT------ag tgtggtaaattctattcaggctaatccatcatgtgctttctcctgtctagaGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACAGCTATCTTCCTAATCTTAGTATCTGCCTGCATAGTTAGATTTGGCACGAATTCTTTCTGTAATTCCATCATCTCTTTGAATCTTACAATTCGTTTGaggtaagttgagggacaggttcacttggaggtgcaagctaagttcatttcct Alignment from Spaln_aa2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAGC----- tgtggtaaattctattcaggctaatccatcatgtgctttctcctgtctagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACAGCTATCTTCCTAATCTTAGTATCTGCCTGCATAGTTAGATTTGGCACGAATTCTTTCTGTAATTCCATCATCTCTTTGAATCTTACAATTCGTTTGAGgtaagttgagggacaggttcacttggaggtgcaagctaagttcatttcct Alignment from Spaln_nt2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATT------AG tgtggtaaattctattcaggctaatccatcatgtgctttctcctgtctagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACAGCTATCTTCCTAATCTTAGTATCTGCCTGCATAGTTAGATTTGGCACGAATTCTTTCTGTAATTCCATCATCTCTTTGAATCTTACAATTCGTTTGAGgtaagttgagggacaggttcacttggaggtgcaagctaagttcatttcct Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATT------AG tgtggtaaattctattcaggctaatccatcatgtgctttctcctgtctagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACAGCTATCTTCCTAATCTTAGTATCTGCCTGCATAGTTAGATTTGGCACGAATTCTTTCTGTAATTCCATCATCTCTTTGAATCTTACAATTCGTTTGAGgtaagttgagggacaggttcacttggaggtgcaagctaagttcatttcct Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATT------AG tgtggtaaattctattcaggctaatccatcatgtgctttctcctgtctagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACAGCTATCTTCCTAATCTTAGTATCTGCCTGCATAGTTAGATTTGGCACGAATTCTTTCTGTAATTCCATCATCTCTTTGAATCTTACAATTCGTTTGAGgtaagttgagggacaggttcacttggaggtgcaagctaagttcatttcct Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATT------AG tgtggtaaattctattcaggctaatccatcatgtgctttctcctgtctagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACAGCTATCTTCCTAATCTTAGTATCTGCCTGCATAGTTAGATTTGGCACGAATTCTTTCTGTAATTCCATCATCTCTTTGAATCTTACAATTCGTTTGAGgtaagttgagggacaggttcacttggaggtgcaagctaagttcatttcct Alignment from GeneWise AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATT------AG tgtggtaaattctattcaggctaatccatcatgtgctttctcctgtctagAGGCTCTATAGGGCTCCGGATTGCTCTGGCCATTTCAGCTACAGCTATCTTCCTAATCTTAGTATCTGCCTGCATAGTTAGATTTGGCACGAATTCTTTCTGTAATTCCATCATCTCTTTGAATCTTACAATTCGTTTGAGgtaagttgagggacaggttcacttggaggtgcaagctaagttcatttcct #### Trim8_ID9936_5 --> 1 - 1 Original Alignment gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAA------------g taagctaaagcacctcatcttccagaactggactgatctgtgatttccaggACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTGCGGAAAATGCTTGAAGTTTTCATTAACggtgaggtgttaacgggccactgtacaggtgatgcccagtcagcaccccat Alignment from CESAR gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAA------------g taagttaaagcacctcatcttccagaactggactgatctgtgatttccaggACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTGCGGAAAATGCTTGAAGTTTTCATTAACggtgaggtgttaacgggccactgtacaggtgatgcccagtcagcaccccat Alignment from Spaln_aa2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAA------------G taagctaaagcacctcatcttccagaactggactgatctgtgatttccagGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTGCGGAAAATGCTTGAAGTTTTCATTAACGgtgaggtgttaacgggccactgtacaggtgatgcccagtcagcaccccat Alignment from Spaln_nt2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAA taagctaaagcacctcatcttccagaactggactgatctgtgatttccagGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTGCGGAAAATGCTTGAAgttttcattaacggtgaggtgttaacgggccactgtacaggtgatgcccagtcagcaccccat Alignment from Pairagon GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG------------ taagctaaagcacctcatcttccagaactggactgatctgtgatttccagGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTGCGGAAAATGCTTGAAGTTTTCATTAACGgtgaggtgttaacgggccactgtacaggtgatgcccagtcagcaccccat Alignment from Exonerate_protein2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagctaaagcacctcatcttccagaactggactgatctgtgatttccagGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTGCGGAAAATGCTTGAAGttttcattaacggtgaggtgttaacgggccactgtacaggtgatgcccagtcagcaccccat Alignment from Exonerate_coding2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagctaaagcacctcatcttccagaactggactgatctgtgatttccagGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTGCGGAAAATGCTTGAAGttttcattaacggtgaggtgttaacgggccactgtacaggtgatgcccagtcagcaccccat Alignment from GeneWise GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAA taagctaaagcacctcatcttccagaactggactgatctgtgatttccagGACCCAGACCTGCACAAGCAGTAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTAAATGAGGTAACCAAGAAGGAGAAACAGTTGCGGAAAATGCTTGAAgttttcattaacggtgaggtgttaacgggccactgtacaggtgatgcccagtcagcaccccat #### Trmt112_ID1862_3 --> 0 - 0 Original Alignment TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG cggtaattaaagtctgggtgcttgaatttttctatctgcttttcatgtag---AACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTGTTGCTTGAGgtcagtaacctggaccattgtgcctaggtgtccatggttgttactagcct Alignment from CESAR TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG ttccggtaattaaagtctgggtgctatttttctatctgcttttcatgtag---AACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTGTTGCTTGAGgtcagtaacctggaccattgtgcctaggtgtccatggttgttactagcct Alignment from Spaln_aa2Genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG cggtaattaaagtctgggtgcttgaatttttctatctgcttttcatgtag---AACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTGTTGCTTGAGgtcagtaacctggaccattgtgcctaggtgtccatggttgttactagcct Alignment from Spaln_nt2Genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG cggtaattaaagtctgggtgcttgaatttttctatctgcttttcatgtag---AACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTGTTGCTTGAGgtcagtaacctggaccattgtgcctaggtgtccatggttgttactagcct Alignment from Pairagon TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG cggtaattaaagtctgggtgcttgaatttttctatctgcttttcatgtag---AACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTGTTGCTTGAGgtcagtaacctggaccattgtgcctaggtgtccatggttgttactagcct Alignment from Exonerate_protein2genome AACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG cggtaattaaagtctgggtgcttgaatttttctatctgcttttcatgtagAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTGTTGCTTGAGgtcagtaacctggaccattgtgcctaggtgtccatggttgttactagcct Alignment from Exonerate_coding2genome AACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG cggtaattaaagtctgggtgcttgaatttttctatctgcttttcatgtagAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTGTTGCTTGAGgtcagtaacctggaccattgtgcctaggtgtccatggttgttactagcct Alignment from GeneWise AACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG cggtaattaaagtctgggtgcttgaatttttctatctgcttttcatgtagAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGATGAAACATTTTTGAGGGAGATGCGTCATGTGTTGCTTGAGgtcagtaacctggaccattgtgcctaggtgtccatggttgttactagcct #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg tgtatgaagggagcttctccgctgccacaaccccactctctccgagccag---CCTGAGTTGGAATTGACCCCCCTGGACACACCACAAGCCCTGCCTCTGGCACTAGTCCATGGTACATTCTGGACGAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACGCCAAGGAAGGACATGCAATCACCTGGCTTCAGGATTGCCA---GACCCTGGTGCTATCAGTggtagattctcattaacccatccctcttccctggactgcaccagcgatcat Alignment from CESAR GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gaatgtatgaagggagcttctccgccacaaccccactctctccgagccag---CCTGAGTTGGAATTGACCCCCCTGGACACACCACAAGCCCTGCCTCTGGCACTAGTCCATGGTACATTCTGGACGAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACGCCAAGGAAGGACATGCAATCACCTGGCTTCAGGATTGCCA---GACCCTGGTGCTATCAGTggtagattctcattaacccatccctcttccctggactgcaccagcgatcat Alignment from Spaln_aa2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgaagggagcttctccgctgccacaaccccactctctccgagccagCCTGAGTTGGAA---TTGACCCCCCTGGACACACCACAAGCCCTGCCTCTGGCACTAGTCCATGGTACATTCTGGACGAATCACTGGCCATCCATTTTGCTCAAGGGGTCACGCCAAGGAAGGACATGCAATCACCTGGCTTCAGGATTGCCA---GACCCTGGTGCTATCAGTGgtagattctcattaacccatccctcttccctggactgcaccagcgatcat Alignment from Spaln_nt2Genome CCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAG---CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgaagggagcttctccgctgccacaaccccactctctccgagccagCCTGAGTTGGAATTGACCCCCCTGGACACACCACAAGCCCTGCCTCTGGCACTAGTCCATGGTACATTCTGGACGAATCACTGGCCATCCATTTTGCTCAAGGG---GTCACGCCAAGGAAGGACATGCAATCACCTGGCTTCAGGATTGCC---AGACCCTGGTGCTATCAGTGgtagattctcattaacccatccctcttccctggactgcaccagcgatcat Alignment from Pairagon -------------------------------------------------CCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAG---CACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG TGTATGAAGGGAGCTTCTCCGCTGCCACAACCCCACTCTCTCCGAGCCAGCCTGAGTTGGAATTGACCCCCCTGGACACACCACAAGCCCTGCCTCTGGCACTAGTCCATGGTACATTCTGGACGAATCACTGGCCATCCATTTTGCTCAAGGG---GTCACGCCAAGGAAGGACATGCAATCACCTGGCTTCAGGATTGCC---AGACCCTGGTGCTATCAGTGgtagattctcattaacccatccctcttccctggactgcaccagcgatcat Alignment from Exonerate_protein2genome CCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgaagggagcttctccgctgccacaaccccactctctccgagccagCCTGAGTTGGAATTGACCCCCCTGGACACACCACAAGCCCTGCCTCTGGCACTAGTCCATGGTACATTCTGGACGAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACGCCAAGGAAGGACATGCAATCACCTGGCTTCAGGATTGCCA---GACCCTGGTGCTATCAGTGgtagattctcattaacccatccctcttccctggactgcaccagcgatcat Alignment from Exonerate_coding2genome CCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgaagggagcttctccgctgccacaaccccactctctccgagccagCCTGAGTTGGAATTGACCCCCCTGGACACACCACAAGCCCTGCCTCTGGCACTAGTCCATGGTACATTCTGGACGAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACGCCAAGGAAGGACATGCAATCACCTGGCTTCAGGATTGCCA---GACCCTGGTGCTATCAGTGgtagattctcattaacccatccctcttccctggactgcaccagcgatcat Alignment from GeneWise CCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG tgtatgaagggagcttctccgctgccacaaccccactctctccgagccagCCTGAGTTGGAATTGACCCCCCTGGACACACCACAAGCCCTGCCTCTGGCACTAGTCCATGGTACATTCTGGACGAATCACTGGCCATCCATTTTGCTCAAGGGG---TCACGCCAAGGAAGGACATGCAATCACCTGGCTTCAGGATTGCCA---GACCCTGGTGCTATCAGTGgtagattctcattaacccatccctcttccctggactgcaccagcgatcat #### Trpt1_ID1982_5 --> 2 - 1 Original Alignment gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAg tccctcgctatgcaggggaagaaagagctttcctttgtgtttattttcaggcATTCGACCAAATTGTGGTGTGACAGTGTTTATTGAT------------------ggtacagatcaccccccagactgtctggcatctcttaggctggctgcatca Alignment from CESAR gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAg tccctcgctatgcaggggaagaaagagctttcctttgtgtttattttcaggcATTCGACCAAATTGTGGTGTGACAGTGTTTATTGAT------------------ggtacagatcaccccccagactgtctggcatctcttaggctggctgcatca Alignment from Spaln_aa2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCC---CTAGCCCTCACAG tccctcgctatgcaggggaagaaagagctttcctttgtgtttattttcagGCATTCGACCAAATTGTGGTGTGACAGTGTTTATTGATGGTACAGATCACCCCCCAGACTgtctggcatctcttaggctggctgcatca Alignment from Spaln_nt2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAGA-- tccctcgctatgcaggggaagaaagagctttcctttgtgtttattttcagGCATTCGACCAAATTGTGGTGTGACAGTGTTTATTGATGGTACAGATCACCCCCCAGACTgtctggcatctcttaggctggctgcatca Alignment from Pairagon GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGG---------ACCCCTAGCC------------------------------ tccctcgctatgcaggggaagaaagagctttcctttgtgtttattttcagGCATTCGACCAAATTGTGGTGTGACAGTGTTTATTGATGGTACAGATCACCCCCCAGACTGTCTGGCATCTCTTAGGCTGGCTGCATCA Alignment from Exonerate_protein2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCC tccctcgctatgcaggggaagaaagagctttcctttgtgtttattttcagGCATTCGACCAAATTGTGGTGTGACAGTGTTTATTGATGGTACAGatcaccccccagactgtctggcatctcttaggctggctgcatca Alignment from Exonerate_coding2genome CGTCCAAATTGTG tccctcgctatgcaggggaagaaagagctttcctttgtgtttattttcaggcattcgaccaaattgtggtgtgacagtgtttattgatggtacagatcaccccccagactgtctggcatctcttagGCTGGCTGCATCA Alignment from GeneWise CGTCCAAATTGTG tccctcgctatgcaggggaagaaagagctttcctttgtgtttattttcaggcattcgaccaaattgtggtgtgacagtgtttattgatggtacagatcaccccccagactgtctggcatctcttagGCTGGCTGCATCA #### Tut1_ID2554_7 --> 2 - 1 Original Alignment gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg acacaaagacttggtcttgtaaatagctgttccctgttatttattttcaggaGGTGGCCCCCTTCTCAACAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTACCTACTGTGGCCCAGCTAACCCAAAGG---ggtaagatacaatggcctctacaatctggatcacagctacactctggcaat Alignment from CESAR gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg acacaaagacttggtcttgtaaatagctgttccctgttatttattttcaggaGGTGGCCCCCTTCTCAACAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTACCTACTGTGGCCCAGCTAACCCAAAGG---ggtaagatacaatggcctctacaatctggatcacagctacactctggcaat Alignment from Spaln_aa2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG acacaaagacttggtcttgtaaatagctgttccctgttatttattttcagGAGGTGGCCCCCTTCTCAACAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTACCTACTGTGGCCCAGCTAACCCAAAGG---Ggtaagatacaatggcctctacaatctggatcacagctacactctggcaat Alignment from Spaln_nt2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAG-- acacaaagacttggtcttgtaaatagctgttccctgttatttattttcagGAGGTGGCCCCCTTCTCAACAACTATG---TAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTACCTACTGTGGCCCAGCTAACCCAAAGGGgtaagatacaatggcctctacaatctggatcacagctacactctggcaat Alignment from Pairagon GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAG acacaaagacttggtcttgtaaatagctgttccctgttatttattttcagGAGGTGGCCCCCTTCTCAACAACTATG---TAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTACCTACTGTGGCCCAGCTAACCCAAAGGGgtaagatacaatggcctctacaatctggatcacagctacactctggcaat Alignment from Exonerate_protein2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAG acacaaagacttggtcttgtaaatagctgttccctgttatttattttcagGAGGTGGCCCCCTTCTCAACAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTACCTACTGTGGCCCAGCTAACCCAAAGGGgtaagatacaatggcctctacaatctggatcacagctacactctggcaat Alignment from Exonerate_coding2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAG acacaaagacttggtcttgtaaatagctgttccctgttatttattttcagGAGGTGGCCCCCTTCTCAACAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTACCTACTGTGGCCCAGCTAACCCAAAGGGgtaagatacaatggcctctacaatctggatcacagctacactctggcaat Alignment from GeneWise GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGA- acacaaagacttggtcttgtaaatagctgttccctgttatttattttcagGAGGTGGCCCCCTTCTCAACAACTAT---GTAACCTTGTTGGTTATCTACTTGCTTCAGACTAGAGACCCTCCAGTGCTACCTACTGTGGCCCAGCTAACCCAAAGGGgtaagatacaatggcctctacaatctggatcacagctacactctggcaat #### Ubxn1_ID2439_3 --> 1 - 1 Original Alignment gCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAA---g ggtgggtaataaggtgggccccagaatacctaacttccttctgtccacaggCTGATGGAGCATGAAGATGACCCTGATGTGGATGAGCCTCTGGAGACTTCCCTCAGCCATGTTTTGGGGCGAAAACCCAAGCCCTCAGAGCAAGTTGGGCCTGAAGTGggtaagtattgggacacatcatggttgtgcaacttgaaaagggccctgaca Alignment from CESAR gCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAA---g ggtgggtaataaggtgggccccagaatacctaacttccttctgtccacaggCTGATGGAGCATGAAGATGACCCTGATGTGGATGAGCCTCTGGAGACTTCCCTCAGCCATGTTTTGGGGCGAAAACCCAAGCCCTCAGAGCAAGTTGGGCCTGAAGTGggtaagtattgggacacatcatggttgtgcaacttgaaaagggccctgaca Alignment from Spaln_aa2Genome GCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAA---G ggtgggtaataaggtgggccccagaatacctaacttccttctgtccacagGCTGATGGAGCATGAAGATGACCCTGATGTGGATGAGCCTCTGGAGACTTCCCTCAGCCATGTTTTGGGGCGAAAACCCAAGCCCTCAGAGCAAGTTGGGCCTGAAGTGGgtaagtattgggacacatcatggttgtgcaacttgaaaagggccctgaca Alignment from Spaln_nt2Genome GCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAG--- ggtgggtaataaggtgggccccagaatacctaacttccttctgtccacagGCTGATGGAGCATGAAGATGACCCTGATGTGGATGAGCCTCTGGAGACTTCCCTCAGCCATGTTTTGGGGCGAAAACCCAAGCCCTCAGAGCAAGTTGGGCCTGAAGTGGgtaagtattgggacacatcatggttgtgcaacttgaaaagggccctgaca Alignment from Pairagon GCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAG--- ggtgggtaataaggtgggccccagaatacctaacttccttctgtccacagGCTGATGGAGCATGAAGATGACCCTGATGTGGATGAGCCTCTGGAGACTTCCCTCAGCCATGTTTTGGGGCGAAAACCCAAGCCCTCAGAGCAAGTTGGGCCTGAAGTGGgtaagtattgggacacatcatggttgtgcaacttgaaaagggccctgaca Alignment from Exonerate_protein2genome GCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAA---G ggtgggtaataaggtgggccccagaatacctaacttccttctgtccacagGCTGATGGAGCATGAAGATGACCCTGATGTGGATGAGCCTCTGGAGACTTCCCTCAGCCATGTTTTGGGGCGAAAACCCAAGCCCTCAGAGCAAGTTGGGCCTGAAGTGGgtaagtattgggacacatcatggttgtgcaacttgaaaagggccctgaca Alignment from Exonerate_coding2genome GCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAA---G ggtgggtaataaggtgggccccagaatacctaacttccttctgtccacagGCTGATGGAGCATGAAGATGACCCTGATGTGGATGAGCCTCTGGAGACTTCCCTCAGCCATGTTTTGGGGCGAAAACCCAAGCCCTCAGAGCAAGTTGGGCCTGAAGTGGgtaagtattgggacacatcatggttgtgcaacttgaaaagggccctgaca Alignment from GeneWise GCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAGGC- ggtgggtaataaggtgggccccagaatacctaacttccttctgtccacagGCTGATGGAGCATGAAGATGACCCTGATGTGGATGAGCCTCTGGAGACTTCCCTCAGCCATGTTTTGGGGCGAAAACCCAAGCCCTCAGAGCAAGTTGGGCCTGAAGTGGgtaagtattgggacacatcatggttgtgcaacttgaaaagggccctgaca #### Unc93b1_ID214_5 --> 1 - 0 Original Alignment gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC------ tgagaaaaactgtcataggaggcaggcttcatacctttcttctcttgcaggATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACGTGGACCCCACACGCCTTTTCTCCTGGTTTTCCAGGCTAACTTTTATAGCTTCTTGCATTTCATAgtttgtgtgctacaggaagccttgtggggggtgggaggtggttatagcct Alignment from CESAR gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC------ tgagaaaaactgtcataggaggcaggcttcatacctttcttctcttgcaggATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACGTGGACCCCACACGCCTTTTCTCCTGGTTTTCCAGGCTAACTTTTATAGCTTCTTGCATTTCATAgtttgtgtgctacaggaagccttgtggggggtgggaggtggttatagcct Alignment from Spaln_aa2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC------ tgagaaaaactgtcataggaggcaggcttcatacctttcttctcttgcagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACGTGGACCCCACACGCCTTTTCTCCTGGTTTTCCAGGCTAACTTTTATAGCTTCTTGCATTTCATAgtttgtgtgctacaggaagccttgtggggggtgggaggtggttatagcct Alignment from Spaln_nt2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTT---- tgagaaaaactgtcataggaggcaggcttcatacctttcttctcttgcagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACGTGGACCCCACACGCCTTTTCTCCTGGTTTTCCAGGCTAACTTTTATAGCTTCTTGCATTTCATAgtttgtgtgctacaggaagccttgtggggggtgggaggtggttatagcct Alignment from Pairagon GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC---------- tgagaaaaactgtcataggaggcaggcttcatacctttcttctcttgcagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACGTGGACCCCACACGCCTTTTCTCCTGGTTTTCCAGGCTAACTTTTATAGCTTCTTGCATTTCATAGTTTgtgtgctacaggaagccttgtggggggtgggaggtggttatagcct Alignment from Exonerate_protein2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC tgagaaaaactgtcataggaggcaggcttcatacctttcttctcttgcagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACGTGGACCCCACACGCCTTTTCTCCTGGTTTTCCAGGCTAACTTTTATAGCTTCTTGCATttcatagtttgtgtgctacaggaagccttgtggggggtgggaggtggttatagcct Alignment from Exonerate_coding2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC tgagaaaaactgtcataggaggcaggcttcatacctttcttctcttgcagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACGTGGACCCCACACGCCTTTTCTCCTGGTTTTCCAGGCTAACTTTTATAGCTTCTTGCATttcatagtttgtgtgctacaggaagccttgtggggggtgggaggtggttatagcct Alignment from GeneWise GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC------ tgagaaaaactgtcataggaggcaggcttcatacctttcttctcttgcagGATGTCCCAGAAGTACTACGAATATTCACATTACAAGGAGCAGGATGACCAGGGACCTCAACAACGCCCACCACGTGGACCCCACACGCCTTTTCTCCTGGTTTTCCAGGCTAACTTTTATAGCTTCTTGCATTTCATAgtttgtgtgctacaggaagccttgtggggggtgggaggtggttatagcct #### Unc93b1_ID217_8 --> 0 - 0 Original Alignment GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tatctagaatgggatacctgttatagaactggcttttccctttcttacagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGTAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTACAGTGGATTTGAAGTGCTTTTTGCCTGTACGGGTTTTGCA---gtgagcagggcagtgctggtaataacacacaatacaggtagctcatatgg Alignment from CESAR GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tatctagaatgggatacctgttatagaactggcttttccctttcttacagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGTAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTACAGTGGATTTGAAGTGCTTTTTGCCTGTACGGGTTTTGCA---gtgagcagggcagtgctggtaataacacacaatacaggtagctcata Alignment from Spaln_aa2Genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCC tatctagaatgggatacctgttatagaactggcttttccctttcttacagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGTAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTACAGTGGATTTGAAGTGCTTTTTGCCTGTACGGGTTTTGCAgtgagcagggcagtgctggtaataacacacaatacaggtagctcatatgg Alignment from Spaln_nt2Genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCC tatctagaatgggatacctgttatagaactggcttttccctttcttacagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGTAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTACAGTGGATTTGAAGTGCTTTTTGCCTGTACGGGTTTTGCAgtgagcagggcagtgctggtaataacacacaatacaggtagctcatatgg Alignment from Pairagon GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCC tatctagaatgggatacctgttatagaactggcttttccctttcttacagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGTAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTACAGTGGATTTGAAGTGCTTTTTGCCTGTACGGGTTTTGCAgtgagcagggcagtgctggtaataacacacaatacaggtagctcatatgg Alignment from Exonerate_protein2genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tatctagaatgggatacctgttatagaactggcttttccctttcttacagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGTAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTACAGTGGATTTGAAGTGCTTTTTGCCTGTACGGGTTTTGCAGTGagcagggcagtgctggtaataacacacaatacaggtagctcatatgg Alignment from Exonerate_coding2genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tatctagaatgggatacctgttatagaactggcttttccctttcttacagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGTAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTACAGTGGATTTGAAGTGCTTTTTGCCTGTACGGGTTTTGCAGTGagcagggcagtgctggtaataacacacaatacaggtagctcatatgg Alignment from GeneWise GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--------- tatctagaatgggatacctgttatagaactggcttttccctttcttacagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATTGACCTGCGAAGTGTGGGCTGGGGTAACATCTTTCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGGCACCTGGTGCCATTCTTTATCTACAGTGGATTTGAAGTGCTTTTTGCCTGTACGGGTTTTGCAGTGAGCAGGGCAgtgctggtaataacacacaatacaggtagctcatatgg #### Vegfb_ID1955_5 --> 1 - 2 Original Alignment aCCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACag acaagtgtgagaagtttgactctgttgacacccacccacccaccttgcaga---AAAAAGAAGGAGACTACTGTTAGGCCCGACcggtgcctgttttccatccctcaatgcttgttagtgagagggagaccatttg Alignment from CESAR aCCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACag tacacaagtgtgagaagtttgactctgacacccacccacccaccttgcaga---AAAAAGAAGGAGACTACTGTTAGGCCCGACcggtgcctgttttccatccctcaatgcttgttagtgagagggagaccatttg Alignment from Spaln_aa2Genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG acaagtgtgagaagtttgactctgttgacacccacccacccaccttgcagA---AAAAAGAAGGAGACTACTGTTAGGCCCGACCGgtgcctgttttccatccctcaatgcttgttagtgagagggagaccatttg Alignment from Spaln_nt2Genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG acaagtgtgagaagtttgactctgttgacacccacccacccaccttgcag---AAAAAAGAAGGAGACTACTGTTAGGCCCGACCGgtgcctgttttccatccctcaatgcttgttagtgagagggagaccatttg Alignment from Pairagon ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG acaagtgtgagaagtttgactctgttgacacccacccacccaccttgcag---AAAAAAGAAGGAGACTACTGTTAGGCCCGACCGgtgcctgttttccatccctcaatgcttgttagtgagagggagaccatttg Alignment from Exonerate_protein2genome acaagtgtgagaagtttgactctgttgacacccacccacccaccttgcagaaaaaagaaggagactactgttaggcccgaccggtgcctgttttccatccctcaatgcttgttagtgagagggagaccatttg Alignment from Exonerate_coding2genome acaagtgtgagaagtttgactctgttgacacccacccacccaccttgcagaaaaaagaaggagactactgttaggcccgaccggtgcctgttttccatccctcaatgcttgttagtgagagggagaccatttg Alignment from GeneWise acaagtgtgagaagtttgactctgttgacacccacccacccaccttgcagaaaaaagaaggagactactgttaggcccgaccggtgcctgttttccatccctcaatgcttgttagtgagagggagaccatttg #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGC---ag ggacctgatactcagctcttatcatttttgttttatttgttttaatacagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCTATaggtaagcgccagttttggtatccaaggtctagcatggggtggggctgcttg Alignment from CESAR ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGC---ag ggacctgatactcagctcttatcatttttgttttatttgttttaatacagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCTATaggtaagcgccagttttggtatccaaggtctagcatggggtggggctgcttg Alignment from Spaln_aa2Genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGA-- ggacctgatactcagctcttatcatttttgttttatttgttttaatacagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCTATAGgtaagcgccagttttggtatccaaggtctagcatggggtggggctgcttg Alignment from Spaln_nt2Genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGC---AG ggacctgatactcagctcttatcatttttgttttatttgttttaatacagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCTATAGgtaagcgccagttttggtatccaaggtctagcatggggtggggctgcttg Alignment from Pairagon ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGC---AG ggacctgatactcagctcttatcatttttgttttatttgttttaatacagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCTATAGgtaagcgccagttttggtatccaaggtctagcatggggtggggctgcttg Alignment from Exonerate_protein2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGC---AG ggacctgatactcagctcttatcatttttgttttatttgttttaatacagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCTATAGgtaagcgccagttttggtatccaaggtctagcatggggtggggctgcttg Alignment from Exonerate_coding2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGC---AG ggacctgatactcagctcttatcatttttgttttatttgttttaatacagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCTATAGgtaagcgccagttttggtatccaaggtctagcatggggtggggctgcttg Alignment from GeneWise ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGA-- ggacctgatactcagctcttatcatttttgttttatttgttttaatacagATCCTCATGATCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCTATAGgtaagcgccagttttggtatccaaggtctagcatggggtggggctgcttg #### Vegfb_ID1957_3 --> 2 - 0 Original Alignment tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG tggaaaggtttcagaggctaaatttgccctgcgttcttgctgcttcccagtg------------GATGTCTATGCACGTGCTGCATGCCAGCCGAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCCGAATGCAAgtactcgatcaaatatgagtgcaagtacttagaagtacgggtctggtgta Alignment from CESAR tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gaaatgaaaaggtggaaaggtttcagccctgcgttcttgctgcttcccagtg------------GATGTCTATGCACGTGCTGCATGCCAGCCGAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCCGAATGCAAgtactcgatcaaatatgagtgcaagtacttagaagtacgggtctggtgta Alignment from Spaln_aa2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG tggaaaggtttcagaggctaaatttgccctgcgttcttgctgcttcccagTG------------GATGTCTATGCACGTGCTGCATGCCAGCCGAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCCGAATGCAAgtactcgatcaaatatgagtgcaagtacttagaagtacgggtctggtgta Alignment from Spaln_nt2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG tggaaaggtttcagaggctaaatttgccctgcgttcttgctgcttcccagTG------------GATGTCTATGCACGTGCTGCATGCCAGCCGAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCCGAATGCAAgtactcgatcaaatatgagtgcaagtacttagaagtacgggtctggtgta Alignment from Pairagon TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG tggaaaggtttcagaggctaaatttgccctgcgttcttgctgcttcccagTG------------GATGTCTATGCACGTGCTGCATGCCAGCCGAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCCGAATGCAAgtactcgatcaaatatgagtgcaagtacttagaagtacgggtctggtgta Alignment from Exonerate_protein2genome TAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG tggaaaggtttcagaggctaaatttgccctgcgttcttgctgcttcccagTGGATGTCTATGCACGTGCTGCATGCCAGCCGAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCCGAATGCAAgtactcgatcaaatatgagtgcaagtacttagaagtacgggtctggtgta Alignment from Exonerate_coding2genome TAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGT---GTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG tggaaaggtttcagaggctaaatttgccctgcgttcttgctgcttcccagTGGATGTCTATGCACGTGCTGCATGCCAGCCGAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCCGAATGCAAgtactcgatcaaatatgagtgcaagtacttagaagtacgggtctggtgta Alignment from GeneWise TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTG---ACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG tggaaaggtttcagaggctaaatttgccctgcgttcttgctgcttcccagTG------------GATGTCTATGCACGTGCTGCATGCCAGCCGAGGGAGGTGGTGGCACCACTGAGTATGAAACTTATGGGCAATATAGTCAAACAGCTGGTGCCCAGCTGTGTAGTAACTGTGCAGCGCTGTAGTGGCTGCTGCCCTGATGATGGCCTGGAATGTGTGGCTGCAGAGCAACATCAAGTCCGAATGCAAgtactcgatcaaatatgagtgcaagtacttagaagtacgggtctggtgta #### Vldlr_ID5810_9 --> 2 - 1 Original Alignment atATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aatgggatatagagaactaagaattgagttcaaatggtgggctcctatagatATTGATGAATGCCAAAACCCAGGGATCTGCGGTCAGATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGCGTGTGCAAGGCA---ggtaagacctagggaacctaccaatgctataaagctctgagtgtagcctac Alignment from CESAR atATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aatgggatatagagaactaagaattgagttcaaatggtgggctcctatagatATTGATGAATGCCAAAACCCAGGGATCTGCGGTCAGATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGCGTGTGCAAGGCA---ggtaagacctagggaacctaccaatgctataaagctctgagtgtagcctac Alignment from Spaln_aa2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCA- aatgggatatagagaactaagaattgagttcaaatggtgggctcctatagATATTGATGAATGCCAAAACCCAGGGATCTGCGGTCAGATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGCGTGTGCAAGGCAGgtaagacctagggaacctaccaatgctataaagctctgagtgtagcctac Alignment from Spaln_nt2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAG--------TAGGCAAA-------- aatgggatatagagaactaagaattgagttcaaatggtgggctcctatagATATTGATGAATGCCAAAACCCAGGGATCTGCGGTCAGATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGCGTGTGCAAGGCAGGTAAGACCTAGGGAACCTACCAATgctataaagctctgagtgtagcctac Alignment from Pairagon ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAG aatgggatatagagaactaagaattgagttcaaatggtgggctcctatagATATTGATGAATGCCAAAACCCAGGGATCTGCGGTCAGATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGCGTGTGCAAGGCAGgtaagacctagggaacctaccaatgctataaagctctgagtgtagcctac Alignment from Exonerate_protein2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aatgggatatagagaactaagaattgagttcaaatggtgggctcctatagATATTGATGAATGCCAAAACCCAGGGATCTGCGGTCAGATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGCGTGTGCAAGGCA---Ggtaagacctagggaacctaccaatgctataaagctctgagtgtagcctac Alignment from Exonerate_coding2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aatgggatatagagaactaagaattgagttcaaatggtgggctcctatagATATTGATGAATGCCAAAACCCAGGGATCTGCGGTCAGATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGCGTGTGCAAGGCA---Ggtaagacctagggaacctaccaatgctataaagctctgagtgtagcctac Alignment from GeneWise ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAG aatgggatatagagaactaagaattgagttcaaatggtgggctcctatagATATTGATGAATGCCAAAACCCAGGGATCTGCGGTCAGATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCATGGCTACCAAATGGAACTGGCCACTGGCGTGTGCAAGGCAGgtaagacctagggaacctaccaatgctataaagctctgagtgtagcctac #### Vldlr_ID5811_10 --> 2 - 2 Original Alignment gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag gcactttccaagcaagtaagttcttgaccaactcagtgttctttttctaggc---GAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAGTATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATCTCAGCCAGAAGGCTATCTTTaggtgagatacacctgcctccctgatgtctgggaagcgtgttaaacagtttg Alignment from CESAR gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atagcactttccaagcaagtaagttgaccaactcagtgttctttttctaggc---GAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAGTATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATCTCAGCCAGAAGGCTATCTTTaggtgagatacacctgcctccctgatgtctgggaagcgtgttaaacagtttg Alignment from Spaln_aa2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG gcactttccaagcaagtaagttcttgaccaactcagtgttctttttctagGCGAGCCAAGTCTG---ATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAGTATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATCTCAGCCAGAAGGCTATCTTTAGgtgagatacacctgcctccctgatgtctgggaagcgtgttaaacagtttg Alignment from Spaln_nt2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG gcactttccaagcaagtaagttcttgaccaactcagtgttctttttctagGC---GAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAGTATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATCTCAGCCAGAAGGCTATCTTTAGgtgagatacacctgcctccctgatgtctgggaagcgtgttaaacagtttg Alignment from Pairagon GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG gcactttccaagcaagtaagttcttgaccaactcagtgttctttttctagGC---GAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAGTATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATCTCAGCCAGAAGGCTATCTTTAGgtgagatacacctgcctccctgatgtctgggaagcgtgttaaacagtttg Alignment from Exonerate_protein2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG gcactttccaagcaagtaagttcttgaccaactcagtgttctttttctagGC---GAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAGTATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATCTCAGCCAGAAGGCTATCTTTAGgtgagatacacctgcctccctgatgtctgggaagcgtgttaaacagtttg Alignment from Exonerate_coding2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG gcactttccaagcaagtaagttcttgaccaactcagtgttctttttctagGC---GAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAGTATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATCTCAGCCAGAAGGCTATCTTTAGgtgagatacacctgcctccctgatgtctgggaagcgtgttaaacagtttg Alignment from GeneWise GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG gcactttccaagcaagtaagttcttgaccaactcagtgttctttttctagGC---GAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGAAAGATTGGCCTAGAGAGAAAGGAGTATATCCAACTTGTAGAGCAATTGAGGAACACAGTAGCTCTTGATGCAGACATTGCAGCTCAGAAGCTCTTTTGGGCTGATCTCAGCCAGAAGGCTATCTTTAGgtgagatacacctgcctccctgatgtctgggaagcgtgttaaacagtttg #### Vps13a_ID4057_66 --> 0 - 1 Original Alignment GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAg gccgtcctgtcataattctataataataccagatcctttttaccccacagGGTTTTGTAAGTGGTATTACAGGAATTGTTTCAAAGCCAATA---ggtaagaagggtcaccttgcctggtatatatttcacatgtgtcgttctcat Alignment from CESAR GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAg gccgtcctgtcataattctataataataccagatcctttttaccccacagGGTTTTGTAAGTGGTATTACAGGAATTGTTTCAAAGCCAATA---ggtaagaagggtcaccttgcctggtatatatttcacatgtgtcgttctcat Alignment from Spaln_aa2Genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATT- gccgtcctgtcataattctataataataccagatcctttttaccccacagGGTTTTGTAAGTGGTATTACAGGAATTGTTTCAAAGCCAATAGgtaagaagggtcaccttgcctggtatatatttcacatgtgtcgttctcat Alignment from Spaln_nt2Genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG gccgtcctgtcataattctataataataccagatcctttttaccccacagGGTTTTGTAAGTGGTATTACAGGAATTGTTTCAAAGCCAAT---AGgtaagaagggtcaccttgcctggtatatatttcacatgtgtcgttctcat Alignment from Pairagon GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG gccgtcctgtcataattctataataataccagatcctttttaccccacagGGTTTTGTAAGTGGTATTACAGGAATTGTTTCAAAGCCAAT---AGgtaagaagggtcaccttgcctggtatatatttcacatgtgtcgttctcat Alignment from Exonerate_protein2genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG gccgtcctgtcataattctataataataccagatcctttttaccccacagGGTTTTGTAAGTGGTATTACAGGAATTGTTTCAAAGCCAATA---Ggtaagaagggtcaccttgcctggtatatatttcacatgtgtcgttctcat Alignment from Exonerate_coding2genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG gccgtcctgtcataattctataataataccagatcctttttaccccacagGGTTTTGTAAGTGGTATTACAGGAATTGTTTCAAAGCCAATA---Ggtaagaagggtcaccttgcctggtatatatttcacatgtgtcgttctcat Alignment from GeneWise GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATT------AAAG gccgtcctgtcataattctataataataccagatcctttttaccccacagGGTTTTGTAAGTGGTATTACAGGAATTGTTTCAAAGCCAATAGGTAAGAAGGgtcaccttgcctggtatatatttcacatgtgtcgttctcat #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT cagtgatgaatgggccattgtctgaggctgctttgttttgctgatttaaggt---CTAGCTAGTGCCGCCTCCAAAATCACCAGTGCTATGGCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAGGGCATCACTCGAGGGGGAAAAGGTTTGGTCTCTgtaatctttccctgagtttgagattaaatagcaggactgtttcactcgga Alignment from CESAR gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT caccagtgatgaatgggccattgtcggctgctttgttttgctgatttaaggt---CTAGCTAGTGCCGCCTCCAAAATCACCAGTGCTATGGCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAGGGCATCACTCGAGGGGGAAAAGGTTTGGTCTCTgtaatctttccctgagtttgagattaaatagcaggactgtttcactcgga Alignment from Spaln_aa2Genome GGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT tgatgaatgggccattgtctgaggctgctttgttttgctgatttaa gGTCTAGCTAGTGCCGCCTCCAAAATCACCAGTGCTATGGCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAGGGCATCACTCGAGGGGGAAAAGGTTTGGTCTCTgtaatctttccctgagtttgagattaaatagcaggactgtttcactcgga Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT cagtgatgaatgggccattgtctgaggctgctttgttttgctgatttaagGT---CTAGCTAGTGCCGCCTCCAAAATCACCAGTGCTATGGCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAGGGCATCACTCGAGGGGGAAAAGGTTTGGTCTCTgtaatctttccctgagtttgagattaaatagcaggactgtttcactcgga Alignment from Pairagon -------------------------------------------------GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT CAGTGATGAATGGGCCATTGTCTGAGGCTGCTTTGTTTTGCTGATTTAAGGTCTAGCTAGTGCCGCCTCCAAAATCACCAGTGCTATGGCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAGGGCATCACTCGAGGGGGAAAAGGTTTGGTCTCTgtaatctttccctgagtttgagattaaatagcaggactgtttcactcgga Alignment from Exonerate_protein2genome GTTGGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT cagtgatgaatgggccattgtctgaggctgctttgttttgctgATTTAAGGTCTAGCTAGTGCCGCCTCCAAAATCACCAGTGCTATGGCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAGGGCATCACTCGAGGGGGAAAAGGTTTGGTCTCTgtaatctttccctgagtttgagattaaatagcaggactgtttcactcgga Alignment from Exonerate_coding2genome GTTGGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT cagtgatgaatgggccattgtctgaggctgctttgttttgctgATTTAAGGTCTAGCTAGTGCCGCCTCCAAAATCACCAGTGCTATGGCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAGGGCATCACTCGAGGGGGAAAAGGTTTGGTCTCTgtaatctttccctgagtttgagattaaatagcaggactgtttcactcgga Alignment from GeneWise GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT cagtgatgaatgggccattgtctgaggctgctttgttttgctgatttaagGT---CTAGCTAGTGCCGCCTCCAAAATCACCAGTGCTATGGCCAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAGGGCATCACTCGAGGGGGAAAAGGTTTGGTCTCTgtaatctttccctgagtttgagattaaatagcaggactgtttcactcgga #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAA---------------------------g gttgtctgtcagtaaatttcctgatgccttcttttgttttgctccaatagctTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCGGAAATCAAAATTGAATATGAAAACAGGGCCCTTGTGTTTGGGggtatccatatctattacctgtatttaggattaactaagttcaaaaggcag Alignment from CESAR ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gttgtctgtcagtaaatttcctgatgccttcttttgttttgctccaatagctTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCGGAAATCAAAATTGAAtatgaaaacagggcccttgtgtttgggggtatccatatctattacctgtatttaggattaactaagttcaaaaggcag Alignment from Spaln_aa2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gttgtctgtcagtaaatttcctgatgccttcttttgttttgctccaatagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCGGAAATCAAAATTGAATatgaaaacagggcccttgtgtttgggggtatccatatctattacctgtatttaggattaactaagttcaaaaggcag Alignment from Spaln_nt2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAA-----------G gttgtctgtcagtaaatttcctgatgccttcttttgttttgctccaatagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCGGAAATCAAAATTGAATATGAAAACAGGgcccttgtgtttgggggtatccatatctattacctgtatttaggattaactaagttcaaaaggcag Alignment from Pairagon CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGA------------------------------------------------------------------------------- gttgtctgtcagtaaatttcctgatgccttcttttgttttgctccaatagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCGGAAATCAAAATTGAATATGAAAACAGGGCCCTTGTGTTTGGGGGTATCCATATCTATTACCTGTATTTAGGATTAACTAAGTTCAAAAGGCAG Alignment from Exonerate_protein2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gttgtctgtcagtaaatttcctgatgccttcttttgttttgctccaatagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCGGAAATCAAAATTGAATatgaaaacagggcccttgtgtttgggggtatccatatctattacctgtatttaggattaactaagttcaaaaggcag Alignment from Exonerate_coding2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gttgtctgtcagtaaatttcctgatgccttcttttgttttgctccaatagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCGGAAATCAAAATTGAATatgaaaacagggcccttgtgtttgggggtatccatatctattacctgtatttaggattaactaagttcaaaaggcag Alignment from GeneWise CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAA------------------------GGG- gttgtctgtcagtaaatttcctgatgccttcttttgttttgctccaatagCTTTAAAGCTACCTATAAATGAAGACATTATTACATTGCAGCTCGTGGCAGAACTATCATGTTTAAAAATTCTCATCCAGGATCAGAAACAGAACGTATCGGAAATCAAAATTGAATATGAAAACAGGGCCCTTGTGTTTGGGGgtatccatatctattacctgtatttaggattaactaagttcaaaaggcag #### Vps13a_ID4114_9 --> 0 - 0 Original Alignment CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG--------- agatgcatggcaaaaccttgaaaacaagaacatgtctctcctttgttcagCTGACACGGTTAGACAACCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTCTATTTGAATGATTATGATGAATCATTGAAACTGCTGgtgaggacttatttacatgtttttgcttttatattgtagaatacttaact Alignment from CESAR CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCG---------CTG agatgcatggcaaaaccttgaaaacaagaacatgtctctcctttgttcagCTGACACGGTTAGACAACCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTCTATTTGAATGATTATGATGAATCATTGAAACTGCTGgtgaggacttatttacatgtttttgcttttatattgtagaatacttaact Alignment from Spaln_aa2Genome CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG--------- agatgcatggcaaaaccttgaaaacaagaacatgtctctcctttgttcagCTGACACGGTTAGACAACCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTCTATTTGAATGATTATGATGAATCATTGAAACTGCTGgtgaggacttatttacatgtttttgcttttatattgtagaatacttaact Alignment from Spaln_nt2Genome CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATC---------GCTG agatgcatggcaaaaccttgaaaacaagaacatgtctctcctttgttcagCTGACACGGTTAGACAACCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTCTATTTGAATGATTATGATGAATCATTGAAACTGCTGgtgaggacttatttacatgtttttgcttttatattgtagaatacttaact Alignment from Pairagon CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATC---------GCTG agatgcatggcaaaaccttgaaaacaagaacatgtctctcctttgttcagCTGACACGGTTAGACAACCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTCTATTTGAATGATTATGATGAATCATTGAAACTGCTGgtgaggacttatttacatgtttttgcttttatattgtagaatacttaact Alignment from Exonerate_protein2genome CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGAAAGCCTTG agatgcatggcaaaaccttgaaaacaagaacatgtctctcctttgttcagCTGACACGGTTAGACAACCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTCTATTTGAATGATTATGATGAATCATTGAAACTGCTGgtgaggacttatttacatgtttttgcttttatattgtagaatacttaact Alignment from Exonerate_coding2genome CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGAAAGCCTTG agatgcatggcaaaaccttgaaaacaagaacatgtctctcctttgttcagCTGACACGGTTAGACAACCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTCTATTTGAATGATTATGATGAATCATTGAAACTGCTGgtgaggacttatttacatgtttttgcttttatattgtagaatacttaact Alignment from GeneWise CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGAAA------ agatgcatggcaaaaccttgaaaacaagaacatgtctctcctttgttcagCTGACACGGTTAGACAACCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTCTATTTGAATGATTATGATGAATCATTGAAACTGCTGgtgaggacttatttacatgtttttgcttttatattgtagaatacttaact #### Vps13a_ID4119_4 --> 2 - 1 Original Alignment gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa cctactccctgcataaaaacctttctaataaccggccctcttccctacaggt------AAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATCTTTTTACTCATAGTGCCTTCTTCTagtaaggcacttaaagttgatcatatagcttattcccaggtgtaaagtttg Alignment from CESAR gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa tgagcccctactccctgcataaaaataataaccggccctcttccctacaggt------AAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATCTTTTTACTCATAGTGCCTTCTTCTagtaaggcacttaaagttgatcatatagcttattcccaggtgtaaagtttg Alignment from Spaln_aa2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cctactccctgcataaaaacctttctaataaccggccctcttccctacagGT------AAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATCTTTTTACTCATAGTGCCTTCTTCTAgtaaggcacttaaagttgatcatatagcttattcccaggtgtaaagtttg Alignment from Spaln_nt2Genome TCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cctactccctgcataaaaacctttctaataaccggccctcttccctacag--GTAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATCTTTTTACTCATAGTGCCTTCTTCTAgtaaggcacttaaagttgatcatatagcttattcccaggtgtaaagtttg Alignment from Pairagon GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cctactccctgcataaaaacctttctaataaccggccctcttccctacagG------TAAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATCTTTTTACTCATAGTGCCTTCTTCTAgtaaggcacttaaagttgatcatatagcttattcccaggtgtaaagtttg Alignment from Exonerate_protein2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cctactccctgcataaaaacctttctaataaccggccctcttccctacagGT------AAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATCTTTTTACTCATAGTGCCTTCTTCTAgtaaggcacttaaagttgatcatatagcttattcccaggtgtaaagtttg Alignment from Exonerate_coding2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cctactccctgcataaaaacctttctaataaccggccctcttccctacagGT------AAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATCTTTTTACTCATAGTGCCTTCTTCTAgtaaggcacttaaagttgatcatatagcttattcccaggtgtaaagtttg Alignment from GeneWise GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cctactccctgcataaaaacctttctaataaccggccctcttccctacagGT------AAACTTAAAATCCCATGGAAAAACCTTTATACTCAACCAGTTGGAGCAGTTTTGGAAGAAATCTTTTTACTCATAGTGCCTTCTTCTAgtaaggcacttaaagttgatcatatagcttattcccaggtgtaaagtttg #### Vps37c_ID2983_3 --> 2 - 0 Original Alignment agAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG--------- taattaaggcaatgtgtttcaaagattaaaagccctgtttgctcttgcagagAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGAGTCTTAAAgtgagttaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from CESAR agAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG--------- taattaaggcaatgtgtttcaaagattaaaagccctgtttgctcttgcagagAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGAGTCTTAAAgtgagttaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Spaln_aa2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAGGCCATG--- taattaaggcaatgtgtttcaaagattaaaagccctgtttgctcttgcagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGAGTCTTAAAgtgagttaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Spaln_nt2Genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG- taattaaggcaatgtgtttcaaagattaaaagccctgtttgctcttgcagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGAgtcttaaagtgagttaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Pairagon AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAG--------- taattaaggcaatgtgtttcaaagattaaaagccctgtttgctcttgcagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGAGTCTTAAAgtgagttaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Exonerate_protein2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAGGCCATG--- taattaaggcaatgtgtttcaaagattaaaagccctgtttgctcttgcagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGAGTCTTAAAgtgagttaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from Exonerate_coding2genome AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAGGCCATG--- taattaaggcaatgtgtttcaaagattaaaagccctgtttgctcttgcagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGAGTCTTAAAgtgagttaagcattactcctaatccattaaacagtggtgtctgaatgagg Alignment from GeneWise AGAAATTTTCCTCGGCACTGCAGCCTGGGACCTTGTTGGACCTTCTGCAGATCGAAGGCATGAAGATCGAGGAGGAGTCTGAGGCCATGGCT taattaaggcaatgtgtttcaaagattaaaagccctgtttgctcttgcagAGAAATTTTCCTCAGCACTGCAGCCTGGGACCTTATTGGACCTCCTGCAGATTGAAGGCATGAAGATTGAGGAGGAGTCAGAGAGTCTTAAAgtgagttaagcattactcctaatccattaaacagtggtgtctgaatgagg #### Vwce_ID2948_3 --> 2 - 1 Original Alignment ccCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCA---g tcctcatttatctgtgcaactaagatttcccattggccactctcttgcagccCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCACCTggtgagggttgtgagagagagcagacatgatcgtctaaatagtatggagat Alignment from CESAR ccCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCA---g tcctcatttatctgtgcaactaagatttcccattggccactctcttgcagccCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCACCTggtgagggttgtgagagagagcagacatgatcgtctaaatagtatggagat Alignment from Spaln_aa2Genome CTGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGAAG tcatttatctgtgcaactaagatttcccattggccactctcttgca gCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCACCTGgtgagggttgtgagagagagcagacatgatcgtctaaatagtatggagat Alignment from Spaln_nt2Genome TGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCA---G tcctcatttatctgtgcaactaagatttcccattggccactctcttgcag---CCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCACCTGgtgagggttgtgagagagagcagacatgatcgtctaaatagtatggagat Alignment from Pairagon TGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCA---G tcctcatttatctgtgcaactaagatttcccattggccactctcttgcag---CCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCACCTGgtgagggttgtgagagagagcagacatgatcgtctaaatagtatggagat Alignment from Exonerate_protein2genome CCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGAAG tcctcatttatctgtgcaactaagatttcccattggccactctcttgcagCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCACCTGgtgagggttgtgagagagagcagacatgatcgtctaaatagtatggagat Alignment from Exonerate_coding2genome CCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGAAG tcctcatttatctgtgcaactaagatttcccattggccactctcttgcagCCCTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCACCTGgtgagggttgtgagagagagcagacatgatcgtctaaatagtatggagat Alignment from GeneWise TGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGAAG tcctcatttatctgtgcaactaagatttcccattggccactctcttgcagCC---CTCTGTTCCTTTGGCTGTGGAAGTGGCATCTGCATAACTCCTAATGTTTGCTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCACCTGgtgagggttgtgagagagagcagacatgatcgtctaaatagtatggagat #### Vwce_ID2964_18 --> 2 - 0 Original Alignment acTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG ccaatgaacccagctgaatgctggtcatgatcacttgtttatttttatagacTGTAACTTTGAAGGGAGAAAGGTAGTGAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATC------gtgagtccttactggctagagaacctggggctatcagttgcataaaggtc Alignment from CESAR acTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG ccaatgaacccagctgaatgctggtcatgatcacttgtttatttttatagacTGTAACTTTGAAGGGAGAAAGGTAGTGAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATC------gtgagtccttactggctagagaacctggggctatcagttgcata Alignment from Spaln_aa2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATC ccaatgaacccagctgaatgctggtcatgatcacttgtttatttttatagACTGTAACTTTGAAGGGAGAAAGGTAGTGAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCgtgagtccttactggctagagaacctggggctatcagttgcataaaggtc Alignment from Spaln_nt2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATC ccaatgaacccagctgaatgctggtcatgatcacttgtttatttttatagACTGTAACTTTGAAGGGAGAAAGGTAGTGAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCgtgagtccttactggctagagaacctggggctatcagttgcataaaggtc Alignment from Pairagon ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATC ccaatgaacccagctgaatgctggtcatgatcacttgtttatttttatagACTGTAACTTTGAAGGGAGAAAGGTAGTGAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCgtgagtccttactggctagagaacctggggctatcagttgcataaaggtc Alignment from Exonerate_protein2genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATC ccaatgaacccagctgaatgctggtcatgatcacttgtttatttttatagACTGTAACTTTGAAGGGAGAAAGGTAGTGAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCgtgagtccttactggctagagaacctggggctatcagttgcataaaggtc Alignment from Exonerate_coding2genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATC ccaatgaacccagctgaatgctggtcatgatcacttgtttatttttatagACTGTAACTTTGAAGGGAGAAAGGTAGTGAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCgtgagtccttactggctagagaacctggggctatcagttgcataaaggtc Alignment from GeneWise ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATC ccaatgaacccagctgaatgctggtcatgatcacttgtttatttttatagACTGTAACTTTGAAGGGAGAAAGGTAGTGAATGGTCAGGTTTTCACCCTGGATGATGAGCCCTGTACCCGGTGCATCgtgagtccttactggctagagaacctggggctatcagttgcataaaggtc #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA cagttgctgtatttcatcatctcagtatttccctccacctccttttccagggGTAAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAG------gtaacttcagacaggctatggcttggccagagtcacaagagccgtagaat Alignment from CESAR ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA cagttgctgtatttcatcatctcagtatttccctccacctccttttccagggGTAAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAG------gtaacttcagacaggctatggcttggccagagtcacaagagccg Alignment from Spaln_aa2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACC cagttgctgtatttcatcatctcagtatttccctccacctccttttccagGGGTAAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAG gtaacttcagacaggctatggcttggccagagtcacaagagccgtag Alignment from Spaln_nt2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAG cagttgctgtatttcatcatctcagtatttccctccacctccttttccagGGGTAAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGgtaacttcagacaggctatggcttggccagagtcacaagagccgtagaat Alignment from Pairagon GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAG cagttgctgtatttcatcatctcagtatttccctccacctccttttccagGGGTAAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGgtaacttcagacaggctatggcttggccagagtcacaagagccgtagaat Alignment from Exonerate_protein2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAG cagttgctgtatttcatcatctcagtatttccctccacctccttttccagGGGTAAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGgtaacttcagacaggctatggcttggccagagtcacaagagccgtagaat Alignment from Exonerate_coding2genome GGGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAG cagttgctgtatttcatcatctcagtatttccctccacctccttttccaGGGGTAAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGgtaacttcagacaggctatggcttggccagagtcacaagagccgtagaat Alignment from GeneWise ----------------------------------------------------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA CAGTTGCTGTATTTCATCATCTCAGTATTTCCCTCCACCTCCTTTTCCAGGGGTAAACCTTCAGCGCAAACATACAGCTAATTTTGCTCCATTGGGACAACCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACTGGC------AGTGAGgtaacttcagacaggctatggcttggccagagtcacaagagccgtagaat #### Wdr96_ID10334_37 --> 0 - 1 Original Alignment ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg gtattatctctttgaacattgttaaggtaatgccacttctttctccccagAATCATAAGAAGAATATAGAAAACTGCAAAAAGCTACTCAGGAAGCTGGGCAAGTACAGCAATCAGAAGGCTGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTAATGAA---ggtgaggaccccatctttctgctacagtggcttcattctaacagtcccagt Alignment from CESAR ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg gtattatctctttgaacattgttaaggtaatgccacttctttctccccagAATCATAAGAAGAATATAGAAAACTGCAAAAAGCTACTCAGGAAGCTGGGCAAGTACAGCAATCAGAAGGCTGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTAATGAA---ggtgaggaccccatctttctgctacagtggcttcattctaacagtcccagt Alignment from Spaln_aa2Genome ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAG- gtattatctctttgaacattgttaaggtaatgccacttctttctccccagAATCATAAGAAGAATATAGAAAACTGCAAAAAGCTACTCAGGAAGCTGGGCAAGTACAGCAATCAGAAGGCTGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTAATGAAGgtgaggaccccatctttctgctacagtggcttcattctaacagtcccagt Alignment from Spaln_nt2Genome ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG gtattatctctttgaacattgttaaggtaatgccacttctttctccccagAATCATAAGAAGAATATAGAAAACTGCAAAAAGCTACTCAGGAAGCTGGGCAAGTACAGCAATCAGAAGGCTGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTAATGA---AGgtgaggaccccatctttctgctacagtggcttcattctaacagtcccagt Alignment from Pairagon ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG gtattatctctttgaacattgttaaggtaatgccacttctttctccccagAATCATAAGAAGAATATAGAAAACTGCAAAAAGCTACTCAGGAAGCTGGGCAAGTACAGCAATCAGAAGGCTGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTAATGA---AGgtgaggaccccatctttctgctacagtggcttcattctaacagtcccagt Alignment from Exonerate_protein2genome ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG gtattatctctttgaacattgttaaggtaatgccacttctttctccccagAATCATAAGAAGAATATAGAAAACTGCAAAAAGCTACTCAGGAAGCTGGGCAAGTACAGCAATCAGAAGGCTGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTAATGAA---Ggtgaggaccccatctttctgctacagtggcttcattctaacagtcccagt Alignment from Exonerate_coding2genome ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG gtattatctctttgaacattgttaaggtaatgccacttctttctccccagAATCATAAGAAGAATATAGAAAACTGCAAAAAGCTACTCAGGAAGCTGGGCAAGTACAGCAATCAGAAGGCTGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTAATGAA---Ggtgaggaccccatctttctgctacagtggcttcattctaacagtcccagt Alignment from GeneWise ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGA gtattatctctttgaacattgttaaggtaatgccacttctttctccccagAATCATAAGAAGAATATAGAAAACTGCAAAAAGCTACTCAGGAAGCTGGGCAAGTACAGCAATCAGAAGGCTGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAGCTTGTGGCTGTTTCAGAGAGACCAGACATTTGTAATGAAGgtgaggaccccatctttctgctacagtggcttcattctaacagtcccagt #### Yif1a_ID832_4 --> 0 - 1 Original Alignment ---AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa gaggcagattattttattgctcttattgctcttctctctcttttggtcagCCAAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCACGGAAAGATCTGAATACCCCTGACCTTTATATCCCAagtaagttggtgatgtacagtcaacctccacctctgtacttagcaacaatg Alignment from CESAR ---AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa gaggcagattattttattgctcttattgctcttctctctcttttggtcagCCAAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCACGGAAAGATCTGAATACCCCTGACCTTTATATCCCAagtaagttggtgatgtacagtcaacctccacctctgtacttagcaacaatg Alignment from Spaln_aa2Genome AACTGGAAA---ATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcagattattttattgctcttattgctcttctctctcttttggtcagCCAAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCACGGAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtaagttggtgatgtacagtcaacctccacctctgtacttagcaacaatg Alignment from Spaln_nt2Genome GAACTGGAAA--ATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcagattattttattgctcttattgctcttctctctcttttggtcagCCAAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCACGGAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtaagttggtgatgtacagtcaacctccacctctgtacttagcaacaatg Alignment from Pairagon ---AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcagattattttattgctcttattgctcttctctctcttttggtcagCCAAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCACGGAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtaagttggtgatgtacagtcaacctccacctctgtacttagcaacaatg Alignment from Exonerate_protein2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcagattattttattgctcttattgctcttctctctcttttggtcagccaAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCACGGAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtaagttggtgatgtacagtcaacctccacctctgtacttagcaacaatg Alignment from Exonerate_coding2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcagattattttattgctcttattgctcttctctctcttttggtcagccaAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCACGGAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtaagttggtgatgtacagtcaacctccacctctgtacttagcaacaatg Alignment from GeneWise ---AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA gaggcagattattttattgctcttattgctcttctctctcttttggtcagCCAAACTGGAAAATGCAGTATAGCCATGATGTGCCTCTACCCCCACGGAAAGATCTGAATACCCCTGACCTTTATATCCCAAgtaagttggtgatgtacagtcaacctccacctctgtacttagcaacaatg #### Yif1a_ID835_7 --> 1 - 0 Original Alignment gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctcattcactcacggcgtcttctgtgctagcttcttcctttttctacagg---------------CTTACAGCACTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGTACTTCATTgtgggagtggggtggccctagcctccctcctatgagtaatatgttttcaa Alignment from CESAR gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT tttgatcactgcacgcctcattcactgctagcttcttcctttttctacagg---------------CTTACAGCACTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGTACTTCATTgtgggagtggggtggccctagcctccctcctatgagtaatatgtccttct Alignment from Spaln_aa2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctcattcactcacggcgtcttctgtgctagcttcttcctttttctacagG---------------CTTACAGCACTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGTACTTCATTgtgggagtggggtggccctagcctccctcctatgagtaatatgttttcaa Alignment from Spaln_nt2Genome GATGATCCTTAGTGT----GCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctcattcactcacggcgtcttctgtgctagCTTCTTCCTTTTTCTACAGGCTTACAGCACTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGTACTTCATTgtgggagtggggtggccctagcctccctcctatgagtaatatgttttcaa Alignment from Pairagon GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctcattcactcacggcgtcttctgtgctagcttcttcctttttctacag---------------GCTTACAGCACTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGTACTTCATTgtgggagtggggtggccctagcctccctcctatgagtaatatgttttcaa Alignment from Exonerate_protein2genome GCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctcattcactcacggcgtcttctgtgctagcttcttcctttttctacagGCTTACAGCACTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGTACTTCATTgtgggagtggggtggccctagcctccctcctatgagtaatatgttttcaa Alignment from Exonerate_coding2genome GCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctcattcactcacggcgtcttctgtgctagcttcttcctttttctacagGCTTACAGCACTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGTACTTCATTgtgggagtggggtggccctagcctccctcctatgagtaatatgttttcaa Alignment from GeneWise GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctcattcactcacggcgtcttctgtgctagcttcttcctttttctacagG---------------CTTACAGCACTGCTCTTTGGCAGTGACAGGTATTATGTGGTCTTGGCCTGGGCATCATCTCCACTTATGTACTTCATTgtgggagtggggtggccctagcctccctcctatgagtaatatgttttcaa #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG gactactacttcctagtagcctttctcttaattatcttttgtttgattag---TTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCCCAGgtaagtctccatagtgtaagattcgcaggagacaatgcttgctgctatgc Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG cctgactactacttcctagtagccttcttaattatcttttgtttgattag---TTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCCCAGgtaagtctccatagtgtaagattcgcaggagacaatgcttgctgctatgc Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG gactactacttcctagtagcctttctcttaattatcttttgtttgattag---TTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCCCAGgtaagtctccatagtgtaagattcgcaggagacaatgcttgctgctatgc Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG gactactacttcctagtagcctttctcttaattatcttttgtttgattag---TTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCCCAGgtaagtctccatagtgtaagattcgcaggagacaatgcttgctgctatgc Alignment from Pairagon TTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG gactactacttcctagtagcctttctcttaattatcttttgtttgattagTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCCCAGgtaagtctccatagtgtaagattcgcaggagacaatgcttgctgctatgc Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG gactactacttcctagtagcctttctcttaattatcttttgtttgatTAGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCCCAGgtaagtctccatagtgtaagattcgcaggagacaatgcttgctgctatgc Alignment from Exonerate_coding2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG gactactacttcctagtagcctttctcttaattatcttttgtttgatTAGTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCCCAGgtaagtctccatagtgtaagattcgcaggagacaatgcttgctgctatgc Alignment from GeneWise TTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG gactactacttcctagtagcctttctcttaattatcttttgtttgattagTTTGTAGTGCTAGTGATTGTGCTGCCTGGTTCCATTGTAGCCATTGCTTATCTGTGTGTTCTGCCACTCATCCTCCGAACTTACTCAGTACCTCAGCTCTGCTGGCACTTCCTCTATAGTCACTGGAATCTCATACTCATTGTCTTCCATTATTATCAGGCCATTACCACTCCCCATGAATATCCACCCCAGgtaagtctccatagtgtaagattcgcaggagacaatgcttgctgctatgc #### Zdhhc16_ID8350_7 --> 1 - 0 Original Alignment tTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- tcaatcacagccccgagagtttcaggttgaataattttaaatctttgcagtTCTGTGGCCCTGGCTCTGGGTGCCCTTACCATGTGGCATGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGGCgtacgcgttggaggcactgcatgattgtgtggagaaatggtcacaggtat Alignment from CESAR tTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- tcaatcacagccccgagagtttcaggttgaataattttaaatctttgcagtTCTGTGGCCCTGGCTCTGGGTGCCCTTACCATGTGGCATGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGGCgtacgcgttggaggcactgcatgattgtgtggagaaatggtcacaggtat Alignment from Spaln_aa2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- tcaatcacagccccgagagtttcaggttgaataattttaaatctttgcagTTCTGTGGCCCTGGCTCTGGGTGCCCTTACCATGTGGCATGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGGCgtacgcgttggaggcactgcatgattgtgtggagaaatggtcacaggtat Alignment from Spaln_nt2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- tcaatcacagccccgagagtttcaggttgaataattttaaatctttgcagTTCTGTGGCCCTGGCTCTGGGTGCCCTTACCATGTGGCATGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGGCgtacgcgttggaggcactgcatgattgtgtggagaaatggtcacaggtat Alignment from Pairagon TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- tcaatcacagccccgagagtttcaggttgaataattttaaatctttgcagTTCTGTGGCCCTGGCTCTGGGTGCCCTTACCATGTGGCATGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGGCgtacgcgttggaggcactgcatgattgtgtggagaaatggtcacaggtat Alignment from Exonerate_protein2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG tcaatcacagccccgagagtttcaggttgaataattttaaatctttgcagTTCTGTGGCCCTGGCTCTGGGTGCCCTTACCATGTGGCATGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGggcgtacgcgttggaggcactgcatgattgtgtggagaaatggtcacaggtat Alignment from Exonerate_coding2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG tcaatcacagccccgagagtttcaggttgaataattttaaatctttgcagTTCTGTGGCCCTGGCTCTGGGTGCCCTTACCATGTGGCATGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGggcgtacgcgttggaggcactgcatgattgtgtggagaaatggtcacaggtat Alignment from GeneWise TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGTG tcaatcacagccccgagagtttcaggttgaataattttaaatctttgcagTTCTGTGGCCCTGGCTCTGGGTGCCCTTACCATGTGGCATGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGGCgtacgcgttggaggcactgcatgattgtgtggagaaatggtcacaggtat #### Zdhhc6_ID11622_7 --> 0 - 0 Original Alignment ATAGAACAGTTGAAGCAAAAGGCAGACAAGAGAGTCAGAAGT ctcagttacttgttgtctctcttgctgttgccaatgacttggaatttcag------CAGCCAAAGCAAAAGGTGGACAAGAAAGTCAGAACTgtaggttgtctattagcagtgaatgctgagttctacatgaacgtctgttg Alignment from CESAR ATAGAACAGTTGAAGCAAAAGGCAGACAAGAGAGTCAGAAGT aggctgctcagttacttgttgtctctgttgccaatgacttggaatttcag------CAGCCAAAGCAAAAGGTGGACAAGAAAGTCAGAACTgtaggttgtctattagcagtgaatgctgagttctacatgaacgtctgttg Alignment from Spaln_aa2Genome TTGAAGCAAAAGGCAGACAAGAGAGTCAGAAGT ctcagttacttgttgtctctcttgctgttgccaatgacttggaatttcagcagCCAAAGCAAAAGGTGGACAAGAAAGTCAGAACTgtaggttgtctattagcagtgaatgctgagttctacatgaacgtctgttg Alignment from Spaln_nt2Genome CAGTTGAAGCAAAAGGCAGACAAGAGAGTCAGAAGT ctcagttacttgttgtctctcttgctgttgccaatgacttggaatttcagCAGCCAAAGCAAAAGGTGGACAAGAAAGTCAGAACTgtaggttgtctattagcagtgaatgctgagttctacatgaacgtctgttg Alignment from Pairagon ATAGAACAGTTGAAGCAAAAGGCAGACAAGAGAGTCAGAAGT ctcagttacttgttgtctctcttgctgttgccaatgacttggaatttcag------CAGCCAAAGCAAAAGGTGGACAAGAAAGTCAGAACTgtaggttgtctattagcagtgaatgctgagttctacatgaacgtctgttg Alignment from Exonerate_protein2genome CAGTTGAAGCAAAAGGCAGACAAGAGAGTCAGAAGT ctcagttacttgttgtctctcttgctgttgccaatgacttggaatttcagCAGCCAAAGCAAAAGGTGGACAAGAAAGTCAGAACTgtaggttgtctattagcagtgaatgctgagttctacatgaacgtctgttg Alignment from Exonerate_coding2genome ctcagttacttgttgtctctcttgctgttgccaatgacttggaatttcagcagccaaagcaaaaggtggacaagaaagtcagaactgtaggttgtctattagcagtgaatgctgagttctacatgaacgtctgttg Alignment from GeneWise ctcagttacttgttgtctctcttgctgttgccaatgacttggaatttcagcagccaaagcaaaaggtggacaagaaagtcagaactgtaggttgtctattagcagtgaatgctgagttctacatgaacgtctgttg #### Zfand5_ID4879_2 --> 2 - 2 Original Alignment ggACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAag agacaaataagcaacttttccccgcaaacttccttactctgagttctcaggg---------------AACAGTCCCACCTCAGATGCTGCATCAGCACAGAAACCGGATGCTGGCTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAaggtgagtaggaccatttcttgcattttctagactaagctatcttcactatg Alignment from CESAR ggACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAag ttttctttaagggagagacaaataaaaacttccttactctgagttctcaggg---------------AACAGTCCCACCTCAGATGCTGCATCAGCACAGAAACCGGATGCTGGCTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAaggtgagtaggaccatttcttgcattttctagactaagctatcttcactatg Alignment from Spaln_aa2Genome CCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agacaaataagcaacttttccccgcaaacttccttactctgagttctcagGGAACAGTCCCACCTCAGATGCTGCATCAGCACAGAAACCGGATGCTGGCTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtgagtaggaccatttcttgcattttctagactaagctatcttcactatg Alignment from Spaln_nt2Genome CCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agacaaataagcaacttttccccgcaaacttccttactctgagttctcagGGAACAGTCCCACCTCAGATGCTGCATCAGCACAGAAACCGGATGCTGGCTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtgagtaggaccatttcttgcattttctagactaagctatcttcactatg Alignment from Pairagon GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agacaaataagcaacttttccccgcaaacttccttactctgagttctcagGG---------------AACAGTCCCACCTCAGATGCTGCATCAGCACAGAAACCGGATGCTGGCTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtgagtaggaccatttcttgcattttctagactaagctatcttcactatg Alignment from Exonerate_protein2genome AGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agacaaataagcaacttttccccgcaaacttccttactctgagTTCTCAGGGAACAGTCCCACCTCAGATGCTGCATCAGCACAGAAACCGGATGCTGGCTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtgagtaggaccatttcttgcattttctagactaagctatcttcactatg Alignment from Exonerate_coding2genome AGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agacaaataagcaacttttccccgcaaacttccttactctgagTTCTCAGGGAACAGTCCCACCTCAGATGCTGCATCAGCACAGAAACCGGATGCTGGCTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtgagtaggaccatttcttgcattttctagactaagctatcttcactatg Alignment from GeneWise GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agacaaataagcaacttttccccgcaaacttccttactctgagttctcagGG---------------AACAGTCCCACCTCAGATGCTGCATCAGCACAGAAACCGGATGCTGGCTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtgagtaggaccatttcttgcattttctagactaagctatcttcactatg #### Zfp91_ID3462_4 --> 2 - 2 Original Alignment atGTTCCAGAAGAACATCAGTCTCCCGGTGGCATTag gaggttgagtttttggctgtgtaagaccacactttaaatttatcttacagat---CCTGAAGAACAACAAACACCTGGTGGCATTaggtgagaggctgctccctatacacctaatgtttcatattgcagaatgtttc Alignment from CESAR atGTTCCAGAAGAACATCAGTCTCCCGGTGGCATTag ctagaggttgagtttttggctgtgtaccacactttaaatttatcttacagat---CCTGAAGAACAACAAACACCTGGTGGCATTaggtgagaggctgctccctatacacctaatgtttcatattgcagaatgtttc Alignment from Spaln_aa2Genome TTCCAGAAGAACATCAGTCTCCCGGTGGCATTAG gaggttgagtttttggctgtgtaagaccacactttaaatttatcttacagATCCTGAAGAACAACAAACACCTGGTGGCATTAGgtgagaggctgctccctatacacctaatgtttcatattgcagaatgtttc Alignment from Spaln_nt2Genome -TCCAGAAGAACATCAGTCTCCCGGTGGCATTAG gaggttgagtttttggctgtgtaagaccacactttaaatttatcttacagATCCTGAAGAACAACAAACACCTGGTGGCATTAGgtgagaggctgctccctatacacctaatgtttcatattgcagaatgtttc Alignment from Pairagon ATGTTCCAGAAGAACATCAGTCTCCCGGTGGCATTAG gaggttgagtttttggctgtgtaagaccacactttaaatttatcttacagA---TCCTGAAGAACAACAAACACCTGGTGGCATTAGgtgagaggctgctccctatacacctaatgtttcatattgcagaatgtttc Alignment from Exonerate_protein2genome ATGTTCCAGAAGAACATCAGTCTCCCGGTGGCATTAG gaggttgagtttttggctgtgtaagaccacactttaaatttatcttacagAT---CCTGAAGAACAACAAACACCTGGTGGCATTAGgtgagaggctgctccctatacacctaatgtttcatattgcagaatgtttc Alignment from Exonerate_coding2genome gaggttgagtttttggctgtgtaagaccacactttaaatttatcttacagatcctgaagaacaacaaacacctggtggcattaggtgagaggctgctccctatacacctaatgtttcatattgcagaatgtttc Alignment from GeneWise TTCCAGAAGAACATCAGTCTCCCGGTGGCATTAG gaggttgagtttttggctgtgtaagaccacactttaaatttatcttacagATCCTGAAGAACAACAAACACCTGGTGGCATTAGgtgagaggctgctccctatacacctaatgtttcatattgcagaatgtttc #### Zp1_ID3061_11 --> 2 - 1 Original Alignment ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg gaccctttgacctccacgggtcatcttaagtttctctccttttcccccagagCGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTAGAGATTGTAAGCTCTCCAGGTGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCT---ggtaaaaagtgtgtgtggatgttctttactggggggaggtaagtgcagctc Alignment from CESAR ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg gaccctttgacctccacgggtcatcttaagtttctctccttttcccccagagCGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTAGAGATTGTAAGCTCTCCAGGTGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCT---ggtaaaaagtgtgtgtggatgttctttactggggggaggtaagtgcagctc Alignment from Spaln_aa2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gaccctttgacctccacgggtcatcttaagtttctctccttttcccccagAGCGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTAGAGATTGTAAGCTCTCCAGGTGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCT---Ggtaaaaagtgtgtgtggatgttctttactggggggaggtaagtgcagctc Alignment from Spaln_nt2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gaccctttgacctccacgggtcatcttaagtttctctccttttcccccagAGCGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTAGAGATTGTAAGCTCTCCAGGTGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGC---CTGgtaaaaagtgtgtgtggatgttctttactggggggaggtaagtgcagctc Alignment from Pairagon GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gaccctttgacctccacgggtcatcttaagtttctctccttttcccccagAGCGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTAGAGATTGTAAGCTCTCCAGGTGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCT---Ggtaaaaagtgtgtgtggatgttctttactggggggaggtaagtgcagctc Alignment from Exonerate_protein2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gaccctttgacctccacgggtcatcttaagtttctctccttttcccccagAGCGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTAGAGATTGTAAGCTCTCCAGGTGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTGGTAaaaagtgtgtgtggatgttctttactggggggaggtaagtgcagctc Alignment from Exonerate_coding2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG gaccctttgacctccacgggtcatcttaagtttctctccttttcccccagAGCGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTAGAGATTGTAAGCTCTCCAGGTGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTGGTAaaaagtgtgtgtggatgttctttactggggggaggtaagtgcagctc Alignment from GeneWise GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCT gaccctttgacctccacgggtcatcttaagtttctctccttttcccccagAGCGTCGACGGTTCCCAGGACACCACAACATCACTCTCCGAGCCCTAGAGATTGTAAGCTCTCCAGGTGCAGTGGACTTTGAGGATGCAGCCAAACTTAAGCCTGgtaaaaagtgtgtgtggatgttctttactggggggaggtaagtgcagctc #### Zp1_ID3065_7 --> 1 - 1 Original Alignment gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg tggtgcaaacagaatgactgaaaaaaacattctgcctgtactgtccacaggCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCCCCTGCCCCTGTAACACAA------------------------------------ggtaaacggctctagcttgtgtggtaccttccaacccacggcaaagcaaca Alignment from CESAR gCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGg tggtgcaaacagaatgactgaaaaaaacattctgcctgtactgtccacaggCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCCCCTGCCCCTGTAACACAA------------------------------------ggtaaacggctctagcttgtgtggtaccttccaacccacggcaaagcaaca Alignment from Spaln_aa2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACC tggtgcaaacagaatgactgaaaaaaacattctgcctgtactgtccacagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCCCCTGCCCCTGTAACACAAGGTAAACGgctctagcttgtgtggtaccttccaacccacggcaaagcaaca Alignment from Spaln_nt2Genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACG---G tggtgcaaacagaatgactgaaaaaaacattctgcctgtactgtccacagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCCCCTGCCCCTGTAACACAAGGTAAACGGCTCTAGCTTGTGTGGTACCTTCCAACCCACGgcaaagcaaca Alignment from Pairagon GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAATCTGGACCCCTGAGGCTGGAGCTGAGGATTGCCACGG tggtgcaaacagaatgactgaaaaaaacattctgcctgtactgtccacagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCCCCTGCCCCTGTAACACAA------------------------------------Ggtaaacggctctagcttgtgtggtaccttccaacccacggcaaagcaaca Alignment from Exonerate_protein2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAAT tggtgcaaacagaatgactgaaaaaaacattctgcctgtactgtccacagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCCCCTGCCCCTGTAACACAAGgtaaacggctctagcttgtgtggtaccttccaacccacggcaaagcaaca Alignment from Exonerate_coding2genome GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAAT tggtgcaaacagaatgactgaaaaaaacattctgcctgtactgtccacagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCCCCTGCCCCTGTAACACAAGgtaaacggctctagcttgtgtggtaccttccaacccacggcaaagcaaca Alignment from GeneWise GCTTCATGTTCGCTGCATCTTCAATGCTAGCGATTTCCTGCCCATCCAGGCATCTATCTTCTCACCCCAACCACCTGCCCCTGTGACTCAA- ----- tggtgcaaacagaatgactgaaaaaaacattctgcctgtactgtccacagGCTTCATGTTCGCTGCATCTTCAATACTAGTGATTTCCTCCCCCTACAGGCATCTATCTCTCCGCCCCACCCCCCTGCCCCTGTAACACAAGgtaaacggctctagcttgtgtggtaccttccaacccacggcaaagCAACA #### Zp1_ID3066_6 --> 0 - 2 Original Alignment ---GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCcg gataggatactcccatcccttcctggaagttgacttttttttattaatagTTAGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAAGGTTCTATCACACATGACAGTGCCTTCcggtgagtactaactagattgcaagcctgtttgtagactggttgacaagatg Alignment from CESAR ---GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCcg gataggatactcccatcccttcctggaagttgacttttttttattaatagTTAGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAAGGTTCTATCACACATGACAGTGCCTTCcggtgagtactaactagattgcaagcctgtttgtagactggttgacaagatg Alignment from Spaln_aa2Genome GTGGTCGGCGAACAACTC---ATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCCG gataggatactcccatcccttcctggaagttgacttttttttattaatagTTAGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAAGGTTCTATCACACATGACAGTGCCTTCCGgtgagtactaactagattgcaagcctgtttgtagactggttgacaagatg Alignment from Spaln_nt2Genome ---GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCCG gataggatactcccatcccttcctggaagttgacttttttttattaatagTTAGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAAGGTTCTATCACACATGACAGTGCCTTCCGgtgagtactaactagattgcaagcctgtttgtagactggttgacaagatg Alignment from Pairagon ---GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCCG gataggatactcccatcccttcctggaagttgacttttttttattaatagTTAGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAAGGTTCTATCACACATGACAGTGCCTTCCGgtgagtactaactagattgcaagcctgtttgtagactggttgacaagatg Alignment from Exonerate_protein2genome ---GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCCG gataggatactcccatcccttcctggaagttgacttttttttattaatagTTAGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAAGGTTCTATCACACATGACAGTGCCTTCCGgtgagtactaactagattgcaagcctgtttgtagactggttgacaagatg Alignment from Exonerate_coding2genome ---GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCCG gataggatactcccatcccttcctggaagttgacttttttttattaatagTTAGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAAGGTTCTATCACACATGACAGTGCCTTCCGgtgagtactaactagattgcaagcctgtttgtagactggttgacaagatg Alignment from GeneWise ---GTGGTCGGCGAACAACTCATCTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAGGGTTCCATCACTCGGGACAGTGCCTTCCG gataggatactcccatcccttcctggaagttgacttttttttattaatagTTAGTGGTTGGCAAACAACTCATTTATGAGAACCAGCTGGTGTCTGACATTGATGTCCAAAAGGGGCCACAAGGTTCTATCACACATGACAGTGCCTTCCGgtgagtactaactagattgcaagcctgtttgtagactggttgacaagatg ####