#### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ggcaggcccttactcgtctggcaccagatgtaatttttttcttgtttcag---ACCAAGCTGAGCACAGCTTTCATCCGGAAAGAACCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCTATTGCTACAggtgcggggggttctgagtttccctagtctgatgagtcttcccaaagacgc Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg tgaggcaggcccttactcgtctggcagatgtaatttttttcttgtttcag---ACCAAGCTGAGCACAGCTTTCATCCGGAAAGAACCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCTATTGCTACAggtgcggggggttctgagtttccctagtctgatgagtcttcccaaagacgc Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ggcaggcccttactcgtctggcaccagatgtaatttttttcttgtttcag---ACCAAGCTGAGCACAGCTTTCATCCGGAAAGAACCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCTATTGCTACAGgtgcggggggttctgagtttccctagtctgatgagtcttcccaaagacgc Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ggcaggcccttactcgtctggcaccagatgtaatttttttcttgtttcag---ACCAAGCTGAGCACAGCTTTCATCCGGAAAGAACCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCTATTGCTACAGgtgcggggggttctgagtttccctagtctgatgagtcttcccaaagacgc Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ggcaggcccttactcgtctggcaccagatgtaatttttttcttgtttcag---ACCAAGCTGAGCACAGCTTTCATCCGGAAAGAACCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCTATTGCTACAGgtgcggggggttctgagtttccctagtctgatgagtcttcccaaagacgc Alignment from Exonerate_protein2genome ACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ggcaggcccttactcgtctggcaccagatgtaatttttttcttgtttcagACCAAGCTGAGCACAGCTTTCATCCGGAAAGAACCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCTATTGCTACAGgtgcggggggttctgagtttccctagtctgatgagtcttcccaaagacgc Alignment from Exonerate_coding2genome ACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ggcaggcccttactcgtctggcaccagatgtaatttttttcttgtttcagACCAAGCTGAGCACAGCTTTCATCCGGAAAGAACCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCTATTGCTACAGgtgcggggggttctgagtttccctagtctgatgagtcttcccaaagacgc Alignment from GeneWise ---AAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ggcaggcccttactcgtctggcaccagatgtaatttttttcttgtttcagACCAAGCTGAGCACAGCTTTCATCCGGAAAGAACCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTGGTGGGGGCTATTGCTACAGgtgcggggggttctgagtttccctagtctgatgagtcttcccaaagacgc #### 1700055N04Rik_ID227_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG catcagtctcccctcactaaacggctcataatgttattttctatatacagga---------GTGTTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCTCAGTATCTGGACCAGgtagtgatggcttatctgtcaagcagcctggcacacccacacccctgtgc Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gtgtgcaagcatcagtctcccctcatcataatgttattttctatatacagga---------GTGTTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCTCAGTATCTGGACCAGgtagtgatggcttatctgtcaagcagcctggcacacccacacccctgtgc Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG catcagtctcccctcactaaacggctcataatgttattttctatatacagGA---------GTGTTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCTCAGTATCTGGACCAGgtagtgatggcttatctgtcaagcagcctggcacacccacacccctgtgc Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG catcagtctcccctcactaaacggctcataatgttattttctatatacagGA---------GTGTTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCTCAGTATCTGGACCAGgtagtgatggcttatctgtcaagcagcctggcacacccacacccctgtgc Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG catcagtctcccctcactaaacggctcataatgttattttctatatacagGA---------GTGTTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCTCAGTATCTGGACCAGgtagtgatggcttatctgtcaagcagcctggcacacccacacccctgtgc Alignment from Exonerate_protein2genome ACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG catcagtctcccctcactaaacggctcataatgttattttctatATACAGGAGTGTTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCTCAGTATCTGGACCAGgtagtgatggcttatctgtcaagcagcctggcacacccacacccctgtgc Alignment from Exonerate_coding2genome ACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG catcagtctcccctcactaaacggctcataatgttattttctatATACAGGAGTGTTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCTCAGTATCTGGACCAGgtagtgatggcttatctgtcaagcagcctggcacacccacacccctgtgc Alignment from GeneWise GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG catcagtctcccctcactaaacggctcataatgttattttctatatacagGA---------GTGTTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCTCAGTATCTGGACCAGgtagtgatggcttatctgtcaagcagcctggcacacccacacccctgtgc #### 1810009A15Rik_ID2454_3 --> 1 - 1 Original Alignment gTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAg ttggtcgacagagtgagaccttttcttatttttcttatccatccttgtaggTCCAGTGCCCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGAAAACTCTTGCAGCAGATCCGACTCGCC------------------------ggtgagtcttgggcacagaggctacgtgggggctacatttcccacccgcac Alignment from CESAR gTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAg ttggtcgacagagtgagaccttttcttatttttcttatccatccttgtaggTCCAGTGCCCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGAAAACTCTTGCAGCAGATCCGACTCGCC------------------------ggtgagtcttgggcacagaggctacgtgggggctacatttcccacccgcac Alignment from Spaln_aa2Genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ttggtcgacagagtgagaccttttcttatttttcttatccatccttgtagGTCCAGTGCCCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGAAAACTCTTGCAGCAGATCCGACTCGCCGGTGAGTCTTGGGCACAGAGGCTACgtgggggctacatttcccacccgcac Alignment from Spaln_nt2Genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ttggtcgacagagtgagaccttttcttatttttcttatccatccttgtagGTCCAGTGCCCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGAAAACTCTTGCAGCAGATCCGACTCGCCGGTGAGTCTTGGGCACAGAGGCTACgtgggggctacatttcccacccgcac Alignment from Pairagon GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ttggtcgacagagtgagaccttttcttatttttcttatccatccttgtagGTCCAGTGCCCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGAAAACTCTTGCAGCAGATCCGACTCGCC------------------------Ggtgagtcttgggcacagaggctacgtgggggctacatttcccacccgcac Alignment from Exonerate_protein2genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ttggtcgacagagtgagaccttttcttatttttcttatccatccttgtagGTCCAGTGCCCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGAAAACTCTTGCAGCAGATCCGACTCGCCGGTGAGTCTTGGGCACAGAGGCTACgtgggggctacatttcccacccgcac Alignment from Exonerate_coding2genome GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ttggtcgacagagtgagaccttttcttatttttcttatccatccttgtagGTCCAGTGCCCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGAAAACTCTTGCAGCAGATCCGACTCGCCGGTGAGTCTTGGGCACAGAGGCTACgtgggggctacatttcccacccgcac Alignment from GeneWise GTCCAGTGCTCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGGAAACTCTTGCAGCAGATCCGACTTGCCCAGAAAGAAAAAGCAGCCATGGAAG ttggtcgacagagtgagaccttttcttatttttcttatccatccttgtagGTCCAGTGCCCGTGCCAACATCACGCTGTCTGGGAAGAAGCGCAGAAAACTCTTGCAGCAGATCCGACTCGCCGGTGAGTCTTGGGCACAGAGGCTACgtgggggctacatttcccacccgcac #### A630007B06Rik_ID12189_8 --> 0 - 0 Original Alignment ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggatactgctagagcccctgtgtctctactgtttgctttatgcctgtagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACA---gtatgtaagaattcctcactcctaactcaggtggggtgaacactgttagt Alignment from CESAR ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggatactgctagagcccctgtgtctctactgtttgctttatgcctgtagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACA---gtatgtaagaattcctcactcctaactcaggtggggtgaacactgtt Alignment from Spaln_aa2Genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACG aggatactgctagagcccctgtgtctctactgtttgctttatgcctgtagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACAgtatgtaagaattcctcactcctaactcaggtggggtgaacactgttagt Alignment from Spaln_nt2Genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAAC-GAAG aggatactgctagagcccctgtgtctctactgtttgctttatgcctgtagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACAGTATgtaagaattcctcactcctaactcaggtggggtgaacactgttagt Alignment from Pairagon ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACG aggatactgctagagcccctgtgtctctactgtttgctttatgcctgtagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACAgtatgtaagaattcctcactcctaactcaggtggggtgaacactgttagt Alignment from Exonerate_protein2genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggatactgctagagcccctgtgtctctactgtttgctttatgcctgtagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACA---gtatgtaagaattcctcactcctaactcaggtggggtgaacactgtt Alignment from Exonerate_coding2genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG aggatactgctagagcccctgtgtctctactgtttgctttatgcctgtagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACA---gtatgtaagaattcctcactcctaactcaggtggggtgaacactgtt Alignment from GeneWise ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACG aggatactgctagagcccctgtgtctctactgtttgctttatgcctgtagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACAgtatgtaagaattcctcactcctaactcaggtggggtgaacactgttagt #### Abcc2_ID8821_5 --> 0 - 0 Original Alignment GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactccattttgtttgtttgtttgcaacattcttgttcccttttagGATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACA---gtaggaggtctctacatccattcattgcttatgttattataactggagga Alignment from CESAR GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactccattttgtttgtttgtttgcaacattcttgttcccttttagGATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACA---gtaggaggtctctacatccattcattgcttatgttattataactgga Alignment from Spaln_aa2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACA aagagactccattttgtttgtttgtttgcaacattcttgttcccttttagGATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACAgtaggaggtctctacatccattcattgcttatgttattataactggagga Alignment from Spaln_nt2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACAC----AC aagagactccattttgtttgtttgtttgcaacattcttgttcccttttagGATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACAGTAGGAGgtctctacatccattcattgcttatgttattataactggagga Alignment from Pairagon GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACA aagagactccattttgtttgtttgtttgcaacattcttgttcccttttagGATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACAgtaggaggtctctacatccattcattgcttatgttattataactggagga Alignment from Exonerate_protein2genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactccattttgtttgtttgtttgcaacattcttgttcccttttagGATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACAGTAggaggtctctacatccattcattgcttatgttattataactggagga Alignment from Exonerate_coding2genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactccattttgtttgtttgtttgcaacattcttgttcccttttagGATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACAGTAggaggtctctacatccattcattgcttatgttattataactggagga Alignment from GeneWise GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACA aagagactccattttgtttgtttgtttgcaacattcttgttcccttttagGATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACAgtaggaggtctctacatccattcattgcttatgttattataactggagga #### Actn3_ID690_20 --> 0 - 0 Original Alignment GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCAGGAGACAAG ctctctcctttagcatctatgcacacaggttttctcccttctccacccagGGAGAAGTGGAGTTTGCTCGTATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAAAGACTGCTGAGACAGACACAGCTGAACAAGTGGTGGCCTCCTTCAAAATCCTGGCA---------gtgagtctcgcatgagccacttgtgggaggggctgtaatgctaggacatg Alignment from CESAR GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCAGGAGACAAG ctctctcctttagcatctatgcacacaggttttctcccttctccacccagGGAGAAGTGGAGTTTGCTCGTATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAAAGACTGCTGAGACAGACACAGCTGAACAAGTGGTGGCCTCCTTCAAAATCCTGGCA---------gtgagtctcgcatgagccacttgtgggaggggctgtaatgc Alignment from Spaln_aa2Genome GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCAGGAGACAAG ctctctcctttagcatctatgcacacaggttttctcccttctccacccagGGAGAAGTGGAGTTTGCTCGTATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAAAGACTGCTGAGACAGACACAGCTGAACAAGTGGTGGCCTCCTTCAAAATCCTGGCAGTGAGTCTCgcatgagccacttgtgggaggggctgtaatgctaggacatg Alignment from Spaln_nt2Genome GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCA ctctctcctttagcatctatgcacacaggttttctcccttctccacccagGGAGAAGTGGAGTTTGCTCGTATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAAAGACTGCTGAGACAGACACAGCTGAACAAGTGGTGGCCTCCTTCAAAATCCTGGCAgtgagtctcgcatgagccacttgtgggaggggctgtaatgctaggacatg Alignment from Pairagon GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCA ctctctcctttagcatctatgcacacaggttttctcccttctccacccagGGAGAAGTGGAGTTTGCTCGTATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAAAGACTGCTGAGACAGACACAGCTGAACAAGTGGTGGCCTCCTTCAAAATCCTGGCAgtgagtctcgcatgagccacttgtgggaggggctgtaatgctaggacatg Alignment from Exonerate_protein2genome GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCAGGAGACAAG ctctctcctttagcatctatgcacacaggttttctcccttctccacccagGGAGAAGTGGAGTTTGCTCGTATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAAAGACTGCTGAGACAGACACAGCTGAACAAGTGGTGGCCTCCTTCAAAATCCTGGCAGTGAGTCTCgcatgagccacttgtgggaggggctgtaatgctaggacatg Alignment from Exonerate_coding2genome GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCAGGAGACAAG ctctctcctttagcatctatgcacacaggttttctcccttctccacccagGGAGAAGTGGAGTTTGCTCGTATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAAAGACTGCTGAGACAGACACAGCTGAACAAGTGGTGGCCTCCTTCAAAATCCTGGCAGTGAGTCTCgcatgagccacttgtgggaggggctgtaatgctaggacatg Alignment from GeneWise GGAGAAGTGGAGTTTGCTCGAATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCCGAGACAGACACGGCTGAACAAGTGGTAGCCTCCTTCAAAATCCTGGCAGGAGACAAG ctctctcctttagcatctatgcacacaggttttctcccttctccacccagGGAGAAGTGGAGTTTGCTCGTATCATGACCATGGTGGACCCCAATGCAGCTGGGGTTGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAAAGACTGCTGAGACAGACACAGCTGAACAAGTGGTGGCCTCCTTCAAAATCCTG---------GCAgtgagtctcgcatgagccacttgtgggaggggctgtaatgctaggacatg #### Actn3_ID694_16 --> 0 - 0 Original Alignment GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG catcttatcaccctcacagttggctattttttattgtcctttcttcacagGTCAGGAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAATGAGAGGCTGCGGCGACAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGA---------gtatgcgctacaacgctggggagagctgggccaacacagggattggcatg Alignment from CESAR GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG catcttatcaccctcacagttggctattttttattgtcctttcttcacagGTCAGGAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAATGAGAGGCTGCGGCGACAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGA---------gtatgcgctacaacgctggggagagctgggccaacacaggg Alignment from Spaln_aa2Genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG catcttatcaccctcacagttggctattttttattgtcctttcttcacagGTCAGGAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAATGAGAGGCTGCGGCGACAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGA---GTATGCgctacaacgctggggagagctgggccaacacagggattggc Alignment from Spaln_nt2Genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGA AAAGTG catcttatcaccctcacagttggctattttttattgtcctttcttcacagGTCAGGAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAATGAGAGGCTGCGGCGACAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAgtatgcgctacaacgctggggagagctgggccaacacagGGATTGgcatg Alignment from Pairagon GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGA catcttatcaccctcacagttggctattttttattgtcctttcttcacagGTCAGGAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAATGAGAGGCTGCGGCGACAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAgtatgcgctacaacgctggggagagctgggccaacacagggattggcatg Alignment from Exonerate_protein2genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGG catcttatcaccctcacagttggctattttttattgtcctttcttcacagGTCAGGAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAATGAGAGGCTGCGGCGACAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGgagtatgcgctacaacgctggggagagctgggccaacacagggattggcatg Alignment from Exonerate_coding2genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGG catcttatcaccctcacagttggctattttttattgtcctttcttcacagGTCAGGAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAATGAGAGGCTGCGGCGACAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGgagtatgcgctacaacgctggggagagctgggccaacacagggattggcatg Alignment from GeneWise GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGA catcttatcaccctcacagttggctattttttattgtcctttcttcacagGTCAGGAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAATGAGAGGCTGCGGCGACAGTTTACAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAgtatgcgctacaacgctggggagagctgggccaacacagggattggcatg #### Actn3_ID696_14 --> 0 - 0 Original Alignment ---------AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aaggccagcaggctgggaaggatctgatagcttccgccatggctggccagAGTCGCTATAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGCCGGGCAGCCCCCTTCAATAACTGGTTGGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGgtaagggaaggtattagggggaagcttgggatgcactgtatgtgatgaaa Alignment from CESAR ---------AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aaggccagcaggctgggaaggatctgatagcttccgccatggctggccagAGTCGCTATAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGCCGGGCAGCCCCCTTCAATAACTGGTTGGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGgtaagggaaggtattagggggaagcttgggatgcactgtatgtgatgaaa Alignment from Spaln_aa2Genome AGGATGGAG---------AAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aaggccagcaggctgggaaggatctgatagcttccgccatggctggccagAGTCGCTATAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGCCGGGCAGCCCCCTTCAATAACTGGTTGGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGgtaagggaaggtattagggggaagcttgggatgcactgtatgtgatgaaa Alignment from Spaln_nt2Genome GGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aaggccagcaggctgggaaggatctgatagcttccgccatggctggccagagtcgctatagGATGGAG-AAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGCCGGGCAGCCCCCTTCAATAACTGGTTGGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGgtaagggaaggtattagggggaagcttgggatgcactgtatgtgatgaaa Alignment from Pairagon AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aaggccagcaggctgggaaggatctgatagcttccgccatggctggccagagtcgctatag--GATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGCCGGGCAGCCCCCTTCAATAACTGGTTGGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGgtaagggaaggtattagggggaagcttgggatgcactgtatgtgatgaaa Alignment from Exonerate_protein2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aaggccagcaggctgggaaggatctgatagcttccgccatggctggccagagtcgctatAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGCCGGGCAGCCCCCTTCAATAACTGGTTGGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGgtaagggaaggtattagggggaagcttgggatgcactgtatgtgatgaaa Alignment from Exonerate_coding2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aaggccagcaggctgggaaggatctgatagcttccgccatggctggccagagtcgctatAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGCCGGGCAGCCCCCTTCAATAACTGGTTGGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGgtaagggaaggtattagggggaagcttgggatgcactgtatgtgatgaaa Alignment from GeneWise ---------AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aaggccagcaggctgggaaggatctgatagcttccgccatggctggccagAGTCGCTATAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGCCGGGCAGCCCCCTTCAATAACTGGTTGGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGgtaagggaaggtattagggggaagcttgggatgcactgtatgtgatgaaa #### Actn3_ID697_13 --> 1 - 0 Original Alignment tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG ccaccagggtctaactctacactctacagactcccacactgtctctgcagtGAGCTTGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGAC---------gtaagcaggatctcttccagggccagggagccaagggcaaggagataagg Alignment from CESAR tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG ccaccagggtctaactctacactctacagactcccacactgtctctgcagtGAGCTTGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGAC---------gtaagcaggatctcttccagggccagggagccaagggcaag Alignment from Spaln_aa2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGAC ccaccagggtctaactctacactctacagactcccacactgtctctgcagTGAGCTTGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGACgtaagcaggatctcttccagggccagggagccaagggcaaggagataagg Alignment from Spaln_nt2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGAC ccaccagggtctaactctacactctacagactcccacactgtctctgcagTGAGCTTGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGACgtaagcaggatctcttccagggccagggagccaagggcaaggagataagg Alignment from Pairagon TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCA----------------------------------------------- ccaccagggtctaactctacactctacagactcccacactgtctctgcagTGAGCTTGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGACGTAAGCAGGATCTCTTCCAGGGCCAGGGAGCCAAGGGCAAGGAGATAAGG Alignment from Exonerate_protein2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG ccaccagggtctaactctacactctacagactcccacactgtctctgcagTGAGCTTGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGACGTAAGCAGGatctcttccagggccagggagccaagggcaaggagataagg Alignment from Exonerate_coding2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG ccaccagggtctaactctacactctacagactcccacactgtctctgcagTGAGCTTGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGACGTAAGCAGGatctcttccagggccagggagccaagggcaaggagataagg Alignment from GeneWise TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGAC ccaccagggtctaactctacactctacagactcccacactgtctctgcagTGAGCTTGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGACgtaagcaggatctcttccagggccagggagccaagggcaaggagataagg #### Actn3_ID704_6 --> 1 - 0 Original Alignment cTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ggacatgcctgcagtgaaccagggcctgtcttgctttccctcccttgcagcTGGAAGGATGGCCTGGCCCTTTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAG---------gttggctgcaggtagaacgcctctacaactcacagacccaactctatagt Alignment from CESAR cTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ggacatgcctgcagtgaaccagggcctgtcttgctttccctcccttgcagcTGGAAGGATGGCCTGGCCCTTTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCC---------AAGgttggctgcaggtagaacgcctctacaactcacagacccaactctatagt Alignment from Spaln_aa2Genome CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAG ggacatgcctgcagtgaaccagggcctgtcttgctttccctcccttgcagCTGGAAGGATGGCCTGGCCCTTTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGgttggctgcaggtagaacgcctctacaactcacagacccaactctatagt Alignment from Spaln_nt2Genome CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCA--AG ggacatgcctgcagtgaaccagggcctgtcttgctttccctcccttgcagCTGGAAGGATGGCCTGGCCCTTTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGGTTGGCTGCAGgtagaacgcctctacaactcacagacccaactctatagt Alignment from Pairagon CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGC-------------------------------------------- ggacatgcctgcagtgaaccagggcctgtcttgctttccctcccttgcagCTGGAAGGATGGCCTGGCCCTTTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGGTTGGCTGCAGGTAGAACGCCTCTACAACTCACAGACCCAACTCTATAGT Alignment from Exonerate_protein2genome CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAG ggacatgcctgcagtgaaccagggcctgtcttgctttccctcccttgcagCTGGAAGGATGGCCTGGCCCTTTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGgttggctgcaggtagaacgcctctacaactcacagacccaactctatagt Alignment from Exonerate_coding2genome CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAG ggacatgcctgcagtgaaccagggcctgtcttgctttccctcccttgcagCTGGAAGGATGGCCTGGCCCTTTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGgttggctgcaggtagaacgcctctacaactcacagacccaactctatagt Alignment from GeneWise CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ggacatgcctgcagtgaaccagggcctgtcttgctttccctcccttgcagCTGGAAGGATGGCCTGGCCCTTTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCC---------AAGgttggctgcaggtagaacgcctctacaactcacagacccaactctatagt #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg ctggacacaaaggtcttcaggccaatgatatttttcttcttttgttttagaa---GTTGACGGGAACCTGAAAATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAggtaggttgaggaggagtacatagagagggccagctcagactctttcccac Alignment from CESAR aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg ggtctggacacaaaggtcttcaggctgatatttttcttcttttgttttagaa---GTTGACGGGAACCTGAAAATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAggtaggttgaggaggagtacatagagagggccagctcagactctttcccac Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG ctggacacaaaggtcttcaggccaatgatatttttcttcttttgttttagAA---GTTGACGGGAACCTGAAAATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgaggaggagtacatagagagggccagctcagactctttcccac Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG ctggacacaaaggtcttcaggccaatgatatttttcttcttttgttttagAA---GTTGACGGGAACCTGAAAATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgaggaggagtacatagagagggccagctcagactctttcccac Alignment from Pairagon AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG ctggacacaaaggtcttcaggccaatgatatttttcttcttttgttttagAA---GTTGACGGGAACCTGAAAATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgaggaggagtacatagagagggccagctcagactctttcccac Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG ctggacacaaaggtcttcaggccaatgatatttttcttcttttgttttagAA---GTTGACGGGAACCTGAAAATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgaggaggagtacatagagagggccagctcagactctttcccac Alignment from Exonerate_coding2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG ctggacacaaaggtcttcaggccaatgatatttttcttcttttgttttagAA---GTTGACGGGAACCTGAAAATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgaggaggagtacatagagagggccagctcagactctttcccac Alignment from GeneWise TTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG ctggacacaaaggtcttcaggccaatgatatttttcttcttttgttttagAAGTTGACGGGAACCTGAAAATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAGgtaggttgaggaggagtacatagagagggccagctcagactctttcccac #### Actr1a_ID9871_9 --> 2 - 0 Original Alignment gt---------TTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTAGCTCCAAAAGACGTGAAGATCAGG catctcttttctactctctcttttttttgtgtgtgtgtgttttttaataggtAATGAACCTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTTGCTCCGAAAGATGTGAAGATCAGGgtcaggtggactggaggttgggcaggtaccggggctccagagtcatggat Alignment from CESAR gt---------TTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTAGCTCCAAAAGACGTGAAGATCAGG catctcttttctactctctcttttttttgtgtgtgtgtgttttttaataggtAATGAACCTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTTGCTCCGAAAGATGTGAAGATCAGGgtcaggtggactggaggttgggcaggtaccggggctccagagtcatggat Alignment from Spaln_aa2Genome GTTTTGGAGAC---------AGGCTACTGAGTGAAGTGAAGAAACTAGCTCCAAAAGACGTGAAGATCAGG catctcttttctactctctcttttttttgtgtgtgtgtgttttttaatagGTAATGAACCTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTTGCTCCGAAAGATGTGAAGATCAGGgtcaggtggactggaggttgggcaggtaccggggctccagagtcatggat Alignment from Spaln_nt2Genome GTTTTGGAGACAGGC---------TACTGAGTGAAGTGAAGAAACTAGCTCCAAAAGACGTGAAGATCAGG catctcttttctactctctcttttttttgtgtgtgtgtgttttttaatagGTAATGAACCTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTTGCTCCGAAAGATGTGAAGATCAGGgtcaggtggactggaggttgggcaggtaccggggctccagagtcatggat Alignment from Pairagon ------------------------------------------------------------TTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTAGCTCCAAAAGACGTGAAGATCAGG CATCTCTTTTCTACTCTCTCTTTTTTTTGTGTGTGTGTGTTTTTTAATAGGTAATGAACCTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTTGCTCCGAAAGATGTGAAGATCAGGgtcaggtggactggaggttgggcaggtaccggggctccagagtcatggat Alignment from Exonerate_protein2genome GTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTAGCTCCAAAAGACGTGAAGATCAGG catctcttttctactctctcttttttttgtgtgtgtgtgttttttaataggtaatgaacCTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTTGCTCCGAAAGATGTGAAGATCAGGgtcaggtggactggaggttgggcaggtaccggggctccagagtcatggat Alignment from Exonerate_coding2genome GTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTAGCTCCAAAAGACGTGAAGATCAGG catctcttttctactctctcttttttttgtgtgtgtgtgttttttaataggtaatgaacCTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTTGCTCCGAAAGATGTGAAGATCAGGgtcaggtggactggaggttgggcaggtaccggggctccagagtcatggat Alignment from GeneWise --------GGTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTAGCTCCAAAAGACGTGAAGATCAGG catctcttttctactctctcttttttttgtgtgtgtgtgttttttaatagGTAATGAACCTTTTGGAGACAGGCTACTGAGTGAAGTGAAGAAACTTGCTCCGAAAGATGTGAAGATCAGGgtcaggtggactggaggttgggcaggtaccggggctccagagtcatggat #### Acy3_ID250_4 --> 2 - 1 Original Alignment gt---------CTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAg atggctaagcccaggctgtttgcctgtccagggcgtcctccttcttgcaggtCCCTGGAGGCTGGAGATGGGCCCACAGCCTCAGGGTGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATTGAGCTCTTCAACCAAggtaataccctccagtagcttgtcaggaaaactgatctgaggaaagggttg Alignment from CESAR gt---------CTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAg atggctaagcccaggctgtttgcctgtccagggcgtcctccttcttgcaggtCCCTGGAGGCTGGAGATGGGCCCACAGCCTCAGGGTGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATTGAGCTCTTCAACCAAggtaataccctccagtagcttgtcaggaaaactgatctgaggaaagggttg Alignment from Spaln_aa2Genome GTCTGGAGATG---------GGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atggctaagcccaggctgtttgcctgtccagggcgtcctccttcttgcagGTCCCTGGAGGCTGGAGATGGGCCCACAGCCTCAGGGTGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATTGAGCTCTTCAACCAAGgtaataccctccagtagcttgtcaggaaaactgatctgaggaaagggttg Alignment from Spaln_nt2Genome GTCTGGAGATG---------GGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atggctaagcccaggctgtttgcctgtccagggcgtcctccttcttgcagGTCCCTGGAGGCTGGAGATGGGCCCACAGCCTCAGGGTGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATTGAGCTCTTCAACCAAGgtaataccctccagtagcttgtcaggaaaactgatctgaggaaagggttg Alignment from Pairagon GT---------CTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atggctaagcccaggctgtttgcctgtccagggcgtcctccttcttgcagGTCCCTGGAGGCTGGAGATGGGCCCACAGCCTCAGGGTGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATTGAGCTCTTCAACCAAGgtaataccctccagtagcttgtcaggaaaactgatctgaggaaagggttg Alignment from Exonerate_protein2genome GT---------CTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atggctaagcccaggctgtttgcctgtccagggcgtcctccttcttgcagGTCCCTGGAGGCTGGAGATGGGCCCACAGCCTCAGGGTGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATTGAGCTCTTCAACCAAGgtaataccctccagtagcttgtcaggaaaactgatctgaggaaagggttg Alignment from Exonerate_coding2genome GT---------CTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atggctaagcccaggctgtttgcctgtccagggcgtcctccttcttgcagGTCCCTGGAGGCTGGAGATGGGCCCACAGCCTCAGGGTGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATTGAGCTCTTCAACCAAGgtaataccctccagtagcttgtcaggaaaactgatctgaggaaagggttg Alignment from GeneWise -CTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atggctaagcccaggctgtttgcctgtccagggcgtcctccttcttgcaggtccctggagGCTGGAGATGGGCCCACAGCCTCAGGGTGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATTGAGCTCTTCAACCAAGgtaataccctccagtagcttgtcaggaaaactgatctgaggaaagggttg #### Add3_ID11215_7 --> 0 - 0 Original Alignment ---GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcacatggttgtttaaagcttgtctgtaattttctttctagCTTGTGCTTGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagacccagccataccctgttttctattgctctacatttgccactagt Alignment from CESAR ---GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcacatggttgtttaaagcttgtctgtaattttctttctagCTTGTGCTTGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagacccagccataccctgttttctattgctctacatttgccactagt Alignment from Spaln_aa2Genome GTGCTCGTCCTCAGG---AACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcacatggttgtttaaagcttgtctgtaattttctttctagCTTGTGCTTGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagacccagccataccctgttttctattgctctacatttgccactagt Alignment from Spaln_nt2Genome GTGCTCGTCCTCA---GGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcacatggttgtttaaagcttgtctgtaattttctttctagCTTGTGCTTGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagacccagccataccctgttttctattgctctacatttgccactagt Alignment from Pairagon ---GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcacatggttgtttaaagcttgtctgtaattttctttctagCTTGTGCTTGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagacccagccataccctgttttctattgctctacatttgccactagt Alignment from Exonerate_protein2genome GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcacatggttgtttaaagcttgtctgtaattttctttctagcttGTGCTTGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagacccagccataccctgttttctattgctctacatttgccactagt Alignment from Exonerate_coding2genome GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcacatggttgtttaaagcttgtctgtaattttctttctagcttGTGCTTGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagacccagccataccctgttttctattgctctacatttgccactagt Alignment from GeneWise ---GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcacatggttgtttaaagcttgtctgtaattttctttctagCTTGTGCTTGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagacccagccataccctgttttctattgctctacatttgccactagt #### Adrbk1_ID478_17 --> 0 - 1 Original Alignment TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGg tcatgcacttgggcctccctcaatatccgctcatgtgggttgtgttccag---------------------------CGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCATGAGGAGggtgagaacttaccacctgctttacactgcaggagtgaaaagcaggttctg Alignment from CESAR TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGg ctggcacccttgatctcctcatatatccgctcatgtgggttgtgttccag---------------------------CGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCATGAGGAGggtgagaacttaccacctgctttacactgcaggagtgaaaagcaggttctg Alignment from Spaln_aa2Genome CGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG tcatgcacttgggcctccctcaatatccgctcatgtgggttgtgttccagCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCATGAGGAGGgtgagaacttaccacctgctttacactgcaggagtgaaaagcaggttctg Alignment from Spaln_nt2Genome CGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG tcatgcacttgggcctccctcaatatccgctcatgtgggttgtgttccagCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCATGAGGAGGgtgagaacttaccacctgctttacactgcaggagtgaaaagcaggttctg Alignment from Pairagon TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG tcatgcacttgggcctccctcaatatccgctcatgtgggttgtgttccag---------------------------CGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCATGAGGAGGgtgagaacttaccacctgctttacactgcaggagtgaaaagcaggttctg Alignment from Exonerate_protein2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG tcatgcacttgggcctccctcaaTATCCGCTCATGTGGGTTGTGTTCCAGCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCATGAGGAGGgtgagaacttaccacctgctttacactgcaggagtgaaaagcaggttctg Alignment from Exonerate_coding2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG tcatgcacttgggcctccctcaaTATCCGCTCATGTGGGTTGTGTTCCAGCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCATGAGGAGGgtgagaacttaccacctgctttacactgcaggagtgaaaagcaggttctg Alignment from GeneWise CGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAGG tcatgcacttgggcctccctcaatatccgctcatgtgggttgtgttccagCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCATGAGGAGGgtgagaacttaccacctgctttacactgcaggagtgaaaagcaggttctg #### Adrbk1_ID480_15 --> 1 - 0 Original Alignment gGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaatgatccagagtccaggttcctggtcccgccccccgcaggGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCATTCTCTGGATTGGCAGATGGTCTTCTTACAG---gtaagtagtatctaaccctccagggtgagatgtgaatcccctctgctgcc Alignment from CESAR gGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaatgatccagagtccaggttcctggtcccgccccccgcaggGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCATTCTCTGGATTGGCAGATGGTCTTCTTACAG---gtaagtagtatctaaccctccagggtgagatgtgaatcccctctgct Alignment from Spaln_aa2Genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAG actcaacttgaatgatccagagtccaggttcctggtcccgccccccgcagGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCATTCTCTGGATTGGCAGATGGTCTTCTTACAGgtaagtagtatctaaccctccagggtgagatgtgaatcccctctgctgcc Alignment from Spaln_nt2Genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGA-AG actcaacttgaatgatccagagtccaggttcctggtcccgccccccgcagGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCATTCTCTGGATTGGCAGATGGTCTTCTTACAGGTAAgtagtatctaaccctccagggtgagatgtgaatcccctctgctgcc Alignment from Pairagon GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAG actcaacttgaatgatccagagtccaggttcctggtcccgccccccgcagGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCATTCTCTGGATTGGCAGATGGTCTTCTTACAGgtaagtagtatctaaccctccagggtgagatgtgaatcccctctgctgcc Alignment from Exonerate_protein2genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaatgatccagagtccaggttcctggtcccgccccccgcagGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCATTCTCTGGATTGGCAGATGGTCTTCTTACAG---gtaagtagtatctaaccctccagggtgagatgtgaatcccctctgct Alignment from Exonerate_coding2genome GGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaatgatccagagtccaggttcctggtcccgccccccgcagGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCATTCTCTGGATTGGCAGATGGTCTTCTTACAG---gtaagtagtatctaaccctccagggtgagatgtgaatcccctctgct Alignment from GeneWise -GCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaatgatccagagtccaggttcctggtcccgccccccgcagGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCATTCTCTGGATTGGCAGATGGTCTTCTTA---CAGgtaagtagtatctaaccctccagggtgagatgtgaatcccctctgctgcc #### Adrbk1_ID482_13 --> 1 - 0 Original Alignment aCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG--- ccttgcccatcagtctagctccccatcctttctgactctgtgtttcttagaCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACATTGACAATGAACgtgagtataacggtggcagtgaggcctatgtggtgccagaagcatgaatc Alignment from CESAR aCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG--- ccttgcccatcagtctagctccccatcctttctgactctgtgtttcttagaCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACATTGACAATGAACgtgagtataacggtggcagtgaggcctatgtggtgccagaagcatgaatc Alignment from Spaln_aa2Genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATGGCTGTAG ccttgcccatcagtctagctccccatcctttctgactctgtgtttcttagACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACATTGACAATGAACGTGAgtataacggtggcagtgaggcctatgtggtgccagaagcatgaatc Alignment from Spaln_nt2Genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG--- ccttgcccatcagtctagctccccatcctttctgactctgtgtttcttagACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACATTGACAATGAACgtgagtataacggtggcagtgaggcctatgtggtgccagaagcatgaatc Alignment from Pairagon ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG--- ccttgcccatcagtctagctccccatcctttctgactctgtgtttcttagACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACATTGACAATGAACgtgagtataacggtggcagtgaggcctatgtggtgccagaagcatgaatc Alignment from Exonerate_protein2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG--- ccttgcccatcagtctagctccccatcctttctgactctgtgtttcttagACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACATTGACAATGAACgtgagtataacggtggcagtgaggcctatgtggtgccagaagcatgaatc Alignment from Exonerate_coding2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG--- ccttgcccatcagtctagctccccatcctttctgactctgtgtttcttagACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACATTGACAATGAACgtgagtataacggtggcagtgaggcctatgtggtgccagaagcatgaatc Alignment from GeneWise ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATGGCT ccttgcccatcagtctagctccccatcctttctgactctgtgtttcttagACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACATTGACAATGAACgtgagtataacggtggcagtgaggcctatgtggtgccagaagcatgaatc #### Adrbk1_ID487_8 --> 1 - 0 Original Alignment g------TACGCCATGAAGTGTCTG---GACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG ctctcccttgcagggctcgctgatgctggtcttcctcttgttttttgtaggGAGAAGTACGCCATGAAGTGTCTGGACAACAAGAAACGCATCAAGATGAAACAGGGAGAGACCCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTCAGCACTGGGgtacgctgagtggccaagtgggcctccacattgacctctgaccccagcct Alignment from CESAR g------TACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG ctctcccttgcagggctcgctgatgctggtcttcctcttgttttttgtaggGAGAAGTACGCCATGAAGTGTCTGGACAACAAGAAACGCATCAAGATGAAACAGGGAGAGACCCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTCAGCACTGGGgtacgctgagtggccaagtgggcctccacattgacctctgaccccagcct Alignment from Spaln_aa2Genome G-------TACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG ctctcccttgcagggctcgctgatgctggtcttcctcttgttttttgtagGGAGAAGTACGCCATGAAGTGTCTGGACAACAAGAAACGCATCAAGATGAAACAGGGAGAGACCCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTCAGCACTGGGgtacgctgagtggccaagtgggcctccacattgacctctgaccccagcct Alignment from Spaln_nt2Genome GTACGCCATGA------AGTGTCTGG---ACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG ctctcccttgcagggctcgctgatgctggtcttcctcttgttttttgtagGGAGAAGTACGCCATGAAGTGTCTGGACAACAAGAAACGCATCAAGATGAAACAGGGAGAGACCCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTCAGCACTGGGgtacgctgagtggccaagtgggcctccacattgacctctgaccccagcct Alignment from Pairagon ------GTACGCCATGAAGTGTCTGG---ACAAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG ctctcccttgcagggctcgctgatgctggtcttcctcttgttttttgtagGGAGAAGTACGCCATGAAGTGTCTGGACAACAAGAAACGCATCAAGATGAAACAGGGAGAGACCCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTCAGCACTGGGgtacgctgagtggccaagtgggcctccacattgacctctgaccccagcct Alignment from Exonerate_protein2genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG ctctcccttgcagggctcgctgatgctggtcttcctcttgttttttgtagggagaaGTACGCCATGAAGTGTCTGGACAACAAGAAACGCATCAAGATGAAACAGGGAGAGACCCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTCAGCACTGGGgtacgctgagtggccaagtgggcctccacattgacctctgaccccagcct Alignment from Exonerate_coding2genome GTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG ctctcccttgcagggctcgctgatgctggtcttcctcttgttttttgtagggagaaGTACGCCATGAAGTGTCTGGACAACAAGAAACGCATCAAGATGAAACAGGGAGAGACCCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTCAGCACTGGGgtacgctgagtggccaagtgggcctccacattgacctctgaccccagcct Alignment from GeneWise ----ATGTACGCCATGAAGTGTCTGGAC---AAGAAACGCATCAAGATGAAGCAGGGAGAGACCCTGGCTCTGAACGAGCGGATCATGCTTTCCCTCGTCAGCACCGGG ctctcccttgcagggctcgctgatgctggtcttcctcttgttttttgtagGGAGAAGTACGCCATGAAGTGTCTGGACAACAAGAAACGCATCAAGATGAAACAGGGAGAGACCCTGGCTCTGAACAAGCGGATTATGCTTTCACTTGTCAGCACTGGGgtacgctgagtggccaagtgggcctccacattgacctctgaccccagcct #### Adrbk1_ID488_7 --> 0 - 2 Original Alignment CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGat tctgctgttgggctgggaaggcagtgacatttctttcttctacactccagCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTAT---------------------------atgtaagtaccctgatcagctggactgggacgctcgcccaagtgtgaaatga Alignment from CESAR CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGat tctgctgttgggctgggaaggcagtgacatttctttcttctacactccagCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTAT---------------------------atgtaagtaccctgatcagctggactgggacgctcgcccaagtgtgaaatga Alignment from Spaln_aa2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGG tctgctgttgggctgggaaggcagtgacatttctttcttctacactccagCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATATgtaagtaccctgatcagctggactgggacgctcgcccaagtgtgaaatga Alignment from Spaln_nt2Genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGG tctgctgttgggctgggaaggcagtgacatttctttcttctacactccagCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATATgtaagtaccctgatcagctggactgggacgctcgcccaagtgtgaaatga Alignment from Pairagon CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAGAT tctgctgttgggctgggaaggcagtgacatttctttcttctacactccagCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTAT---------------------------ATgtaagtaccctgatcagctggactgggacgctcgcccaagtgtgaaatga Alignment from Exonerate_protein2genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG tctgctgttgggctgggaaggcagtgacatttctttcttctacactccagCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATATGTAAGTACCCTGATCAGCTGGACTGggacgctcgcccaagtgtgaaatga Alignment from Exonerate_coding2genome CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGGGTGCCGGAAAGCAGACACAGGCAAG tctgctgttgggctgggaaggcagtgacatttctttcttctacactccagCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATATGTAAGTACCCTGATCAGCTGGACTGggacgctcgcccaagtgtgaaatga Alignment from GeneWise CTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATGG tctgctgttgggctgggaaggcagtgacatttctttcttctacactccagCTGACCATGAATGACTTCAGTGTGCATCGAATCATCGGGCGTGGGGGCTTCGGTGAGGTCTATATgtaagtaccctgatcagctggactgggacgctcgcccaagtgtgaaatga #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCA---------g tcctcaccaggccctgcagccagagagctggtgtccttttgaacctccagAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATTGAACCCACCCCGCGAAGCACCATGGTTAAGCTACAGGCTGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATTGCTGCCAGCCCACCTGTGAAAGAGAAGCTAAGAGTGACCAGTGCATTCTTCCTTggtaagcggactaaatctgggcttagtgctttagacatagcgagtcagccc Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCA---------g tcctcaccaggccctgcagccagagagctggtgtccttttgaacctccagAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATTGAACCCACCCCGCGAAGCACCATGGTTAAGCTACAGGCTGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATTGCTGCCAGCCCACCTGTGAAAGAGAAGCTAAGAGTGACCAGTGCATTCTTCCTTggtaagcggactaaatctgggcttagtgctttagacatagcgagtcagccc Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCA---------G tcctcaccaggccctgcagccagagagctggtgtccttttgaacctccagAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATTGAACCCACCCCGCGAAGCACCATGGTTAAGCTACAGGCTGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATTGCTGCCAGCCCACCTGTGAAAGAGAAGCTAAGAGTGACCAGTGCATTCTTCCTTGgtaagcggactaaatctgggcttagtgctttagacatagcgagtcagccc Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCA---------G tcctcaccaggccctgcagccagagagctggtgtccttttgaacctccagAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATTGAACCCACCCCGCGAAGCACCATGGTTAAGCTACAGGCTGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATTGCTGCCAGCCCACCTGTGAAAGAGAAGCTAAGAGTGACCAGTGCATTCTTCCTTGgtaagcggactaaatctgggcttagtgctttagacatagcgagtcagccc Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCA---------G tcctcaccaggccctgcagccagagagctggtgtccttttgaacctccagAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATTGAACCCACCCCGCGAAGCACCATGGTTAAGCTACAGGCTGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATTGCTGCCAGCCCACCTGTGAAAGAGAAGCTAAGAGTGACCAGTGCATTCTTCCTTGgtaagcggactaaatctgggcttagtgctttagacatagcgagtcagccc Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGC tcctcaccaggccctgcagccagagagctggtgtccttttgaacctccagAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATTGAACCCACCCCGCGAAGCACCATGGTTAAGCTACAGGCTGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATTGCTGCCAGCCCACCTGTGAAAGAGAAGCTAAGAGTGACCAGTGCattcttccttggtaagcggactaaatctgggcttagtgctttagacatagcgagtcagccc Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGC tcctcaccaggccctgcagccagagagctggtgtccttttgaacctccagAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATTGAACCCACCCCGCGAAGCACCATGGTTAAGCTACAGGCTGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATTGCTGCCAGCCCACCTGTGAAAGAGAAGCTAAGAGTGACCAGTGCattcttccttggtaagcggactaaatctgggcttagtgctttagacatagcgagtcagccc Alignment from GeneWise AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCA---------G tcctcaccaggccctgcagccagagagctggtgtccttttgaacctccagAGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATTGAACCCACCCCGCGAAGCACCATGGTTAAGCTACAGGCTGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATTGCTGCCAGCCCACCTGTGAAAGAGAAGCTAAGAGTGACCAGTGCATTCTTCCTTGgtaagcggactaaatctgggcttagtgctttagacatagcgagtcagccc #### Aldh3b1_ID203_4 --> 2 - 0 Original Alignment gg------AATTGTGTGGTGCTCAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAG cacacaccatgcatggttgccttctcctctgactcaatgcctttttacagggACGCTCAATTGTGTGGTGCTTAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAGgtgagcagaaatagtcaagctctatacttggatagtggggtcttctgcat Alignment from CESAR gg------AATTGTGTGGTGCTCAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAG cacacaccatgcatggttgccttctcctctgactcaatgcctttttacagggACGCTCAATTGTGTGGTGCTTAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAGgtgagcagaaatagtcaagctctatacttggatagtggggtcttctgcat Alignment from Spaln_aa2Genome GGAATTGTGTG------GTGCTCAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAG cacacaccatgcatggttgccttctcctctgactcaatgcctttttacagGGACGCTCAATTGTGTGGTGCTTAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAGgtgagcagaaatagtcaagctctatacttggatagtggggtcttctgcat Alignment from Spaln_nt2Genome GGAATTGTGTG------GTGCTCAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAG cacacaccatgcatggttgccttctcctctgactcaatgcctttttacagGGACGCTCAATTGTGTGGTGCTTAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAGgtgagcagaaatagtcaagctctatacttggatagtggggtcttctgcat Alignment from Pairagon GG------AATTGTGTGGTGCTCAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAG cacacaccatgcatggttgccttctcctctgactcaatgcctttttacagGGACGCTCAATTGTGTGGTGCTTAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAGgtgagcagaaatagtcaagctctatacttggatagtggggtcttctgcat Alignment from Exonerate_protein2genome GG------AATTGTGTGGTGCTCAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAG cacacaccatgcatggttgccttctcctctgactcaatgcctttttacagGGACGCTCAATTGTGTGGTGCTTAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAGgtgagcagaaatagtcaagctctatacttggatagtggggtcttctgcat Alignment from Exonerate_coding2genome GG------AATTGTGTGGTGCTCAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAG cacacaccatgcatggttgccttctcctctgactcaatgcctttttacagGGACGCTCAATTGTGTGGTGCTTAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAGgtgagcagaaatagtcaagctctatacttggatagtggggtcttctgcat Alignment from GeneWise -----GGGAATTGTGTGGTGCTCAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAG cacacaccatgcatggttgccttctcctctgactcaatgcctttttacagGGACGCTCAATTGTGTGGTGCTTAAGCCCTCAGAGATCAGCAAGGCCACTGAAAAGATACTGGCTGAGGTCCTGCCCCGCTATCTGGACCAGgtgagcagaaatagtcaagctctatacttggatagtggggtcttctgcat #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ttagatgggttcttactcatctgacactaacgatatttattctgttgtagGCCATCCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAggttggtggggttctgagcccccctattctgatgagacttcccaaagaagg Alignment from CESAR ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ttagatgggttcttactcatctgacactaacgatatttattctgttgtagGCCATCCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAggttggtggggttctgagcccccctattctgatgagacttcccaaagaagg Alignment from Spaln_aa2Genome CTCACCAAGCTG------AGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttagatgggttcttactcatctgacactaacgatatttattctgttgtagGCCATCCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGgttggtggggttctgagcccccctattctgatgagacttcccaaagaagg Alignment from Spaln_nt2Genome CTCACCAAG------CTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttagatgggttcttactcatctgacactaacgatatttattctgttgtagGCCATCCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGgttggtggggttctgagcccccctattctgatgagacttcccaaagaagg Alignment from Pairagon ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttagatgggttcttactcatctgacactaacgatatttattctgttgtagGCCATCCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGgttggtggggttctgagcccccctattctgatgagacttcccaaagaagg Alignment from Exonerate_protein2genome ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttagatgggttcttactcatctgacactaacgatatttattctgttgtagGCCATCCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGgttggtggggttctgagcccccctattctgatgagacttcccaaagaagg Alignment from Exonerate_coding2genome ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttagatgggttcttactcatctgacactaacgatatttattctgttgtagGCCATCCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGgttggtggggttctgagcccccctattctgatgagacttcccaaagaagg Alignment from GeneWise ------CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG ttagatgggttcttactcatctgacactaacgatatttattctgttgtagGCCATCCTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGgttggtggggttctgagcccccctattctgatgagacttcccaaagaagg #### Aldh3b2_ID239_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG caccaacctcccctcactatcagccatttgaagacactgtgaaattgcagga---------GTGCTGAAGCCATCTGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGCATCTGGACCAGgtgagtatggctttgcttcttaagcagttgacacacccacacctgtgtgc Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtgtgcaagcaccaacctcccctcaatttgaagacactgtgaaattgcagga---------GTGCTGAAGCCATCTGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGCATCTGGACCAGgtgagtatggctttgcttcttaagcagttgacacacccacacctgtgtgc Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG caccaacctcccctcactatcagccatttgaagacactgtgaaattgcagGA---------GTGCTGAAGCCATCTGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGCATCTGGACCAGgtgagtatggctttgcttcttaagcagttgacacacccacacctgtgtgc Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG caccaacctcccctcactatcagccatttgaagacactgtgaaattgcagGA---------GTGCTGAAGCCATCTGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGCATCTGGACCAGgtgagtatggctttgcttcttaagcagttgacacacccacacctgtgtgc Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG caccaacctcccctcactatcagccatttgaagacactgtgaaattgcagGA---------GTGCTGAAGCCATCTGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGCATCTGGACCAGgtgagtatggctttgcttcttaagcagttgacacacccacacctgtgtgc Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG caccaacctcccctcactatcagccatttgaagacactgtgaaattgcagGA---------GTGCTGAAGCCATCTGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGCATCTGGACCAGgtgagtatggctttgcttcttaagcagttgacacacccacacctgtgtgc Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG caccaacctcccctcactatcagccatttgaagacactgtgaaattgcagGA---------GTGCTGAAGCCATCTGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGCATCTGGACCAGgtgagtatggctttgcttcttaagcagttgacacacccacacctgtgtgc Alignment from GeneWise GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG caccaacctcccctcactatcagccatttgaagacactgtgaaattgcagGA---------GTGCTGAAGCCATCTGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGCATCTGGACCAGgtgagtatggctttgcttcttaagcagttgacacacccacacctgtgtgc #### Aldh3b2_ID240_6 --> 0 - 1 Original Alignment AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA------g aggttgccctgccctgagtctgcctcctctgggtgtgtttattgtttcagAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAACCACCggtaacaagagccctcaggatctgggggccctgtccaggacctggggtagg Alignment from CESAR AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA------g aggttgccctgccctgagtctgcctcctctgggtgtgtttattgtttcagAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAACCACCggtaacaagagccctcaggatctgggggccctgtccaggacctggggtagg Alignment from Spaln_aa2Genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA------G aggttgccctgccctgagtctgcctcctctgggtgtgtttattgtttcagAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAACCACCGgtaacaagagccctcaggatctgggggccctgtccaggacctggggtagg Alignment from Spaln_nt2Genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA------G aggttgccctgccctgagtctgcctcctctgggtgtgtttattgtttcagAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAACCACCGgtaacaagagccctcaggatctgggggccctgtccaggacctggggtagg Alignment from Pairagon AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA------G aggttgccctgccctgagtctgcctcctctgggtgtgtttattgtttcagAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAACCACCGgtaacaagagccctcaggatctgggggccctgtccaggacctggggtagg Alignment from Exonerate_protein2genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aggttgccctgccctgagtctgcctcctctgggtgtgtttattgtttcagAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAAccaccggtaacaagagccctcaggatctgggggccctgtccaggacctggggtagg Alignment from Exonerate_coding2genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aggttgccctgccctgagtctgcctcctctgggtgtgtttattgtttcagAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAAccaccggtaacaagagccctcaggatctgggggccctgtccaggacctggggtagg Alignment from GeneWise AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAGGAAGT- aggttgccctgccctgagtctgcctcctctgggtgtgtttattgtttcagAGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAACCACCGgtaacaagagccctcaggatctgggggccctgtccaggacctggggtagg #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG--------- tctctgatctgcctttgggctgaacatgactatctctcttttctacccaggaAGCCTTTATCCATGTGAGGTAGACCCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGGGCTGAGCGCAGTGAGCCCCTTCGGGACGAAGATGATGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGACATATGACgtaagatgtgggaaggtgggtcatggcctccacagcctcaggcccaaggt Alignment from CESAR gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG--------- tctctgatctgcctttgggctgaacatgactatctctcttttctacccaggaAGCCTTTATCCATGTGAGGTAGACCCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGGGCTGAGCGCAGTGAGCCCCTTCGGGACGAAGATGATGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGACATATGACgtaagatgtgggaaggtgggtcatggcctccacagcctcaggcccaaggt Alignment from Spaln_aa2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG--------- tctctgatctgcctttgggctgaacatgactatctctcttttctacccagGAAGCCTTTATCCATGTGAGGTAGACCCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGGGCTGAGCGCAGTGAGCCCCTTCGGGACGAAGATGATGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGACATATGACgtaagatgtgggaaggtgggtcatggcctccacagcctcaggcccaaggt Alignment from Spaln_nt2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG--------- tctctgatctgcctttgggctgaacatgactatctctcttttctacccagGAAGCCTTTATCCATGTGAGGTAGACCCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGGGCTGAGCGCAGTGAGCCCCTTCGGGACGAAGATGATGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGACATATGACgtaagatgtgggaaggtgggtcatggcctccacagcctcaggcccaaggt Alignment from Pairagon GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG--------- tctctgatctgcctttgggctgaacatgactatctctcttttctacccagGAAGCCTTTATCCATGTGAGGTAGACCCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGGGCTGAGCGCAGTGAGCCCCTTCGGGACGAAGATGATGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGACATATGACgtaagatgtgggaaggtgggtcatggcctccacagcctcaggcccaaggt Alignment from Exonerate_protein2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG tctctgatctgcctttgggctgaacatgactatctctcttttctacccagGAAGCCTTTATCCATGTGAGGTAGACCCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGGGCTGAGCGCAGTGAGCCCCTTCGGGACGAAGATGATGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGacatatgacgtaagatgtgggaaggtgggtcatggcctccacagcctcaggcccaaggt Alignment from Exonerate_coding2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG tctctgatctgcctttgggctgaacatgactatctctcttttctacccagGAAGCCTTTATCCATGTGAGGTAGACCCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGGGCTGAGCGCAGTGAGCCCCTTCGGGACGAAGATGATGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGacatatgacgtaagatgtgggaaggtgggtcatggcctccacagcctcaggcccaaggt Alignment from GeneWise GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG--------- tctctgatctgcctttgggctgaacatgactatctctcttttctacccagGAAGCCTTTATCCATGTGAGGTAGACCCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGGGCTGAGCGCAGTGAGCCCCTTCGGGACGAAGATGATGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGACATATGACgtaagatgtgggaaggtgggtcatggcctccacagcctcaggcccaaggt #### Ankrd13d_ID464_9 --> 2 - 0 Original Alignment gg------GGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cttagtgagtagccaagagtttcctcattttgcctgtattgtctttctagggCCGTTTGGGAAGACTCCATTCCAGTCCTTCTTGGGCATGGCCCAGCAGCACTCTTCCCACACTTTGgtaagcttggcaaggggagggctgggacaagcctgggtgggtggggtgct Alignment from CESAR gg------GGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cttagtgagtagccaagagtttcctcattttgcctgtattgtctttctagggCCGTTTGGGAAGACTCCATTCCAGTCCTTCTTGGGCATGGCCCAGCAGCACTCTTCCCACACTTTGgtaagcttggcaaggggagggctgggacaagcctgggtgggtggggtgct Alignment from Spaln_aa2Genome GGGGGAAGACTCCA------TTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cttagtgagtagccaagagtttcctcattttgcctgtattgtctttctagGGCCGTTTGGGAAGACTCCATTCCAGTCCTTCTTGGGCATGGCCCAGCAGCACTCTTCCCACACTTTGgtaagcttggcaaggggagggctgggacaagcctgggtgggtggggtgct Alignment from Spaln_nt2Genome GGGGGAAGACT------CCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cttagtgagtagccaagagtttcctcattttgcctgtattgtctttctagGGCCGTTTGGGAAGACTCCATTCCAGTCCTTCTTGGGCATGGCCCAGCAGCACTCTTCCCACACTTTGgtaagcttggcaaggggagggctgggacaagcctgggtgggtggggtgct Alignment from Pairagon GG------GGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cttagtgagtagccaagagtttcctcattttgcctgtattgtctttctagGGCCGTTTGGGAAGACTCCATTCCAGTCCTTCTTGGGCATGGCCCAGCAGCACTCTTCCCACACTTTGgtaagcttggcaaggggagggctgggacaagcctgggtgggtggggtgct Alignment from Exonerate_protein2genome GG------GGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cttagtgagtagccaagagtttcctcattttgcctgtattgtctttctagGGCCGTTTGGGAAGACTCCATTCCAGTCCTTCTTGGGCATGGCCCAGCAGCACTCTTCCCACACTTTGgtaagcttggcaaggggagggctgggacaagcctgggtgggtggggtgct Alignment from Exonerate_coding2genome GG------GGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cttagtgagtagccaagagtttcctcattttgcctgtattgtctttctagGGCCGTTTGGGAAGACTCCATTCCAGTCCTTCTTGGGCATGGCCCAGCAGCACTCTTCCCACACTTTGgtaagcttggcaaggggagggctgggacaagcctgggtgggtggggtgct Alignment from GeneWise -----GGGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG cttagtgagtagccaagagtttcctcattttgcctgtattgtctttctagGGCCGTTTGGGAAGACTCCATTCCAGTCCTTCTTGGGCATGGCCCAGCAGCACTCTTCCCACACTTTGgtaagcttggcaaggggagggctgggacaagcctgggtgggtggggtgct #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg tcagtcccctgtgtcttcttacttgtctactgtgtttttgtcttctctag------AGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAggtaaagccacgtgcaattgcctgctgcccagccatcctagggtctgtgcc Alignment from CESAR GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg gaaccctcagtcccctgtgtcttcttctactgtgtttttgtcttctctag------AGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAggtaaagccacgtgcaattgcctgctgcccagccatcctagggtctgtgcc Alignment from Spaln_aa2Genome AGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG tcagtcccctgtgtcttcttacttgtctactgtgtttttgtcttctctagAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaaagccacgtgcaattgcctgctgcccagccatcctagggtctgtgcc Alignment from Spaln_nt2Genome CAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG tcagtcccctgtgtcttcttacttgtctactgtgtttttgtcttctctag-AGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaaagccacgtgcaattgcctgctgcccagccatcctagggtctgtgcc Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG tcagtcccctgtgtcttcttacttgtctactgtgtttttgtcttctctag------AGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaaagccacgtgcaattgcctgctgcccagccatcctagggtctgtgcc Alignment from Exonerate_protein2genome AGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG tcagtcccctgtgtcttcttacttgtctactgtgtttttgtcttctctagAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaaagccacgtgcaattgcctgctgcccagccatcctagggtctgtgcc Alignment from Exonerate_coding2genome AGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG tcagtcccctgtgtcttcttacttgtctactgtgtttttgtcttctctagAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaaagccacgtgcaattgcctgctgcccagccatcctagggtctgtgcc Alignment from GeneWise AGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG tcagtcccctgtgtcttcttacttgtctactgtgtttttgtcttctctagAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAGgtaaagccacgtgcaattgcctgctgcccagccatcctagggtctgtgcc #### Ankrd13d_ID468_5 --> 2 - 1 Original Alignment taCCTCTTGTGTCCAAGATGTGCCCGAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTGCGGGTGGACACTAGTCTCTTGGGCTTTGAGCACATGACCTGGCAGCGTGGCCGAAGGAGCTTCATCTTCAGGGGTCAGg gccatttggggggagatacccactgtcaaactcttaaatttccattacagta------GTGTCCAAGATGTGCCCAAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTACGGGTGGACACTAGTCTCTTAGGCTTTGAGCACATGACCTGGCAGCGTGGCCAAAGGAGCTTCATCTTCAGGGGTCAGggtaagctatctgtcacctcagattcccaggtggcttttaagcatgtgtcc Alignment from CESAR taCCTCTTGTGTCCAAGATGTGCCCGAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTGCGGGTGGACACTAGTCTCTTGGGCTTTGAGCACATGACCTGGCAGCGTGGCCGAAGGAGCTTCATCTTCAGGGGTCAGg gagtgggccatttggggggagatactcaaactcttaaatttccattacagta------GTGTCCAAGATGTGCCCAAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTACGGGTGGACACTAGTCTCTTAGGCTTTGAGCACATGACCTGGCAGCGTGGCCAAAGGAGCTTCATCTTCAGGGGTCAGggtaagctatctgtcacctcagattcccaggtggcttttaagcatgtgtcc Alignment from Spaln_aa2Genome TACCTCTTGTGTCCAAGATGTGCCCGAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTGCGGGTGGACACTAGTCTCTTGGGCTTTGAGCACATGACCTGGCAGCGTGGCCGAAGGAGCTTCATCTTCAGGGGTCAGG gccatttggggggagatacccactgtcaaactcttaaatttccattacagTA------GTGTCCAAGATGTGCCCAAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTACGGGTGGACACTAGTCTCTTAGGCTTTGAGCACATGACCTGGCAGCGTGGCCAAAGGAGCTTCATCTTCAGGGGTCAGGgtaagctatctgtcacctcagattcccaggtggcttttaagcatgtgtcc Alignment from Spaln_nt2Genome TACCTCTTGTGTCCAAGATGTGCCCGAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTGCGGGTGGACACTAGTCTCTTGGGCTTTGAGCACATGACCTGGCAGCGTGGCCGAAGGAGCTTCATCTTCAGGGGTCAGG gccatttggggggagatacccactgtcaaactcttaaatttccattacagTA------GTGTCCAAGATGTGCCCAAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTACGGGTGGACACTAGTCTCTTAGGCTTTGAGCACATGACCTGGCAGCGTGGCCAAAGGAGCTTCATCTTCAGGGGTCAGGgtaagctatctgtcacctcagattcccaggtggcttttaagcatgtgtcc Alignment from Pairagon TACCTCTTGTGTCCAAGATGTGCCCGAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTGCGGGTGGACACTAGTCTCTTGGGCTTTGAGCACATGACCTGGCAGCGTGGCCGAAGGAGCTTCATCTTCAGGGGTCAGG gccatttggggggagatacccactgtcaaactcttaaatttccattacagTA------GTGTCCAAGATGTGCCCAAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTACGGGTGGACACTAGTCTCTTAGGCTTTGAGCACATGACCTGGCAGCGTGGCCAAAGGAGCTTCATCTTCAGGGGTCAGGgtaagctatctgtcacctcagattcccaggtggcttttaagcatgtgtcc Alignment from Exonerate_protein2genome TGTCCAAGATGTGCCCGAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTGCGGGTGGACACTAGTCTCTTGGGCTTTGAGCACATGACCTGGCAGCGTGGCCGAAGGAGCTTCATCTTCAGGGGTCAGG gccatttggggggagatacccactgtcaaactcttaaatttccattacagtagTGTCCAAGATGTGCCCAAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTACGGGTGGACACTAGTCTCTTAGGCTTTGAGCACATGACCTGGCAGCGTGGCCAAAGGAGCTTCATCTTCAGGGGTCAGGgtaagctatctgtcacctcagattcccaggtggcttttaagcatgtgtcc Alignment from Exonerate_coding2genome TGTCCAAGATGTGCCCGAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTGCGGGTGGACACTAGTCTCTTGGGCTTTGAGCACATGACCTGGCAGCGTGGCCGAAGGAGCTTCATCTTCAGGGGTCAGG gccatttggggggagatacccactgtcaaactcttaaatttccattacagtagTGTCCAAGATGTGCCCAAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTACGGGTGGACACTAGTCTCTTAGGCTTTGAGCACATGACCTGGCAGCGTGGCCAAAGGAGCTTCATCTTCAGGGGTCAGGgtaagctatctgtcacctcagattcccaggtggcttttaagcatgtgtcc Alignment from GeneWise TACCTCTTGTGTCCAAGATGTGCCCGAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTGCGGGTGGACACTAGTCTCTTGGGCTTTGAGCACATGACCTGGCAGCGTGGCCGAAGGAGCTTCATCTTCAGGGGTCAGG gccatttggggggagatacccactgtcaaactcttaaatttccattacagTA------GTGTCCAAGATGTGCCCAAGCGATGTGTACCGTGTGTGGAAGCGGGGTGAGAGTCTACGGGTGGACACTAGTCTCTTAGGCTTTGAGCACATGACCTGGCAGCGTGGCCAAAGGAGCTTCATCTTCAGGGGTCAGGgtaagctatctgtcacctcagattcccaggtggcttttaagcatgtgtcc #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCA------g ccttgctttggtcctctcttaccgtgtatctcaccgcgcgccgcccccagCATGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCAGTCAGAggtgagctacagggcagtgggttcccctttaagattatcttccatgttggt Alignment from CESAR CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCA------g ccttgctttggtcctctcttaccgtgtatctcaccgcgcgccgcccccagCATGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCAGTCAGAggtgagctacagggcagtgggttcccctttaagattatcttccatgttggt Alignment from Spaln_aa2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCA------G ccttgctttggtcctctcttaccgtgtatctcaccgcgcgccgcccccagCATGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCAGTCAGAGgtgagctacagggcagtgggttcccctttaagattatcttccatgttggt Alignment from Spaln_nt2Genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG------ ccttgctttggtcctctcttaccgtgtatctcaccgcgcgccgcccccagCATGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCAGTCAGAGgtgagctacagggcagtgggttcccctttaagattatcttccatgttggt Alignment from Pairagon CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG------ ccttgctttggtcctctcttaccgtgtatctcaccgcgcgccgcccccagCATGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCAGTCAGAGgtgagctacagggcagtgggttcccctttaagattatcttccatgttggt Alignment from Exonerate_protein2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ccttgctttggtcctctcttaccgtgtatctcaccgcgcgccgcccccagCATGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCAGtcagaggtgagctacagggcagtgggttcccctttaagattatcttccatgttggt Alignment from Exonerate_coding2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG ccttgctttggtcctctcttaccgtgtatctcaccgcgcgccgcccccagCATGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCAGtcagaggtgagctacagggcagtgggttcccctttaagattatcttccatgttggt Alignment from GeneWise CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAGTCCTG- ccttgctttggtcctctcttaccgtgtatctcaccgcgcgccgcccccagCATGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCAGTCAGAGgtgagctacagggcagtgggttcccctttaagattatcttccatgttggt #### Ankrd1_ID7096_7 --> 0 - 0 Original Alignment CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGA ctcagatggtgattgttctcactccttctcttccctctgtctcctcacagCTCCTCAGCACAGCACTGCATGTGGCAGTGAGGACTGGTCATTACGAGTGCACTGAGCACCTCATCACCTGCGAGGCTGATCTCAATGCCAAG------gtaagtgagtgtatttgacaggtctgtgccagcgtcagcttctttgaaac Alignment from CESAR CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGA ctcagatggtgattgttctcactccttctcttccctctgtctcctcacagCTCCTCAGCACAGCACTGCATGTGGCAGTGAGGACTGGTCATTACGAGTGCACTGAGCACCTCATCACCTGCGAGGCTGATCTCAATGCCAAG------gtaagtgagtgtatttgacaggtctgtgccagcgtcagcttctt Alignment from Spaln_aa2Genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGAGAAG ctcagatggtgattgttctcactccttctcttccctctgtctcctcacagCTCCTCAGCACAGCACTGCATGTGGCAGTGAGGACTGGTCATTACGAGTGCACTGAGCACCTCATCACCTGCGAGGCTGATCTCAATGCCAAGGTAAGTGAGTgtatttgacaggtctgtgccagcgtcagcttctttgaaac Alignment from Spaln_nt2Genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACA ctcagatggtgattgttctcactccttctcttccctctgtctcctcacagCTCCTCAGCACAGCACTGCATGTGGCAGTGAGGACTGGTCATTACGAGTGCACTGAGCACCTCATCACCTGCGAGGCTGATCTCAATGCCAAGGTAAgtgagtgtatttgacaggtctgtgccagcgtcagcttctttgaaac Alignment from Pairagon CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAG ctcagatggtgattgttctcactccttctcttccctctgtctcctcacagCTCCTCAGCACAGCACTGCATGTGGCAGTGAGGACTGGTCATTACGAGTGCACTGAGCACCTCATCACCTGCGAGGCTGATCTCAATGCCAAGgtaagtgagtgtatttgacaggtctgtgccagcgtcagcttctttgaaac Alignment from Exonerate_protein2genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAG ctcagatggtgattgttctcactccttctcttccctctgtctcctcacagCTCCTCAGCACAGCACTGCATGTGGCAGTGAGGACTGGTCATTACGAGTGCACTGAGCACCTCATCACCTGCGAGGCTGATCTCAATGCCAAGgtaagtgagtgtatttgacaggtctgtgccagcgtcagcttctttgaaac Alignment from Exonerate_coding2genome CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAG ctcagatggtgattgttctcactccttctcttccctctgtctcctcacagCTCCTCAGCACAGCACTGCATGTGGCAGTGAGGACTGGTCATTACGAGTGCACTGAGCACCTCATCACCTGCGAGGCTGATCTCAATGCCAAGgtaagtgagtgtatttgacaggtctgtgccagcgtcagcttctttgaaac Alignment from GeneWise CTTCTCAGCACAGCGCTGCATGTGGCGGTGAGGACTGGTCATTACGAGTGCGCTGAGCACCTCATCGCCTGCGAGGCTGATCTCAATGCCAAGGACAGAGAAG ctcagatggtgattgttctcactccttctcttccctctgtctcctcacagCTCCTCAGCACAGCACTGCATGTGGCAGTGAGGACTGGTCATTACGAGTGCACTGAGCACCTCATCACCTGCGAGGCTGATCTCAATGCCAAGGTAAGTGAGTgtatttgacaggtctgtgccagcgtcagcttctttgaaac #### Atg2a_ID1514_3 --> 2 - 1 Original Alignment gaCCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTg tcagggcccttttatcctgtcacagcctgtttttcctccttgactttcagga---------GCAGACTCGCAGAGTTGGGCCTCATGC---ACCACAAGCTTGCAGCTGGCTCAAGAGTGTCTTCAGGAAGGGCTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGCAATGTTTGCACAGACCATTGAGACTggtgagaaggtccctactgctagactgttctcaggccctttagtctacagg Alignment from CESAR gaCCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTg ccaggagactcagggcccttttatccctgtttttcctccttgactttcagga---------GCAGACTCGCAGAGTTGGGCCTCATGC---ACCACAAGCTTGCAGCTGGCTCAAGAGTGTCTTCAGGAAGGGCTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGCAATGTTTGCACAGACCATTGAGACTggtgagaaggtccctactgctagactgttctcaggccctttagtctacagg Alignment from Spaln_aa2Genome GACCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcagggcccttttatcctgtcacagcctgtttttcctccttgactttcagGA---------GCAGACTCGCAGAGTTGGGCCTCATGC---ACCACAAGCTTGCAGCTGGCTCAAGAGTGTCTTCAGGAAGGGCTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGCAATGTTTGCACAGACCATTGAGACTGgtgagaaggtccctactgctagactgttctcaggccctttagtctacagg Alignment from Spaln_nt2Genome GACCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcagggcccttttatcctgtcacagcctgtttttcctccttgactttcagGA---------GCAGACTCGCAGAGTTGGGCCTCATGC---ACCACAAGCTTGCAGCTGGCTCAAGAGTGTCTTCAGGAAGGGCTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGCAATGTTTGCACAGACCATTGAGACTGgtgagaaggtccctactgctagactgttctcaggccctttagtctacagg Alignment from Pairagon GACCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcagggcccttttatcctgtcacagcctgtttttcctccttgactttcagGA---------GCAGACTCGCAGAGTTGGGCCTCATGC---ACCACAAGCTTGCAGCTGGCTCAAGAGTGTCTTCAGGAAGGGCTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGCAATGTTTGCACAGACCATTGAGACTGgtgagaaggtccctactgctagactgttctcaggccctttagtctacagg Alignment from Exonerate_protein2genome GACCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcagggcccttttatcctgtcacagcctgtttttcctccttGACTTTCAGGAGCAGACTCGCAGAGTTGGGCCTCATGC---ACCACAAGCTTGCAGCTGGCTCAAGAGTGTCTTCAGGAAGGGCTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGCAATGTTTGCACAGACCATTGAGACTGgtgagaaggtccctactgctagactgttctcaggccctttagtctacagg Alignment from Exonerate_coding2genome GACCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcagggcccttttatcctgtcacagcctgtttttcctccttGACTTTCAGGAGCAGACTCGCAGAGTTGGGCCTCATGC---ACCACAAGCTTGCAGCTGGCTCAAGAGTGTCTTCAGGAAGGGCTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGCAATGTTTGCACAGACCATTGAGACTGgtgagaaggtccctactgctagactgttctcaggccctttagtctacagg Alignment from GeneWise GACCAGGGGCTGCGGACTCTCAGAGTTGGGCCTCATGCATGACCACAAGCTTGCAGCTGGCTCAAGAGTGCCTTCGGGAAGGGTTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGAAATGTTTGCACAGACCATTGAGACTG tcagggcccttttatcctgtcacagcctgtttttcctccttgactttcagGA---------GCAGACTCGCAGAGTTGGGCCTCATGC---ACCACAAGCTTGCAGCTGGCTCAAGAGTGTCTTCAGGAAGGGCTGCCAGAACCCTCAGAACCACCACAGCCCCTGGAGGGGCTGGCAATGTTTGCACAGACCATTGAGACTGgtgagaaggtccctactgctagactgttctcaggccctttagtctacagg #### Atg2a_ID1515_4 --> 2 - 2 Original Alignment tgCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGag ccagcttgcctgccttactcccttccttcctttccctgtctgtcttacagtgCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCATTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTC---------aggtaagttgcacttcgagctccagaggatcgaggtgacctttcggaacact Alignment from CESAR tgCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAGTGCAGag ccagcttgcctgccttactcccttccttcctttccctgtctgtcttacagtgCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCATTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTC---------aggtaagttgcacttcgagctccagaggatcgaggtgacctttcggaacact Alignment from Spaln_aa2Genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAG ccagcttgcctgccttactcccttccttcctttccctgtctgtcttacagTGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCATTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGgtcaggtaagttgcacttcgagctccagaggatcgaggtgacctttcggaacact Alignment from Spaln_nt2Genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAG ccagcttgcctgccttactcccttccttcctttccctgtctgtcttacagTGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCATTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGgtcaggtaagttgcacttcgagctccagaggatcgaggtgacctttcggaacact Alignment from Pairagon TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAG ccagcttgcctgccttactcccttccttcctttccctgtctgtcttacagTGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCATTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGgtcaggtaagttgcacttcgagctccagaggatcgaggtgacctttcggaacact Alignment from Exonerate_protein2genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTT ccagcttgcctgccttactcccttccttcctttccctgtctgtcttacagTGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTgtgagggtggagcattcattgggtgatgaggatcgaagtgtggctgtggaggtcaggtaagttgcacttcgagctccagaggatcgaggtgacctttcggaacact Alignment from Exonerate_coding2genome TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCGAG ccagcttgcctgccttactcccttccttcctttccctgtctgtcttacagTGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCATTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCA--Ggtaagttgcacttcgagctccagaggatcgaggtgacctttcggaacact Alignment from GeneWise TGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCACTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCCG ccagcttgcctgccttactcccttccttcctttccctgtctgtcttacagTGCTCCGGAGGATCAAGGTGACCTTCCTGAACACTGTTGTGAGGGTGGAGCATTCATTGGGTGATGAGGATCGAAGTGTGGCTGTGGAGGTCAGgtaagttgcacttcgagctccagaggatcgaggtgacctttcggaacact #### Atg2a_ID1524_13 --> 0 - 1 Original Alignment ---------------------------ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAg tgtcggtcccctgtggctggtcccggcccctcctggcttcttccctgcagATAATTCAATTGAGCCAATACGCAGACACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTCTTTCGTCTTTCAGCACCCCGGGCCACTCTGAGGCTACACTTCCCTGTCCCAGACCTGCGGCCTGACCGAGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTTGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCCGGCCCCCCAGCTCCTACCCGCTTGGAACTTACTTGCTCAGATCTGCAAggtaagtctttctaggaaacagctggggcgggccccaggacaggtgtgctt Alignment from CESAR ---------------------------ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAg tgtcggtcccctgtggctggtcccggcccctcctggcttcttccctgcagATAATTCAATTGAGCCAATACGCAGACACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTCTTTCGTCTTTCAGCACCCCGGGCCACTCTGAGGCTACACTTCCCTGTCCCAGACCTGCGGCCTGACCGAGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTTGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCCGGCCCCCCAGCTCCTACCCGCTTGGAACTTACTTGCTCAGATCTGCAAggtaagtctttctaggaaacagctggggcgggccccaggacaggtgtgctt Alignment from Spaln_aa2Genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG tgtcggtcccctgtggctggtcccggcccctcctggcttcttccctgcagataattcaattgagccaatacgcagacACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTCTTTCGTCTTTCAGCACCCCGGGCCACTCTGAGGCTACACTTCCCTGTCCCAGACCTGCGGCCTGACCGAGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTTGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCCGGCCCCCCAGCTCCTACCCGCTTGGAACTTACTTGCTCAGATCTGCAAGgtaagtctttctaggaaacagctggggcgggccccaggacaggtgtgctt Alignment from Spaln_nt2Genome ACAGAGCCC--CCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG tgtcggtcccctgtggctggtcccggcccctcctggcttcttccctgcagataattcaattgagccaatacgcagACACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTCTTTCGTCTTTCAGCACCCCGGGCCACTCTGAGGCTACACTTCCCTGTCCCAGACCTGCGGCCTGACCGAGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTTGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCCGGCCCCCCAGCTCCTACCCGCTTGGAACTTACTTGCTCAGATCTGCAAGgtaagtctttctaggaaacagctggggcgggccccaggacaggtgtgctt Alignment from Pairagon ---------------------------ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG tgtcggtcccctgtggctggtcccggcccctcctggcttcttccctgcagATAATTCAATTGAGCCAATACGCAGACACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTCTTTCGTCTTTCAGCACCCCGGGCCACTCTGAGGCTACACTTCCCTGTCCCAGACCTGCGGCCTGACCGAGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTTGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCCGGCCCCCCAGCTCCTACCCGCTTGGAACTTACTTGCTCAGATCTGCAAGgtaagtctttctaggaaacagctggggcgggccccaggacaggtgtgctt Alignment from Exonerate_protein2genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG tgtcggtcccctgtggctggtcccggcccctcctggcttcttccctgcagataattcaattgagccaatacgcagacACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTCTTTCGTCTTTCAGCACCCCGGGCCACTCTGAGGCTACACTTCCCTGTCCCAGACCTGCGGCCTGACCGAGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTTGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCCGGCCCCCCAGCTCCTACCCGCTTGGAACTTACTTGCTCAGATCTGCAAGgtaagtctttctaggaaacagctggggcgggccccaggacaggtgtgctt Alignment from Exonerate_coding2genome ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG tgtcggtcccctgtggctggtcccggcccctcctggcttcttccctgcagataattcaattgagccaatacgcagacACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTCTTTCGTCTTTCAGCACCCCGGGCCACTCTGAGGCTACACTTCCCTGTCCCAGACCTGCGGCCTGACCGAGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTTGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCCGGCCCCCCAGCTCCTACCCGCTTGGAACTTACTTGCTCAGATCTGCAAGgtaagtctttctaggaaacagctggggcgggccccaggacaggtgtgctt Alignment from GeneWise ---------------------------ACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTGTTTCGTCTCTCAGCACCCCGGGCCACCCTGAGGCTACGCTTCCCCATCCCAGACCTACGGCCTGACCGGGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTGGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCTGGCCCCCCAGCTCCTACCCGCCTGGAACTTACTTGCTCAGACCTGCAAG tgtcggtcccctgtggctggtcccggcccctcctggcttcttccctgcagATAATTCAATTGAGCCAATACGCAGACACAGAGCCCCCACAGGCCACTGAGCTGCAGACAGTCTTTCGTCTTTCAGCACCCCGGGCCACTCTGAGGCTACACTTCCCTGTCCCAGACCTGCGGCCTGACCGAGACCCCTGGGCTGGCCAGGCTGTGCGGGCTGAGCAGCTGCGACTTGAGCTGAGTGAGCCCCAGTTCCGCTCAGAGCTCAACAGTGGGCCCGGCCCCCCAGCTCCTACCCGCTTGGAACTTACTTGCTCAGATCTGCAAGgtaagtctttctaggaaacagctggggcgggccccaggacaggtgtgctt #### Atg2a_ID1525_14 --> 2 - 2 Original Alignment ga------ATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTca ggaacagggaagagccagctatgaggcctgctcccttttcttttttacaggaGTCTGTATTTACGAAGATGGAGAAAAGCCACCAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTcagtgagtgaattgtcagtaggggtggctggagagggcagaacttttggtgc Alignment from CESAR ga------ATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTca ggaacagggaagagccagctatgaggcctgctcccttttcttttttacaggaGTCTGTATTTACGAAGATGGAGAAAAGCCACCAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTcagtgagtgaattgtcagtaggggtggctggagagggcagaacttttggtgc Alignment from Spaln_aa2Genome GAATCTACGAA------GATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA ggaacagggaagagccagctatgaggcctgctcccttttcttttttacagGAGTCTGTATTTACGAAGATGGAGAAAAGCCACCAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtgagtgaattgtcagtaggggtggctggagagggcagaacttttggtgc Alignment from Spaln_nt2Genome GAATCTACGAAGA------TGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA ggaacagggaagagccagctatgaggcctgctcccttttcttttttacagGAGTCTGTATTTACGAAGATGGAGAAAAGCCACCAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtgagtgaattgtcagtaggggtggctggagagggcagaacttttggtgc Alignment from Pairagon GAATC------TACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA ggaacagggaagagccagctatgaggcctgctcccttttcttttttacagGAGTCTGTATTTACGAAGATGGAGAAAAGCCACCAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtgagtgaattgtcagtaggggtggctggagagggcagaacttttggtgc Alignment from Exonerate_protein2genome GA------ATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA ggaacagggaagagccagctatgaggcctgctcccttttcttttttacagGAGTCTGTATTTACGAAGATGGAGAAAAGCCACCAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtgagtgaattgtcagtaggggtggctggagagggcagaacttttggtgc Alignment from Exonerate_coding2genome GA------ATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA ggaacagggaagagccagctatgaggcctgctcccttttcttttttacagGAGTCTGTATTTACGAAGATGGAGAAAAGCCACCAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtgagtgaattgtcagtaggggtggctggagagggcagaacttttggtgc Alignment from GeneWise --GGAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA ggaacagggaagagccagctatgaggcctgctcccttttcttttttacaggagTCTGTATTTACGAAGATGGAGAAAAGCCACCAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtgagtgaattgtcagtaggggtggctggagagggcagaacttttggtgc #### Atg2a_ID1526_15 --> 1 - 0 Original Alignment gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- agaacttttggtgctggtggcagggcacctgacttctcctcctgttcaaggGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCTTCCAAGCGGTCCATGTACGAGACTGAGGAAGGCgtgggtgtccctgactttcccaccgtgggcaccatttatgggactaggcg Alignment from CESAR gGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- agaacttttggtgctggtggcagggcacctgacttctcctcctgttcaaggGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCTTCCAAGCGGTCCATGTACGAGACTGAGGAAGGCgtgggtgtccctgactttcccaccgtgggcaccatttatgggactaggcg Alignment from Spaln_aa2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- agaacttttggtgctggtggcagggcacctgacttctcctcctgttcaagGGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCTTCCAAGCGGTCCATGTACGAGACTGAGGAAGGCgtgggtgtccctgactttcccaccgtgggcaccatttatgggactaggcg Alignment from Spaln_nt2Genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- agaacttttggtgctggtggcagggcacctgacttctcctcctgttcaagGGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCTTCCAAGCGGTCCATGTACGAGACTGAGGAAGGCgtgggtgtccctgactttcccaccgtgggcaccatttatgggactaggcg Alignment from Pairagon GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- agaacttttggtgctggtggcagggcacctgacttctcctcctgttcaagGGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCTTCCAAGCGGTCCATGTACGAGACTGAGGAAGGCgtgggtgtccctgactttcccaccgtgggcaccatttatgggactaggcg Alignment from Exonerate_protein2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- agaacttttggtgctggtggcagggcacctgacttctcctcctgttcaagGGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCTTCCAAGCGGTCCATGTACGAGACTGAGGAAGGCgtgggtgtccctgactttcccaccgtgggcaccatttatgggactaggcg Alignment from Exonerate_coding2genome GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAA--- agaacttttggtgctggtggcagggcacctgacttctcctcctgttcaagGGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCTTCCAAGCGGTCCATGTACGAGACTGAGGAAGGCgtgggtgtccctgactttcccaccgtgggcaccatttatgggactaggcg Alignment from GeneWise GGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTGTCCACCGAGAGTCCGTGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCCTCCAAGCGGACCATGTACGAGACTGAGGAAATG agaacttttggtgctggtggcagggcacctgacttctcctcctgttcaagGGTAGTGGTGACCCTGAACCCCCAGTCCAGTGGCACACAGTGGGAGACAGCCTATGAGAAAGGCCGGGATCTAGAGCTTTCCACTGAGAGTCCATGTGAGCTACAGCAACCTGAGCCCTCGCCCTTCTCTTCCAAGCGGTCCATGTACGAGACTGAGGAAGGCgtgggtgtccctgactttcccaccgtgggcaccatttatgggactaggcg #### Atg2a_ID1527_16 --> 0 - 2 Original Alignment ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACag tcttcaattctgaagccagaaacaggccccccctctcccctcttctgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACAAAAGTATC------aggtgagactagatacatggagccaggctggtccaggcagggccaggctgga Alignment from CESAR ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACag tcttcaattctgaagccagaaacaggccccccctctcccctcttctgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACAAAAGTATC------aggtgagactagatacatggagccaggctggtccaggcagggccaggctgga Alignment from Spaln_aa2Genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTA tcttcaattctgaagccagaaacaggccccccctctcccctcttctgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACAAAAGTATCAGgtgagactagatacatggagccaggctggtccaggcagggccaggctgga Alignment from Spaln_nt2Genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tcttcaattctgaagccagaaacaggccccccctctcccctcttctgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACAAAAGTAT------CAGgtgagactagatacatggagccaggctggtccaggcagggccaggctgga Alignment from Pairagon ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG tcttcaattctgaagccagaaacaggccccccctctcccctcttctgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACAAAAGTAT------CAGgtgagactagatacatggagccaggctggtccaggcagggccaggctgga Alignment from Exonerate_protein2genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTA tcttcaattctgaagccagaaacaggccccccctctcccctcttctgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACAAAAGTATCAGgtgagactagatacatggagccaggctggtccaggcagggccaggctgga Alignment from Exonerate_coding2genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTA tcttcaattctgaagccagaaacaggccccccctctcccctcttctgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACAAAAGTATCAGgtgagactagatacatggagccaggctggtccaggcagggccaggctgga Alignment from GeneWise ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTA tcttcaattctgaagccagaaacaggccccccctctcccctcttctgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACAAAAGTATCAGgtgagactagatacatggagccaggctggtccaggcagggccaggctgga #### Atg2a_ID1531_20 --> 2 - 0 Original Alignment cgGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gcttcagccactatgttccaatgccaaataaaaaccttttcatcccacagcg------------------CTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAGgtaagtgctcctaagctgatcacatgcgtgacttaggccacttcccccta Alignment from CESAR cgGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG ttgggaatatgctcagcagcttcagaaataaaaaccttttcatcccacagcg------------------CTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAGgtaagtgctcctaagctgatcacatgcgtgacttaggccacttcccccta Alignment from Spaln_aa2Genome TGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gcttcagccactatgttccaatgccaaataaaaaccttttcatcccacagCGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAGgtaagtgctcctaagctgatcacatgcgtgacttaggccacttcccccta Alignment from Spaln_nt2Genome CTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gcttcagccactatgttccaatgccaaataaaaaccttttcatcccacagC-GCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAGgtaagtgctcctaagctgatcacatgcgtgacttaggccacttcccccta Alignment from Pairagon CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gcttcagccactatgttccaatgccaaataaaaaccttttcatcccacagC------------------GCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAGgtaagtgctcctaagctgatcacatgcgtgacttaggccacttcccccta Alignment from Exonerate_protein2genome TGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gcttcagccactatgttccaatgccaaataaaaaccttttcatcccacagCGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAGgtaagtgctcctaagctgatcacatgcgtgacttaggccacttcccccta Alignment from Exonerate_coding2genome TGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gcttcagccactatgttccaatgccaaataaaaaccttttcatcccacagCGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAGgtaagtgctcctaagctgatcacatgcgtgacttaggccacttcccccta Alignment from GeneWise CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG gcttcagccactatgttccaatgccaaataaaaaccttttcatcccacagCG------------------CTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAGgtaagtgctcctaagctgatcacatgcgtgacttaggccacttcccccta #### Atg2a_ID1536_25 --> 2 - 0 Original Alignment atTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG------------------------------ tacaagggcagggtgaacagagactgtgccctggccctgttcccctccagatTATGTATGTGTCCTGGATATTGACCTCCTGGAGCTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGATTGAAGAAGAAGAGAAATAGCTCTCTGGGCCCCgtaggtatggggccgacaaaagttcagagaattgtggctatcactctcct Alignment from CESAR atTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG------------------------------ tacaagggcagggtgaacagagactgtgccctggccctgttcccctccagatTATGTATGTGTCCTGGATATTGACCTCCTGGAGCTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGATTGAAGAAGAAGAGAAATAGCTCTCTGGGCCCCgtaggtatggggccgacaaaagttcagagaattgtggctatcactctcct Alignment from Spaln_aa2Genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGG tacaagggcagggtgaacagagactgtgccctggccctgttcccctccagATTATGTATGTGTCCTGGATATTGACCTCCTGGAGCTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGgcagattgaagaagaagagaaatagctctctgggccccgtaggtatggggccgacaaaagttcagagaattgtggctatcactctcct Alignment from Spaln_nt2Genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTGA--------------- tacaagggcagggtgaacagagactgtgccctggccctgttcccctccagATTATGTATGTGTCCTGGATATTGACCTCCTGGAGCTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGATTGAAGAAGAAGAGAAATAgctctctgggccccgtaggtatggggccgacaaaagttcagagaattgtggctatcactctcct Alignment from Pairagon ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG------------------------------ tacaagggcagggtgaacagagactgtgccctggccctgttcccctccagATTATGTATGTGTCCTGGATATTGACCTCCTGGAGCTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGATTGAAGAAGAAGAGAAATAGCTCTCTGGGCCCCgtaggtatggggccgacaaaagttcagagaattgtggctatcactctcct Alignment from Exonerate_protein2genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tacaagggcagggtgaacagagactgtgccctggccctgttcccctccagATTATGTATGTGTCCTGGATATTGACCTCCTGGAGCTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGATTGaagaagaagagaaatagctctctgggccccgtaggtatggggccgacaaaagttcagagaattgtggctatcactctcct Alignment from Exonerate_coding2genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tacaagggcagggtgaacagagactgtgccctggccctgttcccctccagATTATGTATGTGTCCTGGATATTGACCTCCTGGAGCTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGATTGaagaagaagagaaatagctctctgggccccgtaggtatggggccgacaaaagttcagagaattgtggctatcactctcct Alignment from GeneWise ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG------------------------------ tacaagggcagggtgaacagagactgtgccctggccctgttcccctccagATTATGTATGTGTCCTGGATATTGACCTCCTGGAGCTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGATTGAAGAAGAAGAGAAATAGCTCTCTGGGCCCCgtaggtatggggccgacaaaagttcagagaattgtggctatcactctcct #### Atg2a_ID1540_29 --> 0 - 2 Original Alignment CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACag ctaaatatgttgtcacacgcctactgagcacgcctgtactttttcaacag------GACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCATGACAGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGTGCGCCTGCCCACTTCCCAGTGCCCAGCAGCCGCGTGGTACTATGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGCAGAGACTTTGGCCTTCACCCCACTTACaggtaacaggcatgtagatagcagctggttgcgttagactgcaggcatagct Alignment from CESAR CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACag gctgggctaaatatgttgtcacacggagcacgcctgtactttttcaacag------GACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCATGACAGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGTGCGCCTGCCCACTTCCCAGTGCCCAGCAGCCGCGTGGTACTATGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGCAGAGACTTTGGCCTTCACCCCACTTACaggtaacaggcatgtagatagcagctggttgcgttagactgcaggcatagct Alignment from Spaln_aa2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG ctaaatatgttgtcacacgcctactgagcacgcctgtactttttcaacag------GACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCATGACAGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGTGCGCCTGCCCACTTCCCAGTGCCCAGCAGCCGCGTGGTACTATGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGCAGAGACTTTGGCCTTCACCCCACTTACAGgtaacaggcatgtagatagcagctggttgcgttagactgcaggcatagct Alignment from Spaln_nt2Genome GACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG ctaaatatgttgtcacacgcctactgagcacgcctgtactttttcaacagGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCATGACAGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGTGCGCCTGCCCACTTCCCAGTGCCCAGCAGCCGCGTGGTACTATGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGCAGAGACTTTGGCCTTCACCCCACTTACAGgtaacaggcatgtagatagcagctggttgcgttagactgcaggcatagct Alignment from Pairagon CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG ctaaatatgttgtcacacgcctactgagcacgcctgtactttttcaacag------GACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCATGACAGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGTGCGCCTGCCCACTTCCCAGTGCCCAGCAGCCGCGTGGTACTATGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGCAGAGACTTTGGCCTTCACCCCACTTACAGgtaacaggcatgtagatagcagctggttgcgttagactgcaggcatagct Alignment from Exonerate_protein2genome GACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG ctaaatatgttgtcacacgcctactgagcacgcctgtactttttcaacagGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCATGACAGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGTGCGCCTGCCCACTTCCCAGTGCCCAGCAGCCGCGTGGTACTATGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGCAGAGACTTTGGCCTTCACCCCACTTACAGgtaacaggcatgtagatagcagctggttgcgttagactgcaggcatagct Alignment from Exonerate_coding2genome GACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG ctaaatatgttgtcacacgcctactgagcacgcctgtactttttcaacagGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCATGACAGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGTGCGCCTGCCCACTTCCCAGTGCCCAGCAGCCGCGTGGTACTATGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGCAGAGACTTTGGCCTTCACCCCACTTACAGgtaacaggcatgtagatagcagctggttgcgttagactgcaggcatagct Alignment from GeneWise ----------------CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG ctaaatatgttgtcacacgcctactgagCACGCCTGTACTTTTTCAACAGGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCATGACAGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGTGCGCCTGCCCACTTCCCAGTGCCCAGCAGCCGCGTGGTACTATGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGCAGAGACTTTGGCCTTCACCCCACTTACAGgtaacaggcatgtagatagcagctggttgcgttagactgcaggcatagct #### Atg2a_ID1543_32 --> 0 - 0 Original Alignment CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcccaaggcccaccagacacgacttcaatgttcctcttgcagCTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGTGTCGGAGGGCCGGAGTGTTGTCTTCGAGCGTCCATGATGCCTCTGAGGCTCAAT---------gttggtatacagccttgcttattaaaggcagaggccagtgagggcccttc Alignment from CESAR CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcccaaggcccaccagacacgacttcaatgttcctcttgcagCTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGTGTCGGAGGGCCGGAGTGTTGTCTTCGAGCGTCCATGATGCCTCTGAGGCTCAAT---------gttggtatacagccttgcttattaaaggcagaggccagtga Alignment from Spaln_aa2Genome CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAAT aatggggctcccaaggcccaccagacacgacttcaatgttcctcttgcagCTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGTGTCGGAGGGCCGGAGTGTTGTCTTCGAGCGTCCATGATGCCTCTGAGGCTCAATgttggtatacagccttgcttattaaaggcagaggccagtgagggcccttc Alignment from Spaln_nt2Genome CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGG aatggggctcccaaggcccaccagacacgacttcaatgttcctcttgcagCTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGTGTCGGAGGGCCGGAGTGTTGTCTTCGAGCGTCCATGATGCCTCTGAGGCTCAATGTTGgtatacagccttgcttattaaaggcagaggccagtgagggcccttc Alignment from Pairagon CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGT------------------------------------------------ aatggggctcccaaggcccaccagacacgacttcaatgttcctcttgcagCTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGTGTCGGAGGGCCGGAGTGTTGTCTTCGAGCGTCCATGATGCCTCTGAGGCTCAATGTTGGTATACAGCCTTGCTTATTAAAGGCAGAGGCCAGTGAGGGCCCTTC Alignment from Exonerate_protein2genome CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAAT aatggggctcccaaggcccaccagacacgacttcaatgttcctcttgcagCTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGTGTCGGAGGGCCGGAGTGTTGTCTTCGAGCGTCCATGATGCCTCTGAGGCTCAATgttggtatacagccttgcttattaaaggcagaggccagtgagggcccttc Alignment from Exonerate_coding2genome CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAAT aatggggctcccaaggcccaccagacacgacttcaatgttcctcttgcagCTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGTGTCGGAGGGCCGGAGTGTTGTCTTCGAGCGTCCATGATGCCTCTGAGGCTCAATgttggtatacagccttgcttattaaaggcagaggccagtgagggcccttc Alignment from GeneWise CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGAC-------------------------------------------- aatggggctcccaaggcccaccagacacgacttcaatgttcctcttgcagCTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGTGTCGGAGGGCCGGAGTGTTGTCTTCGAGCGTCCATGATGCCTCTGAGGCTCAATGTTGGTATACAGCCTTGCTTATTAAAGGCAGAGGCCAGTGAGGGCCCTTC #### Atg2a_ID1546_35 --> 1 - 0 Original Alignment gGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG--- ggtggccagttagaggccagggggtctacctgtgactcttcccccttcaggGAGTTCCGGTTCACATCTGAGGTGCCCATCTGCCTGGCTTACCATGGTAAGCATGTCACGGTGGACCAGGTGATCgtaagaggttctattgggcgggctgtgtgagctgttgtcagtgtccagtg Alignment from CESAR gGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG--- ggtggccagttagaggccagggggtctacctgtgactcttcccccttcaggGAGTTCCGGTTCACATCTGAGGTGCCCATCTGCCTGGCTTACCATGGTAAGCATGTCACGGTGGACCAGGTGATCgtaagaggttctattgggcgggctgtgtgagctgttgtcagtgtccagtg Alignment from Spaln_aa2Genome GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG--- ggtggccagttagaggccagggggtctacctgtgactcttcccccttcagGGAGTTCCGGTTCACATCTGAGGTGCCCATCTGCCTGGCTTACCATGGTAAGCATGTCACGGTGGACCAGGTGATCgtaagaggttctattgggcgggctgtgtgagctgttgtcagtgtccagtg Alignment from Spaln_nt2Genome GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG--- ggtggccagttagaggccagggggtctacctgtgactcttcccccttcagGGAGTTCCGGTTCACATCTGAGGTGCCCATCTGCCTGGCTTACCATGGTAAGCATGTCACGGTGGACCAGGTGATCgtaagaggttctattgggcgggctgtgtgagctgttgtcagtgtccagtg Alignment from Pairagon GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG--- ggtggccagttagaggccagggggtctacctgtgactcttcccccttcagGGAGTTCCGGTTCACATCTGAGGTGCCCATCTGCCTGGCTTACCATGGTAAGCATGTCACGGTGGACCAGGTGATCgtaagaggttctattgggcgggctgtgtgagctgttgtcagtgtccagtg Alignment from Exonerate_protein2genome GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG--- ggtggccagttagaggccagggggtctacctgtgactcttcccccttcagGGAGTTCCGGTTCACATCTGAGGTGCCCATCTGCCTGGCTTACCATGGTAAGCATGTCACGGTGGACCAGGTGATCgtaagaggttctattgggcgggctgtgtgagctgttgtcagtgtccagtg Alignment from Exonerate_coding2genome GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG--- ggtggccagttagaggccagggggtctacctgtgactcttcccccttcagGGAGTTCCGGTTCACATCTGAGGTGCCCATCTGCCTGGCTTACCATGGTAAGCATGTCACGGTGGACCAGGTGATCgtaagaggttctattgggcgggctgtgtgagctgttgtcagtgtccagtg Alignment from GeneWise GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTGGGC ggtggccagttagaggccagggggtctacctgtgactcttcccccttcagGGAGTTCCGGTTCACATCTGAGGTGCCCATCTGCCTGGCTTACCATGGTAAGCATGTCACGGTGGACCAGGTGATCgtaagaggttctattgggcgggctgtgtgagctgttgtcagtgtccagtg #### BC049760_ID1437_2 --> 0 - 2 Original Alignment CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGac gggttggatgcctcatgctgttcagtttaatcgtagtgttacatttgtagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCAATAGATGATGAG---acgtagggagtctgcctgaaaagttgcctgaatagtgtgtcttattagtgag Alignment from CESAR CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGac gggttggatgcctcatgctgttcagtttaatcgtagtgttacatttgtagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCAATAGATGATGAG---acgtagggagtctgcctgaaaagttgcctgaatagtgtgtcttattagtgag Alignment from Spaln_aa2Genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC gggttggatgcctcatgctgttcagtttaatcgtagtgttacatttgtagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCAATAGATGATGAGACgtagggagtctgcctgaaaagttgcctgaatagtgtgtcttattagtgag Alignment from Spaln_nt2Genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC gggttggatgcctcatgctgttcagtttaatcgtagtgttacatttgtagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCAATAGATGATGAGACgtagggagtctgcctgaaaagttgcctgaatagtgtgtcttattagtgag Alignment from Pairagon CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC gggttggatgcctcatgctgttcagtttaatcgtagtgttacatttgtagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCAATAGATGATGAGACgtagggagtctgcctgaaaagttgcctgaatagtgtgtcttattagtgag Alignment from Exonerate_protein2genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGAC gggttggatgcctcatgctgttcagtttaatcgtagtgttacatttgtagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCAATAGATGATGAGACGTAgggagtctgcctgaaaagttgcctgaatagtgtgtcttattagtgag Alignment from Exonerate_coding2genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGAC gggttggatgcctcatgctgttcagtttaatcgtagtgttacatttgtagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCAATAGATGATGAGACGTAgggagtctgcctgaaaagttgcctgaatagtgtgtcttattagtgag Alignment from GeneWise CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC gggttggatgcctcatgctgttcagtttaatcgtagtgttacatttgtagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCAATAGATGATGAGACgtagggagtctgcctgaaaagttgcctgaatagtgtgtcttattagtgag #### Bbs1_ID718_16 --> 0 - 0 Original Alignment ---GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggtgtgtgggctttgaggggcaatggcttttcactttcattgcagTTCGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagtggctacttcgggggcaagtgggaccctggggaagcagtagggtg Alignment from CESAR ---GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggtgtgtgggctttgaggggcaatggcttttcactttcattgcagTTCGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagtggctacttcgggggcaagtgggaccctggggaagcagtagggtg Alignment from Spaln_aa2Genome GTTCCCTTGCTGGTA---CCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggtgtgtgggctttgaggggcaatggcttttcactttcattgcagTTCGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagtggctacttcgggggcaagtgggaccctggggaagcagtagggtg Alignment from Spaln_nt2Genome GTTCCCTTGCT---GGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggtgtgtgggctttgaggggcaatggcttttcactttcattgcagTTCGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagtggctacttcgggggcaagtgggaccctggggaagcagtagggtg Alignment from Pairagon ---GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggtgtgtgggctttgaggggcaatggcttttcactttcattgcagTTCGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagtggctacttcgggggcaagtgggaccctggggaagcagtagggtg Alignment from Exonerate_protein2genome ---GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggtgtgtgggctttgaggggcaatggcttttcactttcattgcagTTCGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagtggctacttcgggggcaagtgggaccctggggaagcagtagggtg Alignment from Exonerate_coding2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggtgtgtgggctttgaggggcaatggcttttcactttcattgcagttcGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagtggctacttcgggggcaagtgggaccctggggaagcagtagggtg Alignment from GeneWise ---GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggtgtgtgggctttgaggggcaatggcttttcactttcattgcagTTCGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtgagtggctacttcgggggcaagtgggaccctggggaagcagtagggtg #### Bbs1_ID729_5 --> 0 - 2 Original Alignment ------------------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCag tcatggctgccagagctcacagcctcacacggtgtgccttctttcctcagCCATATGACGTGAATCTGGACCAGATTGACCCCTTGACCCTGAAAGAGATGCTGGAGGACATCaggtattagctcacctttcctcttggtgccccttcatcccaaaactctccta Alignment from CESAR ------------------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCag tcatggctgccagagctcacagcctcacacggtgtgccttctttcctcagCCATATGACGTGAATCTGGACCAGATTGACCCCTTGACCCTGAAAGAGATGCTGGAGGACATCaggtattagctcacctttcctcttggtgccccttcatcccaaaactctccta Alignment from Spaln_aa2Genome ----------------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG tcatggctgccagagctcacagcctcacacggtgtgccttctttcctcagCCATATGACGTGAATCTGGACCAGATTGACCCCTTGACCCTGAAAGAGATGCTGGAGGACATCAGgtattagctcacctttcctcttggtgccccttcatcccaaaactctccta Alignment from Spaln_nt2Genome GATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG tcatggctgccagagctcacagcctcacacggtgtgccttctttcctcagccatatgacgtgaatctggaccagATTG-ACCCCTTGACCCTGAAAGAGATGCTGGAGGACATCAGgtattagctcacctttcctcttggtgccccttcatcccaaaactctccta Alignment from Pairagon ------------------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG tcatggctgccagagctcacagcctcacacggtgtgccttctttcctcagCCATATGACGTGAATCTGGACCAGATTGACCCCTTGACCCTGAAAGAGATGCTGGAGGACATCAGgtattagctcacctttcctcttggtgccccttcatcccaaaactctccta Alignment from Exonerate_protein2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG tcatggctgccagagctcacagcctcacacggtgtgccttctttcctcagccatatgacgtgaatctgGACCAGATTGACCCCTTGACCCTGAAAGAGATGCTGGAGGACATCAGgtattagctcacctttcctcttggtgccccttcatcccaaaactctccta Alignment from Exonerate_coding2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG tcatggctgccagagctcacagcctcacacggtgtgccttctttcctcagccatatgacgtgaatctgGACCAGATTGACCCCTTGACCCTGAAAGAGATGCTGGAGGACATCAGgtattagctcacctttcctcttggtgccccttcatcccaaaactctccta Alignment from GeneWise ------------------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG tcatggctgccagagctcacagcctcacacggtgtgccttctttcctcagCCATATGACGTGAATCTGGACCAGATTGACCCCTTGACCCTGAAAGAGATGCTGGAGGACATCAGgtattagctcacctttcctcttggtgccccttcatcccaaaactctccta #### Bbs1_ID732_2 --> 1 - 1 Original Alignment cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt atttatttcgtcatggggcatattttctctttattaaaatggtatcacagcAATGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCC---------tgtaagtctctgtagtttacatgcatgtctagggacatccagattctaagg Alignment from CESAR cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt atttatttcgtcatggggcatattttctctttattaaaatggtatcacagcAATGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCC---------tgtaagtctctgtagtttacatgcatgtctagggacatccagattctaagg Alignment from Spaln_aa2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCT atttatttcgtcatggggcatattttctctttattaaaatggtatcacagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTgtaagtctctgtagtttacatgcatgtctagggacatccagattctaagg Alignment from Spaln_nt2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCT-GCCTGT atttatttcgtcatggggcatattttctctttattaaaatggtatcacagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTGTAAGTCTCTgtagtttacatgcatgtctagggacatccagattctaagg Alignment from Pairagon CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCT atttatttcgtcatggggcatattttctctttattaaaatggtatcacagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTgtaagtctctgtagtttacatgcatgtctagggacatccagattctaagg Alignment from Exonerate_protein2genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCT atttatttcgtcatggggcatattttctctttattaaaatggtatcacagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTgtaagtctctgtagtttacatgcatgtctagggacatccagattctaagg Alignment from Exonerate_coding2genome GAGAGCAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCT atttatttcgtcatggggcatattttctctttattaaaatggtatCACAGCAATGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTgtaagtctctgtagtttacatgcatgtctagggacatccagattctaagg Alignment from GeneWise AGCAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCT atttatttcgtcatggggcatattttctctttattaaaatggtatcacAGCAATGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTgtaagtctctgtagtttacatgcatgtctagggacatccagattctaagg #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg agtgcctggctctcaccttctgtctcaccactgtcttatcctcaccctagagGGCCAGCTGTCAGAGGAAGAGAAACCAAAGAAG---------------------------------------------ggtgagtgcaccatgtgatgggcaggggcactgtgtggtggggaggggtat Alignment from CESAR agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg agtgcctggctctcaccttctgtctcaccactgtcttatcctcaccctagagGGCCAGCTGTCAGAGGAAGAGAAACCAAAGAAG---------------------------------------------ggtgagtgcaccatgtgatgggcaggggcactgtgtggtggggaggggtat Alignment from Spaln_aa2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGC agtgcctggctctcaccttctgtctcaccactgtcttatcctcaccctagAGGGCCAGCTGTCAGAGGAAGAGAAACCAAAGAAGGgtgagtgcaccatgtgatgggcaggggcactgtgtggtggggaggggtat Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGG agtgcctggctctcaccttctgtctcaccactgtcttatcctcaccctagAGGGCCAGCTGTCAGAGGAAGAGAAACCAAAGAA--GGgtgagtgcaccatgtgatgggcaggggcactgtgtggtggggaggggtat Alignment from Pairagon AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG agtgcctggctctcaccttctgtctcaccactgtcttatcctcaccctagAGGGCCAGCTGTCAGAGGAAGAGAAACCAAAGAAG---------------------------------------------Ggtgagtgcaccatgtgatgggcaggggcactgtgtggtggggaggggtat Alignment from Exonerate_protein2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG agtgcctggctctcaccttctgtctcaccactgtcttatcctcacCCTAGAGGGCCAGCTGTCAGAGGAAGAGAAACCAAAGAAGGGTGAGTGCACCATGTGATGGGCAGGGGCACTGTGTGGTGGggaggggtat Alignment from Exonerate_coding2genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG agtgcctggctctcaccttctgtctcaccactgtcttatcctcacCCTAGAGGGCCAGCTGTCAGAGGAAGAGAAACCAAAGAAGGGTGAGTGCACCATGTGATGGGCAGGGGCACTGTGTGGTGGggaggggtat Alignment from GeneWise AAGAGCCAGAGGCTAGTGATG AGTGCCTGGCTCTCACCTTCTgtctcaccactgtcttatcctcaccctagagggccagctgtcagaggaagagaaaccaaagaagggtgagtgcaccatgtgatgggcaggggcactgtgtggtggggaggggtat #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- cataggtcagacactcgactaggctatcttcatgtaaatctgtaacacaggtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTGGTAGAGACAGCAGACATGATTGGCGAGAGGGAGCTTCGAGATGCCTTCAGGGAGCGAgtgagtcttgggtgaggggtggcgagggtcagtgagattgtgggtctgca Alignment from CESAR gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- cataggtcagacactcgactaggctatcttcatgtaaatctgtaacacaggtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTGGTAGAGACAGCAGACATGATTGGCGAGAGGGAGCTTCGAGATGCCTTCAGGGAGCGAgtgagtcttgggtgaggggtggcgagggtcagtgagattgtgggtctgca Alignment from Spaln_aa2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- cataggtcagacactcgactaggctatcttcatgtaaatctgtaacacagGTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTGGTAGAGACAGCAGACATGATTGGCGAGAGGGAGCTTCGAGATGCCTTCAGGGAGCGAgtgagtcttgggtgaggggtggcgagggtcagtgagattgtgggtctgca Alignment from Spaln_nt2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- cataggtcagacactcgactaggctatcttcatgtaaatctgtaacacagGTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTGGTAGAGACAGCAGACATGATTGGCGAGAGGGAGCTTCGAGATGCCTTCAGGGAGCGAgtgagtcttgggtgaggggtggcgagggtcagtgagattgtgggtctgca Alignment from Pairagon GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- cataggtcagacactcgactaggctatcttcatgtaaatctgtaacacagGTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTGGTAGAGACAGCAGACATGATTGGCGAGAGGGAGCTTCGAGATGCCTTCAGGGAGCGAgtgagtcttgggtgaggggtggcgagggtcagtgagattgtgggtctgca Alignment from Exonerate_protein2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- cataggtcagacactcgactaggctatcttcatgtaaatctgtaacacagGTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTGGTAGAGACAGCAGACATGATTGGCGAGAGGGAGCTTCGAGATGCCTTCAGGGAGCGAgtgagtcttgggtgaggggtggcgagggtcagtgagattgtgggtctgca Alignment from Exonerate_coding2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG--- cataggtcagacactcgactaggctatcttcatgtaaatctgtaacacagGTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTGGTAGAGACAGCAGACATGATTGGCGAGAGGGAGCTTCGAGATGCCTTCAGGGAGCGAgtgagtcttgggtgaggggtggcgagggtcagtgagattgtgggtctgca Alignment from GeneWise GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAGTTC cataggtcagacactcgactaggctatcttcatgtaaatctgtaacacagGTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTGGTAGAGACAGCAGACATGATTGGCGAGAGGGAGCTTCGAGATGCCTTCAGGGAGCGAgtgagtcttgggtgaggggtggcgagggtcagtgagattgtgggtctgca #### Cabp2_ID291_6 --> 0 - 1 Original Alignment TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAg tggattcagggctcagtcagtgatccggaatctatgtattgtcattgcag---GACACCAATGGTGATGGTTGCATCAGTGTAGGGGAGCTCCAGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTAAATGGAGATGGCCTGGTTGACTTTGAAggtacgactccccctacttagccacatataccctcaagggttctaaaccag Alignment from CESAR TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAg gagtggattcagggctcagtcagtgcggaatctatgtattgtcattgcag---GACACCAATGGTGATGGTTGCATCAGTGTAGGGGAGCTCCAGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTAAATGGAGATGGCCTGGTTGACTTTGAAggtacgactccccctacttagccacatataccctcaagggttctaaaccag Alignment from Spaln_aa2Genome TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG tggattcagggctcagtcagtgatccggaatctatgtattgtcattgcag---GACACCAATGGTGATGGTTGCATCAGTGTAGGGGAGCTCCAGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTAAATGGAGATGGCCTGGTTGACTTTGAAGgtacgactccccctacttagccacatataccctcaagggttctaaaccag Alignment from Spaln_nt2Genome GACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG tggattcagggctcagtcagtgatccggaatctatgtattgtcattgcagGACACCAATGGTGATGGTTGCATCAGTGTAGGGGAGCTCCAGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTAAATGGAGATGGCCTGGTTGACTTTGAAGgtacgactccccctacttagccacatataccctcaagggttctaaaccag Alignment from Pairagon TTCGACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG tggattcagggctcagtcagtgatccggaatctatgtattgtcattgcag---GACACCAATGGTGATGGTTGCATCAGTGTAGGGGAGCTCCAGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTAAATGGAGATGGCCTGGTTGACTTTGAAGgtacgactccccctacttagccacatataccctcaagggttctaaaccag Alignment from Exonerate_protein2genome GACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG tggattcagggctcagtcagtgatccggaatctatgtattgtcattgcagGACACCAATGGTGATGGTTGCATCAGTGTAGGGGAGCTCCAGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTAAATGGAGATGGCCTGGTTGACTTTGAAGgtacgactccccctacttagccacatataccctcaagggttctaaaccag Alignment from Exonerate_coding2genome GACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAAG tggattcagggctcagtcagtgatccggaatctatgtattgtcattgcagGACACCAATGGTGATGGTTGCATCAGTGTAGGGGAGCTCCAGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTAAATGGAGATGGCCTGGTTGACTTTGAAGgtacgactccccctacttagccacatataccctcaagggttctaaaccag Alignment from GeneWise GACACCAACGGTGATGGCTGCATCAGCGTAGGGGAGCTCCGGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTCAATGGAGATGGCCTGGTTGACTTTGAA tggattcagggctcagtcagtgatccggaatctatgtattgtcattgcagGACACCAATGGTGATGGTTGCATCAGTGTAGGGGAGCTCCAGGCAGCCCTCAAAGCTCTGCTGGGGGAACGCCTCAGCCAACGGGAAGTAGATGAGATACTCCAAGACATTGACCTAAATGGAGATGGCCTGGTTGACTTTGAAggtacgactccccctacttagccacatataccctcaagggttctaaaccag #### Cabp4_ID339_5 --> 0 - 1 Original Alignment TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTGACg attcaggtaaggtggtgtaaaagccatgtccttgtctgctttcttcacagTTTGACAAGGATAGGGATGGATGGATCATGGTGGCGGAGCTGCGGCAGGCAGCGCCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGAGAAATGGACCTCAATGGGGATGGCACCATAGAATTT---ggtaattgtgaaccctacagacacctcacccctgcctctagtactgtgaag Alignment from CESAR TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTGACg attcaggtaaggtggtgtaaaagccatgtccttgtctgctttcttcacagTTTGACAAGGATAGGGATGGATGGATCATGGTGGCGGAGCTGCGGCAGGCAGCGCCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGAGAAATGGACCTCAATGGGGATGGCACCATAGAATTT---ggtaattgtgaaccctacagacacctcacccctgcctctagtactgtgaag Alignment from Spaln_aa2Genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTT- attcaggtaaggtggtgtaaaagccatgtccttgtctgctttcttcacagTTTGACAAGGATAGGGATGGATGGATCATGGTGGCGGAGCTGCGGCAGGCAGCGCCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGAGAAATGGACCTCAATGGGGATGGCACCATAGAATTTGgtaattgtgaaccctacagacacctcacccctgcctctagtactgtgaag Alignment from Spaln_nt2Genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTG attcaggtaaggtggtgtaaaagccatgtccttgtctgctttcttcacagTTTGACAAGGATAGGGATGGATGGATCATGGTGGCGGAGCTGCGGCAGGCAGCGCCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGAGAAATGGACCTCAATGGGGATGGCACCATAGAATTTGgtaattgtgaaccctacagacacctcacccctgcctctagtactgtgaag Alignment from Pairagon TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTG attcaggtaaggtggtgtaaaagccatgtccttgtctgctttcttcacagTTTGACAAGGATAGGGATGGATGGATCATGGTGGCGGAGCTGCGGCAGGCAGCGCCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGAGAAATGGACCTCAATGGGGATGGCACCATAGAATTTGgtaattgtgaaccctacagacacctcacccctgcctctagtactgtgaag Alignment from Exonerate_protein2genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTGACG attcaggtaaggtggtgtaaaagccatgtccttgtctgctttcttcacagTTTGACAAGGATAGGGATGGATGGATCATGGTGGCGGAGCTGCGGCAGGCAGCGCCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGAGAAATGGACCTCAATGGGGATGGCACCATAGAATTT---Ggtaattgtgaaccctacagacacctcacccctgcctctagtactgtgaag Alignment from Exonerate_coding2genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTTGACG attcaggtaaggtggtgtaaaagccatgtccttgtctgctttcttcacagTTTGACAAGGATAGGGATGGATGGATCATGGTGGCGGAGCTGCGGCAGGCAGCGCCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGAGAAATGGACCTCAATGGGGATGGCACCATAGAATTT---Ggtaattgtgaaccctacagacacctcacccctgcctctagtactgtgaag Alignment from GeneWise TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGACTTT attcaggtaaggtggtgtaaaagccatgtccttgtctgctttcttcacagTTTGACAAGGATAGGGATGGATGGATCATGGTGGCGGAGCTGCGGCAGGCAGCGCCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGAGAAATGGACCTCAATGGGGATGGCACCATAGAATTTggtaattgtgaaccctacagacacctcacccctgcctctagtactgtgaag #### Capn1_ID1362_14 --> 0 - 0 Original Alignment AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT--- agtgctaggcctcaatagccttaacctatctctctgccttgtcattacagAAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATTTGgtgaggcaaggcctggtaagtatgataagatggggatcccctgtgtgaag Alignment from CESAR AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT--- agtgctaggcctcaatagccttaacctatctctctgccttgtcattacagAAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATTTGgtgaggcaaggcctggtaagtatgataagatggggatcccctgtgtgaag Alignment from Spaln_aa2Genome AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT--- agtgctaggcctcaatagccttaacctatctctctgccttgtcattacagAAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATTTGgtgaggcaaggcctggtaagtatgataagatggggatcccctgtgtgaag Alignment from Spaln_nt2Genome AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT--- agtgctaggcctcaatagccttaacctatctctctgccttgtcattacagAAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATTTGgtgaggcaaggcctggtaagtatgataagatggggatcccctgtgtgaag Alignment from Pairagon AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT------------------ agtgctaggcctcaatagccttaacctatctctctgccttgtcattacagAAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATTTGGTGAGGCAAGGCCTGgtaagtatgataagatggggatcccctgtgtgaag Alignment from Exonerate_protein2genome AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT--- agtgctaggcctcaatagccttaacctatctctctgccttgtcattacagAAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATTTGgtgaggcaaggcctggtaagtatgataagatggggatcccctgtgtgaag Alignment from Exonerate_coding2genome AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT--- agtgctaggcctcaatagccttaacctatctctctgccttgtcattacagAAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATTTGgtgaggcaaggcctggtaagtatgataagatggggatcccctgtgtgaag Alignment from GeneWise AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATGAC agtgctaggcctcaatagccttaacctatctctctgccttgtcattacagAAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATTTGgtgaggcaaggcctggtaagtatgataagatggggatcccctgtgtgaag #### Capn1_ID1363_13 --> 1 - 0 Original Alignment gGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG------ ctccctatgtccccaggcccctctgactcctacaccttgtctcactgcaggGAACTAGATGACCAGATTCAGGCCAACCTCCCTGATGAGGGCTCCgtatgtagtccctttgtctcccctggtattcaatgggaggtgggctccag Alignment from CESAR gGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG------ ctccctatgtccccaggcccctctgactcctacaccttgtctcactgcaggGAACTAGATGACCAGATTCAGGCCAACCTCCCTGATGAGGGCTCCgtatgtagtccctttgtctcccctggtattcaatgggaggtgggctccag Alignment from Spaln_aa2Genome GGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG------ ctccctatgtccccaggcccctctgactcctacaccttgtctcactgcagGGAACTAGATGACCAGATTCAGGCCAACCTCCCTGATGAGGGCTCCgtatgtagtccctttgtctcccctggtattcaatgggaggtgggctccag Alignment from Spaln_nt2Genome GGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG------ ctccctatgtccccaggcccctctgactcctacaccttgtctcactgcagGGAACTAGATGACCAGATTCAGGCCAACCTCCCTGATGAGGGCTCCgtatgtagtccctttgtctcccctggtattcaatgggaggtgggctccag Alignment from Pairagon GGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG------ ctccctatgtccccaggcccctctgactcctacaccttgtctcactgcagGGAACTAGATGACCAGATTCAGGCCAACCTCCCTGATGAGGGCTCCgtatgtagtccctttgtctcccctggtattcaatgggaggtgggctccag Alignment from Exonerate_protein2genome GGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG ctccctatgtccccaggcccctctgactcctacaccttgtctcactgcagGGAACTAGATGACCAGATTCAGGCCAACCTCCCTGATGAGggctccgtatgtagtccctttgtctcccctggtattcaatgggaggtgggctccag Alignment from Exonerate_coding2genome GGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG ctccctatgtccccaggcccctctgactcctacaccttgtctcactgcagGGAACTAGATGACCAGATTCAGGCCAACCTCCCTGATGAGggctccgtatgtagtccctttgtctcccctggtattcaatgggaggtgggctccag Alignment from GeneWise GGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG------ ctccctatgtccccaggcccctctgactcctacaccttgtctcactgcagGGAACTAGATGACCAGATTCAGGCCAACCTCCCTGATGAGGGCTCCgtatgtagtccctttgtctcccctggtattcaatgggaggtgggctccag #### Capn1_ID1376_2 --> 0 - 1 Original Alignment GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg taggacgcctcaaataaggtcccaggacagtctgactgacacctcggcag---CTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGggtgaggccccgggggtggggttctgggtgtttgccccatgttctctgttc Alignment from CESAR GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ttctaggacgcctcaaataaggtccgacagtctgactgacacctcggcag---CTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGggtgaggccccgggggtggggttctgggtgtttgccccatgttctctgttc Alignment from Spaln_aa2Genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG taggacgcctcaaataaggtcccaggacagtctgactgacacctcggcag---CTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGGgtgaggccccgggggtggggttctgggtgtttgccccatgttctctgttc Alignment from Spaln_nt2Genome CTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG taggacgcctcaaataaggtcccaggacagtctgactgacacctcggcagCTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGGgtgaggccccgggggtggggttctgggtgtttgccccatgttctctgttc Alignment from Pairagon CTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG taggacgcctcaaataaggtcccaggacagtctgactgacacctcggcagCTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGGgtgaggccccgggggtggggttctgggtgtttgccccatgttctctgttc Alignment from Exonerate_protein2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG taggacgcctcaaataaggtcccaggacagtctgactgacacctcggCAGCTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGGgtgaggccccgggggtggggttctgggtgtttgccccatgttctctgttc Alignment from Exonerate_coding2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG taggacgcctcaaataaggtcccaggacagtctgactgacacctcggCAGCTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGGgtgaggccccgggggtggggttctgggtgtttgccccatgttctctgttc Alignment from GeneWise CTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG taggacgcctcaaataaggtcccaggacagtctgactgacacctcggcagCTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGGgtgaggccccgggggtggggttctgggtgtttgccccatgttctctgttc #### Carns1_ID386_6 --> 2 - 0 Original Alignment gcGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG--- agacagacctctataccttatctgggctgttctcactgtgtgtgttccaggtGGTCCTGCACCTGGCCCTGAGCTAGCTGTGCATATCTGTGCAGTGGTGTGTCAGATTCAGGGTGATAGGCCCCTACTGAGTAAGAACgtgagtatggctctggtctaggatgcagtcctgtccaccccagctctgcc Alignment from CESAR gcGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG--- agacagacctctataccttatctgggctgttctcactgtgtgtgttccaggtGGTCCTGCACCTGGCCCTGAGCTAGCTGTGCATATCTGTGCAGTGGTGTGTCAGATTCAGGGTGATAGGCCCCTACTGAGTAAGAACgtgagtatggctctggtctaggatgcagtcctgtccaccccagctctgcc Alignment from Spaln_aa2Genome GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG--- agacagacctctataccttatctgggctgttctcactgtgtgtgttccagGTGGTCCTGCACCTGGCCCTGAGCTAGCTGTGCATATCTGTGCAGTGGTGTGTCAGATTCAGGGTGATAGGCCCCTACTGAGTAAGAACgtgagtatggctctggtctaggatgcagtcctgtccaccccagctctgcc Alignment from Spaln_nt2Genome GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG--- agacagacctctataccttatctgggctgttctcactgtgtgtgttccagGTGGTCCTGCACCTGGCCCTGAGCTAGCTGTGCATATCTGTGCAGTGGTGTGTCAGATTCAGGGTGATAGGCCCCTACTGAGTAAGAACgtgagtatggctctggtctaggatgcagtcctgtccaccccagctctgcc Alignment from Pairagon GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG--- agacagacctctataccttatctgggctgttctcactgtgtgtgttccagGTGGTCCTGCACCTGGCCCTGAGCTAGCTGTGCATATCTGTGCAGTGGTGTGTCAGATTCAGGGTGATAGGCCCCTACTGAGTAAGAACgtgagtatggctctggtctaggatgcagtcctgtccaccccagctctgcc Alignment from Exonerate_protein2genome GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG--- agacagacctctataccttatctgggctgttctcactgtgtgtgttccagGTGGTCCTGCACCTGGCCCTGAGCTAGCTGTGCATATCTGTGCAGTGGTGTGTCAGATTCAGGGTGATAGGCCCCTACTGAGTAAGAACgtgagtatggctctggtctaggatgcagtcctgtccaccccagctctgcc Alignment from Exonerate_coding2genome GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAG--- agacagacctctataccttatctgggctgttctcactgtgtgtgttccagGTGGTCCTGCACCTGGCCCTGAGCTAGCTGTGCATATCTGTGCAGTGGTGTGTCAGATTCAGGGTGATAGGCCCCTACTGAGTAAGAACgtgagtatggctctggtctaggatgcagtcctgtccaccccagctctgcc Alignment from GeneWise GCGGTCCTGCACCTGGCCCTGAGCTGGCTGTGCGTATCTGTGCAGTGGTGTGTCGGATTCAGGGTGATAGGCCCCTACTGAGTAAGGTG agacagacctctataccttatctgggctgttctcactgtgtgtgttccagGTGGTCCTGCACCTGGCCCTGAGCTAGCTGTGCATATCTGTGCAGTGGTGTGTCAGATTCAGGGTGATAGGCCCCTACTGAGTAAGAACgtgagtatggctctggtctaggatgcagtcctgtccaccccagctctgcc #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa ggtatccatggtgggatttttgtgaattcattgctgtacaaatgttttagg---------------------------------------GTGGAGAAAATCATGGACCAGTACCGTGTACTAGAACCTGGGCCCCTACCCCGTACCaagtgagtccctaccttccagaaccaggatcctgttaacctttgccctgtcc Alignment from CESAR gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa ttcccaggctttgggatttttgtgaattcattgctgtacaaatgttttagg---------------------------------------GTGGAGAAAATCATGGACCAGTACCGTGTACTAGAACCTGGGCCCCTACCCCGTACCaagtgagtccctaccttccagaaccaggatcctgttaacctttgccctgtcc Alignment from Spaln_aa2Genome -GTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA ggtatccatggtgggatttttgtgaattcattgctgtacaaatgttttagGGTGGAGAAAATCATGGACCAGTACCGTGTACTAGAACCTGGGCCCCTACCCCGTACCAAgtgagtccctaccttccagaaccaggatcctgttaacctttgccctgtcc Alignment from Spaln_nt2Genome G-TGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA ggtatccatggtgggatttttgtgaattcattgctgtacaaatgttttagGGTGGAGAAAATCATGGACCAGTACCGTGTACTAGAACCTGGGCCCCTACCCCGTACCAAgtgagtccctaccttccagaaccaggatcctgttaacctttgccctgtcc Alignment from Pairagon GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA ggtatccatggtgggatttttgtgaattcattgctgtacaaatgttttag---------------------------------------GGTGGAGAAAATCATGGACCAGTACCGTGTACTAGAACCTGGGCCCCTACCCCGTACCAAgtgagtccctaccttccagaaccaggatcctgttaacctttgccctgtcc Alignment from Exonerate_protein2genome GGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA ggtatccatggtgggatttttgtgaattcattgctgtacaaatgttttagGGTGGAGAAAATCATGGACCAGTACCGTGTACTAGAACCTGGGCCCCTACCCCGTACCAAgtgagtccctaccttccagaaccaggatcctgttaacctttgccctgtcc Alignment from Exonerate_coding2genome GGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA ggtatccatggtgggatttttgtgaattcattgctgtacaaatgttttagGGTGGAGAAAATCATGGACCAGTACCGTGTACTAGAACCTGGGCCCCTACCCCGTACCAAgtgagtccctaccttccagaaccaggatcctgttaacctttgccctgtcc Alignment from GeneWise -GTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA ggtatccatggtgggatttttgtgaattcattgctgtacaaatgttttagGGTGGAGAAAATCATGGACCAGTACCGTGTACTAGAACCTGGGCCCCTACCCCGTACCAAgtgagtccctaccttccagaaccaggatcctgttaacctttgccctgtcc #### Ccdc88b_ID1827_22 --> 0 - 2 Original Alignment CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct atggacagtccagagccgggtattcatcactcccgattgttttactccagCTTCTGACCCAGCTTCGCAGTGTGCAGGAGGAGGAGAACAGGCAGCTGTTAGCAGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGTAGCCTGGAGAGC---GACCCTCTGCATCGCGAGCAGCGA------ctgtgagtctagttatgctcagggtcaggttcctcagggagccccaagttct Alignment from CESAR CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct atggacagtccagagccgggtattcatcactcccgattgttttactccagCTTCTGACCCAGCTTCGCAGTGTGCAGGAGGAGGAGAACAGGCAGCTGTTAGCAGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGTAGCCTGGAGAGC---GACCCTCTGCATCGCGAGCAGCGA------ctgtgagtctagttatgctcagggtcaggttcctcagggagccccaagttct Alignment from Spaln_aa2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGA atggacagtccagagccgggtattcatcactcccgattgttttactccagCTTCTGACCCAGCTTCGCAGTGTGCAGGAGGAGGAGAACAGGCAGCTGTTAGCAGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGTAGCCTGGAGAGC---GACCCTCTGCATCGCGAGCAGCGACTgtgagtctagttatgctcagggtcaggttcctcagggagccccaagttct Alignment from Spaln_nt2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT atggacagtccagagccgggtattcatcactcccgattgttttactccagCTTCTGACCCAGCTTCGCAGTGTGCAGGAGGAGGAGAACAGGCAGCTGTTAGCAGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGTAGCCTGGAGAGC---GACCCTCTGCATCGCGAGCAGCGA------CTgtgagtctagttatgctcagggtcaggttcctcagggagccccaagttct Alignment from Pairagon CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT atggacagtccagagccgggtattcatcactcccgattgttttactccagCTTCTGACCCAGCTTCGCAGTGTGCAGGAGGAGGAGAACAGGCAGCTGTTAGCAGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGTAGCCTGGAGA---GCGACCCTCTGCATCGCGAGCAGCGA------CTgtgagtctagttatgctcagggtcaggttcctcagggagccccaagttct Alignment from Exonerate_protein2genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT atggacagtccagagccgggtattcatcactcccgattgttttactccagCTTCTGACCCAGCTTCGCAGTGTGCAGGAGGAGGAGAACAGGCAGCTGTTAGCAGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGTAGCCTGGAGAGC---GACCCTCTGCATCGCGAGCAGCGACTGTGAGTctagttatgctcagggtcaggttcctcagggagccccaagttct Alignment from Exonerate_coding2genome GTGAGCTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT atggacagtccagagccgggtattcatcactcccgattgttttactccag-----CTTCTGACCCAGCTTCGCAGTGTGCAGGAGGAGGAGAACAGGCAGCTGTTAGCAGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGTAGCCTGGAGAGC---GACCCTCTGCATCGCGAGCAGCGACTGTGAGTctagttatgctcagggtcaggttcctcagggagccccaagttct Alignment from GeneWise CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGA atggacagtccagagccgggtattcatcactcccgattgttttactccagCTTCTGACCCAGCTTCGCAGTGTGCAGGAGGAGGAGAACAGGCAGCTGTTAGCAGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGTAGCCTGGAGAGC---GACCCTCTGCATCGCGAGCAGCGACTgtgagtctagttatgctcagggtcaggttcctcagggagccccaagttct #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag tgtcacggctacagcccttgagctctgacctcttcttctgccctgtgcagg------CAGTTGCATGCCCAACGGGCCAATGTTGAGGCACAAGAGGTAACCCTACTGGCAGAGCGTGAGCACTTGATGCAGGATGGACATCGGCAGCGTGGCCTGGAGGAAGAGCTGCGCAGACTTCAGAATGAGCATGAGaggtgagcgctctggtccagccctgaccccccacccccacccccaggttagc Alignment from CESAR gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGag cctacttgtcacggctacagccctttgacctcttcttctgccctgtgcagg------CAGTTGCATGCCCAACGGGCCAATGTTGAGGCACAAGAGGTAACCCTACTGGCAGAGCGTGAGCACTTGATGCAGGATGGACATCGGCAGCGTGGCCTGGAGGAAGAGCTGCGCAGACTTCAGAATGAGCATGAGaggtgagcgctctggtccagccctgaccccccacccccacccccaggttagc Alignment from Spaln_aa2Genome TTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG tgtcacggctacagcccttgagctctgacctcttcttctgccctgtgcaggcagTTGCATGCCCAACGGGCCAATGTTGAGGCACAAGAGGTAACCCTACTGGCAGAGCGTGAGCACTTGATGCAGGATGGACATCGGCAGCGTGGCCTGGAGGAAGAGCTGCGCAGACTTCAGAATGAGCATGAGAGgtgagcgctctggtccagccctgaccccccacccccacccccaggttagc Alignment from Spaln_nt2Genome GCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG tgtcacggctacagcccttgagctctgacctcttcttctgccctgtgcagGCAGTTGCATGCCCAACGGGCCAATGTTGAGGCACAAGAGGTAACCCTACTGGCAGAGCGTGAGCACTTGATGCAGGATGGACATCGGCAGCGTGGCCTGGAGGAAGAGCTGCGCAGACTTCAGAATGAGCATGAGAGgtgagcgctctggtccagccctgaccccccacccccacccccaggttagc Alignment from Pairagon GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG tgtcacggctacagcccttgagctctgacctcttcttctgccctgtgcag------GCAGTTGCATGCCCAACGGGCCAATGTTGAGGCACAAGAGGTAACCCTACTGGCAGAGCGTGAGCACTTGATGCAGGATGGACATCGGCAGCGTGGCCTGGAGGAAGAGCTGCGCAGACTTCAGAATGAGCATGAGAGgtgagcgctctggtccagccctgaccccccacccccacccccaggttagc Alignment from Exonerate_protein2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG tgtcacggctacagcccttgagctctgacctcttcttctgccctGTGCAGGCAGTTGCATGCCCAACGGGCCAATGTTGAGGCACAAGAGGTAACCCTACTGGCAGAGCGTGAGCACTTGATGCAGGATGGACATCGGCAGCGTGGCCTGGAGGAAGAGCTGCGCAGACTTCAGAATGAGCATGAGAGgtgagcgctctggtccagccctgaccccccacccccacccccaggttagc Alignment from Exonerate_coding2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG tgtcacggctacagcccttgagctctgacctcttcttctgccctGTGCAGGCAGTTGCATGCCCAACGGGCCAATGTTGAGGCACAAGAGGTAACCCTACTGGCAGAGCGTGAGCACTTGATGCAGGATGGACATCGGCAGCGTGGCCTGGAGGAAGAGCTGCGCAGACTTCAGAATGAGCATGAGAGgtgagcgctctggtccagccctgaccccccacccccacccccaggttagc Alignment from GeneWise GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAG tgtcacggctacagcccttgagctctgacctcttcttctgccctgtgcagG------CAGTTGCATGCCCAACGGGCCAATGTTGAGGCACAAGAGGTAACCCTACTGGCAGAGCGTGAGCACTTGATGCAGGATGGACATCGGCAGCGTGGCCTGGAGGAAGAGCTGCGCAGACTTCAGAATGAGCATGAGAGgtgagcgctctggtccagccctgaccccccacccccacccccaggttagc #### Ccdc88b_ID1832_17 --> 0 - 0 Original Alignment ---------CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT tgtgtgtgtgaggcacctgcaatttgtggtctccctgtccccacccccagTATGACTTTCTGCGTCAGTACCCAGTGGACCTG---GCTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACTCAGAATGGACGGCTCATCGAAGTGGAGCAAAATgtgagtgaaaaactgggggttgcccaagggatggcagggctaacaactta Alignment from CESAR ---------CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT tgtgtgtgtgaggcacctgcaatttgtggtctccctgtccccacccccagTATGACTTTCTGCGTCAGTACCCAGTGGACCTGGCT---GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACTCAGAATGGACGGCTCATCGAAGTGGAGCAAAATgtgagtgaaaaactgggggttgcccaagggatggcagggctaacaactta Alignment from Spaln_aa2Genome CTGCGCCAG---------TACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT tgtgtgtgtgaggcacctgcaatttgtggtctccctgtccccacccccagTATGACTTTCTGCGTCAGTACCCAGTGGACCTGGCT---GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACTCAGAATGGACGGCTCATCGAAGTGGAGCAAAATgtgagtgaaaaactgggggttgcccaagggatggcagggctaacaactta Alignment from Spaln_nt2Genome ---------CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT tgtgtgtgtgaggcacctgcaatttgtggtctccctgtccccacccccagTATGACTTTCTGCGTCAGTACCCAGTGGACCTGG---CTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACTCAGAATGGACGGCTCATCGAAGTGGAGCAAAATgtgagtgaaaaactgggggttgcccaagggatggcagggctaacaactta Alignment from Pairagon ---------CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT tgtgtgtgtgaggcacctgcaatttgtggtctccctgtccccacccccagTATGACTTTCTGCGTCAGTACCCAGTGGACCTGG---CTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACTCAGAATGGACGGCTCATCGAAGTGGAGCAAAATgtgagtgaaaaactgggggttgcccaagggatggcagggctaacaactta Alignment from Exonerate_protein2genome CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT tgtgtgtgtgaggcacctgcaatttgtggtctccctgtccccacccccagtatgactttCTGCGTCAGTACCCAGTGGACCTGGCT---GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACTCAGAATGGACGGCTCATCGAAGTGGAGCAAAATgtgagtgaaaaactgggggttgcccaagggatggcagggctaacaactta Alignment from Exonerate_coding2genome CTGATTCAGCTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT tgtgtgtgtgaggcacctgcaatttgtggtctccctgtccccacccccagTATGACTTTCTGCGTCAGTACCCAGTGGACCTGG---CTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACTCAGAATGGACGGCTCATCGAAGTGGAGCAAAATgtgagtgaaaaactgggggttgcccaagggatggcagggctaacaactta Alignment from GeneWise ---------CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT tgtgtgtgtgaggcacctgcaatttgtggtctccctgtccccacccccagTATGACTTTCTGCGTCAGTACCCAGTGGACCTGGCT---GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACTCAGAATGGACGGCTCATCGAAGTGGAGCAAAATgtgagtgaaaaactgggggttgcccaagggatggcagggctaacaactta #### Ccdc88b_ID1833_16 --> 1 - 0 Original Alignment gTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG tttgatgatagatttcatcataagacctgtggcacttctcttggcttcagg------------------------------GAGCTGCAGGCAGCATCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCACGAGCCCTGCAGTTGGAGGAGGAGCTGATCCAGgtaatcctgcctgagacggaggtgctggcacccatctgcaatccaacaat Alignment from CESAR gTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagaaggaaggactaggtgttaagacctgtggcacttctcttggcttcagg------------------------------GAGCTGCAGGCAGCATCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCACGAGCCCTGCAGTTGGAGGAGGAGCTGATCCAGgtaatcctgcctgagacggaggtgctggcacccatctgcaatccaacaat Alignment from Spaln_aa2Genome GTACCGGCAT------CTGGAGCAGCGTCTGGAA---GCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG tttgatgatagATTTCATCATAAGACCTGTGGCACTTCTCTTGGCTTCAGGGAGCTGCAGGCAGCATCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCACGAGCCCTGCAGTTGGAGGAGGAGCTGATCCAGgtaatcctgcctgagacggaggtgctggcacccatctgcaatccaacaat Alignment from Spaln_nt2Genome GTACCGGCAT-----CTGGAGCAGCGTCTGGAAGCT-----GAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG ttgatgatagATTTCATCATAAGACCTGTGGCA-CTTCTCTTGGCTTCAGGGAGCTGCAGGCAGCATCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCACGAGCCCTGCAGTTGGAGGAGGAGCTGATCCAGgtaatcctgcctgagacggaggtgctggcacccatctgcaatccaacaat Alignment from Pairagon GTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG tttgatgatagatttcatcataagacctgtggcacttctcttggcttcagG------------------------------GAGCTGCAGGCAGCATCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCACGAGCCCTGCAGTTGGAGGAGGAGCTGATCCAGgtaatcctgcctgagacggaggtgctggcacccatctgcaatccaacaat Alignment from Exonerate_protein2genome GTACCGGCATCTGGAGCAGCGTCTGGAA---------GCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG tttgatgatagATTTCATCATAAGACCTGTGGCACTTCTCTTGGCTTCAGGGAGCTGCAGGCAGCATCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCACGAGCCCTGCAGTTGGAGGAGGAGCTGATCCAGgtaatcctgcctgagacggaggtgctggcacccatctgcaatccaacaat Alignment from Exonerate_coding2genome CGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG tttgatgatagatttcatcataagacctgtggcacttctcttggCTTCAGGG-----AGCTGCAGGCAGCATCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCACGAGCCCTGCAGTTGGAGGAGGAGCTGATCCAGgtaatcctgcctgagacggaggtgctggcacccatctgcaatccaacaat Alignment from GeneWise GTACCGGCATCTGGAGCAGCGTCTGGAA---------GCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG tttgatgatagATTTCATCATAAGACCTGTGGCACTTCTCTTGGCTTCAGGGAGCTGCAGGCAGCATCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCACGAGCCCTGCAGTTGGAGGAGGAGCTGATCCAGgtaatcctgcctgagacggaggtgctggcacccatctgcaatccaacaat #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG------ gggtgggagtgggagaggatggacagaaaaaacctcaaactcttctacagccTCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGGCTGAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGGAACTAgtaatgccctccagtattcttattttcactgtttcccacccacatacttt Alignment from CESAR ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG------ gggtgggagtgggagaggatggacagaaaaaacctcaaactcttctacagccTCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGGCTGAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGGAACTAgtaatgccctccagtattcttattttcactgtttcccacccacatacttt Alignment from Spaln_aa2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG------ gggtgggagtgggagaggatggacagaaaaaacctcaaactcttctacagCCTCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGGCTGAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGGAACTAgtaatgccctccagtattcttattttcactgtttcccacccacatacttt Alignment from Spaln_nt2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG------ gggtgggagtgggagaggatggacagaaaaaacctcaaactcttctacagCCTCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGGCTGAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGGAACTAgtaatgccctccagtattcttattttcactgtttcccacccacatacttt Alignment from Pairagon CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGC----------------------------------------------------------- gggtgggagtgggagaggatggacagaaaaaacctcaaactcttctacagCCTCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGGCTGAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGGAACTAGTAATGCCCTCCAGTATTCTTATTTTCACTGTTTCCCACCCACATACTTT Alignment from Exonerate_protein2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG gggtgggagtgggagaggatggacagaaaaaacctcaaactcttctacagCCTCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGGCTGAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgaactagtaatgccctccagtattcttattttcactgtttcccacccacatacttt Alignment from Exonerate_coding2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG gggtgggagtgggagaggatggacagaaaaaacctcaaactcttctacagCCTCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGGCTGAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgaactagtaatgccctccagtattcttattttcactgtttcccacccacatacttt Alignment from GeneWise CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG------ gggtgggagtgggagaggatggacagaaaaaacctcaaactcttctacagCCTCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGGCTGAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGGAACTAgtaatgccctccagtattcttattttcactgtttcccacccacatacttt #### Ccdc88b_ID1841_8 --> 0 - 2 Original Alignment CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt taaagggggtttgtaacatgcttcttcttgactttctctttgtgctccag---TTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgtgtaatagtctgaaggctcattaaggggtcagtgagatctcgacaggtcct Alignment from CESAR CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgt atgtaaagggggtttgtaacatgcttcttgactttctctttgtgctccag---TTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGgtgtaatagtctgaaggctcattaaggggtcagtgagatctcgacaggtcct Alignment from Spaln_aa2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT taaagggggtttgtaacatgcttcttcttgactttctctttgtgctccag---TTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGTgtaatagtctgaaggctcattaaggggtcagtgagatctcgacaggtcct Alignment from Spaln_nt2Genome CGG TTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT taaagGGGgtttgtaacatgcttcttcttgactttctctttgtgctccagTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGTgtaatagtctgaaggctcattaaggggtcagtgagatctcgacaggtcct Alignment from Pairagon CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT taaagggggtttgtaacatgcttcttcttgactttctctttgtgctccag---TTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGTgtaatagtctgaaggctcattaaggggtcagtgagatctcgacaggtcct Alignment from Exonerate_protein2genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT taaagggggtttgtaacatgcttcttcttgactttctctttgtgctcCAGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGTgtaatagtctgaaggctcattaaggggtcagtgagatctcgacaggtcct Alignment from Exonerate_coding2genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT taaagggggtttgtaacatgcttcttcttgactttctctttgtgctcCAGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGTgtaatagtctgaaggctcattaaggggtcagtgagatctcgacaggtcct Alignment from GeneWise TTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGT taaagggggtttgtaacatgcttcttcttgactttctctttgtgctccagTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGTgtaatagtctgaaggctcattaaggggtcagtgagatctcgacaggtcct #### Ccdc88b_ID1842_7 --> 0 - 0 Original Alignment GTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTGGCTGGACCAGAATCCGGAGAGCTGGTGGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACAGGGATGATGTCCAGGCTGGCGCGGGAGCGCGATCTGGGGGCACAG--- atccctgaagcaaccttcacctccggatcttcctcctttgtctcctgcagGTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTAGCCGGACCAGAGTCTGGAGAGCTGGTTGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACGGGGATGATGTCCAGGCTGGCACGGGAGCGCGATCTGGGGGCACAGAAAgtaagagacgggcaagggatgggtctgtcatgacccagaacaattttgtg Alignment from CESAR GTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTGGCTGGACCAGAATCCGGAGAGCTGGTGGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACAGGGATGATGTCCAGGCTGGCGCGGGAGCGCGATCTGGGGGCACAG--- atccctgaagcaaccttcacctccggatcttcctcctttgtctcctgcagGTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTAGCCGGACCAGAGTCTGGAGAGCTGGTTGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACGGGGATGATGTCCAGGCTGGCACGGGAGCGCGATCTGGGGGCACAGAAAgtaagagacgggcaagggatgggtctgtcatgacccagaacaattttgtg Alignment from Spaln_aa2Genome GTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTGGCTGGACCAGAATCCGGAGAGCTGGTGGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACAGGGATGATGTCCAGGCTGGCGCGGGAGCGCGATCTGGGGGCACAG--- atccctgaagcaaccttcacctccggatcttcctcctttgtctcctgcagGTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTAGCCGGACCAGAGTCTGGAGAGCTGGTTGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACGGGGATGATGTCCAGGCTGGCACGGGAGCGCGATCTGGGGGCACAGAAAgtaagagacgggcaagggatgggtctgtcatgacccagaacaattttgtg Alignment from Spaln_nt2Genome GTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTGGCTGGACCAGAATCCGGAGAGCTGGTGGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACAGGGATGATGTCCAGGCTGGCGCGGGAGCGCGATCTGGGGGCACAG--- atccctgaagcaaccttcacctccggatcttcctcctttgtctcctgcagGTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTAGCCGGACCAGAGTCTGGAGAGCTGGTTGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACGGGGATGATGTCCAGGCTGGCACGGGAGCGCGATCTGGGGGCACAGAAAgtaagagacgggcaagggatgggtctgtcatgacccagaacaattttgtg Alignment from Pairagon GTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTGGCTGGACCAGAATCCGGAGAGCTGGTGGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACAGGGATGATGTCCAGGCTGGCGCGGGAGCGCGATCTGGGGGCACAG--- atccctgaagcaaccttcacctccggatcttcctcctttgtctcctgcagGTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTAGCCGGACCAGAGTCTGGAGAGCTGGTTGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACGGGGATGATGTCCAGGCTGGCACGGGAGCGCGATCTGGGGGCACAGAAAgtaagagacgggcaagggatgggtctgtcatgacccagaacaattttgtg Alignment from Exonerate_protein2genome GTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTGGCTGGACCAGAATCCGGAGAGCTGGTGGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACAGGGATGATGTCCAGGCTGGCGCGGGAGCGCGATCTGGGGGCACAGCGG atccctgaagcaaccttcacctccggatcttcctcctttgtctcctgcagGTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTAGCCGGACCAGAGTCTGGAGAGCTGGTTGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACGGGGATGATGTCCAGGCTGGCACGGGAGCGCGATCTGGGGGCACAGAAAgtaagagacgggcaagggatgggtctgtcatgacccagaacaattttgtg Alignment from Exonerate_coding2genome GTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTGGCTGGACCAGAATCCGGAGAGCTGGTGGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACAGGGATGATGTCCAGGCTGGCGCGGGAGCGCGATCTGGGGGCAC---AG atccctgaagcaaccttcacctccggatcttcctcctttgtctcctgcagGTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTAGCCGGACCAGAGTCTGGAGAGCTGGTTGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACGGGGATGATGTCCAGGCTGGCACGGGAGCGCGATCTGGGGGCACAGAAAgtaagagacgggcaagggatgggtctgtcatgacccagaacaattttgtg Alignment from GeneWise GTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTGGCTGGACCAGAATCCGGAGAGCTGGTGGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACAGGGATGATGTCCAGGCTGGCGCGGGAGCGCGATCTGGGGGCACAGCGG atccctgaagcaaccttcacctccggatcttcctcctttgtctcctgcagGTGACCCAACCTGGTGCTGGTGTGGTACTGGCTCTAGCCGGACCAGAGTCTGGAGAGCTGGTTGCTGAGGAGCTGGAGATGCAGTTACGGAGCCTGACGGGGATGATGTCCAGGCTGGCACGGGAGCGCGATCTGGGGGCACAGAAAgtaagagacgggcaagggatgggtctgtcatgacccagaacaattttgtg #### Ccdc88b_ID1844_5 --> 2 - 0 Original Alignment aaGAGGCAGTGGAC------------------------------------------------------GAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG--------------------------- tgtcactgccctatatccctatttaatcgaaaagttgtgtgatcctgtagagGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGTTGTTGCTGGGGGCCTCAGTGCAGGTGAAGAGGGAGCTGGAAAGCATCCTTCGGTTGTTGCTGGGGGCCTCAGTGCAGTGCCTGCTTTACCTGGATCTCCAGGGCgtgaggaggggatgggagaagggaatggagttctgacaggaggtggggcc Alignment from CESAR aaGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tgtcactgccctatatccctatttaatcgaaaagttgtgtgatcctgtagagGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGTTGTTGCTGGGGGCCTCAGTGCAGgtgaagagggagctggaaagcatccttcggttgttgctgggggcctcagtgcagtgcctgctttacctggatctccagggcgtgaggaggggatgggagaagggaatggagttctgacaggaggtggggcc Alignment from Spaln_aa2Genome TTCCAGGAGCAGAAACCGGAGAAACAGTTCCTTACCCCTTCCCTCAGCCAG ctggggacatctattgctgtgggattctgatgccttttgttgttgttatag Alignment from Spaln_nt2Genome AAGAGGCAGTGGACGAGCTGGAAA GCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCA tgtcactgccctatatccctatttaatcgaaaagttgtgtgatcctgtagAGGAGGCAGTGGACGAGCTGGAAAgcatccttcggttgttgctgggggcctcagtgcaggtgaagagggagctggaaagCATCCTTCGGTTGTTGCTGGG-GGCCTCAGTGCAgtgcctgctttacctggatctccagggcgtgaggaggggatgggagaagggaatggagttctgacaggaggtggggcc Alignment from Pairagon AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tgtcactgccctatatccctatttaatcgaaaagttgtgtgatcctgtagAGGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGTTGTTGCTGGGGGCCTCAGTGCAGgtgaagagggagctggaaagcatccttcggttgttgctgggggcctcagtgcagtgcctgctttacctggatctccagggcgtgaggaggggatgggagaagggaatggagttctgacaggaggtggggcc Alignment from Exonerate_protein2genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tgtcactgccctatatccctatttaatcgaaaagttgtgtgatcctgtagAGGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGTTGTTGCTGGGGGCCTCAGTGCAGgtgaagagggagctggaaagcatccttcggttgttgctgggggcctcagtgcagtgcctgctttacctggatctccagggcgtgaggaggggatgggagaagggaatggagttctgacaggaggtggggcc Alignment from Exonerate_coding2genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tgtcactgccctatatccctatttaatcgaaaagttgtgtgatcctgtagAGGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGTTGTTGCTGGGGGCCTCAGTGCAGgtgaagagggagctggaaagcatccttcggttgttgctgggggcctcagtgcagtgcctgctttacctggatctccagggcgtgaggaggggatgggagaagggaatggagttctgacaggaggtggggcc Alignment from GeneWise AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG tgtcactgccctatatccctatttaatcgaaaagttgtgtgatcctgtagAGGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGTTGTTGCTGGGGGCCTCAGTGCAGgtgaagagggagctggaaagcatccttcggttgttgctgggggcctcagtgcagtgcctgctttacctggatctccagggcgtgaggaggggatgggagaagggaatggagttctgacaggaggtggggcc #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg ggcccagcagctcctgtgaggatgtcttctgcatttgtccccctcctcagCACGAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACCACAGGGTGTGACCCCTTCTCAggtaagccttcctaccctccctctgtcctctgtcactgccctatatcccta Alignment from CESAR ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg ggcccagcagctcctgtgaggatgtcttctgcatttgtccccctcctcagCACGAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACCACAGGGTGTGACCCCTTCTCAggtaagccttcctaccctccctctgtcctctgtcactgccctatatcccta Alignment from Spaln_aa2Genome GAGGAGCTACAG---CTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagctcctgtgaggatgtcttctgcatttgtccccctcctcagCACGAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACCACAGGGTGTGACCCCTTCTCAGgtaagccttcctaccctccctctgtcctctgtcactgccctatatcccta Alignment from Spaln_nt2Genome GAGGAGCTAC---AGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagctcctgtgaggatgtcttctgcatttgtccccctcctcagCACGAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACCACAGGGTGTGACCCCTTCTCAGgtaagccttcctaccctccctctgtcctctgtcactgccctatatcccta Alignment from Pairagon ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagctcctgtgaggatgtcttctgcatttgtccccctcctcagCACGAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACCACAGGGTGTGACCCCTTCTCAGgtaagccttcctaccctccctctgtcctctgtcactgccctatatcccta Alignment from Exonerate_protein2genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagctcctgtgaggatgtcttctgcatttgtccccctcctcagcacGAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACCACAGGGTGTGACCCCTTCTCAGgtaagccttcctaccctccctctgtcctctgtcactgccctatatcccta Alignment from Exonerate_coding2genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagctcctgtgaggatgtcttctgcatttgtccccctcctcagcacGAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACCACAGGGTGTGACCCCTTCTCAGgtaagccttcctaccctccctctgtcctctgtcactgccctatatcccta Alignment from GeneWise ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagctcctgtgaggatgtcttctgcatttgtccccctcctcagCACGAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACCACAGGGTGTGACCCCTTCTCAGgtaagccttcctaccctccctctgtcctctgtcactgccctatatcccta #### Ccdc88b_ID1846_3 --> 1 - 0 Original Alignment t---------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaggcctgtctggatccaacctctcaccaattatttatcgttgctttcagtTATTTCGGGGCTCCCAGTTCCCAAGGGGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGgtaatttatcgggaaggccaggcaggaggcccagcagctcctgtgaggat Alignment from CESAR t---------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaggcctgtctggatccaacctctcaccaattatttatcgttgctttcagtTATTTCGGGGCTCCCAGTTCCCAAGGGGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGgtaatttatcgggaaggccaggcaggaggcccagcagctcctgtgaggat Alignment from Spaln_aa2Genome T---------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaggcctgtctggatccaacctctcaccaattatttatcgttgctttcagTTATTTCGGGGCTCCCAGTTCCCAAGGGGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGgtaatttatcgggaaggccaggcaggaggcccagcagctcctgtgaggat Alignment from Spaln_nt2Genome TGCTCCCAGT---------TCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaggcctgtctggatccaacctctcaccaattatttatcgttgctttcagTTATTTCGGGGCTCCCAGTTCCCAAGGGGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGgtaatttatcgggaaggccaggcaggaggcccagcagctcctgtgaggat Alignment from Pairagon T---------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaggcctgtctggatccaacctctcaccaattatttatcgttgctttcagTTATTTCGGGGCTCCCAGTTCCCAAGGGGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGgtaatttatcgggaaggccaggcaggaggcccagcagctcctgtgaggat Alignment from Exonerate_protein2genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaggcctgtctggatccaacctctcaccaattatttatcgttgctttcagttatttcggGGCTCCCAGTTCCCAAGGGGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGgtaatttatcgggaaggccaggcaggaggcccagcagctcctgtgaggat Alignment from Exonerate_coding2genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaggcctgtctggatccaacctctcaccaattatttatcgttgctttcagttatttcggGGCTCCCAGTTCCCAAGGGGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGgtaatttatcgggaaggccaggcaggaggcccagcagctcctgtgaggat Alignment from GeneWise -------ATTGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaggcctgtctggatccaacctctcaccaattatttatcgttgctttcagTTATTTCGGGGCTCCCAGTTCCCAAGGGGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGgtaatttatcgggaaggccaggcaggaggcccagcagctcctgtgaggat #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gagcagtcacaggacgatggtgctgacatgccatcaattataacacacag---TGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGaggtaagatatgcctccaccaacagaggcagtgatatgccagtggtccccac Alignment from CESAR GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag agagagcagtcacaggacgatggtgacatgccatcaattataacacacag---TGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGaggtaagatatgcctccaccaacagaggcagtgatatgccagtggtccccac Alignment from Spaln_aa2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gagcagtcacaggacgatggtgctgacatgccatcaattataacacacagTGGGAT---GTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtaagatatgcctccaccaacagaggcagtgatatgccagtggtccccac Alignment from Spaln_nt2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gagcagtcacaggacgatggtgctgacatgccatcaattataacacacag---TGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtaagatatgcctccaccaacagaggcagtgatatgccagtggtccccac Alignment from Pairagon -------------------------------------------------GTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GAGCAGTCACAGGACGATGGTGCTGACATGCCATCAATTATAACACACAGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtaagatatgcctccaccaacagaggcagtgatatgccagtggtccccac Alignment from Exonerate_protein2genome TGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gagcagtcacaggacgatggtgctgacatgccatcaattataacacacagTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtaagatatgcctccaccaacagaggcagtgatatgccagtggtccccac Alignment from Exonerate_coding2genome TGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gagcagtcacaggacgatggtgctgacatgccatcaattataacacacagTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtaagatatgcctccaccaacagaggcagtgatatgccagtggtccccac Alignment from GeneWise TGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gagcagtcacaggacgatggtgctgacatgccatcaattataacacacagTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGgtaagatatgcctccaccaacagaggcagtgatatgccagtggtccccac #### Cd6_ID3013_11 --> 2 - 1 Original Alignment gaCTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAg ccgccaggactacacagataaccccggtcatcttgtctccctgtccacagaaCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCATGTGAGGAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTGTTT---ggtcagtagggtgtgtccttccatgctaccaactctgtgtccaaactgccc Alignment from CESAR gaCTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAg ccgccaggactacacagataaccccggtcatcttgtctccctgtccacagaaCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCATGTGAGGAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTGTTT---ggtcagtagggtgtgtccttccatgctaccaactctgtgtccaaactgccc Alignment from Spaln_aa2Genome GACTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTT- ccgccaggactacacagataaccccggtcatcttgtctccctgtccacagAACTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCATGTGAGGAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTGTTTGgtcagtagggtgtgtccttccatgctaccaactctgtgtccaaactgccc Alignment from Spaln_nt2Genome GACTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTT--TCA ccgccaggactacacagataaccccggtcatcttgtctccctgtccacagAACTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCATGTGAGGAACAACAGTGATTCCAGCAC---------------CTCGTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTGTTTGGTCAgtagggtgtgtccttccatgctaccaactctgtgtccaaactgccc Alignment from Pairagon GACTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAG ccgccaggactacacagataaccccggtcatcttgtctccctgtccacagAACTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCATGTGAGGAACAACAGTGATTCCAGCACCTC---------------GTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTGTTT---Ggtcagtagggtgtgtccttccatgctaccaactctgtgtccaaactgccc Alignment from Exonerate_protein2genome GACTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTT ccgccaggactacacagataaccccggtcatcttgtctccctgtccacagAACTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCATGTGAGGAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTGTTTGgtcagtagggtgtgtccttccatgctaccaactctgtgtccaaactgccc Alignment from Exonerate_coding2genome GACTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTT ccgccaggactacacagataaccccggtcatcttgtctccctgtccacagAACTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCATGTGAGGAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTGTTTGgtcagtagggtgtgtccttccatgctaccaactctgtgtccaaactgccc Alignment from GeneWise GACTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCA-- ccgccaggactacacagataaccccggtcatcttgtctccctgtccacagAACTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCATGTGAGGAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTGTTTGGTCAgtagggtgtgtccttccatgctaccaactctgtgtccaaactgccc #### Cdc42bpg_ID1575_5 --> 0 - 2 Original Alignment ---TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACag ctgtcattctgtgtctggattggatctactgtatatctttgtccccacagTCCTACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACACTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATTTGGCTGAGATGGTGCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACaggtaagtccccgagttgtgtcacttcccagtcttcctccctaaagacctgt Alignment from CESAR ---TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACag ctgtcattctgtgtctggattggatctactgtatatctttgtccccacagTCCTACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACACTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATTTGGCTGAGATGGTGCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACaggtaagtccccgagttgtgtcacttcccagtcttcctccctaaagacctgt Alignment from Spaln_aa2Genome TACCTGGTG---ATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG ctgtcattctgtgtctggattggatctactgtatatctttgtccccacagTCCTACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACACTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATTTGGCTGAGATGGTGCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGgtaagtccccgagttgtgtcacttcccagtcttcctccctaaagacctgt Alignment from Spaln_nt2Genome TACCTGGTG---ATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG ctgtcattctgtgtctggattggatctactgtatatctttgtccccacagTCCTACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACACTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATTTGGCTGAGATGGTGCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGgtaagtccccgagttgtgtcacttcccagtcttcctccctaaagacctgt Alignment from Pairagon ---TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG ctgtcattctgtgtctggattggatctactgtatatctttgtccccacagTCCTACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACACTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATTTGGCTGAGATGGTGCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGgtaagtccccgagttgtgtcacttcccagtcttcctccctaaagacctgt Alignment from Exonerate_protein2genome ---TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG ctgtcattctgtgtctggattggatctactgtatatctttgtccccacagTCCTACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACACTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATTTGGCTGAGATGGTGCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGgtaagtccccgagttgtgtcacttcccagtcttcctccctaaagacctgt Alignment from Exonerate_coding2genome ---TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG ctgtcattctgtgtctggattggatctactgtatatctttgtccccacagTCCTACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACACTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATTTGGCTGAGATGGTGCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGgtaagtccccgagttgtgtcacttcccagtcttcctccctaaagacctgt Alignment from GeneWise ---TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAG ctgtcattctgtgtctggattggatctactgtatatctttgtccccacagTCCTACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACACTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATTTGGCTGAGATGGTGCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGgtaagtccccgagttgtgtcacttcccagtcttcctccctaaagacctgt #### Cdc42bpg_ID1576_6 --> 1 - 0 Original Alignment gGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG aacacacacacacacctacaccaagcctttgtgtcccccgcttatcctaggGATGTGAAGCCAGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTTGCAGACTTTGGCTCCTGCCTGCGT------------------gtaggtaaaccacctagaatcggactctacttcaatattgagctgaggat Alignment from CESAR gGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG aacacacacacacacctacaccaagcctttgtgtcccccgcttatcctaggGATGTGAAGCCAGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTTGCAGACTTTGGCTCCTGCCTGCGT------------------gtaggtaaaccacctagaatcggactctactt Alignment from Spaln_aa2Genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG aacacacacacacacctacaccaagcctttgtgtcccccgcttatcctagGGATGTGAAGCCAGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTTGCAGACTTTGGCTCCTGCCTGCGTGTAGGTAAACCACCTAGAatcggactctacttcaatattgagctgaggat Alignment from Spaln_nt2Genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGT CTCAACAA aacacacacacacacctacaccaagcctttgtgtcccccgcttatcctagGGATGTGAAGCCAGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTTGCAGACTTTGGCTCCTGCCTGCGTgtaggtaaaccacctagaatcggactctacttcaatattgagCTGAGGAT Alignment from Pairagon GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGT aacacacacacacacctacaccaagcctttgtgtcccccgcttatcctagGGATGTGAAGCCAGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTTGCAGACTTTGGCTCCTGCCTGCGTgtaggtaaaccacctagaatcggactctacttcaatattgagctgaggat Alignment from Exonerate_protein2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG aacacacacacacacctacaccaagcctttgtgtcccccgcttatcctagGGATGTGAAGCCAGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTTGCAGACTTTGGCTCCTGCCTGCGTGTAGGTAAACCACCTAGAatcggactctacttcaatattgagctgaggat Alignment from Exonerate_coding2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG aacacacacacacacctacaccaagcctttgtgtcccccgcttatcctagGGATGTGAAGCCAGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTTGCAGACTTTGGCTCCTGCCTGCGTGTAGGTAAACCACCTAGAatcggactctacttcaatattgagctgaggat Alignment from GeneWise GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCA aacacacacacacacctacaccaagcctttgtgtcccccgcttatcctagGGATGTGAAGCCAGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTTGCAGACTTTGGCTCCTGCCTGCGTGTAGgtaaaccacctagaatcggactctacttcaatattgagctgaggat #### Cdc42bpg_ID1577_7 --> 0 - 0 Original Alignment GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG attgctggctccagtgctgtggcctcatactttctcatttgatactccagGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTATGGTCCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACCTACGGGAAGATCATGAACCAT---gttagttgactgtgtggcccggggaccccttcattgtgtgattcccggtt Alignment from CESAR GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG attgctggctccagtgctgtggcctcatactttctcatttgatactccagGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTATGGTCCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACCTACGGGAAGATCATGAACCAT---gttagttgactgtgtggcccggggaccccttcattgtgtgattcccg Alignment from Spaln_aa2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCAC attgctggctccagtgctgtggcctcatactttctcatttgatactccagGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTATGGTCCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACCTACGGGAAGATCATGAACCATgttagttgactgtgtggcccggggaccccttcattgtgtgattcccggtt Alignment from Spaln_nt2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCAC attgctggctccagtgctgtggcctcatactttctcatttgatactccagGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTATGGTCCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACCTACGGGAAGATCATGAACCATgttagttgactgtgtggcccggggaccccttcattgtgtgattcccggtt Alignment from Pairagon GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACG------------------------------------------------- attgctggctccagtgctgtggcctcatactttctcatttgatactccagGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTATGGTCCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACCTACGGGAAGATCATGAACCATGTTAGTTGACTGTGTGGCCCGGGGACCCCTTCATTGTGTGATTCCCGGTT Alignment from Exonerate_protein2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACG attgctggctccagtgctgtggcctcatactttctcatttgatactccagGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTATGGTCCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACCTACGGGAAGATCATGAACCATGttagttgactgtgtggcccggggaccccttcattgtgtgattcccggtt Alignment from Exonerate_coding2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACG attgctggctccagtgctgtggcctcatactttctcatttgatactccagGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTATGGTCCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACCTACGGGAAGATCATGAACCATGttagttgactgtgtggcccggggaccccttcattgtgtgattcccggtt Alignment from GeneWise GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCAC attgctggctccagtgctgtggcctcatactttctcatttgatactccagGTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTATGGTCCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACCTACGGGAAGATCATGAACCATgttagttgactgtgtggcccggggaccccttcattgtgtgattcccggtt #### Cdc42bpg_ID1581_11 --> 2 - 1 Original Alignment agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAg cattgctaaaggcctggctactcactcctgtccaattgttctccttacagag---CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTTCAGGTTCTTCAGGAGAAACTGGCAggtaagagtgacctgttcctagaatagctgagctccttcccaggtcctagt Alignment from CESAR agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAg gtacattgctaaaggcctggctacttcctgtccaattgttctccttacagag---CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTTCAGGTTCTTCAGGAGAAACTGGCAggtaagagtgacctgttcctagaatagctgagctccttcccaggtcctagt Alignment from Spaln_aa2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cattgctaaaggcctggctactcactcctgtccaattgttctccttacagAG---CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGgtaagagtgacctgttcctagaatagctgagctccttcccaggtcctagt Alignment from Spaln_nt2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cattgctaaaggcctggctactcactcctgtccaattgttctccttacagAG---CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGgtaagagtgacctgttcctagaatagctgagctccttcccaggtcctagt Alignment from Pairagon AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cattgctaaaggcctggctactcactcctgtccaattgttctccttacagAG---CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGgtaagagtgacctgttcctagaatagctgagctccttcccaggtcctagt Alignment from Exonerate_protein2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cattgctaaaggcctggctactcactcctgtccaattgttctccttacagAG---CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGgtaagagtgacctgttcctagaatagctgagctccttcccaggtcctagt Alignment from Exonerate_coding2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cattgctaaaggcctggctactcactcctgtccaattgttctccttacagAG---CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGgtaagagtgacctgttcctagaatagctgagctccttcccaggtcctagt Alignment from GeneWise AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG cattgctaaaggcctggctactcactcctgtccaattgttctccttacagAG---CTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGgtaagagtgacctgttcctagaatagctgagctccttcccaggtcctagt #### Cdc42bpg_ID1582_12 --> 2 - 0 Original Alignment agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG------ gatgaggtggagttgtcctgagtgcaatacaccatctattgtccaagcagagACATTGAGGGACAGCAAGGCTTCCCTCTCACAAGCTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAATTACAACAGGAGAAGGACCGCCTCCAGCAGTTCCGGgtaacgatgatgatgagaattttgtcatgtgttttttggctgcataaatg Alignment from CESAR agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG------ gatgaggtggagttgtcctgagtgcaatacaccatctattgtccaagcagagACATTGAGGGACAGCAAGGCTTCCCTCTCACAAGCTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAATTACAACAGGAGAAGGACCGCCTCCAGCAGTTCCGGgtaacgatgatgatgagaattttgtcatgtgttttttggctgcataaatg Alignment from Spaln_aa2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG------ gatgaggtggagttgtcctgagtgcaatacaccatctattgtccaagcagAGACATTGAGGGACAGCAAGGCTTCCCTCTCACAAGCTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAATTACAACAGGAGAAGGACCGCCTCCAGCAGTTCCGGgtaacgatgatgatgagaattttgtcatgtgttttttggctgcataaatg Alignment from Spaln_nt2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG------ gatgaggtggagttgtcctgagtgcaatacaccatctattgtccaagcagAGACATTGAGGGACAGCAAGGCTTCCCTCTCACAAGCTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAATTACAACAGGAGAAGGACCGCCTCCAGCAGTTCCGGgtaacgatgatgatgagaattttgtcatgtgttttttggctgcataaatg Alignment from Pairagon AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG------ gatgaggtggagttgtcctgagtgcaatacaccatctattgtccaagcagAGACATTGAGGGACAGCAAGGCTTCCCTCTCACAAGCTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAATTACAACAGGAGAAGGACCGCCTCCAGCAGTTCCGGgtaacgatgatgatgagaattttgtcatgtgttttttggctgcataaatg Alignment from Exonerate_protein2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gatgaggtggagttgtcctgagtgcaatacaccatctattgtccaagcagAGACATTGAGGGACAGCAAGGCTTCCCTCTCACAAGCTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAATTACAACAGGAGAAGGACCGCCTCCAGCAGttccgggtaacgatgatgatgagaattttgtcatgtgttttttggctgcataaatg Alignment from Exonerate_coding2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG gatgaggtggagttgtcctgagtgcaatacaccatctattgtccaagcagAGACATTGAGGGACAGCAAGGCTTCCCTCTCACAAGCTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAATTACAACAGGAGAAGGACCGCCTCCAGCAGttccgggtaacgatgatgatgagaattttgtcatgtgttttttggctgcataaatg Alignment from GeneWise --GAGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG------ gatgaggtggagttgtcctgagtgcaatacaccatctattgtccaagCAGAGACATTGAGGGACAGCAAGGCTTCCCTCTCACAAGCTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAATTACAACAGGAGAAGGACCGCCTCCAGCAGTTCCGGgtaacgatgatgatgagaattttgtcatgtgttttttggctgcataaatg #### Cdc42bpg_ID1583_13 --> 0 - 0 Original Alignment ---GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ttgaggtgagcactctgacttggctttgtgtattttctggtttcttacagATCGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCACAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCAGCTGCAGCCGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGgtaagtggagaggcagtgggagggttcagggcattgggaaccccatatgg Alignment from CESAR ---GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ttgaggtgagcactctgacttggctttgtgtattttctggtttcttacagATCGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCACAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCAGCTGCAGCCGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGgtaagtggagaggcagtgggagggttcagggcattgggaaccccatatgg Alignment from Spaln_aa2Genome GAGCTGACTGAA---GCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ttgaggtgagcactctgacttggctttgtgtattttctggtttcttacagATCGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCACAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCAGCTGCAGCCGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGgtaagtggagaggcagtgggagggttcagggcattgggaaccccatatgg Alignment from Spaln_nt2Genome GAGCTGACTG---AAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ttgaggtgagcactctgacttggctttgtgtattttctggtttcttacagATCGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCACAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCAGCTGCAGCCGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGgtaagtggagaggcagtgggagggttcagggcattgggaaccccatatgg Alignment from Pairagon ---GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ttgaggtgagcactctgacttggctttgtgtattttctggtttcttacagATCGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCACAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCAGCTGCAGCCGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGgtaagtggagaggcagtgggagggttcagggcattgggaaccccatatgg Alignment from Exonerate_protein2genome ---GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ttgaggtgagcactctgacttggctttgtgtattttctggtttcttacagATCGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCACAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCAGCTGCAGCCGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGgtaagtggagaggcagtgggagggttcagggcattgggaaccccatatgg Alignment from Exonerate_coding2genome ---GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ttgaggtgagcactctgacttggctttgtgtattttctggtttcttacagATCGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCACAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCAGCTGCAGCCGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGgtaagtggagaggcagtgggagggttcagggcattgggaaccccatatgg Alignment from GeneWise ---GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG ttgaggtgagcactctgacttggctttgtgtattttctggtttcttacagATCGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCACAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCAGCTGCAGCCGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGgtaagtggagaggcagtgggagggttcagggcattgggaaccccatatgg #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gggctacaagggccactgaggactaatcacatcttttatctttttgtcagCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCT------------tggtgatgacacggcgccgagaattaagcctggtggcacctctaatggctga Alignment from CESAR CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gggctacaagggccactgaggactaatcacatcttttatctttttgtcagCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCT------------tggtgatgacacggcgccgagaattaagcctggtggcacctctaatggctca Alignment from Spaln_aa2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGA gggctacaagggccactgaggactaatcacatcttttatctttttgtcagCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTTGgtgatgacacggcgccgagaattaagcctggtggcacctctaatggctga Alignment from Spaln_nt2Genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGA gggctacaagggccactgaggactaatcacatcttttatctttttgtcagCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTTGgtgatgacacggcgccgagaattaagcctggtggcacctctaatggctga Alignment from Pairagon CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGC----------------------------------------------------- gggctacaagggccactgaggactaatcacatcttttatctttttgtcagCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTTGGTGATGACACGGCGCCGAGAATTAAGCCTGGTGGCACCTCTAATGGCTGA Alignment from Exonerate_protein2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACAT gggctacaagggccactgaggactaatcacatcttttatctttttgtcagCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTTGGTGatgacacggcgccgagaattaagcctggtggcacctctaatggctga Alignment from Exonerate_coding2genome CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACAT gggctacaagggccactgaggactaatcacatcttttatctttttgtcagCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTTGGTGatgacacggcgccgagaattaagcctggtggcacctctaatggctga Alignment from GeneWise CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGA gggctacaagggccactgaggactaatcacatcttttatctttttgtcagCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTTGgtgatgacacggcgccgagaattaagcctggtggcacctctaatggctga #### Cdc42bpg_ID1588_18 --> 1 - 0 Original Alignment gGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG taatggctgaggacccaggtcacatccttccgtatccttgtgtcttgcagg------GATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGgtaagtcccctgcagatgagacatgtgtgtgtgtgtgtgtgtggatgtgt Alignment from CESAR gGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG cacctctaatggctgaggacccaggccttccgtatccttgtgtcttgcagg------GATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGgtaagtcccctgcagatgagacatgtgtgtgtgtgtgtgtgtggatgtgt Alignment from Spaln_aa2Genome GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG taatggctgaggacccaggtcacatccttccgtatccttgtgtcttgcagG------GATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGgtaagtcccctgcagatgagacatgtgtgtgtgtgtgtgtgtggatgtgt Alignment from Spaln_nt2Genome TGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG taatggctgaggacccaggtcacatccttccgtatccttgtgtcttgcagGGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGgtaagtcccctgcagatgagacatgtgtgtgtgtgtgtgtgtggatgtgt Alignment from Pairagon GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG taatggctgaggacccaggtcacatccttccgtatccttgtgtcttgcagG------GATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGgtaagtcccctgcagatgagacatgtgtgtgtgtgtgtgtgtggatgtgt Alignment from Exonerate_protein2genome GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG taatggctgaggacccaggtcacatccttccgtatccttgtgtcttgcagG------GATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGgtaagtcccctgcagatgagacatgtgtgtgtgtgtgtgtgtggatgtgt Alignment from Exonerate_coding2genome GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG taatggctgaggacccaggtcacatccttccgtatccttgtgtcttgcagG------GATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGgtaagtcccctgcagatgagacatgtgtgtgtgtgtgtgtgtggatgtgt Alignment from GeneWise GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG taatggctgaggacccaggtcacatccttccgtatccttgtgtcttgcagG------GATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGgtaagtcccctgcagatgagacatgtgtgtgtgtgtgtgtgtggatgtgt #### Cdc42bpg_ID1593_23 --> 0 - 0 Original Alignment AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGTCCTCCTGCTAAG gtggggcttctcccccaacccctcctcaattctactttcgctactttcagAGTGTGTTCCCCCGGGTGCCCGCAGCCACCACCACCCCTGCCAAAGGT------------gtaagtgtccgggtgtcaggggagagggacacgacagcaggatagtgagc Alignment from CESAR AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGTCCTCCTGCTAAG gtggggcttctcccccaacccctcctcaattctactttcgctactttcagAGTGTGTTCCCCCGGGTGCCCGCAGCCACCACCACCCCTGCCAAAGGT------------gtaagtgtccgggtgtcaggggagagggacacgacagc Alignment from Spaln_aa2Genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGTCCTCCTGCTAAG gtggggcttctcccccaacccctcctcaattctactttcgctactttcagAGTGTGTTCCCCCGGGTGCCCGCAGCCACCACCACCCCTGCCAAAGGTGTAAGTGTCCGGgtgtcaggggagagggacacgacagcaggatagtgagc Alignment from Spaln_nt2Genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGTCCTCCTGCTAAG gtggggcttctcccccaacccctcctcaattctactttcgctactttcagAGTGTGTTCCCCCGGGTGCCCGCAGCCACCACCACCCCTGCCAAAGGTGTAAGTGTCCGGgtgtcaggggagagggacacgacagcaggatagtgagc Alignment from Pairagon AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGT gtggggcttctcccccaacccctcctcaattctactttcgctactttcagAGTGTGTTCCCCCGGGTGCCCGCAGCCACCACCACCCCTGCCAAAGGTgtaagtgtccgggtgtcaggggagagggacacgacagcaggatagtgagc Alignment from Exonerate_protein2genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGTCCTCCTGCTAAG gtggggcttctcccccaacccctcctcaattctactttcgctactttcagAGTGTGTTCCCCCGGGTGCCCGCAGCCACCACCACCCCTGCCAAAGGTGTAAGTGTCCGGgtgtcaggggagagggacacgacagcaggatagtgagc Alignment from Exonerate_coding2genome AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGTCCTCCTGCTAAG gtggggcttctcccccaacccctcctcaattctactttcgctactttcagAGTGTGTTCCCCCGGGTGCCCGCAGCCACCACCACCCCTGCCAAAGGTGTAAGTGTCCGGgtgtcaggggagagggacacgacagcaggatagtgagc Alignment from GeneWise AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGT gtggggcttctcccccaacccctcctcaattctactttcgctactttcagAGTGTGTTCCCCCGGGTGCCCGCAGCCACCACCACCCCTGCCAAAGGTgtaagtgtccgggtgtcaggggagagggacacgacagcaggatagtgagc #### Cdc42bpg_ID1594_24 --> 0 - 1 Original Alignment ---CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACa agggtactggggggtctgggggcatttcggactctgtgttcatcttatagTCTCCTGGCTCACACACCCTGCGACCCCGGAGTTTTCCATCCCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTGGGCCGTCAGGGCCTGGGCTGTGACagtgagtacatttgtccttcaggctctcccatcataccataacatacccag Alignment from CESAR ---CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACa agggtactggggggtctgggggcatttcggactctgtgttcatcttatagTCTCCTGGCTCACACACCCTGCGACCCCGGAGTTTTCCATCCCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTGGGCCGTCAGGGCCTGGGCTGTGACagtgagtacatttgtccttcaggctctcccatcataccataacatacccag Alignment from Spaln_aa2Genome CCCGGCTCACAC---ACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA agggtactggggggtctgggggcatttcggactctgtgttcatcttatagTCTCCTGGCTCACACACCCTGCGACCCCGGAGTTTTCCATCCCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTGGGCCGTCAGGGCCTGGGCTGTGACAgtgagtacatttgtccttcaggctctcccatcataccataacatacccag Alignment from Spaln_nt2Genome CCCGGCTCACA---CACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA agggtactggggggtctgggggcatttcggactctgtgttcatcttatagTCTCCTGGCTCACACACCCTGCGACCCCGGAGTTTTCCATCCCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTGGGCCGTCAGGGCCTGGGCTGTGACAgtgagtacatttgtccttcaggctctcccatcataccataacatacccag Alignment from Pairagon ---CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA agggtactggggggtctgggggcatttcggactctgtgttcatcttatagTCTCCTGGCTCACACACCCTGCGACCCCGGAGTTTTCCATCCCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTGGGCCGTCAGGGCCTGGGCTGTGACAgtgagtacatttgtccttcaggctctcccatcataccataacatacccag Alignment from Exonerate_protein2genome ---CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA agggtactggggggtctgggggcatttcggactctgtgttcatcttatagTCTCCTGGCTCACACACCCTGCGACCCCGGAGTTTTCCATCCCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTGGGCCGTCAGGGCCTGGGCTGTGACAgtgagtacatttgtccttcaggctctcccatcataccataacatacccag Alignment from Exonerate_coding2genome ---CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA agggtactggggggtctgggggcatttcggactctgtgttcatcttatagTCTCCTGGCTCACACACCCTGCGACCCCGGAGTTTTCCATCCCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTGGGCCGTCAGGGCCTGGGCTGTGACAgtgagtacatttgtccttcaggctctcccatcataccataacatacccag Alignment from GeneWise ---CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA agggtactggggggtctgggggcatttcggactctgtgttcatcttatagTCTCCTGGCTCACACACCCTGCGACCCCGGAGTTTTCCATCCCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTGGGCCGTCAGGGCCTGGGCTGTGACAgtgagtacatttgtccttcaggctctcccatcataccataacatacccag #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag agttctccgtagtagtatatccgagcccacctttgtttctctctgttaag---------------------------GACTGGCAGCGGGTGTACGCTGCCCTCAGTGATTCCCGTCTGTTGTTGTTTGATGCTCCTGATCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTGGATCTAaggtgagtgacagtgacacaggacaaatcatgggtagggtagtgagaagttc Alignment from CESAR GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag gctgtgggagtgagggccagtgcagcccacctttgtttctctctgttaag---------------------------GACTGGCAGCGGGTGTACGCTGCCCTCAGTGATTCCCGTCTGTTGTTGTTTGATGCTCCTGATCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTGGATCTAaggtgagtgacagtgacacaggacaaatcatgggtagggtagtgagaagttc Alignment from Spaln_aa2Genome GGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG agttctccgtagtagtatatccgagcccacctttgtttctctctgttaagGACTGGCAGCGGGTGTACGCTGCCCTCAGTGATTCCCGTCTGTTGTTGTTTGATGCTCCTGATCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTGGATCTAAGgtgagtgacagtgacacaggacaaatcatgggtagggtagtgagaagttc Alignment from Spaln_nt2Genome GGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG agttctccgtagtagtatatccgagcccacctttgtttctctctgttaagGACTGGCAGCGGGTGTACGCTGCCCTCAGTGATTCCCGTCTGTTGTTGTTTGATGCTCCTGATCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTGGATCTAAGgtgagtgacagtgacacaggacaaatcatgggtagggtagtgagaagttc Alignment from Pairagon GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG agttctccgtagtagtatatccgagcccacctttgtttctctctgttaag---------------------------GACTGGCAGCGGGTGTACGCTGCCCTCAGTGATTCCCGTCTGTTGTTGTTTGATGCTCCTGATCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTGGATCTAAGgtgagtgacagtgacacaggacaaatcatgggtagggtagtgagaagttc Alignment from Exonerate_protein2genome TCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG tctccgtagtagtatatccgagcccacctttgtttctctctgTT---AAGGACTGGCAGCGGGTGTACGCTGCCCTCAGTGATTCCCGTCTGTTGTTGTTTGATGCTCCTGATCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTGGATCTAAGgtgagtgacagtgacacaggacaaatcatgggtagggtagtgagaagttc Alignment from Exonerate_coding2genome TCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG tctccgtagtagtatatccgagcccacctttgtttctctctgTT---AAGGACTGGCAGCGGGTGTACGCTGCCCTCAGTGATTCCCGTCTGTTGTTGTTTGATGCTCCTGATCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTGGATCTAAGgtgagtgacagtgacacaggacaaatcatgggtagggtagtgagaagttc Alignment from GeneWise -----------------------------------------GTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG AGTTCTCCGTAGTAGTATATCCGAGCCCACCTTTGTTTCTCTCTGTTAAGGACTGGCAGCGGGTGTACGCTGCCCTCAGTGATTCCCGTCTGTTGTTGTTTGATGCTCCTGATCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTGGATCTAAGgtgagtgacagtgacacaggacaaatcatgggtagggtagtgagaagttc #### Cdc42bpg_ID1602_32 --> 0 - 1 Original Alignment GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAg gtctcgaatagccgtgaggcatggcttggattgtttttctttcttttcag------------------------------TTCCTTTATGGCACCGAGAAAGTCCGCCTGACCTACCTCAGGAATCCATTGGCAggtaagagcgtatatatctgcctacatctgtgtgtgtttacctgtgcacaa Alignment from CESAR GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAg ggctaggtgcagtgggtgacatggcttggattgtttttctttcttttcag------------------------------TTCCTTTATGGCACCGAGAAAGTCCGCCTGACCTACCTCAGGAATCCATTGGCAggtaagagcgtatatatctgcctacatctgtgtgtgtttacctgtgcacaa Alignment from Spaln_aa2Genome GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG gtctcgaatagccgtgaggcatggcttggattgtttttctttcttttcag------------------------------TTCCTTTATGGCACCGAGAAAGTCCGCCTGACCTACCTCAGGAATCCATTGGCAGgtaagagcgtatatatctgcctacatctgtgtgtgtttacctgtgcacaa Alignment from Spaln_nt2Genome GGCTCC--TTG-- TTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG GTCTCGAATAGCCgtgaggcatggcttggattgtttttctttcttttcagTTCCTTTATGGCACCGAGAAAGTCCGCCTGACCTACCTCAGGAATCCATTGGCAGgtaagagcgtatatatctgcctacatctgtgtgtgtttacctgtgcacaa Alignment from Pairagon TTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG gtctcgaatagccgtgaggcatggcttggattgtttttctttcttttcagTTCCTTTATGGCACCGAGAAAGTCCGCCTGACCTACCTCAGGAATCCATTGGCAGgtaagagcgtatatatctgcctacatctgtgtgtgtttacctgtgcacaa Alignment from Exonerate_protein2genome gtctcgaatagccgtgaggcatggcttggattgtttttctttcttttcagttcctttatggcaccgagaaagtccgcctgacctacctcaggaatccattggcaggtaagagcgtatatatctgcctacatctgtgtgtgtttacctgtgcacaa Alignment from Exonerate_coding2genome GCTCCTTGTTCCT TTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAGAG GTCTCGAATAGCCgtgaggcatggcttggattgtttttctttcttttcagttcctTTATGGCACCGAGAAAGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG--gtaagagcgtatatatctgcctacatctgtgtgtgtttacctgtgcac Alignment from GeneWise -----AGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG gtctcgaatagccgtgagGCATGGCTTGGATTGTTTTTCTTTCTTTTCAGTTCCTTTATGGCACCGAGAAAGTCCGCCTGACCTACCTCAGGAATCCATTGGCAGgtaagagcgtatatatctgcctacatctgtgtgtgtttacctgtgcacaa #### Cfl1_ID1061_3 --> 1 - 1 Original Alignment g---------GCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAg tcttgagcattctggatgtagctgcagcaattctaaaaattgtatattaggTCTGGTGTGGCCCCCGAAAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAggtaagcattccaccttcagcaaaaacaatgggcacagtctcctgctagct Alignment from CESAR g---------GCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAg tcttgagcattctggatgtagctgcagcaattctaaaaattgtatattaggTCTGGTGTGGCCCCCGAAAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAggtaagcattccaccttcagcaaaaacaatgggcacagtctcctgctagct Alignment from Spaln_aa2Genome GGCCCCCGAGAAT---------GCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG tcttgagcattctggatgtagctgcagcaattctaaaaattgtatattagGTCTGGTGTGGCCCCCGAAAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAGgtaagcattccaccttcagcaaaaacaatgggcacagtctcctgctagct Alignment from Spaln_nt2Genome GGCCCCCGAGAA---------TGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG tcttgagcattctggatgtagctgcagcaattctaaaaattgtatattagGTCTGGTGTGGCCCCCGAAAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAGgtaagcattccaccttcagcaaaaacaatgggcacagtctcctgctagct Alignment from Pairagon --------------------------------GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG tcttgagcattctggatgtagctgcagCAATTCTAAAAATTGTATATTAGGTCTGGTGTGGCCCCCGAAAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAGgtaagcattccaccttcagcaaaaacaatgggcacagtctcctgctagct Alignment from Exonerate_protein2genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG tcttgagcattctggatgtagctgcagcaattctaaaaattgtatattaggtctggtgtGGCCCCCGAAAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAGgtaagcattccaccttcagcaaaaacaatgggcacagtctcctgctagct Alignment from Exonerate_coding2genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG tcttgagcattctggatgtagctgcagcaattctaaaaattgtatattaggtctggtgtGGCCCCCGAAAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAGgtaagcattccaccttcagcaaaaacaatgggcacagtctcctgctagct Alignment from GeneWise -------TGGGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG tcttgagcattctggatgtagctgcagcaattctaaaaattgtatattagGTCTGGTGTGGCCCCCGAAAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAGgtaagcattccaccttcagcaaaaacaatgggcacagtctcctgctagct #### Chuk_ID8920_8 --> 1 - 2 Original Alignment gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---ag agagtatttatatgaatcaggtcgtcaatttccctctgctcttctggcaggCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTTTCaggtgagcggaagatgagacaagttttgagagtggttgtccctttgtcacct Alignment from CESAR gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---ag agagtatttatatgaatcaggtcgtcaatttccctctgctcttctggcaggCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTTTCaggtgagcggaagatgagacaagttttgagagtggttgtccctttgtcacct Alignment from Spaln_aa2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGT-- agagtatttatatgaatcaggtcgtcaatttccctctgctcttctggcagGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTTTCAGgtgagcggaagatgagacaagttttgagagtggttgtccctttgtcacct Alignment from Spaln_nt2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---AG agagtatttatatgaatcaggtcgtcaatttccctctgctcttctggcagGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTTTCAGgtgagcggaagatgagacaagttttgagagtggttgtccctttgtcacct Alignment from Pairagon GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---AG agagtatttatatgaatcaggtcgtcaatttccctctgctcttctggcagGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTTTCAGgtgagcggaagatgagacaagttttgagagtggttgtccctttgtcacct Alignment from Exonerate_protein2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---AG agagtatttatatgaatcaggtcgtcaatttccctctgctcttctggcagGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTTTCAGgtgagcggaagatgagacaagttttgagagtggttgtccctttgtcacct Alignment from Exonerate_coding2genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGT---AG agagtatttatatgaatcaggtcgtcaatttccctctgctcttctggcagGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTTTCAGgtgagcggaagatgagacaagttttgagagtggttgtccctttgtcacct Alignment from GeneWise GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGT-- agagtatttatatgaatcaggtcgtcaatttccctctgctcttctggcagGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTTTCAGgtgagcggaagatgagacaagttttgagagtggttgtccctttgtcacct #### Col17a1_ID10271_51 --> 2 - 1 Original Alignment gt---GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAg ctttagctcttactcatacttggatgtcatttcttttcccttttgtttaggtAGGGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCAACCTGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAggtaagaagtggtgtgtgactgctggggttctgggattcatcagagaagag Alignment from CESAR gt---GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAg ctttagctcttactcatacttggatgtcatttcttttcccttttgtttaggtAGGGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCAACCTGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAggtaagaagtggtgtgtgactgctggggttctgggattcatcagagaagag Alignment from Spaln_aa2Genome GTGACAGGGGCCCT---GCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttagctcttactcatacttggatgtcatttcttttcccttttgtttagGTAGGGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCAACCTGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAGgtaagaagtggtgtgtgactgctggggttctgggattcatcagagaagag Alignment from Spaln_nt2Genome GTGACAGGGGC---CCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttagctcttactcatacttggatgtcatttcttttcccttttgtttagGTAGGGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCAACCTGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAGgtaagaagtggtgtgtgactgctggggttctgggattcatcagagaagag Alignment from Pairagon GT---GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttagctcttactcatacttggatgtcatttcttttcccttttgtttagGTAGGGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCAACCTGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAGgtaagaagtggtgtgtgactgctggggttctgggattcatcagagaagag Alignment from Exonerate_protein2genome GT---GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttagctcttactcatacttggatgtcatttcttttcccttttgtttagGTAGGGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCAACCTGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAGgtaagaagtggtgtgtgactgctggggttctgggattcatcagagaagag Alignment from Exonerate_coding2genome GT---GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttagctcttactcatacttggatgtcatttcttttcccttttgtttagGTAGGGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCAACCTGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAGgtaagaagtggtgtgtgactgctggggttctgggattcatcagagaagag Alignment from GeneWise -GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttagctcttactcatacttggatgtcatttcttttcccttttgtttaggtagGGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCAACCTGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAGgtaagaagtggtgtgtgactgctggggttctgggattcatcagagaagag #### Col17a1_ID10272_50 --> 2 - 1 Original Alignment ccTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAg tcctaagccttgagctctggtctaaaggcaccttgtgtgctgccctgcagccTATGGCACCATCCCAGGACCACCTGGCCAGAAAGGAGATGTGGGGACCCCA---------ggtgcgtgagagcatcagtcaggacccctgggttaattgattatgccttag Alignment from CESAR ccTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAg tcctaagccttgagctctggtctaaaggcaccttgtgtgctgccctgcagccTATGGCACCATCCCAGGACCACCTGGCCAGAAAGGAGATGTGGGGACCCCA---------ggtgcgtgagagcatcagtcaggacccctgggttaattgattatgccttag Alignment from Spaln_aa2Genome CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCA- tcctaagccttgagctctggtctaaaggcaccttgtgtgctgccctgcagCCTATGGCACCATCCCAGGACCACCTGGCCAGAAAGGAGATGTGGGGACCCCAGgtgcgtgagagcatcagtcaggacccctgggttaattgattatgccttag Alignment from Spaln_nt2Genome CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAG tcctaagccttgagctctggtctaaaggcaccttgtgtgctgccctgcagCCTATGGCACCATCCCAGGACCACCTGGCCAGAAAGGAGATGTGGGGACCCCAGgtgcgtgagagcatcagtcaggacccctgggttaattgattatgccttag Alignment from Pairagon CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAG tcctaagccttgagctctggtctaaaggcaccttgtgtgctgccctgcagCCTATGGCACCATCCCAGGACCACCTGGCCAGAAAGGAGATGTGGGGACCCCAGgtgcgtgagagcatcagtcaggacccctgggttaattgattatgccttag Alignment from Exonerate_protein2genome CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCA tcctaagccttgagctctggtctaaaggcaccttgtgtgctgccctgcagCCTATGGCACCATCCCAGGACCACCTGGCCAGAAAGGAGATGTGGGGACCCCAGGTGCGTgagagcatcagtcaggacccctgggttaattgattatgccttag Alignment from Exonerate_coding2genome CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCA tcctaagccttgagctctggtctaaaggcaccttgtgtgctgccctgcagCCTATGGCACCATCCCAGGACCACCTGGCCAGAAAGGAGATGTGGGGACCCCAGGTGCGTgagagcatcagtcaggacccctgggttaattgattatgccttag Alignment from GeneWise CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGC-- tcctaagccttgagctctggtctaaaggcaccttgtgtgctgccctgcagCCTATGGCACCATCCCAGGACCACCTGGCCAGAAAGGAGATGTGGGGACCCCAGGTGCgtgagagcatcagtcaggacccctgggttaattgattatgccttag #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACA---------a attttctgtccaggctcctgaccttccttctgtctctctgctctgaacagccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCCCCAGGTGTTTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAATAATGCCTagtaagtacccttgatgtgggccccccgtgccctccccctagactttcaca Alignment from CESAR ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACA---------a attttctgtccaggctcctgaccttccttctgtctctctgctctgaacagccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCCCCAGGTGTTTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAATAATGCCTagtaagtacccttgatgtgggccccccgtgccctccccctagactttcaca Alignment from Spaln_aa2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACA---------A attttctgtccaggctcctgaccttccttctgtctctctgctctgaacagCCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCCCCAGGTGTTTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAATAATGCCTAgtaagtacccttgatgtgggccccccgtgccctccccctagactttcaca Alignment from Spaln_nt2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA--------- attttctgtccaggctcctgaccttccttctgtctctctgctctgaacagCCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCCCCAGGTGTTTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAATAATGCCTAgtaagtacccttgatgtgggccccccgtgccctccccctagactttcaca Alignment from Pairagon CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA--------- attttctgtccaggctcctgaccttccttctgtctctctgctctgaacagCCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCCCCAGGTGTTTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAATAATGCCTAgtaagtacccttgatgtgggccccccgtgccctccccctagactttcaca Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA attttctgtccaggctcctgaccttccttctgtctctctgctctgaacagCCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCCCCAGGTGTTTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAAtaatgcctagtaagtacccttgatgtgggccccccgtgccctccccctagactttcaca Alignment from Exonerate_coding2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA attttctgtccaggctcctgaccttccttctgtctctctgctctgaacagCCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCCCCAGGTGTTTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAAtaatgcctagtaagtacccttgatgtgggccccccgtgccctccccctagactttcaca Alignment from GeneWise CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACA---------A attttctgtccaggctcctgaccttccttctgtctctctgctctgaacagCCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCCCCAGGTGTTTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAATAATGCCTAgtaagtacccttgatgtgggccccccgtgccctccccctagactttcaca #### Col17a1_ID10277_45 --> 2 - 1 Original Alignment ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa attgggcttctagattgattcaaaacatgctcccaatgccctccctgcagga------GTGTGGCAATACTTACGTCAGAATCTGGTGGGTCCTCCCAGTCCCCCAGGGCCACCAGGCGTCAGTGGAGAAGGGTCTCTCCTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAagtaggtaatcaggattaagggcaaccaaccccactaagatggccccagta Alignment from CESAR ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAa gacactattgggcttctagattgatcatgctcccaatgccctccctgcagga------GTGTGGCAATACTTACGTCAGAATCTGGTGGGTCCTCCCAGTCCCCCAGGGCCACCAGGCGTCAGTGGAGAAGGGTCTCTCCTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAagtaggtaatcaggattaagggcaaccaaccccactaagatggccccagta Alignment from Spaln_aa2Genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA attgggcttctagattgattcaaaacatgctcccaatgccctccctgcagGA------GTGTGGCAATACTTACGTCAGAATCTGGTGGGTCCTCCCAGTCCCCCAGGGCCACCAGGCGTCAGT---------GGAGAAGGGTCTCTCCTGTCTGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaggtaatcaggattaagggcaaccaaccccactaagatggccccagta Alignment from Spaln_nt2Genome CGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA attgggcttctagattgattcaaaacatgctcccaatgccctccctgcag-GA-GTGTGGCAATACTTACGTCAGAATCTGGTGGGTCCTCCCAGTCCCCCAGGGCCACCAGGCGTCAGTGGAGAAGGGTCTCTCCTGTC---------TGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaggtaatcaggattaagggcaaccaaccccactaagatggccccagta Alignment from Pairagon GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA attgggcttctagattgattcaaaacatgctcccaatgccctccctgcagGA------GTGTGGCAATACTTACGTCAGAATCTGGTGGGTCCTCCCAGTCCCCCAGGGCCACCAGGCGTCAGTGGAGAAGGGTCTCTCCTGTC---------TGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaggtaatcaggattaagggcaaccaaccccactaagatggccccagta Alignment from Exonerate_protein2genome ATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA attgggcttctagattgattcaaaacatgctcccaatgccctccctgcagGAGTGTGGCAATACTTACGTCAGAATCTGGTGGGTCCTCCCAGTCCCCCAGGGCCACCAGGCGTCAGTGGAGAAGGGTCTCTCCTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaggtaatcaggattaagggcaaccaaccccactaagatggccccagta Alignment from Exonerate_coding2genome ATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA attgggcttctagattgattcaaaacatgctcccaatgccctccctgcagGAGTGTGGCAATACTTACGTCAGAATCTGGTGGGTCCTCCCAGTCCCCCAGGGCCACCAGGCGTCAGTGGAGAAGGGTCTCTCCTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaggtaatcaggattaagggcaaccaaccccactaagatggccccagta Alignment from GeneWise ATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA attgggcttctagattgattcaaaacatgctcccaatgccctccctgcagGAGTGTGGCAATACTTACGTCAGAATCTGGTGGGTCCTCCCAGTCCCCCAGGGCCACCAGGCGTCAGTGGAGAAGGGTCTCTCCTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAAgtaggtaatcaggattaagggcaaccaaccccactaagatggccccagta #### Col17a1_ID10283_39 --> 2 - 1 Original Alignment gg------GAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAg gtccgctggtgaggctcttgtctcacatttcttccttcttctttgtacagggAAGAAGGAGGGTGTACCAGGCCCACCCGGGCCACCAGGATCCTTTTTGACTGACTCAggtatgttgggccgtatccaatcacaccttttcctatttcaacccaattgc Alignment from CESAR gg------GAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAg gtccgctggtgaggctcttgtctcacatttcttccttcttctttgtacagggAAGAAGGAGGGTGTACCAGGCCCACCCGGGCCACCAGGATCCTTTTTGACTGACTCAggtatgttgggccgtatccaatcacaccttttcctatttcaacccaattgc Alignment from Spaln_aa2Genome GGGAAGGCGTACCA------GGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG gtccgctggtgaggctcttgtctcacatttcttccttcttctttgtacagGGAAGAAGGAGGGTGTACCAGGCCCACCCGGGCCACCAGGATCCTTTTTGACTGACTCAGgtatgttgggccgtatccaatcacaccttttcctatttcaacccaattgc Alignment from Spaln_nt2Genome GGGAAGGCGTACCA------GGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG gtccgctggtgaggctcttgtctcacatttcttccttcttctttgtacagGGAAGAAGGAGGGTGTACCAGGCCCACCCGGGCCACCAGGATCCTTTTTGACTGACTCAGgtatgttgggccgtatccaatcacaccttttcctatttcaacccaattgc Alignment from Pairagon G------GGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG gtccgctggtgaggctcttgtctcacatttcttccttcttctttgtacagGGAAGAAGGAGGGTGTACCAGGCCCACCCGGGCCACCAGGATCCTTTTTGACTGACTCAGgtatgttgggccgtatccaatcacaccttttcctatttcaacccaattgc Alignment from Exonerate_protein2genome GG------GAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG gtccgctggtgaggctcttgtctcacatttcttccttcttctttgtacagGGAAGAAGGAGGGTGTACCAGGCCCACCCGGGCCACCAGGATCCTTTTTGACTGACTCAGgtatgttgggccgtatccaatcacaccttttcctatttcaacccaattgc Alignment from Exonerate_coding2genome GG------GAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG gtccgctggtgaggctcttgtctcacatttcttccttcttctttgtacagGGAAGAAGGAGGGTGTACCAGGCCCACCCGGGCCACCAGGATCCTTTTTGACTGACTCAGgtatgttgggccgtatccaatcacaccttttcctatttcaacccaattgc Alignment from GeneWise -----GGGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAG gtccgctggtgaggctcttgtctcacatttcttccttcttctttgtacagGGAAGAAGGAGGGTGTACCAGGCCCACCCGGGCCACCAGGATCCTTTTTGACTGACTCAGgtatgttgggccgtatccaatcacaccttttcctatttcaacccaattgc #### Col17a1_ID10284_38 --> 2 - 1 Original Alignment ggCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg cctaaggctggctgtagcgcgaatgggtacctaagtgactctgtgcacaggg------------------CCAGGACCCCGAGGTCCACCAggtaagtgctgaactcctttcccataggaggggataaggacaggggaagta Alignment from CESAR ggCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg gctggggagaatcagcctcctaaggggtacctaagtgactctgtgcacaggg------------------CCAGGACCCCGAGGTCCACCAggtaagtgctgaactcctttcccataggaggggataaggacaggggaagta Alignment from Spaln_aa2Genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG cctaaggctggctgtagcgcgaatgggtacctaagTGACTCTGTGCACAGGG---CCAGGACCCCGAGGTCCACCAGgtaagtgctgaactcctttcccataggaggggataaggacaggggaagta Alignment from Spaln_nt2Genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG cctaaggctggctgtagcgcgaatgggtacctaagTGACTCTGTGCACAGG---GCCAGGACCCCGAGGTCCACCAGgtaagtgctgaactcctttcccataggaggggataaggacaggggaagta Alignment from Pairagon GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG cctaaggctggctgtagcgcgaatgggtacctaagtgactctgtgcacagG------------------GCCAGGACCCCGAGGTCCACCAGgtaagtgctgaactcctttcccataggaggggataaggacaggggaagta Alignment from Exonerate_protein2genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG cctaaggctggctgtagcgcgaatgggtacctaagTGACTCTGTGCACAGGG---CCAGGACCCCGAGGTCCACCAGgtaagtgctgaactcctttcccataggaggggataaggacaggggaagta Alignment from Exonerate_coding2genome GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG cctaaggctggctgtagcgcgaatgggtacctaagTGACTCTGTGCACAGGG---CCAGGACCCCGAGGTCCACCAGgtaagtgctgaactcctttcccataggaggggataaggacaggggaagta Alignment from GeneWise GGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG cctaaggctggctgtagcgcgaatgggtacctaagTGACTCTGTGCACAGGGCCA---GGACCCCGAGGTCCACCAGgtaagtgctgaactcctttcccataggaggggataaggacaggggaagta #### Col17a1_ID10296_26 --> 2 - 1 Original Alignment gtGACAAAGGACTCATGGGACCACCAGGACCCAAAg ctacagggcttgccacacttacagtttcctgactctttgctctgccccaggt---------CTCATAGGACCACCAGGACCCAAAggtacgaattgcccatggctgctcagcctttgttatggcctcttctgcaac Alignment from CESAR gtGACAAAGGACTCATGGGACCACCAGGACCCAAAg ggcaaacccctacagggcttgccacttcctgactctttgctctgccccaggt---------CTCATAGGACCACCAGGACCCAAAggtacgaattgcccatggctgctcagcctttgttatggcctcttctgcaac Alignment from Spaln_aa2Genome GTGACAAAGGACTCATGGGACCACCAGGACCCAAAG ctacagggcttgccacacttacagtttcctgactctttgctctgccccagGT---------CTCATAGGACCACCAGGACCCAAAGgtacgaattgcccatggctgctcagcctttgttatggcctcttctgcaac Alignment from Spaln_nt2Genome GACTCATGGGACCACCAGGACCCAAAG ctacagggcttgccacacttacagtttcctgactctttgctctgccccagGTCTCATAGGACCACCAGGACCCAAAGgtacgaattgcccatggctgctcagcctttgttatggcctcttctgcaac Alignment from Pairagon GTGACAAAGGACTCATGGGACCACCAGGACCCAAAG ctacagggcttgccacacttacagtttcctgactctttgctctgccccagGT---------CTCATAGGACCACCAGGACCCAAAGgtacgaattgcccatggctgctcagcctttgttatggcctcttctgcaac Alignment from Exonerate_protein2genome AGGACTCATGGGACCACCAGGACCCAAAG ctacagggcttgccacacttacagtttcctgactctttgctctgccccAGGTCTCATAGGACCACCAGGACCCAAAGgtacgaattgcccatggctgctcagcctttgttatggcctcttctgcaac Alignment from Exonerate_coding2genome AGGACTCATGGGACCACCAGGACCCAAAG ctacagggcttgccacacttacagtttcctgactctttgctctgccccAGGTCTCATAGGACCACCAGGACCCAAAGgtacgaattgcccatggctgctcagcctttgttatggcctcttctgcaac Alignment from GeneWise ctacagggcttgccacacttacagtttcctgactctttgctctgccccaggtctcataggaccaccaggacccaaaggtacgaattgcccatggctgctcagcctttgttatggcctcttctgcaac #### Col17a1_ID10297_25 --> 2 - 1 Original Alignment gt------GCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAg ctatgtgctgcctagctccgatgatgggtaacgggagttggctctcgtaggtGTGGATGCCGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAggtaacataggggaggagtaggaattagaaagcattctgtggaggcgtctc Alignment from CESAR gt------GCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAg ctatgtgctgcctagctccgatgatgggtaacgggagttggctctcgtaggtGTGGATGCCGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAggtaacataggggaggagtaggaattagaaagcattctgtggaggcgtctc Alignment from Spaln_aa2Genome GTGCTGTGGGTCCC------CAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG ctatgtgctgcctagctccgatgatgggtaacgggagttggctctcgtagGTGTGGATGCCGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaacataggggaggagtaggaattagaaagcattctgtggaggcgtctc Alignment from Spaln_nt2Genome GTGCTGTGGGTCC------CCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG ctatgtgctgcctagctccgatgatgggtaacgggagttggctctcgtagGTGTGGATGCCGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaacataggggaggagtaggaattagaaagcattctgtggaggcgtctc Alignment from Pairagon G------TGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG ctatgtgctgcctagctccgatgatgggtaacgggagttggctctcgtagGTGTGGATGCCGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaacataggggaggagtaggaattagaaagcattctgtggaggcgtctc Alignment from Exonerate_protein2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG ctatgtgctgcctagctccgatgatgggtaacgggagttggctctcgtaggtgtggATGCCGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaacataggggaggagtaggaattagaaagcattctgtggaggcgtctc Alignment from Exonerate_coding2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG ctatgtgctgcctagctccgatgatgggtaacgggagttggctctcgtaggtgtggATGCCGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaacataggggaggagtaggaattagaaagcattctgtggaggcgtctc Alignment from GeneWise -----GGTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG ctatgtgctgcctagctccgatgatgggtaacgggagttggctctcgtagGTGTGGATGCCGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaacataggggaggagtaggaattagaaagcattctgtggaggcgtctc #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG agggaggtcaggactttgggttttctttctacctaaaatttcttattcagACGGGCCGCATTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAGACTGCACTGTC---gtatagagtaaagaaccgttcaagtcaggttttcaggatgtgtctgaggg Alignment from CESAR ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG agggaggtcaggactttgggttttctttctacctaaaatttcttattcagACGGGCCGCATTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAGACTGCACTGTC---gtatagagtaaagaaccgttcaagtcaggttttcaggatgtgtctga Alignment from Spaln_aa2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTC agggaggtcaggactttgggttttctttctacctaaaatttcttattcagACGGGCCGCATTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAGACTGCACTGTCgtatagagtaaagaaccgttcaagtcaggttttcaggatgtgtctgaggg Alignment from Spaln_nt2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG---- agggaggtcaggactttgggttttctttctacctaaaatttcttattcagACGGGCCGCATTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAGACTGCACTGTCGTATAGAgtaaagaaccgttcaagtcaggttttcaggatgtgtctgaggg Alignment from Pairagon ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTC agggaggtcaggactttgggttttctttctacctaaaatttcttattcagACGGGCCGCATTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAGACTGCACTGTCgtatagagtaaagaaccgttcaagtcaggttttcaggatgtgtctgaggg Alignment from Exonerate_protein2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG agggaggtcaggactttgggttttctttctacctaaaatttcttattcagACGGGCCGCATTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAGACTGCACTGTCGTAtagagtaaagaaccgttcaagtcaggttttcaggatgtgtctgaggg Alignment from Exonerate_coding2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG agggaggtcaggactttgggttttctttctacctaaaatttcttattcagACGGGCCGCATTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAGACTGCACTGTCGTAtagagtaaagaaccgttcaagtcaggttttcaggatgtgtctgaggg Alignment from GeneWise ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTC agggaggtcaggactttgggttttctttctacctaaaatttcttattcagACGGGCCGCATTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAGACTGCACTGTCgtatagagtaaagaaccgttcaagtcaggttttcaggatgtgtctgaggg #### Coro1b_ID355_5 --> 0 - 0 Original Alignment GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA------ agactcagggccttgatctgccctgtacgcagtttgtctttcccctacagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGATGGGAAGGTGTTCACCACGGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAGGGGAAgtgagtgatatagcaagactaatgcgggcaggtttgtgacctgggcctca Alignment from CESAR GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA------ agactcagggccttgatctgccctgtacgcagtttgtctttcccctacagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGATGGGAAGGTGTTCACCACGGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAGGGGAAgtgagtgatatagcaagactaatgcgggcaggtttgtgacctgggcctca Alignment from Spaln_aa2Genome GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA------ agactcagggccttgatctgccctgtacgcagtttgtctttcccctacagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGATGGGAAGGTGTTCACCACGGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAGGGGAAgtgagtgatatagcaagactaatgcgggcaggtttgtgacctgggcctca Alignment from Spaln_nt2Genome GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA------ agactcagggccttgatctgccctgtacgcagtttgtctttcccctacagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGATGGGAAGGTGTTCACCACGGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAGGGGAAgtgagtgatatagcaagactaatgcgggcaggtttgtgacctgggcctca Alignment from Pairagon GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA------ agactcagggccttgatctgccctgtacgcagtttgtctttcccctacagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGATGGGAAGGTGTTCACCACGGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAGGGGAAgtgagtgatatagcaagactaatgcgggcaggtttgtgacctgggcctca Alignment from Exonerate_protein2genome GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA agactcagggccttgatctgccctgtacgcagtttgtctttcccctacagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGATGGGAAGGTGTTCACCACGGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAggggaagtgagtgatatagcaagactaatgcgggcaggtttgtgacctgggcctca Alignment from Exonerate_coding2genome GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA agactcagggccttgatctgccctgtacgcagtttgtctttcccctacagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGATGGGAAGGTGTTCACCACGGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAggggaagtgagtgatatagcaagactaatgcgggcaggtttgtgacctgggcctca Alignment from GeneWise GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA---GAA agactcagggccttgatctgccctgtacgcagtttgtctttcccctacagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGATGGGAAGGTGTTCACCACGGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAGGGGAAgtgagtgatatagcaagactaatgcgggcaggtttgtgacctgggcctca #### Coro1b_ID356_6 --> 0 - 0 Original Alignment GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG------ tttggaaggaggtgatgctgacttgaccgcctcttttttttaacctaaagGAAAACCTTGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTACGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAGCGTCTGgtaggactgggtgggcagcaaacttaggctgagcataatggaaagctctc Alignment from CESAR GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG------ tttggaaggaggtgatgctgacttgaccgcctcttttttttaacctaaagGAAAACCTTGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTACGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAGCGTCTGgtaggactgggtgggcagcaaacttaggctgagcataatggaaagctctc Alignment from Spaln_aa2Genome GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG------ tttggaaggaggtgatgctgacttgaccgcctcttttttttaacctaaagGAAAACCTTGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTACGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAGCGTCTGgtaggactgggtgggcagcaaacttaggctgagcataatggaaagctctc Alignment from Spaln_nt2Genome GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG- tttggaaggaggtgatgctgacttgaccgcctcttttttttaacctaaagGAAAACCTTGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTACGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAGCgtctggtaggactgggtgggcagcaaacttaggctgagcataatggaaagctctc Alignment from Pairagon GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG------ tttggaaggaggtgatgctgacttgaccgcctcttttttttaacctaaagGAAAACCTTGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTACGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAGCGTCTGgtaggactgggtgggcagcaaacttaggctgagcataatggaaagctctc Alignment from Exonerate_protein2genome GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG------ tttggaaggaggtgatgctgacttgaccgcctcttttttttaacctaaagGAAAACCTTGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTACGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAGCGTCTGgtaggactgggtgggcagcaaacttaggctgagcataatggaaagctctc Alignment from Exonerate_coding2genome GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG------ tttggaaggaggtgatgctgacttgaccgcctcttttttttaacctaaagGAAAACCTTGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTACGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAGCGTCTGgtaggactgggtgggcagcaaacttaggctgagcataatggaaagctctc Alignment from GeneWise GAAAACCTTGAGGAGCCCATGGCCCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTATGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAG------ tttggaaggaggtgatgctgacttgaccgcctcttttttttaacctaaagGAAAACCTTGAGGAGCCCATGGCTCTGCAGGAGCTGGATTCAAGCAATGGGGCTCTACTGCCCTTTTACGACCCAGACACCAGTGTGGTCTATGTCTGTGGCAAGCGTCTGgtaggactgggtgggcagcaaacttaggctgagcataatggaaagctctc #### Csf2ra_ID13430_10 --> 1 - 0 Original Alignment gTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gatgcccatgtgcatgctgccctgctgatctcccataccaccctatgcagg---GAGGTGACACGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCTGACGACGTGCGAGTGAACCCTGAGgtaagcagtcacaagcgctaatggtgggggtggggtataaagcttgtccc Alignment from CESAR gTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG ggggatgcccatgtgcatgctgccctgatctcccataccaccctatgcagg---GAGGTGACACGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCTGACGACGTGCGAGTGAACCCTGAGgtaagcagtcacaagcgctaatggtgggggtggggtataaagcttgtccc Alignment from Spaln_aa2Genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gatgcccatgtgcatgctgccctgctgatctcccataccaccctatgcagG---GAGGTGACACGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCTGACGACGTGCGAGTGAACCCTGAGgtaagcagtcacaagcgctaatggtgggggtggggtataaagcttgtccc Alignment from Spaln_nt2Genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gatgcccatgtgcatgctgccctgctgatctcccataccaccctatgcagG---GAGGTGACACGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCTGACGACGTGCGAGTGAACCCTGAGgtaagcagtcacaagcgctaatggtgggggtggggtataaagcttgtccc Alignment from Pairagon GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gatgcccatgtgcatgctgccctgctgatctcccataccaccctatgcagG---GAGGTGACACGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCTGACGACGTGCGAGTGAACCCTGAGgtaagcagtcacaagcgctaatggtgggggtggggtataaagcttgtccc Alignment from Exonerate_protein2genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gatgcccatgtgcatgctgccctgctgatctcccataccaccctatgcagG---GAGGTGACACGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCTGACGACGTGCGAGTGAACCCTGAGgtaagcagtcacaagcgctaatggtgggggtggggtataaagcttgtccc Alignment from Exonerate_coding2genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gatgcccatgtgcatgctgccctgctgatctcccataccaccctatgcagG---GAGGTGACACGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCTGACGACGTGCGAGTGAACCCTGAGgtaagcagtcacaagcgctaatggtgggggtggggtataaagcttgtccc Alignment from GeneWise GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gatgcccatgtgcatgctgccctgctgatctcccataccaccctatgcagG---GAGGTGACACGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCTGACGACGTGCGAGTGAACCCTGAGgtaagcagtcacaagcgctaatggtgggggtggggtataaagcttgtccc #### Csf2ra_ID13433_7 --> 0 - 0 Original Alignment ------AGCGCAGAGCCAGGAAGCACACCCCGGAAG ttgcttgccacactcccaaatcctcagccaccacgcgtgtccccctacagCTCCCTAGCGCAGAACCAGGAAGCACACCCCGGAAGgtaggttgagttgatgcagggactgacctggatggcaggaatggagagga Alignment from CESAR ------AGCGCAGAGCCAGGAAGCACACCCCGGAAG ttgcttgccacactcccaaatcctcagccaccacgcgtgtccccctacagCTCCCTAGCGCAGAACCAGGAAGCACACCCCGGAAGgtaggttgagttgatgcagggactgacctggatggcaggaatggagagga Alignment from Spaln_aa2Genome AGCGCAGAGCCA------GGAAGCACACCCCGGAAG ttgcttgccacactcccaaatcctcagccaccacgcgtgtccccctacagCTCCCTAGCGCAGAACCAGGAAGCACACCCCGGAAGgtaggttgagttgatgcagggactgacctggatggcaggaatggagagga Alignment from Spaln_nt2Genome GAGCGCAGAGCC-----AGGAAGCACACCCCGGAAG ttgcttgccacactcccaaatcctcagccaccacgcgtgtccccctacagCTCCCTAGCGCAGAACCAGGAAGCACACCCCGGAAGgtaggttgagttgatgcagggactgacctggatggcaggaatggagagga Alignment from Pairagon ------AGCGCAGAGCCAGGAAGCACACCCCGGAAG ttgcttgccacactcccaaatcctcagccaccacgcgtgtccccctacagCTCCCTAGCGCAGAACCAGGAAGCACACCCCGGAAGgtaggttgagttgatgcagggactgacctggatggcaggaatggagagga Alignment from Exonerate_protein2genome AGCGCAGAGCCAGGAAGCACACCCCGGAAG ttgcttgccacactcccaaatcctcagccaccacgcgtgtccccctacagctccctAGCGCAGAACCAGGAAGCACACCCCGGAAGgtaggttgagttgatgcagggactgacctggatggcaggaatggagagga Alignment from Exonerate_coding2genome AGCGCAGAGCCAGGAAGCACACCCCGGAAG ttgcttgccacactcccaaatcctcagccaccacgcgtgtccccctacagctccctAGCGCAGAACCAGGAAGCACACCCCGGAAGgtaggttgagttgatgcagggactgacctggatggcaggaatggagagga Alignment from GeneWise ttgcttgccacactcccaaatcctcagccaccacgcgtgtccccctacagctccctagcgcagaaccaggaagcacaccccggaaggtaggttgagttgatgcagggactgacctggatggcaggaatggagagga #### Ctsf_ID674_2 --> 0 - 0 Original Alignment ---GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggctcggccagattcttttgtttgtcacttcagGAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTTCCTGAAACGAAGAAAACTGTGgtacatgaagtggtcatctattattggccctggctagtaaataattataa Alignment from CESAR ---GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggctcggccagattcttttgtttgtcacttcagGAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTTCCTGAAACGAAGAAAACTGTGgtacatgaagtggtcatctattattggccctggctagtaaataattataa Alignment from Spaln_aa2Genome GCCGGCCAGGGC---TCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggctcggccagattcttttgtttgtcacttcagGAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTTCCTGAAACGAAGAAAACTGTGgtacatgaagtggtcatctattattggccctggctagtaaataattataa Alignment from Spaln_nt2Genome GGCCGGCCAGGG--CTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggctcggccagattcttttgtttgtcacttcagGAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTTCCTGAAACGAAGAAAACTGTGgtacatgaagtggtcatctattattggccctggctagtaaataattataa Alignment from Pairagon ---GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggctcggccagattcttttgtttgtcacttcagGAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTTCCTGAAACGAAGAAAACTGTGgtacatgaagtggtcatctattattggccctggctagtaaataattataa Alignment from Exonerate_protein2genome ---GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggctcggccagattcttttgtttgtcacttcagGAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTTCCTGAAACGAAGAAAACTGTGgtacatgaagtggtcatctattattggccctggctagtaaataattataa Alignment from Exonerate_coding2genome ---GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggctcggccagattcttttgtttgtcacttcagGAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTTCCTGAAACGAAGAAAACTGTGgtacatgaagtggtcatctattattggccctggctagtaaataattataa Alignment from GeneWise ---GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggctcggccagattcttttgtttgtcacttcagGAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTTCCTGAAACGAAGAAAACTGTGgtacatgaagtggtcatctattattggccctggctagtaaataattataa #### Ctsf_ID676_4 --> 2 - 0 Original Alignment agTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG gagtcaaaatctggccttaaatacttattttcctccgtttgtacttttagag---AGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAAGATCCCCTGCCCCAGgtgagtatgctgtgttgaggagagacaaaggccccttaatcctctttccc Alignment from CESAR agTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG cctgagtcaaaatctggccttaaattattttcctccgtttgtacttttagag---AGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAAGATCCCCTGCCCCAGgtgagtatgctgtgttgaggagagacaaaggccccttaatcctctttccc Alignment from Spaln_aa2Genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG gagtcaaaatctggccttaaatacttattttcctccgtttgtacttttagAG---AGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAAGATCCCCTGCCCCAGgtgagtatgctgtgttgaggagagacaaaggccccttaatcctctttccc Alignment from Spaln_nt2Genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG gagtcaaaatctggccttaaatacttattttcctccgtttgtacttttagAG---AGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAAGATCCCCTGCCCCAGgtgagtatgctgtgttgaggagagacaaaggccccttaatcctctttccc Alignment from Pairagon AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG gagtcaaaatctggccttaaatacttattttcctccgtttgtacttttagAG---AGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAAGATCCCCTGCCCCAGgtgagtatgctgtgttgaggagagacaaaggccccttaatcctctttccc Alignment from Exonerate_protein2genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG gagtcaaaatctggccttaaatacttattttcctccgtttgtacttttagAG---AGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAAGATCCCCTGCCCCAGgtgagtatgctgtgttgaggagagacaaaggccccttaatcctctttccc Alignment from Exonerate_coding2genome AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG gagtcaaaatctggccttaaatacttattttcctccgtttgtacttttagAG---AGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAAGATCCCCTGCCCCAGgtgagtatgctgtgttgaggagagacaaaggccccttaatcctctttccc Alignment from GeneWise AGTTTAGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAGGATCCCCTGCCCCAG gagtcaaaatctggccttaaatacttattttcctccgtttgtacttttagAG---AGAAATGCGACTTTCAGCTCATTCCTTCCATTGTTGGACAAAGATCCCCTGCCCCAGgtgagtatgctgtgttgaggagagacaaaggccccttaatcctctttccc #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg cagggcctgaagagagagccctcatgatctgtgtcactccacttgtatag------ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGCAGggtatgggtcccgatctagccccctttcttcagaccaaccccttcagaggg Alignment from CESAR GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg actgcacagggcctgaagagagagcgatctgtgtcactccacttgtatag---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGCAGggtatgggtcccgatctagccccctttcttcagaccaaccccttcagaggg Alignment from Spaln_aa2Genome GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cagggcctgaagagagagccctcatgatctgtgtcactccacttgtatag---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGCAGGgtatgggtcccgatctagccccctttcttcagaccaaccccttcagaggg Alignment from Spaln_nt2Genome GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cagggcctgaagagagagccctcatgatctgtgtcactccacttgtatag---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGCAGGgtatgggtcccgatctagccccctttcttcagaccaaccccttcagaggg Alignment from Pairagon GGCATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cagggcctgaagagagagccctcatgatctgtgtcactccacttgtatag---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGCAGGgtatgggtcccgatctagccccctttcttcagaccaaccccttcagaggg Alignment from Exonerate_protein2genome ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cagggcctgaagagagagccctcatgatctgtgtcactccacttgtatagATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGCAGGgtatgggtcccgatctagccccctttcttcagaccaaccccttcagaggg Alignment from Exonerate_coding2genome ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cagggcctgaagagagagccctcatgatctgtgtcactccacttgtatagATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGCAGGgtatgggtcccgatctagccccctttcttcagaccaaccccttcagaggg Alignment from GeneWise ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG cagggcctgaagagagagccctcatgatctgtgtcactccacttgtatagATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGCAGGgtatgggtcccgatctagccccctttcttcagaccaaccccttcagaggg #### Ctsf_ID681_9 --> 2 - 1 Original Alignment agCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG---------g cagaccaaccccttcagagggtcccttgcattgaaaacttgtttccacagagCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGTGGAGCCCggtaatggttaatctggtttggagaagcagcaggtaccacctctttgtagg Alignment from CESAR agCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG---------g cagaccaaccccttcagagggtcccttgcattgaaaacttgtttccacagagCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGTGGAGCCCggtaatggttaatctggtttggagaagcagcaggtaccacctctttgtagg Alignment from Spaln_aa2Genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG---------G cagaccaaccccttcagagggtcccttgcattgaaaacttgtttccacagAGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGTGGAGCCCGgtaatggttaatctggtttggagaagcagcaggtaccacctctttgtagg Alignment from Spaln_nt2Genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG cagaccaaccccttcagagggtcccttgcattgaaaacttgtttccacagAGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGgtggagcccggtaatggttaatctggtttggagaagcagcaggtaccacctctttgtagg Alignment from Pairagon AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG--------- cagaccaaccccttcagagggtcccttgcattgaaaacttgtttccacagAGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGTGGAGCCCGgtaatggttaatctggtttggagaagcagcaggtaccacctctttgtagg Alignment from Exonerate_protein2genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG cagaccaaccccttcagagggtcccttgcattgaaaacttgtttccacagAGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGtggagcccggtaatggttaatctggtttggagaagcagcaggtaccacctctttgtagg Alignment from Exonerate_coding2genome AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG cagaccaaccccttcagagggtcccttgcattgaaaacttgtttccacagAGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGtggagcccggtaatggttaatctggtttggagaagcagcaggtaccacctctttgtagg Alignment from GeneWise AGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTG---------G cagaccaaccccttcagagggtcccttgcattgaaaacttgtttccacagAGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGTGGAGCCCGgtaatggttaatctggtttggagaagcagcaggtaccacctctttgtagg #### Ctsf_ID683_11 --> 2 - 0 Original Alignment agATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG--- ggttaatactgctgggctaaggtaccatacagctgtcttctcttttacagagATAGCAGCCTGGCTAGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGCTCgtaagttcccgacctctctgtccctccccatctcaccagtgccttcgtcc Alignment from CESAR agATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG--- ggttaatactgctgggctaaggtaccatacagctgtcttctcttttacagagATAGCAGCCTGGCTAGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGCTCgtaagttcccgacctctctgtccctccccatctcaccagtgccttcgtcc Alignment from Spaln_aa2Genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG--- ggttaatactgctgggctaaggtaccatacagctgtcttctcttttacagAGATAGCAGCCTGGCTAGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGCTCgtaagttcccgacctctctgtccctccccatctcaccagtgccttcgtcc Alignment from Spaln_nt2Genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG--- ggttaatactgctgggctaaggtaccatacagctgtcttctcttttacagAGATAGCAGCCTGGCTAGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGCTCgtaagttcccgacctctctgtccctccccatctcaccagtgccttcgtcc Alignment from Pairagon AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG--- ggttaatactgctgggctaaggtaccatacagctgtcttctcttttacagAGATAGCAGCCTGGCTAGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGCTCgtaagttcccgacctctctgtccctccccatctcaccagtgccttcgtcc Alignment from Exonerate_protein2genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG--- ggttaatactgctgggctaaggtaccatacagctgtcttctcttttacagAGATAGCAGCCTGGCTAGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGCTCgtaagttcccgacctctctgtccctccccatctcaccagtgccttcgtcc Alignment from Exonerate_coding2genome AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG--- ggttaatactgctgggctaaggtaccatacagctgtcttctcttttacagAGATAGCAGCCTGGCTAGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGCTCgtaagttcccgacctctctgtccctccccatctcaccagtgccttcgtcc Alignment from GeneWise AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAGTTC ggttaatactgctgggctaaggtaccatacagctgtcttctcttttacagAGATAGCAGCCTGGCTAGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGCTCgtaagttcccgacctctctgtccctccccatctcaccagtgccttcgtcc #### Ctsf_ID684_12 --> 0 - 1 Original Alignment TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc ccttcgtcccttctttttgacgctggccaacaaataatcttttgtttcagTTCTACCGTCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGAC------------------------------cgtcagttctgttggcctcctgcttcccttctctggtggagcctcccgtat Alignment from CESAR TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc ccttcgtcccttctttttgacgctggccaacaaataatcttttgtttcagTTCTACCGTCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGAC------------------------------cgtcagttctgttggcctcctgcttcccttctctggtggagcctcccgtat Alignment from Spaln_aa2Genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACC ccttcgtcccttctttttgacgctggccaacaaataatcttttgtttcagTTCTACCGTCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCgtcagttctgttggcctcctgcttcccttctctggtggagcctcccgtat Alignment from Spaln_nt2Genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACC ccttcgtcccttctttttgacgctggccaacaaataatcttttgtttcagTTCTACCGTCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCgtcagttctgttggcctcctgcttcccttctctggtggagcctcccgtat Alignment from Pairagon TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACC ccttcgtcccttctttttgacgctggccaacaaataatcttttgtttcagTTCTACCGTCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCgtcagttctgttggcctcctgcttcccttctctggtggagcctcccgtat Alignment from Exonerate_protein2genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTT ccttcgtcccttctttttgacgctggccaacaaataatcttttgtttcagTTCTACCGTCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCGTCAGTTCTGttggcctcctgcttcccttctctggtggagcctcccgtat Alignment from Exonerate_coding2genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTT ccttcgtcccttctttttgacgctggccaacaaataatcttttgtttcagTTCTACCGTCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCGTCAGTTCTGttggcctcctgcttcccttctctggtggagcctcccgtat Alignment from GeneWise TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACC ccttcgtcccttctttttgacgctggccaacaaataatcttttgtttcagTTCTACCGTCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCgtcagttctgttggcctcctgcttcccttctctggtggagcctcccgtat #### Ctsw_ID1017_9 --> 0 - 0 Original Alignment CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG ggagaaagagaggtgccctggactcagctgctttgttttaatttcaacagCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCCGTCTTGCTGGTGGGCTTTGGCAAGGAGGAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTTCTCATACTGGGTCTTGAAA------------------------------gtctgcgagtggaacagcaatggggcaggcaatagactatctcccttact Alignment from CESAR CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG ggagaaagagaggtgccctggactcagctgctttgttttaatttcaacagCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCCGTCTTGCTGGTGGGCTTTGGCAAGGAGGAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTTCTCATACTGGGTCTTG------------------------------AAAgtctgcgagtggaacagcaatggggcaggcaatagactatctcccttact Alignment from Spaln_aa2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCC---TGGGGAGCTCACTGGGGCGAGAAG ggagaaagagaggtgccctggactcagctgctttgttttaatttcaacagCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCCGTCTTGCTGGTGGGCTTTGGCAAGGAGGAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTTCTCATACTGGGTCTTGAAAGTCTGCGAGTGGAACAGCAAT---------GGGgcaggcaatagactatc Alignment from Spaln_nt2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGG-GGAGCT-CACTGGGGCGAGAAG ggagaaagagaggtgccctggactcagctgctttgttttaatttcaacagCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCCGTCTTGCTGGTGGGCTTTGGCAAGGAGGAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTTCTCATACTGGGTCTTGAAAGTCTGCGAGTGGAACAGCAATGGGGC----AGgcaatagactatctccct Alignment from Pairagon CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAG----------------------- ggagaaagagaggtgccctggactcagctgctttgttttaatttcaacagCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCCGTCTTGCTGGTGGGCTTTGGCAAGGAGGAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTTCTCATACTGGGTCTTGAAAGTCT------------------GCGAGTGGAACAGCAATGGGGCAGGCAA Alignment from Exonerate_protein2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGC ggagaaagagaggtgccctggactcagctgctttgttttaatttcaacagCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCCGTCTTGCTGGTGGGCTTTGGCAAGGAGGAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTTCTCATACTGGGTCTTGAAAGTCTGCGAGTGGAACAGCAATGGGgcaggcaatagactatctcccttact Alignment from Exonerate_coding2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGC ggagaaagagaggtgccctggactcagctgctttgttttaatttcaacagCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCCGTCTTGCTGGTGGGCTTTGGCAAGGAGGAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTTCTCATACTGGGTCTTGAAAGTCTGCGAGTGGAACAGCAATGGGgcaggcaatagactatctcccttact Alignment from GeneWise CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAG------------AACTCCTGGGGAGCTCAC-------------------- ggagaaagagaggtgccctggactcagctgctttgttttaatttcaacagCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCCGTCTTGCTGGTGGGCTTTGGCAAGGAGGAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTTCTCATACTGGGTCTTGAAAGTCTGCGAGTGGAACAGCAATGGGGCAGGCAATAGACTATCTCCCTTACT #### Ctsw_ID1018_8 --> 2 - 0 Original Alignment ca---ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggcttggcttgatggcaccttcaaggcctaactacctctatccttacagcaGGCATTGCCCACTATCTGGCTGTGCATGGACCCATCACCGTGACCATCAATATGAAACTACTCCAGgtgagcagacagggcaaagtgaggggagaaagagaggtgccctggactca Alignment from CESAR caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtaggcttggcttgatggcaccttcaactaactacctctatccttacagcaggcATTGCCCACTATCTGGCTGTGCATGGACCCATCACCGTGACCATCAATATGAAACTACTCCAGgtgagcagacagggcaaagtgaggggagaaagagaggtgccctggactca Alignment from Spaln_aa2Genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggcttggcttgatggcaccttcaaggcctaactacctctatccttacagcagGCATTGCCCACTATCTGGCTGTGCATGGACCCATCACCGTGACCATCAATATGAAACTACTCCAGgtgagcagacagggcaaagtgaggggagaaagagaggtgccctggactca Alignment from Spaln_nt2Genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggcttggcttgatggcaccttcaaggcctaactacctctatccttacagcagGCATTGCCCACTATCTGGCTGTGCATGGACCCATCACCGTGACCATCAATATGAAACTACTCCAGgtgagcagacagggcaaagtgaggggagaaagagaggtgccctggactca Alignment from Pairagon CA---ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggcttggcttgatggcaccttcaaggcctaactacctctatccttacagCAGGCATTGCCCACTATCTGGCTGTGCATGGACCCATCACCGTGACCATCAATATGAAACTACTCCAGgtgagcagacagggcaaagtgaggggagaaagagaggtgccctggactca Alignment from Exonerate_protein2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggcttggcttgatggcaccttcaaggcctaactacctctatccttacagcagGCATTGCCCACTATCTGGCTGTGCATGGACCCATCACCGTGACCATCAATATGAAACTACTCCAGgtgagcagacagggcaaagtgaggggagaaagagaggtgccctggactca Alignment from Exonerate_coding2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggcttggcttgatggcaccttcaaggcctaactacctctatccttacagcagGCATTGCCCACTATCTGGCTGTGCATGGACCCATCACCGTGACCATCAATATGAAACTACTCCAGgtgagcagacagggcaaagtgaggggagaaagagaggtgccctggactca Alignment from GeneWise CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG aggcttggcttgatggcaccttcaaggcctaactacctctatccttacagcagGCATTGCCCACTATCTGGCTGTGCATGGACCCATCACCGTGACCATCAATATGAAACTACTCCAGgtgagcagacagggcaaagtgaggggagaaagagaggtgccctggactca #### Ctsw_ID1019_7 --> 2 - 1 Original Alignment gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg tgagtgttcagcatgctaggttgcttgcatatctgtggtgtttcctgcaggt---CTGGCCAGTGAAAAAGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTGGCCAAGAAGTACAAGGAGGTGGCCTGGATCCAGGATTTCACCACGTTGTCCAATAATGAGCAGggtaagcccagggtagaccagaagggtgagggcacacaacctggctatggg Alignment from CESAR gtGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGg tagtgagtgttcagcatgctaggtttgcatatctgtggtgtttcctgcaggt---CTGGCCAGTGAAAAAGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTGGCCAAGAAGTACAAGGAGGTGGCCTGGATCCAGGATTTCACCACGTTGTCCAATAATGAGCAGggtaagcccagggtagaccagaagggtgagggcacacaacctggctatggg Alignment from Spaln_aa2Genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgagtgttcagcatgctaggttgcttgcatatctgtggtgtttcctgcagGTCTGGCCAGTGAA---AAAGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTGGCCAAGAAGTACAAGGAGGTGGCCTGGATCCAGGATTTCACCACGTTGTCCAATAATGAGCAGGgtaagcccagggtagaccagaagggtgagggcacacaacctggctatggg Alignment from Spaln_nt2Genome GCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgagtgttcagcatgctaggttgcttgcatatctgtggtgtttcctgcagGTCTGGCCAGTGAAAAAGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTGGCCAAGAAGTACAAGGAGGTGGCCTGGATCCAGGATTTCACCACGTTGTCCAATAATGAGCAGGgtaagcccagggtagaccagaagggtgagggcacacaacctggctatggg Alignment from Pairagon GCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgagtgttcagcatgctaggttgcttgcatatctgtggtgtttcctgcagGTCTGGCCAGTGAAAAAGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTGGCCAAGAAGTACAAGGAGGTGGCCTGGATCCAGGATTTCACCACGTTGTCCAATAATGAGCAGGgtaagcccagggtagaccagaagggtgagggcacacaacctggctatggg Alignment from Exonerate_protein2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgagtgttcagcatgctaggttgcttgcatatctgtggtgtttcctgCAGGTCTGGCCAGTGAAAAAGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTGGCCAAGAAGTACAAGGAGGTGGCCTGGATCCAGGATTTCACCACGTTGTCCAATAATGAGCAGGgtaagcccagggtagaccagaagggtgagggcacacaacctggctatggg Alignment from Exonerate_coding2genome GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgagtgttcagcatgctaggttgcttgcatatctgtggtgtttcctgCAGGTCTGGCCAGTGAAAAAGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTGGCCAAGAAGTACAAGGAGGTGGCCTGGATCCAGGATTTCACCACGTTGTCCAATAATGAGCAGGgtaagcccagggtagaccagaagggtgagggcacacaacctggctatggg Alignment from GeneWise GTGGCCTGGCCAGTGAAAAGGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTAGCCAAGAAGTACAAGAAGGTGGCCTGGATCCAGGATTTCACCATGTTGTCCAATAATGAGCAGG tgagtgttcagcatgctaggttgcttgcatatctgtggtgtttcctgcagGT---CTGGCCAGTGAAAAAGATTATCCATTCCAGGGGGACAGAAAGCCTCACAGATGCCTGGCCAAGAAGTACAAGGAGGTGGCCTGGATCCAGGATTTCACCACGTTGTCCAATAATGAGCAGGgtaagcccagggtagaccagaagggtgagggcacacaacctggctatggg #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tcaatgtccccttgatgcctgacacagccgtcttctgccttcccacgcagag---------GGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCTAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCATCGGTTAAGAACCAGgtgagtgtcctgtccccacccagtttggcctaatccaacccaaggcatgg Alignment from CESAR agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactccctcaatgtccccttgatagccgtcttctgccttcccacgcagag---------GGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCTAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCATCGGTTAAGAACCAGgtgagtgtcctgtccccacccagtttggcctaatccaacccaaggcatgg Alignment from Spaln_aa2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tcaatgtccccttgatgcctgacacagccgtcttctgccttcccacgcagAG---------GGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCTAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCATCGGTTAAGAACCAGgtgagtgtcctgtccccacccagtttggcctaatccaacccaaggcatgg Alignment from Spaln_nt2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tcaatgtccccttgatgcctgacacagccgtcttctgccttcccacgcagAG---------GGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCTAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCATCGGTTAAGAACCAGgtgagtgtcctgtccccacccagtttggcctaatccaacccaaggcatgg Alignment from Pairagon AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tcaatgtccccttgatgcctgacacagccgtcttctgccttcccacgcagAG---------GGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCTAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCATCGGTTAAGAACCAGgtgagtgtcctgtccccacccagtttggcctaatccaacccaaggcatgg Alignment from Exonerate_protein2genome GTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tcaatgtccccttgatgcctgacacagccgtcttctgccttcccacgcAGAGGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCTAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCATCGGTTAAGAACCAGgtgagtgtcctgtccccacccagtttggcctaatccaacccaaggcatgg Alignment from Exonerate_coding2genome GTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tcaatgtccccttgatgcctgacacagccgtcttctgccttcccacgcAGAGGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCTAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCATCGGTTAAGAACCAGgtgagtgtcctgtccccacccagtttggcctaatccaacccaaggcatgg Alignment from GeneWise AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tcaatgtccccttgatgcctgacacagccgtcttctgccttcccacgcagAG---------GGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCTAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCATCGGTTAAGAACCAGgtgagtgtcctgtccccacccagtttggcctaatccaacccaaggcatgg #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment ag---TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg ggccacttcctgccacgagactgacctagattttttcctttcatccccagagTATTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAggtaagaaagtcttagggtgattggcagatgggcaggggaaatctcccacc Alignment from CESAR ag---TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg ggccacttcctgccacgagactgacctagattttttcctttcatccccagagTATTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAggtaagaaagtcttagggtgattggcagatgggcaggggaaatctcccacc Alignment from Spaln_aa2Genome AG---TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG ggccacttcctgccacgagactgacctagattttttcctttcatccccagAGTATTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGgtaagaaagtcttagggtgattggcagatgggcaggggaaatctcccacc Alignment from Spaln_nt2Genome AGTA---CACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG ggccacttcctgccacgagactgacctagattttttcctttcatccccagAGTATTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGgtaagaaagtcttagggtgattggcagatgggcaggggaaatctcccacc Alignment from Pairagon AG---TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG ggccacttcctgccacgagactgacctagattttttcctttcatccccagAGTATTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGgtaagaaagtcttagggtgattggcagatgggcaggggaaatctcccacc Alignment from Exonerate_protein2genome AG---TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG ggccacttcctgccacgagactgacctagattttttcctttcatccccagAGTATTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGgtaagaaagtcttagggtgattggcagatgggcaggggaaatctcccacc Alignment from Exonerate_coding2genome AG---TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG ggccacttcctgccacgagactgacctagattttttcctttcatccccagAGTATTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGgtaagaaagtcttagggtgattggcagatgggcaggggaaatctcccacc Alignment from GeneWise --GAGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG ggccacttcctgccacgagactgacctagattttttcctttcatccccagAGTATTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGgtaagaaagtcttagggtgattggcagatgggcaggggaaatctcccacc #### Cyp26a1_ID7414_2 --> 0 - 0 Original Alignment CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG tcatgcaggttgtgggcctaaaatgactaggacacctttcctgtctgcag---------TTTCTGCAGATGAAGCGCAGAAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCGTCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGCACGATTCCTCACACAAGCAGCAAAAGAAGgtgagtgtgagcaggcaaccccttggccggcagggagacttcatcctatg Alignment from CESAR CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG ggcgccccctcatgcaggttgtgggactaggacacctttcctgtctgcag---------TTTCTGCAGATGAAGCGCAGAAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCGTCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGCACGATTCCTCACACAAGCAGCAAAAGAAGgtgagtgtgagcaggcaaccccttggccggcagggagacttcatcctatg Alignment from Spaln_aa2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG tcatgcaggttgtgggcctaaaatgactaggacacctttcctgtctgcag---------TTTCTGCAGATGAAGCGCAGAAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCGTCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGCACGATTCCTCACACAAGCAGCAAAAGAAGgtgagtgtgagcaggcaaccccttggccggcagggagacttcatcctatg Alignment from Spaln_nt2Genome TTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG tcatgcaggttgtgggcctaaaatgactaggacacctttcctgtctgcagTTTCTGCAGATGAAGCGCAGAAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCGTCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGCACGATTCCTCACACAAGCAGCAAAAGAAGgtgagtgtgagcaggcaaccccttggccggcagggagacttcatcctatg Alignment from Pairagon CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG tcatgcaggttgtgggcctaaaatgactaggacacctttcctgtctgcag---------TTTCTGCAGATGAAGCGCAGAAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCGTCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGCACGATTCCTCACACAAGCAGCAAAAGAAGgtgagtgtgagcaggcaaccccttggccggcagggagacttcatcctatg Alignment from Exonerate_protein2genome TTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG tcatgcaggttgtgggcctaaaatgactaggacacctttcctgtctgcagTTTCTGCAGATGAAGCGCAGAAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCGTCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGCACGATTCCTCACACAAGCAGCAAAAGAAGgtgagtgtgagcaggcaaccccttggccggcagggagacttcatcctatg Alignment from Exonerate_coding2genome TTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG tcatgcaggttgtgggcctaaaatgactaggacacctttcctgtctgcagTTTCTGCAGATGAAGCGCAGAAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCGTCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGCACGATTCCTCACACAAGCAGCAAAAGAAGgtgagtgtgagcaggcaaccccttggccggcagggagacttcatcctatg Alignment from GeneWise TTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG tcatgcaggttgtgggcctaaaatgactaggacacctttcctgtctgcagTTTCTGCAGATGAAGCGCAGAAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCGTCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGCACGATTCCTCACACAAGCAGCAAAAGAAGgtgagtgtgagcaggcaaccccttggccggcagggagacttcatcctatg #### Cyp26a1_ID7418_6 --> 0 - 0 Original Alignment GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacccagggatcccatcactcagtgtgtctgctctccctgcagGGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAG------gtaagtgcagtggcactccttgtcccccacccccagcccttgcccttgtc Alignment from CESAR GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacccagggatcccatcactcagtgtgtctgctctccctgcagGGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAG------gtaagtgcagtggcactccttgtcccccacccccagcccttgcc Alignment from Spaln_aa2Genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacccagggatcccatcactcagtgtgtctgctctccctgcagGGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGGTAAGTgcagtggcactccttgtcccccacccccagcccttgcccttgtc Alignment from Spaln_nt2Genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAA tttggagtacccagggatcccatcactcagtgtgtctgctctccctgcagGGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGGTAA-gtgcagtggcactccttgtcccccacccccagcccttgcccttgt Alignment from Pairagon GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAG tttggagtacccagggatcccatcactcagtgtgtctgctctccctgcagGGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGgtaagtgcagtggcactccttgtcccccacccccagcccttgcccttgtc Alignment from Exonerate_protein2genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacccagggatcccatcactcagtgtgtctgctctccctgcagGGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGGTAAGTgcagtggcactccttgtcccccacccccagcccttgcccttgtc Alignment from Exonerate_coding2genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacccagggatcccatcactcagtgtgtctgctctccctgcagGGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGGTAAGTgcagtggcactccttgtcccccacccccagcccttgcccttgtc Alignment from GeneWise GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAATGGA tttggagtacccagggatcccatcactcagtgtgtctgctctccctgcagGGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGGTAAGTGCAgtggcactccttgtcccccacccccagcccttgcccttgtc #### Cyp2c37_ID7840_3 --> 2 - 1 Original Alignment gcCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ttcttttgtctccaggaggtactctgtactgttcttgaactcatgtccaggcCTTACATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGCCACTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCGCGTTGCCTTGTGGAGGAACTTAGGAAAACC---ggtgagtggggtaggtttagaacctgatctagttatggcaatatcagtgat Alignment from CESAR gcCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ttcttttgtctccaggaggtactctgtactgttcttgaactcatgtccaggcCTTACATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGCCACTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCGCGTTGCCTTGTGGAGGAACTTAGGAAAACC---ggtgagtggggtaggtttagaacctgatctagttatggcaatatcagtgat Alignment from Spaln_aa2Genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACC- ttcttttgtctccaggaggtactctgtactgttcttgaactcatgtccagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGCCACTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCGCGTTGCCTTGTGGAGGAACTTAGGAAAACCGgtgagtggggtaggtttagaacctgatctagttatggcaatatcagtgat Alignment from Spaln_nt2Genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ttcttttgtctccaggaggtactctgtactgttcttgaactcatgtccagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGCCACTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCGCGTTGCCTTGTGGAGGAACTTAGGAAAACC---Ggtgagtggggtaggtttagaacctgatctagttatggcaatatcagtgat Alignment from Pairagon GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ttcttttgtctccaggaggtactctgtactgttcttgaactcatgtccagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGCCACTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCGCGTTGCCTTGTGGAGGAACTTAGGAAAACC---Ggtgagtggggtaggtttagaacctgatctagttatggcaatatcagtgat Alignment from Exonerate_protein2genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ttcttttgtctccaggaggtactctgtactgttcttgaactcatgtccagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGCCACTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCGCGTTGCCTTGTGGAGGAACTTAGGAAAACC---Ggtgagtggggtaggtttagaacctgatctagttatggcaatatcagtgat Alignment from Exonerate_coding2genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ttcttttgtctccaggaggtactctgtactgttcttgaactcatgtccagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGCCACTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCGCGTTGCCTTGTGGAGGAACTTAGGAAAACC---Ggtgagtggggtaggtttagaacctgatctagttatggcaatatcagtgat Alignment from GeneWise GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCA ttcttttgtctccaggaggtactctgtactgttcttgaactcatgtccagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGCCACTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCGCGTTGCCTTGTGGAGGAACTTAGGAAAACCGgtgagtggggtaggtttagaacctgatctagttatggcaatatcagtgat #### Dak_ID2899_14 --> 0 - 2 Original Alignment CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGaa gccagctcagtgtaatcaacctgtcctactattgttatcttaaatttcag---------CTGTTCCTGACTGCATCTGCACAGCCTCTCAAAGCCAAGACTGACCTCCCGACCTGGTCTGCTGCCATGGATGCCGGCCTAGAGTCCATGCAGaagtaattcagctccccacatcttaacagcaggggtgtgctggggaggtgac Alignment from CESAR CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGaa tgggtcccagccagctcagtgtaatctactattgttatcttaaatttcag---------CTGTTCCTGACTGCATCTGCACAGCCTCTCAAAGCCAAGACTGACCTCCCGACCTGGTCTGCTGCCATGGATGCCGGCCTAGAGTCCATGCAGaagtaattcagctccccacatcttaacagcaggggtgtgctggggaggtgac Alignment from Spaln_aa2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccagctcagtgtaatcaacctgtcctactattgttatcttaaatttcag---------CTGTTCCTGACTGCATCTGCACAGCCTCTCAAAGCCAAGACTGACCTCCCGACCTGGTCTGCTGCCATGGATGCCGGCCTAGAGTCCATGCAGAAgtaattcagctccccacatcttaacagcaggggtgtgctggggaggtgac Alignment from Spaln_nt2Genome CTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccagctcagtgtaatcaacctgtcctactattgttatcttaaatttcagCTGTTCCTGACTGCATCTGCACAGCCTCTCAAAGCCAAGACTGACCTCCCGACCTGGTCTGCTGCCATGGATGCCGGCCTAGAGTCCATGCAGAAgtaattcagctccccacatcttaacagcaggggtgtgctggggaggtgac Alignment from Pairagon CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccagctcagtgtaatcaacctgtcctactattgttatcttaaatttcag---------CTGTTCCTGACTGCATCTGCACAGCCTCTCAAAGCCAAGACTGACCTCCCGACCTGGTCTGCTGCCATGGATGCCGGCCTAGAGTCCATGCAGAAgtaattcagctccccacatcttaacagcaggggtgtgctggggaggtgac Alignment from Exonerate_protein2genome CTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccagctcagtgtaatcaacctgtcctactattgttatcttaaatttcagCTGTTCCTGACTGCATCTGCACAGCCTCTCAAAGCCAAGACTGACCTCCCGACCTGGTCTGCTGCCATGGATGCCGGCCTAGAGTCCATGCAGAAgtaattcagctccccacatcttaacagcaggggtgtgctggggaggtgac Alignment from Exonerate_coding2genome CTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccagctcagtgtaatcaacctgtcctactattgttatcttaaatttcagCTGTTCCTGACTGCATCTGCACAGCCTCTCAAAGCCAAGACTGACCTCCCGACCTGGTCTGCTGCCATGGATGCCGGCCTAGAGTCCATGCAGAAgtaattcagctccccacatcttaacagcaggggtgtgctggggaggtgac Alignment from GeneWise CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccagctcagtgtaatcaacctgtcctactattgttatcttaaatttcagCTG---------TTCCTGACTGCATCTGCACAGCCTCTCAAAGCCAAGACTGACCTCCCGACCTGGTCTGCTGCCATGGATGCCGGCCTAGAGTCCATGCAGAAgtaattcagctccccacatcttaacagcaggggtgtgctggggaggtgac #### Dak_ID2901_12 --> 2 - 1 Original Alignment gtGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAg ttcctactgcttgttcagtgtagaatcctctttttccctcatccttataggt---------------ATGGCACTGGTGTTGGATCGGATATGCACCACCCTCATCGGAGTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAggtacccttccttggggcacatggccttggggcacatgggccaatttggca Alignment from CESAR gtGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAg ccttggcacccatacttcctactgctcctctttttccctcatccttataggt---------------ATGGCACTGGTGTTGGATCGGATATGCACCACCCTCATCGGAGTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAggtacccttccttggggcacatggccttggggcacatgggccaatttggca Alignment from Spaln_aa2Genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG ttcctactgcttgttcagtgtagaatcctctttttccctcatccttatagGT---------------ATGGCACTGGTGTTGGATCGGATATGCACCACCCTCATCGGAGTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAGgtacccttccttggggcacatggccttggggcacatgggccaatttggca Alignment from Spaln_nt2Genome --ATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG ttcctactgcttgttcagtgtagaatcctctttttccctcatccttatagGTATGGCACTGGTGTTGGATCGGATATGCACCACCCTCATCGGAGTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAGgtacccttccttggggcacatggccttggggcacatgggccaatttggca Alignment from Pairagon GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG ttcctactgcttgttcagtgtagaatcctctttttccctcatccttatagGT---------------ATGGCACTGGTGTTGGATCGGATATGCACCACCCTCATCGGAGTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAGgtacccttccttggggcacatggccttggggcacatgggccaatttggca Alignment from Exonerate_protein2genome AAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG ttcctactgcttgttcagtgtagaatcctctttttccctcatcctTATAGGTATGGCACTGGTGTTGGATCGGATATGCACCACCCTCATCGGAGTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAGgtacccttccttggggcacatggccttggggcacatgggccaatttggca Alignment from Exonerate_coding2genome ACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG ttcctactgcttgttcagtgtagaatcctctttttccctcATCCTTATAGGTATGGCACTGGTGTTGGATCGGATATGCACCACCCTCATCGGAGTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAGgtacccttccttggggcacatggccttggggcacatgggccaatttggca Alignment from GeneWise AGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG ttcctactgcttgttcagtgtagaatcctctttttccctcatccttatagGTATGGCACTGGTGTTGGATCGGATATGCACCACCCTCATCGGAGTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAGgtacccttccttggggcacatggccttggggcacatgggccaatttggca #### Dak_ID2904_9 --> 2 - 1 Original Alignment gcTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg tgcacagaagccaccaaaggtggggctgtttaatttatttttacttgcaggcTCTTCAGTGGTGCTGATAGTGAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTG---ggtaagcagcctagcctattgagaggacctttagccccttgtttttatgtt Alignment from CESAR gcTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg tgcacagaagccaccaaaggtggggctgtttaatttatttttacttgcaggcTCTTCAGTGGTGCTGATAGTGAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTG---ggtaagcagcctagcctattgagaggacctttagccccttgtttttatgtt Alignment from Spaln_aa2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTG- tgcacagaagccaccaaaggtggggctgtttaatttatttttacttgcagGCTCTTCAGTGGTGCTGATAGTGAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGGgtaagcagcctagcctattgagaggacctttagccccttgtttttatgtt Alignment from Spaln_nt2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG tgcacagaagccaccaaaggtggggctgtttaatttatttttacttgcagGCTCTTCAGTGGTGCTGATAGTGAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCT---TGGgtaagcagcctagcctattgagaggacctttagccccttgtttttatgtt Alignment from Pairagon GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG tgcacagaagccaccaaaggtggggctgtttaatttatttttacttgcagGCTCTTCAGTGGTGCTGATAGTGAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCT---TGGgtaagcagcctagcctattgagaggacctttagccccttgtttttatgtt Alignment from Exonerate_protein2genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG tgcacagaagccaccaaaggtggggctgtttaatttatttttacttgcagGCTCTTCAGTGGTGCTGATAGTGAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGC---TTGGgtaagcagcctagcctattgagaggacctttagccccttgtttttatgtt Alignment from Exonerate_coding2genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG tgcacagaagccaccaaaggtggggctgtttaatttatttttacttgcagGCTCTTCAGTGGTGCTGATAGTGAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTT---GGgtaagcagcctagcctattgagaggacctttagccccttgtttttatgtt Alignment from GeneWise GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG tgcacagaagccaccaaaggtggggctgtttaatttatttttacttgcagGCTCTTCAGTGGTGCTGATAGTGAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGC---TTGGgtaagcagcctagcctattgagaggacctttagccccttgtttttatgtt #### Dak_ID2905_8 --> 0 - 1 Original Alignment ---ATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAg tggatagagaataaagtcccagacatgctcacacgccacacgctttgcagCGGATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAggtgagtaacctgttgttcccattctccaaggcctttcttgcccccttgca Alignment from CESAR ---ATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAg tggatagagaataaagtcccagacatgctcacacgccacacgctttgcagCGGATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAggtgagtaacctgttgttcccattctccaaggcctttcttgcccccttgca Alignment from Spaln_aa2Genome ATAGCACCTGTTGAT---CAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAG tggatagagaataaagtcccagacatgctcacacgccacacgctttgcagCGGATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAGgtgagtaacctgttgttcccattctccaaggcctttcttgcccccttgca Alignment from Spaln_nt2Genome GATAGCACCT--GTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAG tggatagagaataaagtcccagacatgctcacacgccacacgctttgcagCGGATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAGgtgagtaacctgttgttcccattctccaaggcctttcttgcccccttgca Alignment from Pairagon ---ATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAG tggatagagaataaagtcccagacatgctcacacgccacacgctttgcagCGGATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAGgtgagtaacctgttgttcccattctccaaggcctttcttgcccccttgca Alignment from Exonerate_protein2genome ATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAG tggatagagaataaagtcccagacatgctcacacgccacacgctttgcagcggATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAGgtgagtaacctgttgttcccattctccaaggcctttcttgcccccttgca Alignment from Exonerate_coding2genome ATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAG tggatagagaataaagtcccagacatgctcacacgccacacgctttgcagcggATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAGgtgagtaacctgttgttcccattctccaaggcctttcttgcccccttgca Alignment from GeneWise ---ATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAG tggatagagaataaagtcccagacatgctcacacgccacacgctttgcagCGGATAGCACCTGTTGATCAGATTGTCACTCTTATGCTTGACCACATGACAAACACCTCCAATATATTTCATGTGCCTGTACGGTCAGgtgagtaacctgttgttcccattctccaaggcctttcttgcccccttgca #### Ddb1_ID2932_17 --> 1 - 2 Original Alignment t---CTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag tatccctcattgttaacttactcaatacctgagatgcctgtctccctaagtTCTCTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAGATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCaggtgagtccagagctgagaagcagcagagggagttggttggtaatgtctta Alignment from CESAR t---CTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag tatccctcattgttaacttactcaatacctgagatgcctgtctccctaagtTCTCTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAGATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCaggtgagtccagagctgagaagcagcagagggagttggttggtaatgtctta Alignment from Spaln_aa2Genome TCTGGCATTGGCC---AATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatccctcattgttaacttactcaatacctgagatgcctgtctccctaagTTCTCTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAGATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtccagagctgagaagcagcagagggagttggttggtaatgtctta Alignment from Spaln_nt2Genome TCTGGCATT---GGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatccctcattgttaacttactcaatacctgagatgcctgtctccctaagTTCTCTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAGATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtccagagctgagaagcagcagagggagttggttggtaatgtctta Alignment from Pairagon ---TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatccctcattgttaacttactcaatacctgagatgcctgtctccctaagTTCTCTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAGATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtccagagctgagaagcagcagagggagttggttggtaatgtctta Alignment from Exonerate_protein2genome T---CTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatccctcattgttaacttactcaatacctgagatgcctgtctccctaagTTCTCTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAGATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtccagagctgagaagcagcagagggagttggttggtaatgtctta Alignment from Exonerate_coding2genome T---CTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatccctcattgttaacttactcaatacctgagatgcctgtctccctaagTTCTCTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAGATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtccagagctgagaagcagcagagggagttggttggtaatgtctta Alignment from GeneWise -AGTCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatccctcattgttaacttactcaatacctgagatgcctgtctccctaagTTCTCTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAGATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtccagagctgagaagcagcagagggagttggttggtaatgtctta #### Ddb1_ID2938_23 --> 0 - 2 Original Alignment ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGAC------ag caaactggcttccatgctgcagactacattgacatctgtctgtcttgcagATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACTTGGTCaggtaagtagcttgtacagctctaaatctagggcaaggcctctaggtctgtg Alignment from CESAR ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGAC------ag caaactggcttccatgctgcagactacattgacatctgtctgtcttgcagATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACTTGGTCaggtaagtagcttgtacagctctaaatctagggcaaggcctctaggtctgtg Alignment from Spaln_aa2Genome ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGT----- caaactggcttccatgctgcagactacattgacatctgtctgtcttgcagATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACTTGGTCAGgtaagtagcttgtacagctctaaatctagggcaaggcctctaggtctgtg Alignment from Spaln_nt2Genome ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGAC------AG caaactggcttccatgctgcagactacattgacatctgtctgtcttgcagATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACTTGGTCAGgtaagtagcttgtacagctctaaatctagggcaaggcctctaggtctgtg Alignment from Pairagon ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGA------CAG caaactggcttccatgctgcagactacattgacatctgtctgtcttgcagATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACTTGGTCAGgtaagtagcttgtacagctctaaatctagggcaaggcctctaggtctgtg Alignment from Exonerate_protein2genome ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGAC------AG caaactggcttccatgctgcagactacattgacatctgtctgtcttgcagATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACTTGGTCAGgtaagtagcttgtacagctctaaatctagggcaaggcctctaggtctgtg Alignment from Exonerate_coding2genome ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGAC------AG caaactggcttccatgctgcagactacattgacatctgtctgtcttgcagATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACTTGGTCAGgtaagtagcttgtacagctctaaatctagggcaaggcctctaggtctgtg Alignment from GeneWise ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGAC------AG caaactggcttccatgctgcagactacattgacatctgtctgtcttgcagATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACTTGGTCAGgtaagtagcttgtacagctctaaatctagggcaaggcctctaggtctgtg #### Ddb1_ID2939_24 --> 1 - 1 Original Alignment t------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg aggacttcttagggagaagggttcaggacatgacacctgcttccttctagtCCACCCGCTGCAACCACTGATGAGGAGCGGCAGCATCTACAGGAGATTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATGGCATGATAggtatgcgtcattcctgttgagcacactcagctgcagccacctcacccctg Alignment from CESAR t------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg aggacttcttagggagaagggttcaggacatgacacctgcttccttctagtCCACCCGCTGCAACCACTGATGAGGAGCGGCAGCATCTACAGGAGATTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATGGCATGATAggtatgcgtcattcctgttgagcacactcagctgcagccacctcacccctg Alignment from Spaln_aa2Genome T------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATA aggacttcttagggagaagggttcaggacatgacacctgcttccttctagTCCACCCGCTGCAACCACTGATGAGGAGCGGCAGCATCTACAGGAGATTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATGGCATGATAGgtatgcgtcattcctgttgagcacactcagctgcagccacctcacccctg Alignment from Spaln_nt2Genome TGCTGCCACCAC------TGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatgacacctgcttccttctagTCCACCCGCTGCAACCACTGATGAGGAGCGGCAGCATCTACAGGAGATTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATGGCATGATAGgtatgcgtcattcctgttgagcacactcagctgcagccacctcacccctg Alignment from Pairagon T------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatgacacctgcttccttctagTCCACCCGCTGCAACCACTGATGAGGAGCGGCAGCATCTACAGGAGATTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATGGCATGATAGgtatgcgtcattcctgttgagcacactcagctgcagccacctcacccctg Alignment from Exonerate_protein2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatgacacctgcttccttctagtccaccCGCTGCAACCACTGATGAGGAGCGGCAGCATCTACAGGAGATTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATGGCATGATAGgtatgcgtcattcctgttgagcacactcagctgcagccacctcacccctg Alignment from Exonerate_coding2genome TGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatgacacctgcttccttctagtccaccCGCTGCAACCACTGATGAGGAGCGGCAGCATCTACAGGAGATTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATGGCATGATAGgtatgcgtcattcctgttgagcacactcagctgcagccacctcacccctg Alignment from GeneWise ----AGTGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatgacacctgcttccttctagTCCACCCGCTGCAACCACTGATGAGGAGCGGCAGCATCTACAGGAGATTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATGGCATGATAGgtatgcgtcattcctgttgagcacactcagctgcagccacctcacccctg #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg ttccttgagaatcatcagagcttgtcttcatgctgtctttgtcctgacagcc---------CCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtgtgtccatcctcaaagagcagattgtactccatgtctaggaacctcct Alignment from CESAR ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg ttccagggtttccttgagaatcatccttcatgctgtctttgtcctgacagcc---------CCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtgtgtccatcctcaaagagcagattgtactccatgtctaggaacctcct Alignment from Spaln_aa2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ttccttgagaatcatcagagcttgtcttcatgctgtctttgtcctgacagCC---------CCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgtgtccatcctcaaagagcagattgtactccatgtctaggaacctcct Alignment from Spaln_nt2Genome GACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ttccttgagaatcatcagagcttgtcttcatgctgtctttgtcctgacagCCCCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgtgtccatcctcaaagagcagattgtactccatgtctaggaacctcct Alignment from Pairagon CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ttccttgagaatcatcagagcttgtcttcatgctgtctttgtcctgacagCC---------CCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgtgtccatcctcaaagagcagattgtactccatgtctaggaacctcct Alignment from Exonerate_protein2genome GACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ttccttgagaatcatcagagcttgtcttcatgctgtctttgtcctgacagCCCCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgtgtccatcctcaaagagcagattgtactccatgtctaggaacctcct Alignment from Exonerate_coding2genome GACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ttccttgagaatcatcagagcttgtcttcatgctgtctttgtcctgacagCCCCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgtgtccatcctcaaagagcagattgtactccatgtctaggaacctcct Alignment from GeneWise GACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ttccttgagaatcatcagagcttgtcttcatgctgtctttgtcctgacagCCCCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtgtgtccatcctcaaagagcagattgtactccatgtctaggaacctcct #### Dpp3_ID739_14 --> 1 - 0 Original Alignment gATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG gtccagattctgaaggtacccatcccactgatgctatcttatttctacagg---------TTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAACATGGTTCGGGCGGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCAACAGgtgagtgatgggacaggtgcatccctccaggccagataagcttaaactat Alignment from CESAR gATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG cactgagctgtccagattctgaaggcactgatgctatcttatttctacagg---------TTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAACATGGTTCGGGCGGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCAACAGgtgagtgatgggacaggtgcatccctccaggccagataagcttaaactat Alignment from Spaln_aa2Genome GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG gtccagattctgaaggtacccatcccactgatgctatcttatttctacagG---------TTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAACATGGTTCGGGCGGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCAACAGgtgagtgatgggacaggtgcatccctccaggccagataagcttaaactat Alignment from Spaln_nt2Genome GATCTTTGG CTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG gtccagATTCTGAAGgtacccatcccactgatgctatcttatttctacagGTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAACATGGTTCGGGCGGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCAACAGgtgagtgatgggacaggtgcatccctccaggccagataagcttaaactat Alignment from Pairagon GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG gtccagattctgaaggtacccatcccactgatgctatcttatttctacagG---------TTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAACATGGTTCGGGCGGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCAACAGgtgagtgatgggacaggtgcatccctccaggccagataagcttaaactat Alignment from Exonerate_protein2genome CTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG gtccagattctgaaggtacccatcccactgatgctatcttatttctacagGTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAACATGGTTCGGGCGGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCAACAGgtgagtgatgggacaggtgcatccctccaggccagataagcttaaactat Alignment from Exonerate_coding2genome CTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG gtccagattctgaaggtacccatcccactgatgctatcttatttctacagGTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAACATGGTTCGGGCGGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCAACAGgtgagtgatgggacaggtgcatccctccaggccagataagcttaaactat Alignment from GeneWise GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG gtccagattctgaaggtacccatcccactgatgctatcttatttctacagG---------TTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAACATGGTTCGGGCGGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCAACAGgtgagtgatgggacaggtgcatccctccaggccagataagcttaaactat #### Dpp3_ID741_12 --> 0 - 0 Original Alignment GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG agcagtagttggcacccctgagctctgattaatccttttgctttcattagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACGGTGATCAACCCA---------------gtgagtaagcccctatgggaaacgtaacactggggtgaggcaggtggaat Alignment from CESAR GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGACTGGGGAACAG agcagtagttggcacccctgagctctgattaatccttttgctttcattagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACGGTGATCAACCCA---------------gtgagtaagcccctatgggaaacgtaacactgggg Alignment from Spaln_aa2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGA agcagtagttggcacccctgagctctgattaatccttttgctttcattagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACGGTGATCAACCCAGTGAgtaagcccctatgggaaacgtaacactggggtgaggcaggtggaat Alignment from Spaln_nt2Genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGA--------CTGGGGAACAG agcagtagttggcacccctgagctctgattaatccttttgctttcattagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACGGTGATCAACCCAGTGAGTAAGCCCCTATGGGAAACgtaacactggggtgaggcaggtggaat Alignment from Pairagon GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAG--------------------------------------------AGACT agcagtagttggcacccctgagctctgattaatccttttgctttcattagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACGGTGATCAACCCAGTGAGTAAGCCCCTATGGGAAACGTAACACTGGGGTGAGGCAGGTGGAAT Alignment from Exonerate_protein2genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGA agcagtagttggcacccctgagctctgattaatccttttgctttcattagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACGGTGATCAACCCAGTGAgtaagcccctatgggaaacgtaacactggggtgaggcaggtggaat Alignment from Exonerate_coding2genome GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAGA agcagtagttggcacccctgagctctgattaatccttttgctttcattagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACGGTGATCAACCCAGTGAgtaagcccctatgggaaacgtaacactggggtgaggcaggtggaat Alignment from GeneWise GATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACTGTGATCAACCCAGAG- agcagtagttggcacccctgagctctgattaatccttttgctttcattagGATGAGAAAGGTGCTTTCAACTTTGACAAGGAGACGGTGATCAACCCAGTGAgtaagcccctatgggaaacgtaacactggggtgaggcaggtggaat #### Dpp3_ID744_9 --> 2 - 1 Original Alignment gcTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACt tatcccaggatgctggcaacccctccccaactgctcatttcccttcgcaggc---------ATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTTGCGAGTGCTGAGCAGTTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGATAAGTTCCTCACCCCTGACTTCACCTCCCTAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACtgtcagtccctcccctcagccttctctcagtgcatctcaacctctgccctt Alignment from CESAR gcTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACt atgtaactgtatcccaggatgctggcccaactgctcatttcccttcgcaggc---------ATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTTGCGAGTGCTGAGCAGTTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGATAAGTTCCTCACCCCTGACTTCACCTCCCTAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACtgtcagtccctcccctcagccttctctcagtgcatctcaacctctgccctt Alignment from Spaln_aa2Genome GCTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACT tatcccaggatgctggcaacccctccccaactgctcatttcccttcgcagGC---------ATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTTGCGAGTGCTGAGCAGTTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGATAAGTTCCTCACCCCTGACTTCACCTCCCTAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACTgtcagtccctcccctcagccttctctcagtgcatctcaacctctgccctt Alignment from Spaln_nt2Genome CCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACT tatcccaggatgctggcaacccctccccaactgctcatttcccttcgcagGCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTTGCGAGTGCTGAGCAGTTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGATAAGTTCCTCACCCCTGACTTCACCTCCCTAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACTgtcagtccctcccctcagccttctctcagtgcatctcaacctctgccctt Alignment from Pairagon GCTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACT tatcccaggatgctggcaacccctccccaactgctcatttcccttcgcagG---------CATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTTGCGAGTGCTGAGCAGTTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGATAAGTTCCTCACCCCTGACTTCACCTCCCTAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACTgtcagtccctcccctcagccttctctcagtgcatctcaacctctgccctt Alignment from Exonerate_protein2genome CCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACT tatcccaggatgctggcaacccctccccaactgctcatttcccttcgcagGCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTTGCGAGTGCTGAGCAGTTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGATAAGTTCCTCACCCCTGACTTCACCTCCCTAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACTgtcagtccctcccctcagccttctctcagtgcatctcaacctctgccctt Alignment from Exonerate_coding2genome CCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACT tatcccaggatgctggcaacccctccccaactgctcatttcccttcgcagGCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTTGCGAGTGCTGAGCAGTTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGATAAGTTCCTCACCCCTGACTTCACCTCCCTAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACTgtcagtccctcccctcagccttctctcagtgcatctcaacctctgccctt Alignment from GeneWise CCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACT tatcccaggatgctggcaacccctccccaactgctcatttcccttcgcagGCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTTGCGAGTGCTGAGCAGTTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGATAAGTTCCTCACCCCTGACTTCACCTCCCTAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACTgtcagtccctcccctcagccttctctcagtgcatctcaacctctgccctt #### Drap1_ID984_6 --> 0 - 2 Original Alignment ------GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag gagatgggcccaggccctctcattaaccgccattcccttgtgtgattcagGATGAAGATGAGTCTGAGGATACGGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGaggtaagtttcccaggatcaccagaaaagggcatgccataccccccatagtc Alignment from CESAR GAT------GAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag gagatgggcccaggccctctcattaaccgccattcccttgtgtgattcagGATGAAGATGAGTCTGAGGATACGGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGaggtaagtttcccaggatcaccagaaaagggcatgccataccccccatagtc Alignment from Spaln_aa2Genome GAGGATGAGTCTGAG---GATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gagatgggcccaggccctctcattaaccgccattcccttgtgtgattcagGATGAAGATGAGTCTGAGGATACGGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaagtttcccaggatcaccagaaaagggcatgccataccccccatagtc Alignment from Spaln_nt2Genome GATGAGTCTG------AGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gagatgggcccaggccctctcattaaccgccattcccttgtgtgattcagGATGAAGATGAGTCTGAGGATACGGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaagtttcccaggatcaccagaaaagggcatgccataccccccatagtc Alignment from Pairagon ------GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gagatgggcccaggccctctcattaaccgccattcccttgtgtgattcagGATGAAGATGAGTCTGAGGATACGGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaagtttcccaggatcaccagaaaagggcatgccataccccccatagtc Alignment from Exonerate_protein2genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gagatgggcccaggccctctcattaaccgccattcccttgtgtgattcaggatgaaGATGAGTCTGAGGATACGGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaagtttcccaggatcaccagaaaagggcatgccataccccccatagtc Alignment from Exonerate_coding2genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gagatgggcccaggccctctcattaaccgccattcccttgtgtgattcaggatgaaGATGAGTCTGAGGATACGGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaagtttcccaggatcaccagaaaagggcatgccataccccccatagtc Alignment from GeneWise ------GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gagatgggcccaggccctctcattaaccgccattcccttgtgtgattcagGATGAAGATGAGTCTGAGGATACGGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaagtttcccaggatcaccagaaaagggcatgccataccccccatagtc #### Drap1_ID985_5 --> 1 - 0 Original Alignment ag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG aggtaaggagccaagacatggtctgcagactaactttccttctcttgcaggGGCCGTAAACCGGGGAGCAGTGGCAGGAAGAACGGAGGCACAGGAAGTAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAG---gtgagtcacaaggctgatgggtgatggcctcagccttgtctgcttttttg Alignment from CESAR ag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG aggtagagagccaagacatggtctgcagactaactttccttctcttgcaggGGCCGTAAACCGGGGAGCAGTGGCAGGAAGAACGGAGGCACAGGAAGTAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAG---gtgagtcacaaggctgatgggtgatggcctcagccttgtctgctttt Alignment from Spaln_aa2Genome AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAG AGgtaaggagccaagacatggtctgcagactaactttccttctcttgcagGGGCCGTAAACCGGGGAGCAGTGGCAGGAAGAACGGAGGCACAGGAAGTAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGgtgagtcacaaggctgatgggtgatggcctcagccttgtctgcttttttg Alignment from Spaln_nt2Genome AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG- AGgtatgtagccaagacatggtctgcagactaactttccttctcttgcagGGGCCGTAAACCGGGGAGCAGTGGCAGGAAGAACGGAGGCACAGGAAGTAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGTGAgtcacaaggctgatgggtgatggcctcagccttgtctgcttttttg Alignment from Pairagon AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAG AGgtatgtagccaagacatggtctgcagactaactttccttctcttgcagGGGCCGTAAACCGGGGAGCAGTGGCAGGAAGAACGGAGGCACAGGAAGTAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGgtgagtcacaaggctgatgggtgatggcctcagccttgtctgcttttttg Alignment from Exonerate_protein2genome AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG AGgtaaggagccaagacatggtctgcagactaactttccttctcttgcagGGGCCGTAAACCGGGGAGCAGTGGCAGGAAGAACGGAGGCACAGGAAGTAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAG---gtgagtcacaaggctgatgggtgatggcctcagccttgtctgctttt Alignment from Exonerate_coding2genome AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG AGgtaaggagccaagacatggtctgcagactaactttccttctcttgcagGGGCCGTAAACCGGGGAGCAGTGGCAGGAAGAACGGAGGCACAGGAAGTAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAG---gtgagtcacaaggctgatgggtgatggcctcagccttgtctgctttt Alignment from GeneWise AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG AGgtatgtagccaagacatggtctgcagactaactttccttctcttgcagGGGCCGTAAACCGGGGAGCAGTGGCAGGAAGAACGGAGGCACAGGAAGTAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAG---CAGgtgagtcacaaggctgatgggtgatggcctcagccttgtctgcttttttg #### Drap1_ID987_3 --> 2 - 2 Original Alignment ccCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACct ctgcagcactccgctttttggcttctgtcttgctttcctttctctcctagcc---------GAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACctgtaagtggctgccaagctgggggggcttttgggggggcagaattccgaca Alignment from CESAR ccCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACct ggggtgggactgcagcactccgctttgtcttgctttcctttctctcctagcc---------GAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACctgtaagtggctgccaagctgggggggcttttgggggggcagaattccgaca Alignment from Spaln_aa2Genome TTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ctgcagcactccgctttttggcttctgtcttgctttcctttctctcctagCCGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagtggctgccaagctgggggggcttttgggggggcagaattccgaca Alignment from Spaln_nt2Genome TTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ctgcagcactccgctttttggcttctgtcttgctttcctttctctcctagCCGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagtggctgccaagctgggggggcttttgggggggcagaattccgaca Alignment from Pairagon CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ctgcagcactccgctttttggcttctgtcttgctttcctttctctcctagCC---------GAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagtggctgccaagctgggggggcttttgggggggcagaattccgaca Alignment from Exonerate_protein2genome TTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ctgcagcactccgctttttggcttctgtcttgctttcctttctctcctagCCGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagtggctgccaagctgggggggcttttgggggggcagaattccgaca Alignment from Exonerate_coding2genome TTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ctgcagcactccgctttttggcttctgtcttgctttcctttctctcctagCCGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagtggctgccaagctgggggggcttttgggggggcagaattccgaca Alignment from GeneWise TTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ctgcagcactccgctttttggcttctgtcttgctttcctttctctcctagCCGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagtggctgccaagctgggggggcttttgggggggcagaattccgaca #### Efemp2_ID1029_2 --> 0 - 1 Original Alignment GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG------g ttagtggagacagcgagagtggtcactgggttttggttttgttaccatagGAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAACACTGCCAGGTACTGggtatagccttgtctggggtactagccatcttcagggactgggaagggggt Alignment from CESAR GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG------g ttagtggagacagcgagagtggtcactgggttttggttttgttaccatagGAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAACACTGCCAGGTACTGggtatagccttgtctggggtactagccatcttcagggactgggaagggggt Alignment from Spaln_aa2Genome GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG------G ttagtggagacagcgagagtggtcactgggttttggttttgttaccatagGAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAACACTGCCAGGTACTGGgtatagccttgtctggggtactagccatcttcagggactgggaagggggt Alignment from Spaln_nt2Genome GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGG ttagtggagacagcgagagtggtcactgggttttggttttgttaccatagGAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAACACTGCCAGgtactgggtatagccttgtctggggtactagccatcttcagggactgggaagggggt Alignment from Pairagon GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCC-----------------------GGG ttagtggagacagcgagagtggtcactgggttttggttttgttaccatagGAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAACACTGCCAGGTACTGGGTATAGCCTTGTCTGGGgtactagccatcttcagggactgggaagggggt Alignment from Exonerate_protein2genome GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGGG ttagtggagacagcgagagtggtcactgggttttggttttgttaccatagGAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAACACTGCCAGGtactgggtatagccttgtctggggtactagccatcttcagggactgggaagggggt Alignment from Exonerate_coding2genome GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGGG ttagtggagacagcgagagtggtcactgggttttggttttgttaccatagGAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAACACTGCCAGGtactgggtatagccttgtctggggtactagccatcttcagggactgggaagggggt Alignment from GeneWise GAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAGCACTGCCGGGATGTC- ttagtggagacagcgagagtggtcactgggttttggttttgttaccatagGAATGCACAGATGGCTATGAGTGGGATGCAGACAGCCAACACTGCCAGGTACTGGgtatagccttgtctggggtactagccatcttcagggactgggaagggggt #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment ac---ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg aggggtggtctggcctgtgttctatttgtctcttctctgtctctccccagacGTCATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCAGGCTCATTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGggtatgactgtgtccgacagggttctgggatcctgggtggagatgtgtgac Alignment from CESAR ac---ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg aggggtggtctggcctgtgttctatttgtctcttctctgtctctccccagacGTCATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCAGGCTCATTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGggtatgactgtgtccgacagggttctgggatcctgggtggagatgtgtgac Alignment from Spaln_aa2Genome AC---ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtctggcctgtgttctatttgtctcttctctgtctctccccagACGTCATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCAGGCTCATTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGGgtatgactgtgtccgacagggttctgggatcctgggtggagatgtgtgac Alignment from Spaln_nt2Genome AC---ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtctggcctgtgttctatttgtctcttctctgtctctccccagACGTCATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCAGGCTCATTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGGgtatgactgtgtccgacagggttctgggatcctgggtggagatgtgtgac Alignment from Pairagon A---CATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtctggcctgtgttctatttgtctcttctctgtctctccccagACGTCATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCAGGCTCATTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGGgtatgactgtgtccgacagggttctgggatcctgggtggagatgtgtgac Alignment from Exonerate_protein2genome AC---ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtctggcctgtgttctatttgtctcttctctgtctctccccagACGTCATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCAGGCTCATTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGGgtatgactgtgtccgacagggttctgggatcctgggtggagatgtgtgac Alignment from Exonerate_coding2genome AC---ATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtctggcctgtgttctatttgtctcttctctgtctctccccagACGTCATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCAGGCTCATTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGGgtatgactgtgtccgacagggttctgggatcctgggtggagatgtgtgac Alignment from GeneWise --GACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG aggggtggtctggcctgtgttctatttgtctcttctctgtctctccccagACGTCATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCAGGCTCATTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGGgtatgactgtgtccgacagggttctgggatcctgggtggagatgtgtgac #### Ehbp1l1_ID1220_15 --> 0 - 1 Original Alignment CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCA---g tggcctggggtgaggtcacctgtcctcttttctcctcttccctatgctagCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCACTGggtgagtcccctgacttttggtttcgctccttgacagcctcgtccctaaat Alignment from CESAR CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCA---g tggcctggggtgaggtcacctgtcctcttttctcctcttccctatgctagCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCACTGggtgagtcccctgacttttggtttcgctccttgacagcctcgtccctaaat Alignment from Spaln_aa2Genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCA---G tggcctggggtgaggtcacctgtcctcttttctcctcttccctatgctagCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCACTGGgtgagtcccctgacttttggtttcgctccttgacagcctcgtccctaaat Alignment from Spaln_nt2Genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCA---G tggcctggggtgaggtcacctgtcctcttttctcctcttccctatgctagCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCACTGGgtgagtcccctgacttttggtttcgctccttgacagcctcgtccctaaat Alignment from Pairagon CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCA---G tggcctggggtgaggtcacctgtcctcttttctcctcttccctatgctagCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCACTGGgtgagtcccctgacttttggtttcgctccttgacagcctcgtccctaaat Alignment from Exonerate_protein2genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCA---G tggcctggggtgaggtcacctgtcctcttttctcctcttccctatgctagCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCACTGGgtgagtcccctgacttttggtttcgctccttgacagcctcgtccctaaat Alignment from Exonerate_coding2genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCA---G tggcctggggtgaggtcacctgtcctcttttctcctcttccctatgctagCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCACTGGgtgagtcccctgacttttggtttcgctccttgacagcctcgtccctaaat Alignment from GeneWise CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAGGT- tggcctggggtgaggtcacctgtcctcttttctcctcttccctatgctagCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCACTGGgtgagtcccctgacttttggtttcgctccttgacagcctcgtccctaaat #### Ehbp1l1_ID1224_11 --> 1 - 0 Original Alignment cGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG aggacaccagggacatccatccattcctccatgttcccttttacttggagcGATTATTTCTCCCTTGATCCCCTCAACATC------------------gtaagttgaggagggagcgtctacggcggccagtaatgtagactggaggt Alignment from CESAR cGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG aggacaccagggacatccatccattcctccatgttcccttttacttggagcGATTATTTCTCCCTTGATCCCCTCAACATC------------------gtaagttgaggagggagcgtctacggcggcca Alignment from Spaln_aa2Genome CGATTATTTCTCCCTTGATCCCCTCAACATC aggacaccagggacatccatccattcctccatgttcccttttacttggagCGATTATTTCTCCCTTGATCCCCTCAACATCgtaagttgaggagggagcgtctacggcggccagtaatgtagactggaggt Alignment from Spaln_nt2Genome CGATTATTTCTCCCTTGATCCCCTCAACATC aggacaccagggacatccatccattcctccatgttcccttttacttggagCGATTATTTCTCCCTTGATCCCCTCAACATCgtaagttgaggagggagcgtctacggcggccagtaatgtagactggaggt Alignment from Pairagon CGATTATTTCTCCCTTGATCCCCTCAACATC aggacaccagggacatccatccattcctccatgttcccttttacttggagCGATTATTTCTCCCTTGATCCCCTCAACATCgtaagttgaggagggagcgtctacggcggccagtaatgtagactggaggt Alignment from Exonerate_protein2genome CGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG aggacaccagggacatccatccattcctccatgttcccttttacttggagCGATTATTTCTCCCTTGATCCCCTCAACATCGTAAGTTGAGGAGGGAGCgtctacggcggccagtaatgtagactggaggt Alignment from Exonerate_coding2genome CGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG aggacaccagggacatccatccattcctccatgttcccttttacttggagCGATTATTTCTCCCTTGATCCCCTCAACATCGTAAGTTGAGGAGGGAGCgtctacggcggccagtaatgtagactggaggt Alignment from GeneWise CGATTATTTCTCCCTTGATCCCCTCAACATC aggacaccagggacatccatccattcctccatgttcccttttacttggagCGATTATTTCTCCCTTGATCCCCTCAACATCgtaagttgaggagggagcgtctacggcggccagtaatgtagactggaggt #### Ehbp1l1_ID1225_10 --> 0 - 2 Original Alignment ------GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGat acatcgtgtgaatcagagtacatctcctcctcactgatgttccctttaagGCCCAAGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGatgtaaggtgccaggggtggggggatgggtggggcatgagactgccaggaca Alignment from CESAR ------GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGat acatcgtgtgaatcagagtacatctcctcctcactgatgttccctttaagGCCCAAGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGatgtaaggtgccaggggtggggggatgggtggggcatgagactgccaggaca Alignment from Spaln_aa2Genome CAGGCACCACCTACC---CTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT acatcgtgtgaatcagagtacatctcctcctcactgatgttccctttaagGCCCAAGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGATgtaaggtgccaggggtggggggatgggtggggcatgagactgccaggaca Alignment from Spaln_nt2Genome GCACCACCTA------CCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT acatcgtgtgaatcagagtacatctcctcctcactgatgttccctttaagGCCCAAGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGATgtaaggtgccaggggtggggggatgggtggggcatgagactgccaggaca Alignment from Pairagon ------GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT acatcgtgtgaatcagagtacatctcctcctcactgatgttccctttaagGCCCAAGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGATgtaaggtgccaggggtggggggatgggtggggcatgagactgccaggaca Alignment from Exonerate_protein2genome GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT acatcgtgtgaatcagagtacatctcctcctcactgatgttccctttaaggcccaaGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGATgtaaggtgccaggggtggggggatgggtggggcatgagactgccaggaca Alignment from Exonerate_coding2genome GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT acatcgtgtgaatcagagtacatctcctcctcactgatgttccctttaaggcccaaGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGATgtaaggtgccaggggtggggggatgggtggggcatgagactgccaggaca Alignment from GeneWise ------GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT acatcgtgtgaatcagagtacatctcctcctcactgatgttccctttaagGCCCAAGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGATgtaaggtgccaggggtggggggatgggtggggcatgagactgccaggaca #### Ehbp1l1_ID1228_7 --> 2 - 1 Original Alignment atCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCA---------------g aaccatatgccctgacctgattacacccgttactttctgtattcttccagatCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGTCACTGCAGGCAACCCGTggtgagacctagcctgggaatggggttgtggactggacctatgtcacaatg Alignment from CESAR atCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCA---------------g aaccatatgccctgacctgattacacccgttactttctgtattcttccagatCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGTCACTGCAGGCAACCCGTggtgagacctagcctgggaatggggttgtggactggacctatgtcacaatg Alignment from Spaln_aa2Genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCA---------------G aaccatatgccctgacctgattacacccgttactttctgtattcttccagATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGTCACTGCAGGCAACCCGTGgtgagacctagcctgggaatggggttgtggactggacctatgtcacaatg Alignment from Spaln_nt2Genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAG-----GCAG aaccatatgccctgacctgattacacccgttactttctgtattcttccagATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGTCACTGCAGgcaacccgtggtgagacctagcctgggaatggggttgtggactggacctatgtcacaatg Alignment from Pairagon ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAG--------------------------------------------------------------------- aaccatatgccctgacctgattacacccgttactttctgtattcttccagATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGTCACTGCAGGCAACCCGTGGTGAGACCTAGCCTGGGAATGGGGTTGTGGACTGGACCTATGTCACAATG Alignment from Exonerate_protein2genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCA aaccatatgccctgacctgattacacccgttactttctgtattcttccagATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAgtcactgcaggcaacccgtggtgagacctagcctgggaatggggttgtggactggacctatgtcacaatg Alignment from Exonerate_coding2genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCA aaccatatgccctgacctgattacacccgttactttctgtattcttccagATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAgtcactgcaggcaacccgtggtgagacctagcctgggaatggggttgtggactggacctatgtcacaatg Alignment from GeneWise ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAG-- aaccatatgccctgacctgattacacccgttactttctgtattcttccagATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAgtcactgcaggcaacccgtggtgagacctagcctgggaatggggttgtggactggacctatgtcacaatg #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac attgcaactgcctgtcttctcacttcccatatttttctcccctgcaacagGAATCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCATCATGCAGGGCCTGTACCTGCCCAGGTTCCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCAT---------------------------------------------------acgtaagaacacaccaatcttctgctgcactccctggcttgtgacctctgac Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac attgcaactgcctgtcttctcacttcccatatttttctcccctgcaacagGAATCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCATCATGCAGGGCCTGTACCTGCCCAGGTTCCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCAT---------------------------------------------------acgtaagaacacaccaatcttctgctgcactccctggcttgtgacctctgac Alignment from Spaln_aa2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGC attgcaactgcctgtcttctcacttcccatatttttctcccctgcaacagGAATCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCATCATGCAGGGCCTGTACCTGCCCAGGTTCCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATACgtaagaacacaccaatcttctgctgcactccctggcttgtgacctctgac Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCA attgcaactgcctgtcttctcacttcccatatttttctcccctgcaacagGAATCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCATCATGCAGGGCCTGTACCTGCCCAGGTTCCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATACGTAA--GA-ACACACCAAT------CTTCTGCTGC----ACTCCCTGGCT Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC attgcaactgcctgtcttctcacttcccatatttttctcccctgcaacagGAATCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCATCATGCAGGGCCTGTACCTGCCCAGGTTCCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCAT---------------------------------------------------ACgtaagaacacaccaatcttctgctgcactccctggcttgtgacctctgac Alignment from Exonerate_protein2genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGC CGAACTGAGCCTCACC attgcaactgcctgtcttctcacttcccatatttttctcccctgcaacagGAATCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCATCATGCAGGGCCTGTACCTGCCCAGGTTCCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATACgtaagaacacaccaatcttctgctgcactccctgGCTTGTGACCTCTGAC Alignment from Exonerate_coding2genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGC CGAACTGAGCCTCACC attgcaactgcctgtcttctcacttcccatatttttctcccctgcaacagGAATCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCATCATGCAGGGCCTGTACCTGCCCAGGTTCCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATACgtaagaacacaccaatcttctgctgcactccctgGCTTGTGACCTCTGAC Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGC attgcaactgcctgtcttctcacttcccatatttttctcccctgcaacagGAATCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCATCATGCAGGGCCTGTACCTGCCCAGGTTCCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATACgtaagaacacaccaatcttctgctgcactccctggcttgtgacctctgac #### Ehbp1l1_ID1231_4 --> 0 - 0 Original Alignment GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT------------------------ tctggtgttgtccctggaaactctgtgcgctacgccctgatgcatgccagGACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAATATCACAGAATTTCGCATGGGGTCAgtgagttactgggtatggcggacctgcaattgagatcttaaggcttcagg Alignment from CESAR GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT------------------------ tctggtgttgtccctggaaactctgtgcgctacgccctgatgcatgccagGACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAATATCACAGAATTTCGCATGGGGTCAgtgagttactgggtatggcggacctgcaattgagatcttaaggcttcagg Alignment from Spaln_aa2Genome GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tctggtgttgtccctggaaactctgtgcgctacgccctgatgcatgccagGACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAATatcacagaatttcgcatggggtcagtgagttactgggtatggcggacctgcaattgagatcttaaggcttcagg Alignment from Spaln_nt2Genome GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT------------- tctggtgttgtccctggaaactctgtgcgctacgccctgatgcatgccagGACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAATATCACAGAATTTCgcatggggtcagtgagttactgggtatggcggacctgcaattgagatcttaaggcttcagg Alignment from Pairagon GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT------------------------ tctggtgttgtccctggaaactctgtgcgctacgccctgatgcatgccagGACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAATATCACAGAATTTCGCATGGGGTCAgtgagttactgggtatggcggacctgcaattgagatcttaaggcttcagg Alignment from Exonerate_protein2genome GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tctggtgttgtccctggaaactctgtgcgctacgccctgatgcatgccagGACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAATatcacagaatttcgcatggggtcagtgagttactgggtatggcggacctgcaattgagatcttaaggcttcagg Alignment from Exonerate_coding2genome GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tctggtgttgtccctggaaactctgtgcgctacgccctgatgcatgccagGACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAATatcacagaatttcgcatggggtcagtgagttactgggtatggcggacctgcaattgagatcttaaggcttcagg Alignment from GeneWise GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT------------------------ tctggtgttgtccctggaaactctgtgcgctacgccctgatgcatgccagGACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAATATCACAGAATTTCGCATGGGGTCAgtgagttactgggtatggcggacctgcaattgagatcttaaggcttcagg #### Eif1ad_ID949_2 --> 0 - 1 Original Alignment GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA---------g tgcttgatttaactgatgaagtggctagtcttgtttctcttttaacctagGTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAATCTTTATAggtgagtagcatcccttcatagtatggagttatgtccttaactttctcctc Alignment from CESAR GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA---------g tgcttgatttaactgatgaagtggctagtcttgtttctcttttaacctagGTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAATCTTTATAggtgagtagcatcccttcatagtatggagttatgtccttaactttctcctc Alignment from Spaln_aa2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA---------G tgcttgatttaactgatgaagtggctagtcttgtttctcttttaacctagGTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAATCTTTATAGgtgagtagcatcccttcatagtatggagttatgtccttaactttctcctc Alignment from Spaln_nt2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA---------G tgcttgatttaactgatgaagtggctagtcttgtttctcttttaacctagGTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAATCTTTATAGgtgagtagcatcccttcatagtatggagttatgtccttaactttctcctc Alignment from Pairagon GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAG---------AG tgcttgatttaactgatgaagtggctagtcttgtttctcttttaacctagGTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAATCTTTATAGgtgagtagcatcccttcatagtatggagttatgtccttaactttctcctc Alignment from Exonerate_protein2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA---------G tgcttgatttaactgatgaagtggctagtcttgtttctcttttaacctagGTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAATCTTTATAGgtgagtagcatcccttcatagtatggagttatgtccttaactttctcctc Alignment from Exonerate_coding2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA---------G tgcttgatttaactgatgaagtggctagtcttgtttctcttttaacctagGTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAATCTTTATAGgtgagtagcatcccttcatagtatggagttatgtccttaactttctcctc Alignment from GeneWise GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGA---------G tgcttgatttaactgatgaagtggctagtcttgtttctcttttaacctagGTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAATCTTTATAGgtgagtagcatcccttcatagtatggagttatgtccttaactttctcctc #### Eif3a_ID13319_11 --> 0 - 0 Original Alignment ---------------GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cattcagttgtaatatatgcttggatattcttccacatccttgttcacagATCTTCTTCACCGGCGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGCATGCCTTCGGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCACACATTCTGgtatgagtcttgaagagagatgatctacaaaaactttattatctttcaca Alignment from CESAR ---------------GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cattcagttgtaatatatgcttggatattcttccacatccttgttcacagATCTTCTTCACCGGCGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGCATGCCTTCGGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCACACATTCTGgtatgagtcttgaagagagatgatctacaaaaactttattatctttcaca Alignment from Spaln_aa2Genome GTACGTATTGACCATACTTCC---------------CGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cattcagttgtaatatatgcttggatattcttccacatccttgttcacagATCTTCTTCACCGGCGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGCATGCCTTCGGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCACACATTCTGgtatgagtcttgaagagagatgatctacaaaaactttattatctttcaca Alignment from Spaln_nt2Genome GGTACGTATTGAC--------------CATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cattcagttgtaatatatgcttggatattcttccacatccttgttcacagATCTTCTTCACCGGCGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGCATGCCTTCGGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCACACATTCTGgtatgagtcttgaagagagatgatctacaaaaactttattatctttcaca Alignment from Pairagon ---------------GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cattcagttgtaatatatgcttggatattcttccacatccttgttcacagATCTTCTTCACCGGCGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGCATGCCTTCGGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCACACATTCTGgtatgagtcttgaagagagatgatctacaaaaactttattatctttcaca Alignment from Exonerate_protein2genome cattcagttgtaatatatgcttggatattcttccacatccttgttcacagatcttcttcaccggcgtacgtattgaccatacttcccggactctgagttttggatcagatttgaattatgcaactcgagaagatgccccagttggccctcatctgcagggcatgccttcggagcagataagaaaccagctcacggccatgtcctcagtgcttgccaaagcacttgaagtcatcagacctgcacacattctggtatgagtcttgaagagagatgatctacaaaaactttattatctttcaca Alignment from Exonerate_coding2genome TACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cattcagttgtaatatatgcttggatattcttccacatccttgttcacagatcttcttcaccggcgTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGCATGCCTTCGGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCACACATTCTGgtatgagtcttgaagagagatgatctacaaaaactttattatctttcaca Alignment from GeneWise ---------------GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG cattcagttgtaatatatgcttggatattcttccacatccttgttcacagATCTTCTTCACCGGCGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGCATGCCTTCGGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCACACATTCTGgtatgagtcttgaagagagatgatctacaaaaactttattatctttcaca #### Eml3_ID2508_7 --> 1 - 2 Original Alignment tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg acttcctgtccttcatctggccctttccttttgccttttcttcttctcagtTATGGGTACAGGGGTCGCGATTCTCGCTCAAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCGGGAGGTGGTGGTCAGAGACACTACCGGGGTCACACAGACTGTGTT---tggtaagtaggatcttggggtttggggctggtgggcttgacacaaagagggt Alignment from CESAR tTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg acttcctgtccttcatctggccctttccttttgccttttcttcttctcagtTATGGGTACAGGGGTCGCGATTCTCGCTCAAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCGGGAGGTGGTGGTCAGAGACACTACCGGGGTCACACAGACTGTGTT---tggtaagtaggatcttggggtttggggctggtgggcttgacacaaagagggt Alignment from Spaln_aa2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCG acttcctgtccttcatctggccctttccttttgccttttcttcttctcagTTATGGGTACAGGGGTCGCGATTCTCGCTCAAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCGGGAGGTGGTGGTCAGAGACACTACCGGGGTCACACAGACTGTGTTTGgtaagtaggatcttggggtttggggctggtgggcttgacacaaagagggt Alignment from Spaln_nt2Genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCG ATG acttcctgtccttcatctggccctttccttttgccttttcttcttctcagTTATGGGTACAGGGGTCGCGATTCTCGCTCAAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCGGGAGGTGGTGGTCAGAGACACTACCGGGGTCACACAGACTGTGTTTGgtaagtaggatcttggggtttggggctggtgggcttgacacaaagAGGgt Alignment from Pairagon TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCG acttcctgtccttcatctggccctttccttttgccttttcttcttctcagTTATGGGTACAGGGGTCGCGATTCTCGCTCAAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCGGGAGGTGGTGGTCAGAGACACTACCGGGGTCACACAGACTGTGTTTGgtaagtaggatcttggggtttggggctggtgggcttgacacaaagagggt Alignment from Exonerate_protein2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG acttcctgtccttcatctggccctttccttttgccttttcttcttctcagTTATGGGTACAGGGGTCGCGATTCTCGCTCAAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCGGGAGGTGGTGGTCAGAGACACTACCGGGGTCACACAGACTGTGTT---TGgtaagtaggatcttggggtttggggctggtgggcttgacacaaagagggt Alignment from Exonerate_coding2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG acttcctgtccttcatctggccctttccttttgccttttcttcttctcagTTATGGGTACAGGGGTCGCGATTCTCGCTCAAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCGGGAGGTGGTGGTCAGAGACACTACCGGGGTCACACAGACTGTGTT---TGgtaagtaggatcttggggtttggggctggtgggcttgacacaaagagggt Alignment from GeneWise TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCG acttcctgtccttcatctggccctttccttttgccttttcttcttctcagTTATGGGTACAGGGGTCGCGATTCTCGCTCAAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCGGGAGGTGGTGGTCAGAGACACTACCGGGGTCACACAGACTGTGTTTGgtaagtaggatcttggggtttggggctggtgggcttgacacaaagagggt #### Eml3_ID2514_13 --> 2 - 0 Original Alignment agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG--------- tgctcctttgtctaaggtaagggcatgatctccttgcttctcttttgcagagACCTACACGATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTGTGTCTCCGCCAGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGAGACGGTCCgtgagtgatgtgctggagtctgggaagggatggggagaggaatggtcagt Alignment from CESAR agACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG--------- tgctcctttgtctaaggtaagggcatgatctccttgcttctcttttgcagagACCTACACGATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTGTGTCTCCGCCAGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGAGACGGTCCgtgagtgatgtgctggagtctgggaagggatggggagaggaatggtcagt Alignment from Spaln_aa2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG--------- tgctcctttgtctaaggtaagggcatgatctccttgcttctcttttgcagAGACCTACACGATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTGTGTCTCCGCCAGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGAGACGGTCCgtgagtgatgtgctggagtctgggaagggatggggagaggaatggtcagt Alignment from Spaln_nt2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG----- tgctcctttgtctaaggtaagggcatgatctccttgcttctcttttgcagAGACCTACACGATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTGTGTCTCCGCCAGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGAGACGgtccgtgagtgatgtgctggagtctgggaagggatggggagaggaatggtcagt Alignment from Pairagon AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG--------- tgctcctttgtctaaggtaagggcatgatctccttgcttctcttttgcagAGACCTACACGATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTGTGTCTCCGCCAGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGAGACGGTCCgtgagtgatgtgctggagtctgggaagggatggggagaggaatggtcagt Alignment from Exonerate_protein2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgctcctttgtctaaggtaagggcatgatctccttgcttctcttttgcagAGACCTACACGATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTGTGTCTCCGCCAGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGagacggtccgtgagtgatgtgctggagtctgggaagggatggggagaggaatggtcagt Alignment from Exonerate_coding2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgctcctttgtctaaggtaagggcatgatctccttgcttctcttttgcagAGACCTACACGATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTGTGTCTCCGCCAGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGagacggtccgtgagtgatgtgctggagtctgggaagggatggggagaggaatggtcagt Alignment from GeneWise AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG----------------------------------------------------------- tgctcctttgtctaaggtaagggcatgatctccttgcttctcttttgcagAGACCTACACGATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTGTGTCTCCGCCAGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGAGACGGTCCGTGAGTGATGTGCTGGAGTCTGGGAAGGGATGGGGAGAGGAATGGTCAGT #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ---ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGCTC ggggagaggaatggtcagtatgctcttgtggtaagagttcttttctgcagACTATTCCAGAACACTTTGGGGCAGTGAGGGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGgtaagtgctgtgatcatacccggtgcctgcagGGACACACTGACGAGCTC Alignment from CESAR ---ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGCTC ggggagaggaatggtcagtatgctcttgtggtaagagttcttttctgcagACTATTCCAGAACACTTTGGGGCAGTGAGGGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGgtaagtgctgtcctccctgtgcacccctgcagGGACACACTGACGAGCTC Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGA---GCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC--------------------------------CAGGGCCACACTGATGAGCTC ggggagaggaatggtcagtatgctcttgtggtaagagttcttttctgcagACTATTCCAGAACACTTTGGGGCAGTGAGGGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGGTAAGTGCTGTGATCATACCCGGTGCCtgCAGGGACACACTGACGAGCTC Alignment from Spaln_nt2Genome ATTCCAGAA---CACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCC--------------------------------AGGGCCACACTGATGAGCTC ggggagaggaatggtcagtatgctcttgtggtaagagttcttttctgcagACTATTCCAGAACACTTTGGGGCAGTGAGGGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGGTAAGTGCTGTCATGGTGTGTGTTCTTTATAGGGACACACTGACGAGCTC Alignment from Pairagon -----------------------------------------------------ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGCTC GGGGAGAGGAATGGTCAGTATGCTCTTGTGGTAAGAGTTCTTTTCTGCAGACTATTCCAGAACACTTTGGGGCAGTGAGGGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGgtaagtgctgtcatggtgtgtgttctttatagGGACACACTGACGAGCTC Alignment from Exonerate_protein2genome ---ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGCTC ggggagaggaatggtcagtatgctcttgtggtaagagttcttttctgcagACTATTCCAGAACACTTTGGGGCAGTGAGGGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGgtaagtgctgtgatcatacccggtgcctgcagGGACACACTGACGAGCTC Alignment from Exonerate_coding2genome ---ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGCTC ggggagaggaatggtcagtatgctcttgtggtaagagttcttttctgcagACTATTCCAGAACACTTTGGGGCAGTGAGGGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGgtaagtgctgtgatcatacccggtgcctgcagGGACACACTGACGAGCTC Alignment from GeneWise -----------------------------------------------------ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGCTC GGGGAGAGGAATGGTCAGTATGCTCTTGTGGTAAGAGTTCTTTTCTGCAGACTATTCCAGAACACTTTGGGGCAGTGAGGGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGgtaagtgctgtcatggtgtgtgttctttatagGGACACACTGACGAGCTC #### Eml3_ID2518_17 --> 1 - 1 Original Alignment gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCA------g gggggtagggtcacatcttgcctccttgactcctcccccccccccaccaggTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAAAGGAAggtatgtgtccccaccccagacctgggtcctgccctggctcttcttttgcc Alignment from CESAR gTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCA------g gggggtagggtcacatcttgcctccttgactcctcccccccccccaccaggTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAAAGGAAggtatgtgtccccaccccagacctgggtcctgccctggctcttctttaatt Alignment from Spaln_aa2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCA------G gggggtagggtcacatcttgcctccttgactcctcccccccccccaccagGTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAAAGGAAGgtatgtgtccccaccccagacctgggtcctgccctggctcttcttttgcc Alignment from Spaln_nt2Genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCA------G gggggtagggtcacatcttgcctccttgactcctcccccccccccaccagGTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAAAGGAAGgtatgtgtccccaccccagacctgggtcctgccctggctcttcttttgca Alignment from Pairagon GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGC------------------------------------------------------------ gggggtagggtcacatcttgcctccttgactcctcccccccccccaccagGTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAAAGGAAGGTATGTGTCCCCACCCCAGACCTGGGTCCTGCCCTGGCTCTTCTTTTGCA Alignment from Exonerate_protein2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCA------G gggggtagggtcacatcttgcctccttgactcctcccccccccccaccagGTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAAAGGAAGgtatgtgtccccaccccagacctgggtcctgccctggctcttcttttgcc Alignment from Exonerate_coding2genome GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCA------G gggggtagggtcacatcttgcctccttgactcctcccccccccccaccagGTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAAAGGAAGgtatgtgtccccaccccagacctgggtcctgccctggctcttcttttgcc Alignment from GeneWise GTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCCGATGTCACTGACGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCA------G gggggtagggtcacatcttgcctccttgactcctcccccccccccaccagGTGGTTGGTTTTGGACACAGAGACCAGAGAGATTGTATCTGATGTCACGGATGGCAATGAACAGCTCTCAGTTGTCCGGTACAGCCCAAAGGAAGgtatgtgtccccaccccagacctgggtcctgccctggctcttcttttgca #### Eml3_ID2519_18 --> 2 - 0 Original Alignment atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gacctgggtcctgccctggctcttctttaattcttcttttcttgttgcagatGGGTTGTACCTTGCAATTGGTTCTCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGT---gtgagtcgtatgctggggtagaaggtaggatttgttaactgtgggcacag Alignment from CESAR atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gacctgggtcctgccctggctcttctttaattcttcttttcttgttgcagatGGGTTGTACCTTGCAATTGGTTCTCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGT---gtgagtcgtatgctggggtagaaggtaggatttgttaactgtgggca Alignment from Spaln_aa2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGT gacctgggtcctgccctggctcttctttaattcttcttttcttgttgcagATGGGTTGTACCTTGCAATTGGTTCTCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTgtgagtcgtatgctggggtagaaggtaggatttgttaactgtgggcacag Alignment from Spaln_nt2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGT gacctgggtcctgccctggctcttctttaattcttcttttcttgttgcagATGGGTTGTACCTTGCAATTGGTTCTCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTgtgagtcgtatgctggggtagaaggtaggatttgttaactgtgggcacag Alignment from Pairagon ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGT gacctgggtcctgccctggctcttctttaattcttcttttcttgttgcagATGGGTTGTACCTTGCAATTGGTTCTCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTgtgagtcgtatgctggggtagaaggtaggatttgttaactgtgggcacag Alignment from Exonerate_protein2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gacctgggtcctgccctggctcttctttaattcttcttttcttgttgcagATGGGTTGTACCTTGCAATTGGTTCTCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGT---gtgagtcgtatgctggggtagaaggtaggatttgttaactgtgggca Alignment from Exonerate_coding2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG gacctgggtcctgccctggctcttctttaattcttcttttcttgttgcagATGGGTTGTACCTTGCAATTGGTTCTCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGT---gtgagtcgtatgctggggtagaaggtaggatttgttaactgtgggca Alignment from GeneWise ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGT gacctgggtcctgccctggctcttctttaattcttcttttcttgttgcagATGGGTTGTACCTTGCAATTGGTTCTCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTgtgagtcgtatgctggggtagaaggtaggatttgttaactgtgggcacag #### Eml3_ID2522_21 --> 2 - 0 Original Alignment gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gcaactctaggatgtggtaacagccagagataagagtgtctgtttttcaggtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAATTCCCTATGCCGCTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTTCTGCAAAGTGCACCTCTTTCAGTACCCATGTGCTCGA------gtaggtgttaagcctcagaagaccattgggcccaggtgtgggtaggtttg Alignment from CESAR gtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gcaactctaggatgtggtaacagccagagataagagtgtctgtttttcaggtGTGTGGCCTGATGGCTCTGATGGGACAGACATCAATTCCCTATGCCGCTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTTCTGCAAAGTGCACCTCTTTCAGTACCCATGTGCTCGA------gtaggtgttaagcctcagaagaccattgggcccaggtgtgggta Alignment from Spaln_aa2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gcaactctaggatgtggtaacagccagagataagagtgtctgtttttcagGTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAATTCCCTATGCCGCTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTTCTGCAAAGTGCACCTCTTTCAGTACCCATGTGCTCGAGTAGGTgttaagcctcagaagaccattgggcccaggtgtgggtaggtttg Alignment from Spaln_nt2Genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGA GCCAAG gcaactctaggatgtggtaacagccagagataagagtgtctgtttttcagGTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAATTCCCTATGCCGCTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTTCTGCAAAGTGCACCTCTTTCAGTACCCATGTGCTCGAgtaggtgttaagcctcagaagaccattgggcccagGTGTGGgtaggtttg Alignment from Pairagon GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGA gcaactctaggatgtggtaacagccagagataagagtgtctgtttttcagGTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAATTCCCTATGCCGCTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTTCTGCAAAGTGCACCTCTTTCAGTACCCATGTGCTCGAgtaggtgttaagcctcagaagaccattgggcccaggtgtgggtaggtttg Alignment from Exonerate_protein2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCA gcaactctaggatgtggtaacagccagagataagagtgtctgtttttcagGTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAATTCCCTATGCCGCTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTTCTGCAAAGTGCACCTCTTTCAGTACCCATGTGCTCGAGTAGgtgttaagcctcagaagaccattgggcccaggtgtgggtaggtttg Alignment from Exonerate_coding2genome GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCA gcaactctaggatgtggtaacagccagagataagagtgtctgtttttcagGTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAATTCCCTATGCCGCTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTTCTGCAAAGTGCACCTCTTTCAGTACCCATGTGCTCGAGTAGgtgttaagcctcagaagaccattgggcccaggtgtgggtaggtttg Alignment from GeneWise GTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAACTCCCTTTGCCGCTCCCACAATGAACGGGTGGTGGCTGTGGCAGACGACTTCTGCAAAGTACACCTCTTTCAGTACCCATGTGCTCGAGCCAAG gcaactctaggatgtggtaacagccagagataagagtgtctgtttttcagGTGTGTGGCCTGATGGCTCTGATGGGACAGACATCAATTCCCTATGCCGCTCCCACAATGAACGGGTGGTAGCTGTGGCAGATGATTTCTGCAAAGTGCACCTCTTTCAGTACCCATGTGCTCGAGTAGGTgttaagcctcagaagaccattgggcccaggtgtgggtaggtttg #### Fads1_ID2697_11 --> 1 - 2 Original Alignment cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT---ta ggggatggatagggaagcagaagccaccctgactcacctctctttggtagcCTCTTCCCCACCATGCCGCGACACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTTGCAGCCTTCGCAGACATTGTTATCtagtgagaatgaacctgggaagctggcagtcagaagtaaagccacagtgatc Alignment from CESAR cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT---ta ggggatggatagggaagcagaagccaccctgactcacctctctttggtagcCTCTTCCCCACCATGCCGCGACACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTTGCAGCCTTCGCAGACATTGTTATCtagtgagaatgaacctgggaagctggcagtcagaagtaaagccacagtgatc Alignment from Spaln_aa2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTAC-- ggggatggatagggaagcagaagccaccctgactcacctctctttggtagCCTCTTCCCCACCATGCCGCGACACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTTGCAGCCTTCGCAGACATTGTTATCTAgtgagaatgaacctgggaagctggcagtcagaagtaaagccacagtgatc Alignment from Spaln_nt2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT---TA ggggatggatagggaagcagaagccaccctgactcacctctctttggtagCCTCTTCCCCACCATGCCGCGACACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTTGCAGCCTTCGCAGACATTGTTATCTAgtgagaatgaacctgggaagctggcagtcagaagtaaagccacagtgatc Alignment from Pairagon CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT---TA ggggatggatagggaagcagaagccaccctgactcacctctctttggtagCCTCTTCCCCACCATGCCGCGACACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTTGCAGCCTTCGCAGACATTGTTATCTAgtgagaatgaacctgggaagctggcagtcagaagtaaagccacagtgatc Alignment from Exonerate_protein2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT---TA ggggatggatagggaagcagaagccaccctgactcacctctctttggtagCCTCTTCCCCACCATGCCGCGACACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTTGCAGCCTTCGCAGACATTGTTATCTAgtgagaatgaacctgggaagctggcagtcagaagtaaagccacagtgatc Alignment from Exonerate_coding2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTT---TA ggggatggatagggaagcagaagccaccctgactcacctctctttggtagCCTCTTCCCCACCATGCCGCGACACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTTGCAGCCTTCGCAGACATTGTTATCTAgtgagaatgaacctgggaagctggcagtcagaagtaaagccacagtgatc Alignment from GeneWise CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTAC-- ggggatggatagggaagcagaagccaccctgactcacctctctttggtagCCTCTTCCCCACCATGCCGCGACACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTTGCAGCCTTCGCAGACATTGTTATCTAgtgagaatgaacctgggaagctggcagtcagaagtaaagccacagtgatc #### Fads2_ID2675_9 --> 1 - 0 Original Alignment gTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATCACTACCGGGACTGGTTCAGCAGCCAG ctgcctctcgcccaccctgaggcttcgattacttttatatgtctgcacaggTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGAT---------------------------gtaggaagaggcagaggtagtcacgggaacttacgtcaaagcctgcccct Alignment from CESAR gTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATCACTACCGGGACTGGTTCAGCAGCCAG ctgcctctcgcccaccctgaggcttcgattacttttatatgtctgcacaggTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGAT---------------------------gtaggaagaggcagaggtagtca Alignment from Spaln_aa2Genome GTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGAT ctgcctctcgcccaccctgaggcttcgattacttttatatgtctgcacagGTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATgtaggaagaggcagaggtagtcacgggaacttacgtcaaagcctgcccct Alignment from Spaln_nt2Genome GTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGAT ctgcctctcgcccaccctgaggcttcgattacttttatatgtctgcacagGTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATgtaggaagaggcagaggtagtcacgggaacttacgtcaaagcctgcccct Alignment from Pairagon GTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGAT ctgcctctcgcccaccctgaggcttcgattacttttatatgtctgcacagGTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATgtaggaagaggcagaggtagtcacgggaacttacgtcaaagcctgcccct Alignment from Exonerate_protein2genome GTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGAT ctgcctctcgcccaccctgaggcttcgattacttttatatgtctgcacagGTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATgtaggaagaggcagaggtagtcacgggaacttacgtcaaagcctgcccct Alignment from Exonerate_coding2genome GTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGAT ctgcctctcgcccaccctgaggcttcgattacttttatatgtctgcacagGTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATgtaggaagaggcagaggtagtcacgggaacttacgtcaaagcctgcccct Alignment from GeneWise GTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATCACTACCGGGACTGGTTCAGCAGCCAGCTGGCAG ctgcctctcgcccaccctgaggcttcgattacttttatatgtctgcacagGTTCCTGGAGAGCCACTGGTTTGTGTGGGTCACACAGATGAACCACCTTGTCATGGAGATTGATCTTGATGTAGGAAGAGGCAGAGGTAGTCACGGGAACTTACgtcaaagcctgcccct #### Fads3_ID2665_8 --> 0 - 2 Original Alignment ---GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag cctgcctcccaggtccccagcccatggatgagcccggttctctcttgcagTACGACTTGCTGTGGGCTGCCAGTTTCTACTCCCACTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCaggtaagaccagactcagagtgatggggagttgggaggtctcacacaggcgg Alignment from CESAR ---GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag cctgcctcccaggtccccagcccatggatgagcccggttctctcttgcagTACGACTTGCTGTGGGCTGCCAGTTTCTACTCCCACTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCaggtaagaccagactcagagtgatggggagttgggaggtctcacacaggcgg Alignment from Spaln_aa2Genome GACTTGCTGTGG---GCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgcctcccaggtccccagcccatggatgagcccggttctctcttgcagTACGACTTGCTGTGGGCTGCCAGTTTCTACTCCCACTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAGgtaagaccagactcagagtgatggggagttgggaggtctcacacaggcgg Alignment from Spaln_nt2Genome GACTTGCTGT---GGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgcctcccaggtccccagcccatggatgagcccggttctctcttgcagTACGACTTGCTGTGGGCTGCCAGTTTCTACTCCCACTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAGgtaagaccagactcagagtgatggggagttgggaggtctcacacaggcgg Alignment from Pairagon ---GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgcctcccaggtccccagcccatggatgagcccggttctctcttgcagTACGACTTGCTGTGGGCTGCCAGTTTCTACTCCCACTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAGgtaagaccagactcagagtgatggggagttgggaggtctcacacaggcgg Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgcctcccaggtccccagcccatggatgagcccggttctctcttgcagtacGACTTGCTGTGGGCTGCCAGTTTCTACTCCCACTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAGgtaagaccagactcagagtgatggggagttgggaggtctcacacaggcgg Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgcctcccaggtccccagcccatggatgagcccggttctctcttgcagtacGACTTGCTGTGGGCTGCCAGTTTCTACTCCCACTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAGgtaagaccagactcagagtgatggggagttgggaggtctcacacaggcgg Alignment from GeneWise ---GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgcctcccaggtccccagcccatggatgagcccggttctctcttgcagTACGACTTGCTGTGGGCTGCCAGTTTCTACTCCCACTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAGgtaagaccagactcagagtgatggggagttgggaggtctcacacaggcgg #### Fads3_ID2666_9 --> 1 - 0 Original Alignment gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG gaataaccctaatcaaggatgctgtgcagatgcgtgattcttgttttcagg---CTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGgtaggcactggaaagcctgatgggagtatatactagccatggagggacca Alignment from CESAR gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaccctaatcaaggatgcgcagatgcgtgattcttgttttcagg---CTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGgtaggcactggaaagcctgatgggagtatatactagccatggagggacca Alignment from Spaln_aa2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG gaataaccctaatcaaggatgctgtgcagatgcgtgattcttgttttcagG---CTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGgtaggcactggaaagcctgatgggagtatatactagccatggagggacca Alignment from Spaln_nt2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG gaataaccctaatcaaggatgctgtgcagatgcgtgattcttgttttcag---GCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGgtaggcactggaaagcctgatgggagtatatactagccatggagggacca Alignment from Pairagon GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG gaataaccctaatcaaggatgctgtgcagatgcgtgattcttgttttcag---GCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGgtaggcactggaaagcctgatgggagtatatactagccatggagggacca Alignment from Exonerate_protein2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG gaataaccctaatcaaggatgctgtgcagatgcgtgattcttgttttcagG---CTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGgtaggcactggaaagcctgatgggagtatatactagccatggagggacca Alignment from Exonerate_coding2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG gaataaccctaatcaaggatgctgtgcagatgcgtgattcttgttttcagG---CTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGgtaggcactggaaagcctgatgggagtatatactagccatggagggacca Alignment from GeneWise GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG gaataaccctaatcaaggatgctgtgcagatgcgtgattcttgttttcagG---CTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGgtaggcactggaaagcctgatgggagtatatactagccatggagggacca #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gttcattatctttaggccaagtccacttaattaccattttcatattgcag---GCCGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGacgtgagtgtcctctcaccttgcagaactagccatgctgtaaataaatttct Alignment from CESAR ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac agagttcattatctttaggccaagtcttaattaccattttcatattgcag---GCCGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGacgtgagtgtcctctcaccttgcagaactagccatgctgtatcacctcttct Alignment from Spaln_aa2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttcattatctttaggccaagtccacttaattaccattttcatattgcag---GCCGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcaccttgcagaactagccatgctgtaaataaatttct Alignment from Spaln_nt2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttcattatctttaggccaagtccacttaattaccattttcatattgcag---GCCGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcaccttgcagaactagccatgctgtagggaccttttg Alignment from Pairagon ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttcattatctttaggccaagtccacttaattaccattttcatattgcag---GCCGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcaccttgcagaactagccatgctgtagggaccttttg Alignment from Exonerate_protein2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttcattatctttaggccaagtccacttaattaccattttcatattgCAGGCCGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcaccttgcagaactagccatgctgtaaataaatttct Alignment from Exonerate_coding2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttcattatctttaggccaagtccacttaattaccattttcatattgCAGGCCGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcaccttgcagaactagccatgctgtaaataaatttct Alignment from GeneWise ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gttcattatctttaggccaagtccacttaattaccattttcatattgcagGCCGCT---GTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGACgtgagtgtcctctcaccttgcagaactagccatgctgtagggaccttttg #### Fam160b1_ID12360_11 --> 0 - 2 Original Alignment ------ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCgt agggcacctgactggaaggttcccctcactttttttgttccccatggcagACATTTATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGCAGGTGCTgtgtgagtgtccactctgtaggtggcatctccccagccaggagttgggttcg Alignment from CESAR ------ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCgt agggcacctgactggaaggttcccctcactttttttgttccccatggcagACATTTATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGCAGGTGCTgtgtgagtgtccactctgtaggtggcatctccccagccaggagttgggttcg Alignment from Spaln_aa2Genome ATCAGCATCATGACC------CTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT agggcacctgactggaaggttcccctcactttttttgttccccatggcagACATTTATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGCAGGTGCTGTgtgagtgtccactctgtaggtggcatctccccagccaggagttgggttcg Alignment from Spaln_nt2Genome ATCAGCATC------ATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT agggcacctgactggaaggttcccctcactttttttgttccccatggcagACATTTATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGCAGGTGCTGTgtgagtgtccactctgtaggtggcatctccccagccaggagttgggttcg Alignment from Pairagon ------ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT agggcacctgactggaaggttcccctcactttttttgttccccatggcagACATTTATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGCAGGTGCTGTgtgagtgtccactctgtaggtggcatctccccagccaggagttgggttcg Alignment from Exonerate_protein2genome ------ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT agggcacctgactggaaggttcccctcactttttttgttccccatggcagACATTTATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGCAGGTGCTGTgtgagtgtccactctgtaggtggcatctccccagccaggagttgggttcg Alignment from Exonerate_coding2genome ------ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT agggcacctgactggaaggttcccctcactttttttgttccccatggcagACATTTATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGCAGGTGCTGTgtgagtgtccactctgtaggtggcatctccccagccaggagttgggttcg Alignment from GeneWise ------ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT agggcacctgactggaaggttcccctcactttttttgttccccatggcagACATTTATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGCAGGTGCTGTgtgagtgtccactctgtaggtggcatctccccagccaggagttgggttcg #### Fas_ID6925_6 --> 2 - 1 Original Alignment gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTT---------g cttgcttaaagaaattactcaattccctgtgattcttctctaatttccaggtCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGTTAAGCATggtgagtcctaagtttgttcaaaatgaagattaaagtgacttgagaagtag Alignment from CESAR gtCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTT---------g cttgcttaaagaaattactcaattccctgtgattcttctctaatttccaggtCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGTTAAGCATggtgagtcctaagtttgttcaaaatgaagattaaagtgacttgagaagtag Alignment from Spaln_aa2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTT---------G cttgcttaaagaaattactcaattccctgtgattcttctctaatttccagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGTTAAGCATGgtgagtcctaagtttgttcaaaatgaagattaaagtgacttgagaagtag Alignment from Spaln_nt2Genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTT cttgcttaaagaaattactcaattccctgtgattcttctctaatttccagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTgttaagcatggtgagtcctaagtttgttcaaaatgaagattaaagtgacttgagaagtag Alignment from Pairagon GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG--------- cttgcttaaagaaattactcaattccctgtgattcttctctaatttccagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGTTAAGCATGgtgagtcctaagtttgttcaaaatgaagattaaagtgacttgagaagtag Alignment from Exonerate_protein2genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG cttgcttaaagaaattactcaattccctgtgattcttctctaatttccagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGttaagcatggtgagtcctaagtttgttcaaaatgaagattaaagtgacttgagaagtag Alignment from Exonerate_coding2genome GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTG cttgcttaaagaaattactcaattccctgtgattcttctctaatttccagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGttaagcatggtgagtcctaagtttgttcaaaatgaagattaaagtgacttgagaagtag Alignment from GeneWise GTCCCAGAAATCGCCTATGGTTGTTGACCATCCTTGTTTTGTTAATTCCACTTGTA------- cttgcttaaagaaattactcaattccctgtgattcttctctaatttccagGTCCCAGAAATTGCCTATGGTTGTTGACCATCCTTGTTTTGTTGATTCCACTTGTTAAGCATGgtgagtcctaagtttgttcaaaatgaagattaaagtgacttgagaagtag #### Fau_ID1402_2 --> 0 - 1 Original Alignment GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGA---------g cacggggaaagtttgtctatgtataaacacccttgttcttacccttccagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTGGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCTGACCACTCTGGAGGTAGCAGGCCGCATGCTGGGACCTATCCTAggtgagcggtgggaggtcagtgctttttttcagagctaatggaatgcccgt Alignment from CESAR GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGA---------g cacggggaaagtttgtctatgtataaacacccttgttcttacccttccagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTGGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCTGACCACTCTGGAGGTAGCAGGCCGCATGCTGGGACCTATCCTAggtgagcggtgggaggtcagtgctttttttcagagctaatggaatgcccgt Alignment from Spaln_aa2Genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGA---------G cacggggaaagtttgtctatgtataaacacccttgttcttacccttccagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTGGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCTGACCACTCTGGAGGTAGCAGGCCGCATGCTGGGACCTATCCTAGgtgagcggtgggaggtcagtgctttttttcagagctaatggaatgcccgt Alignment from Spaln_nt2Genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGA---------G cacggggaaagtttgtctatgtataaacacccttgttcttacccttccagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTGGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCTGACCACTCTGGAGGTAGCAGGCCGCATGCTGGGACCTATCCTAGgtgagcggtgggaggtcagtgctttttttcagagctaatggaatgcccgt Alignment from Pairagon GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGG---------AG cacggggaaagtttgtctatgtataaacacccttgttcttacccttccagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTGGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCTGACCACTCTGGAGGTAGCAGGCCGCATGCTGGGACCTATCCTAGgtgagcggtgggaggtcagtgctttttttcagagctaatggaatgcccgt Alignment from Exonerate_protein2genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGAG cacggggaaagtttgtctatgtataaacacccttgttcttacccttccagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTGGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCTGACCACTCTGGAGGTAGCAGGCCGCATGCTGGGACctatcctaggtgagcggtgggaggtcagtgctttttttcagagctaatggaatgcccgt Alignment from Exonerate_coding2genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGAG cacggggaaagtttgtctatgtataaacacccttgttcttacccttccagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTGGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCTGACCACTCTGGAGGTAGCAGGCCGCATGCTGGGACctatcctaggtgagcggtgggaggtcagtgctttttttcagagctaatggaatgcccgt Alignment from GeneWise GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGAGGTAAAGTT- cacggggaaagtttgtctatgtataaacacccttgttcttacccttccagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTGGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCTGACCACTCTGGAGGTAGCAGGCCGCATGCTGGGACCTATCCTAGgtgagcggtgggaggtcagtgctttttttcagagctaatggaatgcccgt #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG------ tttataaatctcacgagtcagggagtgtcgttcccctttatctccctcagGAAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAGTGTTTCgttaggtcagactccctcattcctgggttcatctatccatcccgggctcg Alignment from CESAR GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG------ tttataaatctcacgagtcagggagtgtcgttcccctttatctccctcagGAAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAGTGTTTCgttaggtcagactccctcattcctgggttcatctatccatcccgggctcg Alignment from Spaln_aa2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG------ tttataaatctcacgagtcagggagtgtcgttcccctttatctccctcagGAAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAGTGTTTCgttaggtcagactccctcattcctgggttcatctatccatcccgggctcg Alignment from Spaln_nt2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG- tttataaatctcacgagtcagggagtgtcgttcccctttatctccctcagGAAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAGTgtttcgttaggtcagactccctcattcctgggttcatctatccatcccgggctcg Alignment from Pairagon GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG------ tttataaatctcacgagtcagggagtgtcgttcccctttatctccctcagGAAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAGTGTTTCgttaggtcagactccctcattcctgggttcatctatccatcccgggctcg Alignment from Exonerate_protein2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG tttataaatctcacgagtcagggagtgtcgttcccctttatctccctcagGAAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAGtgtttcgttaggtcagactccctcattcctgggttcatctatccatcccgggctcg Alignment from Exonerate_coding2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG tttataaatctcacgagtcagggagtgtcgttcccctttatctccctcagGAAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAGtgtttcgttaggtcagactccctcattcctgggttcatctatccatcccgggctcg Alignment from GeneWise CAGGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG------ tttataaatctcacgagtcagggagtgtcgttcccctttatctccctCAGGAAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAGTGTTTCgttaggtcagactccctcattcctgggttcatctatccatcccgggctcg #### Fibp_ID1010_7 --> 1 - 0 Original Alignment c---------CTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ccaagaataaaacactcttagtttagagttgtcctttgccctacccccagcAACCATAATCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtgacctgccctgtgcagacccttctgcctaaagtgtcaagaggctcggg Alignment from CESAR c---------CTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ccaagaataaaacactcttagtttagagttgtcctttgccctacccccagcAACCATAATCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtgacctgccctgtgcagacccttctgcctaaagtgtcaagaggctcggg Alignment from Spaln_aa2Genome GCATAAGAGCCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ccaagaataaaacactcttagtttagagttgtcctttgccctacccccagCAACCATAATCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtgacctgccctgtgcagacccttctgcctaaagtgtcaagaggctcggg Alignment from Spaln_nt2Genome CCTGGTGTGC---------ACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ccaagaataaaacactcttagtttagagttgtcctttgccctacccccagCAACCATAATCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtgacctgccctgtgcagacccttctgcctaaagtgtcaagaggctcggg Alignment from Pairagon C---------CTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ccaagaataaaacactcttagtttagagttgtcctttgccctacccccagCAACCATAATCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtgacctgccctgtgcagacccttctgcctaaagtgtcaagaggctcggg Alignment from Exonerate_protein2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ccaagaataaaacactcttagtttagagttgtcctttgccctacccccagcaaccataaTCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtgacctgccctgtgcagacccttctgcctaaagtgtcaagaggctcggg Alignment from Exonerate_coding2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ccaagaataaaacactcttagtttagagttgtcctttgccctacccccagcaaccataaTCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtgacctgccctgtgcagacccttctgcctaaagtgtcaagaggctcggg Alignment from GeneWise -------AGCCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG ccaagaataaaacactcttagtttagagttgtcctttgccctacccccagCAACCATAATCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtgacctgccctgtgcagacccttctgcctaaagtgtcaagaggctcggg #### Fkbp2_ID1945_4 --> 2 - 1 Original Alignment ggTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAg gt gagcctggccacaacttaactctggtaacacttccccttctgcctcccaggg------GAGCGGGGAGCCCCCCCAAAGATCCCAggtatggcccctaccaccctcactccagtaagcctttgcctttcctcaggt Alignment from CESAR ggTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAg gt agaagggagcctggccacaacttaataacacttccccttctgcctcccaggg------GAGCGGGGAGCCCCCCCAAAGATCCCAggtatggcccctaccaccctcactccaattgttctctctgttgttcaaggt Alignment from Spaln_aa2Genome GGGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GT ggccacaacttaactctggtaacacttccccttctgcctccca gGGGAGCGGGGAGCCCCCCCAAAGATCCCAGgtatggcccctaccaccctcactccagtaagcctttgcctttcctcagGT Alignment from Spaln_nt2Genome GGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GT gagcctggccacaacttaactctggtaacacttccccttctgcctcccagGG------GAGCGGGGAGCCCCCCCAAAGATCCCAGgtatggcccctaccaccctcactccattcgattggggttctgctctagGT Alignment from Pairagon GGTATGGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GT gagcctggccacaacttaactctggtaacacttccccttctgcctcccagGG------GAGCGGGGAGCCCCCCCAAAGATCCCAGgtatggcccctaccaccctcactccattcgattggggttctgctctagGT Alignment from Exonerate_protein2genome AGAGCGGGGAGCCCCCCCAAAGATCCCAG GT gagcctggccacaacttaactctggtaacacttccccttctgcctcccaggGGAGCGGGGAGCCCCCCCAAAGATCCCAGgtatggcccctaccaccctcactccagtaagcctttgcctttcctcagGT Alignment from Exonerate_coding2genome GGAGAGCGGGGAGCCCCCCCAAAGATCCCAG GT gagcctggccacaacttaactctggtaacacttccccttctgcctcccagGGG-AGCGGGGAGCCCCCCCAAAGATCCCAGgtatggcccctaccaccctcactccagtaagcctttgcctttcctcagGT Alignment from GeneWise --GAGCGGGGAGCCCCCCCAAAGATCCCAGGT------------------------------------------------ gagcctggccacaacttaactctggtaacacttccccttctgcctcccagGGGAGCGGGGAGCCCCCCCAAAGATCCCAGGTATGGCCCCTACCACCCTCACTCCATTCGATTGGGGTTCTGCTCTAGGT #### Fkbp2_ID1946_3 --> 1 - 1 Original Alignment gATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---------g tgggccatgggtctgggcatttcatgtgaacgccttgtctccccacacaggATGTGTGAAGGGGAAAGGCGGAAGTTGGTGATCCCATCCGAGCTGGTAAAAATTggtaagaggccattgtggttgggaggtaatgggatctggagagggcttaga Alignment from CESAR gATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---------g tgggccatgggtctgggcatttcatgtgaacgccttgtctccccacacaggATGTGTGAAGGGGAAAGGCGGAAGTTGGTGATCCCATCCGAGCTGGTAAAAATTggtaagaggccattgtggttgggaggtaatgggatctggagagggcttaga Alignment from Spaln_aa2Genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---------G tgggccatgggtctgggcatttcatgtgaacgccttgtctccccacacagGATGTGTGAAGGGGAAAGGCGGAAGTTGGTGATCCCATCCGAGCTGGTAAAAATTGgtaagaggccattgtggttgggaggtaatgggatctggagagggcttaga Alignment from Spaln_nt2Genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG tgggccatgggtctgggcatttcatgtgaacgccttgtctccccacacagGATGTGTGAAGGGGAAAGGCGGAAGTTGGTGATCCCATCCGAGCTGgtaaaaattggtaagaggccattgtggttgggaggtaatgggatctggagagggcttaga Alignment from Pairagon GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG--------- tgggccatgggtctgggcatttcatgtgaacgccttgtctccccacacagGATGTGTGAAGGGGAAAGGCGGAAGTTGGTGATCCCATCCGAGCTGGTAAAAATTGgtaagaggccattgtggttgggaggtaatgggatctggagagggcttaga Alignment from Exonerate_protein2genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG tgggccatgggtctgggcatttcatgtgaacgccttgtctccccacacagGATGTGTGAAGGGGAAAGGCGGAAGTTGGTGATCCCATCCGAGCTGGtaaaaattggtaagaggccattgtggttgggaggtaatgggatctggagagggcttaga Alignment from Exonerate_coding2genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG tgggccatgggtctgggcatttcatgtgaacgccttgtctccccacacagGATGTGTGAAGGGGAAAGGCGGAAGTTGGTGATCCCATCCGAGCTGgtaaaaattggtaagaggccattgtggttgggaggtaatgggatctggagagggcttaga Alignment from GeneWise GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTG---------G tgggccatgggtctgggcatttcatgtgaacgccttgtctccccacacagGATGTGTGAAGGGGAAAGGCGGAAGTTGGTGATCCCATCCGAGCTGGTAAAAATTGgtaagaggccattgtggttgggaggtaatgggatctggagagggcttaga #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- ctggcttgggctgatgattggtagatgactgccttttctccactccccagAAACCAGACCGTGATGATTGGGAGAGTGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAATTGCACAAACTGGCTACTGACAAGAATGATCCCCATTACACGCCGgtaagcattggaaacatgggatgagtggaggagatgatttgccgcaggac Alignment from CESAR AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- ctggcttgggctgatgattggtagatgactgccttttctccactccccagAAACCAGACCGTGATGATTGGGAGAGTGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAATTGCACAAACTGGCTACTGACAAGAATGATCCCCATTACACGCCGgtaagcattggaaacatgggatgagtggaggagatgatttgccgcaggac Alignment from Spaln_aa2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- ctggcttgggctgatgattggtagatgactgccttttctccactccccagAAACCAGACCGTGATGATTGGGAGAGTGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAATTGCACAAACTGGCTACTGACAAGAATGATCCCCATTACACGCCGgtaagcattggaaacatgggatgagtggaggagatgatttgccgcaggac Alignment from Spaln_nt2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- ctggcttgggctgatgattggtagatgactgccttttctccactccccagAAACCAGACCGTGATGATTGGGAGAGTGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAATTGCACAAACTGGCTACTGACAAGAATGATCCCCATTACACGCCGgtaagcattggaaacatgggatgagtggaggagatgatttgccgcaggac Alignment from Pairagon AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- ctggcttgggctgatgattggtagatgactgccttttctccactccccagAAACCAGACCGTGATGATTGGGAGAGTGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAATTGCACAAACTGGCTACTGACAAGAATGATCCCCATTACACGCCGgtaagcattggaaacatgggatgagtggaggagatgatttgccgcaggac Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC ctggcttgggctgatgattggtagatgactgccttttctccactccccagAAACCAGACCGTGATGATTGGGAGAGTGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAATTGCACAAACTGGCTACTGACAAGAATGATCCCCATtacacgccggtaagcattggaaacatgggatgagtggaggagatgatttgccgcaggac Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC ctggcttgggctgatgattggtagatgactgccttttctccactccccagAAACCAGACCGTGATGATTGGGAGAGTGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAATTGCACAAACTGGCTACTGACAAGAATGATCCCCATtacacgccggtaagcattggaaacatgggatgagtggaggagatgatttgccgcaggac Alignment from GeneWise AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC--------- ctggcttgggctgatgattggtagatgactgccttttctccactccccagAAACCAGACCGTGATGATTGGGAGAGTGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAATTGCACAAACTGGCTACTGACAAGAATGATCCCCATTACACGCCGgtaagcattggaaacatgggatgagtggaggagatgatttgccgcaggac #### Ganab_ID2473_12 --> 2 - 0 Original Alignment gg---------------ACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcttcagccccacctgtcctccttgtcttcccagggATCTCCGATATCCGTACCCAGGCATTGCCCCCACTCTTCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCTTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTCCCCCAGCCCCTCAATATGCTTGATCACTTGGCTTCCAAGAGGCGGAAGgtaagagggtgctgtagctgtgagaggtcttcttgtatagggttgaggca Alignment from CESAR gg---------------ACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcttcagccccacctgtcctccttgtcttcccagggATCTCCGATATCCGTACCCAGGCATTGCCCCCACTCTTCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCTTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTCCCCCAGCCCCTCAATATGCTTGATCACTTGGCTTCCAAGAGGCGGAAGgtaagagggtgctgtagctgtgagaggtcttcttgtatagggttgaggca Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCC---------------CCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcttcagccccacctgtcctccttgtcttcccagGGATCTCCGATATCCGTACCCAGGCATTGCCCCCACTCTTCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCTTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTCCCCCAGCCCCTCAATATGCTTGATCACTTGGCTTCCAAGAGGCGGAAGgtaagagggtgctgtagctgtgagaggtcttcttgtatagggttgaggca Alignment from Spaln_nt2Genome GGGACCCAGGCA--------------TTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcttcagccccacctgtcctccttgtcttcccagGGATCTCCGATATCCGTACCCAGGCATTGCCCCCACTCTTCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCTTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTCCCCCAGCCCCTCAATATGCTTGATCACTTGGCTTCCAAGAGGCGGAAGgtaagagggtgctgtagctgtgagaggtcttcttgtatagggttgaggca Alignment from Pairagon GG---------------ACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcttcagccccacctgtcctccttgtcttcccagGGATCTCCGATATCCGTACCCAGGCATTGCCCCCACTCTTCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCTTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTCCCCCAGCCCCTCAATATGCTTGATCACTTGGCTTCCAAGAGGCGGAAGgtaagagggtgctgtagctgtgagaggtcttcttgtatagggttgaggca Alignment from Exonerate_protein2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcttcagccccacctgtcctccttgtcttcccagggatctccgatatccGTACCCAGGCATTGCCCCCACTCTTCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCTTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTCCCCCAGCCCCTCAATATGCTTGATCACTTGGCTTCCAAGAGGCGGAAGgtaagagggtgctgtagctgtgagaggtcttcttgtatagggttgaggca Alignment from Exonerate_coding2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcttcagccccacctgtcctccttgtcttcccagggatctccgatatccGTACCCAGGCATTGCCCCCACTCTTCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCTTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTCCCCCAGCCCCTCAATATGCTTGATCACTTGGCTTCCAAGAGGCGGAAGgtaagagggtgctgtagctgtgagaggtcttcttgtatagggttgaggca Alignment from GeneWise --------------GGGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcttcagccccacctgtcctccttgtcttcccagGGATCTCCGATATCCGTACCCAGGCATTGCCCCCACTCTTCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCTTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTCCCCCAGCCCCTCAATATGCTTGATCACTTGGCTTCCAAGAGGCGGAAGgtaagagggtgctgtagctgtgagaggtcttcttgtatagggttgaggca #### Ganab_ID2485_24 --> 1 - 1 Original Alignment tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAA---------g tgccttcgctgcccatttctccaattgggtgtgtgtttttttttttccagtTTAGCAGACCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGAATCGGAAggtatctgataggtctggcattgaaattgggaaaagaagcagcggtagggt Alignment from CESAR tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAA---------g tgccttcgctgcccatttctccaattgggtgtgtgtttttttttttccagtTTAGCAGACCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGAATCGGAAggtatctgataggtctggcattgaaattgggaaaagaagcagcggtagggt Alignment from Spaln_aa2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAA---------G tgccttcgctgcccatttctccaattgggtgtgtgtttttttttttccagTTTAGCAGACCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGAATCGGAAGgtatctgataggtctggcattgaaattgggaaaagaagcagcggtagggt Alignment from Spaln_nt2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG--------- tgccttcgctgcccatttctccaattgggtgtgtgtttttttttttccagTTTAGCAGACCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGAATCGGAAGgtatctgataggtctggcattgaaattgggaaaagaagcagcggtagggt Alignment from Pairagon TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG--------- tgccttcgctgcccatttctccaattgggtgtgtgtttttttttttccagTTTAGCAGACCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGAATCGGAAGgtatctgataggtctggcattgaaattgggaaaagaagcagcggtagggt Alignment from Exonerate_protein2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgccttcgctgcccatttctccaattgggtgtgtgtttttttttttccagTTTAGCAGACCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGaatcggaaggtatctgataggtctggcattgaaattgggaaaagaagcagcggtagggt Alignment from Exonerate_coding2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgccttcgctgcccatttctccaattgggtgtgtgtttttttttttccagTTTAGCAGACCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGaatcggaaggtatctgataggtctggcattgaaattgggaaaagaagcagcggtagggt Alignment from GeneWise TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAA---------G tgccttcgctgcccatttctccaattgggtgtgtgtttttttttttccagTTTAGCAGACCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGAATCGGAAGgtatctgataggtctggcattgaaattgggaaaagaagcagcggtagggt #### Gbf1_ID9795_14 --> 0 - 1 Original Alignment ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt aggtgaagtatattcctacctcaagtctgataatggtttttcatatctagGTGGTTAATGCCTTCCCTGTATCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAGAAAGAGACAGCTAGACCTGGCTTTGAGGCAGTGGACGGCAACCCAGAAACTAACAAGtgtaagcagcatcttatattgttcttattctttttcttttttgtccttact Alignment from CESAR ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt aggtgaagtatattcctacctcaagtctgataatggtttttcatatctagGTGGTTAATGCCTTCCCTGTATCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAGAAAGAGACAGCTAGACCTGGCTTTGAGGCAGTGGACGGCAACCCAGAAACTAACAAGtgtaagcagcatcttatattgttcttattctttttcttttttgtccttact Alignment from Spaln_aa2Genome AATGCCTTTCCT------GTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctacctcaagtctgataatggtttttcatatctagGTGGTTAATGCCTTCCCTGTATCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAGAAAGAGACAGCTAGACCTGGCTTTGAGGCAGTGGACGGCAACCCAGAAACTAACAAGTgtaagcagcatcttatattgttcttattctttttcttttttgtccttact Alignment from Spaln_nt2Genome AATGCCTTTCC------TGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctacctcaagtctgataatggtttttcatatctagGTGGTTAATGCCTTCCCTGTATCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAGAAAGAGACAGCTAGACCTGGCTTTGAGGCAGTGGACGGCAACCCAGAAACTAACAAGTgtaagcagcatcttatattgttcttattctttttcttttttgtccttact Alignment from Pairagon ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctacctcaagtctgataatggtttttcatatctagGTGGTTAATGCCTTCCCTGTATCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAGAAAGAGACAGCTAGACCTGGCTTTGAGGCAGTGGACGGCAACCCAGAAACTAACAAGTgtaagcagcatcttatattgttcttattctttttcttttttgtccttact Alignment from Exonerate_protein2genome ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctacctcaagtctgataatggtttttcatatctagGTGGTTAATGCCTTCCCTGTATCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAGAAAGAGACAGCTAGACCTGGCTTTGAGGCAGTGGACGGCAACCCAGAAACTAACAAGTgtaagcagcatcttatattgttcttattctttttcttttttgtccttact Alignment from Exonerate_coding2genome ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctacctcaagtctgataatggtttttcatatctagGTGGTTAATGCCTTCCCTGTATCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAGAAAGAGACAGCTAGACCTGGCTTTGAGGCAGTGGACGGCAACCCAGAAACTAACAAGTgtaagcagcatcttatattgttcttattctttttcttttttgtccttact Alignment from GeneWise ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctacctcaagtctgataatggtttttcatatctagGTGGTTAATGCCTTCCCTGTATCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAGAAAGAGACAGCTAGACCTGGCTTTGAGGCAGTGGACGGCAACCCAGAAACTAACAAGTgtaagcagcatcttatattgttcttattctttttcttttttgtccttact #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg tgattgatttcctgcccataagtcactgtgcaatctttcctcttccccagct---AGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACTGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGCagtaagggcccagtgtctatgactctaactgaactcccaacttcctcaaca Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg tactgattgatttcctgcccataagctgtgcaatctttcctcttccccagct---AGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACTGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGCagtaagggcccagtgtctatgactctaactgaactcccaacttcctcaaca Alignment from Spaln_aa2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG tgattgatttcctgcccataagtcactgtgcaatctttcctcttccccagCTAGAGCAACCAGTGAT---GGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACTGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGCAgtaagggcccagtgtctatgactctaactgaactcccaacttcctcaaca Alignment from Spaln_nt2Genome AGAGCAACC--AGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG tgattgatttcctgcccataagtcactgtgcaatctttcctcttccccagCTAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACTGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGCAgtaagggcccagtgtctatgactctaactgaactcccaacttcctcaaca Alignment from Pairagon CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG tgattgatttcctgcccataagtcactgtgcaatctttcctcttccccagCT---AGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACTGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGCAgtaagggcccagtgtctatgactctaactgaactcccaacttcctcaaca Alignment from Exonerate_protein2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG tgattgatttcctgcccataagtcactgtgcaatctttcctcttcccCAGCTAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACTGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGCAgtaagggcccagtgtctatgactctaactgaactcccaacttcctcaaca Alignment from Exonerate_coding2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG tgattgatttcctgcccataagtcactgtgcaatctttcctcttcccCAGCTAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACTGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGCAgtaagggcccagtgtctatgactctaactgaactcccaacttcctcaaca Alignment from GeneWise CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG tgattgatttcctgcccataagtcactgtgcaatctttcctcttccccagCT---AGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACTGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGCAgtaagggcccagtgtctatgactctaactgaactcccaacttcctcaaca #### Gbf1_ID9797_16 --> 2 - 0 Original Alignment ct------GACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG cagtaactgtacaaagattttgtgtgttgtatcttctatttattttgtagctCGGCAGGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAACTAATTGAAATTAAAAACAAAAAAAAGgtgagtgaattgaatccatacacacccccagtgtgtttagcaactgccca Alignment from CESAR ct------GACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG cagtaactgtacaaagattttgtgtgttgtatcttctatttattttgtagctCGGCAGGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAACTAATTGAAATTAAAAACAAAAAAAAGgtgagtgaattgaatccatacacacccccagtgtgtttagcaactgccca Alignment from Spaln_aa2Genome CT------GACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG cagtaactgtacaaagattttgtgtgttgtatcttctatttattttgtagCTCGGCAGGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAACTAATTGAAATTAAAAACAAAAAAAAGgtgagtgaattgaatccatacacacccccagtgtgtttagcaactgccca Alignment from Spaln_nt2Genome CT------GACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG cagtaactgtacaaagattttgtgtgttgtatcttctatttattttgtagCTCGGCAGGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAACTAATTGAAATTAAAAACAAAAAAAAGgtgagtgaattgaatccatacacacccccagtgtgtttagcaactgccca Alignment from Pairagon GACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG cagtaactgtacaaagattttgtgtgttgtatcttctatttattttgtagctcggcagGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAACTAATTGAAATTAAAAACAAAAAAAAGgtgagtgaattgaatccatacacacccccagtgtgtttagcaactgccca Alignment from Exonerate_protein2genome GACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG cagtaactgtacaaagattttgtgtgttgtatcttctatttattttgtagctcggcagGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAACTAATTGAAATTAAAAACAAAAAAAAGgtgagtgaattgaatccatacacacccccagtgtgtttagcaactgccca Alignment from Exonerate_coding2genome GACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG cagtaactgtacaaagattttgtgtgttgtatcttctatttattttgtagctcggcagGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAACTAATTGAAATTAAAAACAAAAAAAAGgtgagtgaattgaatccatacacacccccagtgtgtttagcaactgccca Alignment from GeneWise -----GCTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG cagtaactgtacaaagattttgtgtgttgtatcttctatttattttgtagCTCGGCAGGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAACTAATTGAAATTAAAAACAAAAAAAAGgtgagtgaattgaatccatacacacccccagtgtgtttagcaactgccca #### Gbf1_ID9800_19 --> 0 - 0 Original Alignment AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggacattaacacaaccctctctctgtgtctcacagAGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACC------gtaagctaagtcttgaaacagaagatccaatacagctttgaaagtgtcaa Alignment from CESAR AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggacattaacacaaccctctctctgtgtctcacagAGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACC------gtaagctaagtcttgaaacagaagatccaatacagctttgaaag Alignment from Spaln_aa2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACC ttagttgtcggaaaaggacattaacacaaccctctctctgtgtctcacagAGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCgtaagctaagtcttgaaacagaagatccaatacagctttgaaagtgtcaa Alignment from Spaln_nt2Genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACC ttagttgtcggaaaaggacattaacacaaccctctctctgtgtctcacagAGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCgtaagctaagtcttgaaacagaagatccaatacagctttgaaagtgtcaa Alignment from Pairagon AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACC ttagttgtcggaaaaggacattaacacaaccctctctctgtgtctcacagAGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCgtaagctaagtcttgaaacagaagatccaatacagctttgaaagtgtcaa Alignment from Exonerate_protein2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACC ttagttgtcggaaaaggacattaacacaaccctctctctgtgtctcacagAGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCgtaagctaagtcttgaaacagaagatccaatacagctttgaaagtgtcaa Alignment from Exonerate_coding2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACC ttagttgtcggaaaaggacattaacacaaccctctctctgtgtctcacagAGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCgtaagctaagtcttgaaacagaagatccaatacagctttgaaagtgtcaa Alignment from GeneWise AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggacattaacacaaccctctctctgtgtctcacagAGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATG------ACCgtaagctaagtcttgaaacagaagatccaatacagctttgaaagtgtcaa #### Gbf1_ID9803_22 --> 1 - 0 Original Alignment g---AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacttagtggcctttcagtgactgtttcctcttgccctttcatgttccaggGGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtgagttggaacaggaactgtgcttagaggagagtgaacctcagctgtgg Alignment from CESAR g---AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacttagtggcctttcagtgactgtttcctcttgccctttcatgttccaggGGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtgagttggaacaggaactgtgcttagaggagagtgaacctcagctgtgg Alignment from Spaln_aa2Genome GAAGTGTGCC---ATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacttagtggcctttcagtgactgtttcctcttgccctttcatgttccagGGGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtgagttggaacaggaactgtgcttagaggagagtgaacctcagctgtgg Alignment from Spaln_nt2Genome GGAAGTGTGCC--ATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacttagtggcctttcagtgactgtttcctcttgccctttcatgttccagGGGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtgagttggaacaggaactgtgcttagaggagagtgaacctcagctgtgg Alignment from Pairagon ---GAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacttagtggcctttcagtgactgtttcctcttgccctttcatgttccagGGGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtgagttggaacaggaactgtgcttagaggagagtgaacctcagctgtgg Alignment from Exonerate_protein2genome G---AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacttagtggcctttcagtgactgtttcctcttgccctttcatgttccagGGGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtgagttggaacaggaactgtgcttagaggagagtgaacctcagctgtgg Alignment from Exonerate_coding2genome G---AAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacttagtggcctttcagtgactgtttcctcttgccctttcatgttccagGGGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtgagttggaacaggaactgtgcttagaggagagtgaacctcagctgtgg Alignment from GeneWise -AGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAG gacttagtggcctttcagtgactgtttcctcttgccctttcatgttccagGGGGAAGTGTGCCATGATCTCCGCCCACTATGGCCTCAGCGATGTGTTTGACAATCTCATCATCTCTCTGTGCAAATTCACAGCTCTAAGTAGTGAGgtgagttggaacaggaactgtgcttagaggagagtgaacctcagctgtgg #### Gbf1_ID9805_24 --> 0 - 2 Original Alignment ---------GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACcg agtgctttcaatactgagccatttgccattttttttctgttttattccagATCGTTGCCGTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGCGAGGAGACACCATCCAACcggtaggcgcagaccagtcactaagagcctagagaaaagtagtagtcagaat Alignment from CESAR ---------GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACcg agtgctttcaatactgagccatttgccattttttttctgttttattccagATCGTTGCCGTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGCGAGGAGACACCATCCAACcggtaggcgcagaccagtcactaagagcctagagaaaagtagtagtcagaat Alignment from Spaln_aa2Genome AAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG agtgctttcaatactgagccatttgccattttttttctgttttattccagatcgttgccgtagAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGCGAGGAGACACCATCCAACCGgtaggcgcagaccagtcactaagagcctagagaaaagtagtagtcagaat Alignment from Spaln_nt2Genome GTAGAAGATTTT---------GTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG agtgctttcaatactgagccatttgccattttttttctgttttattccagATCGTTGCCGTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGCGAGGAGACACCATCCAACCGgtaggcgcagaccagtcactaagagcctagagaaaagtagtagtcagaat Alignment from Pairagon ---------GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG agtgctttcaatactgagccatttgccattttttttctgttttattccagATCGTTGCCGTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGCGAGGAGACACCATCCAACCGgtaggcgcagaccagtcactaagagcctagagaaaagtagtagtcagaat Alignment from Exonerate_protein2genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG agtgctttcaatactgagccatttgccattttttttctgttttattccagatcgttgccGTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGCGAGGAGACACCATCCAACCGgtaggcgcagaccagtcactaagagcctagagaaaagtagtagtcagaat Alignment from Exonerate_coding2genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG agtgctttcaatactgagccatttgccattttttttctgttttattccagatcgttgccGTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGCGAGGAGACACCATCCAACCGgtaggcgcagaccagtcactaagagcctagagaaaagtagtagtcagaat Alignment from GeneWise ---GTGGAGGTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCG agtgctttcaatactgagccatttgccattttttttctgttttattccagATCGTTGCCGTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGCGAGGAGACACCATCCAACCGgtaggcgcagaccagtcactaagagcctagagaaaagtagtagtcagaat #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG------ cctggcctttcttcctttgtcatggatctcccactgtctctcctccctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGCTCAAAgtaagttatgaagagacctgagaaaggcaacagggtggtcatgcagcctt Alignment from CESAR CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG------ cctggcctttcttcctttgtcatggatctcccactgtctctcctccctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGCTCAAAgtaagttatgaagagacctgagaaaggcaacagggtggtcatgcagcctt Alignment from Spaln_aa2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATG------AAG cctggcctttcttcctttgtcatggatctcccactgtctctcctccctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGCTCAAAgtaagttatgaagagacctgagaaaggcaacagggtggtcatgcagcctt Alignment from Spaln_nt2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG------ cctggcctttcttcctttgtcatggatctcccactgtctctcctccctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGCTCAAAgtaagttatgaagagacctgagaaaggcaacagggtggtcatgcagcctt Alignment from Pairagon CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG------ cctggcctttcttcctttgtcatggatctcccactgtctctcctccctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGCTCAAAgtaagttatgaagagacctgagaaaggcaacagggtggtcatgcagcctt Alignment from Exonerate_protein2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cctggcctttcttcctttgtcatggatctcccactgtctctcctccctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGctcaaagtaagttatgaagagacctgagaaaggcaacagggtggtcatgcagcctt Alignment from Exonerate_coding2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG cctggcctttcttcctttgtcatggatctcccactgtctctcctccctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGctcaaagtaagttatgaagagacctgagaaaggcaacagggtggtcatgcagcctt Alignment from GeneWise CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG------ cctggcctttcttcctttgtcatggatctcccactgtctctcctccctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGCTCAAAgtaagttatgaagagacctgagaaaggcaacagggtggtcatgcagcctt #### Gbf1_ID9808_27 --> 0 - 2 Original Alignment GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAAC---ag ctgttatgaaagagctcatggcttctaaggtctctcattgcttcccccagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTAGAAATGCTGCTAAGGATTGTGTTAGAGAACAGAaggtaagcgagggcaggtctgagaaccttataggcagaccccatactgaggt Alignment from CESAR GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAAC---ag ctgttatgaaagagctcatggcttctaaggtctctcattgcttcccccagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTAGAAATGCTGCTAAGGATTGTGTTAGAGAACAGAaggtaagcgagggcaggtctgagaaccttataggcagaccccatactgaggt Alignment from Spaln_aa2Genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAGG-- ctgttatgaaagagctcatggcttctaaggtctctcattgcttcccccagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTAGAAATGCTGCTAAGGATTGTGTTAGAGAACAGAAGgtaagcgagggcaggtctgagaaccttataggcagaccccatactgaggt Alignment from Spaln_nt2Genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAGG-- ctgttatgaaagagctcatggcttctaaggtctctcattgcttcccccagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTAGAAATGCTGCTAAGGATTGTGTTAGAGAACAGAAGgtaagcgagggcaggtctgagaaccttataggcagaccccatactgaggt Alignment from Pairagon GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAG--- ctgttatgaaagagctcatggcttctaaggtctctcattgcttcccccagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTAGAAATGCTGCTAAGGATTGTGTTAGAGAACAGAAGgtaagcgagggcaggtctgagaaccttataggcagaccccatactgaggt Alignment from Exonerate_protein2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAAC---AG ctgttatgaaagagctcatggcttctaaggtctctcattgcttcccccagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTAGAAATGCTGCTAAGGATTGTGTTAGAGAACAGAAGgtaagcgagggcaggtctgagaaccttataggcagaccccatactgaggt Alignment from Exonerate_coding2genome GCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAAC---AG ctgttatgaaagagctcatggcttctaaggtctctcattgcttcccccagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTAGAAATGCTGCTAAGGATTGTGTTAGAGAACAGAAGgtaagcgagggcaggtctgagaaccttataggcagaccccatactgaggt Alignment from GeneWise ---CTGGTCTCAGTGACACCAGATGAAGAGACATATGACGAAGAAGATGCTGCTTTCTGTCTAGAGATGCTGCTAAGGATCGTGTTAGAGAACAGG-- ctgttatgaaagagctcatggcttctaaggtctctcattgcttcccccagGCTCTGGTCTCAGTGACACCAGATGAAGAGACATATGATGAAGAAGATGCCGCTTTCTGTCTAGAAATGCTGCTAAGGATTGTGTTAGAGAACAGAAGgtaagcgagggcaggtctgagaaccttataggcagaccccatactgaggt #### Gbf1_ID9812_31 --> 0 - 1 Original Alignment ------GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTg gacgtctggctgggaattgggccccagctgtatcgcttgtctccatccagCGGGCCGTGGGGAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACATGACACTAAGTCCCTGCTTAAGTGTGTAGAGTCACTGTCCTTCATTGTCCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCTGTGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTggtaagttacctatgccaggggccattagggagtgggtcaagtgaggaggg Alignment from CESAR ------GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTg gacgtctggctgggaattgggccccagctgtatcgcttgtctccatccagCGGGCCGTGGGGAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACATGACACTAAGTCCCTGCTTAAGTGTGTAGAGTCACTGTCCTTCATTGTCCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCTGTGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTggtaagttacctatgccaggggccattagggagtgggtcaagtgaggaggg Alignment from Spaln_aa2Genome GTGGGGAAGGATGACATT------GATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG gacgtctggctgggaattgggccccagctgtatcgcttgtctccatccagCGGGCCGTGGGGAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACATGACACTAAGTCCCTGCTTAAGTGTGTAGAGTCACTGTCCTTCATTGTCCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCTGTGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTGgtaagttacctatgccaggggccattagggagtgggtcaagtgaggaggg Alignment from Spaln_nt2Genome GTGGGGAAGGA------TGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG gacgtctggctgggaattgggccccagctgtatcgcttgtctccatccagCGGGCCGTGGGGAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACATGACACTAAGTCCCTGCTTAAGTGTGTAGAGTCACTGTCCTTCATTGTCCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCTGTGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTGgtaagttacctatgccaggggccattagggagtgggtcaagtgaggaggg Alignment from Pairagon ------GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG gacgtctggctgggaattgggccccagctgtatcgcttgtctccatccagCGGGCCGTGGGGAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACATGACACTAAGTCCCTGCTTAAGTGTGTAGAGTCACTGTCCTTCATTGTCCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCTGTGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTGgtaagttacctatgccaggggccattagggagtgggtcaagtgaggaggg Alignment from Exonerate_protein2genome GTGGTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG gacgtctggctgggaattgggccccagctgtatcgcttgtctccatccagcggGCCGTGGGGAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACATGACACTAAGTCCCTGCTTAAGTGTGTAGAGTCACTGTCCTTCATTGTCCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCTGTGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTGgtaagttacctatgccaggggccattagggagtgggtcaagtgaggaggg Alignment from Exonerate_coding2genome GTGGTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG gacgtctggctgggaattgggccccagctgtatcgcttgtctccatccagcggGCCGTGGGGAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACATGACACTAAGTCCCTGCTTAAGTGTGTAGAGTCACTGTCCTTCATTGTCCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCTGTGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTGgtaagttacctatgccaggggccattagggagtgggtcaagtgaggaggg Alignment from GeneWise ------GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTG gacgtctggctgggaattgggccccagctgtatcgcttgtctccatccagCGGGCCGTGGGGAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACATGACACTAAGTCCCTGCTTAAGTGTGTAGAGTCACTGTCCTTCATTGTCCGAGATGCTGCCCACATCACGCCTGACAACTTTGAACTCTGTGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGTGgtaagttacctatgccaggggccattagggagtgggtcaagtgaggaggg #### Gbf1_ID9816_35 --> 0 - 0 Original Alignment GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG--------- cccaggcccaactggctgggctaatgtgcatctcctctgttcacatacagGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGTGCAGGAAGgtaaagctctccactctgcccccacctgtttgccccaaacctccttttcc Alignment from CESAR GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCA---------AAG cccaggcccaactggctgggctaatgtgcatctcctctgttcacatacagGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGTGCAGGAAGgtaaagctctccactctgcccccacctgtttgccccaaacctccttttcc Alignment from Spaln_aa2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG--------- cccaggcccaactggctgggctaatgtgcatctcctctgttcacatacagGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGTGCAGGAAGgtaaagctctccactctgcccccacctgtttgccccaaacctccttttcc Alignment from Spaln_nt2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAA cccaggcccaactggctgggctaatgtgcatctcctctgttcacatacagGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAgtgcaggaaggtaaagctctccactctgcccccacctgtttgccccaaacctccttttcc Alignment from Pairagon GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG--------- cccaggcccaactggctgggctaatgtgcatctcctctgttcacatacagGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGTGCAGGAAGgtaaagctctccactctgcccccacctgtttgccccaaacctccttttcc Alignment from Exonerate_protein2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccaggcccaactggctgggctaatgtgcatctcctctgttcacatacagGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGtgcaggaaggtaaagctctccactctgcccccacctgtttgccccaaacctccttttcc Alignment from Exonerate_coding2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccaggcccaactggctgggctaatgtgcatctcctctgttcacatacagGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGtgcaggaaggtaaagctctccactctgcccccacctgtttgccccaaacctccttttcc Alignment from GeneWise GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG--------- cccaggcccaactggctgggctaatgtgcatctcctctgttcacatacagGTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGTGCAGGAAGgtaaagctctccactctgcccccacctgtttgccccaaacctccttttcc #### Gbf1_ID9817_36 --> 0 - 0 Original Alignment GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- aaggttcctctactacccttgactatcacgaatttgtgctcctctcgcagGTCTTCCTGCAGCATCTGTCTCCATTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTCACgtattttctgccttgggccagttccgattgaccacttcttcttgcacaca Alignment from CESAR GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- aaggttcctctactacccttgactatcacgaatttgtgctcctctcgcagGTCTTCCTGCAGCATCTGTCTCCATTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTCACgtattttctgccttgggccagttccgattgaccacttcttcttgcacaca Alignment from Spaln_aa2Genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- aaggttcctctactacccttgactatcacgaatttgtgctcctctcgcagGTCTTCCTGCAGCATCTGTCTCCATTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTCACgtattttctgccttgggccagttccgattgaccacttcttcttgcacaca Alignment from Spaln_nt2Genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- aaggttcctctactacccttgactatcacgaatttgtgctcctctcgcagGTCTTCCTGCAGCATCTGTCTCCATTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTCACgtattttctgccttgggccagttccgattgaccacttcttcttgcacaca Alignment from Pairagon GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCT------------------------------------------------------ aaggttcctctactacccttgactatcacgaatttgtgctcctctcgcagGTCTTCCTGCAGCATCTGTCTCCATTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTCACGTATTTTCTGCCTTGGGCCAGTTCCGATTGACCACTTCTTCTTGCACACA Alignment from Exonerate_protein2genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- aaggttcctctactacccttgactatcacgaatttgtgctcctctcgcagGTCTTCCTGCAGCATCTGTCTCCATTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTCACgtattttctgccttgggccagttccgattgaccacttcttcttgcacaca Alignment from Exonerate_coding2genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- aaggttcctctactacccttgactatcacgaatttgtgctcctctcgcagGTCTTCCTGCAGCATCTGTCTCCATTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTCACgtattttctgccttgggccagttccgattgaccacttcttcttgcacaca Alignment from GeneWise GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTGTCA aaggttcctctactacccttgactatcacgaatttgtgctcctctcgcagGTCTTCCTGCAGCATCTGTCTCCATTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTCACgtattttctgccttgggccagttccgattgaccacttcttcttgcacaca #### Got1_ID8751_4 --> 2 - 0 Original Alignment agAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG tgtgccaccttgcctaataggcaccagccgcacgctgctcttctctccagagAACCATAATGCTGTGTTTTCTGCTGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTTCTGAATGATCTG---gtaagtagtgatacagaagagcagtggagaattctgtttaggtgcagcaa Alignment from CESAR agAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG tgtgccaccttgcctaataggcaccagccgcacgctgctcttctctccagagAACCATAATGCTGTGTTTTCTGCTGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTTCTGAATGATCTG---gtaagtagtgatacagaagagcagtggagaattctgtttaggtgcag Alignment from Spaln_aa2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTG tgtgccaccttgcctaataggcaccagccgcacgctgctcttctctccagAGAACCATAATGCTGTGTTTTCTGCTGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTTCTGAATGATCTGgtaagtagtgatacagaagagcagtggagaattctgtttaggtgcagcaa Alignment from Spaln_nt2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGG-AG tgtgccaccttgcctaataggcaccagccgcacgctgctcttctctccagAGAACCATAATGCTGTGTTTTCTGCTGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTTCTGAATGATCTGGTAAgtagtgatacagaagagcagtggagaattctgtttaggtgcagcaa Alignment from Pairagon AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTG tgtgccaccttgcctaataggcaccagccgcacgctgctcttctctccagAGAACCATAATGCTGTGTTTTCTGCTGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTTCTGAATGATCTGgtaagtagtgatacagaagagcagtggagaattctgtttaggtgcagcaa Alignment from Exonerate_protein2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTG tgtgccaccttgcctaataggcaccagccgcacgctgctcttctctccagAGAACCATAATGCTGTGTTTTCTGCTGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTTCTGAATGATCTGgtaagtagtgatacagaagagcagtggagaattctgtttaggtgcagcaa Alignment from Exonerate_coding2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTG tgtgccaccttgcctaataggcaccagccgcacgctgctcttctctccagAGAACCATAATGCTGTGTTTTCTGCTGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTTCTGAATGATCTGgtaagtagtgatacagaagagcagtggagaattctgtttaggtgcagcaa Alignment from GeneWise AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTG tgtgccaccttgcctaataggcaccagccgcacgctgctcttctctccagAGAACCATAATGCTGTGTTTTCTGCTGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTTCTGAATGATCTGgtaagtagtgatacagaagagcagtggagaattctgtttaggtgcagcaa #### Gpha2_ID1505_2 --> 2 - 0 Original Alignment ccTTCAATGTGACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG------ gtaacccagccagcacggccttcatcagcatcttgcactttgaaccctagcgTTCAATGTGGCAGTGCGCAGTGACCGCCTCGGCACTTGTCAGGGATCCCATGTGGCACAGGCCTGTGTAGGTCACTGTGAGTCCAGTGCTTTCCCCTCCCGGTACTCTGTGCTGGTGGTCAGTGGCTATCGGCACAACATTACGTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAGGGGGGAgtacagggcctgggcctgatggagctgcagatggggacccaggggcctga Alignment from CESAR ccTTCAATGTGACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG------ gtaacccagccagcacggccttcatcagcatcttgcactttgaaccctagcgTTCAATGTGGCAGTGCGCAGTGACCGCCTCGGCACTTGTCAGGGATCCCATGTGGCACAGGCCTGTGTAGGTCACTGTGAGTCCAGTGCTTTCCCCTCCCGGTACTCTGTGCTGGTGGTCAGTGGCTATCGGCACAACATTACGTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAGGGGGGAgtacagggcctgggcctgatggagctgcagatggggacccaggggcctga Alignment from Spaln_aa2Genome CCTTCAATGTGACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG------ gtaacccagccagcacggccttcatcagcatcttgcactttgaaccctagCGTTCAATGTGGCAGTGCGCAGTGACCGCCTCGGCACTTGTCAGGGATCCCATGTGGCACAGGCCTGTGTAGGTCACTGTGAGTCCAGTGCTTTCCCCTCCCGGTACTCTGTGCTGGTGGTCAGTGGCTATCGGCACAACATTACGTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAGGGGGGAgtacagggcctgggcctgatggagctgcagatggggacccaggggcctga Alignment from Spaln_nt2Genome CCTTCAATGTGACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG------ gtaacccagccagcacggccttcatcagcatcttgcactttgaaccctagCGTTCAATGTGGCAGTGCGCAGTGACCGCCTCGGCACTTGTCAGGGATCCCATGTGGCACAGGCCTGTGTAGGTCACTGTGAGTCCAGTGCTTTCCCCTCCCGGTACTCTGTGCTGGTGGTCAGTGGCTATCGGCACAACATTACGTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAGGGGGGAgtacagggcctgggcctgatggagctgcagatggggacccaggggcctga Alignment from Pairagon CCTTCAATGTGACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG------ gtaacccagccagcacggccttcatcagcatcttgcactttgaaccctagCGTTCAATGTGGCAGTGCGCAGTGACCGCCTCGGCACTTGTCAGGGATCCCATGTGGCACAGGCCTGTGTAGGTCACTGTGAGTCCAGTGCTTTCCCCTCCCGGTACTCTGTGCTGGTGGTCAGTGGCTATCGGCACAACATTACGTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAGGGGGGAgtacagggcctgggcctgatggagctgcagatggggacccaggggcctga Alignment from Exonerate_protein2genome CCTTCAATGTGACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG gtaacccagccagcacggccttcatcagcatcttgcactttgaaccctagCGTTCAATGTGGCAGTGCGCAGTGACCGCCTCGGCACTTGTCAGGGATCCCATGTGGCACAGGCCTGTGTAGGTCACTGTGAGTCCAGTGCTTTCCCCTCCCGGTACTCTGTGCTGGTGGTCAGTGGCTATCGGCACAACATTACGTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAGgggggagtacagggcctgggcctgatggagctgcagatggggacccaggggcctga Alignment from Exonerate_coding2genome CCTTCAATGTGACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG gtaacccagccagcacggccttcatcagcatcttgcactttgaaccctagCGTTCAATGTGGCAGTGCGCAGTGACCGCCTCGGCACTTGTCAGGGATCCCATGTGGCACAGGCCTGTGTAGGTCACTGTGAGTCCAGTGCTTTCCCCTCCCGGTACTCTGTGCTGGTGGTCAGTGGCTATCGGCACAACATTACGTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAGgggggagtacagggcctgggcctgatggagctgcagatggggacccaggggcctga Alignment from GeneWise CCTTCAATGTGACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG------ gtaacccagccagcacggccttcatcagcatcttgcactttgaaccctagCGTTCAATGTGGCAGTGCGCAGTGACCGCCTCGGCACTTGTCAGGGATCCCATGTGGCACAGGCCTGTGTAGGTCACTGTGAGTCCAGTGCTTTCCCCTCCCGGTACTCTGTGCTGGTGGTCAGTGGCTATCGGCACAACATTACGTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAGGGGGGAgtacagggcctgggcctgatggagctgcagatggggacccaggggcctga #### Gpr137_ID1886_5 --> 0 - 0 Original Alignment GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG------ ctgccatcagcctctgtgttggcagaattatgaatttaattttatttcagGCAGATCTGGTGAATGACCTAGGGAACAAAGGTTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTGGATGAAgtgagaacccctgcccaacctcctcttggtgcagtatagaggtctggacc Alignment from CESAR GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG------ ctgccatcagcctctgtgttggcagaattatgaatttaattttatttcagGCAGATCTGGTGAATGACCTAGGGAACAAAGGTTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTGGATGAAgtgagaacccctgcccaacctcctcttggtgcagtatagaggtctggacc Alignment from Spaln_aa2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG------ ctgccatcagcctctgtgttggcagaattatgaatttaattttatttcagGCAGATCTGGTGAATGACCTAGGGAACAAAGGTTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTGGATGAAgtgagaacccctgcccaacctcctcttggtgcagtatagaggtctggacc Alignment from Spaln_nt2Genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG------ ctgccatcagcctctgtgttggcagaattatgaatttaattttatttcagGCAGATCTGGTGAATGACCTAGGGAACAAAGGTTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTGGATGAAgtgagaacccctgcccaacctcctcttggtgcagtatagaggtctggacc Alignment from Pairagon GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG------ ctgccatcagcctctgtgttggcagaattatgaatttaattttatttcagGCAGATCTGGTGAATGACCTAGGGAACAAAGGTTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTGGATGAAgtgagaacccctgcccaacctcctcttggtgcagtatagaggtctggacc Alignment from Exonerate_protein2genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgccatcagcctctgtgttggcagaattatgaatttaattttatttcagGCAGATCTGGTGAATGACCTAGGGAACAAAGGTTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTGgatgaagtgagaacccctgcccaacctcctcttggtgcagtatagaggtctggacc Alignment from Exonerate_coding2genome GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG ctgccatcagcctctgtgttggcagaattatgaatttaattttatttcagGCAGATCTGGTGAATGACCTAGGGAACAAAGGTTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTGgatgaagtgagaacccctgcccaacctcctcttggtgcagtatagaggtctggacc Alignment from GeneWise GCAGATCTGGTGAATGACCTAGGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG------ ctgccatcagcctctgtgttggcagaattatgaatttaattttatttcagGCAGATCTGGTGAATGACCTAGGGAACAAAGGTTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTGGATGAAgtgagaacccctgcccaacctcctcttggtgcagtatagaggtctggacc #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG gaggcctgagggcatccgtggtctgaggtttgcgctccccttcttttcaggCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTGGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAAGGACAGCCCTGGATCCTTCTGCTGGTGCGCGTCCTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTCTCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACCAGCATCTATTTAGAGGCC---gtaggtaggccacccaaccttgatgtggcacccttgggtccttggacaga Alignment from CESAR gCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG gaggcctgagggcatccgtggtctgaggtttgcgctccccttcttttcaggCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTGGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAAGGACAGCCCTGGATCCTTCTGCTGGTGCGCGTCCTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTCTCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACCAGCATCTATTTAGAGGCC---gtaggtaggccacccaaccttgatgtggcacccttgggtccttggac Alignment from Spaln_aa2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCC gaggcctgagggcatccgtggtctgaggtttgcgctccccttcttttcagGCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTGGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAAGGACAGCCCTGGATCCTTCTGCTGGTGCGCGTCCTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTCTCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACCAGCATCTATTTAGAGGCCgtaggtaggccacccaaccttgatgtggcacccttgggtccttggacaga Alignment from Spaln_nt2Genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCA-AG gaggcctgagggcatccgtggtctgaggtttgcgctccccttcttttcagGCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTGGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAAGGACAGCCCTGGATCCTTCTGCTGGTGCGCGTCCTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTCTCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACCAGCATCTATTTAGAGGCCGTAGgtaggccacccaaccttgatgtggcacccttgggtccttggacaga Alignment from Pairagon GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCC gaggcctgagggcatccgtggtctgaggtttgcgctccccttcttttcagGCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTGGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAAGGACAGCCCTGGATCCTTCTGCTGGTGCGCGTCCTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTCTCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACCAGCATCTATTTAGAGGCCgtaggtaggccacccaaccttgatgtggcacccttgggtccttggacaga Alignment from Exonerate_protein2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAGG gaggcctgagggcatccgtggtctgaggtttgcgctccccttcttttcagGCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTGGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAAGGACAGCCCTGGATCCTTCTGCTGGTGCGCGTCCTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTCTCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACCAGCATCTATTTAGAGGCCGTAGgtaggccacccaaccttgatgtggcacccttgggtccttggacaga Alignment from Exonerate_coding2genome GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAGG gaggcctgagggcatccgtggtctgaggtttgcgctccccttcttttcagGCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTGGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAAGGACAGCCCTGGATCCTTCTGCTGGTGCGCGTCCTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTCTCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACCAGCATCTATTTAGAGGCCGTAGgtaggccacccaaccttgatgtggcacccttgggtccttggacaga Alignment from GeneWise GCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG gaggcctgagggcatccgtggtctgaggtttgcgctccccttcttttcagGCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTGGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAAGGACAGCCCTGGATCCTTCTGCTGGTGCGCGTCCTGGTGAGTGACTCTCTCTTTGTCATCTGTGCCCTCTCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACCAGCATCTATTTAGAG---GCCgtaggtaggccacccaaccttgatgtggcacccttgggtccttggacaga #### Gpr137_ID1889_2 --> 0 - 2 Original Alignment ------GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt agggcaatctcactggtccaaagaaggtaaatatcttttctcattttcagTCTGTGGTGGTGTTCAAGGCCAAGGCGAGGCGTCGGCCAGAGATGAGCCGAGGCttgtgagtactggaagtatcaatgggtcattggcagtgaggaagcccacccc Alignment from CESAR ------GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt agggcaatctcactggtccaaagaaggtaaatatcttttctcattttcagTCTGTGGTGGTGTTCAAGGCCAAGGCGAGGCGTCGGCCAGAGATGAGCCGAGGCttgtgagtactggaagtatcaatgggtcattggcagtgaggaagcccacccc Alignment from Spaln_aa2Genome GTGGTGTTCAAG------GCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT agggcaatctcactggtccaaagaaggtaaatatcttttctcattttcagTCTGTGGTGGTGTTCAAGGCCAAGGCGAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtgagtactggaagtatcaatgggtcattggcagtgaggaagcccacccc Alignment from Spaln_nt2Genome GGTGGTGTTCAAG-----GCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT agggcaatctcactggtccaaagaaggtaaatatcttttctcattttcagTCTGTGGTGGTGTTCAAGGCCAAGGCGAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtgagtactggaagtatcaatgggtcattggcagtgaggaagcccacccc Alignment from Pairagon ------GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT agggcaatctcactggtccaaagaaggtaaatatcttttctcattttcagTCTGTGGTGGTGTTCAAGGCCAAGGCGAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtgagtactggaagtatcaatgggtcattggcagtgaggaagcccacccc Alignment from Exonerate_protein2genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT agggcaatctcactggtccaaagaaggtaaatatcttttctcattttcagtctgtgGTGGTGTTCAAGGCCAAGGCGAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtgagtactggaagtatcaatgggtcattggcagtgaggaagcccacccc Alignment from Exonerate_coding2genome GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT agggcaatctcactggtccaaagaaggtaaatatcttttctcattttcagtctgtgGTGGTGTTCAAGGCCAAGGCGAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtgagtactggaagtatcaatgggtcattggcagtgaggaagcccacccc Alignment from GeneWise ------GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT agggcaatctcactggtccaaagaaggtaaatatcttttctcattttcagTCTGTGGTGGTGTTCAAGGCCAAGGCGAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtgagtactggaagtatcaatgggtcattggcagtgaggaagcccacccc #### Hif1an_ID9068_6 --> 1 - 0 Original Alignment gTGGCACCATATAGAGTCATTACTAAATGGGGGAATTACCATCACTGTGAACTTCTGGTATAAG ccacccctccctccaattatcattgggtcacaggtctgtcctcttcctagg---------ATAGAGTCATTACTAAATGGGGGAATTACTATCACTGTGAACTTCTGGTATAAGgtgagtattagtgaattgttgttgtttttgtcgttattgatatgtacaca Alignment from CESAR gTGGCACCATATAGAGTCATTACTAAATGGGGGAATTACCATCACTGTGAACTTCTGGTATAAG gggccctccccacccctccctccaaggtcacaggtctgtcctcttcctagg---------ATAGAGTCATTACTAAATGGGGGAATTACTATCACTGTGAACTTCTGGTATAAGgtgagtattagtgaattgttgttgtttttgtcgttattgatatgtacaca Alignment from Spaln_aa2Genome GTGGCACCATATAGAGTCATTACTAAATGGGGGAATTACCATCACTGTGAACTTCTGGTATAAG ccacccctccctccaattatcattgggtcacaggtctgtcctcttcctagG---------ATAGAGTCATTACTAAATGGGGGAATTACTATCACTGTGAACTTCTGGTATAAGgtgagtattagtgaattgttgttgtttttgtcgttattgatatgtacaca Alignment from Spaln_nt2Genome TATAGAGTCATTACTAAATGGGGGAATTACCATCACTGTGAACTTCTGGTATAAG ccacccctccctccaattatcattgggtcacaggtctgtcctcttcctagGATAGAGTCATTACTAAATGGGGGAATTACTATCACTGTGAACTTCTGGTATAAGgtgagtattagtgaattgttgttgtttttgtcgttattgatatgtacaca Alignment from Pairagon GTGGCACCATATAGAGTCATTACTAAATGGGGGAATTACCATCACTGTGAACTTCTGGTATAAG ccacccctccctccaattatcattgggtcacaggtctgtcctcttcctagG---------ATAGAGTCATTACTAAATGGGGGAATTACTATCACTGTGAACTTCTGGTATAAGgtgagtattagtgaattgttgttgtttttgtcgttattgatatgtacaca Alignment from Exonerate_protein2genome TATAGAGTCATTACTAAATGGGGGAATTACCATCACTGTGAACTTCTGGTATAAG ccacccctccctccaattatcattgggtcacaggtctgtcctcttcctagGATAGAGTCATTACTAAATGGGGGAATTACTATCACTGTGAACTTCTGGTATAAGgtgagtattagtgaattgttgttgtttttgtcgttattgatatgtacaca Alignment from Exonerate_coding2genome TATAGAGTCATTACTAAATGGGGGAATTACCATCACTGTGAACTTCTGGTATAAG ccacccctccctccaattatcattgggtcacaggtctgtcctcttcctagGATAGAGTCATTACTAAATGGGGGAATTACTATCACTGTGAACTTCTGGTATAAGgtgagtattagtgaattgttgttgtttttgtcgttattgatatgtacaca Alignment from GeneWise GTGGCACCATATAGAGTCATTACTAAATGGGGGAATTACCATCACTGTGAACTTCTGGTATAAG ccacccctccctccaattatcattgggtcacaggtctgtcctcttcctagG---------ATAGAGTCATTACTAAATGGGGGAATTACTATCACTGTGAACTTCTGGTATAAGgtgagtattagtgaattgttgttgtttttgtcgttattgatatgtacaca #### Hnrnpul2_ID2399_3 --> 1 - 1 Original Alignment cTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACG---------t cagacaaaggaaaagttttggttatgttgaatgtatatcctctttgatagcTCGAAGTCCCCACCACCTCCAGAGGAAGAAGCAAAAGATGAAGAGGAGGCCCAGACACTTGTGAACCTGGACACACTGAGTCAGtgtgaggataaggattgctttgtgttttcagatagggctttgttgtgtttt Alignment from CESAR cTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACG---t cagacaaaggaaaagttttggttatgttgaatgtatatcctctttgatagcTCGAAGTCCCCACCACCTCCAGAGGAAGAAGCAAAAGATGAAGAGGAGGCCCAGACACTTGTGAACCTGGACACACTGagtcagtgtgaggataaggattgctttgtgttttcagatagggctttgttgtgtttt Alignment from Spaln_aa2Genome CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACG---------T cagacaaaggaaaagttttggttatgttgaatgtatatcctctttgatagCTCGAAGTCCCCACCACCTCCAGAGGAAGAAGCAAAAGATGAAGAGGAGGCCCAGACACTTGTGAACCTGGACACACTGAGTCAGTgtgaggataaggattgctttgtgttttcagatagggctttgttgtgtttt Alignment from Spaln_nt2Genome CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACAC---GT cagacaaaggaaaagttttggttatgttgaatgtatatcctctttgatagCTCGAAGTCCCCACCACCTCCAGAGGAAGAAGCAAAAGATGAAGAGGAGGCCCAGACACTTGTGAACCTGGACACACTGAgtcagtgtgaggataaggattgctttgtgttttcagatagggctttgttgtgtttt Alignment from Pairagon CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACAC---------GT cagacaaaggaaaagttttggttatgttgaatgtatatcctctttgatagCTCGAAGTCCCCACCACCTCCAGAGGAAGAAGCAAAAGATGAAGAGGAGGCCCAGACACTTGTGAACCTGGACACACTGAGTCAGTgtgaggataaggattgctttgtgttttcagatagggctttgttgtgtttt Alignment from Exonerate_protein2genome CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACG---T cagacaaaggaaaagttttggttatgttgaatgtatatcctctttgatagCTCGAAGTCCCCACCACCTCCAGAGGAAGAAGCAAAAGATGAAGAGGAGGCCCAGACACTTGTGAACCTGGACACACTGAgtcagtgtgaggataaggattgctttgtgttttcagatagggctttgttgtgtttt Alignment from Exonerate_coding2genome CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACG---T cagacaaaggaaaagttttggttatgttgaatgtatatcctctttgatagCTCGAAGTCCCCACCACCTCCAGAGGAAGAAGCAAAAGATGAAGAGGAGGCCCAGACACTTGTGAACCTGGACACACTGAgtcagtgtgaggataaggattgctttgtgttttcagatagggctttgttgtgtttt Alignment from GeneWise CTCAAAGTCCCCACCACCTCCAGAAGAAGAAGCAAAAGATGAAGAGGAGGACCAGACGCTTGTGAACCTGGACACGTAT- cagacaaaggaaaagttttggttatgttgaatgtatatcctctttgatagCTCGAAGTCCCCACCACCTCCAGAGGAAGAAGCAAAAGATGAAGAGGAGGCCCAGACACTTGTGAACCTGGACACACTGAgtcagtgtgaggataaggattgctttgtgttttcagatagggctttgttgtgtttt #### Hnrnpul2_ID2401_5 --> 0 - 1 Original Alignment GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTg tgtacctgcatttatcatagatctaagatctgacagcctctcccctacagGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGT---------ggtatagtgattgagtcagttttgtaacttcttgtttgtgctttttaccat Alignment from CESAR GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTg tgtacctgcatttatcatagatctaagatctgacagcctctcccctacagGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGT---------ggtatagtgattgagtcagttttgtaacttcttgtttgtgctttttaccat Alignment from Spaln_aa2Genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGT- tgtacctgcatttatcatagatctaagatctgacagcctctcccctacagGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTGgtatagtgattgagtcagttttgtaacttcttgtttgtgctttttaccat Alignment from Spaln_nt2Genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTC---ACAGCTTG- tgtacctgcatttatcatagatctaagatctgacagcctctcccctacagGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTGGTATAGTGATTGAgtcagttttgtaacttcttgtttgtgctttttaccat Alignment from Pairagon GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTG---------------------------------------------------- tgtacctgcatttatcatagatctaagatctgacagcctctcccctacagGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTGGTATAGTGATTGAGTCAGTTTTGTAACTTCTTGTTTGTGCTTTTTACCAT Alignment from Exonerate_protein2genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTG tgtacctgcatttatcatagatctaagatctgacagcctctcccctacagGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTGGTATAGTGAttgagtcagttttgtaacttcttgtttgtgctttttaccat Alignment from Exonerate_coding2genome GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTTCACAGCTTG tgtacctgcatttatcatagatctaagatctgacagcctctcccctacagGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTGGTATAGTGAttgagtcagttttgtaacttcttgtttgtgctttttaccat Alignment from GeneWise GTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTT tgtacctgcatttatcatagatctaagatctgacagcctctcccctacagGTAACTCAGAATCTCCCAATGAAAGAAGGCTGCACAGAAGTCTCTCTCCTTAGAGTTGGGTGGTCTGTTGATTTTTCCTGTGgtatagtgattgagtcagttttgtaacttcttgtttgtgctttttaccat #### Hoga1_ID8380_3 --> 2 - 0 Original Alignment ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG gcactgactgagtactgctttgttataaactgatggagcatgccgcttagcc------GCTACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGCGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtaagtgggaatggtgggtgtggactaaaggtcaggattgacagagatgg Alignment from CESAR ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggggtgcactgactgagtactgcttaaactgatggagcatgccgcttagcc------GCTACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGCGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtaagtgggaatggtgggtgtggactaaaggtcaggattgacagagatgg Alignment from Spaln_aa2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG gcactgactgagtactgctttgttataaactgatggagcatgccgcttagCC------GCTACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGCGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtaagtgggaatggtgggtgtggactaaaggtcaggattgacagagatgg Alignment from Spaln_nt2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG gcactgactgagtactgctttgttataaactgatggagcatgccgcttagCC------GCTACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGCGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtaagtgggaatggtgggtgtggactaaaggtcaggattgacagagatgg Alignment from Pairagon CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG gcactgactgagtactgctttgttataaactgatggagcatgccgcttagCC------GCTACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGCGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtaagtgggaatggtgggtgtggactaaaggtcaggattgacagagatgg Alignment from Exonerate_protein2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG gcactgactgagtactgctttgttataaactgatggagcatgccgcttagCC------GCTACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGCGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtaagtgggaatggtgggtgtggactaaaggtcaggattgacagagatgg Alignment from Exonerate_coding2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG gcactgactgagtactgctttgttataaactgatggagcatgccgcttagCC------GCTACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGCGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtaagtgggaatggtgggtgtggactaaaggtcaggattgacagagatgg Alignment from GeneWise -----TCCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG gcactgactgagtactgctttgttataaactgatggagCATGCCGCTTAGCCGCTACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGCGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtaagtgggaatggtgggtgtggactaaaggtcaggattgacagagatgg #### Hps1_ID8614_14 --> 1 - 2 Original Alignment gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGtc gctcatgaacagctgcttagccctcattctaactttggctatgcttgtagg---------CTGGACTGGAAGGACTTCTTGCTGGTGAAGAGCCGGAGAAATGTCACCATGGTTtcgtaatttctgcctgatgtatccagaggctagacatgtgtgtcccaccatg Alignment from CESAR gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGtc gtggtcagggctcatgaacagctgcattctaactttggctatgcttgtagg---------CTGGACTGGAAGGACTTCTTGCTGGTGAAGAGCCGGAGAAATGTCACCATGGTTtcgtaatttctgcctgatgtatccagaggctagacatgtgtgtcccaccatg Alignment from Spaln_aa2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gctcatgaacagctgcttagccctcattctaactttggctatgcttgtagG---------CTGGACTGGAAGGACTTCTTGCTGGTGAAGAGCCGGAGAAATGTCACCATGGTTTCgtaatttctgcctgatgtatccagaggctagacatgtgtgtcccaccatg Alignment from Spaln_nt2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gctcatgaacagctgcttagccctcattctaactttggctatgcttgtagG---------CTGGACTGGAAGGACTTCTTGCTGGTGAAGAGCCGGAGAAATGTCACCATGGTTTCgtaatttctgcctgatgtatccagaggctagacatgtgtgtcccaccatg Alignment from Pairagon GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gctcatgaacagctgcttagccctcattctaactttggctatgcttgtagG---------CTGGACTGGAAGGACTTCTTGCTGGTGAAGAGCCGGAGAAATGTCACCATGGTTTCgtaatttctgcctgatgtatccagaggctagacatgtgtgtcccaccatg Alignment from Exonerate_protein2genome TCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gctcatgaacagctgcttagccctcattctaactttggctatgcttgtagGCTGGACTGGAAGGACTTCTTGCTGGTGAAGAGCCGGAGAAATGTCACCATGGTTTCgtaatttctgcctgatgtatccagaggctagacatgtgtgtcccaccatg Alignment from Exonerate_coding2genome TCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gctcatgaacagctgcttagccctcattctaactttggctatgcttgtagGCTGGACTGGAAGGACTTCTTGCTGGTGAAGAGCCGGAGAAATGTCACCATGGTTTCgtaatttctgcctgatgtatccagaggctagacatgtgtgtcccaccatg Alignment from GeneWise GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gctcatgaacagctgcttagccctcattctaactttggctatgcttgtagG---------CTGGACTGGAAGGACTTCTTGCTGGTGAAGAGCCGGAGAAATGTCACCATGGTTTCgtaatttctgcctgatgtatccagaggctagacatgtgtgtcccaccatg #### Hps1_ID8615_13 --> 1 - 2 Original Alignment gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa gggagctctatgtatctgaagactgttgactgagcagcctgcatctttagg---------------GGAAAGCTGAAGCGACAGCTGTGTATCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCACACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTTATGaagtaagtgtgccatgcttgaggaagagataggtggtcagggctcatgaaca Alignment from CESAR gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa ccttcctgtgtggtggggagctctattgactgagcagcctgcatctttagg---------------GGAAAGCTGAAGCGACAGCTGTGTATCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCACACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTTATGaagtaagtgtgccatgcttgaggaagagataggtggtcagggctcatgaaca Alignment from Spaln_aa2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gggagctctatgtatctgaagactgttgactgagcagcctgcatctttagG---------------GGAAAGCTGAAGCGACAGCTGTGTATCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCACACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTTATGAAgtaagtgtgccatgcttgaggaagagataggtggtcagggctcatgaaca Alignment from Spaln_nt2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gagctctatgtatctgaagactgttgactgagcagCCTGCATC--TTTAGGGGAAAGCTGAAGCGACAGCTGTGTATCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCACACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTTATGAAgtaagtgtgccatgcttgaggaagagataggtggtcagggctcatgaaca Alignment from Pairagon GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gggagctctatgtatctgaagactgttgactgagcagcctgcatctttagG---------------GGAAAGCTGAAGCGACAGCTGTGTATCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCACACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTTATGAAgtaagtgtgccatgcttgaggaagagataggtggtcagggctcatgaaca Alignment from Exonerate_protein2genome TGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gggagctctatgtatctgaagactgttgactgagcagcctgcatctttagGGGAAAGCTGAAGCGACAGCTGTGTATCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCACACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTTATGAAgtaagtgtgccatgcttgaggaagagataggtggtcagggctcatgaaca Alignment from Exonerate_coding2genome TGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gggagctctatgtatctgaagactgttgactgagcagcctgcatctttagGGGAAAGCTGAAGCGACAGCTGTGTATCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCACACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTTATGAAgtaagtgtgccatgcttgaggaagagataggtggtcagggctcatgaaca Alignment from GeneWise GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gggagctctatgtatctgaagactgttgactgagcagcctgcatctttagG---------------GGAAAGCTGAAGCGACAGCTGTGTATCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCACACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTTATGAAgtaagtgtgccatgcttgaggaagagataggtggtcagggctcatgaaca #### Il33_ID6362_5 --> 2 - 1 Original Alignment acCAGGTGCTACTACGCTACTATGAGTCTCCCTGTCCTGCAAGTCAATCA---g aacttggtagacttttcttttttaaaccagtaccttagcaccatcctcagacCAGGTGCTGCTATGCTACTATGAGTCACCCTGTCCTGCAAGTCAATCGCTGggtaagttaagaggcagcaggagagaatggtgtttgtgttcttatccggaa Alignment from CESAR acCAGGTGCTACTACGCTACTATGAGTCTCCCTGTCCTGCAAGTCAATCA---g aacttggtagacttttcttttttaaaccagtaccttagcaccatcctcagacCAGGTGCTGCTATGCTACTATGAGTCACCCTGTCCTGCAAGTCAATCGCTGggtaagttaagaggcagcaggagagaatggtgtttgtgttcttatccggaa Alignment from Spaln_aa2Genome ACCAGGTGCTACTACGCTACTATGAGTCTCCCTGTCCTGCAAGTCAATCA---G aacttggtagacttttcttttttaaaccagtaccttagcaccatcctcagACCAGGTGCTGCTATGCTACTATGAGTCACCCTGTCCTGCAAGTCAATCGCTGGgtaagttaagaggcagcaggagagaatggtgtttgtgttcttatccggaa Alignment from Spaln_nt2Genome ACCAGGTGCTACTACGCTACTATGAGTCTCCCTGTCCTGCAAGTCAATCA---G aacttggtagacttttcttttttaaaccagtaccttagcaccatcctcagACCAGGTGCTGCTATGCTACTATGAGTCACCCTGTCCTGCAAGTCAATCGCTGGgtaagttaagaggcagcaggagagaatggtgtttgtgttcttatccggaa Alignment from Pairagon ACCAGGTGCTACTACGCTACTATGAGTCTCCCTGTCCTGCAAGTCAATC---AG aacttggtagacttttcttttttaaaccagtaccttagcaccatcctcagACCAGGTGCTGCTATGCTACTATGAGTCACCCTGTCCTGCAAGTCAATCGCTGGgtaagttaagaggcagcaggagagaatggtgtttgtgttcttatccggaa Alignment from Exonerate_protein2genome ACCAGGTGCTACTACGCTACTATGAGTCTCCCTGTCCTGCAAGTCAATCA---G aacttggtagacttttcttttttaaaccagtaccttagcaccatcctcagACCAGGTGCTGCTATGCTACTATGAGTCACCCTGTCCTGCAAGTCAATCGCTGGgtaagttaagaggcagcaggagagaatggtgtttgtgttcttatccggaa Alignment from Exonerate_coding2genome ACCAGGTGCTACTACGCTACTATGAGTCTCCCTGTCCTGCAAGTCAATCA---G aacttggtagacttttcttttttaaaccagtaccttagcaccatcctcagACCAGGTGCTGCTATGCTACTATGAGTCACCCTGTCCTGCAAGTCAATCGCTGGgtaagttaagaggcagcaggagagaatggtgtttgtgttcttatccggaa Alignment from GeneWise ACCAGGTGCTACTACGCTACTATGAGTCTCCCTGTCCTGCAAGTCAATCAGGC- aacttggtagacttttcttttttaaaccagtaccttagcaccatcctcagACCAGGTGCTGCTATGCTACTATGAGTCACCCTGTCCTGCAAGTCAATCGCTGGgtaagttaagaggcagcaggagagaatggtgtttgtgttcttatccggaa #### Incenp_ID2604_15 --> 0 - 0 Original Alignment GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gtggcaagaggagagggatacgcctaatccctgattttcgcctcatttagGAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCAGGAAATAgtaactcctgcacccctattcggatgggctcttactccatgcttcatttg Alignment from CESAR GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gtggcaagaggagagggatacgcctaatccctgattttcgcctcatttagGAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCAGGAAATAgtaactcctgcacccctattcggatgggctcttactccatgcttcatttg Alignment from Spaln_aa2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gtggcaagaggagagggatacgcctaatccctgattttcgcctcatttagGAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCAGGAAATAgtaactcctgcacccctattcggatgggctcttactccatgcttcatttg Alignment from Spaln_nt2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gtggcaagaggagagggatacgcctaatccctgattttcgcctcatttagGAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCAGGAAATAgtaactcctgcacccctattcggatgggctcttactccatgcttcatttg Alignment from Pairagon GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gtggcaagaggagagggatacgcctaatccctgattttcgcctcatttagGAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCAGGAAATAgtaactcctgcacccctattcggatgggctcttactccatgcttcatttg Alignment from Exonerate_protein2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gtggcaagaggagagggatacgcctaatccctgattttcgcctcatttagGAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCAGgaaatagtaactcctgcacccctattcggatgggctcttactccatgcttcatttg Alignment from Exonerate_coding2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gtggcaagaggagagggatacgcctaatccctgattttcgcctcatttagGAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCAGgaaatagtaactcctgcacccctattcggatgggctcttactccatgcttcatttg Alignment from GeneWise GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG------ gtggcaagaggagagggatacgcctaatccctgattttcgcctcatttagGAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCAGGAAATAgtaactcctgcacccctattcggatgggctcttactccatgcttcatttg #### Incenp_ID2611_8 --> 1 - 0 Original Alignment gAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG tggggggctatgacacctctttatgacaattaattgtatcttttacttaggAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCTGCC------gtatgtaggacaaactgctcatgcttgatgcctgccttgtgtgttaattt Alignment from CESAR gAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG tggggggctatgacacctctttatgacaattaattgtatcttttacttaggAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCTGCC------gtatgtaggacaaactgctcatgcttgatgcctgccttgtgttc Alignment from Spaln_aa2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCC tggggggctatgacacctctttatgacaattaattgtatcttttacttagGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCTGCCgtatgtaggacaaactgctcatgcttgatgcctgccttgtgtgttaattt Alignment from Spaln_nt2Genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG tggggggctatgacacctctttatgacaattaattgtatcttttacttagGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCTGCC--GTATgtaggacaaactgctcatgcttgatgcctgccttgtgtgtttgt Alignment from Pairagon GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCC tggggggctatgacacctctttatgacaattaattgtatcttttacttagGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCTGCCgtatgtaggacaaactgctcatgcttgatgcctgccttgtgtgtttgtaa Alignment from Exonerate_protein2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCC tggggggctatgacacctctttatgacaattaattgtatcttttacttagGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCTGCCgtatgtaggacaaactgctcatgcttgatgcctgccttgtgtgttaattt Alignment from Exonerate_coding2genome GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCC tggggggctatgacacctctttatgacaattaattgtatcttttacttagGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCTGCCgtatgtaggacaaactgctcatgcttgatgcctgccttgtgtgttaattt Alignment from GeneWise GAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCGGATGAGGAGCAACTGGAAGATGAAGAACTGCAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCAGCCAACAAG tggggggctatgacacctctttatgacaattaattgtatcttttacttagGAGGAAACGCAGTTACAAACAGGCAATAAGTGAACCAGATGAGGAGCAACTGGAAGATGAAGAACTGAAGCCCTGCCAGAATAAGACCCCTTCCCCACCCTGTCCT------GCCgtatgtaggacaaactgctcatgcttgatgcctgccttgtgtgtttgtaa #### Jak2_ID6243_19 --> 2 - 0 Original Alignment gt------CGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ttagtaaaatacagcacaagaaaacatcccttgtctcccacctcccgcaggtCTCCTGCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAGgtgagtaccatcccacatgtctcttgtatatggtgaactaactcaaatcg Alignment from CESAR gt------CGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ttagtaaaatacagcacaagaaaacatcccttgtctcccacctcccgcaggtCTCCTGCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAGgtgagtaccatcccacatgtctcttgtatatggtgaactaactcaaatcg Alignment from Spaln_aa2Genome GTCGGCGCAACCTA------AGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ttagtaaaatacagcacaagaaaacatcccttgtctcccacctcccgcagGTCTCCTGCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAGgtgagtaccatcccacatgtctcttgtatatggtgaactaactcaaatcg Alignment from Spaln_nt2Genome GTCGGCGCAAC------CTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ttagtaaaatacagcacaagaaaacatcccttgtctcccacctcccgcagGTCTCCTGCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAGgtgagtaccatcccacatgtctcttgtatatggtgaactaactcaaatcg Alignment from Pairagon GT------CGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ttagtaaaatacagcacaagaaaacatcccttgtctcccacctcccgcagGTCTCCTGCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAGgtgagtaccatcccacatgtctcttgtatatggtgaactaactcaaatcg Alignment from Exonerate_protein2genome GTGCGGGTCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ttagtaaaatacagcacaagaaaacatcccttgtctcccacctcccgcagGTCTCCTGCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAGgtgagtaccatcccacatgtctcttgtatatggtgaactaactcaaatcg Alignment from Exonerate_coding2genome GTGCGGGTCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ttagtaaaatacagcacaagaaaacatcccttgtctcccacctcccgcagGTCTCCTGCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAGgtgagtaccatcccacatgtctcttgtatatggtgaactaactcaaatcg Alignment from GeneWise -----GGTCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ttagtaaaatacagcacaagaaaacatcccttgtctcccacctcccgcagGTCTCCTGCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAGgtgagtaccatcccacatgtctcttgtatatggtgaactaactcaaatcg #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa aagctgccatgtacatgtgatgcttacttggaaacgctttgttcccacaggcTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATC------aagtaagtctcccccgaaatacccacctgggggttgtggtatggcctatccg Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa aagctgccatgtacatgtgatgcttacttggaaacgctttgttcccacaggcTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAG------ATCaagtaagtctcccccgaaatacccacctgggggttgtggtatggcctatccg Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA aagctgccatgtacatgtgatgcttacttggaaacgctttgttcccacagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAG------ATCAAgtaagtctcccccgaaatacccacctgggggttgtggtatggcctatccg Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA aagctgccatgtacatgtgatgcttacttggaaacgctttgttcccacagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAG------ATCAAgtaagtctcccccgaaatacccacctgggggttgtggtatggcctatccg Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA aagctgccatgtacatgtgatgcttacttggaaacgctttgttcccacagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAG------ATCAAgtaagtctcccccgaaatacccacctgggggttgtggtatggcctatccg Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCAC aagctgccatgtacatgtgatgcttacttggaaacgctttgttcccacagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCAAgtaagtctcccccgaaatacccacctgggggttgtggtatggcctatccg Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCAC aagctgccatgtacatgtgatgcttacttggaaacgctttgttcccacagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCAAgtaagtctcccccgaaatacccacctgggggttgtggtatggcctatccg Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCAC aagctgccatgtacatgtgatgcttacttggaaacgctttgttcccacagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCAAgtaagtctcccccgaaatacccacctgggggttgtggtatggcctatccg #### Kat5_ID1115_7 --> 0 - 0 Original Alignment AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tccaggattgtctcacactcacttgatttcatcctgacactttgttatag---GGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtatgtctttaggagcagagagggaagctgggaaagggggagtgggcttg Alignment from CESAR AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccaggattgtctcacactcacatttcatcctgacactttgttatag---GGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtatgtctttaggagcagagagggaagctgggaaagggggagtgggcttg Alignment from Spaln_aa2Genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tccaggattgtctcacactcacttgatttcatcctgacactttgttatag---GGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtatgtctttaggagcagagagggaagctgggaaagggggagtgggcttg Alignment from Spaln_nt2Genome AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tccaggattgtctcacactcacttgatttcatcctgacactttgttatag---GGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtatgtctttaggagcagagagggaagctgggaaagggggagtgggcttg Alignment from Pairagon AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tccaggattgtctcacactcacttgatttcatcctgacactttgttatag---GGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtatgtctttaggagcagagagggaagctgggaaagggggagtgggcttg Alignment from Exonerate_protein2genome GGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tccaggattgtctcacactcacttgatttcatcctgacactttgttatagGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtatgtctttaggagcagagagggaagctgggaaagggggagtgggcttg Alignment from Exonerate_coding2genome GGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tccaggattgtctcacactcacttgatttcatcctgacactttgttatagGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtatgtctttaggagcagagagggaagctgggaaagggggagtgggcttg Alignment from GeneWise GGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tccaggattgtctcacactcacttgatttcatcctgacactttgttatagGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtatgtctttaggagcagagagggaagctgggaaagggggagtgggcttg #### Kat5_ID1116_6 --> 0 - 0 Original Alignment AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ccttctctatcttctgacctgcattttggctatggcttaattttttgcag------AAGGTGGAGGTGGTTTCACCAGCGACCCCAGTGCCCAGTGAGACAGCCCCAGCCTCGGTTTTCCCTCAGgtgaggcttccattcttttttcaagtgtctaaatgttttgtctgcgtttt Alignment from CESAR AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG gacccaccttctctatcttctgaccttggctatggcttaattttttgcag------AAGGTGGAGGTGGTTTCACCAGCGACCCCAGTGCCCAGTGAGACAGCCCCAGCCTCGGTTTTCCCTCAGgtgaggcttccattcttttttcaagtgtctaaatgttttgtctgcgtttt Alignment from Spaln_aa2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ccttctctatcttctgacctgcattttggctatggcttaattttttgcag------AAGGTGGAGGTGGTTTCACCAGCGACCCCAGTGCCCAGTGAGACAGCCCCAGCCTCGGTTTTCCCTCAGgtgaggcttccattcttttttcaagtgtctaaatgttttgtctgcgtttt Alignment from Spaln_nt2Genome AAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ccttctctatcttctgacctgcattttggctatggcttaattttttgcagAAGGTGGAGGTGGTTTCACCAGCGACCCCAGTGCCCAGTGAGACAGCCCCAGCCTCGGTTTTCCCTCAGgtgaggcttccattcttttttcaagtgtctaaatgttttgtctgcgtttt Alignment from Pairagon AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ccttctctatcttctgacctgcattttggctatggcttaattttttgcag------AAGGTGGAGGTGGTTTCACCAGCGACCCCAGTGCCCAGTGAGACAGCCCCAGCCTCGGTTTTCCCTCAGgtgaggcttccattcttttttcaagtgtctaaatgttttgtctgcgtttt Alignment from Exonerate_protein2genome AAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ccttctctatcttctgacctgcattttggctatggcttaattttttgcagAAGGTGGAGGTGGTTTCACCAGCGACCCCAGTGCCCAGTGAGACAGCCCCAGCCTCGGTTTTCCCTCAGgtgaggcttccattcttttttcaagtgtctaaatgttttgtctgcgtttt Alignment from Exonerate_coding2genome AAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ccttctctatcttctgacctgcattttggctatggcttaattttttgcagAAGGTGGAGGTGGTTTCACCAGCGACCCCAGTGCCCAGTGAGACAGCCCCAGCCTCGGTTTTCCCTCAGgtgaggcttccattcttttttcaagtgtctaaatgttttgtctgcgtttt Alignment from GeneWise AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG ccttctctatcttctgacctgcattttggctatggcttaattttttgcagAAG------GTGGAGGTGGTTTCACCAGCGACCCCAGTGCCCAGTGAGACAGCCCCAGCCTCGGTTTTCCCTCAGgtgaggcttccattcttttttcaagtgtctaaatgttttgtctgcgtttt #### Kat5_ID1119_3 --> 2 - 1 Original Alignment ccCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---t gtctcctgacctgccctggctaaaactcttgttttgttttgtttttctagcgCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGTCtgtaagtcctgagcctggatggagtggggttgctagatagggttgaggaag Alignment from CESAR ccCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---t gtctcctgacctgccctggctaaaactcttgttttgttttgtttttctagcgCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGTCtgtaagtcctgagcctggatggagtggggttgctagatagggttgaggaag Alignment from Spaln_aa2Genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---T gtctcctgacctgccctggctaaaactcttgttttgttttgtttttctagCGCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGTCTgtaagtcctgagcctggatggagtggggttgctagatagggttgaggaag Alignment from Spaln_nt2Genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---T gtctcctgacctgccctggctaaaactcttgttttgttttgtttttctagCGCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGTCTgtaagtcctgagcctggatggagtggggttgctagatagggttgaggaag Alignment from Pairagon CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGA---CT gtctcctgacctgccctggctaaaactcttgttttgttttgtttttctagCGCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGTCTgtaagtcctgagcctggatggagtggggttgctagatagggttgaggaag Alignment from Exonerate_protein2genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---T gtctcctgacctgccctggctaaaactcttgttttgttttgtttttctagCGCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGTCTgtaagtcctgagcctggatggagtggggttgctagatagggttgaggaag Alignment from Exonerate_coding2genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---T gtctcctgacctgccctggctaaaactcttgttttgttttgtttttctagCGCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGTCTgtaagtcctgagcctggatggagtggggttgctagatagggttgaggaag Alignment from GeneWise CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACTTC- gtctcctgacctgccctggctaaaactcttgttttgttttgtttttctagCGCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGTCTgtaagtcctgagcctggatggagtggggttgctagatagggttgaggaag #### Kat5_ID1120_2 --> 0 - 1 Original Alignment GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc gaggcccgccagtacccaacccacgtgtcatgaacatatctggcttctag------ATAATCGAGGGCTGCCGCCTGCCCGTCCTTCGGCGCAATCAAGACAATGAAGATGAGTGGcgtgactgatgtcagggggcaggtccaaagaagctgagggcggggggcagg Alignment from CESAR GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc gagcctgaggcccgccagtacccaatgtcatgaacatatctggcttctag------ATAATCGAGGGCTGCCGCCTGCCCGTCCTTCGGCGCAATCAAGACAATGAAGATGAGTGGcgtgactgatgtcagggggcaggtccaaagaagctgagggcggggggcagg Alignment from Spaln_aa2Genome ATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC gaggcccgccagtacccaacccacgtgtcatgaacatatctggcttctagATAATCGAGGGCTGCCGCCTGCCCGTCCTTCGGCGCAATCAAGACAATGAAGATGAGTGGCgtgactgatgtcagggggcaggtccaaagaagctgagggcggggggcagg Alignment from Spaln_nt2Genome ATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC gaggcccgccagtacccaacccacgtgtcatgaacatatctggcttctagATAATCGAGGGCTGCCGCCTGCCCGTCCTTCGGCGCAATCAAGACAATGAAGATGAGTGGCgtgactgatgtcagggggcaggtccaaagaagctgagggcggggggcagg Alignment from Pairagon ------------------------------------------------AGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC GAGGCCCGCCAGTACCCAACCCACGTGTCATGAACATATCTGGCTTCTAGATAATCGAGGGCTGCCGCCTGCCCGTCCTTCGGCGCAATCAAGACAATGAAGATGAGTGGCgtgactgatgtcagggggcaggtccaaagaagctgagggcggggggcagg Alignment from Exonerate_protein2genome ATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC gaggcccgccagtacccaacccacgtgtcatgaacatatctggcttctagATAATCGAGGGCTGCCGCCTGCCCGTCCTTCGGCGCAATCAAGACAATGAAGATGAGTGGCgtgactgatgtcagggggcaggtccaaagaagctgagggcggggggcagg Alignment from Exonerate_coding2genome ATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC gaggcccgccagtacccaacccacgtgtcatgaacatatctggcttctagATAATCGAGGGCTGCCGCCTGCCCGTCCTTCGGCGCAATCAAGACAATGAAGATGAGTGGCgtgactgatgtcagggggcaggtccaaagaagctgagggcggggggcagg Alignment from GeneWise GCGGAGGTGGGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC gaggcccgccagtacccaacccacgtgtcatgaacatatctggcttctag---------------ATAATCGAGGGCTGCCGCCTGCCCGTCCTTCGGCGCAATCAAGACAATGAAGATGAGTGGCgtgactgatgtcagggggcaggtccaaagaagctgagggcggggggcagg #### Kcnip2_ID9603_9 --> 0 - 0 Original Alignment AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG tgggtgaatacttcactcgcccattccctcaatctttgaccttcccatagAAGATGGACAGAAACAAGGATGGCGTGGTGACCATTGAGGAATTCATT---------------gtaagtcttcactctgaatgtgtgcttcttctaaacatctctgtactgaa Alignment from CESAR AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG tgggtgaatacttcactcgcccattccctcaatctttgaccttcccatagAAGATGGACAGAAACAAGGATGGCGTGGTGACCATTGAGGAATTCATT---------------gtaagtcttcactctgaatgtgtgcttcttctaaa Alignment from Spaln_aa2Genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCT------TGTCAACAG tgggtgaatacttcactcgcccattccctcaatctttgaccttcccatagAAGATGGACAGAAACAAGGATGGCGTGGTGACCATTGAGGAATTCATTGTAAGTCTTCACTCTGAATGTgtgcttcttctaaacatctctgtactgaa Alignment from Spaln_nt2Genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTG--AGTCTTG--TCAACAG tgggtgaatacttcactcgcccattccctcaatctttgaccttcccatagAAGATGGACAGAAACAAGGATGGCGTGGTGACCATTGAGGAATTCATTGTAAGTCTTCACTCTGAATgtgtgcttcttctaaacatctctgtactgaa Alignment from Pairagon AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATT tgggtgaatacttcactcgcccattccctcaatctttgaccttcccatagAAGATGGACAGAAACAAGGATGGCGTGGTGACCATTGAGGAATTCATTgtaagtcttcactctgaatgtgtgcttcttctaaacatctctgtactgaa Alignment from Exonerate_protein2genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG tgggtgaatacttcactcgcccattccctcaatctttgaccttcccatagAAGATGGACAGAAACAAGGATGGCGTGGTGACCATTGAGGAATTCATTGTAAGTCTTCACTCTgaatgtgtgcttcttctaaacatctctgtactgaa Alignment from Exonerate_coding2genome AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAG tgggtgaatacttcactcgcccattccctcaatctttgaccttcccatagAAGATGGACAGAAACAAGGATGGCGTGGTGACCATTGAGGAATTCATTGTAAGTCTTCACTCTgaatgtgtgcttcttctaaacatctctgtactgaa Alignment from GeneWise AAGATGGACAGAAACAAGGACGGCGTGGTGACCATTGAGGAATTCATTGAGTCTTGTCAACAGGAC--- tgggtgaatacttcactcgcccattccctcaatctttgaccttcccatagAAGATGGACAGAAACAAGGATGGCGTGGTGACCATTGAGGAATTCATTGTAAGTCTTCACTCTGAATGTgtgcttcttctaaacatctctgtactgaa #### Kcnip2_ID9605_7 --> 0 - 0 Original Alignment ------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccatgccaaagtgggttggcaaagtccttgttttctgtctttgcagGGTGTCGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAACTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACGAAGGAGgttggtggccaccgggggcaagaggggtggcatgtgagggcacgtggcaa Alignment from CESAR ------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccatgccaaagtgggttggcaaagtccttgttttctgtctttgcagGGTGTCGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAACTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACGAAGGAGgttggtggccaccgggggcaagaggggtggcatgtgagggcacgtggcaa Alignment from Spaln_aa2Genome GACTTTGTG------GCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccatgccaaagtgggttggcaaagtccttgttttctgtctttgcagGGTGTCGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAACTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACGAAGGAGgttggtggccaccgggggcaagaggggtggcatgtgagggcacgtggcaa Alignment from Spaln_nt2Genome GACTTTGTGG------CTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccatgccaaagtgggttggcaaagtccttgttttctgtctttgcagGGTGTCGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAACTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACGAAGGAGgttggtggccaccgggggcaagaggggtggcatgtgagggcacgtggcaa Alignment from Pairagon ------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccatgccaaagtgggttggcaaagtccttgttttctgtctttgcagGGTGTCGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAACTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACGAAGGAGgttggtggccaccgggggcaagaggggtggcatgtgagggcacgtggcaa Alignment from Exonerate_protein2genome ------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccatgccaaagtgggttggcaaagtccttgttttctgtctttgcagGGTGTCGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAACTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACGAAGGAGgttggtggccaccgggggcaagaggggtggcatgtgagggcacgtggcaa Alignment from Exonerate_coding2genome ------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccatgccaaagtgggttggcaaagtccttgttttctgtctttgcagGGTGTCGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAACTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACGAAGGAGgttggtggccaccgggggcaagaggggtggcatgtgagggcacgtggcaa Alignment from GeneWise ------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccatgccaaagtgggttggcaaagtccttgttttctgtctttgcagGGTGTCGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAACTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACGAAGGAGgttggtggccaccgggggcaagaggggtggcatgtgagggcacgtggcaa #### Kcnk4_ID1877_3 --> 2 - 0 Original Alignment gcTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG--- agggcgtaccaggtggcacttagaatttttcaccagccacaacctttcaggcTATGGCAATATAGTCTTACACACAGATGCTGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGCCACATTGAAGCAATCTTCTTGGGGgtgagttacactgcacccctcatagggccttcttcactaagtcctttgca Alignment from CESAR gcTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG--- agggcgtaccaggtggcacttagaatttttcaccagccacaacctttcaggcTATGGCAATATAGTCTTACACACAGATGCTGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGCCACATTGAAGCAATCTTCTTGGGGgtgagttacactgcacccctcatagggccttcttcactaagtcctttgca Alignment from Spaln_aa2Genome GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTGAAG agggcgtaccaggtggcacttagaatttttcaccagccacaacctttcagGCTATGGCAATATAGTCTTACACACAGATGCTGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGCCACATTGAAGCAATCTTCTTGGGGgtgagttacactgcacccctcatagggccttcttcactaagtcctttgca Alignment from Spaln_nt2Genome GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG--- agggcgtaccaggtggcacttagaatttttcaccagccacaacctttcagGCTATGGCAATATAGTCTTACACACAGATGCTGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGCCACATTGAAGCAATCTTCTTGGGGgtgagttacactgcacccctcatagggccttcttcactaagtcctttgca Alignment from Pairagon GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG--- agggcgtaccaggtggcacttagaatttttcaccagccacaacctttcagGCTATGGCAATATAGTCTTACACACAGATGCTGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGCCACATTGAAGCAATCTTCTTGGGGgtgagttacactgcacccctcatagggccttcttcactaagtcctttgca Alignment from Exonerate_protein2genome GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG--- agggcgtaccaggtggcacttagaatttttcaccagccacaacctttcagGCTATGGCAATATAGTCTTACACACAGATGCTGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGCCACATTGAAGCAATCTTCTTGGGGgtgagttacactgcacccctcatagggccttcttcactaagtcctttgca Alignment from Exonerate_coding2genome GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG--- agggcgtaccaggtggcacttagaatttttcaccagccacaacctttcagGCTATGGCAATATAGTCTTACACACAGATGCTGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGCCACATTGAAGCAATCTTCTTGGGGgtgagttacactgcacccctcatagggccttcttcactaagtcctttgca Alignment from GeneWise GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTGAAG agggcgtaccaggtggcacttagaatttttcaccagccacaacctttcagGCTATGGCAATATAGTCTTACACACAGATGCTGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGCCACATTGAAGCAATCTTCTTGGGGgtgagttacactgcacccctcatagggccttcttcactaagtcctttgca #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--------------------------- gtttcgctttcatccataaatgcaattccttctcaccgttccgattgcag------GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGGACTCATGGGGGATGTTAAGTTGCCTGgtaaggaagtaccctgttagactgagaaagccaaaagagaactaagaaca Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--------------------------- gtttcgctttcatccataaatgcaattccttctcaccgttccgattgcag------GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGGACTCATGGGGGATGTTAAGTTGCCTGgtaaggaagtaccctgttagactgagaaagccaaaagagaactaagaaca Alignment from Spaln_aa2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--------------------------- gtttcgctttcatccataaatgcaattccttctcaccgttccgattgcag------GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGGACTCATGGGGGATGTTAAGTTGCCTGgtaaggaagtaccctgttagactgagaaagccaaaagagaactaagaaca Alignment from Spaln_nt2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG-------------- gtttcgctttcatccataaatgcaattccttctcaccgttccgattgcag------GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGGACTCATGGGGGATgttaagttgcctggtaaggaagtaccctgttagactgagaaagccaaaagagaactaagaaca Alignment from Pairagon GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--------------------------- gtttcgctttcatccataaatgcaattccttctcaccgttccgattgcag------GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGGACTCATGGGGGATGTTAAGTTGCCTGgtaaggaagtaccctgttagactgagaaagccaaaagagaactaagaaca Alignment from Exonerate_protein2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG gtttcgctttcatccataaatgcaattccttctcaccgttccgaTTGCAGGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGgactcatgggggatgttaagttgcctggtaaggaagtaccctgttagactgagaaagccaaaagagaactaagaaca Alignment from Exonerate_coding2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG gtttcgctttcatccataaatgcaattccttctcaccgttccgaTTGCAGGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGgactcatgggggatgttaagttgcctggtaaggaagtaccctgttagactgagaaagccaaaagagaactaagaaca Alignment from GeneWise GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--------------------------- gtttcgctttcatccataaatgcaattccttctcaccgttccgattgcagGTG------CAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGGACTCATGGGGGATGTTAAGTTGCCTGgtaaggaagtaccctgttagactgagaaagccaaaagagaactaagaaca #### Kif20b_ID7005_10 --> 1 - 2 Original Alignment aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa aatgaaaaattttgcagtaatgttggtatgtatctgctctgttctctcaga---TCACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCCTTATTGACTCTGGGAAAGTGTGTCAATGTTTTGAAGAACAGTGAAAAGTCAaagtaagtgtccttagtgtaaatatgaaagtctaactttgcattctttggaa Alignment from CESAR aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa cgaaatgaaaaattttgcagtaatggtatgtatctgctctgttctctcaga---TCACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCCTTATTGACTCTGGGAAAGTGTGTCAATGTTTTGAAGAACAGTGAAAAGTCAaagtaagtgtccttagtgtaaatatgaaagtctaactttgcattctttggaa Alignment from Spaln_aa2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA aatgaaaaattttgcagtaatgttggtatgtatctgctctgttctctcagA---TCACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCCTTATTGACTCTGGGAAAGTGTGTCAATGTTTTGAAGAACAGTGAAAAGTCAAAgtaagtgtccttagtgtaaatatgaaagtctaactttgcattctttggaa Alignment from Spaln_nt2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA aatgaaaaattttgcagtaatgttggtatgtatctgctctgttctctcagA---TCACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCCTTATTGACTCTGGGAAAGTGTGTCAATGTTTTGAAGAACAGTGAAAAGTCAAAgtaagtgtccttagtgtaaatatgaaagtctaactttgcattctttggaa Alignment from Pairagon ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA aatgaaaaattttgcagtaatgttggtatgtatctgctctgttctctcagA---TCACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCCTTATTGACTCTGGGAAAGTGTGTCAATGTTTTGAAGAACAGTGAAAAGTCAAAgtaagtgtccttagtgtaaatatgaaagtctaactttgcattctttggaa Alignment from Exonerate_protein2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA aatgaaaaattttgcagtaatgttggtatgtatctgctctgttctctcagA---TCACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCCTTATTGACTCTGGGAAAGTGTGTCAATGTTTTGAAGAACAGTGAAAAGTCAAAgtaagtgtccttagtgtaaatatgaaagtctaactttgcattctttggaa Alignment from Exonerate_coding2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA aatgaaaaattttgcagtaatgttggtatgtatctgctctgttctctcagA---TCACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCCTTATTGACTCTGGGAAAGTGTGTCAATGTTTTGAAGAACAGTGAAAAGTCAAAgtaagtgtccttagtgtaaatatgaaagtctaactttgcattctttggaa Alignment from GeneWise ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA aatgaaaaattttgcagtaatgttggtatgtatctgctctgttctctcagA---TCACTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCCTTATTGACTCTGGGAAAGTGTGTCAATGTTTTGAAGAACAGTGAAAAGTCAAAgtaagtgtccttagtgtaaatatgaaagtctaactttgcattctttggaa #### Klc2_ID852_14 --> 1 - 0 Original Alignment g---ATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttcatcatctcatctaatatcaccaaaaatgatctcttccctctgacaggCTTATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTCAAGGAGCCAGTCCAGgtgagtatggagggcccctgatactaggcagcccagacccaggccattgg Alignment from CESAR g---ATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttcatcatctcatctaatatcaccaaaaatgatctcttccctctgacaggCTTATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTCAAGGAGCCAGTCCAGgtgagtatggagggcccctgatactaggcagcccagacccaggccattgg Alignment from Spaln_aa2Genome GATGAAGAGG---GCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttcatcatctcatctaatatcaccaaaaatgatctcttccctctgacagGCTTATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTCAAGGAGCCAGTCCAGgtgagtatggagggcccctgatactaggcagcccagacccaggccattgg Alignment from Spaln_nt2Genome GATGAAGAGG---GCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttcatcatctcatctaatatcaccaaaaatgatctcttccctctgacagGCTTATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTCAAGGAGCCAGTCCAGgtgagtatggagggcccctgatactaggcagcccagacccaggccattgg Alignment from Pairagon G---ATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttcatcatctcatctaatatcaccaaaaatgatctcttccctctgacagGCTTATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTCAAGGAGCCAGTCCAGgtgagtatggagggcccctgatactaggcagcccagacccaggccattgg Alignment from Exonerate_protein2genome G---ATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttcatcatctcatctaatatcaccaaaaatgatctcttccctctgacagGCTTATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTCAAGGAGCCAGTCCAGgtgagtatggagggcccctgatactaggcagcccagacccaggccattgg Alignment from Exonerate_coding2genome G---ATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttcatcatctcatctaatatcaccaaaaatgatctcttccctctgacagGCTTATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTCAAGGAGCCAGTCCAGgtgagtatggagggcccctgatactaggcagcccagacccaggccattgg Alignment from GeneWise -AGGATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTGGAAGAGCCAGTCCAG cttcatcatctcatctaatatcaccaaaaatgatctcttccctctgacagGCTTATGAAGAGGGCCAGCTCTCTTAACTTCCTTAACAAGAGTGTCAAGGAGCCAGTCCAGgtgagtatggagggcccctgatactaggcagcccagacccaggccattgg #### Klc2_ID857_9 --> 2 - 0 Original Alignment gaGAGAACAAGCCCATCTGGATGCACGCAGAGGAGCGCGAGGAGAGCAAG ctgattggagagttctgtgttgcaggcatccatttctcccttctttcaaggaGAGAATAAGCCCATCTGGATGCACGCAGAGGAGCGTGAGGAG------gtaagcctgaagagccatgggcagctgtcaggtgtagagcggctctgagg Alignment from CESAR gaGAGAACAAGCCCATCTGGATGCACGCAGAGGAGCGCGAGGAGAGCAAG ctgattggagagttctgtgttgcaggcatccatttctcccttctttcaaggaGAGAATAAGCCCATCTGGATGCACGCAGAGGAGCGTGAGGAG------gtaagcctgaagagccatgggcagctgtcaggtgtagagcggct Alignment from Spaln_aa2Genome GAGAGAACAAGCCCATCTGGATGCACGCAGAGGAGCGCGAGGAG ctgattggagagttctgtgttgcaggcatccatttctcccttctttcaagGAGAGAATAAGCCCATCTGGATGCACGCAGAGGAGCGTGAGGAGgtaagcctgaagagccatgggcagctgtcaggtgtagagcggctctgagg Alignment from Spaln_nt2Genome GAGAGAACAAGCCCATCTGGATGCACGCAGAGGAGCGCGAGGAG ctgattggagagttctgtgttgcaggcatccatttctcccttctttcaagGAGAGAATAAGCCCATCTGGATGCACGCAGAGGAGCGTGAGGAGgtaagcctgaagagccatgggcagctgtcaggtgtagagcggctctgagg Alignment from Pairagon GAGAGAACAAGCCCATCTGGATGCACGCAGAGGAGCGCGAGGAG ctgattggagagttctgtgttgcaggcatccatttctcccttctttcaagGAGAGAATAAGCCCATCTGGATGCACGCAGAGGAGCGTGAGGAGgtaagcctgaagagccatgggcagctgtcaggtgtagagcggctctgagg Alignment from Exonerate_protein2genome GAGAGAACAAGCCCATCTGGATGCACGCAGAGGAGCGCGAGGAG ctgattggagagttctgtgttgcaggcatccatttctcccttctttcaagGAGAGAATAAGCCCATCTGGATGCACGCAGAGGAGCGTGAGGAGgtaagcctgaagagccatgggcagctgtcaggtgtagagcggctctgagg Alignment from Exonerate_coding2genome GAGAGAACAAGCCCATCTGGATGCACGCAGAGGAGCGCGAGGAG ctgattggagagttctgtgttgcaggcatccatttctcccttctttcaagGAGAGAATAAGCCCATCTGGATGCACGCAGAGGAGCGTGAGGAGgtaagcctgaagagccatgggcagctgtcaggtgtagagcggctctgagg Alignment from GeneWise GAGAGAACAAGCCCATCTGGATGCACGCAGAGGAGCGCGAGGAGAGCAAG ctgattggagagttctgtgttgcaggcatccatttctcccttctttcaagGAGAGAATAAGCCCATCTGGATGCACGCAGAGGAGCGTGAG------GAGgtaagcctgaagagccatgggcagctgtcaggtgtagagcggctctgagg #### Klc2_ID859_7 --> 0 - 0 Original Alignment GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG acagtagaatcttggcaactctgaaacctctgtttctgtgttctacatag---CTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAATCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGAAGACCCCAATGTGGCGAAGACCAAGAACAACCTGgtgagctgtagctgggtgggaagctagtaaggaaggaggcagggagggag Alignment from CESAR GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG caaacagtagaatcttggcaactctacctctgtttctgtgttctacatag---CTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAATCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGAAGACCCCAATGTGGCGAAGACCAAGAACAACCTGgtgagctgtagctgggtgggaagctagtaaggaaggaggcagggagggag Alignment from Spaln_aa2Genome TTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG acagtagaatcttggcaactctgaaacctctgtttctgtgttctacatagctgggcaagTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAATCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGAAGACCCCAATGTGGCGAAGACCAAGAACAACCTGgtgagctgtagctgggtgggaagctagtaaggaaggaggcagggagggag Alignment from Spaln_nt2Genome CTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG acagtagaatcttggcaactctgaaacctctgtttctgtgttctacatagCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAATCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGAAGACCCCAATGTGGCGAAGACCAAGAACAACCTGgtgagctgtagctgggtgggaagctagtaaggaaggaggcagggagggag Alignment from Pairagon -------------------------------------------------CCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG ACAGTAGAATCTTGGCAACTCTGAAACCTCTGTTTCTGTGTTCTACATAGCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAATCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGAAGACCCCAATGTGGCGAAGACCAAGAACAACCTGgtgagctgtagctgggtgggaagctagtaaggaaggaggcagggagggag Alignment from Exonerate_protein2genome CTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG acagtagaatcttggcaactctgaaacctctgtttctgtgttctacatagCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAATCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGAAGACCCCAATGTGGCGAAGACCAAGAACAACCTGgtgagctgtagctgggtgggaagctagtaaggaaggaggcagggagggag Alignment from Exonerate_coding2genome CTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG acagtagaatcttggcaactctgaaacctctgtttctgtgttctacatagCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAATCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGAAGACCCCAATGTGGCGAAGACCAAGAACAACCTGgtgagctgtagctgggtgggaagctagtaaggaaggaggcagggagggag Alignment from GeneWise GTCCTGGGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAACCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGATGACCCCAATGTGGCGAAGACCAAGAACAACCTG acagtagaatcttggcaactctgaaacctctgtttctgtgttctacatagCTG---GGCAAGTTTCACCCAGATGTGGCCAAGCAGCTCAGCAACCTGGCCTTGCTGTGCCAGAATCAGGGCAAAGCTGAGGAGGTGGAATACTACTACCGGAGAGCCCTGGAGATCTATGCCACACGCCTTGGTCCTGAAGACCCCAATGTGGCGAAGACCAAGAACAACCTGgtgagctgtagctgggtgggaagctagtaaggaaggaggcagggagggag #### Klc2_ID860_6 --> 0 - 0 Original Alignment GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG cctgaatgaagactccccctacgatacaatcgcctaccttaccaccccag---------------AACAATCTGGCTGTGCTCTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTTTGCAAGAGAGCGCTGGAAATCCGGGAGAAGgtaaatacaggcagggccaagagtgctgggcaaacagtagaatcttggca Alignment from CESAR GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG cctgcctgctagggccctgaatgaaacaatcgcctaccttaccaccccag---------------AACAATCTGGCTGTGCTCTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTTTGCAAGAGAGCGCTGGAAATCCGGGAGAAGgtaaatacaggcagggccaagagtgctgggcaaacagtagaatcttggca Alignment from Spaln_aa2Genome AACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG cctgaatgaagactccccctacgatacaatcgcctaccttaccaccccagAACAATCTGGCTGTGCTCTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTTTGCAAGAGAGCGCTGGAAATCCGGGAGAAGgtaaatacaggcagggccaagagtgctgggcaaacagtagaatcttggca Alignment from Spaln_nt2Genome AACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG cctgaatgaagactccccctacgatacaatcgcctaccttaccaccccagAACAATCTGGCTGTGCTCTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTTTGCAAGAGAGCGCTGGAAATCCGGGAGAAGgtaaatacaggcagggccaagagtgctgggcaaacagtagaatcttggca Alignment from Pairagon GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG cctgaatgaagactccccctacgatacaatcgcctaccttaccaccccag---------------AACAATCTGGCTGTGCTCTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTTTGCAAGAGAGCGCTGGAAATCCGGGAGAAGgtaaatacaggcagggccaagagtgctgggcaaacagtagaatcttggca Alignment from Exonerate_protein2genome CGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG cctgaatgaagactccccctacgatacaatcgcctaccttacCACCCCAGAACAATCTGGCTGTGCTCTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTTTGCAAGAGAGCGCTGGAAATCCGGGAGAAGgtaaatacaggcagggccaagagtgctgggcaaacagtagaatcttggca Alignment from Exonerate_coding2genome CGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG cctgaatgaagactccccctacgatacaatcgcctaccttacCACCCCAGAACAATCTGGCTGTGCTCTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTTTGCAAGAGAGCGCTGGAAATCCGGGAGAAGgtaaatacaggcagggccaagagtgctgggcaaacagtagaatcttggca Alignment from GeneWise ---AATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG cctgaatgaagactccccctacgatacaatcgcctaccttaccaccccagAACAATCTGGCTGTGCTCTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTTTGCAAGAGAGCGCTGGAAATCCGGGAGAAGgtaaatacaggcagggccaagagtgctgggcaaacagtagaatcttggca #### Ldb1_ID9691_9 --> 0 - 1 Original Alignment ---CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg tccgggtctatttcccttagaggccaattcatcttttcttatccccatagCATCTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCCggctccttccttgccccagccctctacagacccttgatgaaatagctgagg Alignment from CESAR ---CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg tccgggtctatttcccttagaggccaattcatcttttcttatccccatagCATCTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCCggctccttccttgccccagccctctacagacccttgatgaaatagctgagg Alignment from Spaln_aa2Genome CTCTGTGTG---ATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tccgggtctatttcccttagaggccaattcatcttttcttatccccatagCATCTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCCGgctccttccttgccccagccctctacagacccttgatgaaatagctgagg Alignment from Spaln_nt2Genome CTCTGTGTG---ATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tccgggtctatttcccttagaggccaattcatcttttcttatccccatagCATCTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCCGgctccttccttgccccagccctctacagacccttgatgaaatagctgagg Alignment from Pairagon ---CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tccgggtctatttcccttagaggccaattcatcttttcttatccccatagCATCTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCCGgctccttccttgccccagccctctacagacccttgatgaaatagctgagg Alignment from Exonerate_protein2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tccgggtctatttcccttagaggccaattcatcttttcttatccccatagcatCTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCCGgctccttccttgccccagccctctacagacccttgatgaaatagctgagg Alignment from Exonerate_coding2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tccgggtctatttcccttagaggccaattcatcttttcttatccccatagcatCTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCCGgctccttccttgccccagccctctacagacccttgatgaaatagctgagg Alignment from GeneWise ---CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCGCGGAG tccgggtctatttcccttagaggccaattcatcttttcttatccccatagCATCTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGA------------------ATGgtagcacctcccggctccttccttgccccagccctctacagacccttgatgaaatagctgagg #### Ldb1_ID9692_8 --> 0 - 0 Original Alignment ---------------GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tgattttttgctcagatgacctgatacctaaaatgtcttcttccctgcagGAAGAAAGGTGTAGAGCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGGTGTGGGCTGTCGAATTCTGCTCTCAACTACCTCCGAgtatagctcagatgatcctggtgttgtcccagcctttattatctgagctc Alignment from CESAR ---------------GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tgattttttgctcagatgacctgatacctaaaatgtcttcttccctgcagGAAGAAAGGTGTAGAGCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGGTGTGGGCTGTCGAATTCTGCTCTCAACTACCTCCGAgtatagctcagatgatcctggtgttgtcccagcctttattatctgagctc Alignment from Spaln_aa2Genome CCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tgattttttgctcagatgacctgatacctaaaatgtcttcttccctgcaggaagaaaggtgtagagCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGGTGTGGGCTGTCGAATTCTGCTCTCAACTACCTCCGAgtatagctcagatgatcctggtgttgtcccagcctttattatctgagctc Alignment from Spaln_nt2Genome GCCCAGGACC-CCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tgattttttgctcagatgacctgatacctaaaatgtcttcttccctgcaggaagaaaggtgtagAGCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGGTGTGGGCTGTCGAATTCTGCTCTCAACTACCTCCGAgtatagctcagatgatcctggtgttgtcccagcctttattatctgagctc Alignment from Pairagon ---------------GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tgattttttgctcagatgacctgatacctaaaatgtcttcttccctgcagGAAGAAAGGTGTAGAGCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGGTGTGGGCTGTCGAATTCTGCTCTCAACTACCTCCGAgtatagctcagatgatcctggtgttgtcccagcctttattatctgagctc Alignment from Exonerate_protein2genome ACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tgattttttgctcagatgacctgatacctaaaatgtcttcttccctgcaggaagaaaggtgtagagcccaggACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGGTGTGGGCTGTCGAATTCTGCTCTCAACTACCTCCGAgtatagctcagatgatcctggtgttgtcccagcctttattatctgagctc Alignment from Exonerate_coding2genome ACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tgattttttgctcagatgacctgatacctaaaatgtcttcttccctgcaggaagaaaggtgtagagcccaggACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGGTGTGGGCTGTCGAATTCTGCTCTCAACTACCTCCGAgtatagctcagatgatcctggtgttgtcccagcctttattatctgagctc Alignment from GeneWise ----CAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tgattttttgctcagatgacctgatacctaaaatgtcttcttccctgcaggaagaaaggtgtagAGCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACTCGGTGTGGGCTGTCGAATTCTGCTCTCAACTACCTCCGAgtatagctcagatgatcctggtgttgtcccagcctttattatctgagctc #### Ldb1_ID9697_3 --> 1 - 2 Original Alignment cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg gcagtaatttctcttccactgtgactcttcatctctctgtgcatttttagcCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGG---gggtgagtagtggattgcagcttgccaggaagcttttcctctgcatgcatct Alignment from CESAR cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg gcagtaatttctcttccactgtgactcttcatctctctgtgcatttttagcCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGG---gggtgagtagtggattgcagcttgccaggaagcttttcctctgcatgcatct Alignment from Spaln_aa2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGAT gcagtaatttctcttccactgtgactcttcatctctctgtgcatttttagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGGGgtgagtagtggattgcagcttgccaggaagcttttcctctgcatgcatct Alignment from Spaln_nt2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG gcagtaatttctcttccactgtgactcttcatctctctgtgcatttttagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGG---GGgtgagtagtggattgcagcttgccaggaagcttttcctctgcatgcatct Alignment from Pairagon CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG gcagtaatttctcttccactgtgactcttcatctctctgtgcatttttagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGG---GGgtgagtagtggattgcagcttgccaggaagcttttcctctgcatgcatct Alignment from Exonerate_protein2genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG gcagtaatttctcttccactgtgactcttcatctctctgtgcatttttagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGG---GGgtgagtagtggattgcagcttgccaggaagcttttcctctgcatgcatct Alignment from Exonerate_coding2genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG gcagtaatttctcttccactgtgactcttcatctctctgtgcatttttagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGG---GGgtgagtagtggattgcagcttgccaggaagcttttcctctgcatgcatct Alignment from GeneWise CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGAT gcagtaatttctcttccactgtgactcttcatctctctgtgcatttttagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGGGgtgagtagtggattgcagcttgccaggaagcttttcctctgcatgcatct #### Lipf_ID6846_2 --> 0 - 1 Original Alignment AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---g ttaaaacttctacttaaactgttttttttttcttttcttttaaattaaagAGTCAGATGATAACTTATTGGGGATATCCAAGTGAGGAATATGAAGGTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGACggtaagaactcactccatcccctcatctatttgggaagaaaaatcctgaga Alignment from CESAR AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---g ttaaaacttctacttaaactgttttttttttcttttcttttaaattaaagAGTCAGATGATAACTTATTGGGGATATCCAAGTGAGGAATATGAAGGTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGACggtaagaactcactccatcccctcatctatttgggaagaaaaatcctgaga Alignment from Spaln_aa2Genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---G ttaaaacttctacttaaactgttttttttttcttttcttttaaattaaagAGTCAGATGATAACTTATTGGGGATATCCAAGTGAGGAATATGAAGGTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGACGgtaagaactcactccatcccctcatctatttgggaagaaaaatcctgaga Alignment from Spaln_nt2Genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG--- ttaaaacttctacttaaactgttttttttttcttttcttttaaattaaagAGTCAGATGATAACTTATTGGGGATATCCAAGTGAGGAATATGAAGGTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGACGgtaagaactcactccatcccctcatctatttgggaagaaaaatcctgaga Alignment from Pairagon AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCG--- ttaaaacttctacttaaactgttttttttttcttttcttttaaattaaagAGTCAGATGATAACTTATTGGGGATATCCAAGTGAGGAATATGAAGGTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGACGgtaagaactcactccatcccctcatctatttgggaagaaaaatcctgaga Alignment from Exonerate_protein2genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---G ttaaaacttctacttaaactgttttttttttcttttcttttaaattaaagAGTCAGATGATAACTTATTGGGGATATCCAAGTGAGGAATATGAAGGTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGACGgtaagaactcactccatcccctcatctatttgggaagaaaaatcctgaga Alignment from Exonerate_coding2genome AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATC---G ttaaaacttctacttaaactgttttttttttcttttcttttaaattaaagAGTCAGATGATAACTTATTGGGGATATCCAAGTGAGGAATATGAAGGTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGACGgtaagaactcactccatcccctcatctatttgggaagaaaaatcctgaga Alignment from GeneWise AGTCAGATGATAACTTACTGGGGATATCCAAGTGAGGAATATGAAGTTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGGC- ttaaaacttctacttaaactgttttttttttcttttcttttaaattaaagAGTCAGATGATAACTTATTGGGGATATCCAAGTGAGGAATATGAAGGTGTTACTGAAGATGGCTACATTCTGGGGGTCTATAGAATTCCTTATGGGAAGAAAAATTCTGAGAATATCGACGgtaagaactcactccatcccctcatctatttgggaagaaaaatcctgaga #### Loxl4_ID8570_5 --> 1 - 0 Original Alignment gCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCCATGCAGAG ttctcctctctcatccctactcaagcacggtgtctatgtgtctcccacaggCTCAACAGCCTAACAAAAAAGAATTCATTCTGGATTCACAGGGTTGACTGTCTTGGGACAGAGCCCCACTTGGCCAAATGCCAGGTACAGGTGGCACCAGGAAGAGGCAAGCTTCGGCCAGCCTGTCCAGGTGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGTCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCC---------gtaagtcccaaaccaacccaggaccctgaccaatctgcaggtgcagaggt Alignment from CESAR gCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCCATGCAGAG ttctcctctctcatccctactcaagcacggtgtctatgtgtctcccacaggCTCAACAGCCTAACAAAAAAGAATTCATTCTGGATTCACAGGGTTGACTGTCTTGGGACAGAGCCCCACTTGGCCAAATGCCAGGTACAGGTGGCACCAGGAAGAGGCAAGCTTCGGCCAGCCTGTCCAGGTGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGTCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCC---------gtaagtcccaaaccaacccaggaccctgaccaatctgcagg Alignment from Spaln_aa2Genome GCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCC ttctcctctctcatccctactcaagcacggtgtctatgtgtctcccacagGCTCAACAGCCTAACAAAAAAGAATTCATTCTGGATTCACAGGGTTGACTGTCTTGGGACAGAGCCCCACTTGGCCAAATGCCAGGTACAGGTGGCACCAGGAAGAGGCAAGCTTCGGCCAGCCTGTCCAGGTGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGTCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCgtaagtcccaaaccaacccaggaccctgaccaatctgcaggtgcagaggt Alignment from Spaln_nt2Genome GCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCC CATGCAGAG ttctcctctctcatccctactcaagcacggtgtctatgtgtctcccacagGCTCAACAGCCTAACAAAAAAGAATTCATTCTGGATTCACAGGGTTGACTGTCTTGGGACAGAGCCCCACTTGGCCAAATGCCAGGTACAGGTGGCACCAGGAAGAGGCAAGCTTCGGCCAGCCTGTCCAGGTGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGTCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCgtaagtcccaaaccaacccaggaccctgaccaatctgcag-GTGCAGAGg Alignment from Pairagon GCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCC ttctcctctctcatccctactcaagcacggtgtctatgtgtctcccacagGCTCAACAGCCTAACAAAAAAGAATTCATTCTGGATTCACAGGGTTGACTGTCTTGGGACAGAGCCCCACTTGGCCAAATGCCAGGTACAGGTGGCACCAGGAAGAGGCAAGCTTCGGCCAGCCTGTCCAGGTGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGTCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCgtaagtcccaaaccaacccaggaccctgaccaatctgcaggtgcagaggt Alignment from Exonerate_protein2genome GCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCC ttctcctctctcatccctactcaagcacggtgtctatgtgtctcccacagGCTCAACAGCCTAACAAAAAAGAATTCATTCTGGATTCACAGGGTTGACTGTCTTGGGACAGAGCCCCACTTGGCCAAATGCCAGGTACAGGTGGCACCAGGAAGAGGCAAGCTTCGGCCAGCCTGTCCAGGTGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGTCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCgtaagtcccaaaccaacccaggaccctgaccaatctgcaggtgcagaggt Alignment from Exonerate_coding2genome GCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCC ttctcctctctcatccctactcaagcacggtgtctatgtgtctcccacagGCTCAACAGCCTAACAAAAAAGAATTCATTCTGGATTCACAGGGTTGACTGTCTTGGGACAGAGCCCCACTTGGCCAAATGCCAGGTACAGGTGGCACCAGGAAGAGGCAAGCTTCGGCCAGCCTGTCCAGGTGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGTCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCgtaagtcccaaaccaacccaggaccctgaccaatctgcaggtgcagaggt Alignment from GeneWise GCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCC ttctcctctctcatccctactcaagcacggtgtctatgtgtctcccacagGCTCAACAGCCTAACAAAAAAGAATTCATTCTGGATTCACAGGGTTGACTGTCTTGGGACAGAGCCCCACTTGGCCAAATGCCAGGTACAGGTGGCACCAGGAAGAGGCAAGCTTCGGCCAGCCTGTCCAGGTGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGTCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCgtaagtcccaaaccaacccaggaccctgaccaatctgcaggtgcagaggt #### Ltbp3_ID1252_4 --> 0 - 1 Original Alignment TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAG---------t ccagtgggagcggggcattcagtgattcactgaactgtctgtccttgcagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGCTCTATACAtgtagaagcctggcctggcttagtgtggtatcccccactgagtgacagtgc Alignment from CESAR TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAG---------t ccagtgggagcggggcattcagtgattcactgaactgtctgtccttgcagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGCTCTATACAtgtagaagcctggcctggcttagtgtggtatcccccactgagtgacagtgc Alignment from Spaln_aa2Genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAG---TATACAG ccagtgggagcggggcattcagtgattcactgaactgtctgtccttgcagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGCTCTATACATgtagaagcctggcctggcttagtgtggtatcccccactgagtgacagtgc Alignment from Spaln_nt2Genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAG---------T ccagtgggagcggggcattcagtgattcactgaactgtctgtccttgcagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGCTCTATACATgtagaagcctggcctggcttagtgtggtatcccccactgagtgacagtgc Alignment from Pairagon TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAG---------T ccagtgggagcggggcattcagtgattcactgaactgtctgtccttgcagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGCTCTATACATgtagaagcctggcctggcttagtgtggtatcccccactgagtgacagtgc Alignment from Exonerate_protein2genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAG---TATACAG ccagtgggagcggggcattcagtgattcactgaactgtctgtccttgcagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGCTCTATACATgtagaagcctggcctggcttagtgtggtatcccccactgagtgacagtgc Alignment from Exonerate_coding2genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAG---TATACAG ccagtgggagcggggcattcagtgattcactgaactgtctgtccttgcagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGCTCTATACATgtagaagcctggcctggcttagtgtggtatcccccactgagtgacagtgc Alignment from GeneWise TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAG---TATACAG ccagtgggagcggggcattcagtgattcactgaactgtctgtccttgcagTGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGCTCTATACATgtagaagcctggcctggcttagtgtggtatcccccactgagtgacagtgc #### Ltbp3_ID1253_5 --> 2 - 1 Original Alignment atACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAG------g ccagtgtttccccctcttttgttgctattctttaacttttctgtttttagatACAGGAGTTCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGCAGGACggtgagtttacctggagattctgtggactatagggtgggctggaggtcatg Alignment from CESAR atACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAG------g ccagtgtttccccctcttttgttgctattctttaacttttctgtttttagatACAGGAGTTCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGCAGGACggtgagtttacctggagattctgtggactatagggtgggctggaggtcatg Alignment from Spaln_aa2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAG------G ccagtgtttccccctcttttgttgctattctttaacttttctgtttttagATACAGGAGTTCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGCAGGACGgtgagtttacctggagattctgtggactatagggtgggctggaggtcatg Alignment from Spaln_nt2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAG------G ccagtgtttccccctcttttgttgctattctttaacttttctgtttttagATACAGGAGTTCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGCAGGACGgtgagtttacctggagattctgtggactatagggtgggctggaggtcatg Alignment from Pairagon ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAG------G ccagtgtttccccctcttttgttgctattctttaacttttctgtttttagATACAGGAGTTCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGCAGGACGgtgagtttacctggagattctgtggactatagggtgggctggaggtcatg Alignment from Exonerate_protein2genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAG------G ccagtgtttccccctcttttgttgctattctttaacttttctgtttttagATACAGGAGTTCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGCAGGACGgtgagtttacctggagattctgtggactatagggtgggctggaggtcatg Alignment from Exonerate_coding2genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAG------G ccagtgtttccccctcttttgttgctattctttaacttttctgtttttagATACAGGAGTTCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGCAGGACGgtgagtttacctggagattctgtggactatagggtgggctggaggtcatg Alignment from GeneWise ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAG---GAT- ccagtgtttccccctcttttgttgctattctttaacttttctgtttttagATACAGGAGTTCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGCAGGACGgtgagtttacctggagattctgtggactatagggtgggctggaggtcatg #### Ltbp3_ID1255_7 --> 2 - 1 Original Alignment cc---------GACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg gggcaggacatagcaacgttcagttcctcttttgcactgttctgtttcagctGATTCTATCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACAggtctgttagaagcaccttgtggatgatgtaaggatgggacaaagctgtgt Alignment from CESAR cc---------GACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg gggcaggacatagcaacgttcagttcctcttttgcactgttctgtttcagctGATTCTATCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACAggtctgttagaagcaccttgtggatgatgtaaggatgggacaaagctgtgt Alignment from Spaln_aa2Genome CC---------GACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gggcaggacatagcaacgttcagttcctcttttgcactgttctgtttcagCTGATTCTATCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACAGgtctgttagaagcaccttgtggatgatgtaaggatgggacaaagctgtgt Alignment from Spaln_nt2Genome CCGACAAACC---------AGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gggcaggacatagcaacgttcagttcctcttttgcactgttctgtttcagCTGATTCTATCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACAGgtctgttagaagcaccttgtggatgatgtaaggatgggacaaagctgtgt Alignment from Pairagon C---------CGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gggcaggacatagcaacgttcagttcctcttttgcactgttctgtttcagCTGATTCTATCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACAGgtctgttagaagcaccttgtggatgatgtaaggatgggacaaagctgtgt Alignment from Exonerate_protein2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gggcaggacatagcaacgttcagttcctcttttgcactgttctgtttcagctgattctaTCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACAGgtctgttagaagcaccttgtggatgatgtaaggatgggacaaagctgtgt Alignment from Exonerate_coding2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gggcaggacatagcaacgttcagttcctcttttgcactgttctgtttcagctgattctaTCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACAGgtctgttagaagcaccttgtggatgatgtaaggatgggacaaagctgtgt Alignment from GeneWise --------GCCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gggcaggacatagcaacgttcagttcctcttttgcactgttctgtttcagCTGATTCTATCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGTTGCCCAGCAGATGGCACAGgtctgttagaagcaccttgtggatgatgtaaggatgggacaaagctgtgt #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg acaactcacctatgatgtctctgatttgggtatattttttttgcctccagat---------TGTGAGGCAGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGAACACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGCGTGggtgagtacaagcagctcctggctaacccacgtatactgggtgtggcctgc Alignment from CESAR atGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg cagggggtcacaactcacctatgatttgggtatattttttttgcctccagat---------TGTGAGGCAGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGAACACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGCGTGggtgagtacaagcagctcctggctaacccacgtatactgggtgtggcctgc Alignment from Spaln_aa2Genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG acaactcacctatgatgtctctgatttgggtatattttttttgcctccagAT---------TGTGAGGCAGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGAACACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGCGTGGgtgagtacaagcagctcctggctaacccacgtatactgggtgtggcctgc Alignment from Spaln_nt2Genome AGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG acaactcacctatgatgtctctgatttgggtatattttttttgcctccagATTGTGAGGCAGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGAACACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGCGTGGgtgagtacaagcagctcctggctaacccacgtatactgggtgtggcctgc Alignment from Pairagon ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG acaactcacctatgatgtctctgatttgggtatattttttttgcctccagAT---------TGTGAGGCAGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGAACACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGCGTGGgtgagtacaagcagctcctggctaacccacgtatactgggtgtggcctgc Alignment from Exonerate_protein2genome AGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG acaactcacctatgatgtctctgatttgggtatattttttttgcctccagATTGTGAGGCAGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGAACACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGCGTGGgtgagtacaagcagctcctggctaacccacgtatactgggtgtggcctgc Alignment from Exonerate_coding2genome AGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG acaactcacctatgatgtctctgatttgggtatattttttttgcctccagATTGTGAGGCAGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGAACACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGCGTGGgtgagtacaagcagctcctggctaacccacgtatactgggtgtggcctgc Alignment from GeneWise ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG acaactcacctatgatgtctctgatttgggtatattttttttgcctccagAT---------TGTGAGGCAGAGCCCTGTGGCCCTGGGAAAGGTATCTGTATGAACACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGCGTGGgtgagtacaagcagctcctggctaacccacgtatactgggtgtggcctgc #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg cctgctcctactccccaccccacccccttatacttttttgtttcactcagacCTGAATGAGTGCACCAAGCCTCACCTGTGTGGGGATGGTGGCTTTTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCAGACCACCC---------ggtgaggtacggggtatctcctcccaaccaaagcaggcatcattatcatcc Alignment from CESAR acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg cctgctcctactccccaccccacccccttatacttttttgtttcactcagacCTGAATGAGTGCACCAAGCCTCACCTGTGTGGGGATGGTGGCTTTTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCAGACCACCC---------ggtgaggtacggggtatctcctcccaaccaaagcaggcatcattatcatcc Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCC- cctgctcctactccccaccccacccccttatacttttttgtttcactcagACCTGAATGAGTGCACCAAGCCTCACCTGTGTGGGGATGGTGGCTTTTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCAGACCACCCGgtgaggtacggggtatctcctcccaaccaaagcaggcatcattatcatcc Alignment from Spaln_nt2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCA cctgctcctactccccaccccacccccttatacttttttgtttcactcagACCTGAATGAGTGCACCAAGCCTCACCTGTGTGGGGATGGTGGCTTTTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCAGACCACCCGgtgaggtacggggtatctcctcccaaccaaagcaggcatcattatcatcc Alignment from Pairagon ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG cctgctcctactccccaccccacccccttatacttttttgtttcactcagACCTGAATGAGTGCACCAAGCCTCACCTGTGTGGGGATGGTGGCTTTTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCAGACCACCC---------Ggtgaggtacggggtatctcctcccaaccaaagcaggcatcattatcatcc Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCA cctgctcctactccccaccccacccccttatacttttttgtttcactcagACCTGAATGAGTGCACCAAGCCTCACCTGTGTGGGGATGGTGGCTTTTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCAGACCACCCGgtgaggtacggggtatctcctcccaaccaaagcaggcatcattatcatcc Alignment from Exonerate_coding2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCA cctgctcctactccccaccccacccccttatacttttttgtttcactcagACCTGAATGAGTGCACCAAGCCTCACCTGTGTGGGGATGGTGGCTTTTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCAGACCACCCGgtgaggtacggggtatctcctcccaaccaaagcaggcatcattatcatcc Alignment from GeneWise ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCC- cctgctcctactccccaccccacccccttatacttttttgtttcactcagACCTGAATGAGTGCACCAAGCCTCACCTGTGTGGGGATGGTGGCTTTTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCAGACCACCCGgtgaggtacggggtatctcctcccaaccaaagcaggcatcattatcatcc #### Ltbp3_ID1268_20 --> 2 - 1 Original Alignment agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg gggccaacgtgattatctccatgaaatcttattcattcttattttcttagag---GAGCAGCCCCACCATAAGAAAGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTATTGGCTACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCAGTCTACAGCTCAggtagatgggatatacccaccccttcccagagctcccttttggcctgaaac Alignment from CESAR agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAg tcagggccaacgtgattatctccatatcttattcattcttattttcttagag---GAGCAGCCCCACCATAAGAAAGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTATTGGCTACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCAGTCTACAGCTCAggtagatgggatatacccaccccttcccagagctcccttttggcctgaaac Alignment from Spaln_aa2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gggccaacgtgattatctccatgaaatcttattcattcttattttcttagAG---GAGCAGCCCCACCATAAGAAAGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTATTGGCTACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCAGTCTACAGCTCAGgtagatgggatatacccaccccttcccagagctcccttttggcctgaaac Alignment from Spaln_nt2Genome TGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gggccaacgtgattatctccatgaaatcttattcattcttattttcttagAGGAGCAGCCCCACCATAAGAAAGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTATTGGCTACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCAGTCTACAGCTCAGgtagatgggatatacccaccccttcccagagctcccttttggcctgaaac Alignment from Pairagon AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gggccaacgtgattatctccatgaaatcttattcattcttattttcttagA---GGAGCAGCCCCACCATAAGAAAGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTATTGGCTACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCAGTCTACAGCTCAGgtagatgggatatacccaccccttcccagagctcccttttggcctgaaac Alignment from Exonerate_protein2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gggccaacgtgattatctccatgaaatcttattcattcttattttcttagAG---GAGCAGCCCCACCATAAGAAAGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTATTGGCTACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCAGTCTACAGCTCAGgtagatgggatatacccaccccttcccagagctcccttttggcctgaaac Alignment from Exonerate_coding2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gggccaacgtgattatctccatgaaatcttattcattcttattttcttagAG---GAGCAGCCCCACCATAAGAAAGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTATTGGCTACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCAGTCTACAGCTCAGgtagatgggatatacccaccccttcccagagctcccttttggcctgaaac Alignment from GeneWise TGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG gggccaacgtgattatctccatgaaatcttattcattcttattttcttagAGGAGCAGCCCCACCATAAGAAAGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTATTGGCTACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCAGTCTACAGCTCAGgtagatgggatatacccaccccttcccagagctcccttttggcctgaaac #### Ltbp3_ID1269_21 --> 2 - 1 Original Alignment ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGT---g tgtggtgagtacatacttaatcctgctgactggggcttctgatctttcagccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTCCTggtgagttacaacctaccgcctccttgcttctttctctgacagtttggttt Alignment from CESAR ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGT---g tgtggtgagtacatacttaatcctgctgactggggcttctgatctttcagccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTCCTggtgagttacaacctaccgcctccttgcttctttctctgacagtttggttt Alignment from Spaln_aa2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGT---G tgtggtgagtacatacttaatcctgctgactggggcttctgatctttcagCCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTCCTGgtgagttacaacctaccgcctccttgcttctttctctgacagtttggttt Alignment from Spaln_nt2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGT---G tgtggtgagtacatacttaatcctgctgactggggcttctgatctttcagCCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTCCTGgtgagttacaacctaccgcctccttgcttctttctctgacagtttggttt Alignment from Pairagon CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCG---TG tgtggtgagtacatacttaatcctgctgactggggcttctgatctttcagCCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTCCTGgtgagttacaacctaccgcctccttgcttctttctctgacagtttggttt Alignment from Exonerate_protein2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGT---G tgtggtgagtacatacttaatcctgctgactggggcttctgatctttcagCCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTCCTGgtgagttacaacctaccgcctccttgcttctttctctgacagtttggttt Alignment from Exonerate_coding2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGT---G tgtggtgagtacatacttaatcctgctgactggggcttctgatctttcagCCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTCCTGgtgagttacaacctaccgcctccttgcttctttctctgacagtttggttt Alignment from GeneWise CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTGAC- tgtggtgagtacatacttaatcctgctgactggggcttctgatctttcagCCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTCCTGgtgagttacaacctaccgcctccttgcttctttctctgacagtttggttt #### Ltbp3_ID1271_23 --> 2 - 1 Original Alignment acGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg caggaaagcagccgaatccaggccctcttcatgtgttgctgctcatacagat---GATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGAGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCCTGCACACCACCGGCTGAGTACAGTCCTGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGggtctgtcctggggaaacagtttggtgggggggggggaataagggaccaga Alignment from CESAR acGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg tctcaggaaagcagccgaatccaggtcttcatgtgttgctgctcatacagat---GATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGAGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCCTGCACACCACCGGCTGAGTACAGTCCTGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGggtctgtcctggggaaacagtttggtgggggggggggaataagggaccaga Alignment from Spaln_aa2Genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG caggaaagcagccgaatccaggccctcttcatgtgttgctgctcatacagAT---GATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGAGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCCTGCACACCACCGGCTGAGTACAGTCCTGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtctgtcctggggaaacagtttggtgggggggggggaataagggaccaga Alignment from Spaln_nt2Genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG caggaaagcagccgaatccaggccctcttcatgtgttgctgctcatacagA---TGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGAGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCCTGCACACCACCGGCTGAGTACAGTCCTGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtctgtcctggggaaacagtttggtgggggggggggaataagggaccaga Alignment from Pairagon ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG caggaaagcagccgaatccaggccctcttcatgtgttgctgctcatacagAT---GATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGAGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCCTGCACACCACCGGCTGAGTACAGTCCTGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtctgtcctggggaaacagtttggtgggggggggggaataagggaccaga Alignment from Exonerate_protein2genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG caggaaagcagccgaatccaggccctcttcatgtgttgctgctcatacagAT---GATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGAGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCCTGCACACCACCGGCTGAGTACAGTCCTGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtctgtcctggggaaacagtttggtgggggggggggaataagggaccaga Alignment from Exonerate_coding2genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG caggaaagcagccgaatccaggccctcttcatgtgttgctgctcatacagAT---GATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGAGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCCTGCACACCACCGGCTGAGTACAGTCCTGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtctgtcctggggaaacagtttggtgggggggggggaataagggaccaga Alignment from GeneWise --GATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG caggaaagcagccgaatccaggccctcttcatgtgttgctgctcatacagATGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGAGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCCTGCACACCACCGGCTGAGTACAGTCCTGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtctgtcctggggaaacagtttggtgggggggggggaataagggaccaga #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment GCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg GCACTggtaccggggactataacaaaatcttccctcccacatgtgcacaggg---------CCAACTTCACAAAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAggttggtgaggccaaggggccaaaggtatagaagcccatttttatatggcg Alignment from CESAR GCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg GCACTggtgagttacccctgagggaaatcttccctcccacatgtgcacaggg---------CCAACTTCACAAAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAggttggtgaggccaaggggccaaaggtatagaagcccatttttatattgta Alignment from Spaln_aa2Genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GCACTGgtaccggggactataacaaaatcttccctcccacatgtgcacagGG---------CCAACTTCACAAAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAGgttggtgaggccaaggggccaaaggtatagaagcccatttttatatggcg Alignment from Spaln_nt2Genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GCACTGgtaagtgggactataacaaaatcttccctcccacatgtgcacagGG---------CCAACTTCACAAAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAGgttggtgaggccaaggggccaaaggtatagaagcccatttttatatcata Alignment from Pairagon GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GCACTGgtaagtgggactataacaaaatcttccctcccacatgtgcacagGG---------CCAACTTCACAAAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAGgttggtgaggccaaggggccaaaggtatagaagcccatttttatatcata Alignment from Exonerate_protein2genome GCACCGGGTCCCA GTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GCACTGGTACCGGggactataacaaaatcttccctcccacatgtgcacAGGGCCAACTTCACAAAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAGgttggtgaggccaaggggccaaaggtatagaagcccatttttatatggcg Alignment from Exonerate_coding2genome GCACCGGGTCCCA GTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GCACTGGTACCGGggactataacaaaatcttccctcccacatgtgcacAGGGCCAACTTCACAAAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAGgttggtgaggccaaggggccaaaggtatagaagcccatttttatatggcg Alignment from GeneWise GCACCGGG------------------------------------TCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GCACTGGTAAGTGGGACTATAACAAAATCTTCCCTCCCACATGTGCACAGGG-CCAACTTCACAAAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAGgttggtgaggccaaggggccaaaggtatagaagcccatttttatatcata #### Map3k11_ID1206_7 --> 2 - 2 Original Alignment tgGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGag gtaaggatgtaagataaggatggactccaccctgtaatgttttattccagtgGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAAC---aggtgagtagtgcttcagcaccctaaaaccctggtgttctactctttggggc Alignment from CESAR tgGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGag gtaaggatgtaagataaggatggactccaccctgtaatgttttattccagtgGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAAC---aggtgagtagtgcttcagcaccctaaaaccctggtgttctactctttggggc Alignment from Spaln_aa2Genome TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGG gtaaggatgtaagataaggatggactccaccctgtaatgttttattccagTGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAACAGgtgagtagtgcttcagcaccctaaaaccctggtgttctactctttggggc Alignment from Spaln_nt2Genome TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG gtaaggatgtaagataaggatggactccaccctgtaatgttttattccagTGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAAC---AGgtgagtagtgcttcagcaccctaaaaccctggtgttctactctttggggc Alignment from Pairagon TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGG------------------------------------------------- gtaaggatgtaagataaggatggactccaccctgtaatgttttattccagTGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAACAGGTGAGTAGTGCTTCAGCACCCTAAAACCCTGGTGTTCTACTCTTTGGGGC Alignment from Exonerate_protein2genome TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG gtaaggatgtaagataaggatggactccaccctgtaatgttttattccagTGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAAC---AGgtgagtagtgcttcagcaccctaaaaccctggtgttctactctttggggc Alignment from Exonerate_coding2genome TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG gtaaggatgtaagataaggatggactccaccctgtaatgttttattccagTGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAAC---AGgtgagtagtgcttcagcaccctaaaaccctggtgttctactctttggggc Alignment from GeneWise TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGG gtaaggatgtaagataaggatggactccaccctgtaatgttttattccagTGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAACAGgtgagtagtgcttcagcaccctaaaaccctggtgttctactctttggggc #### Map4k2_ID1623_3 --> 2 - 2 Original Alignment gg---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag ggcactgaagtctaggcgccccccccctttttaaccattttctcccatagggGCAATTCCAGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCaggtacagctgtttatcctcttaccctcttgtgcccattgtgccaggtgatc Alignment from CESAR gg---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag ggcactgaagtctaggcgccccccccctttttaaccattttctcccatagggGCAATTCCAGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCaggtacagctgtttatcctcttaccctcttgtgcccattgtgccaaccgcgt Alignment from Spaln_aa2Genome GGGACGACATCAGCTCTCTT---------CAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggcactgaagtctaggcgccccccccctttttaaccattttctcccatagGGGCAATTCCAGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAGgtacagctgtttatcctcttaccctcttgtgcccattgtgccaggtgatc Alignment from Spaln_nt2Genome GGGACGACATC---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggcactgaagtctaggcgccccccccctttttaaccattttctcccatagGGGCAATTCCAGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAGgtacagctgtttatcctcttaccctcttgtgcccattgtgccatcaaacc Alignment from Pairagon ACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggcactgaagtctaggcgccccccccctttttaaccattttctcccataggggcaattccagACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAGgtacagctgtttatcctcttaccctcttgtgcccattgtgccatcaaacc Alignment from Exonerate_protein2genome GG---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggcactgaagtctaggcgccccccccctttttaaccattttctcccatagGGGCAATTCCAGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAGgtacagctgtttatcctcttaccctcttgtgcccattgtgccaggtgatc Alignment from Exonerate_coding2genome GG---------GACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggcactgaagtctaggcgccccccccctttttaaccattttctcccatagGGGCAATTCCAGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAGgtacagctgtttatcctcttaccctcttgtgcccattgtgccaggtgatc Alignment from GeneWise --------GGGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ggcactgaagtctaggcgccccccccctttttaaccattttctcccatagGGGCAATTCCAGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAGgtacagctgtttatcctcttaccctcttgtgcccattgtgccatcaaacc #### Map4k2_ID1627_6 --> 0 - 0 Original Alignment GGGCTCCACCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAG caaagcagttgtccctgggtaacactgttgccgctcttcccccaactcag---------CACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGgtaagagttcaaccaagggcatggttcaaatgaggaggaagccgacaggc Alignment from CESAR GGGCTCCACCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAG taattagtgcaaagcagttgtcccttgttgccgctcttcccccaactcag---------CACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGgtaagagttcaaccaagggcatggttcaaatgaggaggaagccgacaggc Alignment from Spaln_aa2Genome CACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAG caaagcagttgtccctgggtaacactgttgccgctcttcccccaactcagCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGgtaagagttcaaccaagggcatggttcaaatgaggaggaagccgacaggc Alignment from Spaln_nt2Genome CACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAG caaagcagttgtccctgggtaacactgttgccgctcttcccccaactcagCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGgtaagagttcaaccaagggcatggttcaaatgaggaggaagccgacaggc Alignment from Pairagon GGGCTCCACCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAG caaagcagttgtccctgggtaacactgttgccgctcttcccccaactcag---------CACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGgtaagagttcaaccaagggcatggttcaaatgaggaggaagccgacaggc Alignment from Exonerate_protein2genome GGGCTCCACCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAG caaagcagttgtccctgggtaacactgttgccgctcttcccCCAACTCAGCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGgtaagagttcaaccaagggcatggttcaaatgaggaggaagccgacaggc Alignment from Exonerate_coding2genome GGGCTCCACCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAG caaagcagttgtccctgggtaacactgttgccgctcttcccCCAACTCAGCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGgtaagagttcaaccaagggcatggttcaaatgaggaggaagccgacaggc Alignment from GeneWise CACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAG caaagcagttgtccctgggtaacactgttgccgctcttcccccaactcagCACCTGCATTCTCAGGGGAAAATTCACCGAGACATTAAGgtaagagttcaaccaagggcatggttcaaatgaggaggaagccgacaggc #### Map4k2_ID1632_11 --> 1 - 0 Original Alignment gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gggtgggtgggtctaaagacttagatgacaactccatctcctggtttcagg------------------TTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGgtgagcggcaggggataactggtgacttgagcctcaaagacatggcctgg Alignment from CESAR gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG cctaatttggatttgggtgggtgggtgacaactccatctcctggtttcagg------------------TTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGgtgagcggcaggggataactggtgacttgagcctcaaagacatggcctgg Alignment from Spaln_aa2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gggtgggtgggtctaaagacttagatgacaactccatctcctggtttcagG------------------TTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGgtgagcggcaggggataactggtgacttgagcctcaaagacatggcctgg Alignment from Spaln_nt2Genome CA CTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG GGgtgggtgggtctaaagacttagatgacaactccatctcctggtttcagGTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGgtgagcggcaggggataactggtgacttgagcctcaaagacatggcctgg Alignment from Pairagon GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gggtgggtgggtctaaagacttagatgacaactccatctcctggtttcagG------------------TTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGgtgagcggcaggggataactggtgacttgagcctcaaagacatggcctgg Alignment from Exonerate_protein2genome AGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gggtgggtgggtctaaagacttagatgacaactccatCTCCTGGTTTCAGGTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGgtgagcggcaggggataactggtgacttgagcctcaaagacatggcctgg Alignment from Exonerate_coding2genome AGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gggtgggtgggtctaaagacttagatgacaactccatCTCCTGGTTTCAGGTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGgtgagcggcaggggataactggtgacttgagcctcaaagacatggcctgg Alignment from GeneWise CTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG gggtgggtgggtctaaagacttagatgacaactccatctcctggtttcagGTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAGgtgagcggcaggggataactggtgacttgagcctcaaagacatggcctgg #### Map4k2_ID1633_12 --> 0 - 0 Original Alignment CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG------ gacatggcctggaggacagggagcaactccctgctcccttatctgcatagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTCGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCTCAgtgagagggggctgggagccaggtcagctcggcttggtgggaaggtggta Alignment from CESAR CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG------ gacatggcctggaggacagggagcaactccctgctcccttatctgcatagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTCGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCTCAgtgagagggggctgggagccaggtcagctcggcttggtgggaaggtggta Alignment from Spaln_aa2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG------ gacatggcctggaggacagggagcaactccctgctcccttatctgcatagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTCGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCTCAgtgagagggggctgggagccaggtcagctcggcttggtgggaaggtggta Alignment from Spaln_nt2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG------ gacatggcctggaggacagggagcaactccctgctcccttatctgcatagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTCGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCTCAgtgagagggggctgggagccaggtcagctcggcttggtgggaaggtggta Alignment from Pairagon CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG------ gacatggcctggaggacagggagcaactccctgctcccttatctgcatagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTCGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCTCAgtgagagggggctgggagccaggtcagctcggcttggtgggaaggtggta Alignment from Exonerate_protein2genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCCAT gacatggcctggaggacagggagcaactccctgctcccttatctgcatagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTCGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCTCAgtgagagggggctgggagccaggtcagctcggcttggtgggaaggtggta Alignment from Exonerate_coding2genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCCAT gacatggcctggaggacagggagcaactccctgctcccttatctgcatagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTCGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCTCAgtgagagggggctgggagccaggtcagctcggcttggtgggaaggtggta Alignment from GeneWise CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACC--- gacatggcctggaggacagggagcaactccctgctcccttatctgcatagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTCGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAGACCTCAgtgagagggggctgggagccaggtcagctcggcttggtgggaaggtggta #### Map4k2_ID1635_14 --> 2 - 0 Original Alignment tt------------------CACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG tctactctgagacttggaccaccttttatgtattattattcctattccagttTATGGGTACAGGGGTCGTCACCAAGTGAAATTTGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCAgtaggacactgactatgtgtgtgtagcgggggttcagggaagggaggcct Alignment from CESAR tt------------------CACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG tctactctgagacttggaccaccttttatgtattattattcctattccagttTATGGGTACAGGGGTCGTCACCAAGTGAAATTTGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCAgtaggacactgactatgtgtgtgtagcgggggttcagggaagggaggcct Alignment from Spaln_aa2Genome G---TTTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACC tctactctgagacttggaccaccttttatgtattattattcctattccagtttatgggtacagGGGTCGTCACCAAGTGAAATTTGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCAgtaggacactgactatgtgtgtgtagcgggggttcagggaagggaggcct Alignment from Spaln_nt2Genome TTCACCAAGT-----GAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG tctactctgagacttggaccaccttttatgtattattattcctattccagtttatgggtacagGGGTCGTCACCAAGTGAAATTTGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCAgtaggacactgactatgtgtgtgtagcgggggttcagggaagggaggcct Alignment from Pairagon T------------------TCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG tctactctgagacttggaccaccttttatgtattattattcctattccagTTTATGGGTACAGGGGTCGTCACCAAGTGAAATTTGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCAgtaggacactgactatgtgtgtgtagcgggggttcagggaagggaggcct Alignment from Exonerate_protein2genome G---TTTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG tctactctgagacttggaccaccttttatgtattattattcctattccagtttatgggtacagGGGTCGTCACCAAGTGAAATTTGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCAgtaggacactgactatgtgtgtgtagcgggggttcagggaagggaggcct Alignment from Exonerate_coding2genome G---TTTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG tctactctgagacttggaccaccttttatgtattattattcctattccagtttatgggtacagGGGTCGTCACCAAGTGAAATTTGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCAgtaggacactgactatgtgtgtgtagcgggggttcagggaagggaggcct Alignment from GeneWise -CAGTTTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG tctactctgagacttggaccaccttttatgtattattattcctattccagtttatgggtacagGGGTCGTCACCAAGTGAAATTTGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCAgtaggacactgactatgtgtgtgtagcgggggttcagggaagggaggcct #### Map4k2_ID1637_16 --> 1 - 2 Original Alignment gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag gctgagtcttattgaagactgactctctcagcaattactttgacttccagg---CTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAaggtatgcgacccacacttggtgtgaagaggggcctccaggcctggggaaca Alignment from CESAR gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag caggctgagtcttattgaagactgatctcagcaattactttgacttccagg---CTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAaggtatgcgacccacacttggtgtgaagaggggcctccaggcctggggaaca Alignment from Spaln_aa2Genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG gctgagtcttattgaagactgactctctcagcaattactttgacttccagG---CTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAGgtatgcgacccacacttggtgtgaagaggggcctccaggcctggggaaca Alignment from Spaln_nt2Genome CCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG gctgagtcttattgaagactgactctctcagcaattactttgacttccagGCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAGgtatgcgacccacacttggtgtgaagaggggcctccaggcctggggaaca Alignment from Pairagon ------------------------------------------------AGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG GCTGAGTCTTATTGAAGACTGACTCTCTCAGCAATTACTTTGACTTCCAGGCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAGgtatgcgacccacacttggtgtgaagaggggcctccaggcctggggaaca Alignment from Exonerate_protein2genome CCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG gctgagtcttattgaagactgactctctcagcaattactttgacttccagGCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAGgtatgcgacccacacttggtgtgaagaggggcctccaggcctggggaaca Alignment from Exonerate_coding2genome CCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG gctgagtcttattgaagactgactctctcagcaattactttgacttccagGCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAGgtatgcgacccacacttggtgtgaagaggggcctccaggcctggggaaca Alignment from GeneWise gctgagtcttattgaagactgactctctcagcaattactttgacttccaggctgctgcagtcagtccaggaggccctggaggaaaggtatgcgacccacacttggtgtgaagaggggcctccaggcctggggaaca #### Map4k2_ID1638_17 --> 1 - 0 Original Alignment gAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG--------- ggaacagtcccctctcacaccccatcattgttcttttttttacccttcaggAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGCAGTGTCCAgtgagcattgaagagggtagcgcttgaaagtcactcatgagctagcgtgc Alignment from CESAR gAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG--------- ggaacagtcccctctcacaccccatcattgttcttttttttacccttcaggAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGCAGTGTCCAgtgagcattgaagagggtagcgcttgaaagtcactcatgagctagcgtgc Alignment from Spaln_aa2Genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG--------- ggaacagtcccctctcacaccccatcattgttcttttttttacccttcagGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGCAGTGTCCAgtgagcattgaagagggtagcgcttgaaagtcactcatgagctagcgtgc Alignment from Spaln_nt2Genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG-- ggaacagtcccctctcacaccccatcattgttcttttttttacccttcagGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGCAgtgtccagtgagcattgaagagggtagcgcttgaaagtcactcatgagctagcgtgc Alignment from Pairagon GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG--------- ggaacagtcccctctcacaccccatcattgttcttttttttacccttcagGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGCAGTGTCCAgtgagcattgaagagggtagcgcttgaaagtcactcatgagctagcgtgc Alignment from Exonerate_protein2genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG ggaacagtcccctctcacaccccatcattgttcttttttttacccttcagGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGcagtgtccagtgagcattgaagagggtagcgcttgaaagtcactcatgagctagcgtgc Alignment from Exonerate_coding2genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG ggaacagtcccctctcacaccccatcattgttcttttttttacccttcagGAGCCTGACTATCCGGCCAGCCTTAGAACTCCAGcagtgtccagtgagcattgaagagggtagcgcttgaaagtcactcatgagctagcgtgc Alignment from GeneWise ggaacagtcccctctcacaccccatcattgttcttttttttacccttcaggagcctgactatccggccagccttagaactccagcagtgtccagtgagcattgaagagggtagcgcttgaaagtcactcatgagctagcgtgc #### Map4k2_ID1641_20 --> 0 - 0 Original Alignment CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC ggtgctgcagggtgccacccaggccctgcccttcctctccttccccttagCGATCATCCTGCCATGGGCTTCCTCCCACCCCC---------gtaatgggtgataccggccatggctgtccctagggcctgctgtcctggca Alignment from CESAR CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC ggtgctgcagggtgccacccaggccctgcccttcctctccttccccttagCGATCATCCTGCCATGGGCTTCCTCCCACCCCC---------gtaatgggtgataccggccatggctgtccctagggcctgct Alignment from Spaln_aa2Genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCC ggtgctgcagggtgccacccaggccctgcccttcctctccttccccttagCGATCATCCTGCCATGGGCTTCCTCCCACCCCCgtaatgggtgataccggccatggctgtccctagggcctgctgtcctggca Alignment from Spaln_nt2Genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGC ggtgctgcagggtgccacccaggccctgcccttcctctccttccccttagCGATCATCCTGCCATGGGCTTCCTCCCACCCCCGTAATGGgtgataccggccatggctgtccctagggcctgctgtcctggca Alignment from Pairagon ------------------------------------------------AGCGATCATCCTGCCATGGGCTTCCTCCCACCCCC GGTGCTGCAGGGTGCCACCCAGGCCCTGCCCTTCCTCTCCTTCCCCTTAGCGATCATCCTGCCATGGGCTTCCTCCCACCCCCgtaatgggtgataccggccatggctgtccctagggcctgctgtcctggca Alignment from Exonerate_protein2genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGC ggtgctgcagggtgccacccaggccctgcccttcctctccttccccttagCGATCATCCTGCCATGGGCTTCCTCCCACCCCCGTAATGGgtgataccggccatggctgtccctagggcctgctgtcctggca Alignment from Exonerate_coding2genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGC ggtgctgcagggtgccacccaggccctgcccttcctctccttccccttagCGATCATCCTGCCATGGGCTTCCTCCCACCCCCGTAATGGgtgataccggccatggctgtccctagggcctgctgtcctggca Alignment from GeneWise CCAAGGTGCAC -----TGCAGGgtgccacccaggccctgcccttcctctccttccccttagcgatcatcctgccatgggcttcctcccacccccgtaatgggtgataccggccatggctgtccctagggcctgctgtcctggca #### Map4k2_ID1642_21 --> 0 - 1 Original Alignment ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAg actgccgattggtcccttgactagttatgacttgctttcctgccccatag---------TGCTTCTCCAAGGTCTTTAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAggtaagtagaggtagagcagaagcaataacttaggacacccttaccctggg Alignment from CESAR ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAg tgtcctggcactgccgattggtccctatgacttgctttcctgccccatag---------TGCTTCTCCAAGGTCTTTAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAggtaagtagaggtagagcagaagcaataacttaggacacccttaccctggg Alignment from Spaln_aa2Genome ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG actgccgattggtcccttgactagttatgacttgctttcctgccccatag---------TGCTTCTCCAAGGTCTTTAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAGgtaagtagaggtagagcagaagcaataacttaggacacccttaccctggg Alignment from Spaln_nt2Genome TGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG actgccgattggtcccttgactagttatgacttgctttcctgccccatagTGCTTCTCCAAGGTCTTTAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAGgtaagtagaggtagagcagaagcaataacttaggacacccttaccctggg Alignment from Pairagon ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG actgccgattggtcccttgactagttatgacttgctttcctgccccatag---------TGCTTCTCCAAGGTCTTTAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAGgtaagtagaggtagagcagaagcaataacttaggacacccttaccctggg Alignment from Exonerate_protein2genome CCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG actgccgattggtcccttgactagttatgacttgctttcctgccccatAGTGCTTCTCCAAGGTCTTTAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAGgtaagtagaggtagagcagaagcaataacttaggacacccttaccctggg Alignment from Exonerate_coding2genome CCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG actgccgattggtcccttgactagttatgacttgctttcctgccccatAGTGCTTCTCCAAGGTCTTTAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAGgtaagtagaggtagagcagaagcaataacttaggacacccttaccctggg Alignment from GeneWise ATGGGTGCCTGCTTCTCCAAGGTCTTCAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAG actgccgattggtcccttgactagttatgacttgctttcctgccccatagTGC---------TTCTCCAAGGTCTTTAATGGCTGCCCCCTGCAGATCCATGCTGCTGTCACTTGGGTTCACCCTGTGACTCGAGgtaagtagaggtagagcagaagcaataacttaggacacccttaccctggg #### Map4k2_ID1643_22 --> 2 - 0 Original Alignment acCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG cctgggctagaaacatgtggcagcctcttaagtgctttctgctcttccagacCAGTTCCTGGTGGTAGGGGCTAAGGAGGGC------------------------------------------------gtaagtcttgttggctgttggggacagaggcacaggatgctggctactac Alignment from CESAR acCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACCTGCACGAACTGCACGAGGACACAATGGAGAAG cctgggctagaaacatgtggcagcctcttaagtgctttctgctcttccagacCAGTTCCTGGTGGTAGGGGCTAAGGAGGGC------------------------------------------------gt Alignment from Spaln_aa2Genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACCCTCAACC cctgggctagaaacatgtggcagcctcttaagtgctttctgctcttccagACCAGTTCCTGGTGGTAGGGGCTAAGGAGGGCGTAAGTCTTGTTGGCTgttggggacagaggcacaggatgctggctactac Alignment from Spaln_nt2Genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGC ATCTATACCCTCAAC cctgggctagaaacatgtggcagcctcttaagtgctttctgctcttccagACCAGTTCCTGGTGGTAGGGGCTAAGGAGGGCgtaagtcttgttggctgttggggacagaggcacagGATGCTGGCTACTAC Alignment from Pairagon ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGC cctgggctagaaacatgtggcagcctcttaagtgctttctgctcttccagACCAGTTCCTGGTGGTAGGGGCTAAGGAGGGCgtaagtcttgttggctgttggggacagaggcacaggatgctggctactac Alignment from Exonerate_protein2genome ACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATC cctgggctagaaacatgtggcagcctcttaagtgctttctgctcttccagACCAGTTCCTGGTGGTAGGGGCTAAGGAGGGCGTAagtcttgttggctgttggggacagaggcacaggatgctggctactac Alignment from Exonerate_coding2genome ACCAGTTCCTGGTGGTA GGGGCTGAGGAGGGCATCTATACCCTCAAC cctgggctagaaacatgtggcagcctcttaagtgctttctgctcttccagACCAGTTCCTGGTGGTAggggctaaggagggcgtaagtcttgttggctgttgGGGACAGAGGCACAGGATGCTGGCTACTAC Alignment from GeneWise -----------GACCAGTTCCTGGTGGTAGGGGCTGAGGAGGGCATCTATACC cctgggctagaaacatgtggcagcctcttaagtgctttctgctcttccagaccagttcctggtggtaggggctaaggagGGCGTAAGTCTTGTTGGCTGTTGGGGACAGAGGCACAGGATGCTGGCTACTAC #### Map4k2_ID1647_26 --> 2 - 0 Original Alignment ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG agggatgctgtgaggctgagcccctgccagcctctctgctgtccacacagttCGAAATCCCTATACCGGCAGTACATTCCTGCTGGCCGCCCTGCCTGCGAGCCTGCTACTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTG---------gttggtgactgcctgtcccagaggacccttgagaaggaggtggggagcct Alignment from CESAR ttCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG agggatgctgtgaggctgagcccctgccagcctctctgctgtccacacagttCGAAATCCCTATACCGGCAGTACATTCCTGCTGGCCGCCCTGCCTGCGAGCCTGCTACTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTG---------gttggtgactgcctgtcccagaggacccttgagaaggaggt Alignment from Spaln_aa2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTG agggatgctgtgaggctgagcccctgccagcctctctgctgtccacacagTTCGAAATCCCTATACCGGCAGTACATTCCTGCTGGCCGCCCTGCCTGCGAGCCTGCTACTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGgttggtgactgcctgtcccagaggacccttgagaaggaggtggggagcct Alignment from Spaln_nt2Genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGCTGAAG agggatgctgtgaggctgagcccctgccagcctctctgctgtccacacagTTCGAAATCCCTATACCGGCAGTACATTCCTGCTGGCCGCCCTGCCTGCGAGCCTGCTACTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTG-----GTTGgtgactgcctgtcccagaggacccttgagaaggaggtgggg Alignment from Pairagon TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTG------------------------------------------------CT agggatgctgtgaggctgagcccctgccagcctctctgctgtccacacagTTCGAAATCCCTATACCGGCAGTACATTCCTGCTGGCCGCCCTGCCTGCGAGCCTGCTACTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGGTTGGTGACTGCCTGTCCCAGAGGACCCTTGAGAAGGAGGTGGGGAGCCT Alignment from Exonerate_protein2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGC agggatgctgtgaggctgagcccctgccagcctctctgctgtccacacagTTCGAAATCCCTATACCGGCAGTACATTCCTGCTGGCCGCCCTGCCTGCGAGCCTGCTACTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGGTTGgtgactgcctgtcccagaggacccttgagaaggaggtggggagcct Alignment from Exonerate_coding2genome TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTGC agggatgctgtgaggctgagcccctgccagcctctctgctgtccacacagTTCGAAATCCCTATACCGGCAGTACATTCCTGCTGGCCGCCCTGCCTGCGAGCCTGCTACTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGGTTGgtgactgcctgtcccagaggacccttgagaaggaggtggggagcct Alignment from GeneWise TTCGAAACCCCTATACCGGCAGTACGTTCCTGCTGGCCGCCCTGCCTGCCAGCCTGCTTCTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGCTG- --- agggatgctgtgaggctgagcccctgccagcctctctgctgtccacacagTTCGAAATCCCTATACCGGCAGTACATTCCTGCTGGCCGCCCTGCCTGCGAGCCTGCTACTGCTGCAATGGTATGAGCCACTGCAGAAATTCCTGGTTGgtgactgcctgtcccagaggacccttgagaaggaggtggggagCCT #### Map4k2_ID1651_30 --> 2 - 0 Original Alignment tgTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG ataattgtagagtgcagggatagtgtagtttctgttttatttattttcagtgTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC---gtaagccgtggccctagggccctaattgcctccctgagcccctattttga Alignment from CESAR tgTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG ataattgtagagtgcagggatagtgtagtttctgttttatttattttcagtgTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC---gtaagccgtggccctagggccctaattgcctccctgagcccctattt Alignment from Spaln_aa2Genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC ataattgtagagtgcagggatagtgtagtttctgttttatttattttcagTGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACgtaagccgtggccctagggccctaattgcctccctgagcccctattttga Alignment from Spaln_nt2Genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACG-AG ataattgtagagtgcagggatagtgtagtttctgttttatttattttcagTGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGTAAgccgtggccctagggccctaattgcctccctgagcccctattttga Alignment from Pairagon TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACG------------------------------------------------- ataattgtagagtgcagggatagtgtagtttctgttttatttattttcagTGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGTAAGCCGTGGCCCTAGGGCCCTAATTGCCTCCCTGAGCCCCTATTTTGA Alignment from Exonerate_protein2genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG ataattgtagagtgcagggatagtgtagtttctgttttatttattttcagTGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC---gtaagccgtggccctagggccctaattgcctccctgagcccctattt Alignment from Exonerate_coding2genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG ataattgtagagtgcagggatagtgtagtttctgttttatttattttcagTGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC---gtaagccgtggccctagggccctaattgcctccctgagcccctattt Alignment from GeneWise TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC-------------------------------------------------- ataattgtagagtgcagggatagtgtagtttctgttttatttattttcagTGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGTAAGCCGTGGCCCTAGGGCCCTAATTGCCTCCCTGAGCCCCTATTTTGA #### Mark2_ID2108_13 --> 2 - 0 Original Alignment ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG--------- attggctctgcaggagaccgtagtcttatcaggtctcgctctgttcatagccGTCCCTGCCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCAGCCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGCTCGAGTTTgcaagtcttgagctactaccccctggcctggcctccctcttctccgctca Alignment from CESAR ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG--------- attggctctgcaggagaccgtagtcttatcaggtctcgctctgttcatagccGTCCCTGCCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCAGCCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGCTCGAGTTTgcaagtcttgagctactaccccctggcctggcctccctcttctccgctca Alignment from Spaln_aa2Genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGAACAG attggctctgcaggagaccgtagtcttatcaggtctcgctctgttcatagCCGTCCCTGCCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCAGCCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGCTCGAgtttgcaagtcttgagctactaccccctggcctggcctccctcttctccgctca Alignment from Spaln_nt2Genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCAC attggctctgcaggagaccgtagtcttatcaggtctcgctctgttcatagCCGTCCCTGCCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCAGCCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACgctcgagtttgcaagtcttgagctactaccccctggcctggcctccctcttctccgctca Alignment from Pairagon CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG--------- attggctctgcaggagaccgtagtcttatcaggtctcgctctgttcatagCCGTCCCTGCCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCAGCCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGCTCGAGTTTgcaagtcttgagctactaccccctggcctggcctccctcttctccgctca Alignment from Exonerate_protein2genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG attggctctgcaggagaccgtagtcttatcaggtctcgctctgttcatagCCGTCCCTGCCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCAGCCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGctcgagtttgcaagtcttgagctactaccccctggcctggcctccctcttctccgctca Alignment from Exonerate_coding2genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG attggctctgcaggagaccgtagtcttatcaggtctcgctctgttcatagCCGTCCCTGCCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCAGCCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGctcgagtttgcaagtcttgagctactaccccctggcctggcctccctcttctccgctca Alignment from GeneWise CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGAACAG attggctctgcaggagaccgtagtcttatcaggtctcgctctgttcatagCCGTCCCTGCCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCAGCCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACGCTCGAgtttgcaagtcttgagctactaccccctggcctggcctccctcttctccgctca #### Mark2_ID2111_10 --> 0 - 1 Original Alignment ---------CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAg tgctgagtttccttcccctctgtaccttgttgcctaattctttcttacagGCTGATAGACAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGATGATGAGCTAAAGCCTTACGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAggtaatgccatgctagctgggagctagagcctgcccacacatgaaggccca Alignment from CESAR ---------CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAg tgctgagtttccttcccctctgtaccttgttgcctaattctttcttacagGCTGATAGACAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGATGATGAGCTAAAGCCTTACGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAggtaatgccatgctagctgggagctagagcctgcccacacatgaaggccca Alignment from Spaln_aa2Genome CAAATTATGAAA---------GATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctgagtttccttcccctctgtaccttgttgcctaattctttcttacagGCTGATAGACAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGATGATGAGCTAAAGCCTTACGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAGgtaatgccatgctagctgggagctagagcctgcccacacatgaaggccca Alignment from Spaln_nt2Genome CAAATTATG-AAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctgagtttccttcccctctgtaccttgttgcctaattctttcttacaggctgatagACAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGATGATGAGCTAAAGCCTTACGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAGgtaatgccatgctagctgggagctagagcctgcccacacatgaaggccca Alignment from Pairagon ---------CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctgagtttccttcccctctgtaccttgttgcctaattctttcttacagGCTGATAGACAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGATGATGAGCTAAAGCCTTACGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAGgtaatgccatgctagctgggagctagagcctgcccacacatgaaggccca Alignment from Exonerate_protein2genome ---------CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctgagtttccttcccctctgtaccttgttgcctaattctttcttacagGCTGATAGACAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGATGATGAGCTAAAGCCTTACGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAGgtaatgccatgctagctgggagctagagcctgcccacacatgaaggccca Alignment from Exonerate_coding2genome ---------CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctgagtttccttcccctctgtaccttgttgcctaattctttcttacagGCTGATAGACAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGATGATGAGCTAAAGCCTTACGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAGgtaatgccatgctagctgggagctagagcctgcccacacatgaaggccca Alignment from GeneWise ---------CAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGACGATGAGCTAAAGCCTTATGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAG tgctgagtttccttcccctctgtaccttgttgcctaattctttcttacagGCTGATAGACAAATTATGAAAGATCGGTGGATGAACGTGGGGCATGAGGATGATGAGCTAAAGCCTTACGTGGAACCTCTCCCTGACTACAAGGACCCCCGGCGGACAGgtaatgccatgctagctgggagctagagcctgcccacacatgaaggccca #### Mrpl11_ID767_2 --> 0 - 0 Original Alignment CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG--------- tagaaagccttcagctctcatacttaacttatttcattgttttttattagCGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCTCTGCCTACAAAAATTTTTATAAAGATTAAAGATgtaaggagacccattctcccatatatttcattggccctagaaactagtca Alignment from CESAR CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG--------- tagaaagccttcagctctcatacttaacttatttcattgttttttattagCGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCTCTGCCTACAAAAATTTTTATAAAGATTAAAGATgtaaggagacccattctcccatatatttcattggccctagaaactagtca Alignment from Spaln_aa2Genome CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG--------- tagaaagccttcagctctcatacttaacttatttcattgttttttattagCGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCTCTGCCTACAAAAATTTTTATAAAGATTAAAGATgtaaggagacccattctcccatatatttcattggccctagaaactagtca Alignment from Spaln_nt2Genome CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG--------- tagaaagccttcagctctcatacttaacttatttcattgttttttattagCGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCTCTGCCTACAAAAATTTTTATAAAGATTAAAGATgtaaggagacccattctcccatatatttcattggccctagaaactagtca Alignment from Pairagon CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG--------- tagaaagccttcagctctcatacttaacttatttcattgttttttattagCGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCTCTGCCTACAAAAATTTTTATAAAGATTAAAGATgtaaggagacccattctcccatatatttcattggccctagaaactagtca Alignment from Exonerate_protein2genome CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tagaaagccttcagctctcatacttaacttatttcattgttttttattagCGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCTCTGCCTACAAAAATTTTTATAAAGattaaagatgtaaggagacccattctcccatatatttcattggccctagaaactagtca Alignment from Exonerate_coding2genome CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG tagaaagccttcagctctcatacttaacttatttcattgttttttattagCGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCTCTGCCTACAAAAATTTTTATAAAGattaaagatgtaaggagacccattctcccatatatttcattggccctagaaactagtca Alignment from GeneWise CGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCCCTGCCTACAAAAATTTTTATAAAG--------- tagaaagccttcagctctcatacttaacttatttcattgttttttattagCGAGGTGTCTCTATCAACCAGTTCTGCAAAGAGTTCAACGAGAAGACAAAGGACATCAAAGAAGGCATTCCTCTGCCTACAAAAATTTTTATAAAGATTAAAGATgtaaggagacccattctcccatatatttcattggccctagaaactagtca #### Mta2_ID2532_5 --> 1 - 0 Original Alignment g------------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG ggtaaggtggactgctcatccaggacttaattcatttcttctcattttaggACGCTTCTGATTGTAAAGTGCAGCGTGACTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAGgtgagtagccgttgggataagagggaggtgagagaatgttgcccctaaag Alignment from CESAR g------------GGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG ggtaaggtggactgctcatccaggacttaattcatttcttctcattttaggACGCTTCTGATTGTAAAGTGCAGCGTGACTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAGgtgagtagccgttgggataagagggaggtgagagaatgttgcccctaaag Alignment from Spaln_aa2Genome GGGGAAGTGCAGCGTGACTCTCTTG------------AACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG ggtaaggtggactgctcatccaggacttaattcatttcttctcattttagGACGCTTCTGATTGTAAAGTGCAGCGTGACTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAGgtgagtagccgttgggataagagggaggtgagagaatgttgcccctaaag Alignment from Spaln_nt2Genome ggtaaggtggactgctcatccaggacttaattcatttcttctcattttaggacgcttctgattgtaaagtgcagcgtgactctcttgaatgagacagacatcttaaaccagtatctagacaaggaggtgagtagccgttgggataagagggaggtgagagaatgttgcccctaaag Alignment from Pairagon GGGG------------AAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG ggtaaggtggactgctcatccaggacttaattcatttcttctcattttagGACGCTTCTGATTGTAAAGTGCAGCGTGACTCTCTTGAATGAGACAGACATCTTAAACCAGTATCTAGACAAGGAGgtgagtagccgttgggataagagggaggtgagagaatgttgcccctaaag Alignment from Exonerate_protein2genome ggtaaggtggactgctcatccaggacttaattcatttcttctcattttaggacgcttctgattgtaaagtgcagcgtgactctcttgaatgagacagacatcttaaaccagtatctagacaaggaggtgagtagccgttgggataagagggaggtgagagaatgttgcccctaaag Alignment from Exonerate_coding2genome ggtaaggtggactgctcatccaggacttaattcatttcttctcattttaggacgcttctgattgtaaagtgcagcgtgactctcttgaatgagacagacatcttaaaccagtatctagacaaggaggtgagtagccgttgggataagagggaggtgagagaatgttgcccctaaag Alignment from GeneWise ggtaaggtggactgctcatccaggacttaattcatttcttctcattttaggacgcttctgattgtaaagtgcagcgtgactctcttgaatgagacagacatcttaaaccagtatctagacaaggaggtgagtagccgttgggataagagggaggtgagagaatgttgcccctaaag #### Mta2_ID2534_7 --> 2 - 2 Original Alignment gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg tatgagttatttccctttctccctccaggcctgtgtgtgcttgcctacaggaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCGGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTCGTG------cggtgagtatcgctggggtggatcaggaaggtgggctagggaggaatggact Alignment from CESAR gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg tatgagttatttccctttctccctccaggcctgtgtgtgcttgcctacaggaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCGGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTCGTG------cggtgagtatcgctggggtggatcaggaaggtgggctagggaggaatggact Alignment from Spaln_aa2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGT tatgagttatttccctttctccctccaggcctgtgtgtgcttgcctacagGAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCGGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTCGTGCGgtgagtatcgctggggtggatcaggaaggtgggctagggaggaatggact Alignment from Spaln_nt2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgagttatttccctttctccctccaggcctgtgtgtgcttgcctacagGAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCGGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTCGTG------CGgtgagtatcgctggggtggatcaggaaggtgggctagggaggaatggact Alignment from Pairagon GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgagttatttccctttctccctccaggcctgtgtgtgcttgcctacagGAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCGGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTCGTG------CGgtgagtatcgctggggtggatcaggaaggtgggctagggaggaatggact Alignment from Exonerate_protein2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgagttatttccctttctccctccaggcctgtgtgtgcttgcctacagGAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCGGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTCGTG------CGgtgagtatcgctggggtggatcaggaaggtgggctagggaggaatggact Alignment from Exonerate_coding2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgagttatttccctttctccctccaggcctgtgtgtgcttgcctacagGAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCGGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTCGTG------CGgtgagtatcgctggggtggatcaggaaggtgggctagggaggaatggact Alignment from GeneWise GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGT tatgagttatttccctttctccctccaggcctgtgtgtgcttgcctacagGAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCGGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTCGTGCGgtgagtatcgctggggtggatcaggaaggtgggctagggaggaatggact #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG------ cttgaattttgaaggggagaaccctcctcatgctgcttcctgtgttctagcGCTGTGGGAACCTTTGTGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCA------GCATCCCGAGATATCACTCTGAACGAAgtgagagccaactgacagatagttgggcatgttaaggcaagagtggaggg Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG------ cttgaattttgaaggggagaaccctcctcatgctgcttcctgtgttctagcGCTGTGGGAACCTTTGTGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCA------GCATCCCGAGATATCACTCTGAACGAAgtgagagccaactgacagatagttgggcatgttaaggcaagagtggaggg Alignment from Spaln_aa2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG cttgaattttgaaggggagaaccctcctcatgctgcttcctgtgttctagCGCTGTGGGAACCTTTGTGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCATCCCGAGATATCACTCTGAACGAAgtgagagccaactgacagatagttgggcatgttaaggcaagagtggaggg Alignment from Spaln_nt2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG------ cttgaattttgaaggggagaaccctcctcatgctgcttcctgtgttctagCGCTGTGGGAACCTTTGTGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCA------GCATCCCGAGATATCACTCTGAACGAAgtgagagccaactgacagatagttgggcatgttaaggcaagagtggaggg Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG------ cttgaattttgaaggggagaaccctcctcatgctgcttcctgtgttctagCGCTGTGGGAACCTTTGTGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCA------GCATCCCGAGATATCACTCTGAACGAAgtgagagccaactgacagatagttgggcatgttaaggcaagagtggaggg Alignment from Exonerate_protein2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG cttgaattttgaaggggagaaccctcctcatgctgcttcctgtgttctagCGCTGTGGGAACCTTTGTGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCATCCCGAGATATCACTCTGAACGAAgtgagagccaactgacagatagttgggcatgttaaggcaagagtggaggg Alignment from Exonerate_coding2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG cttgaattttgaaggggagaaccctcctcatgctgcttcctgtgttctagCGCTGTGGGAACCTTTGTGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCATCCCGAGATATCACTCTGAACGAAgtgagagccaactgacagatagttgggcatgttaaggcaagagtggaggg Alignment from GeneWise AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG------ cttgaattttgaaggggagaaccctcctcatgctgcttcctgtgttctagCGCTGTGGGAACCTTTGTGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCA------TCCCGAGATATCACTCTGAACGAAgtgagagccaactgacagatagttgggcatgttaaggcaagagtggaggg #### Mta2_ID2538_11 --> 0 - 2 Original Alignment AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTta tgtgttgagatgctctgaatttcttttgaatgtagcatcgtctaattcag---AGATTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTtagtaaggttggcagcaatgcacaaagtcaggaatacctcctgggccaagga Alignment from CESAR AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTta atttgtgttgagatgctctgaatttttgaatgtagcatcgtctaattcag---AGATTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTtagtaaggttggcagcaatgcacaaagtcaggaatacctcctgggccaagga Alignment from Spaln_aa2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA tgtgttgagatgctctgaatttcttttgaatgtagcatcgtctaattcagAGATTAAAAGCTGCA---GAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAgtaaggttggcagcaatgcacaaagtcaggaatacctcctgggccaagga Alignment from Spaln_nt2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA tgtgttgagatgctctgaatttcttttgaatgtagcatcgtctaattcag---AGATTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAgtaaggttggcagcaatgcacaaagtcaggaatacctcctgggccaagga Alignment from Pairagon AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA tgtgttgagatgctctgaatttcttttgaatgtagcatcgtctaattcag---AGATTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAgtaaggttggcagcaatgcacaaagtcaggaatacctcctgggccaagga Alignment from Exonerate_protein2genome AGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA tgtgttgagatgctctgaatttcttttgaatgtagcatcgtctaattcagAGATTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAgtaaggttggcagcaatgcacaaagtcaggaatacctcctgggccaagga Alignment from Exonerate_coding2genome AGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA tgtgttgagatgctctgaatttcttttgaatgtagcatcgtctaattcagAGATTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAgtaaggttggcagcaatgcacaaagtcaggaatacctcctgggccaagga Alignment from GeneWise ------------AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA tgtgttgagatgctctgaatttcttttgaatgtagCATCGTCTAATTCAGAGATTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAgtaaggttggcagcaatgcacaaagtcaggaatacctcctgggccaagga #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag accaagggactataacctgtccttcattgtgtctctgcttgctattgcag------------------------------AATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACGAAGGACACCaggtaagtagggagtctaccatgagaggctgagaggctggcaatccaagtcg Alignment from CESAR ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag gggttttatggatggtagttccttcattgtgtctctgcttgctattgcag------------------------------AATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACGAAGGACACCaggtaagtagggagtctaccatgagaggctgagaggctggcaatccaagtcg Alignment from Spaln_aa2Genome GCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG accaagggactataacctgtccttcattgtgtctctgcttgctattgcagaatggaagGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACGAAGGACACCAGgtaagtagggagtctaccatgagaggctgagaggctggcaatccaagtcg Alignment from Spaln_nt2Genome AATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG accaagggactataacctgtccttcattgtgtctctgcttgctattgcagAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACGAAGGACACCAGgtaagtagggagtctaccatgagaggctgagaggctggcaatccaagtcg Alignment from Pairagon AATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG accaagggactataacctgtccttcattgtgtctctgcttgctattgcagAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACGAAGGACACCAGgtaagtagggagtctaccatgagaggctgagaggctggcaatccaagtcg Alignment from Exonerate_protein2genome AGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG accaagggactataacctgtccttcattgtgTCTCTGCTTGCTATTGCAGAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACGAAGGACACCAGgtaagtagggagtctaccatgagaggctgagaggctggcaatccaagtcg Alignment from Exonerate_coding2genome AGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG accaagggactataacctgtccttcattgtgTCTCTGCTTGCTATTGCAGAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACGAAGGACACCAGgtaagtagggagtctaccatgagaggctgagaggctggcaatccaagtcg Alignment from GeneWise GCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG accaagggactataacctgtccttcattgtgtctctgcttgctattgcagaatggaagGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACGAAGGACACCAGgtaagtagggagtctaccatgagaggctgagaggctggcaatccaagtcg #### Mus81_ID1042_14 --> 0 - 2 Original Alignment GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCag gagtggcctatgacaaggtcacccttcatgcttcttgggccatgccacagGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCT---aggtgagaagccacagagggcaactgagggcatagtttaccacagccagtgc Alignment from CESAR GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCag gagtggcctatgacaaggtcacccttcatgcttcttgggccatgccacagGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCT---aggtgagaagccacagagggcaactgagggcatagtttaccacagccagtgc Alignment from Spaln_aa2Genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGC gagtggcctatgacaaggtcacccttcatgcttcttgggccatgccacagGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTAGgtgagaagccacagagggcaactgagggcatagtttaccacagccagtgc Alignment from Spaln_nt2Genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCT----GCCAG gagtggcctatgacaaggtcacccttcatgcttcttgggccatgccacagGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTAGGTGAGAAgccacagagggcaactgagggcatagtttaccacagccagtgc Alignment from Pairagon GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG gagtggcctatgacaaggtcacccttcatgcttcttgggccatgccacagGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCT---AGgtgagaagccacagagggcaactgagggcatagtttaccacagccagtgc Alignment from Exonerate_protein2genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGC gagtggcctatgacaaggtcacccttcatgcttcttgggccatgccacagGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTAGgtgagaagccacagagggcaactgagggcatagtttaccacagccagtgc Alignment from Exonerate_coding2genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGC gagtggcctatgacaaggtcacccttcatgcttcttgggccatgccacagGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTAGgtgagaagccacagagggcaactgagggcatagtttaccacagccagtgc Alignment from GeneWise GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGC gagtggcctatgacaaggtcacccttcatgcttcttgggccatgccacagGCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTAGgtgagaagccacagagggcaactgagggcatagtttaccacagccagtgc #### Mus81_ID1049_7 --> 1 - 2 Original Alignment g---------TATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAAcc gtgcgccagtgataaagaagaaggaacggtgggactgtcctgtctttcaggGCATGGACATATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCAAGGCGGAAGGCCTGAGCACTCGGCATGCTGGCTTTAGGCCAGAGGAACATCATGGAGAGGACTCAGCAGTTCCAGAAGCCTTAACAGAAccgtcagtaaagacgggggcagtcatacctttctacccaagactaatagctg Alignment from CESAR g---------TATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAAcc gtgcgccagtgataaagaagaaggaacggtgggactgtcctgtctttcaggGCATGGACATATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCAAGGCGGAAGGCCTGAGCACTCGGCATGCTGGCTTTAGGCCAGAGGAACATCATGGAGAGGACTCAGCAGTTCCAGAAGCCTTAACAGAAccgtcagtaaagacgggggcagtcatacctttctacccaagactaatagctg Alignment from Spaln_aa2Genome GTATGCACTCACA---------CCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC gtgcgccagtgataaagaagaaggaacggtgggactgtcctgtctttcagGGCATGGACATATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCAAGGCGGAAGGCCTGAGCACTCGGCATGCTGGCTTTAGGCCAGAGGAACATCATGGAGAGGACTCAGCAGTTCCAGAAGCCTTAACAGAACCgtcagtaaagacgggggcagtcatacctttctacccaagactaatagctg Alignment from Spaln_nt2Genome GTATGCACTCA---------CACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC gtgcgccagtgataaagaagaaggaacggtgggactgtcctgtctttcagGGCATGGACATATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCAAGGCGGAAGGCCTGAGCACTCGGCATGCTGGCTTTAGGCCAGAGGAACATCATGGAGAGGACTCAGCAGTTCCAGAAGCCTTAACAGAACCgtcagtaaagacgggggcagtcatacctttctacccaagactaatagctg Alignment from Pairagon G---------TATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC gtgcgccagtgataaagaagaaggaacggtgggactgtcctgtctttcagGGCATGGACATATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCAAGGCGGAAGGCCTGAGCACTCGGCATGCTGGCTTTAGGCCAGAGGAACATCATGGAGAGGACTCAGCAGTTCCAGAAGCCTTAACAGAACCgtcagtaaagacgggggcagtcatacctttctacccaagactaatagctg Alignment from Exonerate_protein2genome GTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC gtgcgccagtgataaagaagaaggaacggtgggactgtcctgtctttcagggcatggacATATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCAAGGCGGAAGGCCTGAGCACTCGGCATGCTGGCTTTAGGCCAGAGGAACATCATGGAGAGGACTCAGCAGTTCCAGAAGCCTTAACAGAACCgtcagtaaagacgggggcagtcatacctttctacccaagactaatagctg Alignment from Exonerate_coding2genome GTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC gtgcgccagtgataaagaagaaggaacggtgggactgtcctgtctttcagggcatggacATATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCAAGGCGGAAGGCCTGAGCACTCGGCATGCTGGCTTTAGGCCAGAGGAACATCATGGAGAGGACTCAGCAGTTCCAGAAGCCTTAACAGAACCgtcagtaaagacgggggcagtcatacctttctacccaagactaatagctg Alignment from GeneWise -------AGGTATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCGAGGCGGAAGGCCTGAGCACTCGGCACGCTGGCTTTAGGCCAGAGGAACATCACGGAGAGGACTCAGCAGTTCCAGAAGCCTTGTCAGAACC gtgcgccagtgataaagaagaaggaacggtgggactgtcctgtctttcagGGCATGGACATATGCACTCACACCAGAGGGTCTGGAGCTGGCTCAGAAGCTGGCCAAGGCGGAAGGCCTGAGCACTCGGCATGCTGGCTTTAGGCCAGAGGAACATCATGGAGAGGACTCAGCAGTTCCAGAAGCCTTAACAGAACCgtcagtaaagacgggggcagtcatacctttctacccaagactaatagctg #### Mus81_ID1054_2 --> 0 - 1 Original Alignment GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCg ctgtgaatcttagttagataagctcctgcctgaccaccactctcttctag---TTGCGCTCCCTGCAACAGTACCCGCTACCTTTGCGCAGCGGGAGGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTggtgagtacctcaaggaggtctcctaaatctctcaggtgcacgctgtgtct Alignment from CESAR GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCg gatctgtgaatcttagttagataagctgcctgaccaccactctcttctag---TTGCGCTCCCTGCAACAGTACCCGCTACCTTTGCGCAGCGGGAGGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTggtgagtacctcaaggaggtctcctaaatctctcaggtgcacgctgtgtct Alignment from Spaln_aa2Genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG ctgtgaatcttagttagataagctcctgcctgaccaccactctcttctag---TTGCGCTCCCTGCAACAGTACCCGCTACCTTTGCGCAGCGGGAGGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtgagtacctcaaggaggtctcctaaatctctcaggtgcacgctgtgtct Alignment from Spaln_nt2Genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG ctgtgaatcttagttagataagctcctgcctgaccaccactctcttctag---TTGCGCTCCCTGCAACAGTACCCGCTACCTTTGCGCAGCGGGAGGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtgagtacctcaaggaggtctcctaaatctctcaggtgcacgctgtgtct Alignment from Pairagon GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG ctgtgaatcttagttagataagctcctgcctgaccaccactctcttctag---TTGCGCTCCCTGCAACAGTACCCGCTACCTTTGCGCAGCGGGAGGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtgagtacctcaaggaggtctcctaaatctctcaggtgcacgctgtgtct Alignment from Exonerate_protein2genome TTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG ctgtgaatcttagttagataagctcctgcctgaccaccactctcttctagTTGCGCTCCCTGCAACAGTACCCGCTACCTTTGCGCAGCGGGAGGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtgagtacctcaaggaggtctcctaaatctctcaggtgcacgctgtgtct Alignment from Exonerate_coding2genome TTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG ctgtgaatcttagttagataagctcctgcctgaccaccactctcttctagTTGCGCTCCCTGCAACAGTACCCGCTACCTTTGCGCAGCGGGAGGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtgagtacctcaaggaggtctcctaaatctctcaggtgcacgctgtgtct Alignment from GeneWise GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG ctgtgaatcttagttagataagctcctgcctgaccaccactctcttctagTTG---CGCTCCCTGCAACAGTACCCGCTACCTTTGCGCAGCGGGAGGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtgagtacctcaaggaggtctcctaaatctctcaggtgcacgctgtgtct #### Myrf_ID2717_20 --> 2 - 1 Original Alignment ttACCAAGTCAGCCTCGGGTCCAGCTCTCCGTGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATCGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCTACAGATCCTGCCCTTGGCCCCACTCTTACTCCTACTCCAAGCCCCAGCTCTAACCCCAAGCACTCAg tgtgcagccccagagtccccctcacctcagaccctgctttctgtccacagtcACCAAGTCAGCTTCAGGTCCAGCGCTCCATGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATTGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCCACAGATCCTGCACTTGGCCCCACACTTACTCCTGCTCCAAGCCCTAGTTCTAACCCC---------ggtgggaatgacggtatccttttgggcaaaggtctggcaaatcccagcaac Alignment from CESAR ttACCAAGTCAGCCTCGGGTCCAGCTCTCCGTGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATCGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCTACAGATCCTGCCCTTGGCCCCACTCTTACTCCTACTCCAAGCCCCAGCTCTAACCCCAAGCACTCAg tgtgcagccccagagtccccctcacctcagaccctgctttctgtccacagtcACCAAGTCAGCTTCAGGTCCAGCGCTCCATGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATTGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCCACAGATCCTGCACTTGGCCCCACACTTACTCCTGCTCCAAGCCCTAGTTCTAACCCC---------ggtgggaatgacggtatccttttgggcaaaggtctggcaaatcccagcaac Alignment from Spaln_aa2Genome TTACCAAGTCAGCCTCGGGTCCAGCTCTCCGTGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATCGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCTACAGATCCTGCCCTTGGCCCCACTCTTACTCCTACTCCAAGCCCCAGCTCTAACCCC---AAGCACTCAG tgtgcagccccagagtccccctcacctcagaccctgctttctgtccacagTCACCAAGTCAGCTTCAGGTCCAGCGCTCCATGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATTGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCCACAGATCCTGCACTTGGCCCCACACTTACTCCTGCTCCAAGCCCTAGTTCTAACCCCGGTGGGAATGACGgtatccttttgggcaaaggtctggcaaatcccagcaac Alignment from Spaln_nt2Genome TTACCAAGTCAGCCTCGGGTCCAGCTCTCCGTGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATCGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCTACAGATCCTGCCCTTGGCCCCACTCTTACTCCTACTCCAAGCCCCAGCTCTAACCCCA tgtgcagccccagagtccccctcacctcagaccctgctttctgtccacagTCACCAAGTCAGCTTCAGGTCCAGCGCTCCATGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATTGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCCACAGATCCTGCACTTGGCCCCACACTTACTCCTGCTCCAAGCCCTAGTTCTAACCCCGgtgggaatgacggtatccttttgggcaaaggtctggcaaatcccagcaac Alignment from Pairagon TTACCAAGTCAGCCTCGGGTCCAGCTCTCCGTGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATCGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCTACAGATCCTGCCCTTGGCCCCACTCTTACTCCTACTCCAAGCCCCAGCTCTAACCCC- tgtgcagccccagagtccccctcacctcagaccctgctttctgtccacagTCACCAAGTCAGCTTCAGGTCCAGCGCTCCATGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATTGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCCACAGATCCTGCACTTGGCCCCACACTTACTCCTGCTCCAAGCCCTAGTTCTAACCCCGgtgggaatgacggtatccttttgggcaaaggtctggcaaatcccagcaac Alignment from Exonerate_protein2genome TTACCAAGTCAGCCTCGGGTCCAGCTCTCCGTGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATCGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCTACAGATCCTGCCCTTGGCCCCACTCTTACTCCTACTCCAAGCCCCAGCTCTAACCCC---AAGCACTCAG tgtgcagccccagagtccccctcacctcagaccctgctttctgtccacagTCACCAAGTCAGCTTCAGGTCCAGCGCTCCATGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATTGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCCACAGATCCTGCACTTGGCCCCACACTTACTCCTGCTCCAAGCCCTAGTTCTAACCCCGGTGGGAATGACGgtatccttttgggcaaaggtctggcaaatcccagcaac Alignment from Exonerate_coding2genome TTACCAAGTCAGCCTCGGGTCCAGCTCTCCGTGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATCGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCTACAGATCCTGCCCTTGGCCCCACTCTTACTCCTACTCCAAGCCCCAGCTCTAACCCC---AAGCACTCAG tgtgcagccccagagtccccctcacctcagaccctgctttctgtccacagTCACCAAGTCAGCTTCAGGTCCAGCGCTCCATGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATTGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCCACAGATCCTGCACTTGGCCCCACACTTACTCCTGCTCCAAGCCCTAGTTCTAACCCCGGTGGGAATGACGgtatccttttgggcaaaggtctggcaaatcccagcaac Alignment from GeneWise TTACCAAGTCAGCCTCGGGTCCAGCTCTCCGTGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATCGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCTACAGATCCTGCCCTTGGCCCCACTCTTACTCCTACTCCAAGCCCCAGCTCTAACCCCAAGCACTCAGGC- tgtgcagccccagagtccccctcacctcagaccctgctttctgtccacagTCACCAAGTCAGCTTCAGGTCCAGCGCTCCATGCCTTGGACCTGTGCTCCAGCCAGCCCTGCCCCATTGTCTGCTGCTCTCCTCCCGTCTCCAGTCCTGCCACAGATCCTGCACTTGGCCCCACACTTACTCCTGCTCCAAGCCCTAGTTCTAACCCCGGTGGGAATGACGgtatccttttgggcaaaggtctggcaaatcccagcaac #### Myrf_ID2719_18 --> 1 - 2 Original Alignment cGTGGTGTCTATGTCCACACTATATGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGATgg cttgcattcagacagtgattcagacagtcagcttgacgtcttctttacagtGTGGTGTCCATGTCAACACTATTTGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCT---gggtgagcagtccatggagatgacattattgttaaacccccaggcccagtgg Alignment from CESAR cGTGGTGTCTATGTCCACACTATATGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGATgg cttgcattcagacagtgattcagacagtcagcttgacgtcttctttacagtGTGGTGTCCATGTCAACACTATTTGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCT---gggtgagcagtccatggagatgacattattgttaaacccccaggcccagtgg Alignment from Spaln_aa2Genome CGTGGTGTCTATGTCCACACTATATGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGA cttgcattcagacagtgattcagacagtcagcttgacgtcttctttacagTGTGGTGTCCATGTCAACACTATTTGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGGgtgagcagtccatggagatgacattattgttaaacccccaggcccagtgg Alignment from Spaln_nt2Genome CGTGGTGTCTATGTCCACACTATATGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTG- cttgcattcagacagtgattcagacagtcagcttgacgtcttctttacagTGTGGTGTCCATGTCAACACTATTTGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGGgtgagcagtccatggagatgacattattgttaaacccccaggcccagtgg Alignment from Pairagon CGTGGTGTCTATGTCCACACTATATGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGA TGG cttgcattcagacagtgattcagacagtcagcttgacgtcttctttacagTGTGGTGTCCATGTCAACACTATTTGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGGgtgagcagtccatggagatgacattattgttaaacccccaggcccagTGG Alignment from Exonerate_protein2genome CGTGGTGTCTATGTCCACACTATATGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGA cttgcattcagacagtgattcagacagtcagcttgacgtcttctttacagTGTGGTGTCCATGTCAACACTATTTGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGGgtgagcagtccatggagatgacattattgttaaacccccaggcccagtgg Alignment from Exonerate_coding2genome CGTGGTGTCTATGTCCACACTATATGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGA cttgcattcagacagtgattcagacagtcagcttgacgtcttctttacagTGTGGTGTCCATGTCAACACTATTTGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGGgtgagcagtccatggagatgacattattgttaaacccccaggcccagtgg Alignment from GeneWise CGTGGTGTCTATGTCCACACTATATGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGA cttgcattcagacagtgattcagacagtcagcttgacgtcttctttacagTGTGGTGTCCATGTCAACACTATTTGTGCTGAGCCTGCGCTCTGAAGAGGACCTGGTGGATGCTGGgtgagcagtccatggagatgacattattgttaaacccccaggcccagtgg #### Myrf_ID2720_17 --> 0 - 2 Original Alignment TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---------------------ag cctaactccaccatcttctgctgtgttccgagtgcctcctttccccacagTCATCGTCAGCAGTCCCAGACCAAGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAATCTCTCATTATTGAAAAGTaggtaaggtgccctctcaggtactggggaggctgctttagaaagcagagcta Alignment from CESAR TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---------------------ag cctaactccaccatcttctgctgtgttccgagtgcctcctttccccacagTCATCGTCAGCAGTCCCAGACCAAGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAATCTCTCATTATTGAAAAGTaggtaaggtgccctctcaggtactggggaggctgctttagaaagcagagcta Alignment from Spaln_aa2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAGC-------------------- cctaactccaccatcttctgctgtgttccgagtgcctcctttccccacagTCATCGTCAGCAGTCCCAGACCAAGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAATCTCTCATTATTGAAAAGTAGgtaaggtgccctctcaggtactggggaggctgctttagaaagcagagcta Alignment from Spaln_nt2Genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATG cctaactccaccatcttctgctgtgttccgagtgcctcctttccccacagTCATCGTCAGCAGTCCCAGACCAAGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGgccttcaatctctcattattgaaaagtaggtaaggtgccctctcaggtactggggaggctgctttagaaagcagagcta Alignment from Pairagon TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC---------------------AG cctaactccaccatcttctgctgtgttccgagtgcctcctttccccacagTCATCGTCAGCAGTCCCAGACCAAGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAATCTCTCATTATTGAAAAGTAGgtaaggtgccctctcaggtactggggaggctgctttagaaagcagagcta Alignment from Exonerate_protein2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTT cctaactccaccatcttctgctgtgttccgagtgcctcctttccccacagTCATCGTCAGCAGTCCCAGACCAAGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTcaatctctcattattgaaaagtaggtaaggtgccctctcaggtactggggaggctgctttagaaagcagagcta Alignment from Exonerate_coding2genome TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTT cctaactccaccatcttctgctgtgttccgagtgcctcctttccccacagTCATCGTCAGCAGTCCCAGACCAAGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTcaatctctcattattgaaaagtaggtaaggtgccctctcaggtactggggaggctgctttagaaagcagagcta Alignment from GeneWise TCATCGCCAGCGGTCCCAGACCAGGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTC------------------AGC-- cctaactccaccatcttctgctgtgttccgagtgcctcctttccccacagTCATCGTCAGCAGTCCCAGACCAAGCCTGCATCAGTCAGCGTTTTCTGCAGGGAACTATCATAGCTCTGGTGGTGGTCATGGCCTTCAATCTCTCATTATTGAAAAGTAGgtaaggtgccctctcaggtactggggaggctgctttagaaagcagagcta #### Myrf_ID2721_16 --> 1 - 0 Original Alignment cCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG--------- ggagagacctcctttcagaaaacgtcctactcctgtcttctttgaaacagcCATGCAGGGAGCGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGTATGGGCAGgtaaagctgtacaggggcaggaggcttcctgctcacctgatgtttctttc Alignment from CESAR cCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG--------- ggagagacctcctttcagaaaacgtcctactcctgtcttctttgaaacagcCATGCAGGGAGCGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGTATGGGCAGgtaaagctgtacaggggcaggaggcttcctgctcacctgatgtttctttc Alignment from Spaln_aa2Genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG--------- ggagagacctcctttcagaaaacgtcctactcctgtcttctttgaaacagCCATGCAGGGAGCGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGTATGGGCAGgtaaagctgtacaggggcaggaggcttcctgctcacctgatgtttctttc Alignment from Spaln_nt2Genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAA ggagagacctcctttcagaaaacgtcctactcctgtcttctttgaaacagCCATGCAGGGAGCGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAgtatgggcaggtaaagctgtacaggggcaggaggcttcctgctcacctgatgtttctttc Alignment from Pairagon CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAA ggagagacctcctttcagaaaacgtcctactcctgtcttctttgaaacagCCATGCAGGGAGCGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAgtatgggcaggtaaagctgtacaggggcaggaggcttcctgctcacctgatgtttctttc Alignment from Exonerate_protein2genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggagagacctcctttcagaaaacgtcctactcctgtcttctttgaaacagCCATGCAGGGAGCGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGtatgggcaggtaaagctgtacaggggcaggaggcttcctgctcacctgatgtttctttc Alignment from Exonerate_coding2genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggagagacctcctttcagaaaacgtcctactcctgtcttctttgaaacagCCATGCAGGGAGCGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGtatgggcaggtaaagctgtacaggggcaggaggcttcctgctcacctgatgtttctttc Alignment from GeneWise CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG--------- ggagagacctcctttcagaaaacgtcctactcctgtcttctttgaaacagCCATGCAGGGAGCGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGTATGGGCAGgtaaagctgtacaggggcaggaggcttcctgctcacctgatgtttctttc #### Myrf_ID2722_15 --> 0 - 2 Original Alignment GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTC---------ag gtacgtgggctaatcaatggtaccctcatgtaaatgtattcctttgacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCACACAACCCaggtaagtgtgccaggcaggtggggctgggggagacgggggcaggagggggg Alignment from CESAR GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTC---------ag gtacgtgggctaatcaatggtaccctcatgtaaatgtattcctttgacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCACACAACCCaggtaagtgtgccaggcaggtggggctgggggagacgggggcaggagggggg Alignment from Spaln_aa2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAGC-------- gtacgtgggctaatcaatggtaccctcatgtaaatgtattcctttgacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCACACAACCCAGgtaagtgtgccaggcaggtggggctgggggagacgggggcaggagggggg Alignment from Spaln_nt2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCA---------G gtacgtgggctaatcaatggtaccctcatgtaaatgtattcctttgacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCACACAACCCAGgtaagtgtgccaggcaggtggggctgggggagacgggggcaggagggggg Alignment from Pairagon GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTT---------CAG gtacgtgggctaatcaatggtaccctcatgtaaatgtattcctttgacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCACACAACCCAGgtaagtgtgccaggcaggtggggctgggggagacgggggcaggagggggg Alignment from Exonerate_protein2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtacgtgggctaatcaatggtaccctcatgtaaatgtattcctttgacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCACacaacccaggtaagtgtgccaggcaggtggggctgggggagacgggggcaggagggggg Alignment from Exonerate_coding2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG gtacgtgggctaatcaatggtaccctcatgtaaatgtattcctttgacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCACacaacccaggtaagtgtgccaggcaggtggggctgggggagacgggggcaggagggggg Alignment from GeneWise GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTC---------AG gtacgtgggctaatcaatggtaccctcatgtaaatgtattcctttgacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCACACAACCCAGgtaagtgtgccaggcaggtggggctgggggagacgggggcaggagggggg #### Myrf_ID2725_12 --> 0 - 0 Original Alignment GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG agcttgacatgcccatgaagtaagggtgtttcttttcaatctctttatag------------------------AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGCATCAACACCGACCCGCCAGATGAGGCATTGGTCGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCCGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagaagaggggcagtgctgtgggtgatgagtaggacccctggaaagca Alignment from CESAR GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG gccctaaagtttgccctgcccccaagtgtttcttttcaatctctttatag------------------------AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGCATCAACACCGACCCGCCAGATGAGGCATTGGTCGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCCGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagaagaggggcagtgctgtgggtgatgagtaggacccctggaaagca Alignment from Spaln_aa2Genome TGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG agcttgacatgcccatgaagtaagggtgtttcttttcaatctctttatagagTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGCATCAACACCGACCCGCCAGATGAGGCATTGGTCGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCCGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagaagaggggcagtgctgtgggtgatgagtaggacccctggaaagca Alignment from Spaln_nt2Genome AGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG agcttgacatgcccatgaagtaagggtgtttcttttcaatctctttatagAGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGCATCAACACCGACCCGCCAGATGAGGCATTGGTCGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCCGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagaagaggggcagtgctgtgggtgatgagtaggacccctggaaagca Alignment from Pairagon GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG agcttgacatgcccatgaagtaagggtgtttcttttcaatctctttatag------------------------AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGCATCAACACCGACCCGCCAGATGAGGCATTGGTCGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCCGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagaagaggggcagtgctgtgggtgatgagtaggacccctggaaagca Alignment from Exonerate_protein2genome AGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG agcttgacatgcccatgaagtaagggtgtttcttttcaatctctttatagAGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGCATCAACACCGACCCGCCAGATGAGGCATTGGTCGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCCGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagaagaggggcagtgctgtgggtgatgagtaggacccctggaaagca Alignment from Exonerate_coding2genome AGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG agcttgacatgcccatgaagtaagggtgtttcttttcaatctctttatagAGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGCATCAACACCGACCCGCCAGATGAGGCATTGGTCGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCCGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagaagaggggcagtgctgtgggtgatgagtaggacccctggaaagca Alignment from GeneWise GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG agcttgacatgcccatgaagtaagggtgtttcttttcaatctctttatagAGT------------------------GATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGCATCAACACCGACCCGCCAGATGAGGCATTGGTCGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCCGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagaagaggggcagtgctgtgggtgatgagtaggacccctggaaagca #### Myrf_ID2726_11 --> 1 - 0 Original Alignment gTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctaaagatacccctgagtgttacctaactcgatggcttcccttccagg---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACCCTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttagaggcagtgtcctccccctcccccaagctg Alignment from CESAR gTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG ggatggctaaagatacccctgagtgcctaactcgatggcttcccttccagg---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACCCTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttagaggcagtgtcctccccctcccccaagctg Alignment from Spaln_aa2Genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctaaagatacccctgagtgttacctaactcgatggcttcccttccagGTTCATGCTG---GTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACCCTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttagaggcagtgtcctccccctcccccaagctg Alignment from Spaln_nt2Genome TTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctaaagatacccctgagtgttacctaactcgatggcttcccttccagGTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACCCTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttagaggcagtgtcctccccctcccccaagctg Alignment from Pairagon GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctaaagatacccctgagtgttacctaactcgatggcttcccttccagG---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACCCTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttagaggcagtgtcctccccctcccccaagctg Alignment from Exonerate_protein2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctaaagatacccctgagtgttacctaactcgatggcttcccttccagG---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACCCTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttagaggcagtgtcctccccctcccccaagctg Alignment from Exonerate_coding2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctaaagatacccctgagtgttacctaactcgatggcttcccttccagG---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACCCTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttagaggcagtgtcctccccctcccccaagctg Alignment from GeneWise GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctaaagatacccctgagtgttacctaactcgatggcttcccttccagG---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACCCTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttagaggcagtgtcctccccctcccccaagctg #### Myrf_ID2727_10 --> 1 - 2 Original Alignment g---------------------------GTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGag tgcagcacagctcctggcagcctcttgacacatctctgtatgccctacaggGATGCCATGGAAAATGGAAAACCTGGTGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACTGTGGGGCGGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGaggtgagcaggctgacctggccccaggacccctctctccccctttctgagga Alignment from CESAR g---------------------------GTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGag tgcagcacagctcctggcagcctcttgacacatctctgtatgccctacaggGATGCCATGGAAAATGGAAAACCTGGTGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACTGTGGGGCGGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGaggtgagcaggctgacctggccccaggacccctctctccccctttctgagga Alignment from Spaln_aa2Genome G----------------------------GTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgcagcacagctcctggcagcctcttgacacatctctgtatgccctacagGGATGCCATGGAAAATGGAAAACCTGGTGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACTGTGGGGCGGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAGgtgagcaggctgacctggccccaggacccctctctccccctttctgagga Alignment from Spaln_nt2Genome GGTCAATCTT----CCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgcagcacagctcctggcagcctcttgacacatctctgtatgccctacagggatgccatggaaaatggaaaacCTGGTGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACTGTGGGGCGGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAGgtgagcaggctgacctggccccaggacccctctctccccctttctgagga Alignment from Pairagon G---------------------------GTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgcagcacagctcctggcagcctcttgacacatctctgtatgccctacagGGATGCCATGGAAAATGGAAAACCTGGTGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACTGTGGGGCGGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAGgtgagcaggctgacctggccccaggacccctctctccccctttctgagga Alignment from Exonerate_protein2genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgcagcacagctcctggcagcctcttgacacatctctgtatgccctacagggatgccatggaaaatggaaaacctggTGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACTGTGGGGCGGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAGgtgagcaggctgacctggccccaggacccctctctccccctttctgagga Alignment from Exonerate_coding2genome GGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgcagcacagctcctggcagcctcttgacacatctctgtatgccctacagggatgccatggaaaatggaaaacctggTGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACTGTGGGGCGGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAGgtgagcaggctgacctggccccaggacccctctctccccctttctgagga Alignment from GeneWise -------------------------ACGGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACCGTGGGGCGGCTCCATTTCAGTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAG tgcagcacagctcctggcagcctcttgacacatctctgtatgccctacagGGATGCCATGGAAAATGGAAAACCTGGTGTCAATCTTCCCCCTGAGCAGGTCACAAAAGTGACTGTGGGGCGGCTCCATTTCACTGAGACCACTGCCAACAACATGCGCAAGAAGGGCAAGCCCAACCCTGACCAGAGgtgagcaggctgacctggccccaggacccctctctccccctttctgagga #### Naaladl1_ID1448_7 --> 1 - 1 Original Alignment t------------------------GAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTg aagactggagagggcttaagttctaattatggcaaggtgacttttggcagtATCACTACAATGCAGCTAGAACGAGAGGTAAAAGTGAGTGTTCACAACAGGTTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAAGGGGCTGTGGAGCCTggtaagcctgtttgcactctgccccaccattcttgagtcttcctgggtcct Alignment from CESAR tGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTg tcagttttctctgagtctgacaggaagactggagagggcttaagttctagtatcactacaatgcagctagaacgaGAGGTAAAAGTGAGTGTTCACAACAGGTTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAAGGGGCTGTGGAGCCTggtaagcctgtttgcactctgccccaccattcttgagtcttcctgggtcct Alignment from Spaln_aa2Genome GCTGGGAGTGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG aagactggagagggcttaagttctaattatggcaaggtgacttttggcagtatcactacaatgcagCTAGAACGAGAGGTAAAAGTGAGTGTTCACAACAGGTTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAAGGGGCTGTGGAGCCTGgtaagcctgtttgcactctgccccaccattcttgagtcttcctgggtcct Alignment from Spaln_nt2Genome GTGAGGTGAAAGT---GAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG aagactggagagggcttaagttctaattatggcaaggtgacttttggcagtatcactacaatgcagctagAACGAGAGGTAAAAGTGAGTGTTCACAACAGGTTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAAGGGGCTGTGGAGCCTGgtaagcctgtttgcactctgccccaccattcttgagtcttcctgggtcct Alignment from Pairagon T------------------------GAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG aagactggagagggcttaagttctaattatggcaaggtgacttttggcagTATCACTACAATGCAGCTAGAACGAGAGGTAAAAGTGAGTGTTCACAACAGGTTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAAGGGGCTGTGGAGCCTGgtaagcctgtttgcactctgccccaccattcttgagtcttcctgggtcct Alignment from Exonerate_protein2genome TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG aagactggagagggcttaagttctaattatggcaaggtgacttttggcagtatcactacaatgcagctagaacgAGAGGTAAAAGTGAGTGTTCACAACAGGTTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAAGGGGCTGTGGAGCCTGgtaagcctgtttgcactctgccccaccattcttgagtcttcctgggtcct Alignment from Exonerate_coding2genome TGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG aagactggagagggcttaagttctaattatggcaaggtgacttttggcagtatcactacaatgcagctagaacgAGAGGTAAAAGTGAGTGTTCACAACAGGTTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAAGGGGCTGTGGAGCCTGgtaagcctgtttgcactctgccccaccattcttgagtcttcctgggtcct Alignment from GeneWise ----------------------AGTGAGGTGAAAGTGAGTGTCCACAACAGGCTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAGGGGGCTGTGGAGCCTG aagactggagagggcttaagttctaattatggcaaggtgacttttggcagTATCACTACAATGCAGCTAGAACGAGAGGTAAAAGTGAGTGTTCACAACAGGTTGGAGCTGAGGACCTCTTCCAATGTCCTGGGCATCATCCAAGGGGCTGTGGAGCCTGgtaagcctgtttgcactctgccccaccattcttgagtcttcctgggtcct #### Naaladl1_ID1451_10 --> 0 - 1 Original Alignment GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCt agtggattgatgtcacttgtcctcctctggcgcatccttctgttttgcag---TTTCTCAGCAAGCTGCAGGAGCGCACGGTGGACTATATCAATGTGGACATCTCTGTTTTCtgtgagtgaggcttggccagctgggcacaggctgggaaggggaggggtcgg Alignment from CESAR GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCt agcagtggattgatgtcacttgtcctctggcgcatccttctgttttgcag---TTTCTCAGCAAGCTGCAGGAGCGCACGGTGGACTATATCAATGTGGACATCTCTGTTTTCtgtgagtgaggcttggccagctgggcacaggctgggaaggggaggggtcgg Alignment from Spaln_aa2Genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT agtggattgatgtcacttgtcctcctctggcgcatccttctgttttgcag---TTTCTCAGCAAGCTGCAGGAGCGCACGGTGGACTATATCAATGTGGACATCTCTGTTTTCTgtgagtgaggcttggccagctgggcacaggctgggaaggggaggggtcgg Alignment from Spaln_nt2Genome TTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT agtggattgatgtcacttgtcctcctctggcgcatccttctgttttgcagTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGACTATATCAATGTGGACATCTCTGTTTTCTgtgagtgaggcttggccagctgggcacaggctgggaaggggaggggtcgg Alignment from Pairagon ------------------------------------------------AGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT AGTGGATTGATGTCACTTGTCCTCCTCTGGCGCATCCTTCTGTTTTGCAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGACTATATCAATGTGGACATCTCTGTTTTCTgtgagtgaggcttggccagctgggcacaggctgggaaggggaggggtcgg Alignment from Exonerate_protein2genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT agtggattgatgtcacttgtcctcctctggcgcatccttctgttttgCAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGACTATATCAATGTGGACATCTCTGTTTTCTgtgagtgaggcttggccagctgggcacaggctgggaaggggaggggtcgg Alignment from Exonerate_coding2genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT agtggattgatgtcacttgtcctcctctggcgcatccttctgttttgCAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGACTATATCAATGTGGACATCTCTGTTTTCTgtgagtgaggcttggccagctgggcacaggctgggaaggggaggggtcgg Alignment from GeneWise TTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT agtggattgatgtcacttgtcctcctctggcgcatccttctgttttgcagTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGACTATATCAATGTGGACATCTCTGTTTTCTgtgagtgaggcttggccagctgggcacaggctgggaaggggaggggtcgg #### Naaladl1_ID1453_12 --> 0 - 2 Original Alignment ---------------------------------------------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag ggtgttaaagctgggttttcctagctattggatgtgactgtcttttgtagACAGGAAGACTATGGAAATACTATACAGACCTTTGGGGCGTTGTGATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCaggtagtcccagaaaccagataggtagggggcccactggcccagcatgtcca Alignment from CESAR aattatgaaaaagtagccaggtgctctgacccaggccttgtgggagacgag Alignment from Spaln_aa2Genome GCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttcctagctattggatgtgactgtcttttgtagacaggaagactatggaaatactatacagacctttggggcgttgtgatcagtgcaccagGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtagtcccagaaaccagataggtagggggcccactggcccagcatgtcca Alignment from Spaln_nt2Genome TGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttcctagctattggatgtgactgtcttttgtagacaggaagactatggaaatactatacagacctttggggcgttgtgatcagTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtagtcccagaaaccagataggtagggggcccactggcccagcatgtcca Alignment from Pairagon -----------------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttcctagctattggatgtgactgtcttttgtagacaggaagactatggaaatactatacagACCTTTGGGGCGTTGTGATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtagtcccagaaaccagataggtagggggcccactggcccagcatgtcca Alignment from Exonerate_protein2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttcctagctattggatgtgactgtcttttgtagacaggaagactatggaaatactatacagacctttggggcgttgtgATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtagtcccagaaaccagataggtagggggcccactggcccagcatgtcca Alignment from Exonerate_coding2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttcctagctattggatgtgactgtcttttgtagacaggaagactatggaaatactatacagacctttggggcgttgtgATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtagtcccagaaaccagataggtagggggcccactggcccagcatgtcca Alignment from GeneWise -----------------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttcctagctattggatgtgactgtcttttgtagacaggaagactatggaaatactatacagACCTTTGGGGCGTTGTGATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtagtcccagaaaccagataggtagggggcccactggcccagcatgtcca #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG---------g gacaaagggatgggatgaagatgtggcctctctttatgtttccttcccaggtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTTAATGTCAGTGACTATAGTGAGACATTACAAAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAGCAGAACGTCAGCCTGCTTGGGAGGggtgagcacaccccaataaggaggctcagggaactctgtatccccaggtag Alignment from CESAR gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG---------g gacaaagggatgggatgaagatgtggcctctctttatgtttccttcccaggtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTTAATGTCAGTGACTATAGTGAGACATTACAAAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAGCAGAACGTCAGCCTGCTTGGGAGGggtgagcacaccccaataaggaggctcagggaactctgtatccccaggtag Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG---------G gacaaagggatgggatgaagatgtggcctctctttatgtttccttcccagGTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTTAATGTCAGTGACTATAGTGAGACATTACAAAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAGCAGAACGTCAGCCTGCTTGGGAGGGgtgagcacaccccaataaggaggctcagggaactctgtatccccaggtag Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG---------G gacaaagggatgggatgaagatgtggcctctctttatgtttccttcccagGTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTTAATGTCAGTGACTATAGTGAGACATTACAAAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAGCAGAACGTCAGCCTGCTTGGGAGGGgtgagcacaccccaataaggaggctcagggaactctgtatccccaggtag Alignment from Pairagon GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------------------------------------------------------------ gacaaagggatgggatgaagatgtggcctctctttatgtttccttcccagGTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTTAATGTCAGTGACTATAGTGAGACATTACAAAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAGCAGAACGTCAGCCTGCTTGGGAGGGGTGAGCACACCCCAATAAGGAGGCTCAGGGAACTCTGTATCCCCAGGTAG Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gacaaagggatgggatgaagatgtggcctctctttatgtttccttcccagGTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTTAATGTCAGTGACTATAGTGAGACATTACAAAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAGCAGAACGTCAGCCTGCttgggaggggtgagcacaccccaataaggaggctcagggaactctgtatccccaggtag Alignment from Exonerate_coding2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gacaaagggatgggatgaagatgtggcctctctttatgtttccttcccagGTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTTAATGTCAGTGACTATAGTGAGACATTACAAAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAGCAGAACGTCAGCCTGCttgggaggggtgagcacaccccaataaggaggctcagggaactctgtatccccaggtag Alignment from GeneWise GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG---------G gacaaagggatgggatgaagatgtggcctctctttatgtttccttcccagGTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTTAATGTCAGTGACTATAGTGAGACATTACAAAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAGCAGAACGTCAGCCTGCTTGGGAGGGgtgagcacaccccaataaggaggctcagggaactctgtatccccaggtag #### Naaladl1_ID1457_16 --> 2 - 2 Original Alignment ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCT---------ga agggaactctgtatccccaggtagggctctctctttttttaatcttttagggCCTTTGGTGACTGCAGTGGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCAGCCCTACCCGCCTCgagtaagtgccagcagagggcaggtgtctggtagggggcacctggcatgcat Alignment from CESAR ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCT---------ga agggaactctgtatccccaggtagggctctctctttttttaatcttttagggCCTTTGGTGACTGCAGTGGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCAGCCCTACCCGCCTCgagtaagtgccagcagagggcaggtgtctggtagggggcacctggcatgcat Alignment from Spaln_aa2Genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGAT-------- agggaactctgtatccccaggtagggctctctctttttttaatcttttagGGCCTTTGGTGACTGCAGTGGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCAGCCCTACCCGCCTCGAgtaagtgccagcagagggcaggtgtctggtagggggcacctggcatgcat Alignment from Spaln_nt2Genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCT---------GA agggaactctgtatccccaggtagggctctctctttttttaatcttttagGGCCTTTGGTGACTGCAGTGGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCAGCCCTACCCGCCTCGAgtaagtgccagcagagggcaggtgtctggtagggggcacctggcatgcat Alignment from Pairagon GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCT---------GA agggaactctgtatccccaggtagggctctctctttttttaatcttttagGGCCTTTGGTGACTGCAGTGGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCAGCCCTACCCGCCTCGAgtaagtgccagcagagggcaggtgtctggtagggggcacctggcatgcat Alignment from Exonerate_protein2genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA agggaactctgtatccccaggtagggctctctctttttttaatcttttagGGCCTTTGGTGACTGCAGTGGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCAGCCCTACccgcctcgagtaagtgccagcagagggcaggtgtctggtagggggcacctggcatgcat Alignment from Exonerate_coding2genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA agggaactctgtatccccaggtagggctctctctttttttaatcttttagGGCCTTTGGTGACTGCAGTGGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCAGCCCTACccgcctcgagtaagtgccagcagagggcaggtgtctggtagggggcacctggcatgcat Alignment from GeneWise GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCT---------GA agggaactctgtatccccaggtagggctctctctttttttaatcttttagGGCCTTTGGTGACTGCAGTGGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCAGCCCTACCCGCCTCGAgtaagtgccagcagagggcaggtgtctggtagggggcacctggcatgcat #### Naaladl1_ID1458_17 --> 1 - 2 Original Alignment tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag gaactgctggcttgcagtgagtttccactaacctctctcctacctcatagt---------GTACGAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACaggtaacactatgctgaaactctggggagggggggtggagcggtggccctct Alignment from CESAR tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag ctggcacctgaactgctggcttgcacactaacctctctcctacctcatagt---------GTACGAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACaggtaacactatgctgaaactctggggagggggggtggagcggtggccctct Alignment from Spaln_aa2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG gaactgctggcttgcagtgagtttccactaacctctctcctacctcatagT---------GTACGAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAGgtaacactatgctgaaactctggggagggggggtggagcggtggccctct Alignment from Spaln_nt2Genome -GTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG gaactgctggcttgcagtgagtttccactaacctctctcctacctcatagTGTACGAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAGgtaacactatgctgaaactctggggagggggggtggagcggtggccctct Alignment from Pairagon TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG gaactgctggcttgcagtgagtttccactaacctctctcctacctcatagT---------GTACGAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAGgtaacactatgctgaaactctggggagggggggtggagcggtggccctct Alignment from Exonerate_protein2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG gaactgctggcttgcagtgagtttccactaacctctctcctACCTCATAGTGTACGAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAGgtaacactatgctgaaactctggggagggggggtggagcggtggccctct Alignment from Exonerate_coding2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG gaactgctggcttgcagtgagtttccactaacctctctcctACCTCATAGTGTACGAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAGgtaacactatgctgaaactctggggagggggggtggagcggtggccctct Alignment from GeneWise TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG gaactgctggcttgcagtgagtttccactaacctctctcctacctcatagT---------GTACGAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAGgtaacactatgctgaaactctggggagggggggtggagcggtggccctct #### Ndufs8_ID194_2 --> 2 - 1 Original Alignment gaCATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACa ggttggggagcagagcttcctggtgtgactaaggtgcatcttttcttcaggaCATCTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCG---------agtaaggagctctaattgccaatattctgacttgagcttgtctgaccattg Alignment from CESAR gaCATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACa ggttggggagcagagcttcctggtgtgactaaggtgcatcttttcttcaggaCATCTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCG---------agtaaggagctctaattgccaatattctgacttgagcttgtctgaccattg Alignment from Spaln_aa2Genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCG- ggttggggagcagagcttcctggtgtgactaaggtgcatcttttcttcagGACATCTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCGAgtaaggagctctaattgccaatattctgacttgagcttgtctgaccattg Alignment from Spaln_nt2Genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGG ggttggggagcagagcttcctggtgtgactaaggtgcatcttttcttcagGACATCTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCGAgtaaggagctctaattgccaatattctgacttgagcttgtctgaccattg Alignment from Pairagon GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ggttggggagcagagcttcctggtgtgactaaggtgcatcttttcttcagGACATCTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCG---------Agtaaggagctctaattgccaatattctgacttgagcttgtctgaccattg Alignment from Exonerate_protein2genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTG ggttggggagcagagcttcctggtgtgactaaggtgcatcttttcttcagGACATCTTAATGGACAAAGCCTTCATAGCAGTGCAGTGgcgagtaaggagctctaattgccaatattctgacttgagcttgtctgaccattg Alignment from Exonerate_coding2genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTG ggttggggagcagagcttcctggtgtgactaaggtgcatcttttcttcagGACATCTTAATGGACAAAGCCTTCATAGCAGTGCAGTGgcgagtaaggagctctaattgccaatattctgacttgagcttgtctgaccattg Alignment from GeneWise A Ggttggggagcagagcttcctggtgtgactaaggtgcatcttttcttcaggacatcttaatggacaaagccttcatagcagtgcagtggcgagtaaggagctctaattgccaatattctgacttgagcttgtctgaccattg #### Ndufv1_ID274_8 --> 0 - 1 Original Alignment ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGg tgttgtggggtgatggctaagatgtctggcttctgctcttttgcccccagACAGACATTGTGAAAGCCATCGCTCATCTCATTGAGTTCTACAAGCATGAGAGCTGT------------------------ggtaaagtttctggaaagattgggagccggcaagcgacctgaacctccctg Alignment from CESAR ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGg tgttgtggggtgatggctaagatgtctggcttctgctcttttgcccccagACAGACATTGTGAAAGCCATCGCTCATCTCATTGAGTTCTACAAGCATGAGAGCTGT------------------------ggtaaagtttctggaaagattgggagccggcaagcgacctgaacctccctg Alignment from Spaln_aa2Genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGG tgttgtggggtgatggctaagatgtctggcttctgctcttttgcccccagACAGACATTGTGAAAGCCATCGCTCATCTCATTGAGTTCTACAAGCATGAGAGCTGTGGTAAAGTTTCTGGAAAGATTGGGAgccggcaagcgacctgaacctccctg Alignment from Spaln_nt2Genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTG tgttgtggggtgatggctaagatgtctggcttctgctcttttgcccccagACAGACATTGTGAAAGCCATCGCTCATCTCATTGAGTTCTACAAGCATGAGAGCTGTGgtaaagtttctggaaagattgggagccggcaagcgacctgaacctccctg Alignment from Pairagon ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTG tgttgtggggtgatggctaagatgtctggcttctgctcttttgcccccagACAGACATTGTGAAAGCCATCGCTCATCTCATTGAGTTCTACAAGCATGAGAGCTGTGgtaaagtttctggaaagattgggagccggcaagcgacctgaacctccctg Alignment from Exonerate_protein2genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGT tgttgtggggtgatggctaagatgtctggcttctgctcttttgcccccagACAGACATTGTGAAAGCCATCGCTCATCTCATTGAGTTCTACAAGCATGAGAGCTGTGGTAAAGTTTCTGGAAAGATTgggagccggcaagcgacctgaacctccctg Alignment from Exonerate_coding2genome CTCGACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGT tgttgtggggtgatggctaagatgtctggcttctgctcttttgcccccag----ACAGACATTGTGAAAGCCATCGCTCATCTCATTGAGTTCTACAAGCATGAGAGCTGTGGTAAAGTTTCTGGAAAGATTgggagccggcaagcgacctgaacctccctg Alignment from GeneWise ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAG tgttgtggggtgatggctaagatgtctggcttctgctcttttgcccccagACAGACATTGTGAAAGCCATCGCTCATCTCATTGAGTTCTACAAGCATGAGAGCTGTGGTAAAgtttctggaaagattgggagccggcaagcgacctgaacctccctg #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT---g ctcctcattgctcctctggaaatccacctctgttggctctggtcccttaggaGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTCAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTACCACTGAAAGAGCTGATTGAGAAACATGCTGTGggtgagtctggagccaactcaggggtagtgcttgggagagggcacagtggg Alignment from CESAR gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT---g ctcctcattgctcctctggaaatccacctctgttggctctggtcccttaggaGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTCAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTACCACTGAAAGAGCTGATTGAGAAACATGCTGTGggtgagtctggagccaactcaggggtagtgcttgggagagggcacagtggg Alignment from Spaln_aa2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT---G ctcctcattgctcctctggaaatccacctctgttggctctggtcccttagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTCAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTACCACTGAAAGAGCTGATTGAGAAACATGCTGTGGgtgagtctggagccaactcaggggtagtgcttgggagagggcacagtggg Alignment from Spaln_nt2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG--- ctcctcattgctcctctggaaatccacctctgttggctctggtcccttagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTCAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTACCACTGAAAGAGCTGATTGAGAAACATGCTGTGGgtgagtctggagccaactcaggggtagtgcttgggagagggcacagtggg Alignment from Pairagon GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG--- ctcctcattgctcctctggaaatccacctctgttggctctggtcccttagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTCAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTACCACTGAAAGAGCTGATTGAGAAACATGCTGTGGgtgagtctggagccaactcaggggtagtgcttgggagagggcacagtggg Alignment from Exonerate_protein2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT---G ctcctcattgctcctctggaaatccacctctgttggctctggtcccttagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTCAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTACCACTGAAAGAGCTGATTGAGAAACATGCTGTGGgtgagtctggagccaactcaggggtagtgcttgggagagggcacagtggg Alignment from Exonerate_coding2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT---G ctcctcattgctcctctggaaatccacctctgttggctctggtcccttagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTCAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTACCACTGAAAGAGCTGATTGAGAAACATGCTGTGGgtgagtctggagccaactcaggggtagtgcttgggagagggcacagtggg Alignment from GeneWise GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT------------------------------------------------------ ctcctcattgctcctctggaaatccacctctgttggctctggtcccttagGAGTGTTTGGCTGCCCCACAACTGTGGCCAATGTGAAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTCAACATCTCTGGCCATGTCAACCACCCCTGCACTGTGGAGGAAGAGATGTCTGTACCACTGAAAGAGCTGATTGAGAAACATGCTGTGGGTGAGTCTGGAGCCAACTCAGGGGTAGTGCTTGGGAGAGGGCACAGTGGG #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca ggtgggtaaggtgtatggggcaactactatgctcttgtttctctctgcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAATTGGGAGTGTGTGCTGTGTCTGTAGGACCCAAGGACATGACT---cagtaagaagtggccctgccctgtcctgcagtgggatgctttttgactgcca Alignment from CESAR ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca ggtgggtaaggtgtatggggcaactactatgctcttgtttctctctgcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAATTGGGAGTGTGTGCTGTGTCTGTAGGACCCAAGGACATGACT---cagtaagaagtggccctgccctgtcctgcagtgggatgctttttgactgcca Alignment from Spaln_aa2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGC ggtgggtaaggtgtatggggcaactactatgctcttgtttctctctgcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAATTGGGAGTGTGTGCTGTGTCTGTAGGACCCAAGGACATGACTCAgtaagaagtggccctgccctgtcctgcagtgggatgctttttgactgcca Alignment from Spaln_nt2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggtgggtaaggtgtatggggcaactactatgctcttgtttctctctgcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAATTGGGAGTGTGTGCTGTGTCTGTAGGACCCAAGGACATGA---CTCAgtaagaagtggccctgccctgtcctgcagtgggatgctttttgactgcca Alignment from Pairagon ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggtgggtaaggtgtatggggcaactactatgctcttgtttctctctgcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAATTGGGAGTGTGTGCTGTGTCTGTAGGACCCAAGGACATGA---CTCAgtaagaagtggccctgccctgtcctgcagtgggatgctttttgactgcca Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGC ggtgggtaaggtgtatggggcaactactatgctcttgtttctctctgcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAATTGGGAGTGTGTGCTGTGTCTGTAGGACCCAAGGACATGACTCAgtaagaagtggccctgccctgtcctgcagtgggatgctttttgactgcca Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGC ggtgggtaaggtgtatggggcaactactatgctcttgtttctctctgcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAATTGGGAGTGTGTGCTGTGTCTGTAGGACCCAAGGACATGACTCAgtaagaagtggccctgccctgtcctgcagtgggatgctttttgactgcca Alignment from GeneWise ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGC ggtgggtaaggtgtatggggcaactactatgctcttgtttctctctgcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAATTGGGAGTGTGTGCTGTGTCTGTAGGACCCAAGGACATGACTCAgtaagaagtggccctgccctgtcctgcagtgggatgctttttgactgcca #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg gcctcatggtcaaagtggacccaaagcttttgtttccgttctgcacacaga---AATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGATCCAAACCTCAGGGCCTTACAggtgagataacaaaaggtgttctgagaggtgttcctagaggagccaggaag Alignment from CESAR aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg agagcctcatggtcaaagtggacccgcttttgtttccgttctgcacacaga---AATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGATCCAAACCTCAGGGCCTTACAggtgagataacaaaaggtgttctgagaggtgttcctagaggagccaggaag Alignment from Spaln_aa2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gcctcatggtcaaagtggacccaaagcttttgtttccgttctgcacacagA---AATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGATCCAAACCTCAGGGCCTTACAGgtgagataacaaaaggtgttctgagaggtgttcctagaggagccaggaag Alignment from Spaln_nt2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gcctcatggtcaaagtggacccaaagcttttgtttccgttctgcacacagA---AATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGATCCAAACCTCAGGGCCTTACAGgtgagataacaaaaggtgttctgagaggtgttcctagaggagccaggaag Alignment from Pairagon ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gcctcatggtcaaagtggacccaaagcttttgtttccgttctgcacacagA---AATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGATCCAAACCTCAGGGCCTTACAGgtgagataacaaaaggtgttctgagaggtgttcctagaggagccaggaag Alignment from Exonerate_protein2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gcctcatggtcaaagtggacccaaagcttttgtttccgttctgcacacagA---AATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGATCCAAACCTCAGGGCCTTACAGgtgagataacaaaaggtgttctgagaggtgttcctagaggagccaggaag Alignment from Exonerate_coding2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gcctcatggtcaaagtggacccaaagcttttgtttccgttctgcacacagA---AATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGATCCAAACCTCAGGGCCTTACAGgtgagataacaaaaggtgttctgagaggtgttcctagaggagccaggaag Alignment from GeneWise ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG gcctcatggtcaaagtggacccaaagcttttgtttccgttctgcacacagA---AATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGATCCAAACCTCAGGGCCTTACAGgtgagataacaaaaggtgttctgagaggtgttcctagaggagccaggaag #### Nfkb2_ID9830_8 --> 2 - 1 Original Alignment agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg caagcctgcaagccaatcaatgtgtccctttgtttgtttcttttggacagagTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCGGGTTCCGTGCGCGGTGGAGATGAAGTTTATTTGCTCTGTGAGAAGGTGCAA---ggtgagtagtcagaagctccctgggactggctgtagaggtaatctggggat Alignment from CESAR agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg caagcctgcaagccaatcaatgtgtccctttgtttgtttcttttggacagagTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCGGGTTCCGTGCGCGGTGGAGATGAAGTTTATTTGCTCTGTGAGAAGGTGCAA---ggtgagtagtcagaagctccctgggactggctgtagaggtaatctggggat Alignment from Spaln_aa2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG caagcctgcaagccaatcaatgtgtccctttgtttgtttcttttggacagAGTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCGGGTTCCGTGCGCGGTGGAGATGAAGTTTATTTGCTCTGTGAGAAGGTGCAA---Ggtgagtagtcagaagctccctgggactggctgtagaggtaatctggggat Alignment from Spaln_nt2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG caagcctgcaagccaatcaatgtgtccctttgtttgtttcttttggacagAGTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCGGGTTCCGTGCGCGGTGGAGATGAAGTTTATTTGCTCTGTGAGAAGGTGC---AAGgtgagtagtcagaagctccctgggactggctgtagaggtaatctggggat Alignment from Pairagon AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG caagcctgcaagccaatcaatgtgtccctttgtttgtttcttttggacagAGTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCGGGTTCCGTGCGCGGTGGAGATGAAGTTTATTTGCTCTGTGAGAAGGTGC---AAGgtgagtagtcagaagctccctgggactggctgtagaggtaatctggggat Alignment from Exonerate_protein2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAA caagcctgcaagccaatcaatgtgtccctttgtttgtttcttttggacagAGTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCGGGTTCCGTGCGCGGTGGAGATGAAGTTTATTTGCTCTGTGAGAAGGTGCAAGgtgagtagtcagaagctccctgggactggctgtagaggtaatctggggat Alignment from Exonerate_coding2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAA caagcctgcaagccaatcaatgtgtccctttgtttgtttcttttggacagAGTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCGGGTTCCGTGCGCGGTGGAGATGAAGTTTATTTGCTCTGTGAGAAGGTGCAAGgtgagtagtcagaagctccctgggactggctgtagaggtaatctggggat Alignment from GeneWise AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAA caagcctgcaagccaatcaatgtgtccctttgtttgtttcttttggacagAGTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCGGGTTCCGTGCGCGGTGGAGATGAAGTTTATTTGCTCTGTGAGAAGGTGCAAGgtgagtagtcagaagctccctgggactggctgtagaggtaatctggggat #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment ac---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cagcagggctgcaagctctccctgtggctttttgcttctggttattgtagacTGTGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGgtaggtagggactagagcctgtcctggagacagaactacggagatacatt Alignment from CESAR ac---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cagcagggctgcaagctctccctgtggctttttgcttctggttattgtagacTGTGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGgtaggtagggactagagcctgtcctggagacagaactacggagatacatt Alignment from Spaln_aa2Genome AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cagcagggctgcaagctctccctgtggctttttgcttctggttattgtagACTGTGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGgtaggtagggactagagcctgtcctggagacagaactacggagatacatt Alignment from Spaln_nt2Genome AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cagcagggctgcaagctctccctgtggctttttgcttctggttattgtagACTGTGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGgtaggtagggactagagcctgtcctggagacagaactacggagatacatt Alignment from Pairagon AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cagcagggctgcaagctctccctgtggctttttgcttctggttattgtagACTGTGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGgtaggtagggactagagcctgtcctggagacagaactacggagatacatt Alignment from Exonerate_protein2genome AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cagcagggctgcaagctctccctgtggctttttgcttctggttattgtagACTGTGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGgtaggtagggactagagcctgtcctggagacagaactacggagatacatt Alignment from Exonerate_coding2genome AC---GACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cagcagggctgcaagctctccctgtggctttttgcttctggttattgtagACTGTGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGgtaggtagggactagagcctgtcctggagacagaactacggagatacatt Alignment from GeneWise --GACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cagcagggctgcaagctctccctgtggctttttgcttctggttattgtagACTGTGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGgtaggtagggactagagcctgtcctggagacagaactacggagatacatt #### Nfkb2_ID9833_11 --> 2 - 1 Original Alignment ac------AAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg agggtctgatccatattaggtttcgacaaaagtccctttgtgttcaacagacTGGCTGAAGGAGGAAGTGCAGAGGAAGAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCACATGGGTGGAGGTTCTGGGGGCTCTGCTGGGGGTTATGGAGGTGCTGGAGGAggtagaagggtgcaagtggcagggggaaggatggaggagataagggaagct Alignment from CESAR ac------AAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg agggtctgatccatattaggtttcgacaaaagtccctttgtgttcaacagacTGGCTGAAGGAGGAAGTGCAGAGGAAGAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCACATGGGTGGAGGTTCTGGGGGCTCTGCTGGGGGTTATGGAGGTGCTGGAGGAggtagaagggtgcaagtggcagggggaaggatggaggagataagggaagct Alignment from Spaln_aa2Genome ACAAGGAGGAAGTGCAG------AGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG agggtctgatccatattaggtttcgacaaaagtccctttgtgttcaacagACTGGCTGAAGGAGGAAGTGCAGAGGAAGAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCACATGGGTGGAGGTTCTGGGGGCTCTGCTGGGGGTTATGGAGGTGCTGGAGGAGgtagaagggtgcaagtggcagggggaaggatggaggagataagggaagct Alignment from Spaln_nt2Genome AC------AAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG agggtctgatccatattaggtttcgacaaaagtccctttgtgttcaacagACTGGCTGAAGGAGGAAGTGCAGAGGAAGAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCACATGGGTGGAGGTTCTGGGGGCTCTGCTGGGGGTTATGGAGGTGCTGGAGGAGgtagaagggtgcaagtggcagggggaaggatggaggagataagggaagct Alignment from Pairagon AC------AAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG agggtctgatccatattaggtttcgacaaaagtccctttgtgttcaacagACTGGCTGAAGGAGGAAGTGCAGAGGAAGAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCACATGGGTGGAGGTTCTGGGGGCTCTGCTGGGGGTTATGGAGGTGCTGGAGGAGgtagaagggtgcaagtggcagggggaaggatggaggagataagggaagct Alignment from Exonerate_protein2genome AC------AAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG agggtctgatccatattaggtttcgacaaaagtccctttgtgttcaacagACTGGCTGAAGGAGGAAGTGCAGAGGAAGAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCACATGGGTGGAGGTTCTGGGGGCTCTGCTGGGGGTTATGGAGGTGCTGGAGGAGgtagaagggtgcaagtggcagggggaaggatggaggagataagggaagct Alignment from Exonerate_coding2genome AC------AAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG agggtctgatccatattaggtttcgacaaaagtccctttgtgttcaacagACTGGCTGAAGGAGGAAGTGCAGAGGAAGAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCACATGGGTGGAGGTTCTGGGGGCTCTGCTGGGGGTTATGGAGGTGCTGGAGGAGgtagaagggtgcaagtggcagggggaaggatggaggagataagggaagct Alignment from GeneWise -----GACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG agggtctgatccatattaggtttcgacaaaagtccctttgtgttcaacagACTGGCTGAAGGAGGAAGTGCAGAGGAAGAGGAGGAAGGCCTTGCCCACCTTCTCCCAGCCCTTTGGGGGTGGAACCCACATGGGTGGAGGTTCTGGGGGCTCTGCTGGGGGTTATGGAGGTGCTGGAGGAGgtagaagggtgcaagtggcagggggaaggatggaggagataagggaagct #### Nfkb2_ID9834_12 --> 2 - 1 Original Alignment gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg gggagagtcctggatggcacctcactgactgactaaccttgttcgtataggt---AGCCTTGGCTTTTTCTCCTCCTCCTTGGCCTATAACCCCTACCAATCTGGTGCATCCCCAATGGGCTGTTATCTGGGTGGGGGAGGTGGAGCGCAGATGGCTGGTTCTAGACGGGATACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACACCCCCGGAGGCTCCCCAGGGTGAACCACAGGCCCTTGACACACTGCAGCGAggtaaggctcaggaatgctgggggttagcatgcaccttgtcttgatgtttt Alignment from CESAR gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg tctgggagagtcctggatggcaccttgactgactaaccttgttcgtataggt---AGCCTTGGCTTTTTCTCCTCCTCCTTGGCCTATAACCCCTACCAATCTGGTGCATCCCCAATGGGCTGTTATCTGGGTGGGGGAGGTGGAGCGCAGATGGCTGGTTCTAGACGGGATACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACACCCCCGGAGGCTCCCCAGGGTGAACCACAGGCCCTTGACACACTGCAGCGAggtaaggctcaggaatgctgggggttagcatgcaccacagtgctgttctgc Alignment from Spaln_aa2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG gggagagtcctggatggcacctcactgactgactaaccttgttcgtatagGTAGCCTTGGC---TTTTTCTCCTCCTCCTTGGCCTATAACCCCTACCAATCTGGTGCATCCCCAATGGGCTGTTATCTGGGTGGGGGAGGTGGAGCGCAGATGGCTGGTTCTAGACGGGATACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACACCCCCGGAGGCTCCCCAGGGTGAACCACAGGCCCTTGACACACTGCAGCGAGgtaaggctcaggaatgctgggggttagcatgcaccttgtcttgatgtttt Alignment from Spaln_nt2Genome GCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG gggagagtcctggatggcacctcactgactgactaaccttgttcgtatagGTAGCCTTGGCTTTTTCTCCTCCTCCTTGGCCTATAACCCCTACCAATCTGGTGCATCCCCAATGGGCTGTTATCTGGGTGGGGGAGGTGGAGCGCAGATGGCTGGTTCTAGACGGGATACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACACCCCCGGAGGCTCCCCAGGGTGAACCACAGGCCCTTGACACACTGCAGCGAGgtaaggctcaggaatgctgggggttagcatgcaccaaatgcccttttctg Alignment from Pairagon -------------------------------------------------GGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG GGGAGAGTCCTGGATGGCACCTCACTGACTGACTAACCTTGTTCGTATAGGTAGCCTTGGCTTTTTCTCCTCCTCCTTGGCCTATAACCCCTACCAATCTGGTGCATCCCCAATGGGCTGTTATCTGGGTGGGGGAGGTGGAGCGCAGATGGCTGGTTCTAGACGGGATACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACACCCCCGGAGGCTCCCCAGGGTGAACCACAGGCCCTTGACACACTGCAGCGAGgtaaggctcaggaatgctgggggttagcatgcaccaaatgcccttttctg Alignment from Exonerate_protein2genome GCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG gggagagtcctggatggcacctcactgactgactaaccttgttcgtatagGTAGCCTTGGCTTTTTCTCCTCCTCCTTGGCCTATAACCCCTACCAATCTGGTGCATCCCCAATGGGCTGTTATCTGGGTGGGGGAGGTGGAGCGCAGATGGCTGGTTCTAGACGGGATACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACACCCCCGGAGGCTCCCCAGGGTGAACCACAGGCCCTTGACACACTGCAGCGAGgtaaggctcaggaatgctgggggttagcatgcaccttgtcttgatgtttt Alignment from Exonerate_coding2genome GCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG gggagagtcctggatggcacctcactgactgactaaccttgttcgtatagGTAGCCTTGGCTTTTTCTCCTCCTCCTTGGCCTATAACCCCTACCAATCTGGTGCATCCCCAATGGGCTGTTATCTGGGTGGGGGAGGTGGAGCGCAGATGGCTGGTTCTAGACGGGATACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACACCCCCGGAGGCTCCCCAGGGTGAACCACAGGCCCTTGACACACTGCAGCGAGgtaaggctcaggaatgctgggggttagcatgcaccttgtcttgatgtttt Alignment from GeneWise GCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGA--------------------------------------------------- gggagagtcctggatggcacctcactgactgactaaccttgttcgtatagGTAGCCTTGGCTTTTTCTCCTCCTCCTTGGCCTATAACCCCTACCAATCTGGTGCATCCCCAATGGGCTGTTATCTGGGTGGGGGAGGTGGAGCGCAGATGGCTGGTTCTAGACGGGATACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACACCCCCGGAGGCTCCCCAGGGTGAACCACAGGCCCTTGACACACTGCAGCGAGGTAAGGCTCAGGAATGCTGGGGGTTAGCATGCACCAAATGCCCTTTTCTG #### Nfkb2_ID9836_14 --> 1 - 0 Original Alignment gCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ctggggttctgaagaacaacttacctattcgttcacaaatctctttgcagc---------CTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCATGCTCAGTACCTCGGCGTAATAAACCTCACCAACCACCTGCACCAGgtgaggggaaggcttttttaagagattgaaagtaaggagtccaaagctgg Alignment from CESAR gCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG tctgggtgactggggttctgaagaatattcgttcacaaatctctttgcagc---------CTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCATGCTCAGTACCTCGGCGTAATAAACCTCACCAACCACCTGCACCAGgtgaggggaaggcttttttaagagattgaaagtaaggagtccaaagctgg Alignment from Spaln_aa2Genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ctggggttctgaagaacaacttacctattcgttcacaaatctctttgcagC---------CTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCATGCTCAGTACCTCGGCGTAATAAACCTCACCAACCACCTGCACCAGgtgaggggaaggcttttttaagagattgaaagtaaggagtccaaagctgg Alignment from Spaln_nt2Genome CCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ctggggttctgaagaacaacttacctattcgttcacaaatctctttgcagCCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCATGCTCAGTACCTCGGCGTAATAAACCTCACCAACCACCTGCACCAGgtgaggggaaggcttttttaagagattgaaagtaaggagtccaaagctgg Alignment from Pairagon GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ctggggttctgaagaacaacttacctattcgttcacaaatctctttgcag---------CCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCATGCTCAGTACCTCGGCGTAATAAACCTCACCAACCACCTGCACCAGgtgaggggaaggcttttttaagagattgaaagtaaggagtccaaagctgg Alignment from Exonerate_protein2genome GCCACTG---CACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ctggggttctgaagaacaacttacctattcgttcacaaATCTCTTTGCAGCCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCATGCTCAGTACCTCGGCGTAATAAACCTCACCAACCACCTGCACCAGgtgaggggaaggcttttttaagagattgaaagtaaggagtccaaagctgg Alignment from Exonerate_coding2genome GCCACTG---CACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ctggggttctgaagaacaacttacctattcgttcacaaATCTCTTTGCAGCCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCATGCTCAGTACCTCGGCGTAATAAACCTCACCAACCACCTGCACCAGgtgaggggaaggcttttttaagagattgaaagtaaggagtccaaagctgg Alignment from GeneWise GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ctggggttctgaagaacaacttacctattcgttcacaaatctctttgcagC---------CTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCATGCTCAGTACCTCGGCGTAATAAACCTCACCAACCACCTGCACCAGgtgaggggaaggcttttttaagagattgaaagtaaggagtccaaagctgg #### Nfkb2_ID9837_15 --> 0 - 1 Original Alignment ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg gattgaaagtaaggagtccaaagctggcggagctcatactgtcttaccagACACCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCCCTCCGGGCAGGTGCAGCAGCCCCCGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---------------------ggtaagttgccaacatactcctagaccaatatagatcagccaagtactggg Alignment from CESAR ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg gattgaaagtaaggagtccaaagctggcggagctcatactgtcttaccagACACCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCCCTCCGGGCAGGTGCAGCAGCCCCCGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---------------------ggtaagttgccaacatactcctagaccaatatagatcagccaagtactggg Alignment from Spaln_aa2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCA gattgaaagtaaggagtccaaagctggcggagctcatactgtcttaccagACACCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCCCTCCGGGCAGGTGCAGCAGCCCCCGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATAGGTAAgttgccaacatactcctagaccaatatagatcagccaagtactggg Alignment from Spaln_nt2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATA- gattgaaagtaaggagtccaaagctggcggagctcatactgtcttaccagACACCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCCCTCCGGGCAGGTGCAGCAGCCCCCGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATAGgtaagttgccaacatactcctagaccaatatagatcagccaagtactggg Alignment from Pairagon ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG gattgaaagtaaggagtccaaagctggcggagctcatactgtcttaccagACACCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCCCTCCGGGCAGGTGCAGCAGCCCCCGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---------------------Ggtaagttgccaacatactcctagaccaatatagatcagccaagtactggg Alignment from Exonerate_protein2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAG gattgaaagtaaggagtccaaagctggcggagctcatactgtcttaccagACACCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCCCTCCGGGCAGGTGCAGCAGCCCCCGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATAGGTAAGTTGCCAACATACTCCtagaccaatatagatcagccaagtactggg Alignment from Exonerate_coding2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAG gattgaaagtaaggagtccaaagctggcggagctcatactgtcttaccagACACCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCCCTCCGGGCAGGTGCAGCAGCCCCCGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATAGGTAAGTTGCCAACATACTCCtagaccaatatagatcagccaagtactggg Alignment from GeneWise ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATAT gattgaaagtaaggagtccaaagctggcggagctcatactgtcttaccagACACCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCCCTCCGGGCAGGTGCAGCAGCCCCCGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATAGgtaagttgccaacatactcctagaccaatatagatcagccaagtactggg #### Nfkb2_ID9838_16 --> 2 - 0 Original Alignment gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG--------- ggaggccattttgaggatcaaagctgcatgtggatacctccttctttcaggaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGTCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTACATCTAGCGACAGAGATGGAGGAGTTGGGGCTGGTCACCCATTTAGTCACCAAGGATCTGTACgtgaggatgaggactatggacgggatggggcagactgtgggccgtcctcg Alignment from CESAR gaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG--------- ggaggccattttgaggatcaaagctgcatgtggatacctccttctttcaggaCTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGTCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTACATCTAGCGACAGAGATGGAGGAGTTGGGGCTGGTCACCCATTTAGTCACCAAGGATCTGTACgtgaggatgaggactatggacgggatggggcagactgtgggccgtcctcg Alignment from Spaln_aa2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG--------- ggaggccattttgaggatcaaagctgcatgtggatacctccttctttcagGACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGTCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTACATCTAGCGACAGAGATGGAGGAGTTGGGGCTGGTCACCCATTTAGTCACCAAGGATCTGTACgtgaggatgaggactatggacgggatggggcagactgtgggccgtcctcg Alignment from Spaln_nt2Genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG----- ggaggccattttgaggatcaaagctgcatgtggatacctccttctttcagGACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGTCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTACATCTAGCGACAGAGATGGAGGAGTTGGGGCTGGTCACCCATTTAGTCACCAAGGATCTgtacgtgaggatgaggactatggacgggatggggcagactgtgggccgtcctcg Alignment from Pairagon GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG--------- ggaggccattttgaggatcaaagctgcatgtggatacctccttctttcagGACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGTCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTACATCTAGCGACAGAGATGGAGGAGTTGGGGCTGGTCACCCATTTAGTCACCAAGGATCTGTACgtgaggatgaggactatggacgggatggggcagactgtgggccgtcctcg Alignment from Exonerate_protein2genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ggaggccattttgaggatcaaagctgcatgtggatacctccttctttcagGACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGTCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTACATCTAGCGACAGAGATGGAGGAGTTGGGGCTGGTCACCCATTTAGTCACCAAGgatctgtacgtgaggatgaggactatggacgggatggggcagactgtgggccgtcctcg Alignment from Exonerate_coding2genome GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG ggaggccattttgaggatcaaagctgcatgtggatacctccttctttcagGACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGTCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTACATCTAGCGACAGAGATGGAGGAGTTGGGGCTGGTCACCCATTTAGTCACCAAGgatctgtacgtgaggatgaggactatggacgggatggggcagactgtgggccgtcctcg Alignment from GeneWise GACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGCCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTGCATCTAGCCACAGAGATGGAGGAGTTGGGGCTGGTCACCCATCTAGTCACCAAG--------- ggaggccattttgaggatcaaagctgcatgtggatacctccttctttcagGACTATACCCTGTACACCTGGCAGTCCATGCCCGAAGCCCTGAGTGTCTGGATCTGTTAGTTGACTGTGGAGCTGAAGTGGAGGCCCCAGAGAGGCAAGGGGGCCGAACTGCCCTACATCTAGCGACAGAGATGGAGGAGTTGGGGCTGGTCACCCATTTAGTCACCAAGGATCTGTACgtgaggatgaggactatggacgggatggggcagactgtgggccgtcctcg #### Nfkb2_ID9842_20 --> 2 - 0 Original Alignment ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctattagctagatcaccacatttggaatctctcttttctttggtctctaggg------------CTGGGGGATGCAGCCCTGCAGAACCTGGAACAACTGCTAGATGGTCCTGAAGCGCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAAACCCCGTCTCCCAGTGGCAGTCTCCTTCGTAGTTACAAGgtgagtcagctataccctgccctgaagcctgaatccttggcctctcagag Alignment from CESAR ggCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG gtccctgcacacctattagctagataatctctcttttctttggtctctaggg------------CTGGGGGATGCAGCCCTGCAGAACCTGGAACAACTGCTAGATGGTCCTGAAGCGCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAAACCCCGTCTCCCAGTGGCAGTCTCCTTCGTAGTTACAAGgtgagtcagctataccctgccctgaagcctgaatccttggcctctcagag Alignment from Spaln_aa2Genome CCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctattagctagatcaccacatttggaatctctcttttctttggtctctagGGCTGGGGGATGCAGCCCTGCAGAACCTGGAACAACTGCTAGATGGTCCTGAAGCGCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAAACCCCGTCTCCCAGTGGCAGTCTCCTTCGTAGTTACAAGgtgagtcagctataccctgccctgaagcctgaatccttggcctctcagag Alignment from Spaln_nt2Genome CCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctattagctagatcaccacatttggaatctctcttttctttggtctctagGGCTGGGGGATGCAGCCCTGCAGAACCTGGAACAACTGCTAGATGGTCCTGAAGCGCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAAACCCCGTCTCCCAGTGGCAGTCTCCTTCGTAGTTACAAGgtgagtcagctataccctgccctgaagcctgaatccttggcctctcagag Alignment from Pairagon GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctattagctagatcaccacatttggaatctctcttttctttggtctctagGG------------CTGGGGGATGCAGCCCTGCAGAACCTGGAACAACTGCTAGATGGTCCTGAAGCGCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAAACCCCGTCTCCCAGTGGCAGTCTCCTTCGTAGTTACAAGgtgagtcagctataccctgccctgaagcctgaatccttggcctctcagag Alignment from Exonerate_protein2genome AGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctattagctagatcaccacatttggaatctctcttttctttgGTCTCTAGGGCTGGGGGATGCAGCCCTGCAGAACCTGGAACAACTGCTAGATGGTCCTGAAGCGCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAAACCCCGTCTCCCAGTGGCAGTCTCCTTCGTAGTTACAAGgtgagtcagctataccctgccctgaagcctgaatccttggcctctcagag Alignment from Exonerate_coding2genome AGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctattagctagatcaccacatttggaatctctcttttctttgGTCTCTAGGGCTGGGGGATGCAGCCCTGCAGAACCTGGAACAACTGCTAGATGGTCCTGAAGCGCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAAACCCCGTCTCCCAGTGGCAGTCTCCTTCGTAGTTACAAGgtgagtcagctataccctgccctgaagcctgaatccttggcctctcagag Alignment from GeneWise GGCCAGGGCTGTCCCTGGGGGATGCAGCCCTGCAGAACCTGGAGCAACTGCTGGATGGTCCCGAAGCCCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAGACCCCGTCTCCCAGCGGCAGTCTCCTTCGTAGTTACAAG ctattagctagatcaccacatttggaatctctcttttctttggtctctagGG------------CTGGGGGATGCAGCCCTGCAGAACCTGGAACAACTGCTAGATGGTCCTGAAGCGCAGGGCAGCTGGGCAGAGCTGGCAGAGCGACTGGGGTTGAGAAGCCTGGTGGACACATACAGGAAAACCCCGTCTCCCAGTGGCAGTCTCCTTCGTAGTTACAAGgtgagtcagctataccctgccctgaagcctgaatccttggcctctcagag #### Nfkb2_ID9843_21 --> 0 - 1 Original Alignment CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAg actccacaccctaatcatcactcagaccgaattttgtgtgtttaattcagCTAGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTTCATGAGGGAGTCAGGCTTCTGAAAGGTCCTGAGACCCGTGACAAGCTGCCC------ggtgagacgcacaacaggcaccctggaaggtgtgtctgggcttagaggaga Alignment from CESAR CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAg actccacaccctaatcatcactcagaccgaattttgtgtgtttaattcagCTAGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTTCATGAGGGAGTCAGGCTTCTGAAAGGTCCTGAGACCCGTGACAAGCTGCCC------ggtgagacgcacaacaggcaccctggaaggtgtgtctgggcttagaggaga Alignment from Spaln_aa2Genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCC- actccacaccctaatcatcactcagaccgaattttgtgtgtttaattcagCTAGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTTCATGAGGGAGTCAGGCTTCTGAAAGGTCCTGAGACCCGTGACAAGCTGCCCGgtgagacgcacaacaggcaccctggaaggtgtgtctgggcttagaggaga Alignment from Spaln_nt2Genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG actccacaccctaatcatcactcagaccgaattttgtgtgtttaattcagCTAGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTTCATGAGGGAGTCAGGCTTCTGAAAGGTCCTGAGACCCGTGACAAGCTGCCC------Ggtgagacgcacaacaggcaccctggaaggtgtgtctgggcttagaggaga Alignment from Pairagon CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCAGCACAG actccacaccctaatcatcactcagaccgaattttgtgtgtttaattcagCTAGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTTCATGAGGGAGTCAGGCTTCTGAAAGGTCCTGAGACCCGTGACAAGCTGCCC------Ggtgagacgcacaacaggcaccctggaaggtgtgtctgggcttagaggaga Alignment from Exonerate_protein2genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCA actccacaccctaatcatcactcagaccgaattttgtgtgtttaattcagCTAGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTTCATGAGGGAGTCAGGCTTCTGAAAGGTCCTGAGACCCGTGACAAGCTGCCCGgtgagacgcacaacaggcaccctggaaggtgtgtctgggcttagaggaga Alignment from Exonerate_coding2genome CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCA actccacaccctaatcatcactcagaccgaattttgtgtgtttaattcagCTAGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTTCATGAGGGAGTCAGGCTTCTGAAAGGTCCTGAGACCCGTGACAAGCTGCCCGgtgagacgcacaacaggcaccctggaaggtgtgtctgggcttagaggaga Alignment from GeneWise CTGGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTCCATGAGGGAGTCAGGCTGCTGAAAGGTCCTGAGACCCGCGACAAGCTGCCCA actccacaccctaatcatcactcagaccgaattttgtgtgtttaattcagCTAGCTGGTGGGGACTTGGTGGGTCTATTGGAGGCCTTGTCTGACATGGGTCTTCATGAGGGAGTCAGGCTTCTGAAAGGTCCTGAGACCCGTGACAAGCTGCCCGgtgagacgcacaacaggcaccctggaaggtgtgtctgggcttagaggaga #### Noc3l_ID7659_16 --> 2 - 1 Original Alignment gtGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg gtcactgaagactaacttaaccaaagtttgacttctcctttctgtaataggtGATGTTTTGAATATTGACCCGATGAAATTTTATACACATCTCTTCCAGACACTGTTCACATTACAT---ggtgagtgagcgtgcttggtacatatgtgtgtctgaaagcctgtttgatca Alignment from CESAR gtGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg gtcactgaagactaacttaaccaaagtttgacttctcctttctgtaataggtGATGTTTTGAATATTGACCCGATGAAATTTTATACACATCTCTTCCAGACACTGTTCACATTACAT---ggtgagtgagcgtgcttggtacatatgtgtgtctgaaagcctgtttgatca Alignment from Spaln_aa2Genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACAT- gtcactgaagactaacttaaccaaagtttgacttctcctttctgtaatagGTGATGTTTTGAATATTGACCCGATGAAATTTTATACACATCTCTTCCAGACACTGTTCACATTACATGgtgagtgagcgtgcttggtacatatgtgtgtctgaaagcctgtttgatca Alignment from Spaln_nt2Genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG- gtcactgaagactaacttaaccaaagtttgacttctcctttctgtaatagGTGATGTTTTGAATATTGACCCGATGAAATTTTATACACATCTCTTCCAGACACTGTTCACATTACATGGTGAgtgagcgtgcttggtacatatgtgtgtctgaaagcctgtttgatca Alignment from Pairagon GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATG gtcactgaagactaacttaaccaaagtttgacttctcctttctgtaatagGTGATGTTTTGAATATTGACCCGATGAAATTTTATACACATCTCTTCCAGACACTGTTCACATTACATGgtgagtgagcgtgcttggtacatatgtgtgtctgaaagcctgtttgatca Alignment from Exonerate_protein2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG gtcactgaagactaacttaaccaaagtttgacttctcctttctgtaatagGTGATGTTTTGAATATTGACCCGATGAAATTTTATACACATCTCTTCCAGACACTGTTCACATTACAT---Ggtgagtgagcgtgcttggtacatatgtgtgtctgaaagcctgtttgatca Alignment from Exonerate_coding2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG gtcactgaagactaacttaaccaaagtttgacttctcctttctgtaatagGTGATGTTTTGAATATTGACCCGATGAAATTTTATACACATCTCTTCCAGACACTGTTCACATTACAT---Ggtgagtgagcgtgcttggtacatatgtgtgtctgaaagcctgtttgatca Alignment from GeneWise GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACAT- gtcactgaagactaacttaaccaaagtttgacttctcctttctgtaatagGTGATGTTTTGAATATTGACCCGATGAAATTTTATACACATCTCTTCCAGACACTGTTCACATTACATGgtgagtgagcgtgcttggtacatatgtgtgtctgaaagcctgtttgatca #### Noc3l_ID7660_15 --> 0 - 1 Original Alignment GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAg agaaagcactctcatttgttttgtttctaaccttgtcactgtctcagcagGAGCTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGA---ggtaagttgatagtccatttggcttcctttcctttgtcactgaagactaac Alignment from CESAR GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAg agaaagcactctcatttgttttgtttctaaccttgtcactgtctcagcagGAGCTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGA---ggtaagttgatagtccatttggcttcctttcctttgtcactgaagactaac Alignment from Spaln_aa2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGA- agaaagcactctcatttgttttgtttctaaccttgtcactgtctcagcagGAGCTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGAGgtaagttgatagtccatttggcttcctttcctttgtcactgaagactaac Alignment from Spaln_nt2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG agaaagcactctcatttgttttgtttctaaccttgtcactgtctcagcagGAGCTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGG---AGgtaagttgatagtccatttggcttcctttcctttgtcactgaagactaac Alignment from Pairagon GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG agaaagcactctcatttgttttgtttctaaccttgtcactgtctcagcagGAGCTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGG---AGgtaagttgatagtccatttggcttcctttcctttgtcactgaagactaac Alignment from Exonerate_protein2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG agaaagcactctcatttgttttgtttctaaccttgtcactgtctcagcagGAGCTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGA---Ggtaagttgatagtccatttggcttcctttcctttgtcactgaagactaac Alignment from Exonerate_coding2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG agaaagcactctcatttgttttgtttctaaccttgtcactgtctcagcagGAGCTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGA---Ggtaagttgatagtccatttggcttcctttcctttgtcactgaagactaac Alignment from GeneWise GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGA--------------------------------------------------- agaaagcactctcatttgttttgtttctaaccttgtcactgtctcagcagGAGCTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGAGGTAAGTTGATAGTCCATTTGGCTTCCTTTCCTTTGTCACTGAAGACTAAC #### Npas4_ID775_6 --> 2 - 2 Original Alignment tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATC---ag gtgggtggattgatggaccttctaatcttgaccccttatgtctcccccagtgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGGCTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCGGAAGGGCCAGAAGGTCCTTTTACTGCCAATAACTACCCTATTTGGaggtgagttgtaagacacaagatggtggagaggggaggggagctgagttcag Alignment from CESAR tgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATC---ag gtgggtggattgatggaccttctaatcttgaccccttatgtctcccccagtgGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGGCTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCGGAAGGGCCAGAAGGTCCTTTTACTGCCAATAACTACCCTATTTGGaggtgagttgtaagacacaagatggtggagaggggaggggagctgagttcag Alignment from Spaln_aa2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAGT-- gtgggtggattgatggaccttctaatcttgaccccttatgtctcccccagTGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGGCTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCGGAAGGGCCAGAAGGTCCTTTTACTGCCAATAACTACCCTATTTGGAGgtgagttgtaagacacaagatggtggagaggggaggggagctgagttcag Alignment from Spaln_nt2Genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATC---AG gtgggtggattgatggaccttctaatcttgaccccttatgtctcccccagTGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGGCTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCGGAAGGGCCAGAAGGTCCTTTTACTGCCAATAACTACCCTATTTGGAGgtgagttgtaagacacaagatggtggagaggggaggggagctgagttcag Alignment from Pairagon TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTAT-------------------------------------------------------- gtgggtggattgatggaccttctaatcttgaccccttatgtctcccccagTGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGGCTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCGGAAGGGCCAGAAGGTCCTTTTACTGCCAATAACTACCCTATTTGGAGGTGAGTTGTAAGACACAAGATGGTGGAGAGGGGAGGGGAGCTGAGTTCAG Alignment from Exonerate_protein2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATC---AG gtgggtggattgatggaccttctaatcttgaccccttatgtctcccccagTGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGGCTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCGGAAGGGCCAGAAGGTCCTTTTACTGCCAATAACTACCCTATTTGGAGgtgagttgtaagacacaagatggtggagaggggaggggagctgagttcag Alignment from Exonerate_coding2genome TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATC---AG gtgggtggattgatggaccttctaatcttgaccccttatgtctcccccagTGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGGCTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCGGAAGGGCCAGAAGGTCCTTTTACTGCCAATAACTACCCTATTTGGAGgtgagttgtaagacacaagatggtggagaggggaggggagctgagttcag Alignment from GeneWise TGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGACTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCAGAAGGTCCAGAAGGCCCTTTTACTGCCAATAACTACCCTATCAGT-- gtgggtggattgatggaccttctaatcttgaccccttatgtctcccccagTGGCTGAAAGTGGAGATATTCAGGCTGAAATGGTGGTGAGGCTTCAAGCCAAGCATGGAGGCTGGACATGGATTTACTGCATGCTATACTCGGAAGGGCCAGAAGGTCCTTTTACTGCCAATAACTACCCTATTTGGAGgtgagttgtaagacacaagatggtggagaggggaggggagctgagttcag #### Npas4_ID778_3 --> 0 - 1 Original Alignment ---------GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTg ttgtggataccctcttggtatcttcacttcgttcttgtcctgacctccagCTCATGTACGTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCCGCTCTGGATGCTggtgagaacatcacgaacaaagcctccaagaaatatgggactatgtgaaaa Alignment from CESAR ---------GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTg ttgtggataccctcttggtatcttcacttcgttcttgtcctgacctccagCTCATGTACGTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCCGCTCTGGATGCTggtgagaacatcacgaacaaagcctccaagaaatatgggactatgtgaaaa Alignment from Spaln_aa2Genome GTGGACCTGGTTGCC---------CAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ttgtggataccctcttggtatcttcacttcgttcttgtcctgacctccagCTCATGTACGTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCCGCTCTGGATGCTGgtgagaacatcacgaacaaagcctccaagaaatatgggactatgtgaaaa Alignment from Spaln_nt2Genome GTGGACCTGGT---------TGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ttgtggataccctcttggtatcttcacttcgttcttgtcctgacctccagCTCATGTACGTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCCGCTCTGGATGCTGgtgagaacatcacgaacaaagcctccaagaaatatgggactatgtgaaaa Alignment from Pairagon ---------GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ttgtggataccctcttggtatcttcacttcgttcttgtcctgacctccagCTCATGTACGTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCCGCTCTGGATGCTGgtgagaacatcacgaacaaagcctccaagaaatatgggactatgtgaaaa Alignment from Exonerate_protein2genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ttgtggataccctcttggtatcttcacttcgttcttgtcctgacctccagctcatgtacGTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCCGCTCTGGATGCTGgtgagaacatcacgaacaaagcctccaagaaatatgggactatgtgaaaa Alignment from Exonerate_coding2genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ttgtggataccctcttggtatcttcacttcgttcttgtcctgacctccagctcatgtacGTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCCGCTCTGGATGCTGgtgagaacatcacgaacaaagcctccaagaaatatgggactatgtgaaaa Alignment from GeneWise ---------GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ttgtggataccctcttggtatcttcacttcgttcttgtcctgacctccagCTCATGTACGTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCCGCTCTGGATGCTGgtgagaacatcacgaacaaagcctccaagaaatatgggactatgtgaaaa #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATC---g cttcaagtgagtgggccagcacggctcaaagcctggcgtctttcttctagCTCAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCTGGTTCTGGCCCAGTTCGGATC---------CATCAGATTGACggtgagtagagtgggtcctctactcccgacttgccccagtctcagatccta Alignment from CESAR CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATC---g cttcaagtgagtgggccagcacggctcaaagcctggcgtctttcttctagCTCAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCTGGTTCTGGCCCAGTTCGGATC---------CATCAGATTGACggtgagtagagtgggtcctctactcccgacttgccccagtctcagatccta Alignment from Spaln_aa2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATC---G cttcaagtgagtgggccagcacggctcaaagcctggcgtctttcttctagCTCAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCTGGTTCTGGCCCAGTTCGGATC---------CATCAGATTGACGgtgagtagagtgggtcctctactcccgacttgccccagtctcagatccta Alignment from Spaln_nt2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGAT---CG cttcaagtgagtgggccagcacggctcaaagcctggcgtctttcttctagCTCAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCTGGTTCTGGCCCAGTTCGGATC---------CATCAGATTGACGgtgagtagagtgggtcctctactcccgacttgccccagtctcagatccta Alignment from Pairagon CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGAT---CG cttcaagtgagtgggccagcacggctcaaagcctggcgtctttcttctagCTCAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCTGGTTCTGGCCCAGTTCGGATC---------CATCAGATTGACGgtgagtagagtgggtcctctactcccgacttgccccagtctcagatccta Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATC cttcaagtgagtgggccagcacggctcaaagcctggcgtctttcttctagCTCAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCTGGTTCTGGCCCAGTTCGGATCCATCAGATTGACGgtgagtagagtgggtcctctactcccgacttgccccagtctcagatccta Alignment from Exonerate_coding2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATC cttcaagtgagtgggccagcacggctcaaagcctggcgtctttcttctagCTCAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCTGGTTCTGGCCCAGTTCGGATCCATCAGATTGACGgtgagtagagtgggtcctctactcccgacttgccccagtctcagatccta Alignment from GeneWise CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCGTT- cttcaagtgagtgggccagcacggctcaaagcctggcgtctttcttctagCTCAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCTGGTTCTGGCCCAGTTCGGATC---------CATCAGATTGACGgtgagtagagtgggtcctctactcccgacttgccccagtctcagatccta #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment ---AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggggacttgtatgtagttgcataactgatcatgtgttgtgtatttctcagAGCAAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGgtaaataatgttacttttgactgacagttaagatggaccataaaggtgat Alignment from CESAR ---AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggggacttgtatgtagttgcataactgatcatgtgttgtgtatttctcagAGCAAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGgtaaataatgttacttttgactgacagttaagatggaccataaaggtgat Alignment from Spaln_aa2Genome AAAGTAACTCAT---GACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggggacttgtatgtagttgcataactgatcatgtgttgtgtatttctcagAGCAAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGgtaaataatgttacttttgactgacagttaagatggaccataaaggtgat Alignment from Spaln_nt2Genome AAAGTAACT---CATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggggacttgtatgtagttgcataactgatcatgtgttgtgtatttctcagAGCAAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGgtaaataatgttacttttgactgacagttaagatggaccataaaggtgat Alignment from Pairagon -----------------------------------------------------AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG GGGGACTTGTATGTAGTTGCATAACTGATCATGTGTTGTGTATTTCTCAGAGCAAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGgtaaataatgttacttttgactgacagttaagatggaccataaaggtgat Alignment from Exonerate_protein2genome ---AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggggacttgtatgtagttgcataactgatcatgtgttgtgtatttctcagAGCAAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGgtaaataatgttacttttgactgacagttaagatggaccataaaggtgat Alignment from Exonerate_coding2genome ---AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggggacttgtatgtagttgcataactgatcatgtgttgtgtatttctcagAGCAAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGgtaaataatgttacttttgactgacagttaagatggaccataaaggtgat Alignment from GeneWise ---AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggggacttgtatgtagttgcataactgatcatgtgttgtgtatttctcagAGCAAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGgtaaataatgttacttttgactgacagttaagatggaccataaaggtgat #### Nt5c2_ID10037_16 --> 1 - 0 Original Alignment gCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG aggtgtgctctcctagagagtttctgtatatccatctcttttctctctagg---------AGCAGTAGCAATGAACACCCGGACATTAGTTCTATCCAGAGACGGATTAAGgtaagaagatgggatttgggaaagaatgtggggagtaagttgtctgagtc Alignment from CESAR gCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG aacatagggaggtgtgctctcctaggtatatccatctcttttctctctagg---------AGCAGTAGCAATGAACACCCGGACATTAGTTCTATCCAGAGACGGATTAAGgtaagaagatgggatttgggaaagaatgtggggagtaagttgtctgagtc Alignment from Spaln_aa2Genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG aggtgtgctctcctagagagtttctgtatatccatctcttttctctctagG---------AGCAGTAGCAATGAACACCCGGACATTAGTTCTATCCAGAGACGGATTAAGgtaagaagatgggatttgggaaagaatgtggggagtaagttgtctgagtc Alignment from Spaln_nt2Genome TG GACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG -GgtgtgctctcctagagagtttctgtatatccatctcttttctctctagG--AGCAGTAGCAATGAACACCCGGACATTAGTTCTATCCAGAGACGGATTAAGgtaagaagatgggatttgggaaagaatgtggggagtaagttgtctgagtc Alignment from Pairagon GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG aggtgtgctctcctagagagtttctgtatatccatctcttttctctctagG---------AGCAGTAGCAATGAACACCCGGACATTAGTTCTATCCAGAGACGGATTAAGgtaagaagatgggatttgggaaagaatgtggggagtaagttgtctgagtc Alignment from Exonerate_protein2genome AGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG aggtgtgctctcctagagagtttctgtatatccatctcttttctctctaggAGCAGTAGCAATGAACACCCGGACATTAGTTCTATCCAGAGACGGATTAAGgtaagaagatgggatttgggaaagaatgtggggagtaagttgtctgagtc Alignment from Exonerate_coding2genome AGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG aggtgtgctctcctagagagtttctgtatatccatctcttttctctctaggAGCAGTAGCAATGAACACCCGGACATTAGTTCTATCCAGAGACGGATTAAGgtaagaagatgggatttgggaaagaatgtggggagtaagttgtctgagtc Alignment from GeneWise GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG aggtgtgctctcctagagagtttctgtatatccatctcttttctctctagG---------AGCAGTAGCAATGAACACCCGGACATTAGTTCTATCCAGAGACGGATTAAGgtaagaagatgggatttgggaaagaatgtggggagtaagttgtctgagtc #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg agagcttggttaaatgaatttctgtctcttaaatgcttcttttgtgatag------GGAAAACTGAAAATTGGCTCCTACACAGGCCCCCTGCAGCAC---GTTGTCTACTCAGGGggtatgtgagctgtctgtctgcctccctttcttctggacgactctgcatgg Alignment from CESAR AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgggagagagcttggttaaatgaatctcttaaatgcttcttttgtgatag------GGAAAACTGAAAATTGGCTCCTACACAGGCCCCCTGCAGCAC---GTTGTCTACTCAGGGggtatgtgagctgtctgtctgcctccctttcttctggacgactctgcatgg Alignment from Spaln_aa2Genome GGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG agagcttggttaaatgaatttctgtctcttaaatgcttcttttgtgatagGGAAAACTGAAAATTGGCTCCTACACAGGCCCCCTGCAGCAC---GTTGTCTACTCAGGGGgtatgtgagctgtctgtctgcctccctttcttctggacgactctgcatgg Alignment from Spaln_nt2Genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG agagcttggttaaatgaatttctgtctcttaaatgcttcttttgtgatag------GGAAAACTGAAAATTGGCTCCTACACAGGCCCCCTGCAGCACG---TTGTCTACTCAGGGGgtatgtgagctgtctgtctgcctccctttcttctggacgactctgcatgg Alignment from Pairagon AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG agagcttggttaaatgaatttctgtctcttaaatgcttcttttgtgatag------GGAAAACTGAAAATTGGCTCCTACACAGGCCCCCTGCAGCACG---TTGTCTACTCAGGGGgtatgtgagctgtctgtctgcctccctttcttctggacgactctgcatgg Alignment from Exonerate_protein2genome GGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG agagcttggttaaatgaatttctgtctcttaaatgcttcttttgtgatagGGAAAACTGAAAATTGGCTCCTACACAGGCCCCCTGCAGCAC---GTTGTCTACTCAGGGGgtatgtgagctgtctgtctgcctccctttcttctggacgactctgcatgg Alignment from Exonerate_coding2genome GGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG agagcttggttaaatgaatttctgtctcttaaatgcttcttttgtgatagGGAAAACTGAAAATTGGCTCCTACACAGGCCCCCTGCAGCAC---GTTGTCTACTCAGGGGgtatgtgagctgtctgtctgcctccctttcttctggacgactctgcatgg Alignment from GeneWise ---AAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG agagcttggttaaatgaatttctgtctcttaaatgcttcttttgtgatagGGAAAACTGAAAATTGGCTCCTACACAGGCCCCCTGCAGCAC---GTTGTCTACTCAGGGGgtatgtgagctgtctgtctgcctccctttcttctggacgactctgcatgg #### Nudt8_ID267_2 --> 1 - 0 Original Alignment tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG aaactgcctcctgacagcccgtggtccccccctcttgtgcttgtcttcagtTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGGCCTAGAGGTACCCAAGGAGCATGTCTGGGGTGTCCTGCAGCCAGTG---------gtaagatatacgtgatttatataccctcatcctatcacaatcagtaaccc Alignment from CESAR tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG aaactgcctcctgacagcccgtggtccccccctcttgtgcttgtcttcagtTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGGCCTAGAGGTACCCAAGGAGCATGTCTGGGGTGTCCTGCAGCCAGTG---------gtaagatatacgtgatttatataccctcatcctatcacaat Alignment from Spaln_aa2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG aaactgcctcctgacagcccgtggtccccccctcttgtgcttgtcttcagTTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGGCCTAGAGGTACCCAAGGAGCATGTCTGGGGTGTCCTGCAGCCAGTGgtaagatatacgtgatttatataccctcatcctatcacaatcagtaaccc Alignment from Spaln_nt2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG aaactgcctcctgacagcccgtggtccccccctcttgtgcttgtcttcagTTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGGCCTAGAGGTACCCAAGGAGCATGTCTGGGGTGTCCTGCAGCCAGTGgtaagatatacgtgatttatataccctcatcctatcacaatcagtaaccc Alignment from Pairagon TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG aaactgcctcctgacagcccgtggtccccccctcttgtgcttgtcttcagTTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGGCCTAGAGGTACCCAAGGAGCATGTCTGGGGTGTCCTGCAGCCAGTGgtaagatatacgtgatttatataccctcatcctatcacaatcagtaaccc Alignment from Exonerate_protein2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG aaactgcctcctgacagcccgtggtccccccctcttgtgcttgtcttcagTTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGGCCTAGAGGTACCCAAGGAGCATGTCTGGGGTGTCCTGCAGCCAGTGGTAAGATATacgtgatttatataccctcatcctatcacaatcagtaaccc Alignment from Exonerate_coding2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG aaactgcctcctgacagcccgtggtccccccctcttgtgcttgtcttcagTTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGGCCTAGAGGTACCCAAGGAGCATGTCTGGGGTGTCCTGCAGCCAGTGGTAAGATATacgtgatttatataccctcatcctatcacaatcagtaaccc Alignment from GeneWise TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTG aaactgcctcctgacagcccgtggtccccccctcttgtgcttgtcttcagTTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGGCCTAGAGGTACCCAAGGAGCATGTCTGGGGTGTCCTGCAGCCAGTGgtaagatatacgtgatttatataccctcatcctatcacaatcagtaaccc #### Nxf1_ID2343_3 --> 1 - 0 Original Alignment cAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA ctacctagtgcgtatggaacagtgctctatgtttgttctttacttcacagc---------ACCAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACAgtatatacttagaaggataggtgattcaggaaacaggactagactcaatg Alignment from CESAR cAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA aggttcctcctacctagtgcgtatgtctatgtttgttctttacttcacagc---------ACCAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACAgtatatacttagaaggataggtgattcaggaaacaggactagactcaatg Alignment from Spaln_aa2Genome CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA ctacctagtgcgtatggaacagtgctctatgtttgttctttacttcacagC---------ACCAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACAgtatatacttagaaggataggtgattcaggaaacaggactagactcaatg Alignment from Spaln_nt2Genome TACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA ctacctagtgcgtatggaacagtgctctatgtttgttctttacttcacagCACCAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACAgtatatacttagaaggataggtgattcaggaaacaggactagactcaatg Alignment from Pairagon CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA ctacctagtgcgtatggaacagtgctctatgtttgttctttacttcacagC---------ACCAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACAgtatatacttagaaggataggtgattcaggaaacaggactagactcaatg Alignment from Exonerate_protein2genome CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA ctacctagtgcgtatggaacagtgctctatgtttgttctttacttcacagC---------ACCAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACAgtatatacttagaaggataggtgattcaggaaacaggactagactcaatg Alignment from Exonerate_coding2genome CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA ctacctagtgcgtatggaacagtgctctatgtttgttctttacttcacagC---------ACCAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACAgtatatacttagaaggataggtgattcaggaaacaggactagactcaatg Alignment from GeneWise CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA ctacctagtgcgtatggaacagtgctctatgtttgttctttacttcacagC---------ACCAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACAgtatatacttagaaggataggtgattcaggaaacaggactagactcaatg #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment ------TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggaaggacctgtggactacagattgaatgcattcatattatccacccagTGTAAATTTCACTATGAAAATACACGGGCTCATTTTTTTGTGGAGGATGCCACTACTGGTTCCGCATTAAAGGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtggacaagggcctgtgatgacacagttggtgcactaaaagggact Alignment from CESAR ------TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggaaggacctgtggactacagattgaatgcattcatattatccacccagTGTAAATTTCACTATGAAAATACACGGGCTCATTTTTTTGTGGAGGATGCCACTACTGGTTCCGCATTAAAGGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtggacaagggcctgtgatgacacagttggtgcactaaaagggact Alignment from Spaln_aa2Genome TTTCACTAT------GAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggaaggacctgtggactacagattgaatgcattcatattatccacccagTGTAAATTTCACTATGAAAATACACGGGCTCATTTTTTTGTGGAGGATGCCACTACTGGTTCCGCATTAAAGGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtggacaagggcctgtgatgacacagttggtgcactaaaagggact Alignment from Spaln_nt2Genome TTTCACTAT------GAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggaaggacctgtggactacagattgaatgcattcatattatccacccagTGTAAATTTCACTATGAAAATACACGGGCTCATTTTTTTGTGGAGGATGCCACTACTGGTTCCGCATTAAAGGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtggacaagggcctgtgatgacacagttggtgcactaaaagggact Alignment from Pairagon --------------------------------------------------------TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG TGGAAGGACCTGTGGACTACAGATTGAATGCATTCATATTATCCACCCAGTGTAAATTTCACTATGAAAATACACGGGCTCATTTTTTTGTGGAGGATGCCACTACTGGTTCCGCATTAAAGGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtggacaagggcctgtgatgacacagttggtgcactaaaagggact Alignment from Exonerate_protein2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggaaggacctgtggactacagattgaatgcattcatattatccacccagtgtaaaTTTCACTATGAAAATACACGGGCTCATTTTTTTGTGGAGGATGCCACTACTGGTTCCGCATTAAAGGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtggacaagggcctgtgatgacacagttggtgcactaaaagggact Alignment from Exonerate_coding2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggaaggacctgtggactacagattgaatgcattcatattatccacccagtgtaaaTTTCACTATGAAAATACACGGGCTCATTTTTTTGTGGAGGATGCCACTACTGGTTCCGCATTAAAGGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtggacaagggcctgtgatgacacagttggtgcactaaaagggact Alignment from GeneWise ------TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggaaggacctgtggactacagattgaatgcattcatattatccacccagTGTAAATTTCACTATGAAAATACACGGGCTCATTTTTTTGTGGAGGATGCCACTACTGGTTCCGCATTAAAGGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtggacaagggcctgtgatgacacagttggtgcactaaaagggact #### Nxf1_ID2346_6 --> 0 - 0 Original Alignment ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtgattaggctgtcctcaattatgttcttcccccccacccccacccccagATATCTATCATCATTAATGCTTCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAGAGGTATgtaggtctggctcaagtggcatggtccagcaggctttcaacctccatcat Alignment from CESAR ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtgattaggctgtcctcaattatgttcttcccccccacccccacccccagATATCTATCATCATTAATGCTTCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAGAGGTATgtaggtctggctcaagtggcatggtccagcaggctttcaacctccatcat Alignment from Spaln_aa2Genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtgattaggctgtcctcaattatgttcttcccccccacccccacccccagATATCTATCATCATTAATGCTTCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAGAGGTATgtaggtctggctcaagtggcatggtccagcaggctttcaacctccatcat Alignment from Spaln_nt2Genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG-- gtgattaggctgtcctcaattatgttcttcccccccacccccacccccagATATCTATCATCATTAATGCTTCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAGAGgtatgtaggtctggctcaagtggcatggtccagcaggctttcaacctccatcat Alignment from Pairagon ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCA---------------------------------------------------------- gtgattaggctgtcctcaattatgttcttcccccccacccccacccccagATATCTATCATCATTAATGCTTCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAGAGGTATGTAGGTCTGGCTCAAGTGGCATGGTCCAGCAGGCTTTCAACCTCCATCAT Alignment from Exonerate_protein2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gtgattaggctgtcctcaattatgttcttcccccccacccccacccccagATATCTATCATCATTAATGCTTCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAGaggtatgtaggtctggctcaagtggcatggtccagcaggctttcaacctccatcat Alignment from Exonerate_coding2genome ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gtgattaggctgtcctcaattatgttcttcccccccacccccacccccagATATCTATCATCATTAATGCTTCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAGaggtatgtaggtctggctcaagtggcatggtccagcaggctttcaacctccatcat Alignment from GeneWise ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG------ gtgattaggctgtcctcaattatgttcttcccccccacccccacccccagATATCTATCATCATTAATGCTTCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAGAGGTATgtaggtctggctcaagtggcatggtccagcaggctttcaacctccatcat #### Nxf1_ID2352_12 --> 0 - 0 Original Alignment ---------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtctttcttcagtttctcatacactgtctcaacctgttgacagTTGCTGTATGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtcagaggtggggttagaattagaactgtgagaggagagaatattggtcc Alignment from CESAR ---------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtctttcttcagtttctcatacactgtctcaacctgttgacagTTGCTGTATGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtcagaggtggggttagaattagaactgtgagaggagagaatattggtcc Alignment from Spaln_aa2Genome GATGGCCAT---------GAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtctttcttcagtttctcatacactgtctcaacctgttgacagTTGCTGTATGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtcagaggtggggttagaattagaactgtgagaggagagaatattggtcc Alignment from Spaln_nt2Genome GATGGCCATG---------AGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtctttcttcagtttctcatacactgtctcaacctgttgacagTTGCTGTATGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtcagaggtggggttagaattagaactgtgagaggagagaatattggtcc Alignment from Pairagon ---------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtctttcttcagtttctcatacactgtctcaacctgttgacagTTGCTGTATGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtcagaggtggggttagaattagaactgtgagaggagagaatattggtcc Alignment from Exonerate_protein2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtctttcttcagtttctcatacactgtctcaacctgttgacagttgctgtatGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtcagaggtggggttagaattagaactgtgagaggagagaatattggtcc Alignment from Exonerate_coding2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtctttcttcagtttctcatacactgtctcaacctgttgacagttgctgtatGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtcagaggtggggttagaattagaactgtgagaggagagaatattggtcc Alignment from GeneWise ---------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtctttcttcagtttctcatacactgtctcaacctgttgacagTTGCTGTATGATGGCCATGAGCTACCCCCTCCAATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtcagaggtggggttagaattagaactgtgagaggagagaatattggtcc #### Osbp_ID3346_5 --> 2 - 2 Original Alignment atCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACaa aggcattggtaaatataacatgaaaacactttctccatcttggttactagatCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGATGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGC---aagtaaaaagtcctttgactgtttaagaaaacaaacacatatgtttacacga Alignment from CESAR atCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACaa aggcattggtaaatataacatgaaaacactttctccatcttggttactagatCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGATGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGC---aagtaaaaagtcctttgactgtttaagaaaacaaacacatatgtttacacga Alignment from Spaln_aa2Genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCA aggcattggtaaatataacatgaaaacactttctccatcttggttactagATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGATGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCAAgtaaaaagtcctttgactgtttaagaaaacaaacacatatgtttacacga Alignment from Spaln_nt2Genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA aggcattggtaaatataacatgaaaacactttctccatcttggttactagATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGATGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGG---CAAgtaaaaagtcctttgactgtttaagaaaacaaacacatatgtttacacga Alignment from Pairagon ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCACAA aggcattggtaaatataacatgaaaacactttctccatcttggttactagATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGATGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGG---CAAgtaaaaagtcctttgactgtttaagaaaacaaacacatatgtttacacga Alignment from Exonerate_protein2genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCA aggcattggtaaatataacatgaaaacactttctccatcttggttactagATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGATGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCAAgtaaaaagtcctttgactgtttaagaaaacaaacacatatgtttacacga Alignment from Exonerate_coding2genome ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCA aggcattggtaaatataacatgaaaacactttctccatcttggttactagATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGATGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCAAgtaaaaagtcctttgactgtttaagaaaacaaacacatatgtttacacga Alignment from GeneWise ATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGACGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCCA aggcattggtaaatataacatgaaaacactttctccatcttggttactagATCAGTGCTGTTCTGGCAAAGGGGACATGAGCGATGAAGATGATGAGAATGAGTTTTTTGATGCACCAGAGATTATCACCATGCCTGAAAATTTGGGCAAgtaaaaagtcctttgactgtttaagaaaacaaacacatatgtttacacga #### Osbp_ID3347_6 --> 1 - 0 Original Alignment aCGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG ttcagttctggtttttgttctaactctcaagaagtgcttttctgttttagaCGTACTGGCAGCAATATCAGTGGGCCCAGC------------------------gtttgcctctcttatttgcaagttggaccctactctcgaccgatattcgt Alignment from CESAR aCGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG ttcagttctggtttttgttctaactctcaagaagtgcttttctgttttagaCGTACTGGCAGCAATATCAGTGGGCCCAGC------------------------gtttgcctctcttatttgcaagttgg Alignment from Spaln_aa2Genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG ttcagttctggtttttgttctaactctcaagaagtgcttttctgttttagACGTACTGGCAGCAATATCAGTGGGCCCAGCGTTTGCCTCTCTTAT---TTGCAAgttggaccctactctcgaccgatatt Alignment from Spaln_nt2Genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG ttcagttctggtttttgttctaactctcaagaagtgcttttctgttttagACGTACTGGCAGCAATATCAGTGGGCCCAGCGTT--TGCCTCTCTT-ATTTGCAAgttggaccctactctcgaccgatatt Alignment from Pairagon ACGTACTGGCAGCAATATCAGTGGGGCCAGC ttcagttctggtttttgttctaactctcaagaagtgcttttctgttttagACGTACTGGCAGCAATATCAGTGGGCCCAGCgtttgcctctcttatttgcaagttggaccctactctcgaccgatattcgt Alignment from Exonerate_protein2genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG ttcagttctggtttttgttctaactctcaagaagtgcttttctgttttagACGTACTGGCAGCAATATCAGTGGGCCCAGCGTTTGCCTCTCTTAT---TTGCAAgttggaccctactctcgaccgatatt Alignment from Exonerate_coding2genome ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG ttcagttctggtttttgttctaactctcaagaagtgcttttctgttttagACGTACTGGCAGCAATATCAGTGGGCCCAGCGTTTGCCTCTCTTAT---TTGCAAgttggaccctactctcgaccgatatt Alignment from GeneWise ACGTACTGGCAGCAATATCAGTGGGGCCAGCAGTGATGTCAGCCTTGATGAACAG ttcagttctggtttttgttctaactctcaagaagtgcttttctgttttagACGTACTGGCAGCAATATCAGTGGGCCCAGCGTTTGCCTCTCTTAT---TTGCAAgttggaccctactctcgaccgatatt #### Pacs1_ID877_17 --> 2 - 1 Original Alignment gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg ctctactctagccaccaacacttcactttgacactctactctccacccaggtTCTCATCCAGTGGCCAAATACTTAGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGCCGCTCAGAGCCT---------ggtgagtaccccttgcgtacctagtaggaacctccaagcagttaggttcta Alignment from CESAR gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg ctctactctagccaccaacacttcactttgacactctactctccacccaggtTCTCATCCAGTGGCCAAATACTTAGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGCCGCTCAGAGCCT---------ggtgagtaccccttgcgtacctagtaggaacctccaagcagttaggttcta Alignment from Spaln_aa2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCT- ctctactctagccaccaacacttcactttgacactctactctccacccagGTTCTCATCCAGTGGCCAAATACTTAGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGCCGCTCAGAGCCTGgtgagtaccccttgcgtacctagtaggaacctccaagcagttaggttcta Alignment from Spaln_nt2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCT- ctctactctagccaccaacacttcactttgacactctactctccacccagGTTCTCATCCAGTGGCCAAATACTTAGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGCCGCTCAGAGCCTGgtgagtaccccttgcgtacctagtaggaacctccaagcagttaggttcta Alignment from Pairagon GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG ctctactctagccaccaacacttcactttgacactctactctccacccagGTTCTCATCCAGTGGCCAAATACTTAGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGCCGCTCAGAGCCT---------Ggtgagtaccccttgcgtacctagtaggaacctccaagcagttaggttcta Alignment from Exonerate_protein2genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTC ctctactctagccaccaacacttcactttgacactctactctccacccagGTTCTCATCCAGTGGCCAAATACTTAGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGCCGCTCAGAGCCTGgtgagtaccccttgcgtacctagtaggaacctccaagcagttaggttcta Alignment from Exonerate_coding2genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTC ctctactctagccaccaacacttcactttgacactctactctccacccagGTTCTCATCCAGTGGCCAAATACTTAGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGCCGCTCAGAGCCTGgtgagtaccccttgcgtacctagtaggaacctccaagcagttaggttcta Alignment from GeneWise GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTC ctctactctagccaccaacacttcactttgacactctactctccacccagGTTCTCATCCAGTGGCCAAATACTTAGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGCCGCTCAGAGCCTGgtgagtaccccttgcgtacctagtaggaacctccaagcagttaggttcta #### Pacs1_ID878_16 --> 1 - 1 Original Alignment c---TGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAg gagcaggatgctgagacctaatatgatgctttttactttttgtgatgtagcCCGTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCGGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCTCCTAggtaagtcctgaccattgaggagtcctctgttagcagacctggttcctaca Alignment from CESAR c---TGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAg gagcaggatgctgagacctaatatgatgctttttactttttgtgatgtagcCCGTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCGGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCTCCTAggtaagtcctgaccattgaggagtcctctgttagcagacctggttcctaca Alignment from Spaln_aa2Genome CTGCAACTGCAAC---TCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG gagcaggatgctgagacctaatatgatgctttttactttttgtgatgtagCCCGTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCGGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCTCCTAGgtaagtcctgaccattgaggagtcctctgttagcagacctggttcctaca Alignment from Spaln_nt2Genome CTGCAACTGC---AACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG gagcaggatgctgagacctaatatgatgctttttactttttgtgatgtagCCCGTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCGGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCTCCTAGgtaagtcctgaccattgaggagtcctctgttagcagacctggttcctaca Alignment from Pairagon C---TGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG gagcaggatgctgagacctaatatgatgctttttactttttgtgatgtagCCCGTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCGGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCTCCTAGgtaagtcctgaccattgaggagtcctctgttagcagacctggttcctaca Alignment from Exonerate_protein2genome C---TGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG gagcaggatgctgagacctaatatgatgctttttactttttgtgatgtagCCCGTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCGGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCTCCTAGgtaagtcctgaccattgaggagtcctctgttagcagacctggttcctaca Alignment from Exonerate_coding2genome C---TGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG gagcaggatgctgagacctaatatgatgctttttactttttgtgatgtagCCCGTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCGGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCTCCTAGgtaagtcctgaccattgaggagtcctctgttagcagacctggttcctaca Alignment from GeneWise -TACTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG gagcaggatgctgagacctaatatgatgctttttactttttgtgatgtagCCCGTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCGGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCTCCTAGgtaagtcctgaccattgaggagtcctctgttagcagacctggttcctaca #### Pacs1_ID888_6 --> 2 - 0 Original Alignment atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accaaaccaggtcaaggtcgtgctgttgaaacaagtttactgttccctagat---------GATATTGATAACTACTCTGAAGAAGAGGAAGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGATGATCCATTGCATGGGCAGgtaaggtcctgtgggtccctcctcacagtggatgagtgagaggtccctgg Alignment from CESAR atCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG ttaggatagaccaaaccaggtcaagttgaaacaagtttactgttccctagat---------GATATTGATAACTACTCTGAAGAAGAGGAAGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGATGATCCATTGCATGGGCAGgtaaggtcctgtgggtccctcctcacagtggatgagtgagaggtccctgg Alignment from Spaln_aa2Genome ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accaaaccaggtcaaggtcgtgctgttgaaacaagtttactgttccctagAT---------GATATTGATAACTACTCTGAAGAAGAGGAAGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGATGATCCATTGCATGGGCAGgtaaggtcctgtgggtccctcctcacagtggatgagtgagaggtccctgg Alignment from Spaln_nt2Genome CAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accaaaccaggtcaaggtcgtgctgttgaaacaagtttactgttccctagATGATATTGATAACTACTCTGAAGAAGAGGAAGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGATGATCCATTGCATGGGCAGgtaaggtcctgtgggtccctcctcacagtggatgagtgagaggtccctgg Alignment from Pairagon ATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accaaaccaggtcaaggtcgtgctgttgaaacaagtttactgttccctagAT---------GATATTGATAACTACTCTGAAGAAGAGGAAGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGATGATCCATTGCATGGGCAGgtaaggtcctgtgggtccctcctcacagtggatgagtgagaggtccctgg Alignment from Exonerate_protein2genome CAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accaaaccaggtcaaggtcgtgctgttgaaacaagtttactgttccctagATGATATTGATAACTACTCTGAAGAAGAGGAAGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGATGATCCATTGCATGGGCAGgtaaggtcctgtgggtccctcctcacagtggatgagtgagaggtccctgg Alignment from Exonerate_coding2genome CAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accaaaccaggtcaaggtcgtgctgttgaaacaagtttactgttccctagATGATATTGATAACTACTCTGAAGAAGAGGAAGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGATGATCCATTGCATGGGCAGgtaaggtcctgtgggtccctcctcacagtggatgagtgagaggtccctgg Alignment from GeneWise -----GATCGCTCCCCAGATATTGACAACTACTCTGAAGAAGAGGAGGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGACGACCCATTGCATGGGCAG accaaaccaggtcaaggtcgtgctgttgaaacaagTTTACTGTTCCCTAGATGATATTGATAACTACTCTGAAGAAGAGGAAGAAAGCTTCTCCTCAGAGCAGGAAGGCAGTGATGATCCATTGCATGGGCAGgtaaggtcctgtgggtccctcctcacagtggatgagtgagaggtccctgg #### Patl1_ID3333_18 --> 1 - 2 Original Alignment g------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ccttccctttcccttctacttctcagacgcctacctgcttacctgtgtaggGAATATACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCCCCAAGCTGCCCTTTCCAAACCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGcagtaagatgtgaacacatttcattaccttggtatctcagacattgcaccac Alignment from CESAR g------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ccttccctttcccttctacttctcagacgcctacctgcttacctgtgtaggGAATATACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCCCCAAGCTGCCCTTTCCAAACCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGcagtaagatgtgaacacatttcattaccttggtatctcagacattgcaccac Alignment from Spaln_aa2Genome GACAGAGGTGATG------TTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ccttccctttcccttctacttctcagacgcctacctgcttacctgtgtagGGAATATACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCCCCAAGCTGCCCTTTCCAAACCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAgtaagatgtgaacacatttcattaccttggtatctcagacattgcaccac Alignment from Spaln_nt2Genome GACAGAGGTG------ATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ccttccctttcccttctacttctcagacgcctacctgcttacctgtgtagGGAATATACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCCCCAAGCTGCCCTTTCCAAACCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAgtaagatgtgaacacatttcattaccttggtatctcagacattgcaccac Alignment from Pairagon ---------------------------------------------------------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA CCTTCCCTTTCCCTTCTACTTCTCAGACGCCTACCTGCTTACCTGTGTAGGGAATATACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCCCCAAGCTGCCCTTTCCAAACCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAgtaagatgtgaacacatttcattaccttggtatctcagacattgcaccac Alignment from Exonerate_protein2genome G------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ccttccctttcccttctacttctcagacgcctacctgcttacctgtgtagGGAATATACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCCCCAAGCTGCCCTTTCCAAACCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAgtaagatgtgaacacatttcattaccttggtatctcagacattgcaccac Alignment from Exonerate_coding2genome G------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG ccttccctttcccttctacttctcagacgcctacctgcttacctgtgtagGGAATATACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCCCCAAGCTGCCCTTTCCAAACCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGtaagatgtgaacacatttcattaccttggtatctcagacattgcaccac Alignment from GeneWise ----TGGACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG ccttccctttcccttctacttctcagacgcctacctgcttacctgtgtagGGAATATACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCCCCAAGCTGCCCTTTCCAAACCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGtaagatgtgaacacatttcattaccttggtatctcagacattgcaccac #### Pcgf6_ID10083_4 --> 1 - 1 Original Alignment g---------TTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAa ctaaattcttttttggattctgagatatgctgtaatgtgtcttgctgcaggATTCTCAATTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCATTCTAGAGGAAagtacgaatcttttatttcatagttgtgaatcccaaagtctctgtctctgt Alignment from CESAR g---------TTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAa ctaaattcttttttggattctgagatatgctgtaatgtgtcttgctgcaggATTCTCAATTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCATTCTAGAGGAAagtacgaatcttttatttcatagttgtgaatcccaaagtctctgtctctgt Alignment from Spaln_aa2Genome GTTGGACCGG---------CAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA ctaaattcttttttggattctgagatatgctgtaatgtgtcttgctgcagGATTCTCAATTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCATTCTAGAGGAAAgtacgaatcttttatttcatagttgtgaatcccaaagtctctgtctctgt Alignment from Spaln_nt2Genome GTTGGACCGGC---------AGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA ctaaattcttttttggattctgagatatgctgtaatgtgtcttgctgcagGATTCTCAATTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCATTCTAGAGGAAAgtacgaatcttttatttcatagttgtgaatcccaaagtctctgtctctgt Alignment from Pairagon G---------TTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA ctaaattcttttttggattctgagatatgctgtaatgtgtcttgctgcagGATTCTCAATTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCATTCTAGAGGAAAgtacgaatcttttatttcatagttgtgaatcccaaagtctctgtctctgt Alignment from Exonerate_protein2genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA ctaaattcttttttggattctgagatatgctgtaatgtgtcttgctgcaggattctcaaTTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCATTCTAGAGGAAAgtacgaatcttttatttcatagttgtgaatcccaaagtctctgtctctgt Alignment from Exonerate_coding2genome GTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA ctaaattcttttttggattctgagatatgctgtaatgtgtcttgctgcaggattctcaaTTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCATTCTAGAGGAAAgtacgaatcttttatttcatagttgtgaatcccaaagtctctgtctctgt Alignment from GeneWise -------AGGTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCAATCTAGAGGAAA ctaaattcttttttggattctgagatatgctgtaatgtgtcttgctgcagGATTCTCAATTTGGACCGGCAGTTACAAGACATAGTATACAAATTAGTGATCATTCTAGAGGAAAgtacgaatcttttatttcatagttgtgaatcccaaagtctctgtctctgt #### Pcgf6_ID10084_3 --> 2 - 2 Original Alignment tt---------------------TGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAag aaatgtgaaggtaaaccatcataaattatctcttctctccgttcttccagttGTTGTCGGACTTATGATTGGATGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAaggtatgtatatacacacttaaactgtatctgcgtttaaaatcattgttgcc Alignment from CESAR tt---------------------TGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAag aaatgtgaaggtaaaccatcataaattatctcttctctccgttcttccagttGTTGTCGGACTTATGATTGGATGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAaggtatgtatatacacacttaaactgtatctgcgtttaaaatcattgttgcc Alignment from Spaln_aa2Genome TT---------------------TGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG aaatgtgaaggtaaaccatcataaattatctcttctctccgttcttccagTTGTTGTCGGACTTATGATTGGATGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAGgtatgtatatacacacttaaactgtatctgcgtttaaaatcattgttgcc Alignment from Spaln_nt2Genome CTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG aaatgtgaaggtaaaccatcataaattatctcttctctccgttcttccagttgttgtcggacttatgattggatgtaaaagCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAGgtatgtatatacacacttaaactgtatctgcgtttaaaatcattgttgcc Alignment from Pairagon TT---------------------TGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG aaatgtgaaggtaaaccatcataaattatctcttctctccgttcttccagTTGTTGTCGGACTTATGATTGGATGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAGgtatgtatatacacacttaaactgtatctgcgtttaaaatcattgttgcc Alignment from Exonerate_protein2genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG aaatgtgaaggtaaaccatcataaattatctcttctctccgttcttccagttgttgtcggacttatgattgGATGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAGgtatgtatatacacacttaaactgtatctgcgtttaaaatcattgttgcc Alignment from Exonerate_coding2genome TTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG aaatgtgaaggtaaaccatcataaattatctcttctctccgttcttccagttgttgtcggacttatgattgGATGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAGgtatgtatatacacacttaaactgtatctgcgtttaaaatcattgttgcc Alignment from GeneWise --------------------TTTTGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAG aaatgtgaaggtaaaccatcataaattatctcttctctccgttcttccagTTGTTGTCGGACTTATGATTGGATGTAAAAGCTGCATTGTGAGACATTTTTACTATAGTAACAGATGCCCAAAATGCAACATAGTTGTCCACCAGACTCAGCCTCTTTATAATATAAGgtatgtatatacacacttaaactgtatctgcgtttaaaatcattgttgcc #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG--------- tgggtgagacagcaccccagccgccgaggttattttggtctcttttctaggcAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCCGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGCCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAGAAGAGACCTgtacagagcctgtggaaaaaggcaaccccaggagctctcaggtcggttcg Alignment from CESAR gcAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG--------- tgggtgagacagcaccccagccgccgaggttattttggtctcttttctaggcAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCCGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGCCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAGAAGAGACCTgtacagagcctgtggaaaaaggcaaccccaggagctctcaggtcggttcg Alignment from Spaln_aa2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG--------- tgggtgagacagcaccccagccgccgaggttattttggtctcttttctagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCCGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGCCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAGAAGAGACCTgtacagagcctgtggaaaaaggcaaccccaggagctctcaggtcggttcg Alignment from Spaln_nt2Genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG--------- tgggtgagacagcaccccagccgccgaggttattttggtctcttttctagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCCGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGCCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAGAAGAGACCTgtacagagcctgtggaaaaaggcaaccccaggagctctcaggtcggttcg Alignment from Pairagon GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCT-------------------------------------------------------------- tgggtgagacagcaccccagccgccgaggttattttggtctcttttctagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCCGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGCCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAGAAGAGACCTGTACAGAGCCTGTGGAAAAAGGCAACCCCAGGAGCTCTCAGGTCGGTTCG Alignment from Exonerate_protein2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgggtgagacagcaccccagccgccgaggttattttggtctcttttctagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCCGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGCCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAGaagagacctgtacagagcctgtggaaaaaggcaaccccaggagctctcaggtcggttcg Alignment from Exonerate_coding2genome GCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgggtgagacagcaccccagccgccgaggttattttggtctcttttctagGCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCCGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGCCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAGaagagacctgtacagagcctgtggaaaaaggcaaccccaggagctctcaggtcggttcg Alignment from GeneWise CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG--------- tgggtgagacagcaccccagccgccgaggttattttggtctcttttctaggcagCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCCGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGCCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAGAAGAGACCTgtacagagcctgtggaaaaaggcaaccccaggagctctcaggtcggttcg #### Pcnxl3_ID1164_29 --> 0 - 2 Original Alignment ---CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag ctgtgctgcctggggtctttgtgtcagcatgtatctgttctctttcacagGACCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCGTCACACAGTATGTCTGCCaggtaactgcccacaggcagcagaagagccccacagcccattggtgcactcc Alignment from CESAR ---CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag ctgtgctgcctggggtctttgtgtcagcatgtatctgttctctttcacagGACCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCGTCACACAGTATGTCTGCCaggtaactgcccacaggcagcagaagagccccacagcccattggtgcactcc Alignment from Spaln_aa2Genome CCCGTGGAC---CAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ctgtgctgcctggggtctttgtgtcagcatgtatctgttctctttcacagGACCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCGTCACACAGTATGTCTGCCAGgtaactgcccacaggcagcagaagagccccacagcccattggtgcactcc Alignment from Spaln_nt2Genome CCCGTGGAC---CAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ctgtgctgcctggggtctttgtgtcagcatgtatctgttctctttcacagGACCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCGTCACACAGTATGTCTGCCAGgtaactgcccacaggcagcagaagagccccacagcccattggtgcactcc Alignment from Pairagon ---CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ctgtgctgcctggggtctttgtgtcagcatgtatctgttctctttcacagGACCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCGTCACACAGTATGTCTGCCAGgtaactgcccacaggcagcagaagagccccacagcccattggtgcactcc Alignment from Exonerate_protein2genome ---CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ctgtgctgcctggggtctttgtgtcagcatgtatctgttctctttcacagGACCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCGTCACACAGTATGTCTGCCAGgtaactgcccacaggcagcagaagagccccacagcccattggtgcactcc Alignment from Exonerate_coding2genome ---CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ctgtgctgcctggggtctttgtgtcagcatgtatctgttctctttcacagGACCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCGTCACACAGTATGTCTGCCAGgtaactgcccacaggcagcagaagagccccacagcccattggtgcactcc Alignment from GeneWise ---CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ctgtgctgcctggggtctttgtgtcagcatgtatctgttctctttcacagGACCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCCTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCGTCACACAGTATGTCTGCCAGgtaactgcccacaggcagcagaagagccccacagcccattggtgcactcc #### Pcnxl3_ID1167_26 --> 2 - 1 Original Alignment gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG---------g gagggtgctctctttacttgacatccatgccccttcctctgtgcctgcaggtGCTGATGACAACAACCTCAACTTGATCTTTTATGAGCACCTGACACGCTCACTGCAGCACATGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTCGTGCACCTCATTGAGGTTGGCAATGGCCTCATCGCCTTCCAGCTTCGTGGCCTTGAGTTCCGGGAAAAGATGggtaagtcagcctgagatgggacactagtagggggcagagcaagcaggcat Alignment from CESAR gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG---------g gagggtgctctctttacttgacatccatgccccttcctctgtgcctgcaggtGCTGATGACAACAACCTCAACTTGATCTTTTATGAGCACCTGACACGCTCACTGCAGCACATGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTCGTGCACCTCATTGAGGTTGGCAATGGCCTCATCGCCTTCCAGCTTCGTGGCCTTGAGTTCCGGGAAAAGATGggtaagtcagcctgagatgggacactagtagggggcagagcaagcaggcat Alignment from Spaln_aa2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG---------G gagggtgctctctttacttgacatccatgccccttcctctgtgcctgcagGTGCTGATGACAACAACCTCAACTTGATCTTTTATGAGCACCTGACACGCTCACTGCAGCACATGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTCGTGCACCTCATTGAGGTTGGCAATGGCCTCATCGCCTTCCAGCTTCGTGGCCTTGAGTTCCGGGAAAAGATGGgtaagtcagcctgagatgggacactagtagggggcagagcaagcaggcat Alignment from Spaln_nt2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG--------- gagggtgctctctttacttgacatccatgccccttcctctgtgcctgcagGTGCTGATGACAACAACCTCAACTTGATCTTTTATGAGCACCTGACACGCTCACTGCAGCACATGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTCGTGCACCTCATTGAGGTTGGCAATGGCCTCATCGCCTTCCAGCTTCGTGGCCTTGAGTTCCGGGAAAAGATGGgtaagtcagcctgagatgggacactagtagggggcagagcaagcaggcat Alignment from Pairagon GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG--------- gagggtgctctctttacttgacatccatgccccttcctctgtgcctgcagGTGCTGATGACAACAACCTCAACTTGATCTTTTATGAGCACCTGACACGCTCACTGCAGCACATGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTCGTGCACCTCATTGAGGTTGGCAATGGCCTCATCGCCTTCCAGCTTCGTGGCCTTGAGTTCCGGGAAAAGATGGgtaagtcagcctgagatgggacactagtagggggcagagcaagcaggcat Alignment from Exonerate_protein2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG gagggtgctctctttacttgacatccatgccccttcctctgtgcctgcagGTGCTGATGACAACAACCTCAACTTGATCTTTTATGAGCACCTGACACGCTCACTGCAGCACATGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTCGTGCACCTCATTGAGGTTGGCAATGGCCTCATCGCCTTCCAGCTTCGTGGCCTTGAGTTCCGGGaaaagatgggtaagtcagcctgagatgggacactagtagggggcagagcaagcaggcat Alignment from Exonerate_coding2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG gagggtgctctctttacttgacatccatgccccttcctctgtgcctgcagGTGCTGATGACAACAACCTCAACTTGATCTTTTATGAGCACCTGACACGCTCACTGCAGCACATGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTCGTGCACCTCATTGAGGTTGGCAATGGCCTCATCGCCTTCCAGCTTCGTGGCCTTGAGTTCCGGGaaaagatgggtaagtcagcctgagatgggacactagtagggggcagagcaagcaggcat Alignment from GeneWise GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGG---------G gagggtgctctctttacttgacatccatgccccttcctctgtgcctgcagGTGCTGATGACAACAACCTCAACTTGATCTTTTATGAGCACCTGACACGCTCACTGCAGCACATGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTCGTGCACCTCATTGAGGTTGGCAATGGCCTCATCGCCTTCCAGCTTCGTGGCCTTGAGTTCCGGGAAAAGATGGgtaagtcagcctgagatgggacactagtagggggcagagcaagcaggcat #### Pcnxl3_ID1168_25 --> 1 - 1 Original Alignment cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAg gggttcagagaggaccacccagtgcataaaccactctgggctctttgcagcACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGAC---------ggtgagtcgccgcagcgattacttgtctaggccctcacaggcaagttgccc Alignment from CESAR cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAg gggttcagagaggaccacccagtgcataaaccactctgggctctttgcagcACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGAC---------ggtgagtcgccgcagcgattacttgtctaggccctcacaggcaagttgccc Alignment from Spaln_aa2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGAC- gggttcagagaggaccacccagtgcataaaccactctgggctctttgcagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACGgtgagtcgccgcagcgattacttgtctaggccctcacaggcaagttgccc Alignment from Spaln_nt2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG gggttcagagaggaccacccagtgcataaaccactctgggctctttgcagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGAC---------Ggtgagtcgccgcagcgattacttgtctaggccctcacaggcaagttgccc Alignment from Pairagon CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAG gggttcagagaggaccacccagtgcataaaccactctgggctctttgcagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGAC---------Ggtgagtcgccgcagcgattacttgtctaggccctcacaggcaagttgccc Alignment from Exonerate_protein2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACC gggttcagagaggaccacccagtgcataaaccactctgggctctttgcagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACGgtgagtcgccgcagcgattacttgtctaggccctcacaggcaagttgccc Alignment from Exonerate_coding2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACC gggttcagagaggaccacccagtgcataaaccactctgggctctttgcagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACGgtgagtcgccgcagcgattacttgtctaggccctcacaggcaagttgccc Alignment from GeneWise CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACC gggttcagagaggaccacccagtgcataaaccactctgggctctttgcagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACGgtgagtcgccgcagcgattacttgtctaggccctcacaggcaagttgccc #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa aggagaggagagggaggcagattgaggactctcttcttttctccacacagac------ATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTTTCTACCCCACTCAACCCCTTGCTGGGCAGTGCAGTCTTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaagtctggctcaggagaggtaagagctgatgtcccagaggtctcaggggacg Alignment from CESAR acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ctgcagaggagaggagagggaggcaggactctcttcttttctccacacagac------ATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTTTCTACCCCACTCAACCCCTTGCTGGGCAGTGCAGTCTTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaagtctggctcaggagaggtaagagctgatgtcccagaggtctcaggggacg Alignment from Spaln_aa2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA aggagaggagagggaggcagattgaggactctcttcttttctccacacagAC------ATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTTTCTACCCCACTCAACCCCTTGCTGGGCAGTGCAGTCTTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtctggctcaggagaggtaagagctgatgtcccagaggtctcaggggacg Alignment from Spaln_nt2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA aggagaggagagggaggcagattgaggactctcttcttttctccacacagAC------ATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTTTCTACCCCACTCAACCCCTTGCTGGGCAGTGCAGTCTTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtctggctcaggagaggtaagagctgatgtcccagaggtctcaggggacg Alignment from Pairagon ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA aggagaggagagggaggcagattgaggactctcttcttttctccacacagAC------ATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTTTCTACCCCACTCAACCCCTTGCTGGGCAGTGCAGTCTTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtctggctcaggagaggtaagagctgatgtcccagaggtctcaggggacg Alignment from Exonerate_protein2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA aggagaggagagggaggcagattgaggactctcttcttttctccACACAGACATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTTTCTACCCCACTCAACCCCTTGCTGGGCAGTGCAGTCTTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtctggctcaggagaggtaagagctgatgtcccagaggtctcaggggacg Alignment from Exonerate_coding2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA aggagaggagagggaggcagattgaggactctcttcttttctccACACAGACATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTTTCTACCCCACTCAACCCCTTGCTGGGCAGTGCAGTCTTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtctggctcaggagaggtaagagctgatgtcccagaggtctcaggggacg Alignment from GeneWise -----------------CACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA aggagaggagagggaggcagattgagGACTCTCTTCTTTTCTCCACACAGACATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTTTCTACCCCACTCAACCCCTTGCTGGGCAGTGCAGTCTTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtctggctcaggagaggtaagagctgatgtcccagaggtctcaggggacg #### Pcnxl3_ID1174_19 --> 0 - 0 Original Alignment CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgacaccatgcagcaggcagtcactgtaaatcttacttctgttctacagAGGGAAGTCTTGCACTCTGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCTGTCAGTGCCAGCACTGTCTTCATTGCCTTG---gtgagtagtttggaataggtgaacctcttggtatagatcagcgcacttct Alignment from CESAR CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG gtgacaccatgcagcaggcagtcactgtaaatcttacttctgttctacagAGGGAAGTCTTGCACTCTGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCTGTCAGTGCCAGCACTGTCTTCATTGCCTTG---gtgagtagtttggaataggtgaacctcttggtatagatcagcgcact Alignment from Spaln_aa2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAGTCAG gtgacaccatgcagcaggcagtcactgtaaatcttacttctgttctacagAGGGAAGTCTTGCACTCTGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCTGTCAGTGCCAGCACTGTCTTCATTGCCTTGGTGAGTAgtttggaataggtgaacctcttggtatagatcagcgcacttct Alignment from Spaln_nt2Genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTG gtgacaccatgcagcaggcagtcactgtaaatcttacttctgttctacagAGGGAAGTCTTGCACTCTGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCTGTCAGTGCCAGCACTGTCTTCATTGCCTTGgtgagtagtttggaataggtgaacctcttggtatagatcagcgcacttct Alignment from Pairagon CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTG gtgacaccatgcagcaggcagtcactgtaaatcttacttctgttctacagAGGGAAGTCTTGCACTCTGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCTGTCAGTGCCAGCACTGTCTTCATTGCCTTGgtgagtagtttggaataggtgaacctcttggtatagatcagcgcacttct Alignment from Exonerate_protein2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTG gtgacaccatgcagcaggcagtcactgtaaatcttacttctgttctacagAGGGAAGTCTTGCACTCTGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCTGTCAGTGCCAGCACTGTCTTCATTGCCTTGgtgagtagtttggaataggtgaacctcttggtatagatcagcgcacttct Alignment from Exonerate_coding2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTG gtgacaccatgcagcaggcagtcactgtaaatcttacttctgttctacagAGGGAAGTCTTGCACTCTGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCTGTCAGTGCCAGCACTGTCTTCATTGCCTTGgtgagtagtttggaataggtgaacctcttggtatagatcagcgcacttct Alignment from GeneWise CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAGTCAG gtgacaccatgcagcaggcagtcactgtaaatcttacttctgttctacagAGGGAAGTCTTGCACTCTGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCTGTCAGTGCCAGCACTGTCTTCATTGCCTTGGTGAGTAgtttggaataggtgaacctcttggtatagatcagcgcacttct #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg ctcgcaggagctggcaagcttactggtcacttgtcatttctctcattcagtaTTCACCTTATGCTTTCCGTTTGTATTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTTATGTACCTCCTTGAACAGATAGACATGCATGGCTTTGGAGGC---ggtgggaaaatgcacccaggatggtctgtccacaggggggactgtccacag Alignment from CESAR tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg ctcgcaggagctggcaagcttactggtcacttgtcatttctctcattcagtaTTCACCTTATGCTTTCCGTTTGTATTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTTATGTACCTCCTTGAACAGATAGACATGCATGGCTTTGGAGGC---ggtgggaaaatgcacccaggatggtctgtccacaggggggactgtccacag Alignment from Spaln_aa2Genome TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGC- ctcgcaggagctggcaagcttactggtcacttgtcatttctctcattcagTATTCACCTTATGCTTTCCGTTTGTATTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTTATGTACCTCCTTGAACAGATAGACATGCATGGCTTTGGAGGCGgtgggaaaatgcacccaggatggtctgtccacaggggggactgtccacag Alignment from Spaln_nt2Genome TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG ctcgcaggagctggcaagcttactggtcacttgtcatttctctcattcagTATTCACCTTATGCTTTCCGTTTGTATTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTTATGTACCTCCTTGAACAGATAGACATGCATGGCTTTGGAGGC---Ggtgggaaaatgcacccaggatggtctgtccacaggggggactgtccacag Alignment from Pairagon TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG ctcgcaggagctggcaagcttactggtcacttgtcatttctctcattcagTATTCACCTTATGCTTTCCGTTTGTATTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTTATGTACCTCCTTGAACAGATAGACATGCATGGCTTTGGAGGC---Ggtgggaaaatgcacccaggatggtctgtccacaggggggactgtccacag Alignment from Exonerate_protein2genome TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG ctcgcaggagctggcaagcttactggtcacttgtcatttctctcattcagTATTCACCTTATGCTTTCCGTTTGTATTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTTATGTACCTCCTTGAACAGATAGACATGCATGGCTTTGGAGGCGGTGggaaaatgcacccaggatggtctgtccacaggggggactgtccacag Alignment from Exonerate_coding2genome TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG ctcgcaggagctggcaagcttactggtcacttgtcatttctctcattcagTATTCACCTTATGCTTTCCGTTTGTATTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTTATGTACCTCCTTGAACAGATAGACATGCATGGCTTTGGAGGCGGTGggaaaatgcacccaggatggtctgtccacaggggggactgtccacag Alignment from GeneWise TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCA ctcgcaggagctggcaagcttactggtcacttgtcatttctctcattcagTATTCACCTTATGCTTTCCGTTTGTATTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTTATGTACCTCCTTGAACAGATAGACATGCATGGCTTTGGAGGCGgtgggaaaatgcacccaggatggtctgtccacaggggggactgtccacag #### Pcnxl3_ID1179_14 --> 0 - 1 Original Alignment GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACT---------------------------g ccagggaggtcactggggaaggcccaagcacactgatgtttgacgtatagGGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTGCTCATCTGGTTGCTGGATGCCCTCGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTATGGCCTCACGCTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTTGGGATCTGGTGTTATGTGCCCCGACCggtgaggcagggcaagatagacccaagggactgagtctgaaggctgggcct Alignment from CESAR GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACT---------------g ccagggaggtcactggggaaggcccaagcacactgatgtttgacgtatagGGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTGCTCATCTGGTTGCTGGATGCCCTCGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTATGGCCTCACGCTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTTGGGATCTGGTGTTAtgtgccccgaccggtgaggcagggcaagatagacccaagggactgagtctgaaggctgggcct Alignment from Spaln_aa2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACT---------------G ccagggaggtcactggggaaggcccaagcacactgatgtttgacgtatagGGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTGCTCATCTGGTTGCTGGATGCCCTCGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTATGGCCTCACGCTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTTGGGATCTGGTGTTATgtgccccgaccggtgaggcagggcaagatagacccaagggactgagtctgaaggctgggcct Alignment from Spaln_nt2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACT--------G ccagggaggtcactggggaaggcccaagcacactgatgtttgacgtatagGGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTGCTCATCTGGTTGCTGGATGCCCTCGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTATGGCCTCACGCTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTTGGGATCTGgtgttatgtgccccgaccggtgaggcagggcaagatagacccaagggactgagtctgaaggctgggcct Alignment from Pairagon GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACT------------------------------------------------------------------------------ ccagggaggtcactggggaaggcccaagcacactgatgtttgacgtatagGGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTGCTCATCTGGTTGCTGGATGCCCTCGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTATGGCCTCACGCTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTTGGGATCTGGTGTTATGTGCCCCGACCGGTGAGGCAGGGCAAGATAGACCCAAGGGACTGAGTCTGAAGGCTGGGCCT Alignment from Exonerate_protein2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTG ccagggaggtcactggggaaggcccaagcacactgatgtttgacgtatagGGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTGCTCATCTGGTTGCTGGATGCCCTCGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTATGGCCTCACGCTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGgccacttgggatctggtgttatgtgccccgaccggtgaggcagggcaagatagacccaagggactgagtctgaaggctgggcct Alignment from Exonerate_coding2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTG ccagggaggtcactggggaaggcccaagcacactgatgtttgacgtatagGGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTGCTCATCTGGTTGCTGGATGCCCTCGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTATGGCCTCACGCTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGgccacttgggatctggtgttatgtgccccgaccggtgaggcagggcaagatagacccaagggactgagtctgaaggctgggcct Alignment from GeneWise GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACT---------------G ccagggaggtcactggggaaggcccaagcacactgatgtttgacgtatagGGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTGCTCATCTGGTTGCTGGATGCCCTCGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTATGGCCTCACGCTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTTGGGATCTGGTGTTATgtgccccgaccggtgaggcagggcaagatagacccaagggactgagtctgaaggctgggcct #### Pcnxl3_ID1184_9 --> 2 - 2 Original Alignment gtGTACGACGGTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCAGCCAATGGAGCCtg tagtctcggaccctgatagcagtgaagctctcaatgtgccccacccacaggt---------TCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCTGCCAATGGAGCCtggtgaatctccagtgagcttcttgagagcccatccggttgcatttctgaac Alignment from CESAR gtGTACGACGGTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCAGCCAATGGAGCCtg atgcccttgtagtctcggaccctgaagctctcaatgtgccccacccacaggt---------TCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCTGCCAATGGAGCCtggtgaatctccagtgagcttcttgagagcccatccggttgcatttctgaac Alignment from Spaln_aa2Genome GTGTACGACGGTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCAGCCAATGGAGCCTG tagtctcggaccctgatagcagtgaagctctcaatgtgccccacccacagGT---------TCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCTGCCAATGGAGCCTGgtgaatctccagtgagcttcttgagagcccatccggttgcatttctgaac Alignment from Spaln_nt2Genome GGTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCAGCCAATGGAGCCTG tagtctcggaccctgatagcagtgaagctctcaatgtgccccacccacagGTTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCTGCCAATGGAGCCTGgtgaatctccagtgagcttcttgagagcccatccggttgcatttctgaac Alignment from Pairagon GTGTACGACGGTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCAGCCAATGGAGCCTG tagtctcggaccctgatagcagtgaagctctcaatgtgccccacccacagGT---------TCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCTGCCAATGGAGCCTGgtgaatctccagtgagcttcttgagagcccatccggttgcatttctgaac Alignment from Exonerate_protein2genome ACGGTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCAGCCAATGGAGCCTG tagtctcggaccctgatagcagtgaagctctcaatgtgccccacccacAGGTTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCTGCCAATGGAGCCTGgtgaatctccagtgagcttcttgagagcccatccggttgcatttctgaac Alignment from Exonerate_coding2genome ACGGTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCAGCCAATGGAGCCTG tagtctcggaccctgatagcagtgaagctctcaatgtgccccacccacAGGTTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCTGCCAATGGAGCCTGgtgaatctccagtgagcttcttgagagcccatccggttgcatttctgaac Alignment from GeneWise GTGTACGACGGTCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCAGCCAATGGAGCCTG tagtctcggaccctgatagcagtgaagctctcaatgtgccccacccacagGT---------TCGTATACCTTTGGCCTAGCTGGAGGTGGCTACGAGAACCCTGTGAGTCAGCCAGGCGAGCAGGCTGCCAATGGAGCCTGgtgaatctccagtgagcttcttgagagcccatccggttgcatttctgaac #### Pcnxl3_ID1185_8 --> 1 - 1 Original Alignment cAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGT---g gaaggggcgactggctctcctagtgctggtgtgcatttgcctctgcgcagcAGCCTGCAGGAGGCTCAGCGTGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCTGCTCTGCACTTTGCCTCTTCCCTGCTGCTCACCCGAGCTGGCCCGAACGTCCATGAAGCCAGCAATTTTCATGACACCTCTGAAGGTGCTGTGCACTATTTCTACGATGAGAGTGCCggtaagtccttccccaaccagcccaccacctcttatgtacttcccagaggt Alignment from CESAR cAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGT---g gaaggggcgactggctctcctagtgctggtgtgcatttgcctctgcgcagcAGCCTGCAGGAGGCTCAGCGTGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCTGCTCTGCACTTTGCCTCTTCCCTGCTGCTCACCCGAGCTGGCCCGAACGTCCATGAAGCCAGCAATTTTCATGACACCTCTGAAGGTGCTGTGCACTATTTCTACGATGAGAGTGCCggtaagtccttccccaaccagcccaccacctcttatgtacttcccagaggt Alignment from Spaln_aa2Genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGT---G gaaggggcgactggctctcctagtgctggtgtgcatttgcctctgcgcagCAGCCTGCAGGAGGCTCAGCGTGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCTGCTCTGCACTTTGCCTCTTCCCTGCTGCTCACCCGAGCTGGCCCGAACGTCCATGAAGCCAGCAATTTTCATGACACCTCTGAAGGTGCTGTGCACTATTTCTACGATGAGAGTGCCGgtaagtccttccccaaccagcccaccacctcttatgtacttcccagaggt Alignment from Spaln_nt2Genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG--- gaaggggcgactggctctcctagtgctggtgtgcatttgcctctgcgcagCAGCCTGCAGGAGGCTCAGCGTGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCTGCTCTGCACTTTGCCTCTTCCCTGCTGCTCACCCGAGCTGGCCCGAACGTCCATGAAGCCAGCAATTTTCATGACACCTCTGAAGGTGCTGTGCACTATTTCTACGATGAGAGTGCCGgtaagtccttccccaaccagcccaccacctcttatgtacttcccagaggt Alignment from Pairagon CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTG--- gaaggggcgactggctctcctagtgctggtgtgcatttgcctctgcgcagCAGCCTGCAGGAGGCTCAGCGTGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCTGCTCTGCACTTTGCCTCTTCCCTGCTGCTCACCCGAGCTGGCCCGAACGTCCATGAAGCCAGCAATTTTCATGACACCTCTGAAGGTGCTGTGCACTATTTCTACGATGAGAGTGCCGgtaagtccttccccaaccagcccaccacctcttatgtacttcccagaggt Alignment from Exonerate_protein2genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGT---G gaaggggcgactggctctcctagtgctggtgtgcatttgcctctgcgcagCAGCCTGCAGGAGGCTCAGCGTGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCTGCTCTGCACTTTGCCTCTTCCCTGCTGCTCACCCGAGCTGGCCCGAACGTCCATGAAGCCAGCAATTTTCATGACACCTCTGAAGGTGCTGTGCACTATTTCTACGATGAGAGTGCCGgtaagtccttccccaaccagcccaccacctcttatgtacttcccagaggt Alignment from Exonerate_coding2genome CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGT---G gaaggggcgactggctctcctagtgctggtgtgcatttgcctctgcgcagCAGCCTGCAGGAGGCTCAGCGTGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCTGCTCTGCACTTTGCCTCTTCCCTGCTGCTCACCCGAGCTGGCCCGAACGTCCATGAAGCCAGCAATTTTCATGACACCTCTGAAGGTGCTGTGCACTATTTCTACGATGAGAGTGCCGgtaagtccttccccaaccagcccaccacctcttatgtacttcccagaggt Alignment from GeneWise CAGCCTGCAGGAGGCTCAGCGGGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCCGCTCTGCACTTTGCCTCTTCCCTGTTGCTCACCCGAGCTGGCCCCAACGTCCATGAAGCCAGCAATTTTGATGACACCTCTGAGGGTGCTGTGCACTATTTCTACGACGAGAGTGGT- gaaggggcgactggctctcctagtgctggtgtgcatttgcctctgcgcagCAGCCTGCAGGAGGCTCAGCGTGGCCGGGCTGCTTCCCACTCCAGGGCACTGACTCTGCCCTCTGCTCTGCACTTTGCCTCTTCCCTGCTGCTCACCCGAGCTGGCCCGAACGTCCATGAAGCCAGCAATTTTCATGACACCTCTGAAGGTGCTGTGCACTATTTCTACGATGAGAGTGCCGgtaagtccttccccaaccagcccaccacctcttatgtacttcccagaggt #### Pcnxl3_ID1188_5 --> 2 - 1 Original Alignment acATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa cagaagaggaccccagggttgtgatccattcctgacttttccttatatagac---AAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATTGTGACCTCTGCCGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGagtaactgggcaaaactggcaggcagatgtcttgtgatgaccatcatccca Alignment from CESAR acATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa taacagaagaggaccccagggttgtccattcctgacttttccttatatagac---AAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATTGTGACCTCTGCCGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGagtaactgggcaaaactggcaggcagatgtcttgtgatgaccatcatccca Alignment from Spaln_aa2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA cagaagaggaccccagggttgtgatccattcctgacttttccttatatagAC---AAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATTGTGACCTCTGCCGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaggcagatgtcttgtgatgaccatcatccca Alignment from Spaln_nt2Genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA cagaagaggaccccagggttgtgatccattcctgacttttccttatatagA---CAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATTGTGACCTCTGCCGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaggcagatgtcttgtgatgaccatcatccca Alignment from Pairagon ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA cagaagaggaccccagggttgtgatccattcctgacttttccttatatagA---CAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATTGTGACCTCTGCCGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaggcagatgtcttgtgatgaccatcatccca Alignment from Exonerate_protein2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA cagaagaggaccccagggttgtgatccattcctgacttttccttatatagAC---AAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATTGTGACCTCTGCCGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaggcagatgtcttgtgatgaccatcatccca Alignment from Exonerate_coding2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA cagaagaggaccccagggttgtgatccattcctgacttttccttatatagAC---AAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATTGTGACCTCTGCCGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaggcagatgtcttgtgatgaccatcatccca Alignment from GeneWise ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA cagaagaggaccccagggttgtgatccattcctgacttttccttatatagAC---AAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATTGTGACCTCTGCCGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaggcagatgtcttgtgatgaccatcatccca #### Pcnxl3_ID1190_3 --> 1 - 0 Original Alignment gGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ gaaggaactgtaaagggagcacaactgattttctctttttcacacaaaaggGATCCTGGTGTAGAGATGACGGTGTTCCAGAAGGTTAGCTCCACACCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGATAGGCTTCAACCATGTTTCAAATTCCgtgagtaggctccccttgtcactgtcctgggagtcagcccttggtgtggg Alignment from CESAR gGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ gaaggaactgtaaagggagcacaactgattttctctttttcacacaaaaggGATCCTGGTGTAGAGATGACGGTGTTCCAGAAGGTTAGCTCCACACCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGATAGGCTTCAACCATGTTTCAAATTCCgtgagtaggctccccttgtcactgtcctgggagtcagcccttggtgtggg Alignment from Spaln_aa2Genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTT------TCG gaaggaactgtaaagggagcacaactgattttctctttttcacacaaaagGGATCCTGGTGTAGAGATGACGGTGTTCCAGAAGGTTAGCTCCACACCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGATAGGCTTCAACCATGTTTCAAATTCCgtgagtaggctccccttgtcactgtcctgggagtcagcccttggtgtggg Alignment from Spaln_nt2Genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ gaaggaactgtaaagggagcacaactgattttctctttttcacacaaaagGGATCCTGGTGTAGAGATGACGGTGTTCCAGAAGGTTAGCTCCACACCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGATAGGCTTCAACCATGTTTCAAATTCCgtgagtaggctccccttgtcactgtcctgggagtcagcccttggtgtggg Alignment from Pairagon GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ gaaggaactgtaaagggagcacaactgattttctctttttcacacaaaagGGATCCTGGTGTAGAGATGACGGTGTTCCAGAAGGTTAGCTCCACACCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGATAGGCTTCAACCATGTTTCAAATTCCgtgagtaggctccccttgtcactgtcctgggagtcagcccttggtgtggg Alignment from Exonerate_protein2genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTT------TCG gaaggaactgtaaagggagcacaactgattttctctttttcacacaaaagGGATCCTGGTGTAGAGATGACGGTGTTCCAGAAGGTTAGCTCCACACCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGATAGGCTTCAACCATGTTTCAAATTCCgtgagtaggctccccttgtcactgtcctgggagtcagcccttggtgtggg Alignment from Exonerate_coding2genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTT------TCG gaaggaactgtaaagggagcacaactgattttctctttttcacacaaaagGGATCCTGGTGTAGAGATGACGGTGTTCCAGAAGGTTAGCTCCACACCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGATAGGCTTCAACCATGTTTCAAATTCCgtgagtaggctccccttgtcactgtcctgggagtcagcccttggtgtggg Alignment from GeneWise GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCGGAGTTG gaaggaactgtaaagggagcacaactgattttctctttttcacacaaaagGGATCCTGGTGTAGAGATGACGGTGTTCCAGAAGGTTAGCTCCACACCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGATAGGCTTCAACCATGTTTCAAATTCCgtgagtaggctccccttgtcactgtcctgggagtcagcccttggtgtggg #### Pcx_ID555_5 --> 2 - 0 Original Alignment gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG--------- ggcaggaagagatagtctgaggattctgtgtttttctccctctgtttcaggtGTTCCAGTGGTCCCTGGCACAGACTCCCCCATCAGCTCCCTACACGAGGCACATGAGTTCTCCAACACCTATGGTTCCCCTATTATTTTCAAGGCCGCCTATGGAGGTGGGGGCCGTGGCATGAGGGTTGTGCATAGCTATGAAACAACTCCAgtatagggggcagcacatataccaaagtctctgtgataggctggcagcca Alignment from CESAR gcGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG--------- ggcaggaagagatagtctgaggattctgtgtttttctccctctgtttcaggtGTTCCAGTGGTCCCTGGCACAGACTCCCCCATCAGCTCCCTACACGAGGCACATGAGTTCTCCAACACCTATGGTTCCCCTATTATTTTCAAGGCCGCCTATGGAGGTGGGGGCCGTGGCATGAGGGTTGTGCATAGCTATGAAACAACTCCAgtatagggggcagcacatataccaaagtctctgtgataggctggcagcca Alignment from Spaln_aa2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG--------- ggcaggaagagatagtctgaggattctgtgtttttctccctctgtttcagGTGTTCCAGTGGTCCCTGGCACAGACTCCCCCATCAGCTCCCTACACGAGGCACATGAGTTCTCCAACACCTATGGTTCCCCTATTATTTTCAAGGCCGCCTATGGAGGTGGGGGCCGTGGCATGAGGGTTGTGCATAGCTATGAAACAACTCCAgtatagggggcagcacatataccaaagtctctgtgataggctggcagcca Alignment from Spaln_nt2Genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG--------- ggcaggaagagatagtctgaggattctgtgtttttctccctctgtttcagGTGTTCCAGTGGTCCCTGGCACAGACTCCCCCATCAGCTCCCTACACGAGGCACATGAGTTCTCCAACACCTATGGTTCCCCTATTATTTTCAAGGCCGCCTATGGAGGTGGGGGCCGTGGCATGAGGGTTGTGCATAGCTATGAAACAACTCCAgtatagggggcagcacatataccaaagtctctgtgataggctggcagcca Alignment from Pairagon GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATG------------------------------------------------------------- ggcaggaagagatagtctgaggattctgtgtttttctccctctgtttcagGTGTTCCAGTGGTCCCTGGCACAGACTCCCCCATCAGCTCCCTACACGAGGCACATGAGTTCTCCAACACCTATGGTTCCCCTATTATTTTCAAGGCCGCCTATGGAGGTGGGGGCCGTGGCATGAGGGTTGTGCATAGCTATGAAACAACTCCAGTATAGGGGGCAGCACATATACCAAAGTCTCTGTGATAGGCTGGCAGCCA Alignment from Exonerate_protein2genome GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggcaggaagagatagtctgaggattctgtgtttttctccctctgtttcagGTGTTCCAGTGGTCCCTGGCACAGACTCCCCCATCAGCTCCCTACACGAGGCACATGAGTTCTCCAACACCTATGGTTCCCCTATTATTTTCAAGGCCGCCTATGGAGGTGGGGGCCGTGGCATGAGGGTTGTGCATAGCTATGAAacaactccagtatagggggcagcacatataccaaagtctctgtgataggctggcagcca Alignment from Exonerate_coding2genome CGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggcaggaagagatagtctgaggattctgtgtttttctccctctgtttcaggTGTTCCAGTGGTCCCTGGCACAGACTCCCCCATCAGCTCCCTACACGAGGCACATGAGTTCTCCAACACCTATGGTTCCCCTATTATTTTCAAGGCCGCCTATGGAGGTGGGGGCCGTGGCATGAGGGTTGTGCATAGCTATGAAacaactccagtatagggggcagcacatataccaaagtctctgtgataggctggcagcca Alignment from GeneWise GCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG--------- ggcaggaagagatagtctgaggattctgtgtttttctccctctgtttcagGTGTTCCAGTGGTCCCTGGCACAGACTCCCCCATCAGCTCCCTACACGAGGCACATGAGTTCTCCAACACCTATGGTTCCCCTATTATTTTCAAGGCCGCCTATGGAGGTGGGGGCCGTGGCATGAGGGTTGTGCATAGCTATGAAACAACTCCAgtatagggggcagcacatataccaaagtctctgtgataggctggcagcca #### Pcx_ID556_6 --> 0 - 1 Original Alignment ------------------------GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg gagggcacagagctggccccatgtctgctctggaaacttctatcccacagAAAACCCCAGCTAAAGTGCTACTCGAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCATTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAggtaaaaggggatctgtgtgaaacatcagaagcctacatctccccagttta Alignment from CESAR ------------------------GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg gagggcacagagctggccccatgtctgctctggaaacttctatcccacagAAAACCCCAGCTAAAGTGCTACTCGAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCATTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAggtaaaaggggatctgtgtgaaacatcagaagcctacatctccccagttta Alignment from Spaln_aa2Genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG gagggcacagagctggccccatgtctgctctggaaacttctatcccacagaaaaccccagctaaagtgctactcgagTTGGAAGAG---AATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCATTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAGgtaaaaggggatctgtgtgaaacatcagaagcctacatctccccagttta Alignment from Spaln_nt2Genome GGAGTTGGAA-------GAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG gagggcacagagctggccccatgtctgctctggaaacttctatcccacagaaaaccccagctaaagTGCTACTCGAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCATTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAGgtaaaaggggatctgtgtgaaacatcagaagcctacatctccccagttta Alignment from Pairagon --------------GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG gagggcacagagctggccccatgtctgctctggaaacttctatcccacagaaaaccccagCTAAAGTGCTACTCGAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCATTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAGgtaaaaggggatctgtgtgaaacatcagaagcctacatctccccagttta Alignment from Exonerate_protein2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG gagggcacagagctggccccatgtctgctctggaaacttctatcccacagaaaaccccagctaaagtgctactcGAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCATTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAGgtaaaaggggatctgtgtgaaacatcagaagcctacatctccccagttta Alignment from Exonerate_coding2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG gagggcacagagctggccccatgtctgctctggaaacttctatcccacagaaaaccccagctaaagtgctactcGAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCATTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAGgtaaaaggggatctgtgtgaaacatcagaagcctacatctccccagttta Alignment from GeneWise TTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG gagggcacagagctggccccatgtctgctctggaaacttctatcccacagaaaaccccagctaaagtgctactcgagTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCATTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAGgtaaaaggggatctgtgtgaaacatcagaagcctacatctccccagttta #### Pcx_ID564_13 --> 2 - 2 Original Alignment gcCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCaa gcgggaggtggctgctgtaagacaggcgctcctaccctctctccacccaggcCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCCCGAGCAGTTCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCATTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTCGATGTTGCGATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCAAACATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTACGCTGACAAT---------aagtaagcctggggaatgatggtctgctgagaccacagcagtggactcccaa Alignment from CESAR gcCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCaa gcgggaggtggctgctgtaagacaggcgctcctaccctctctccacccaggcCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCCCGAGCAGTTCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCATTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTCGATGTTGCGATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCAAACATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTACGCTGACAAT---------aagtaagcctggggaatgatggtctgctgagaccacagcagtggactcccaa Alignment from Spaln_aa2Genome GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGT gcgggaggtggctgctgtaagacaggcgctcctaccctctctccacccagGCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCCCGAGCAGTTCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCATTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTCGATGTTGCGATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCAAACATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTACGCTGACAATAAgtaagcctggggaatgatggtctgctgagaccacagcagtggactcccaa Alignment from Spaln_nt2Genome GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGT gcgggaggtggctgctgtaagacaggcgctcctaccctctctccacccagGCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCCCGAGCAGTTCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCATTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTCGATGTTGCGATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCAAACATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTACGCTGACAATAAgtaagcctggggaatgatggtctgctgagaccacagcagtggactcccaa Alignment from Pairagon GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA gcgggaggtggctgctgtaagacaggcgctcctaccctctctccacccagGCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCCCGAGCAGTTCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCATTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTCGATGTTGCGATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCAAACATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTACGCTGACAA---------TAAgtaagcctggggaatgatggtctgctgagaccacagcagtggactcccaa Alignment from Exonerate_protein2genome GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA gcgggaggtggctgctgtaagacaggcgctcctaccctctctccacccagGCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCCCGAGCAGTTCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCATTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTCGATGTTGCGATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCAAACATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTACGCTGACAATAAGTAAGCCTGgggaatgatggtctgctgagaccacagcagtggactcccaa Alignment from Exonerate_coding2genome GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA gcgggaggtggctgctgtaagacaggcgctcctaccctctctccacccagGCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCCCGAGCAGTTCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCATTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTCGATGTTGCGATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCAAACATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTACGCTGACAATAAGTAAGCCTGgggaatgatggtctgctgagaccacagcagtggactcccaa Alignment from GeneWise GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGT gcgggaggtggctgctgtaagacaggcgctcctaccctctctccacccagGCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCCCGAGCAGTTCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCATTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTCGATGTTGCGATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCAAACATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTACGCTGACAATAAgtaagcctggggaatgatggtctgctgagaccacagcagtggactcccaa #### Pdcd11_ID10129_23 --> 0 - 1 Original Alignment GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAg acaaacctttatgggaacattagaactatcagtttatgaaatctcttcagGTTCTGAAACACCCAGACAAAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACCGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTC---ggtgagtaggaatgattcggtacctggtcagagagagactggggtgggagg Alignment from CESAR GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAg acaaacctttatgggaacattagaactatcagtttatgaaatctcttcagGTTCTGAAACACCCAGACAAAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACCGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTC---ggtgagtaggaatgattcggtacctggtcagagagagactggggtgggagg Alignment from Spaln_aa2Genome GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTC- acaaacctttatgggaacattagaactatcagtttatgaaatctcttcagGTTCTGAAACACCCAGACAAAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACCGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCGgtgagtaggaatgattcggtacctggtcagagagagactggggtgggagg Alignment from Spaln_nt2Genome GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG- acaaacctttatgggaacattagaactatcagtttatgaaatctcttcagGTTCTGAAACACCCAGACAAAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACCGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCGGTGAgtaggaatgattcggtacctggtcagagagagactggggtgggagg Alignment from Pairagon GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG acaaacctttatgggaacattagaactatcagtttatgaaatctcttcagGTTCTGAAACACCCAGACAAAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACCGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTC---Ggtgagtaggaatgattcggtacctggtcagagagagactggggtgggagg Alignment from Exonerate_protein2genome GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG acaaacctttatgggaacattagaactatcagtttatgaaatctcttcagGTTCTGAAACACCCAGACAAAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACCGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTC---Ggtgagtaggaatgattcggtacctggtcagagagagactggggtgggagg Alignment from Exonerate_coding2genome GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG acaaacctttatgggaacattagaactatcagtttatgaaatctcttcagGTTCTGAAACACCCAGACAAAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACCGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTC---Ggtgagtaggaatgattcggtacctggtcagagagagactggggtgggagg Alignment from GeneWise GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCA acaaacctttatgggaacattagaactatcagtttatgaaatctcttcagGTTCTGAAACACCCAGACAAAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACCGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCGgtgagtaggaatgattcggtacctggtcagagagagactggggtgggagg #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ atggtgcccagacacctctgccctctctgaccttccactctgtcctgcagtGTGAACCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAAGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCATGAGTCTGAGAGCGAGCAGTTTTTCgtgagtacccctccctgggcggcattgcctcatctcacccatcagtgttt Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ atggtgcccagacacctctgccctctctgaccttccactctgtcctgcagtGTGAACCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAAGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCATGAGTCTGAGAGCGAGCAGTTTTTCgtgagtacccctccctgggcggcattgcctcatctcacccatcagtgttt Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ atggtgcccagacacctctgccctctctgaccttccactctgtcctgcagTGTGAACCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAAGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCATGAGTCTGAGAGCGAGCAGTTTTTCgtgagtacccctccctgggcggcattgcctcatctcacccatcagtgttt Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ atggtgcccagacacctctgccctctctgaccttccactctgtcctgcagTGTGAACCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAAGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCATGAGTCTGAGAGCGAGCAGTTTTTCgtgagtacccctccctgggcggcattgcctcatctcacccatcagtgttt Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ atggtgcccagacacctctgccctctctgaccttccactctgtcctgcagTGTGAACCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAAGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCATGAGTCTGAGAGCGAGCAGTTTTTCgtgagtacccctccctgggcggcattgcctcatctcacccatcagtgttt Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG atggtgcccagacacctctgccctctctgaccttccactctgtcctgcagTGTGAACCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAAGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCATGAGTCTGAGAGCGAGCAGtttttcgtgagtacccctccctgggcggcattgcctcatctcacccatcagtgttt Alignment from Exonerate_coding2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG atggtgcccagacacctctgccctctctgaccttccactctgtcctgcagTGTGAACCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAAGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCATGAGTCTGAGAGCGAGCAGtttttcgtgagtacccctccctgggcggcattgcctcatctcacccatcagtgttt Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG------ atggtgcccagacacctctgccctctctgaccttccactctgtcctgcagTGTGAACCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAAGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCATGAGTCTGAGAGCGAGCAGTTTTTCgtgagtacccctccctgggcggcattgcctcatctcacccatcagtgttt #### Pdcd11_ID10137_31 --> 0 - 2 Original Alignment AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCag ctctcttcacttgaaggagcaggaactcgtgtgtgtgtgtttcttctcagAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCAGATGACTTTGACCGGCTGGTGCTAAGCTCTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTGCAGGCAACAGAGATCGAAAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAG------------aggtgaggacttggacgatcagaatgactttcccatgttgtcctgggtgagt Alignment from CESAR AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCag ctctcttcacttgaaggagcaggaactcgtgtgtgtgtgtttcttctcagAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCAGATGACTTTGACCGGCTGGTGCTAAGCTCTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTGCAGGCAACAGAGATCGAAAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAG------------aggtgaggacttggacgatcagaatgactttcccatgttgtcctgggtgagt Alignment from Spaln_aa2Genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAC ctctcttcacttgaaggagcaggaactcgtgtgtgtgtgtttcttctcagAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCAGATGACTTTGACCGGCTGGTGCTAAGCTCTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTGCAGGCAACAGAGATCGAAAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAGgtgaggacttggacgatcagaatgactttcccatgttgtcctgggtgagt Alignment from Spaln_nt2Genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAC ctctcttcacttgaaggagcaggaactcgtgtgtgtgtgtttcttctcagAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCAGATGACTTTGACCGGCTGGTGCTAAGCTCTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTGCAGGCAACAGAGATCGAAAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAGgtgaggacttggacgatcagaatgactttcccatgttgtcctgggtgagt Alignment from Pairagon AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGACCATCTCATTCAG ctctcttcacttgaaggagcaggaactcgtgtgtgtgtgtttcttctcagAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCAGATGACTTTGACCGGCTGGTGCTAAGCTCTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTGCAGGCAACAGAGATCGAAAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAG------------AGgtgaggacttggacgatcagaatgactttcccatgttgtcctgggtgagt Alignment from Exonerate_protein2genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAC ctctcttcacttgaaggagcaggaactcgtgtgtgtgtgtttcttctcagAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCAGATGACTTTGACCGGCTGGTGCTAAGCTCTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTGCAGGCAACAGAGATCGAAAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAGgtgaggacttggacgatcagaatgactttcccatgttgtcctgggtgagt Alignment from Exonerate_coding2genome AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAC ctctcttcacttgaaggagcaggaactcgtgtgtgtgtgtttcttctcagAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCAGATGACTTTGACCGGCTGGTGCTAAGCTCTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTGCAGGCAACAGAGATCGAAAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAGgtgaggacttggacgatcagaatgactttcccatgttgtcctgggtgagt Alignment from GeneWise AAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCGGATGACTTTGACCGGCTGGTGCTAAGCTCTCCCAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTACAGGCCACGGAGATCGAGAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAG-- ctctcttcacttgaaggagcaggaactcgtgtgtgtgtgtttcttctcagAAGAAGAAGGGCAAGAAGGAGAGGGAGCTGGAGAAGCAGAAGGCAGAGAAGGAGCTGTCGCGCATTGAGGAGGCACTCATGGACCCTGGGCGACAGCCAGAGTCTGCAGATGACTTTGACCGGCTGGTGCTAAGCTCTCCTAACAGCTCCATCCTTTGGCTGCAGTACATGGCTTTCCACCTGCAGGCAACAGAGATCGAAAAGGCCCGGGCTGTGGCTGAGAGGGCCCTGAAGAGgtgaggacttggacgatcagaatgactttcccatgttgtcctgggtgagt #### Pdcd11_ID10138_32 --> 1 - 0 Original Alignment a------GAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG caggcatccagtgcagagctgctgaactgacactgttttccccatttcaggTGGTTCGAGGAGCAGGAGAAGCTGAATGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTATGGCTCTCAGGAGTCCCTGACAAAGGTCTTCGAGCAAGCTGTGCAGTACAACGAGTCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCAAGAAATACAAGgtaatatgttaaggtccacacccacatgccctagatgctagacccttgag Alignment from CESAR a------GAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG caggcatccagtgcagagctgctgaactgacactgttttccccatttcaggTGGTTCGAGGAGCAGGAGAAGCTGAATGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTATGGCTCTCAGGAGTCCCTGACAAAGGTCTTCGAGCAAGCTGTGCAGTACAACGAGTCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCAAGAAATACAAGgtaatatgttaaggtccacacccacatgccctagatgctagacccttgag Alignment from Spaln_aa2Genome AGAGGAGCAG------GAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG caggcatccagtgcagagctgctgaactgacactgttttccccatttcagGTGGTTCGAGGAGCAGGAGAAGCTGAATGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTATGGCTCTCAGGAGTCCCTGACAAAGGTCTTCGAGCAAGCTGTGCAGTACAACGAGTCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCAAGAAATACAAGgtaatatgttaaggtccacacccacatgccctagatgctagacccttgag Alignment from Spaln_nt2Genome AGAGGAGCAG------GAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG caggcatccagtgcagagctgctgaactgacactgttttccccatttcagGTGGTTCGAGGAGCAGGAGAAGCTGAATGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTATGGCTCTCAGGAGTCCCTGACAAAGGTCTTCGAGCAAGCTGTGCAGTACAACGAGTCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCAAGAAATACAAGgtaatatgttaaggtccacacccacatgccctagatgctagacccttgag Alignment from Pairagon ------AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG caggcatccagtgcagagctgctgaactgacactgttttccccatttcagGTGGTTCGAGGAGCAGGAGAAGCTGAATGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTATGGCTCTCAGGAGTCCCTGACAAAGGTCTTCGAGCAAGCTGTGCAGTACAACGAGTCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCAAGAAATACAAGgtaatatgttaaggtccacacccacatgccctagatgctagacccttgag Alignment from Exonerate_protein2genome A------GAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG caggcatccagtgcagagctgctgaactgacactgttttccccatttcagGTGGTTCGAGGAGCAGGAGAAGCTGAATGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTATGGCTCTCAGGAGTCCCTGACAAAGGTCTTCGAGCAAGCTGTGCAGTACAACGAGTCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCAAGAAATACAAGgtaatatgttaaggtccacacccacatgccctagatgctagacccttgag Alignment from Exonerate_coding2genome A------GAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG caggcatccagtgcagagctgctgaactgacactgttttccccatttcagGTGGTTCGAGGAGCAGGAGAAGCTGAATGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTATGGCTCTCAGGAGTCCCTGACAAAGGTCTTCGAGCAAGCTGTGCAGTACAACGAGTCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCAAGAAATACAAGgtaatatgttaaggtccacacccacatgccctagatgctagacccttgag Alignment from GeneWise ----AGAGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG caggcatccagtgcagagctgctgaactgacactgttttccccatttcagGTGGTTCGAGGAGCAGGAGAAGCTGAATGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTATGGCTCTCAGGAGTCCCTGACAAAGGTCTTCGAGCAAGCTGTGCAGTACAACGAGTCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCAAGAAATACAAGgtaatatgttaaggtccacacccacatgccctagatgctagacccttgag #### Pdcd11_ID10139_33 --> 0 - 1 Original Alignment GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGG------GCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAA------c tgtgatccctccgaagtgctacactccatactgagcttgggtggtcctagGAAGCTGGAGAGCTGTACAACCGGATGCTCAAACGGTTCCGGCAGGAGAAGGCTGTCTGGGTCAAATATGGTGCCTTTGTTTTGGGAAGGAGTCAGGCTGGGGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCTTGCCTGCCAAGGAAGATGTTcgtaagtgcttttcctggcacctgatcacactcagactgatagatacttaa Alignment from CESAR GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAG------GCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAA------c tgtgatccctccgaagtgctacactccatactgagcttgggtggtcctagGAAGCTGGAGAGCTGTACAACCGGATGCTCAAACGGTTCCGGCAGGAGAAGGCTGTCTGGGTCAAATATGGTGCCTTTGTTTTGGGAAGGAGTCAGGCTGGGGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCTTGCCTGCCAAGGAAGATGTTcgtaagtgcttttcctggcacctgatcacactcagactgatagatacttaa Alignment from Spaln_aa2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAG------GCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAA------C tgtgatccctccgaagtgctacactccatactgagcttgggtggtcctagGAAGCTGGAGAGCTGTACAACCGGATGCTCAAACGGTTCCGGCAGGAGAAGGCTGTCTGGGTCAAATATGGTGCCTTTGTTTTGGGAAGGAGTCAGGCTGGGGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCTTGCCTGCCAAGGAAGATGTTCgtaagtgcttttcctggcacctgatcacactcagactgatagatacttaa Alignment from Spaln_nt2Genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCA------GGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAA------C tgtgatccctccgaagtgctacactccatactgagcttgggtggtcctagGAAGCTGGAGAGCTGTACAACCGGATGCTCAAACGGTTCCGGCAGGAGAAGGCTGTCTGGGTCAAATATGGTGCCTTTGTTTTGGGAAGGAGTCAGGCTGGGGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCTTGCCTGCCAAGGAAGATGTTCgtaagtgcttttcctggcacctgatcacactcagactgatagatacttaa Alignment from Pairagon GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCA------GGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAA------C tgtgatccctccgaagtgctacactccatactgagcttgggtggtcctagGAAGCTGGAGAGCTGTACAACCGGATGCTCAAACGGTTCCGGCAGGAGAAGGCTGTCTGGGTCAAATATGGTGCCTTTGTTTTGGGAAGGAGTCAGGCTGGGGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCTTGCCTGCCAAGGAAGATGTTCgtaagtgcttttcctggcacctgatcacactcagactgatagatacttaa Alignment from Exonerate_protein2genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAG------GCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC tgtgatccctccgaagtgctacactccatactgagcttgggtggtcctagGAAGCTGGAGAGCTGTACAACCGGATGCTCAAACGGTTCCGGCAGGAGAAGGCTGTCTGGGTCAAATATGGTGCCTTTGTTTTGGGAAGGAGTCAGGCTGGGGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCTTGCCTGCCAAGGAAGatgttcgtaagtgcttttcctggcacctgatcacactcagactgatagatacttaa Alignment from Exonerate_coding2genome GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAG------GCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC tgtgatccctccgaagtgctacactccatactgagcttgggtggtcctagGAAGCTGGAGAGCTGTACAACCGGATGCTCAAACGGTTCCGGCAGGAGAAGGCTGTCTGGGTCAAATATGGTGCCTTTGTTTTGGGAAGGAGTCAGGCTGGGGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCTTGCCTGCCAAGGAAGatgttcgtaagtgcttttcctggcacctgatcacactcagactgatagatacttaa Alignment from GeneWise GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGG------GCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAACATGTG- tgtgatccctccgaagtgctacactccatactgagcttgggtggtcctagGAAGCTGGAGAGCTGTACAACCGGATGCTCAAACGGTTCCGGCAGGAGAAGGCTGTCTGGGTCAAATATGGTGCCTTTGTTTTGGGAAGGAGTCAGGCTGGGGCTGGGGCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCTTGCCTGCCAAGGAAGATGTTCgtaagtgcttttcctggcacctgatcacactcagactgatagatacttaa #### Pdcd11_ID10140_34 --> 2 - 2 Original Alignment at---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag tgtggtgagatctctgggttgtcttggctacatcactgtcttgattttagatTACGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACGGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCaggtagaggcaacagcagggctcattcctgatagagtgtggggtgggaagag Alignment from CESAR at---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag tgtggtgagatctctgggttgtcttggctacatcactgtcttgattttagatTACGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACGGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCaggtagaggcaacagcagggctcattcctgatagagtgtggggtgggaagag Alignment from Spaln_aa2Genome AT---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggctacatcactgtcttgattttagATTACGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACGGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtagaggcaacagcagggctcattcctgatagagtgtggggtgggaagag Alignment from Spaln_nt2Genome ATGTGGATGTG---ATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggctacatcactgtcttgattttagATTACGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACGGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtagaggcaacagcagggctcattcctgatagagtgtggggtgggaagag Alignment from Pairagon AT---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggctacatcactgtcttgattttagATTACGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACGGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtagaggcaacagcagggctcattcctgatagagtgtggggtgggaagag Alignment from Exonerate_protein2genome AT---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggctacatcactgtcttgattttagATTACGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACGGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtagaggcaacagcagggctcattcctgatagagtgtggggtgggaagag Alignment from Exonerate_coding2genome AT---GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggctacatcactgtcttgattttagATTACGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACGGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtagaggcaacagcagggctcattcctgatagagtgtggggtgggaagag Alignment from GeneWise --CATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggctacatcactgtcttgattttagATTACGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACGGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtagaggcaacagcagggctcattcctgatagagtgtggggtgggaagag #### Pdcd4_ID11402_9 --> 0 - 0 Original Alignment GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tttaccaaaagtttatttagacctctgcacatgtttgtactcttttctag---------ATGGTTTTAGAGTCAACTGGAGAGAGTGCATTCAAGATGATCTTAGATTTATTTAAATCCTTGTGGAAGTCTTCTACAATTACCATAGACCAGATGAAACGAgtatctatgaaattattttgaatacgtttataaaaggtctatgcctcctc Alignment from CESAR GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA cataagttgtttaccaaaagtttattgcacatgtttgtactcttttctag---------ATGGTTTTAGAGTCAACTGGAGAGAGTGCATTCAAGATGATCTTAGATTTATTTAAATCCTTGTGGAAGTCTTCTACAATTACCATAGACCAGATGAAACGAgtatctatgaaattattttgaatacgtttataaaaggtctatgcctcctc Alignment from Spaln_aa2Genome GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tttaccaaaagtttatttagacctctgcacatgtttgtactcttttctag---------ATGGTTTTAGAGTCAACTGGAGAGAGTGCATTCAAGATGATCTTAGATTTATTTAAATCCTTGTGGAAGTCTTCTACAATTACCATAGACCAGATGAAACGAgtatctatgaaattattttgaatacgtttataaaaggtctatgcctcctc Alignment from Spaln_nt2Genome ATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tttaccaaaagtttatttagacctctgcacatgtttgtactcttttctagATGGTTTTAGAGTCAACTGGAGAGAGTGCATTCAAGATGATCTTAGATTTATTTAAATCCTTGTGGAAGTCTTCTACAATTACCATAGACCAGATGAAACGAgtatctatgaaattattttgaatacgtttataaaaggtctatgcctcctc Alignment from Pairagon GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tttaccaaaagtttatttagacctctgcacatgtttgtactcttttctag---------ATGGTTTTAGAGTCAACTGGAGAGAGTGCATTCAAGATGATCTTAGATTTATTTAAATCCTTGTGGAAGTCTTCTACAATTACCATAGACCAGATGAAACGAgtatctatgaaattattttgaatacgtttataaaaggtctatgcctcctc Alignment from Exonerate_protein2genome ATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tttaccaaaagtttatttagacctctgcacatgtttgtactcttttctagATGGTTTTAGAGTCAACTGGAGAGAGTGCATTCAAGATGATCTTAGATTTATTTAAATCCTTGTGGAAGTCTTCTACAATTACCATAGACCAGATGAAACGAgtatctatgaaattattttgaatacgtttataaaaggtctatgcctcctc Alignment from Exonerate_coding2genome ATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tttaccaaaagtttatttagacctctgcacatgtttgtactcttttctagATGGTTTTAGAGTCAACTGGAGAGAGTGCATTCAAGATGATCTTAGATTTATTTAAATCCTTGTGGAAGTCTTCTACAATTACCATAGACCAGATGAAACGAgtatctatgaaattattttgaatacgtttataaaaggtctatgcctcctc Alignment from GeneWise GCCATTGTAATGGTTTTAGAGTCAACTGGAGAAAGTGCATTCAAGATGATCTTAGATTTATTAAAATCCTTGTGGAAGTCTTCTACTATTACCATAGACCAAATGAAAAGA tttaccaaaagtttatttagacctctgcacatgtttgtactcttttctagATG---------GTTTTAGAGTCAACTGGAGAGAGTGCATTCAAGATGATCTTAGATTTATTTAAATCCTTGTGGAAGTCTTCTACAATTACCATAGACCAGATGAAACGAgtatctatgaaattattttgaatacgtttataaaaggtctatgcctcctc #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG cctgtgtcctgttctaaagtctgaatggttaactctagattctatcatagGTTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGTCCTGCCACCTACCACAACTGGCGGCACGGATTCAATGTGGGGCATACTATGTTCCCTTTG------gtgaggaccactactgatgcaaaccattgaaagtctttgcaactctgaat Alignment from CESAR GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG cctgtgtcctgttctaaagtctgaatggttaactctagattctatcatagGTTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGTCCTGCCACCTACCACAACTGGCGGCACGGATTCAATGTGGGGCATACTATGTTCCCTTTG------gtgaggaccactactgatgcaaaccattgaaagtctttgcaact Alignment from Spaln_aa2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTG cctgtgtcctgttctaaagtctgaatggttaactctagattctatcatagGTTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGTCCTGCCACCTACCACAACTGGCGGCACGGATTCAATGTGGGGCATACTATGTTCCCTTTGgtgaggaccactactgatgcaaaccattgaaagtctttgcaactctgaat Alignment from Spaln_nt2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTG cctgtgtcctgttctaaagtctgaatggttaactctagattctatcatagGTTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGTCCTGCCACCTACCACAACTGGCGGCACGGATTCAATGTGGGGCATACTATGTTCCCTTTGgtgaggaccactactgatgcaaaccattgaaagtctttgcaactctgaat Alignment from Pairagon GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTG cctgtgtcctgttctaaagtctgaatggttaactctagattctatcatagGTTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGTCCTGCCACCTACCACAACTGGCGGCACGGATTCAATGTGGGGCATACTATGTTCCCTTTGgtgaggaccactactgatgcaaaccattgaaagtctttgcaactctgaat Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTG cctgtgtcctgttctaaagtctgaatggttaactctagattctatcatagGTTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGTCCTGCCACCTACCACAACTGGCGGCACGGATTCAATGTGGGGCATACTATGTTCCCTTTGgtgaggaccactactgatgcaaaccattgaaagtctttgcaactctgaat Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTG cctgtgtcctgttctaaagtctgaatggttaactctagattctatcatagGTTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGTCCTGCCACCTACCACAACTGGCGGCACGGATTCAATGTGGGGCATACTATGTTCCCTTTGgtgaggaccactactgatgcaaaccattgaaagtctttgcaactctgaat Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG cctgtgtcctgttctaaagtctgaatggttaactctagattctatcatagGTTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGTCCTGCCACCTACCACAACTGGCGGCACGGATTCAATGTGGGGCATACTATGTTCCCT------TTGgtgaggaccactactgatgcaaaccattgaaagtctttgcaactctgaat #### Pitpnm1_ID309_6 --> 2 - 1 Original Alignment gc---GGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATg gacagggccccaccctcaactcccaagccttgtttctccttgtttctcaggtTCAGGTGTATCTCCGCAGAGCTTGTCTGAATGGCACATGCAGAATGTTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATggtgaggacaaaagccacattgtggaggatgggggtatgggcaagttacta Alignment from CESAR gc---GGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATg gacagggccccaccctcaactcccaagccttgtttctccttgtttctcaggtTCAGGTGTATCTCCGCAGAGCTTGTCTGAATGGCACATGCAGAATGTTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATggtgaggacaaaagccacattgtggaggatgggggtatgggcaagttacta Alignment from Spaln_aa2Genome GCGGCGTGTCTCCA---CAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG gacagggccccaccctcaactcccaagccttgtttctccttgtttctcagGTTCAGGTGTATCTCCGCAGAGCTTGTCTGAATGGCACATGCAGAATGTTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATGgtgaggacaaaagccacattgtggaggatgggggtatgggcaagttacta Alignment from Spaln_nt2Genome GC---GGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG gacagggccccaccctcaactcccaagccttgtttctccttgtttctcagGTTCAGGTGTATCTCCGCAGAGCTTGTCTGAATGGCACATGCAGAATGTTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATGgtgaggacaaaagccacattgtggaggatgggggtatgggcaagttacta Alignment from Pairagon GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG gacagggccccaccctcaactcccaagccttgtttctccttgtttctcaggttcag---GTGTATCTCCGCAGAGCTTGTCTGAATGGCACATGCAGAATGTTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATGgtgaggacaaaagccacattgtggaggatgggggtatgggcaagttacta Alignment from Exonerate_protein2genome GC---GGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG gacagggccccaccctcaactcccaagccttgtttctccttgtttctcagGTTCAGGTGTATCTCCGCAGAGCTTGTCTGAATGGCACATGCAGAATGTTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATGgtgaggacaaaagccacattgtggaggatgggggtatgggcaagttacta Alignment from Exonerate_coding2genome GC---GGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG gacagggccccaccctcaactcccaagccttgtttctccttgtttctcagGTTCAGGTGTATCTCCGCAGAGCTTGTCTGAATGGCACATGCAGAATGTTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATGgtgaggacaaaagccacattgtggaggatgggggtatgggcaagttacta Alignment from GeneWise -------------------------------------------------------GGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG GACAGGGCCCCACCCTCAACTCCCAAGCCTTGTTTCTCCTTGTTTCTCAGGTTCAGGTGTATCTCCGCAGAGCTTGTCTGAATGGCACATGCAGAATGTTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATGgtgaggacaaaagccacattgtggaggatgggggtatgggcaagttacta #### Pitpnm1_ID314_11 --> 0 - 0 Original Alignment GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG ggtgaaaaagcctctcagttgtgtaattgtcactctcctctattgtacag------CTGATCGGAGATGGTGTTGGTGGCATCCTTGGCTTTGATGCGCTCTGCCACAGCGCCAGTGCAGGCCCAGGGAGCCGGGGCAGCAGCCGCCGTGGGAGCATGgtaagagtgtccaaactcagcctcctcaggagggcgggtttctccacctc Alignment from CESAR GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG tagattggtgaaaaagcctctcagtattgtcactctcctctattgtacag------CTGATCGGAGATGGTGTTGGTGGCATCCTTGGCTTTGATGCGCTCTGCCACAGCGCCAGTGCAGGCCCAGGGAGCCGGGGCAGCAGCCGCCGTGGGAGCATGgtaagagtgtccaaactcagcctcctcaggagggcgggtttctccacctc Alignment from Spaln_aa2Genome CTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG ggtgaaaaagcctctcagttgtgtaattgtcactctcctctattgtacagCTGATCGGAGATGGTGTTGGTGGCATCCTTGGCTTTGATGCGCTCTGCCACAGCGCCAGTGCAGGCCCAGGGAGCCGGGGCAGCAGCCGCCGTGGGAGCATGgtaagagtgtccaaactcagcctcctcaggagggcgggtttctccacctc Alignment from Spaln_nt2Genome G CTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG GgtgaaaaagcctctcagttgtgtaattgtcactctcctctattgtacagCTGATCGGAGATGGTGTTGGTGGCATCCTTGGCTTTGATGCGCTCTGCCACAGCGCCAGTGCAGGCCCAGGGAGCCGGGGCAGCAGCCGCCGTGGGAGCATGgtaagagtgtccaaactcagcctcctcaggagggcgggtttctccacctc Alignment from Pairagon GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG ggtgaaaaagcctctcagttgtgtaattgtcactctcctctattgtacag------CTGATCGGAGATGGTGTTGGTGGCATCCTTGGCTTTGATGCGCTCTGCCACAGCGCCAGTGCAGGCCCAGGGAGCCGGGGCAGCAGCCGCCGTGGGAGCATGgtaagagtgtccaaactcagcctcctcaggagggcgggtttctccacctc Alignment from Exonerate_protein2genome CTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG ggtgaaaaagcctctcagttgtgtaattgtcactctcctctattgtacagCTGATCGGAGATGGTGTTGGTGGCATCCTTGGCTTTGATGCGCTCTGCCACAGCGCCAGTGCAGGCCCAGGGAGCCGGGGCAGCAGCCGCCGTGGGAGCATGgtaagagtgtccaaactcagcctcctcaggagggcgggtttctccacctc Alignment from Exonerate_coding2genome CTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG ggtgaaaaagcctctcagttgtgtaattgtcactctcctctattgtacagCTGATCGGAGATGGTGTTGGTGGCATCCTTGGCTTTGATGCGCTCTGCCACAGCGCCAGTGCAGGCCCAGGGAGCCGGGGCAGCAGCCGCCGTGGGAGCATGgtaagagtgtccaaactcagcctcctcaggagggcgggtttctccacctc Alignment from GeneWise GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG ggtgaaaaagcctctcagttgtgtaattgtcactctcctctattgtacagCTG------ATCGGAGATGGTGTTGGTGGCATCCTTGGCTTTGATGCGCTCTGCCACAGCGCCAGTGCAGGCCCAGGGAGCCGGGGCAGCAGCCGCCGTGGGAGCATGgtaagagtgtccaaactcagcctcctcaggagggcgggtttctccacctc #### Pitpnm1_ID315_12 --> 0 - 2 Original Alignment AACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACag gtctcaggcctaaggatgcgtacacatgttcctaacaccccctccatcag---------ATGCTCTCCCCTGAAGTTGGTCCAGTACGAGACCCACTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGCACCTTCAGTGACATGGCCAACCCTGACCCTGATGGCTCCCAGAACaggtatgagcttttcccaatagtccttgccctaaaaataggcttgacctcag Alignment from CESAR AACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACag aaacagatggtctcaggcctaaggaatgttcctaacaccccctccatcag---------ATGCTCTCCCCTGAAGTTGGTCCAGTACGAGACCCACTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGCACCTTCAGTGACATGGCCAACCCTGACCCTGATGGCTCCCAGAACaggtatgagcttttcccaatagtccttgccctaaaaataggcttgacctcag Alignment from Spaln_aa2Genome AACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACAG gtctcaggcctaaggatgcgtacacatgttcctaacaccccctccatcag---------ATGCTCTCCCCTGAAGTTGGTCCAGTACGAGACCCACTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGCACCTTCAGTGACATGGCCAACCCTGACCCTGATGGCTCCCAGAACAGgtatgagcttttcccaatagtccttgccctaaaaataggcttgacctcag Alignment from Spaln_nt2Genome ATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACAG gtctcaggcctaaggatgcgtacacatgttcctaacaccccctccatcagATGCTCTCCCCTGAAGTTGGTCCAGTACGAGACCCACTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGCACCTTCAGTGACATGGCCAACCCTGACCCTGATGGCTCCCAGAACAGgtatgagcttttcccaatagtccttgccctaaaaataggcttgacctcag Alignment from Pairagon AACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACAG gtctcaggcctaaggatgcgtacacatgttcctaacaccccctccatcag---------ATGCTCTCCCCTGAAGTTGGTCCAGTACGAGACCCACTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGCACCTTCAGTGACATGGCCAACCCTGACCCTGATGGCTCCCAGAACAGgtatgagcttttcccaatagtccttgccctaaaaataggcttgacctcag Alignment from Exonerate_protein2genome AACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACAG gtctcaggcctaaggatgcgtacacatgttcctaacaccccCTCCATCAGATGCTCTCCCCTGAAGTTGGTCCAGTACGAGACCCACTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGCACCTTCAGTGACATGGCCAACCCTGACCCTGATGGCTCCCAGAACAGgtatgagcttttcccaatagtccttgccctaaaaataggcttgacctcag Alignment from Exonerate_coding2genome AACAATGAGATGCTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACAG gtctcaggcctaaggatgcgtacacatgttcctaacaccccCTCCATCAGATGCTCTCCCCTGAAGTTGGTCCAGTACGAGACCCACTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGCACCTTCAGTGACATGGCCAACCCTGACCCTGATGGCTCCCAGAACAGgtatgagcttttcccaatagtccttgccctaaaaataggcttgacctcag Alignment from GeneWise ---CTCTCCCCTGAAGTTGGTCCAGTACGGGACCCGCTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGTACCTTCAGTGACATGGCCAATCCTGATCCTGATGGCTCTCAGAACAG gtctcaggcctaaggatgcgtacacatgttcctaacaccccctccatcagATGCTCTCCCCTGAAGTTGGTCCAGTACGAGACCCACTGGCAGATGGGGTGGAGGTACTGGGTCGTGCTAGCCCAGAACCCTCAGCCCTACCTGCTCAGCGCACCTTCAGTGACATGGCCAACCCTGACCCTGATGGCTCCCAGAACAGgtatgagcttttcccaatagtccttgccctaaaaataggcttgacctcag #### Pitpnm1_ID318_15 --> 2 - 1 Original Alignment ct---------GACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGa agaagaggcatgggggcagtctgatccttgtccacattatttccccgcagctATTGGGGACGAGACTTTGCAAACTCATTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGTACCACCAGTGAGGTTGTTAAGagtaacacagccagcactgccttccactgtcagcctacctggaagcatgtc Alignment from CESAR ct---------GACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGa agaagaggcatgggggcagtctgatccttgtccacattatttccccgcagctATTGGGGACGAGACTTTGCAAACTCATTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGTACCACCAGTGAGGTTGTTAAGagtaacacagccagcactgccttccactgtcagcctacctggaagcatgtc Alignment from Spaln_aa2Genome CT---------GACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGA agaagaggcatgggggcagtctgatccttgtccacattatttccccgcagCTATTGGGGACGAGACTTTGCAAACTCATTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGTACCACCAGTGAGGTTGTTAAGAgtaacacagccagcactgccttccactgtcagcctacctggaagcatgtc Alignment from Spaln_nt2Genome CT---------GACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGA agaagaggcatgggggcagtctgatccttgtccacattatttccccgcagCTATTGGGGACGAGACTTTGCAAACTCATTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGTACCACCAGTGAGGTTGTTAAGAgtaacacagccagcactgccttccactgtcagcctacctggaagcatgtc Alignment from Pairagon CT---------GACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGA agaagaggcatgggggcagtctgatccttgtccacattatttccccgcagCTATTGGGGACGAGACTTTGCAAACTCATTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGTACCACCAGTGAGGTTGTTAAGAgtaacacagccagcactgccttccactgtcagcctacctggaagcatgtc Alignment from Exonerate_protein2genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGA agaagaggcatgggggcagtctgatccttgtccacattatttccccgcagctattggggACGAGACTTTGCAAACTCATTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGTACCACCAGTGAGGTTGTTAAGAgtaacacagccagcactgccttccactgtcagcctacctggaagcatgtc Alignment from Exonerate_coding2genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGA agaagaggcatgggggcagtctgatccttgtccacattatttccccgcagctattggggACGAGACTTTGCAAACTCATTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGTACCACCAGTGAGGTTGTTAAGAgtaacacagccagcactgccttccactgtcagcctacctggaagcatgtc Alignment from GeneWise --------GCTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGA agaagaggcatgggggcagtctgatccttgtccacattatttccccgcagCTATTGGGGACGAGACTTTGCAAACTCATTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCGGCCAGTGGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGTACCACCAGTGAGGTTGTTAAGAgtaacacagccagcactgccttccactgtcagcctacctggaagcatgtc #### Pitpnm1_ID321_18 --> 0 - 0 Original Alignment AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG ccataaatatgcatcctttccagtcccagcttgtgttgattccccttcagAACGTCACTTCCAACCACCGGGCGAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGGCACTTCATGTAT------------------------------------gtctgaacccagcatccatgctcctggtgattcctatcgagaatgttatc Alignment from CESAR AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG ccataaatatgcatcctttccagtcccagcttgtgttgattccccttcagAACGTCACTTCCAACCACCGGGCGAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGGCACTTCATGTAT------------------------------------gtctgaacccagca Alignment from Spaln_aa2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTAT ccataaatatgcatcctttccagtcccagcttgtgttgattccccttcagAACGTCACTTCCAACCACCGGGCGAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGGCACTTCATGTATgtctgaacccagcatccatgctcctggtgattcctatcgagaatgttatc Alignment from Spaln_nt2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATG---GACCATTGGATG--TGGTCACG ccataaatatgcatcctttccagtcccagcttgtgttgattccccttcagAACGTCACTTCCAACCACCGGGCGAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGGCACTTCATGTATGTCTGAACCCAGCATCCATGCTCCTGgtgattcctatcgagaatgttatc Alignment from Pairagon AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTAT ccataaatatgcatcctttccagtcccagcttgtgttgattccccttcagAACGTCACTTCCAACCACCGGGCGAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGGCACTTCATGTATgtctgaacccagcatccatgctcctggtgattcctatcgagaatgttatc Alignment from Exonerate_protein2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCAT ccataaatatgcatcctttccagtcccagcttgtgttgattccccttcagAACGTCACTTCCAACCACCGGGCGAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGGCACTTCATgtatgtctgaacccagcatccatgctcctggtgattcctatcgagaatgttatc Alignment from Exonerate_coding2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCAT ccataaatatgcatcctttccagtcccagcttgtgttgattccccttcagAACGTCACTTCCAACCACCGGGCGAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGGCACTTCATgtatgtctgaacccagcatccatgctcctggtgattcctatcgagaatgttatc Alignment from GeneWise AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTC-- ccataaatatgcatcctttccagtcccagcttgtgttgattccccttcagAACGTCACTTCCAACCACCGGGCGAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGGCACTTCATgtatgtctgaacccagcatccatgctcctggtgattcctatcgagaatgttatc #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTC------ag aagttggtagacaggagtgttgtctccatgtttcgaattgtattttgtagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACGGAGGTCACTAACAGCTCTGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAATATGaggtacataggttagcaggtatctgggctcctgtggggctgggcactgccaa Alignment from CESAR GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTC------ag aagttggtagacaggagtgttgtctccatgtttcgaattgtattttgtagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACGGAGGTCACTAACAGCTCTGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAATATGaggtacataggttagcaggtatctgggctcctgtggggctgggcactgccaa Alignment from Spaln_aa2Genome GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAGG----- aagttggtagacaggagtgttgtctccatgtttcgaattgtattttgtagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACGGAGGTCACTAACAGCTCTGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAATATGAGgtacataggttagcaggtatctgggctcctgtggggctgggcactgccaa Alignment from Spaln_nt2Genome GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCA------G aagttggtagacaggagtgttgtctccatgtttcgaattgtattttgtagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACGGAGGTCACTAACAGCTCTGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAATATGAGgtacataggttagcaggtatctgggctcctgtggggctgggcactgccaa Alignment from Pairagon GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGT----------------------------------------------------------- aagttggtagacaggagtgttgtctccatgtttcgaattgtattttgtagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACGGAGGTCACTAACAGCTCTGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAATATGAGGTACATAGGTTAGCAGGTATCTGGGCTCCTGTGGGGCTGGGCACTGCCAA Alignment from Exonerate_protein2genome GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAGG aagttggtagacaggagtgttgtctccatgtttcgaattgtattttgtagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACGGAGGTCACTAACAGCTCTGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAATatgaggtacataggttagcaggtatctgggctcctgtggggctgggcactgccaa Alignment from Exonerate_coding2genome GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAGG aagttggtagacaggagtgttgtctccatgtttcgaattgtattttgtagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACGGAGGTCACTAACAGCTCTGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAATatgaggtacataggttagcaggtatctgggctcctgtggggctgggcactgccaa Alignment from GeneWise GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTC------AG aagttggtagacaggagtgttgtctccatgtttcgaattgtattttgtagGTTGATGTCTATGTCATGACACAGCCTCTGTCAGGCAAGTGGATCCACTTTGGCACGGAGGTCACTAACAGCTCTGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAATATGAGgtacataggttagcaggtatctgggctcctgtggggctgggcactgccaa #### Pitpnm1_ID324_21 --> 1 - 0 Original Alignment gCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG agcaacttgtcatccctgtggactggagaattctttcttttacttcacaggCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGATATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCACAACACACCTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCATGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAA---gtaataagttggcttaggatggtcctaacctgccctcaccacattccaca Alignment from CESAR gCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG agcaacttgtcatccctgtggactggagaattctttcttttacttcacaggCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGATATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCACAACACACCTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCATGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAA---gtaataagttggcttaggatggtcctaacctgccctcaccacattcc Alignment from Spaln_aa2Genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAGGTAG agcaacttgtcatccctgtggactggagaattctttcttttacttcacagGCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGATATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCACAACACACCTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCATGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGTAATAAgttggcttaggatggtcctaacctgccctcaccacattccaca Alignment from Spaln_nt2Genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAG----AG agcaacttgtcatccctgtggactggagaattctttcttttacttcacagGCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGATATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCACAACACACCTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCATGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGTAATAAgttggcttaggatggtcctaacctgccctcaccacattccaca Alignment from Pairagon GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAA agcaacttgtcatccctgtggactggagaattctttcttttacttcacagGCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGATATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCACAACACACCTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCATGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAgtaataagttggcttaggatggtcctaacctgccctcaccacattccaca Alignment from Exonerate_protein2genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAG agcaacttgtcatccctgtggactggagaattctttcttttacttcacagGCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGATATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCACAACACACCTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCATGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGTAataagttggcttaggatggtcctaacctgccctcaccacattccaca Alignment from Exonerate_coding2genome GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTC-TGCAGAGCCTGGTGCAAGAG agcaacttgtcatccctgtggactggagaattctttcttttacttcacagGCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGATATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCACAACACACCTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCATGACCCGCTGCGGCAGAAAGCCATG-TTTCTGCAGAGCCTGGTGCAAGTAataagttggcttaggatggtcctaacctgccctcaccacattccaca Alignment from GeneWise GCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGACATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCGCAACACAACTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCACGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGAGGTAG agcaacttgtcatccctgtggactggagaattctttcttttacttcacagGCACTGGCAGGACTCTGGCTACTTGATTGTGTATGTAACTGGCCGGCCTGATATGCAAAAGCACCGTGTAGTGGCCTGGCTGTCACAACACACCTTCCCCCATGGTGTTGTCTCCTTCTGTGATGGCCTCACCCATGACCCGCTGCGGCAGAAAGCCATGTTTCTGCAGAGCCTGGTGCAAGTAATAAgttggcttaggatggtcctaacctgccctcaccacattccaca #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat ccttcctggagtagtctattccttgactgtgtatcatatttctcttttagCAAATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCatgtatgcgctctacccctaccattttaggtccctcatcctccagatcccag Alignment from CESAR ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat ccttcctggagtagtctattccttgactgtgtatcatatttctcttttagCAAATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCatgtatgcgctctacccctaccattttaggtccctcatcctccagatcccag Alignment from Spaln_aa2Genome ATATTCAAGTAT---ATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT ccttcctggagtagtctattccttgactgtgtatcatatttctcttttagCAAATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCATgtatgcgctctacccctaccattttaggtccctcatcctccagatcccag Alignment from Spaln_nt2Genome ATATTCAAG---TATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT ccttcctggagtagtctattccttgactgtgtatcatatttctcttttagCAAATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCATgtatgcgctctacccctaccattttaggtccctcatcctccagatcccag Alignment from Pairagon ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT ccttcctggagtagtctattccttgactgtgtatcatatttctcttttagCAAATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCATgtatgcgctctacccctaccattttaggtccctcatcctccagatcccag Alignment from Exonerate_protein2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT ccttcctggagtagtctattccttgactgtgtatcatatttctcttttagcaaATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCATgtatgcgctctacccctaccattttaggtccctcatcctccagatcccag Alignment from Exonerate_coding2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT ccttcctggagtagtctattccttgactgtgtatcatatttctcttttagcaaATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCATgtatgcgctctacccctaccattttaggtccctcatcctccagatcccag Alignment from GeneWise ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT ccttcctggagtagtctattccttgactgtgtatcatatttctcttttagCAAATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCATgtatgcgctctacccctaccattttaggtccctcatcctccagatcccag #### Plcb3_ID1902_29 --> 1 - 0 Original Alignment gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--------------------- gggacgcagggacagagcttagccctgacttggccttttcctctgcccaggGAACTGACAGAGATTAATCGGCGGCACATCACTGAATCGGTAAACTCCAACAGACGGCCCCAGGGCCTCCTGCCTCCTgtaaaagagccccacctctctttcaccagcaggagctcagctttacagtg Alignment from CESAR gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--------------------- gggacgcagggacagagcttagccctgacttggccttttcctctgcccaggGAACTGACAGAGATTAATCGGCGGCACATCACTGAATCGGTAAACTCCAACAGACGGCCCCAGGGCCTCCTGCCTCCTgtaaaagagccccacctctctttcaccagcaggagctcagctttacagtg Alignment from Spaln_aa2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--------------------- gggacgcagggacagagcttagccctgacttggccttttcctctgcccagGGAACTGACAGAGATTAATCGGCGGCACATCACTGAATCGGTAAACTCCAACAGACGGCCCCAGGGCCTCCTGCCTCCTgtaaaagagccccacctctctttcaccagcaggagctcagctttacagtg Alignment from Spaln_nt2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACG gggacgcagggacagagcttagccctgacttggccttttcctctgcccagGGAACTGACAGAGATTAATCGGCGGCACATCACTGAATCGGTAAACTCCAACAGACGgccccagggcctcctgcctcctgtaaaagagccccacctctctttcaccagcaggagctcagctttacagtg Alignment from Pairagon GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--------------------- gggacgcagggacagagcttagccctgacttggccttttcctctgcccagGGAACTGACAGAGATTAATCGGCGGCACATCACTGAATCGGTAAACTCCAACAGACGGCCCCAGGGCCTCCTGCCTCCTgtaaaagagccccacctctctttcaccagcaggagctcagctttacagtg Alignment from Exonerate_protein2genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGGCTGGAA gggacgcagggacagagcttagccctgacttggccttttcctctgcccagGGAACTGACAGAGATTAATCGGCGGCACATCACTGAATCGGTAAACTCCAACAGACGGCCCCAGggcctcctgcctcctgtaaaagagccccacctctctttcaccagcaggagctcagctttacagtg Alignment from Exonerate_coding2genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGGCTGGAA gggacgcagggacagagcttagccctgacttggccttttcctctgcccagGGAACTGACAGAGATTAATCGGCGGCACATCACTGAATCGGTAAACTCCAACAGACGGCCCCAGggcctcctgcctcctgtaaaagagccccacctctctttcaccagcaggagctcagctttacagtg Alignment from GeneWise GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG--------------------- gggacgcagggacagagcttagccctgacttggccttttcctctgcccagGGAACTGACAGAGATTAATCGGCGGCACATCACTGAATCGGTAAACTCCAACAGACGGCCCCAGGGCCTCCTGCCTCCTgtaaaagagccccacctctctttcaccagcaggagctcagctttacagtg #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------------gt gtgaccatcgtccaacctctgagtctcccttcataactactttttcttaggGAGAAGAAGGAACTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTGTATGGCCACTGGGCCCTGgtgtcagtccactgagtgaggggacgcagggacagagcttagccctgatctc Alignment from CESAR gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt gtgaccatcgtccaacctctgagtctcccttcataactactttttcttaggGAGAAGAAGGAACTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAgtgtatggccactgggccctggtgtcagtccactgagtgaggggacgcagggacagagcttagccctgacttg Alignment from Spaln_aa2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtgaccatcgtccaacctctgagtctcccttcataactactttttcttagGGAGAAGAAGGAACTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggccctggtgtcagtccactgagtgaggggacgcagggacagagcttagccctgatctc Alignment from Spaln_nt2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtgaccatcgtccaacctctgagtctcccttcataactactttttcttagGGAGAAGAAGGAACTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggccctggtgtcagtccactgagtgaggggacgcagggacagagcttagccctgagact Alignment from Pairagon GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtgaccatcgtccaacctctgagtctcccttcataactactttttcttagGGAGAAGAAGGAACTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggccctggtgtcagtccactgagtgaggggacgcagggacagagcttagccctgagact Alignment from Exonerate_protein2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtgaccatcgtccaacctctgagtctcccttcataactactttttcttagGGAGAAGAAGGAACTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggccctggtgtcagtccactgagtgaggggacgcagggacagagcttagccctgatctc Alignment from Exonerate_coding2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtgaccatcgtccaacctctgagtctcccttcataactactttttcttagGGAGAAGAAGGAACTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggccctggtgtcagtccactgagtgaggggacgcagggacagagcttagccctgatctc Alignment from GeneWise GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT gtgaccatcgtccaacctctgagtctcccttcataactactttttcttagGGAGAAGAAGGAACTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggccctggtgtcagtccactgagtgaggggacgcagggacagagcttagccctgagact #### Plcb3_ID1904_27 --> 0 - 2 Original Alignment ---GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag gctctcccatcagccccatattacctgcctctactcccaactacctgcagCTGGCTCATCAGCGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAGTTCAAGAGGCTAAAGGAGTTGAATGAAaggtgagtacagatagaaggtcctgggtgagggtgggggactctggtgacca Alignment from CESAR ---GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAag gctctcccatcagccccatattacctgcctctactcccaactacctgcagCTGGCTCATCAGCGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAGTTCAAGAGGCTAAAGGAGTTGAATGAAaggtgagtacagatagaaggtcctgggtgagggtgggggactctggtgacca Alignment from Spaln_aa2Genome GCTCATCAGCGG---CTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gctctcccatcagccccatattacctgcctctactcccaactacctgcagCTGGCTCATCAGCGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAGTTCAAGAGGCTAAAGGAGTTGAATGAAAGgtgagtacagatagaaggtcctgggtgagggtgggggactctggtgacca Alignment from Spaln_nt2Genome GGCTCATCAGC--GGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gctctcccatcagccccatattacctgcctctactcccaactacctgcagCTGGCTCATCAGCGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAGTTCAAGAGGCTAAAGGAGTTGAATGAAAGgtgagtacagatagaaggtcctgggtgagggtgggggactctggtgacca Alignment from Pairagon ---GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gctctcccatcagccccatattacctgcctctactcccaactacctgcagCTGGCTCATCAGCGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAGTTCAAGAGGCTAAAGGAGTTGAATGAAAGgtgagtacagatagaaggtcctgggtgagggtgggggactctggtgacca Alignment from Exonerate_protein2genome GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gctctcccatcagccccatattacctgcctctactcccaactacctgcagctgGCTCATCAGCGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAGTTCAAGAGGCTAAAGGAGTTGAATGAAAGgtgagtacagatagaaggtcctgggtgagggtgggggactctggtgacca Alignment from Exonerate_coding2genome GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gctctcccatcagccccatattacctgcctctactcccaactacctgcagctgGCTCATCAGCGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAGTTCAAGAGGCTAAAGGAGTTGAATGAAAGgtgagtacagatagaaggtcctgggtgagggtgggggactctggtgacca Alignment from GeneWise ---GCTCATCAGCGGCTCAAGGAGGTTGTCCTGGATACACACACAACACAGTTCAAGAGGCTGAAGGAGCTGAATGAAAG gctctcccatcagccccatattacctgcctctactcccaactacctgcagCTGGCTCATCAGCGGGTCAAGGAGGTTGTCCTGGATACACACACAACCCAGTTCAAGAGGCTAAAGGAGTTGAATGAAAGgtgagtacagatagaaggtcctgggtgagggtgggggactctggtgacca #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG ctgctctaccagagatctgtagaatgtaaccttttttttcttctatgaaga---------ACCAACTCAGAGGATGTGAAGGAGGAAGAGGAAGCCAAACAGTATCGAGAGTTCCAGAACCAAAAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAACATCTACGACAGgtaagagacaggtgaggggcatgtgatacaggggacaagggccagcttcc Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG ctaactgtcctgctctaccagagatgtaaccttttttttcttctatgaaga---------ACCAACTCAGAGGATGTGAAGGAGGAAGAGGAAGCCAAACAGTATCGAGAGTTCCAGAACCAAAAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAACATCTACGACAGgtaagagacaggtgaggggcatgtgatacaggggacaagggccagcttcc Alignment from Spaln_aa2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG ctgctctaccagagatctgtagaatgtaaccttttttttcttctatgaagA---------ACCAACTCAGAGGATGTGAAGGAGGAAGAGGAAGCCAAACAGTATCGAGAGTTCCAGAACCAAAAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAACATCTACGACAGgtaagagacaggtgaggggcatgtgatacaggggacaagggccagcttcc Alignment from Spaln_nt2Genome -ACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG ctgctctaccagagatctgtagaatgtaaccttttttttcttctatgaagAACCAACTCAGAGGATGTGAAGGAGGAAGAGGAAGCCAAACAGTATCGAGAGTTCCAGAACCAAAAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAACATCTACGACAGgtaagagacaggtgaggggcatgtgatacaggggacaagggccagcttcc Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG ctgctctaccagagatctgtagaatgtaaccttttttttcttctatgaag---------AACCAACTCAGAGGATGTGAAGGAGGAAGAGGAAGCCAAACAGTATCGAGAGTTCCAGAACCAAAAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAACATCTACGACAGgtaagagacaggtgaggggcatgtgatacaggggacaagggccagcttcc Alignment from Exonerate_protein2genome CACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG ctgctctaccagagatctgtagaatgtaaccttttttttcttctatgaagAACCAACTCAGAGGATGTGAAGGAGGAAGAGGAAGCCAAACAGTATCGAGAGTTCCAGAACCAAAAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAACATCTACGACAGgtaagagacaggtgaggggcatgtgatacaggggacaagggccagcttcc Alignment from Exonerate_coding2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG tctaccagagatctgtagaatgtaaccttttttttcttctaT----GAAGAACCAACTCAGAGGATGTGAAGGAGGAAGAGGAAGCCAAACAGTATCGAGAGTTCCAGAACCAAAAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAACATCTACGACAGgtaagagacaggtgaggggcatgtgatacaggggacaagggccagcttcc Alignment from GeneWise GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG ctgctctaccagagatctgtagaatgtaaccttttttttcttctatgaagA---------ACCAACTCAGAGGATGTGAAGGAGGAAGAGGAAGCCAAACAGTATCGAGAGTTCCAGAACCAAAAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAACATCTACGACAGgtaagagacaggtgaggggcatgtgatacaggggacaagggccagcttcc #### Plcb3_ID1907_24 --> 2 - 1 Original Alignment ggCAGCGAGATGATTTGATTGCCAGCATCCTCTCT---------g cacccacagctggatcccacattctcatctcttgacttttctctcctcagggCAACGAGATGACTTGATTGCAAGCATCCTCTCTCACAGAAAGggtatgaggcacagtctgatatggggtagggccacctggtaggcatctgcc Alignment from CESAR ggCAGCGAGATGATTTGATTGCCAGCATCCTCTCT---------g cacccacagctggatcccacattctcatctcttgacttttctctcctcagggCAACGAGATGACTTGATTGCAAGCATCCTCTCTCACAGAAAGggtatgaggcacagtctgatatggggtagggccacctggtaggcatctgcc Alignment from Spaln_aa2Genome GGCAGCGAGATGATTTGATTGCCAGCATCCTCTCT---------G cacccacagctggatcccacattctcatctcttgacttttctctcctcagGGCAACGAGATGACTTGATTGCAAGCATCCTCTCTCACAGAAAGGgtatgaggcacagtctgatatggggtagggccacctggtaggcatctgcc Alignment from Spaln_nt2Genome GGCAGCGAGATGATTTGATTGCCAGCATCCTCTCT---------G cacccacagctggatcccacattctcatctcttgacttttctctcctcagGGCAACGAGATGACTTGATTGCAAGCATCCTCTCTCACAGAAAGGgtatgaggcacagtctgatatggggtagggccacctggtaggcatctgcc Alignment from Pairagon GGCAGCGAGATGATTTGATTGCCAGCATCCTCTCT---------G cacccacagctggatcccacattctcatctcttgacttttctctcctcagGGCAACGAGATGACTTGATTGCAAGCATCCTCTCTCACAGAAAGGgtatgaggcacagtctgatatggggtagggccacctggtaggcatctgcc Alignment from Exonerate_protein2genome GGCAGCGAGATGATTTGATTGCCAGCATCCTCTCTGAG cacccacagctggatcccacattctcatctcttgacttttctctcctcagGGCAACGAGATGACTTGATTGCAAGCATCCTCTCTCACagaaagggtatgaggcacagtctgatatggggtagggccacctggtaggcatctgcc Alignment from Exonerate_coding2genome GGCAGCGAGATGATTTGATTGCCAGCATCCTCTCTGAG cacccacagctggatcccacattctcatctcttgacttttctctcctcagGGCAACGAGATGACTTGATTGCAAGCATCCTCTCTCACagaaagggtatgaggcacagtctgatatggggtagggccacctggtaggcatctgcc Alignment from GeneWise cacccacagctggatcccacattctcatctcttgacttttctctcctcagggcaacgagatgacttgattgcaagcatcctctctcacagaaagggtatgaggcacagtctgatatggggtagggccacctggtaggcatctgcc #### Plcb3_ID1912_19 --> 0 - 0 Original Alignment GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG ccagtagctgccttacttattaacttcctgaatttatttcttttgtacagGTGATTTCAGGGCAGTTCCTGTCTGACAAGAAGGTGGGTATCTACGTCGAGGTGGACATGTTTGGCCTCCCGGTTGACACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGTGGGACGAAGAACCCTTTGAC---------gtgagtccccatcacagcctagtggtggctgatccaccaagactgtgctg Alignment from CESAR GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG ccagtagctgccttacttattaacttcctgaatttatttcttttgtacagGTGATTTCAGGGCAGTTCCTGTCTGACAAGAAGGTGGGTATCTACGTCGAGGTGGACATGTTTGGCCTCCCGGTTGACACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGTGGGACGAAGAACCCTTTGAC---------gtgagtccccatcacagcctagtggtggctgatccaccaag Alignment from Spaln_aa2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGAC ccagtagctgccttacttattaacttcctgaatttatttcttttgtacagGTGATTTCAGGGCAGTTCCTGTCTGACAAGAAGGTGGGTATCTACGTCGAGGTGGACATGTTTGGCCTCCCGGTTGACACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGTGGGACGAAGAACCCTTTGACgtgagtccccatcacagcctagtggtggctgatccaccaagactgtgctg Alignment from Spaln_nt2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGAC ccagtagctgccttacttattaacttcctgaatttatttcttttgtacagGTGATTTCAGGGCAGTTCCTGTCTGACAAGAAGGTGGGTATCTACGTCGAGGTGGACATGTTTGGCCTCCCGGTTGACACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGTGGGACGAAGAACCCTTTGACgtgagtccccatcacagcctagtggtggctgatccaccaagactgtgctg Alignment from Pairagon GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGAC ccagtagctgccttacttattaacttcctgaatttatttcttttgtacagGTGATTTCAGGGCAGTTCCTGTCTGACAAGAAGGTGGGTATCTACGTCGAGGTGGACATGTTTGGCCTCCCGGTTGACACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGTGGGACGAAGAACCCTTTGACgtgagtccccatcacagcctagtggtggctgatccaccaagactgtgctg Alignment from Exonerate_protein2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGAC ccagtagctgccttacttattaacttcctgaatttatttcttttgtacagGTGATTTCAGGGCAGTTCCTGTCTGACAAGAAGGTGGGTATCTACGTCGAGGTGGACATGTTTGGCCTCCCGGTTGACACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGTGGGACGAAGAACCCTTTGACgtgagtccccatcacagcctagtggtggctgatccaccaagactgtgctg Alignment from Exonerate_coding2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGAC ccagtagctgccttacttattaacttcctgaatttatttcttttgtacagGTGATTTCAGGGCAGTTCCTGTCTGACAAGAAGGTGGGTATCTACGTCGAGGTGGACATGTTTGGCCTCCCGGTTGACACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGTGGGACGAAGAACCCTTTGACgtgagtccccatcacagcctagtggtggctgatccaccaagactgtgctg Alignment from GeneWise GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG------------ ccagtagctgccttacttattaacttcctgaatttatttcttttgtacagGTGATTTCAGGGCAGTTCCTGTCTGACAAGAAGGTGGGTATCTACGTCGAGGTGGACATGTTTGGCCTCCCGGTTGACACAAGATGTAAATATCGTACCCGGACATCTCAGGGAAACTCATTCAACCCTGTGTGGGACGAAGAACCCTTTGACGTGAGTCCCCATCACAGCCTAgtggtggctgatccaccaagactgtgctg #### Plcb3_ID1913_18 --> 2 - 0 Original Alignment atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tggctgacccgtgctgagaccctttactccttcactttctttctctttagatTTGCCAATGCAGCTCAACGCAGGTGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCACTGAGGTCATTGTAGATGGCATAGTG---------------------gtaagccccaggagaggcttggctcgagaggtcagaccatccgcctaggg Alignment from CESAR atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tggctgacccgtgctgagaccctttactccttcactttctttctctttagatTTGCCAATGCAGCTCAACGCAGGTGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCACTGAGGTCATTGTAGATGGCATAGTG---------------------gtaagccccaggagaggcttggctcgaga Alignment from Spaln_aa2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tggctgacccgtgctgagaccctttactccttcactttctttctctttagATTTGCCAATGCAGCTCAACGCAGGTGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCACTGAGGTCATTGTAGATGGCATAGTGGTAAGCCCCAGGAGAGGCTTGgctcgagaggtcagaccatccgcctaggg Alignment from Spaln_nt2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tggctgacccgtgctgagaccctttactccttcactttctttctctttagATTTGCCAATGCAGCTCAACGCAGGTGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCACTGAGGTCATTGTAGATGGCATAGTGGTAAGCCCCAGGAGAGGCTTGgctcgagaggtcagaccatccgcctaggg Alignment from Pairagon ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTG tggctgacccgtgctgagaccctttactccttcactttctttctctttagATTTGCCAATGCAGCTCAACGCAGGTGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCACTGAGGTCATTGTAGATGGCATAGTGgtaagccccaggagaggcttggctcgagaggtcagaccatccgcctaggg Alignment from Exonerate_protein2genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tggctgacccgtgctgagaccctttactccttcactttctttctctttagATTTGCCAATGCAGCTCAACGCAGGTGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCACTGAGGTCATTGTAGATGGCATAGTGGTAAGCCCCAGGAGAGGCTTGgctcgagaggtcagaccatccgcctaggg Alignment from Exonerate_coding2genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG tggctgacccgtgctgagaccctttactccttcactttctttctctttagATTTGCCAATGCAGCTCAACGCAGGTGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCACTGAGGTCATTGTAGATGGCATAGTGGTAAGCCCCAGGAGAGGCTTGgctcgagaggtcagaccatccgcctaggg Alignment from GeneWise ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAAC---------GCCTTGCGGGTCAAG tggctgacccgtgctgagaccctttactccttcactttctttctctttagATTTGCCAATGCAGCTCAACGCAGGTGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCACTGAGGTCATTGTAGATGGCATAGTGGTAAGCCCCAGGAGAGGCTTGGCTCGAGAGgtcagaccatccgcctaggg #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aa---------------------------------------------AGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga gctgggcctgccaggccatggctgctctatgcctaatctcctctcactagaaTTCAATGTAAATAAGTGCAGTGATCGCCTTGCACTAAAACAATCAAGGAACAAGTGCTTCAAGATGTCATCCTTCGTGGAGACCAAAGCAATGGACCAACTGACCAAGAGTCCTATGGAGTTTGTGgagtaagctcgccaaacactgtggctagcgtggagccgggagtgccaactgg Alignment from CESAR tatgaagccttccctactccccaccccttcctgttgcctggtatgacccaa Alignment from Spaln_aa2Genome GAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gctgggcctgccaggccatggctgctctatgcctaatctcctctcactagaattcaatgtaaataagtgcagtgatcgccttgcactaaaacaatcaagGAACAAGTGCTTCAAGATGTCATCCTTCGTGGAGACCAAAGCAATGGACCAACTGACCAAGAGTCCTATGGAGTTTGTGGAgtaagctcgccaaacactgtggctagcgtggagccgggagtgccaactgg Alignment from Spaln_nt2Genome GAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gctgggcctgccaggccatggctgctctatgcctaatctcctctcactagaattcaatgtaaataagtgcagtgatcgccttgcactaaaacaatcaagGAACAAGTGCTTCAAGATGTCATCCTTCGTGGAGACCAAAGCAATGGACCAACTGACCAAGAGTCCTATGGAGTTTGTGGAgtaagctcgccaaacactgtggctagcgtggagccgggagtgccaactgg Alignment from Pairagon ------------------------------------------------------------------------------------------------AAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA GCTGGGCCTGCCAGGCCATGGCTGCTCTATGCCTAATCTCCTCTCACTAGAATTCAATGTAAATAAGTGCAGTGATCGCCTTGCACTAAAACAATCAAGGAACAAGTGCTTCAAGATGTCATCCTTCGTGGAGACCAAAGCAATGGACCAACTGACCAAGAGTCCTATGGAGTTTGTGGAgtaagctcgccaaacactgtggctagcgtggagccgggagtgccaactgg Alignment from Exonerate_protein2genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gctgggcctgccaggccatggctgctctatgcctaatctcctctcactagaattcaatgtaaataagtgcagtgatcgccttgcactaaaacaatCAAGGAACAAGTGCTTCAAGATGTCATCCTTCGTGGAGACCAAAGCAATGGACCAACTGACCAAGAGTCCTATGGAGTTTGTGGAgtaagctcgccaaacactgtggctagcgtggagccgggagtgccaactgg Alignment from Exonerate_coding2genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gctgggcctgccaggccatggctgctctatgcctaatctcctctcactagaattcaatgtaaataagtgcagtgatcgccttgcactaaaacaatCAAGGAACAAGTGCTTCAAGATGTCATCCTTCGTGGAGACCAAAGCAATGGACCAACTGACCAAGAGTCCTATGGAGTTTGTGGAgtaagctcgccaaacactgtggctagcgtggagccgggagtgccaactgg Alignment from GeneWise ---TTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gctgggcctgccaggccatggctgctctatgcctaatctcctctcactagaattcaatgtaaataagtgcagtgatcgccttgcactaaaacaatcaaggaacaagTGCTTCAAGATGTCATCCTTCGTGGAGACCAAAGCAATGGACCAACTGACCAAGAGTCCTATGGAGTTTGTGGAgtaagctcgccaaacactgtggctagcgtggagccgggagtgccaactgg #### Plcb3_ID1918_13 --> 0 - 1 Original Alignment CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTg aggtgaagggagcttgattgcctaggtctggccctgtttctccatagcagCTATCTGAGGGCATCCCCCTGCCTAGTCCACAGGACCTTATG---GGTATCCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCGTCA---------ggtaagtgtcattacacaactgtcctgacttccacccctgatcctaatgca Alignment from CESAR CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTg aggtgaagggagcttgattgcctaggtctggccctgtttctccatagcagCTATCTGAGGGCATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATCCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCGTCA---------ggtaagtgtcattacacaactgtcctgacttccacccctgatcctaatgca Alignment from Spaln_aa2Genome CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCA- aggtgaagggagcttgattgcctaggtctggccctgtttctccatagcagCTATCTGAGGGCATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATCCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCGTCAGgtaagtgtcattacacaactgtcctgacttccacccctgatcctaatgca Alignment from Spaln_nt2Genome CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCAC aggtgaagggagcttgattgcctaggtctggccctgtttctccatagcagCTATCTGAGGGCATCCCCCTGCCTAGTCCACAGGACCTTATGG---GTATCCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCGTCAGgtaagtgtcattacacaactgtcctgacttccacccctgatcctaatgca Alignment from Pairagon CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTG aggtgaagggagcttgattgcctaggtctggccctgtttctccatagcagCTATCTGAGGGCATCCCCCTGCCTAGTCCACAGGACCTTATGG---GTATCCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCGTCA---------Ggtaagtgtcattacacaactgtcctgacttccacccctgatcctaatgca Alignment from Exonerate_protein2genome CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCAC aggtgaagggagcttgattgcctaggtctggccctgtttctccatagcagCTATCTGAGGGCATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATCCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCGTCAGgtaagtgtcattacacaactgtcctgacttccacccctgatcctaatgca Alignment from Exonerate_coding2genome CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCAC aggtgaagggagcttgattgcctaggtctggccctgtttctccatagcagCTATCTGAGGGCATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATCCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCGTCAGgtaagtgtcattacacaactgtcctgacttccacccctgatcctaatgca Alignment from GeneWise CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAG- aggtgaagggagcttgattgcctaggtctggccctgtttctccatagcagCTATCTGAGGGCATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATCCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCGTCAGGTAAGTgtcattacacaactgtcctgacttccacccctgatcctaatgca #### Plcb3_ID1923_8 --> 1 - 2 Original Alignment t---------GAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGat tctggaactggctgaccaaggttctcacgaactgttttctgtggttttagtTCTCTAGATGAGTCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGatgtgagtaacttgggaatggagtccataggctgggctctgtctccagtgta Alignment from CESAR t---------GAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGat tctggaactggctgaccaaggttctcacgaactgttttctgtggttttagtTCTCTAGATGAGTCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGatgtgagtaacttgggaatggagtccataggctgggctctgtctccagtgta Alignment from Spaln_aa2Genome TGAGTCCATTCGC---------CCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaaggttctcacgaactgttttctgtggttttagTTCTCTAGATGAGTCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagtaacttgggaatggagtccataggctgggctctgtctccagtgta Alignment from Spaln_nt2Genome TGAGTCCAT-TCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaaggttctcacgaactgttttctgtggttttagttctctagATGAGTCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagtaacttgggaatggagtccataggctgggctctgtctccagtgta Alignment from Pairagon -TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaaggttctcacgaactgttttctgtggttttagttctctagATGAGTCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagtaacttgggaatggagtccataggctgggctctgtctccagtgta Alignment from Exonerate_protein2genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaaggttctcacgaactgttttctgtggttttagttctctagaTGAGTCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagtaacttgggaatggagtccataggctgggctctgtctccagtgta Alignment from Exonerate_coding2genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaaggttctcacgaactgttttctgtggttttagttctctagaTGAGTCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagtaacttgggaatggagtccataggctgggctctgtctccagtgta Alignment from GeneWise -------GTTGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaaggttctcacgaactgttttctgtggttttagTTCTCTAGATGAGTCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagtaacttgggaatggagtccataggctgggctctgtctccagtgta #### Plcb3_ID1924_7 --> 1 - 2 Original Alignment cATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt tttctgccgcccgtccccccattgaccctattaatttttcttccctctagcATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAG------------------------------------gtgtatcgggcagggccagggtgagggtggggcaggttacatcttgattaca Alignment from CESAR cATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACG------GCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt tttctgccgcccgtccccccattgaccctattaatttttcttccctctagcATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGGTGTATCGGGCA------------------------GGGCCAgggtgagggt Alignment from Spaln_aa2Genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGAC tttctgccgcccgtccccccattgaccctattaatttttcttccctctagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGGTgtatcgggcagggccagggtgagggtggggcaggttacatcttgattaca Alignment from Spaln_nt2Genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTG tttctgccgcccgtccccccattgaccctattaatttttcttccctctagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGGTGTATCGGgcagggccagggtgagggtggggcaggttacatcttgattaca Alignment from Pairagon CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAG tttctgccgcccgtccccccattgaccctattaatttttcttccctctagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGgtgtatcgggcagggccagggtgagggtggggcaggttacatcttgattaca Alignment from Exonerate_protein2genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGG tttctgccgcccgtccccccattgaccctattaatttttcttccctctagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGGTGTATCGGGCAGGGCCAGGgtgagggtggggcaggttacatcttgattaca Alignment from Exonerate_coding2genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGG tttctgccgcccgtccccccattgaccctattaatttttcttccctctagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGGTGTATCGGGCAGGGCCAGGgtgagggtggggcaggttacatcttgattaca Alignment from GeneWise CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGAC tttctgccgcccgtccccccattgaccctattaatttttcttccctctagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGGTgtatcgggcagggccagggtgagggtggggcaggttacatcttgattaca #### Plcb3_ID1925_6 --> 1 - 2 Original Alignment a---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGaa ggagttccactgacaagacccaagatcgattttgtattgcttctttgcagaGAGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCGGTCAAGaagtaagttccccttccccctcagcatcttctctcctgccctgacattggtg Alignment from CESAR a---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGaa ggagttccactgacaagacccaagatcgattttgtattgcttctttgcagaGAGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCGGTCAAGaagtaagttccccttccccctcagcatcttctctcctgccctgacattggtg Alignment from Spaln_aa2Genome ATACACGAAGCTGAAG---CTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA ggagttccactgacaagacccaagatcgattttgtattgcttctttgcagAGAGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCGGTCAAGAAgtaagttccccttccccctcagcatcttctctcctgccctgacattggtg Alignment from Spaln_nt2Genome ATACACGAAGC---TGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA ggagttccactgacaagacccaagatcgattttgtattgcttctttgcagAGAGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCGGTCAAGAAgtaagttccccttccccctcagcatcttctctcctgccctgacattggtg Alignment from Pairagon A---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA ggagttccactgacaagacccaagatcgattttgtattgcttctttgcagAGAGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCGGTCAAGAAgtaagttccccttccccctcagcatcttctctcctgccctgacattggtg Alignment from Exonerate_protein2genome A---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA ggagttccactgacaagacccaagatcgattttgtattgcttctttgcagAGAGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCGGTCAAGAAgtaagttccccttccccctcagcatcttctctcctgccctgacattggtg Alignment from Exonerate_coding2genome A---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA ggagttccactgacaagacccaagatcgattttgtattgcttctttgcagAGAGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCGGTCAAGAAgtaagttccccttccccctcagcatcttctctcctgccctgacattggtg Alignment from GeneWise -GCATACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA ggagttccactgacaagacccaagatcgattttgtattgcttctttgcagAGAGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCGGTCAAGAAgtaagttccccttccccctcagcatcttctctcctgccctgacattggtg #### Pnlip_ID12748_7 --> 2 - 1 Original Alignment ga---------TTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAg gtgccggggtcgcatagtaatagagactaccgccgctgtattcaccctaggaGCTGTGGACTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGTATTGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAggtgagtattgtgcccatgaatttccaccgtgaattctccctttttttttt Alignment from CESAR ga---------TTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAg gtgccggggtcgcatagtaatagagactaccgccgctgtattcaccctaggaGCTGTGGACTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGTATTGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAggtgagtattgtgcccatgaatttccaccgtgaattctccctttttttttt Alignment from Spaln_aa2Genome GATTTGGAATG---------AGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtgccggggtcgcatagtaatagagactaccgccgctgtattcaccctagGAGCTGTGGACTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGTATTGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAGgtgagtattgtgcccatgaatttccaccgtgaattctccctttttttttt Alignment from Spaln_nt2Genome GATTTGGAATG---------AGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtgccggggtcgcatagtaatagagactaccgccgctgtattcaccctagGAGCTGTGGACTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGTATTGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAGgtgagtattgtgcccatgaatttccaccgtgaattctccctttttttttt Alignment from Pairagon GA---------TTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtgccggggtcgcatagtaatagagactaccgccgctgtattcaccctagGAGCTGTGGACTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGTATTGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAGgtgagtattgtgcccatgaatttccaccgtgaattctccctttttttttt Alignment from Exonerate_protein2genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtgccggggtcgcatagtaatagagactaccgccgctgtattcaccctaggagctgtggACTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGTATTGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAGgtgagtattgtgcccatgaatttccaccgtgaattctccctttttttttt Alignment from Exonerate_coding2genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtgccggggtcgcatagtaatagagactaccgccgctgtattcaccctaggagctgtggACTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGTATTGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAGgtgagtattgtgcccatgaatttccaccgtgaattctccctttttttttt Alignment from GeneWise -----GGATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtgccggggtcgcatagtaatagagactaccgccgctgtattcaccctaggagCTGTGGACTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGTATTGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAGgtgagtattgtgcccatgaatttccaccgtgaattctccctttttttttt #### Pnliprp1_ID12765_2 --> 2 - 0 Original Alignment ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG--------------------------- agcccagccacgatagcttcctgctgagtcctccccatcttgccttctagggAAAGAGGTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCGATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACTAATGAGAACCCAACTGCTTTCCAGACATGTGTGCTGAGTGGCCTGCGGCGTgtatgccttcatgagctctggggacaccttcttatctttcgacctgtttc Alignment from CESAR ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG------ agcccagccacgatagcttcctgctgagtcctccccatcttgccttctagggAAAGAGGTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCGATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACTAATGAGAACCCAACTGCTTTCCAGACATGTgtgctgagtggcctgcggcgtgtatgccttcatgagctctggggacaccttcttatctttcgacctgtttc Alignment from Spaln_aa2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG------ agcccagccacgatagcttcctgctgagtcctccccatcttgccttctagGGAAAGAGGTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCGATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACTAATGAGAACCCAACTGCTTTCCAGACATGTgtgctgagtggcctgcggcgtgtatgccttcatgagctctggggacaccttcttatctttcgacctgtttc Alignment from Spaln_nt2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAGAC agcccagccacgatagcttcctgctgagtcctccccatcttgccttctagGGAAAGAGGTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCGATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACTAATGAGAACCCAACTGCTTTCCAGACatgtgtgctgagtggcctgcggcgtgtatgccttcatgagctctggggacaccttcttatctttcgacctgtttc Alignment from Pairagon GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG---- agcccagccacgatagcttcctgctgagtcctccccatcttgccttctagGGAAAGAGGTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCGATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACTAATGAGAACCCAACTGCTTTCCAGACATgtgtgctgagtggcctgcggcgtgtatgccttcatgagctctggggacaccttcttatctttcgacctgtttc Alignment from Exonerate_protein2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG agcccagccacgatagcttcctgctgagtcctccccatcttgccttctagGGAAAGAGGTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCGATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACTAATGAGAACCCAACTGCTTTCCAGacatgtgtgctgagtggcctgcggcgtgtatgccttcatgagctctggggacaccttcttatctttcgacctgtttc Alignment from Exonerate_coding2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG agcccagccacgatagcttcctgctgagtcctccccatcttgccttctagGGAAAGAGGTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCGATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACTAATGAGAACCCAACTGCTTTCCAGacatgtgtgctgagtggcctgcggcgtgtatgccttcatgagctctggggacaccttcttatctttcgacctgtttc Alignment from GeneWise GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAGACT--- agcccagccacgatagcttcctgctgagtcctccccatcttgccttctagGGAAAGAGGTTTGTTATCACAACCTTGGGTGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCGATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACTAATGAGAACCCAACTGCTTTCCAGACATGTgtgctgagtggcctgcggcgtgtatgccttcatgagctctggggacaccttcttatctttcgacctgtttc #### Poll_ID9484_3 --> 1 - 0 Original Alignment g---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG caggtaagaatttgataccctaacgctctcttcttcacactgtcttccaggGGCTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGAACCACCCTTTCTCTTTCCCCTCCTCATACCAGAGCAGTATCTCCTCCCCCAACAGCAGAAAAGCCATCAAGAACCCAAGCCCAGgtaaatagcctcccagcccagggtgatgatcacagaaaatgaaaggactg Alignment from CESAR g---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG caggtaagaatttgataccctaacgctctcttcttcacactgtcttccaggGGCTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGAACCACCCTTTCTCTTTCCCCTCCTCATACCAGAGCAGTATCTCCTCCCCCAACAGCAGAAAAGCCATCAAGAACCCAAGCCCAGgtaaatagcctcccagcccagggtgatgatcacagaaaatgaaaggactg Alignment from Spaln_aa2Genome GTCCTTGGATGAA---CCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG caggtaagaatttgataccctaacgctctcttcttcacactgtcttccagGGGCTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGAACCACCCTTTCTCTTTCCCCTCCTCATACCAGAGCAGTATCTCCTCCCCCAACAGCAGAAAAGCCATCAAGAACCCAAGCCCAGgtaaatagcctcccagcccagggtgatgatcacagaaaatgaaaggactg Alignment from Spaln_nt2Genome GTCCTTGGATG---AACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG caggtaagaatttgataccctaacgctctcttcttcacactgtcttccagGGGCTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGAACCACCCTTTCTCTTTCCCCTCCTCATACCAGAGCAGTATCTCCTCCCCCAACAGCAGAAAAGCCATCAAGAACCCAAGCCCAGgtaaatagcctcccagcccagggtgatgatcacagaaaatgaaaggactg Alignment from Pairagon G---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG caggtaagaatttgataccctaacgctctcttcttcacactgtcttccagGGGCTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGAACCACCCTTTCTCTTTCCCCTCCTCATACCAGAGCAGTATCTCCTCCCCCAACAGCAGAAAAGCCATCAAGAACCCAAGCCCAGgtaaatagcctcccagcccagggtgatgatcacagaaaatgaaaggactg Alignment from Exonerate_protein2genome G---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG caggtaagaatttgataccctaacgctctcttcttcacactgtcttccagGGGCTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGAACCACCCTTTCTCTTTCCCCTCCTCATACCAGAGCAGTATCTCCTCCCCCAACAGCAGAAAAGCCATCAAGAACCCAAGCCCAGgtaaatagcctcccagcccagggtgatgatcacagaaaatgaaaggactg Alignment from Exonerate_coding2genome G---TCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG caggtaagaatttgataccctaacgctctcttcttcacactgtcttccagGGGCTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGAACCACCCTTTCTCTTTCCCCTCCTCATACCAGAGCAGTATCTCCTCCCCCAACAGCAGAAAAGCCATCAAGAACCCAAGCCCAGgtaaatagcctcccagcccagggtgatgatcacagaaaatgaaaggactg Alignment from GeneWise -AGGTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGGACCACCCTTTCTCTTTCCCCTCCTCACACCAGAGCTGTATCTCCTCCCCCAACGGCAGAAAAGCCATCAAGAACCCAAGCCCAG caggtaagaatttgataccctaacgctctcttcttcacactgtcttccagGGGCTCCTTGGATGAACCACAGCCCAGCAAGTCAGGCCAAGATGCTTCTGCTCCTGGCACCCAGCGGGATTTACCCAGAACCACCCTTTCTCTTTCCCCTCCTCATACCAGAGCAGTATCTCCTCCCCCAACAGCAGAAAAGCCATCAAGAACCCAAGCCCAGgtaaatagcctcccagcccagggtgatgatcacagaaaatgaaaggactg #### Polr2g_ID2377_6 --> 0 - 0 Original Alignment ---------GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT actgagactgggcctgagtctgcctgacgttttctttctttctgactcagCGCAAACCGGACATTGTGATTCAGCAGGACGATGAGATACGCCTGAAGATTGTAGGCACACGTGTAGACAAGAATGACATTgtgagccttgcttgacttctcttcttgcctgtagcccaggcccaggctgg Alignment from CESAR ---------GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT actgagactgggcctgagtctgcctgacgttttctttctttctgactcagCGCAAACCGGACATTGTGATTCAGCAGGACGATGAGATACGCCTGAAGATTGTAGGCACACGTGTAGACAAGAATGACATTgtgagccttgcttgacttctcttcttgcctgtagcccaggcccaggctgg Alignment from Spaln_aa2Genome GACATTGTGATT---------CAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT actgagactgggcctgagtctgcctgacgttttctttctttctgactcagCGCAAACCGGACATTGTGATTCAGCAGGACGATGAGATACGCCTGAAGATTGTAGGCACACGTGTAGACAAGAATGACATTgtgagccttgcttgacttctcttcttgcctgtagcccaggcccaggctgg Alignment from Spaln_nt2Genome --------GGACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT actgagactgggcctgagtctgcctgacgttttctttctttctgactcagCGCAAACCGGACATTGTGATTCAGCAGGACGATGAGATACGCCTGAAGATTGTAGGCACACGTGTAGACAAGAATGACATTgtgagccttgcttgacttctcttcttgcctgtagcccaggcccaggctgg Alignment from Pairagon ----------------------------------------------------------GGACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT ACTGAGACTGGGCCTGAGTCTGCCTGACGTTTTCTTTCTTTCTGACTCAGCGCAAACCGGACATTGTGATTCAGCAGGACGATGAGATACGCCTGAAGATTGTAGGCACACGTGTAGACAAGAATGACATTgtgagccttgcttgacttctcttcttgcctgtagcccaggcccaggctgg Alignment from Exonerate_protein2genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT actgagactgggcctgagtctgcctgacgttttctttctttctgactcagcgcaaaccgGACATTGTGATTCAGCAGGACGATGAGATACGCCTGAAGATTGTAGGCACACGTGTAGACAAGAATGACATTgtgagccttgcttgacttctcttcttgcctgtagcccaggcccaggctgg Alignment from Exonerate_coding2genome GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT actgagactgggcctgagtctgcctgacgttttctttctttctgactcagcgcaaaccgGACATTGTGATTCAGCAGGACGATGAGATACGCCTGAAGATTGTAGGCACACGTGTAGACAAGAATGACATTgtgagccttgcttgacttctcttcttgcctgtagcccaggcccaggctgg Alignment from GeneWise ---------GACATTGTGATTCAGCAGGACGATGAGATACGCTTGAAGATTGTAGGCACGCGTGTAGACAAGAATGACATT actgagactgggcctgagtctgcctgacgttttctttctttctgactcagCGCAAACCGGACATTGTGATTCAGCAGGACGATGAGATACGCCTGAAGATTGTAGGCACACGTGTAGACAAGAATGACATTgtgagccttgcttgacttctcttcttgcctgtagcccaggcccaggctgg #### Ppp1ca_ID408_2 --> 2 - 1 Original Alignment tgCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTg gtctgtgaggtcagggcccgtggactctcccatctccaacctttcttcagtg---------CGGCCTGGGAAGAACGTGCAGCTAACAGAGAACGAGATTCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCCCTCAAGATCTGTggtgagccttgcatagaaccctttttccggaaaattgcccctgctagtgcc Alignment from CESAR tgCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTg ccttgtccagtctgtgaggtcagggtctcccatctccaacctttcttcagtg---------CGGCCTGGGAAGAACGTGCAGCTAACAGAGAACGAGATTCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCCCTCAAGATCTGTggtgagccttgcatagaaccctttttccggaaaattgcccctgctagtgcc Alignment from Spaln_aa2Genome TGCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG gtctgtgaggtcagggcccgtggactctcccatctccaacctttcttcagTG---------CGGCCTGGGAAGAACGTGCAGCTAACAGAGAACGAGATTCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCCCTCAAGATCTGTGgtgagccttgcatagaaccctttttccggaaaattgcccctgctagtgcc Alignment from Spaln_nt2Genome TGCAGGGCT CACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG T-CTGTGAGgtcagggcccgtggactctcccatctccaacctttcttcagTGCGGCCTGGGAAGAACGTGCAGCTAACAGAGAACGAGATTCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCCCTCAAGATCTGTGgtgagccttgcatagaaccctttttccggaaaattgcccctgctagtgcc Alignment from Pairagon TGCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG gtctgtgaggtcagggcccgtggactctcccatctccaacctttcttcagTG---------CGGCCTGGGAAGAACGTGCAGCTAACAGAGAACGAGATTCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCCCTCAAGATCTGTGgtgagccttgcatagaaccctttttccggaaaattgcccctgctagtgcc Alignment from Exonerate_protein2genome TGCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG gtctgtgaggtcagggcccgtggactctcccatctccaaccTTTCTTCAGTGCGGCCTGGGAAGAACGTGCAGCTAACAGAGAACGAGATTCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCCCTCAAGATCTGTGgtgagccttgcatagaaccctttttccggaaaattgcccctgctagtgcc Alignment from Exonerate_coding2genome TGCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG gtctgtgaggtcagggcccgtggactctcccatctccaaccTTTCTTCAGTGCGGCCTGGGAAGAACGTGCAGCTAACAGAGAACGAGATTCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCCCTCAAGATCTGTGgtgagccttgcatagaaccctttttccggaaaattgcccctgctagtgcc Alignment from GeneWise --CGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG gtctgtgaggtcagggcccgtggactctcccatctccaacctttcttcagTGCGGCCTGGGAAGAACGTGCAGCTAACAGAGAACGAGATTCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCCCTCAAGATCTGTGgtgagccttgcatagaaccctttttccggaaaattgcccctgctagtgcc #### Ppp1ca_ID412_6 --> 0 - 0 Original Alignment GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG gggggtggcatgcctaacttaaagactactaaatgttctcttcttcttagGTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGGCAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATGTGT---------gtttgtgtgggactcgcggggaagagcctgcccaatagaagctggctcaa Alignment from CESAR GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG gggggtggcatgcctaacttaaagactactaaatgttctcttcttcttagGTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGGCAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATGTGT---------gtttgtgtgggactcgcggggaagagcctgcccaatagaag Alignment from Spaln_aa2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTC gggggtggcatgcctaacttaaagactactaaatgttctcttcttcttagGTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGGCAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATGTGTGTTTGTgtgggactcgcggggaagagcctgcccaatagaagctggctcaa Alignment from Spaln_nt2Genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTC gggggtggcatgcctaacttaaagactactaaatgttctcttcttcttagGTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGGCAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATGTGTGTTTGTgtgggactcgcggggaagagcctgcccaatagaagctggctcaa Alignment from Pairagon GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGT-------------------------------------------------- gggggtggcatgcctaacttaaagactactaaatgttctcttcttcttagGTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGGCAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATGTGTGTTTGTGTGGGACTCGCGGGGAAGAGCCTGCCCAATAGAAGCTGGCTCAA Alignment from Exonerate_protein2genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCT gggggtggcatgcctaacttaaagactactaaatgttctcttcttcttagGTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGGCAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATGTGTGTTTgtgtgggactcgcggggaagagcctgcccaatagaagctggctcaa Alignment from Exonerate_coding2genome GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCT gggggtggcatgcctaacttaaagactactaaatgttctcttcttcttagGTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGGCAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATGTGTGTTTgtgtgggactcgcggggaagagcctgcccaatagaagctggctcaa Alignment from GeneWise GTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGACAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGATGAGACCCTCATGTGTTCCTTCCAG gggggtggcatgcctaacttaaagactactaaatgttctcttcttcttagGTTGTAGAAGATGGCTATGAGTTCTTTGCCAAGAGGCAGTTGGTGACACTCTTCTCAGCTCCCAACTACTGTGGAGAGTTTGACAATGCTGGTGCCATGATGAGTGTGGACAAGACCCTCATGTGT---GTTTGTgtgggactcgcggggaagagcctgcccaatagaagctggct #### Ppp1r32_ID2842_9 --> 0 - 0 Original Alignment GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG--- agtcagccttgcagcctcttgcctcatgacaggtgacctctttctcccagGTGCCTACCCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCGGCCCCCCCAGCGGATGCAACAGACCAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAACAAGCTAgtaaggcttgctacactcatcccagtcccaacccatgctcccgagtcctg Alignment from CESAR GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG--- agtcagccttgcagcctcttgcctcatgacaggtgacctctttctcccagGTGCCTACCCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCGGCCCCCCCAGCGGATGCAACAGACCAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAACAAGCTAgtaaggcttgctacactcatcccagtcccaacccatgctcccgagtcctg Alignment from Spaln_aa2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAGGAG agtcagccttgcagcctcttgcctcatgacaggtgacctctttctcccagGTGCCTACCCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCGGCCCCCCCAGCGGATGCAACAGACCAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAACAAGCTAgtaaggcttgctacactcatcccagtcccaacccatgctcccgagtcctg Alignment from Spaln_nt2Genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG--- agtcagccttgcagcctcttgcctcatgacaggtgacctctttctcccagGTGCCTACCCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCGGCCCCCCCAGCGGATGCAACAGACCAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAACAAGCTAgtaaggcttgctacactcatcccagtcccaacccatgctcccgagtcctg Alignment from Pairagon GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG--- agtcagccttgcagcctcttgcctcatgacaggtgacctctttctcccagGTGCCTACCCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCGGCCCCCCCAGCGGATGCAACAGACCAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAACAAGCTAgtaaggcttgctacactcatcccagtcccaacccatgctcccgagtcctg Alignment from Exonerate_protein2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG agtcagccttgcagcctcttgcctcatgacaggtgacctctttctcccagGTGCCTACCCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCGGCCCCCCCAGCGGATGCAACAGACCAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAACAAGctagtaaggcttgctacactcatcccagtcccaacccatgctcccgagtcctg Alignment from Exonerate_coding2genome GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAG agtcagccttgcagcctcttgcctcatgacaggtgacctctttctcccagGTGCCTACCCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCGGCCCCCCCAGCGGATGCAACAGACCAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAACAAGctagtaaggcttgctacactcatcccagtcccaacccatgctcccgagtcctg Alignment from GeneWise GTGCCTACTCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCAGCCTCCCCAGCGGATGCAACAGACAAATGTTGCCCTGCTTGGCAGGGAGTCTGTGGGGAACAAGGAG agtcagccttgcagcctcttgcctcatgacaggtgacctctttctcccagGTGCCTACCCCAGCCCCACAGTCTGCCAGCATGAGCCACAGGTCCTACCGGCCCCCCCAGCGGATGCAACAGACCAATGTTGCCCTGCTTGGAAGGGAGTCTGTGGGGAACAAGCTAgtaaggcttgctacactcatcccagtcccaacccatgctcccgagtcctg #### Ppp1r32_ID2849_2 --> 2 - 2 Original Alignment gt---------------------CGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCCCTGGTCTCCTACCAACCGCACCTGGACACCCTGGACAATCCTGCCATAgg gccactcgtcacttttctggtgggcttttcttgcactgtcttgcttgcaggtACTGCACCCAAGAAAACCTCACGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCTCTGGTCTCCTACCAACCACACCTGGATACCCTGGACAATCCTGCCATAgggtgagtttcctatactctgttggatcttaaatattaaagatgtcattccc Alignment from CESAR gt---------------------CGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCCCTGGTCTCCTACCAACCGCACCTGGACACCCTGGACAATCCTGCCATAgg gccactcgtcacttttctggtgggcttttcttgcactgtcttgcttgcaggtACTGCACCCAAGAAAACCTCACGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCTCTGGTCTCCTACCAACCACACCTGGATACCCTGGACAATCCTGCCATAgggtgagtttcctatactctgttggatcttaaatattaaagatgtcattccc Alignment from Spaln_aa2Genome GTCGGGAGGAGTTT---------------------AAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCCCTGGTCTCCTACCAACCGCACCTGGACACCCTGGACAATCCTGCCATAGG gccactcgtcacttttctggtgggcttttcttgcactgtcttgcttgcagGTACTGCACCCAAGAAAACCTCACGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCTCTGGTCTCCTACCAACCACACCTGGATACCCTGGACAATCCTGCCATAGGgtgagtttcctatactctgttggatcttaaatattaaagatgtcattccc Alignment from Spaln_nt2Genome GTCGGGAGGAG-------TTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCCCTGGTCTCCTACCAACCGCACCTGGACACCCTGGACAATCCTGCCATAGG gccactcgtcacttttctggtgggcttttcttgcactgtcttgcttgcaggtactgcacccaagAAAACCTCACGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCTCTGGTCTCCTACCAACCACACCTGGATACCCTGGACAATCCTGCCATAGGgtgagtttcctatactctgttggatcttaaatattaaagatgtcattccc Alignment from Pairagon GT---------------------CGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCCCTGGTCTCCTACCAACCGCACCTGGACACCCTGGACAATCCTGCCATAGG gccactcgtcacttttctggtgggcttttcttgcactgtcttgcttgcagGTACTGCACCCAAGAAAACCTCACGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCTCTGGTCTCCTACCAACCACACCTGGATACCCTGGACAATCCTGCCATAGGgtgagtttcctatactctgttggatcttaaatattaaagatgtcattccc Alignment from Exonerate_protein2genome GTCGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCCCTGGTCTCCTACCAACCGCACCTGGACACCCTGGACAATCCTGCCATAGG gccactcgtcacttttctggtgggcttttcttgcactgtcttgcttgcaggtactgcacccaagaaaacctCACGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCTCTGGTCTCCTACCAACCACACCTGGATACCCTGGACAATCCTGCCATAGGgtgagtttcctatactctgttggatcttaaatattaaagatgtcattccc Alignment from Exonerate_coding2genome GTCGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCCCTGGTCTCCTACCAACCGCACCTGGACACCCTGGACAATCCTGCCATAGG gccactcgtcacttttctggtgggcttttcttgcactgtcttgcttgcaggtactgcacccaagaaaacctCACGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCTCTGGTCTCCTACCAACCACACCTGGATACCCTGGACAATCCTGCCATAGGgtgagtttcctatactctgttggatcttaaatattaaagatgtcattccc Alignment from GeneWise --------------------GGTCGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCCCTGGTCTCCTACCAACCGCACCTGGACACCCTGGACAATCCTGCCATAGG gccactcgtcacttttctggtgggcttttcttgcactgtcttgcttgcagGTACTGCACCCAAGAAAACCTCACGGGAGGAGTTTAAGCCCCGCCTGGGAAGCCATGTAGGCACAGGCTACAAATCCAACTATCGGCCTCTGGTCTCCTACCAACCACACCTGGATACCCTGGACAATCCTGCCATAGGgtgagtttcctatactctgttggatcttaaatattaaagatgtcattccc #### Pprc1_ID9724_12 --> 0 - 2 Original Alignment GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAA------gg gccgtagctctggctcaaagtcacagtcggctagcaccccttctctgcagGAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCAGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAACTCCTTgggtacggcttaaagttgggttttttctgttgtgttttcctgttaaatttta Alignment from CESAR GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAA------gg gccgtagctctggctcaaagtcacagtcggctagcaccccttctctgcagGAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCAGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAACTCCTTgggtacggcttaaagttgggttttttctgttgtgttttcctgttaaatttta Alignment from Spaln_aa2Genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAAGGT----- gccgtagctctggctcaaagtcacagtcggctagcaccccttctctgcagGAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCAGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAACTCCTTGGgtacggcttaaagttgggttttttctgttgtgttttcctgttaaatttta Alignment from Spaln_nt2Genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAA------GG gccgtagctctggctcaaagtcacagtcggctagcaccccttctctgcagGAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCAGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAACTCCTTGGgtacggcttaaagttgggttttttctgttgtgttttcctgttaaatttta Alignment from Pairagon GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAA------GG gccgtagctctggctcaaagtcacagtcggctagcaccccttctctgcagGAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCAGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAACTCCTTGGgtacggcttaaagttgggttttttctgttgtgttttcctgttaaatttta Alignment from Exonerate_protein2genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAA------GG gccgtagctctggctcaaagtcacagtcggctagcaccccttctctgcagGAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCAGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAACTCCTTGGgtacggcttaaagttgggttttttctgttgtgttttcctgttaaatttta Alignment from Exonerate_coding2genome GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAA------GG gccgtagctctggctcaaagtcacagtcggctagcaccccttctctgcagGAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCAGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAACTCCTTGGgtacggcttaaagttgggttttttctgttgtgttttcctgttaaatttta Alignment from GeneWise GAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCGGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAA------GG gccgtagctctggctcaaagtcacagtcggctagcaccccttctctgcagGAAGAGAGAAGGGTGGTCTTCATTGGGAAAATACCTGGCCGAATGACTCGGTCAGAGCTGAAACAGAGGTTCTCTGTTTTTGGAGAAATTGAGGAGTGTACCATTCATTTTCGTGTCCAACTCCTTGGgtacggcttaaagttgggttttttctgttgtgttttcctgttaaatttta #### Prdx5_ID1854_3 --> 0 - 0 Original Alignment ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtaactgcacttgctctccttatccctgtatttccctgatgtttttcag------CTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCAGAAGGCCAAGGGAGCGCAGGTAGTGGCCTGTCTGAGTGTTAATGACGTCTTTGTGATTGAGGAGTGGGGTCGAGCCCATGAAGCAGAAGGTAAGgtatgctgtggggcctgtgaggtggctcattttgaggctccagggccagg Alignment from CESAR ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG aggctgagtaactgcacttgctctccctgtatttccctgatgtttttcag------CTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCAGAAGGCCAAGGGAGCGCAGGTAGTGGCCTGTCTGAGTGTTAATGACGTCTTTGTGATTGAGGAGTGGGGTCGAGCCCATGAAGCAGAAGGTAAGgtatgctgtggggcctgtgaggtggctcattttgaggctccagggccagg Alignment from Spaln_aa2Genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtaactgcacttgctctccttatccctgtatttccctgatgtttttcag------CTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCAGAAGGCCAAGGGAGCGCAGGTAGTGGCCTGTCTGAGTGTTAATGACGTCTTTGTGATTGAGGAGTGGGGTCGAGCCCATGAAGCAGAAGGTAAGgtatgctgtggggcctgtgaggtggctcattttgaggctccagggccagg Alignment from Spaln_nt2Genome CTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtaactgcacttgctctccttatccctgtatttccctgatgtttttcagCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCAGAAGGCCAAGGGAGCGCAGGTAGTGGCCTGTCTGAGTGTTAATGACGTCTTTGTGATTGAGGAGTGGGGTCGAGCCCATGAAGCAGAAGGTAAGgtatgctgtggggcctgtgaggtggctcattttgaggctccagggccagg Alignment from Pairagon ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtaactgcacttgctctccttatccctgtatttccctgatgtttttcag------CTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCAGAAGGCCAAGGGAGCGCAGGTAGTGGCCTGTCTGAGTGTTAATGACGTCTTTGTGATTGAGGAGTGGGGTCGAGCCCATGAAGCAGAAGGTAAGgtatgctgtggggcctgtgaggtggctcattttgaggctccagggccagg Alignment from Exonerate_protein2genome CTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtaactgcacttgctctccttatccctgtatttccctgatgtttttcagCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCAGAAGGCCAAGGGAGCGCAGGTAGTGGCCTGTCTGAGTGTTAATGACGTCTTTGTGATTGAGGAGTGGGGTCGAGCCCATGAAGCAGAAGGTAAGgtatgctgtggggcctgtgaggtggctcattttgaggctccagggccagg Alignment from Exonerate_coding2genome CTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtaactgcacttgctctccttatccctgtatttccctgatgtttttcagCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCAGAAGGCCAAGGGAGCGCAGGTAGTGGCCTGTCTGAGTGTTAATGACGTCTTTGTGATTGAGGAGTGGGGTCGAGCCCATGAAGCAGAAGGTAAGgtatgctgtggggcctgtgaggtggctcattttgaggctccagggccagg Alignment from GeneWise ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG agtaactgcacttgctctccttatccctgtatttccctgatgtttttcagCTG------CCTGGGTTTGTGGAGCAAGCTGGAGCTCAGAAGGCCAAGGGAGCGCAGGTAGTGGCCTGTCTGAGTGTTAATGACGTCTTTGTGATTGAGGAGTGGGGTCGAGCCCATGAAGCAGAAGGTAAGgtatgctgtggggcctgtgaggtggctcattttgaggctccagggccagg #### Prpf19_ID3048_7 --> 0 - 0 Original Alignment CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ tttgttcttacaaaattatttttctcacttcctttgttgttaaactatagCTTCAAGACAAGGCTACTGTGCTAACCACGGAACGTAAGAAGGAGAGGgtgagctgttgcctgttgtgaacacttgcatttttggagagaagtgtagt Alignment from CESAR CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ tttgttcttacaaaattatttttctcacttcctttgttgttaaactatagCTTCAAGACAAGGCTACTGTGCTAACCACGGAACGTAAGAAGGAGAGGgtgagctgttgcctgttgtgaacacttgcatttttggagagaagtgtagt Alignment from Spaln_aa2Genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ tttgttcttacaaaattatttttctcacttcctttgttgttaaactatagCTTCAAGACAAGGCTACTGTGCTAACCACGGAACGTAAGAAGGAGAGGgtgagctgttgcctgttgtgaacacttgcatttttggagagaagtgtagt Alignment from Spaln_nt2Genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ tttgttcttacaaaattatttttctcacttcctttgttgttaaactatagCTTCAAGACAAGGCTACTGTGCTAACCACGGAACGTAAGAAGGAGAGGgtgagctgttgcctgttgtgaacacttgcatttttggagagaagtgtagt Alignment from Pairagon CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG------ tttgttcttacaaaattatttttctcacttcctttgttgttaaactatagCTTCAAGACAAGGCTACTGTGCTAACCACGGAACGTAAGAAGGAGAGGgtgagctgttgcctgttgtgaacacttgcatttttggagagaagtgtagt Alignment from Exonerate_protein2genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG tttgttcttacaaaattatttttctcacttcctttgttgttaaactatagCTTCAAGACAAGGCTACTGTGCTAACCACGGAACGTAAGAAGgagagggtgagctgttgcctgttgtgaacacttgcatttttggagagaagtgtagt Alignment from Exonerate_coding2genome CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG tttgttcttacaaaattatttttctcacttcctttgttgttaaactatagCTTCAAGACAAGGCTACTGTGCTAACCACGGAACGTAAGAAGgagagggtgagctgttgcctgttgtgaacacttgcatttttggagagaagtgtagt Alignment from GeneWise CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG---AGA tttgttcttacaaaattatttttctcacttcctttgttgttaaactatagCTTCAAGACAAGGCTACTGTGCTAACCACGGAACGTAAGAAGGAGAGGgtgagctgttgcctgttgtgaacacttgcatttttggagagaagtgtagt #### Prpf19_ID3050_9 --> 0 - 1 Original Alignment GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTg tttgattgggcatgattgggttctcctccagtaccattttttccccccag------CACAGTGCTAGCATTCCTGGGATTCTTGCTCTGGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTggtatgtgtaggcctgactaacagtcaaaatgaggtatggcaggattcagg Alignment from CESAR GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTg ggaggctttgattgggcatgattggctccagtaccattttttccccccag------CACAGTGCTAGCATTCCTGGGATTCTTGCTCTGGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTggtatgtgtaggcctgactaacagtcaaaatgaggtatggcaggattcagg Alignment from Spaln_aa2Genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG tttgattgggcatgattgggttctcctccagtaccattttttccccccag------CACAGTGCTAGCATTCCTGGGATTCTTGCTCTGGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtatgtgtaggcctgactaacagtcaaaatgaggtatggcaggattcagg Alignment from Spaln_nt2Genome CACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG tttgattgggcatgattgggttctcctccagtaccattttttccccccagCACAGTGCTAGCATTCCTGGGATTCTTGCTCTGGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtatgtgtaggcctgactaacagtcaaaatgaggtatggcaggattcagg Alignment from Pairagon GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG tttgattgggcatgattgggttctcctccagtaccattttttccccccag------CACAGTGCTAGCATTCCTGGGATTCTTGCTCTGGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtatgtgtaggcctgactaacagtcaaaatgaggtatggcaggattcagg Alignment from Exonerate_protein2genome CACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG tttgattgggcatgattgggttctcctccagtaccattttttccccccagCACAGTGCTAGCATTCCTGGGATTCTTGCTCTGGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtatgtgtaggcctgactaacagtcaaaatgaggtatggcaggattcagg Alignment from Exonerate_coding2genome ACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG tttgattgggcatgattgggttctcctccagtaccattttttccccccaGCACAGTGCTAGCATTCCTGGGATTCTTGCTCTGGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtatgtgtaggcctgactaacagtcaaaatgaggtatggcaggattcagg Alignment from GeneWise CACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG tttgattgggcatgattgggttctcctccagtaccattttttccccccagCACAGTGCTAGCATTCCTGGGATTCTTGCTCTGGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtatgtgtaggcctgactaacagtcaaaatgaggtatggcaggattcagg #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG ggagttactcacattggatccctaagcctcttattttatgccttttctagct---TTTCTGGACTCCATGGCCACCCTAGGGCTTGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgaggcacccagaccccaaccttgtggtgcttagtcacaataaagaggt Alignment from CESAR ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG aagggagttactcacattggatcccgcctcttattttatgccttttctagct---TTTCTGGACTCCATGGCCACCCTAGGGCTTGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgaggcacccagaccccaaccttgtggtgcttagtcacaataaagaggt Alignment from Spaln_aa2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG ggagttactcacattggatccctaagcctcttattttatgccttttctagCT---TTTCTGGACTCCATGGCCACCCTAGGGCTTGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgaggcacccagaccccaaccttgtggtgcttagtcacaataaagaggt Alignment from Spaln_nt2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG ggagttactcacattggatccctaagcctcttattttatgccttttctagCT---TTTCTGGACTCCATGGCCACCCTAGGGCTTGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgaggcacccagaccccaaccttgtggtgcttagtcacaataaagaggt Alignment from Pairagon CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG ggagttactcacattggatccctaagcctcttattttatgccttttctagCT---TTTCTGGACTCCATGGCCACCCTAGGGCTTGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgaggcacccagaccccaaccttgtggtgcttagtcacaataaagaggt Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG ggagttactcacattggatccctaagcctcttattttatgccttttctagCT---TTTCTGGACTCCATGGCCACCCTAGGGCTTGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgaggcacccagaccccaaccttgtggtgcttagtcacaataaagaggt Alignment from Exonerate_coding2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG ggagttactcacattggatccctaagcctcttattttatgccttttctagCT---TTTCTGGACTCCATGGCCACCCTAGGGCTTGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgaggcacccagaccccaaccttgtggtgcttagtcacaataaagaggt Alignment from GeneWise GCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG ggagttactcacattggatccctaagcctcttattttatgccttttctagCTTTTCTGGACTCCATGGCCACCCTAGGGCTTGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgaggcacccagaccccaaccttgtggtgcttagtcacaataaagaggt #### Pygm_ID1684_8 --> 0 - 0 Original Alignment TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG ctgtagttaattggtggggcatttcaaaaccacatacacgtacactctag---------GGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttctggcctgaaggcctctgtcttcctctctctagagtcccatg Alignment from CESAR TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG tatcatctgctgtagttaattggtgaaaaccacatacacgtacactctag---------GGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttctggcctgaaggcctctgtcttcctctctctagagtcccatg Alignment from Spaln_aa2Genome GGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG ctgtagttaattggtggggcatttcaaaaccacatacacgtacactctagGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttctggcctgaaggcctctgtcttcctctctctagagtcccatg Alignment from Spaln_nt2Genome TTCTTTG AAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG ctgtagTTAATTGgtggggcatttcaaaaccacatacacgtacactctag--GGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttctggcctgaaggcctctgtcttcctctctctagagtcccatg Alignment from Pairagon TTCTTTGAAGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG ctgtagttaattggtggggcatttcaaaaccacatacacgtacactctag---------GGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttctggcctgaaggcctctgtcttcctctctctagagtcccatg Alignment from Exonerate_protein2genome GGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG ctgtagttaattggtggggcatttcaaaaccacatacacgtacactctagGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttctggcctgaaggcctctgtcttcctctctctagagtcccatg Alignment from Exonerate_coding2genome GGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG ctgtagttaattggtggggcatttcaaaaccacatacacgtacactctagGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttctggcctgaaggcctctgtcttcctctctctagagtcccatg Alignment from GeneWise GGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAGGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTCGATGCCTTCCCTGATAAG ctgtagttaattggtggggcatttcaaaaccacatacacgtacactctagGGGAAGGAGCTGCGGCTGAAGCAGGAGTACTTTGTGGTGGCTGCCACCCTCCAAGACATCATCCGACGTTTCAAGTCCTCCAAGTTTGGCAGCCGTGATCCTGTGCGCACAAACTTTGATGCCTTCCCTGATAAGgtgagtttctggcctgaaggcctctgtcttcctctctctagagtcccatg #### Pygm_ID1686_10 --> 0 - 0 Original Alignment ------GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaaggtgtgtggaggtcaactgacatcaccatttccttccctcttcagGTGCTGGCCTGGGATGTAACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGTCACTTGCAGATAATTTACGAGATCAACCAGCGTTTCCTTAACgtgaggtggggacaatgtgggagaggagccccagccttgaagtgaggaag Alignment from CESAR ------GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaaggtgtgtggaggtcaactgacatcaccatttccttccctcttcagGTGCTGGCCTGGGATGTAACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGTCACTTGCAGATAATTTACGAGATCAACCAGCGTTTCCTTAACgtgaggtggggacaatgtgggagaggagccccagccttgaagtgaggaag Alignment from Spaln_aa2Genome GCCTGGGAC------GTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaaggtgtgtggaggtcaactgacatcaccatttccttccctcttcagGTGCTGGCCTGGGATGTAACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGTCACTTGCAGATAATTTACGAGATCAACCAGCGTTTCCTTAACgtgaggtggggacaatgtgggagaggagccccagccttgaagtgaggaag Alignment from Spaln_nt2Genome GGCCTGGGACGTA-----ACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaaggtgtgtggaggtcaactgacatcaccatttccttccctcttcagGTGCTGGCCTGGGATGTAACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGTCACTTGCAGATAATTTACGAGATCAACCAGCGTTTCCTTAACgtgaggtggggacaatgtgggagaggagccccagccttgaagtgaggaag Alignment from Pairagon ------GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaaggtgtgtggaggtcaactgacatcaccatttccttccctcttcagGTGCTGGCCTGGGATGTAACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGTCACTTGCAGATAATTTACGAGATCAACCAGCGTTTCCTTAACgtgaggtggggacaatgtgggagaggagccccagccttgaagtgaggaag Alignment from Exonerate_protein2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaaggtgtgtggaggtcaactgacatcaccatttccttccctcttcaggtgctgGCCTGGGATGTAACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGTCACTTGCAGATAATTTACGAGATCAACCAGCGTTTCCTTAACgtgaggtggggacaatgtgggagaggagccccagccttgaagtgaggaag Alignment from Exonerate_coding2genome GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaaggtgtgtggaggtcaactgacatcaccatttccttccctcttcaggtgctgGCCTGGGATGTAACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGTCACTTGCAGATAATTTACGAGATCAACCAGCGTTTCCTTAACgtgaggtggggacaatgtgggagaggagccccagccttgaagtgaggaag Alignment from GeneWise ------GCCTGGGACGTAACAGTGAAGACCTGTGCCTACACCAACCACACGGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGCCACTTGCAGATCATTTACGAGATCAACCAGCGTTTCCTTAAC gcaaaggtgtgtggaggtcaactgacatcaccatttccttccctcttcagGTGCTGGCCTGGGATGTAACAGTAAAGACTTGTGCCTACACCAACCACACAGTGCTGCCTGAAGCCCTGGAGCGCTGGCCAGTGCACCTCATGGAGACACTGCTGCCCCGTCACTTGCAGATAATTTACGAGATCAACCAGCGTTTCCTTAACgtgaggtggggacaatgtgggagaggagccccagccttgaagtgaggaag #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACC------at gagaactggagactactaattctgggtcttgctaacattcttctctgcagCGGGTGGCAGCTGCATTCCCTGGGGATGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCGGGAGCatgtatgtgctctccaccagcaccgaaataccacacttccggtatgggccct Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACC------at gagaactggagactactaattctgggtcttgctaacattcttctctgcagCGGGTGGCAGCTGCATTCCCTGGGGATGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCGGGAGCatgtatgtgctctccaccagcaccgaaataccacacttccggtatgggccct Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATC----- gagaactggagactactaattctgggtcttgctaacattcttctctgcagCGGGTGGCAGCTGCATTCCCTGGGGATGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCGGGAGCATgtatgtgctctccaccagcaccgaaataccacacttccggtatgggccct Alignment from Spaln_nt2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACC------AT gagaactggagactactaattctgggtcttgctaacattcttctctgcagCGGGTGGCAGCTGCATTCCCTGGGGATGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCGGGAGCATgtatgtgctctccaccagcaccgaaataccacacttccggtatgggccct Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAAC------CAT gagaactggagactactaattctgggtcttgctaacattcttctctgcagCGGGTGGCAGCTGCATTCCCTGGGGATGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCGGGAGCATgtatgtgctctccaccagcaccgaaataccacacttccggtatgggccct Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagaactggagactactaattctgggtcttgctaacattcttctctgcagCGGGTGGCAGCTGCATTCCCTGGGGATGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCGGgagcatgtatgtgctctccaccagcaccgaaataccacacttccggtatgggccct Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gagaactggagactactaattctgggtcttgctaacattcttctctgcagCGGGTGGCAGCTGCATTCCCTGGGGATGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCGGgagcatgtatgtgctctccaccagcaccgaaataccacacttccggtatgggccct Alignment from GeneWise CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACC------AT gagaactggagactactaattctgggtcttgctaacattcttctctgcagCGGGTGGCAGCTGCATTCCCTGGGGATGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCGGGAGCATgtatgtgctctccaccagcaccgaaataccacacttccggtatgggccct #### Pygm_ID1689_13 --> 0 - 0 Original Alignment CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ccaggctagggtagtcctgtaatagatgctaattctaatttccctcctag---------GAGGACTATGTCTCAGACCTAGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgtgaggggccctgcaacctggcaccctgccccatggctaacatttggaga Alignment from CESAR CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG aggatgtagccaggctagggtagtcatgctaattctaatttccctcctag---------GAGGACTATGTCTCAGACCTAGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgtgaggggccctgcaacctggcaccctgccccatggctaacatttggaga Alignment from Spaln_aa2Genome CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ccaggctagggtagtcctgtaatagatgctaattctaatttccctcctag---------GAGGACTATGTCTCAGACCTAGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgtgaggggccctgcaacctggcaccctgccccatggctaacatttggaga Alignment from Spaln_nt2Genome GAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ccaggctagggtagtcctgtaatagatgctaattctaatttccctcctagGAGGACTATGTCTCAGACCTAGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgtgaggggccctgcaacctggcaccctgccccatggctaacatttggaga Alignment from Pairagon CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ccaggctagggtagtcctgtaatagatgctaattctaatttccctcctag---------GAGGACTATGTCTCAGACCTAGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgtgaggggccctgcaacctggcaccctgccccatggctaacatttggaga Alignment from Exonerate_protein2genome CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ccaggctagggtagtcctgtaatagatgctaattctaatttccctcctag---------GAGGACTATGTCTCAGACCTAGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgtgaggggccctgcaacctggcaccctgccccatggctaacatttggaga Alignment from Exonerate_coding2genome CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ccaggctagggtagtcctgtaatagatgctaattctaatttccctcctag---------GAGGACTATGTCTCAGACCTAGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgtgaggggccctgcaacctggcaccctgccccatggctaacatttggaga Alignment from GeneWise CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ccaggctagggtagtcctgtaatagatgctaattctaatttccctcctagGAG---------GACTATGTCTCAGACCTAGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgtgaggggccctgcaacctggcaccctgccccatggctaacatttggaga #### Rab1b_ID845_3 --> 0 - 0 Original Alignment GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gctcagtcctcctgtctgctcagtccgttgatttttgtttattcttttagGATGACACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTCAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTA------gtaagtacgtacatgagccctctccagccctcagacaaaagtggattcct Alignment from CESAR GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gctcagtcctcctgtctgctcagtccgttgatttttgtttattcttttagGATGACACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTCAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTA------gtaagtacgtacatgagccctctccagccctcagacaaaagtgg Alignment from Spaln_aa2Genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTG gctcagtcctcctgtctgctcagtccgttgatttttgtttattcttttagGATGACACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTCAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTAgtaagtacgtacatgagccctctccagccctcagacaaaagtggattcct Alignment from Spaln_nt2Genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gctcagtcctcctgtctgctcagtccgttgatttttgtttattcttttagGATGACACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTCAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACT--AGTAAgtacgtacatgagccctctccagccctcagacaaaagtggattcct Alignment from Pairagon GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTG gctcagtcctcctgtctgctcagtccgttgatttttgtttattcttttagGATGACACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTCAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTAgtaagtacgtacatgagccctctccagccctcagacaaaagtggattcct Alignment from Exonerate_protein2genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGA gctcagtcctcctgtctgctcagtccgttgatttttgtttattcttttagGATGACACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTCAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTAGTAAgtacgtacatgagccctctccagccctcagacaaaagtggattcct Alignment from Exonerate_coding2genome GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGA gctcagtcctcctgtctgctcagtccgttgatttttgtttattcttttagGATGACACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTCAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAACTAGTAAgtacgtacatgagccctctccagccctcagacaaaagtggattcct Alignment from GeneWise GATGACACTTACACAGAGAGCTACATCAGCACCATCGGTGTGGATTTCAAGATTCGAACCATTGAGCTGGACGGCAAAACCATCAAACTGCAGATT gctcagtcctcctgtctgctcagtccgttgatttttgtttattcttttagGATGACACTTACACAGAGAGCTACATCAGCACCATTGGTGTGGATTTCAAGATACGAACCATTAAGCTGGATGGCAAAACCATCAAA------CTAgtaagtacgtacatgagccctctccagccctcagacaaaagtggattcct #### Rab3il1_ID2647_3 --> 0 - 0 Original Alignment GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG------------ aggaacagagtatggtcagggtaggctagatttttacctttttcttgtagGAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAGTACTACTTCAAAgtatgactgggcagcctaggaatgggtggcccatttgtccgggctctagt Alignment from CESAR GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG------------ aggaacagagtatggtcagggtaggctagatttttacctttttcttgtagGAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAGTACTACTTCAAAgtatgactgggcagcctaggaatgggtggcccatttgtccgggctctagt Alignment from Spaln_aa2Genome GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG------------ aggaacagagtatggtcagggtaggctagatttttacctttttcttgtagGAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAGTACTACTTCAAAgtatgactgggcagcctaggaatgggtggcccatttgtccgggctctagt Alignment from Spaln_nt2Genome GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGA aggaacagagtatggtcagggtaggctagatttttacctttttcttgtagGAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAgtactacttcaaagtatgactgggcagcctaggaatgggtggcccatttgtccgggctctagt Alignment from Pairagon GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG------------ aggaacagagtatggtcagggtaggctagatttttacctttttcttgtagGAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAGTACTACTTCAAAgtatgactgggcagcctaggaatgggtggcccatttgtccgggctctagt Alignment from Exonerate_protein2genome GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG aggaacagagtatggtcagggtaggctagatttttacctttttcttgtagGAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAGtactacttcaaagtatgactgggcagcctaggaatgggtggcccatttgtccgggctctagt Alignment from Exonerate_coding2genome GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG aggaacagagtatggtcagggtaggctagatttttacctttttcttgtagGAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAGtactacttcaaagtatgactgggcagcctaggaatgggtggcccatttgtccgggctctagt Alignment from GeneWise GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG------------ aggaacagagtatggtcagggtaggctagatttttacctttttcttgtagGAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAGTACTACTTCAAAgtatgactgggcagcctaggaatgggtggcccatttgtccgggctctagt #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccgggctctagtgactactcattgttttaaccctgtgctgccccctcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaatatccacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from CESAR GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG catttgtccgggctctagtgactacttttaaccctgtgctgccccctcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaatatccacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Spaln_aa2Genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccgggctctagtgactactcattgttttaaccctgtgctgccccctcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaatatccacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Spaln_nt2Genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccgggctctagtgactactcattgttttaaccctgtgctgccccctcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaatatccacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Pairagon GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccgggctctagtgactactcattgttttaaccctgtgctgccccctcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaatatccacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Exonerate_protein2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccgggctctagtgactactcattgttttaaccctgtgctgcccCCTCAGCACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaatatccacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Exonerate_coding2genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccgggctctagtgactactcattgttttaaccctgtgctgcccCCTCAGCACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaatatccacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from GeneWise --------------------------------------------GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG TCCGGGCTCTAGTGACTACTCATTGTTTTAACCCTGTGCTGCCCCCTCAGCACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaatatccacccctgtgtgcctaagccagcccatggctcctggcattgc #### Rasgrp2_ID1704_3 --> 1 - 2 Original Alignment cTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCag tactcccactaaccatagattcccatcttaacaaagttgtggccttacagcTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTG---aggtgagaagacgggtcctgactcatcctcttgctacccttttgaagtgaag Alignment from CESAR cTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCag tactcccactaaccatagattcccatcttaacaaagttgtggccttacagcTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTG---aggtgagaagacgggtcctgactcatcctcttgctacccttttgaagtgaag Alignment from Spaln_aa2Genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGT tactcccactaaccatagattcccatcttaacaaagttgtggccttacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGAGgtgagaagacgggtcctgactcatcctcttgctacccttttgaagtgaag Alignment from Spaln_nt2Genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTG---------GTCAG tactcccactaaccatagattcccatcttaacaaagttgtggccttacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGAGGTGAGAAGACGGgtcctgactcatcctcttgctacccttttgaagtgaag Alignment from Pairagon CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCAG tactcccactaaccatagattcccatcttaacaaagttgtggccttacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTG---AGgtgagaagacgggtcctgactcatcctcttgctacccttttgaagtgaag Alignment from Exonerate_protein2genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCAG tactcccactaaccatagattcccatcttaacaaagttgtggccttacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTG---AGgtgagaagacgggtcctgactcatcctcttgctacccttttgaagtgaag Alignment from Exonerate_coding2genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCAG tactcccactaaccatagattcccatcttaacaaagttgtggccttacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTG---AGgtgagaagacgggtcctgactcatcctcttgctacccttttgaagtgaag Alignment from GeneWise CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGT tactcccactaaccatagattcccatcttaacaaagttgtggccttacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGAGgtgagaagacgggtcctgactcatcctcttgctacccttttgaagtgaag #### Rasgrp2_ID1706_5 --> 1 - 0 Original Alignment cCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG aggggacgtctccagcacaaggcctccctgactatctgtcttccccacagc------TACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAGAAACGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTAGCAGAACATCTTACCTACCTGGAGTACCGTTCCTTCTGCAAGATCCTGgtaagtcctgaaggcttgtggtcagggtgaggcttgtggtcagggtgcag Alignment from CESAR cCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG ggaagcaggggacgtctccagcacaccctgactatctgtcttccccacagc------TACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAGAAACGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTAGCAGAACATCTTACCTACCTGGAGTACCGTTCCTTCTGCAAGATCCTGgtaagtcctgaaggcttgtggtcagggtgaggcttgtggtcagggtgcag Alignment from Spaln_aa2Genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG aggggacgtctccagcacaaggcctccctgactatctgtcttccccacagC------TACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAGAAACGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTAGCAGAACATCTTACCTACCTGGAGTACCGTTCCTTCTGCAAGATCCTGgtaagtcctgaaggcttgtggtcagggtgaggcttgtggtcagggtgcag Alignment from Spaln_nt2Genome CTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG aggggacgtctccagcacaaggcctccctgactatctgtcttccccacagCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAGAAACGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTAGCAGAACATCTTACCTACCTGGAGTACCGTTCCTTCTGCAAGATCCTGgtaagtcctgaaggcttgtggtcagggtgaggcttgtggtcagggtgcag Alignment from Pairagon CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG aggggacgtctccagcacaaggcctccctgactatctgtcttccccacag------CTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAGAAACGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTAGCAGAACATCTTACCTACCTGGAGTACCGTTCCTTCTGCAAGATCCTGgtaagtcctgaaggcttgtggtcagggtgaggcttgtggtcagggtgcag Alignment from Exonerate_protein2genome CTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG aggggacgtctccagcacaaggcctccctgactatctgtcttccccacagCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAGAAACGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTAGCAGAACATCTTACCTACCTGGAGTACCGTTCCTTCTGCAAGATCCTGgtaagtcctgaaggcttgtggtcagggtgaggcttgtggtcagggtgcag Alignment from Exonerate_coding2genome CTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG aggggacgtctccagcacaaggcctccctgactatctgtcttccccacagCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAGAAACGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTAGCAGAACATCTTACCTACCTGGAGTACCGTTCCTTCTGCAAGATCCTGgtaagtcctgaaggcttgtggtcagggtgaggcttgtggtcagggtgcag Alignment from GeneWise CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG aggggacgtctccagcacaaggcctccctgactatctgtcttccccacagC------TACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAGAAACGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTAGCAGAACATCTTACCTACCTGGAGTACCGTTCCTTCTGCAAGATCCTGgtaagtcctgaaggcttgtggtcagggtgaggcttgtggtcagggtgcag #### Rbp4_ID7525_2 --> 0 - 0 Original Alignment GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT acggaggatgaatcttctggccctgggtcccgcccatctcctctctttag---------------------------------------GTGCTGCTGGCAGCTCTGGGAGGTGGCAGCGCTGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTgtaaccatcagcccaggtttcctaattcctgtgggtcagaggtggaaccc Alignment from CESAR GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccttgatcttctggccctgggtcccgcccatctcctctctttag---------------------------------------GTGCTGCTGGCAGCTCTGGGAGGTGGCAGCGCTGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTgtaaccatcagcccaggtttcctaattcctgtgggtcagaggtggaaccc Alignment from Spaln_aa2Genome GTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT acggaggatgaatcttctggccctgggtcccgcccatctcctctctttagGTGCTGCTGGCAGCTCTGGGAGGTGGCAGCGCTGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTgtaaccatcagcccaggtttcctaattcctgtgggtcagaggtggaaccc Alignment from Spaln_nt2Genome GTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT acggaggatgaatcttctggccctgggtcccgcccatctcctctctttagGTGCTGCTGGCAGCTCTGGGAGGTGGCAGCGCTGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTgtaaccatcagcccaggtttcctaattcctgtgggtcagaggtggaaccc Alignment from Pairagon GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT acggaggatgaatcttctggccctgggtcccgcccatctcctctctttag---------------------------------------GTGCTGCTGGCAGCTCTGGGAGGTGGCAGCGCTGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTgtaaccatcagcccaggtttcctaattcctgtgggtcagaggtggaaccc Alignment from Exonerate_protein2genome GTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT acggaggatgaatcttctggccctgggtcccgcccatctcctctctttagGTGCTGCTGGCAGCTCTGGGAGGTGGCAGCGCTGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTgtaaccatcagcccaggtttcctaattcctgtgggtcagaggtggaaccc Alignment from Exonerate_coding2genome GTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT acggaggatgaatcttctggccctgggtcccgcccatctcctctctttagGTGCTGCTGGCAGCTCTGGGAGGTGGCAGCGCTGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTgtaaccatcagcccaggtttcctaattcctgtgggtcagaggtggaaccc Alignment from GeneWise GTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT acggaggatgaatcttctggccctgggtcccgcccatctcctctctttagGTGCTGCTGGCAGCTCTGGGAGGTGGCAGCGCTGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGTgtaaccatcagcccaggtttcctaattcctgtgggtcagaggtggaaccc #### Rce1_ID575_7 --> 2 - 1 Original Alignment cgTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg gggtgggtatgtgggtgtggtcctgtgtcagtctctgtatatcttcccagcg------TTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATTCGCACAggtaagacctcagcttttcatggatcaaggcaaaggtctgatcagcttctt Alignment from CESAR cgTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg ggggtagggtgggtatgtgggtgtgtgtcagtctctgtatatcttcccagcg------TTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATTCGCACAggtaagacctcagcttttcatggatcaaggcaaaggtctgatcagcttctt Alignment from Spaln_aa2Genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG gggtgggtatgtgggtgtggtcctgtgtcagtctctgtatatcttcccagCG------TTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATTCGCACAGgtaagacctcagcttttcatggatcaaggcaaaggtctgatcagcttctt Alignment from Spaln_nt2Genome CGTTC CAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG gGGTGGgtatgtgggtgtggtcctgtgtcagtctctgtatatcttcccagC-GTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATTCGCACAGgtaagacctcagcttttcatggatcaaggcaaaggtctgatcagcttctt Alignment from Pairagon CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG gggtgggtatgtgggtgtggtcctgtgtcagtctctgtatatcttcccagC------GTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATTCGCACAGgtaagacctcagcttttcatggatcaaggcaaaggtctgatcagcttctt Alignment from Exonerate_protein2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG gggtgggtatgtgggtgtggtcctgtgtcagtctctgtatatcttcccagCG------TTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATTCGCACAGgtaagacctcagcttttcatggatcaaggcaaaggtctgatcagcttctt Alignment from Exonerate_coding2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG gggtgggtatgtgggtgtggtcctgtgtcagtctctgtatatcttcccagCG------TTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATTCGCACAGgtaagacctcagcttttcatggatcaaggcaaaggtctgatcagcttctt Alignment from GeneWise --TTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAG gggtgggtatgtgggtgtggtcctgtgtcagtctctgtatatcttcccagCGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATTCGCACAGgtaagacctcagcttttcatggatcaaggcaaaggtctgatcagcttctt #### Rce1_ID576_6 --> 2 - 1 Original Alignment cc---CATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg gggctttgggggaggggacctgggtagatgtgccctcctttcttcctcagccGTGCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAggtaaggcctggagacgtacagagtcagtcaaggggtggggtgctctgatg Alignment from CESAR cc---CATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAg gggctttgggggaggggacctgggtagatgtgccctcctttcttcctcagccGTGCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAggtaaggcctggagacgtacagagtcagtcaaggggtggggtgctctgatg Alignment from Spaln_aa2Genome CC---CATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG gggctttgggggaggggacctgggtagatgtgccctcctttcttcctcagCCGTGCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAGgtaaggcctggagacgtacagagtcagtcaaggggtggggtgctctgatg Alignment from Spaln_nt2Genome CCCATTTTCAC---CACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG gggctttgggggaggggacctgggtagatgtgccctcctttcttcctcagCCGTGCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAGgtaaggcctggagacgtacagagtcagtcaaggggtggggtgctctgatg Alignment from Pairagon CC---CATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG gggctttgggggaggggacctgggtagatgtgccctcctttcttcctcagCCGTGCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAGgtaaggcctggagacgtacagagtcagtcaaggggtggggtgctctgatg Alignment from Exonerate_protein2genome TCGCCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG gggctttgggggaggggacctgggtagatgtgccctcctttcttcctcagCCGTGCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAGgtaaggcctggagacgtacagagtcagtcaaggggtggggtgctctgatg Alignment from Exonerate_coding2genome TCGCCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG gggctttgggggaggggacctgggtagatgtgccctcctttcttcctcagCCGTGCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAGgtaaggcctggagacgtacagagtcagtcaaggggtggggtgctctgatg Alignment from GeneWise --GCCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG gggctttgggggaggggacctgggtagatgtgccctcctttcttcctcagCCGTGCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAGgtaaggcctggagacgtacagagtcagtcaaggggtggggtgctctgatg #### Rce1_ID577_5 --> 2 - 1 Original Alignment ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg atgtttctagtaactgggcactcactgccttttttttttttccccttcagccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCGTGTACAGGTCTGGGTCCTGCTGTGTTCACCTGCCCACTTTTTTTT------ggtgagtcaatcgctcacctgtgcagcaatgatattcccagcatgaggacc Alignment from CESAR ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTCg atgtttctagtaactgggcactcactgccttttttttttttccccttcagccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCGTGTACAGGTCTGGGTCCTGCTGTGTTCACCTGCCCACTTTTTTTT------ggtgagtcaatcgctcacctgtgcagcaatgatattcccagcatgaggacc Alignment from Spaln_aa2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAG atgtttctagtaactgggcactcactgccttttttttttttccccttcagCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCGTGTACAGGTCTGGGTCCTGCTGTGTTCACCTGCCCACTTTTTTTT---Ggtgagtcaatcgctcacctgtgcagcaatgatattcccagcatgaggacc Alignment from Spaln_nt2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTG atgtttctagtaactgggcactcactgccttttttttttttccccttcagCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCGTGTACAGGTCTGGGTCCTGCTGTGTTCACCTGCCCACTTTTTTTTGgtgagtcaatcgctcacctgtgcagcaatgatattcccagcatgaggacc Alignment from Pairagon CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTG atgtttctagtaactgggcactcactgccttttttttttttccccttcagCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCGTGTACAGGTCTGGGTCCTGCTGTGTTCACCTGCCCACTTTTTTTTGgtgagtcaatcgctcacctgtgcagcaatgatattcccagcatgaggacc Alignment from Exonerate_protein2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGT atgtttctagtaactgggcactcactgccttttttttttttccccttcagCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCGTGTACAGGTCTGGGTCCTGCTGTGTTCACCTGCCCACTTTTTTTTGGTGAgtcaatcgctcacctgtgcagcaatgatattcccagcatgaggacc Alignment from Exonerate_coding2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGT atgtttctagtaactgggcactcactgccttttttttttttccccttcagCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCGTGTACAGGTCTGGGTCCTGCTGTGTTCACCTGCCCACTTTTTTTTGGTGAgtcaatcgctcacctgtgcagcaatgatattcccagcatgaggacc Alignment from GeneWise CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTG atgtttctagtaactgggcactcactgccttttttttttttccccttcagCCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCGTGTACAGGTCTGGGTCCTGCTGTGTTCACCTGCCCACTTTTTTTTGgtgagtcaatcgctcacctgtgcagcaatgatattcccagcatgaggacc #### Rce1_ID578_4 --> 0 - 1 Original Alignment ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGg actggattgtgataaaggtctttcattttccttttggttcttatgcctagATCCTTTTCCCAGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTAACAGATGGGCTGAAGGTTGTC---ggtaagttggcttgaagactggggaaaaggtaggcacaggcagcctagaac Alignment from CESAR ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGg actggattgtgataaaggtctttcattttccttttggttcttatgcctagATCCTTTTCCCAGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTAACAGATGGGCTGAAGGTTGTC---ggtaagttggcttgaagactggggaaaaggtaggcacaggcagcctagaac Alignment from Spaln_aa2Genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTC- actggattgtgataaaggtctttcattttccttttggttcttatgcctagATCCTTTTCCCAGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTAACAGATGGGCTGAAGGTTGTCGgtaagttggcttgaagactggggaaaaggtaggcacaggcagcctagaac Alignment from Spaln_nt2Genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGG actggattgtgataaaggtctttcattttccttttggttcttatgcctagATCCTTTTCCCAGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTAACAGATGGGCTGAAGGTTGTC---Ggtaagttggcttgaagactggggaaaaggtaggcacaggcagcctagaac Alignment from Pairagon ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGG actggattgtgataaaggtctttcattttccttttggttcttatgcctagATCCTTTTCCCAGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTAACAGATGGGCTGAAGGTTGTC---Ggtaagttggcttgaagactggggaaaaggtaggcacaggcagcctagaac Alignment from Exonerate_protein2genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGG actggattgtgataaaggtctttcattttccttttggttcttatgcctagATCCTTTTCCCAGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTAACAGATGGGCTGAAGGTTGTC---Ggtaagttggcttgaagactggggaaaaggtaggcacaggcagcctagaac Alignment from Exonerate_coding2genome ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCCTGG actggattgtgataaaggtctttcattttccttttggttcttatgcctagATCCTTTTCCCAGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTAACAGATGGGCTGAAGGTTGTC---Ggtaagttggcttgaagactggggaaaaggtaggcacaggcagcctagaac Alignment from GeneWise ATCCTTTTCCTGGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTGACAGATGGGCTGAAGGTTGTCC actggattgtgataaaggtctttcattttccttttggttcttatgcctagATCCTTTTCCCAGGTCCACTGATGCAGCTCTCTATGGATTGCCCTTGTGACCTAACAGATGGGCTGAAGGTTGTCGgtaagttggcttgaagactggggaaaaggtaggcacaggcagcctagaac #### Rce1_ID579_3 --> 0 - 0 Original Alignment CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgttggaggaaacataactgaccctctgattctgccttgccagCCTGGAACATCACTGCTCACCTTGATGGGCTTCAGGCTGGAGGGCATATTCCCAGCGGCACTGCTGCCCCTGCTGCTA------gtgagcgaagtccctgctttattttttcccaactctgttgtaactagtgt Alignment from CESAR CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgttggaggaaacataactgaccctctgattctgccttgccagCCTGGAACATCACTGCTCACCTTGATGGGCTTCAGGCTGGAGGGCATATTCCCAGCGGCACTGCTGCCCCTGCTGCTA------gtgagcgaagtccctgctttattttttcccaactctgttgtaac Alignment from Spaln_aa2Genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTA agaattttgttggaggaaacataactgaccctctgattctgccttgccagCCTGGAACATCACTGCTCACCTTGATGGGCTTCAGGCTGGAGGGCATATTCCCAGCGGCACTGCTGCCCCTGCTGCTAgtgagcgaagtccctgctttattttttcccaactctgttgtaactagtgt Alignment from Spaln_nt2Genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTA agaattttgttggaggaaacataactgaccctctgattctgccttgccagCCTGGAACATCACTGCTCACCTTGATGGGCTTCAGGCTGGAGGGCATATTCCCAGCGGCACTGCTGCCCCTGCTGCTAgtgagcgaagtccctgctttattttttcccaactctgttgtaactagtgt Alignment from Pairagon CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTA agaattttgttggaggaaacataactgaccctctgattctgccttgccagCCTGGAACATCACTGCTCACCTTGATGGGCTTCAGGCTGGAGGGCATATTCCCAGCGGCACTGCTGCCCCTGCTGCTAgtgagcgaagtccctgctttattttttcccaactctgttgtaactagtgt Alignment from Exonerate_protein2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgttggaggaaacataactgaccctctgattctgccttgccagCCTGGAACATCACTGCTCACCTTGATGGGCTTCAGGCTGGAGGGCATATTCCCAGCGGCACTGCTGCCCCTGCTGCTAGTGAGCgaagtccctgctttattttttcccaactctgttgtaactagtgt Alignment from Exonerate_coding2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgttggaggaaacataactgaccctctgattctgccttgccagCCTGGAACATCACTGCTCACCTTGATGGGCTTCAGGCTGGAGGGCATATTCCCAGCGGCACTGCTGCCCCTGCTGCTAGTGAGCgaagtccctgctttattttttcccaactctgttgtaactagtgt Alignment from GeneWise CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATGATC agaattttgttggaggaaacataactgaccctctgattctgccttgccagCCTGGAACATCACTGCTCACCTTGATGGGCTTCAGGCTGGAGGGCATATTCCCAGCGGCACTGCTGCCCCTGCTGCTAGTGAGCGAAgtccctgctttattttttcccaactctgttgtaactagtgt #### Rce1_ID580_2 --> 1 - 0 Original Alignment g------GACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG atcggtgtggttgctgcaggcctcccagccttgaccgcaccctgttgcaggCTCTCAGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTTGTAGTGTCCAGCTTGTCCCCTCTTTGTGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtagcaaggaggagggtggggcacagggcagcaaagggaagaatctagaa Alignment from CESAR g------GACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG atcggtgtggttgctgcaggcctcccagccttgaccgcaccctgttgcaggCTCTCAGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTTGTAGTGTCCAGCTTGTCCCCTCTTTGTGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtagcaaggaggagggtggggcacagggcagcaaagggaagaatctagaa Alignment from Spaln_aa2Genome GGACCACCCC------GCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG atcggtgtggttgctgcaggcctcccagccttgaccgcaccctgttgcagGCTCTCAGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTTGTAGTGTCCAGCTTGTCCCCTCTTTGTGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtagcaaggaggagggtggggcacagggcagcaaagggaagaatctagaa Alignment from Spaln_nt2Genome GGACCACCCC------GCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG atcggtgtggttgctgcaggcctcccagccttgaccgcaccctgttgcagGCTCTCAGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTTGTAGTGTCCAGCTTGTCCCCTCTTTGTGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtagcaaggaggagggtggggcacagggcagcaaagggaagaatctagaa Alignment from Pairagon GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG atcggtgtggttgctgcaggcctcccagccttgaccgcaccctgttgcaggctctcag--ACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTTGTAGTGTCCAGCTTGTCCCCTCTTTGTGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtagcaaggaggagggtggggcacagggcagcaaagggaagaatctagaa Alignment from Exonerate_protein2genome GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG atcggtgtggttgctgcaggcctcccagccttgaccgcaccctgttgcaggctctcAGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTTGTAGTGTCCAGCTTGTCCCCTCTTTGTGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtagcaaggaggagggtggggcacagggcagcaaagggaagaatctagaa Alignment from Exonerate_coding2genome GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG atcggtgtggttgctgcaggcctcccagccttgaccgcaccctgttgcaggctctcAGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTTGTAGTGTCCAGCTTGTCCCCTCTTTGTGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtagcaaggaggagggtggggcacagggcagcaaagggaagaatctagaa Alignment from GeneWise ----AGGGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG atcggtgtggttgctgcaggcctcccagccttgaccgcaccctgttgcagGCTCTCAGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTTGTAGTGTCCAGCTTGTCCCCTCTTTGTGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtagcaaggaggagggtggggcacagggcagcaaagggaagaatctagaa #### Rcor2_ID2093_4 --> 0 - 0 Original Alignment ---GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG cagtgtagtgctgccatggcaaaacctggacttactttttctgcctttagGGCGCACTCGGCATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTAGCCAATTTCACTCCCTTCCCAGATGAGTGGACAGTAGAGGACAAGGTGCTGTTTGAGCAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGgtaagtctatgcttggggcccctcgaatgctcctcagccctttagtccca Alignment from CESAR ---GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG cagtgtagtgctgccatggcaaaacctggacttactttttctgcctttagGGCGCACTCGGCATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTAGCCAATTTCACTCCCTTCCCAGATGAGTGGACAGTAGAGGACAAGGTGCTGTTTGAGCAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGgtaagtctatgcttggggcccctcgaatgctcctcagccctttagtccca Alignment from Spaln_aa2Genome GCACTCGGCATG---CTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG cagtgtagtgctgccatggcaaaacctggacttactttttctgcctttagGGCGCACTCGGCATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTAGCCAATTTCACTCCCTTCCCAGATGAGTGGACAGTAGAGGACAAGGTGCTGTTTGAGCAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGgtaagtctatgcttggggcccctcgaatgctcctcagccctttagtccca Alignment from Spaln_nt2Genome GCACTCGGCA---TGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG cagtgtagtgctgccatggcaaaacctggacttactttttctgcctttagGGCGCACTCGGCATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTAGCCAATTTCACTCCCTTCCCAGATGAGTGGACAGTAGAGGACAAGGTGCTGTTTGAGCAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGgtaagtctatgcttggggcccctcgaatgctcctcagccctttagtccca Alignment from Pairagon ---GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG cagtgtagtgctgccatggcaaaacctggacttactttttctgcctttagGGCGCACTCGGCATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTAGCCAATTTCACTCCCTTCCCAGATGAGTGGACAGTAGAGGACAAGGTGCTGTTTGAGCAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGgtaagtctatgcttggggcccctcgaatgctcctcagccctttagtccca Alignment from Exonerate_protein2genome ---GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG cagtgtagtgctgccatggcaaaacctggacttactttttctgcctttagGGCGCACTCGGCATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTAGCCAATTTCACTCCCTTCCCAGATGAGTGGACAGTAGAGGACAAGGTGCTGTTTGAGCAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGgtaagtctatgcttggggcccctcgaatgctcctcagccctttagtccca Alignment from Exonerate_coding2genome ---GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG cagtgtagtgctgccatggcaaaacctggacttactttttctgcctttagGGCGCACTCGGCATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTAGCCAATTTCACTCCCTTCCCAGATGAGTGGACAGTAGAGGACAAGGTGCTGTTTGAGCAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGgtaagtctatgcttggggcccctcgaatgctcctcagccctttagtccca Alignment from GeneWise ---GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG cagtgtagtgctgccatggcaaaacctggacttactttttctgcctttagGGCGCACTCGGCATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTAGCCAATTTCACTCCCTTCCCAGATGAGTGGACAGTAGAGGACAAGGTGCTGTTTGAGCAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGgtaagtctatgcttggggcccctcgaatgctcctcagccctttagtccca #### Rcor2_ID2099_10 --> 2 - 0 Original Alignment ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG ccacacaagctaattcttacagtctgattctgtcttcttcccttctctagct---------------------------------GCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGATGATGAGgtatttggcagggataagttccagggaggaggtgagtctctatggaacag Alignment from CESAR ctATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG cagctcagaggtatatttacagtctgattctgtcttcttcccttctctagct---------------------------------GCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGATGATGAGgtatttggcagggataagttccagggaggaggtgagtctctatggaacag Alignment from Spaln_aa2Genome TTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG ccacacaagctaattcttacagtctgattctgtcttcttcccttctctagCTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGATGATGAGgtatttggcagggataagttccagggaggaggtgagtctctatggaacag Alignment from Spaln_nt2Genome CTA-TTCGTAGATACGGCAAA-GACTTTGGGGCTATT------GCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG ccacacaagCTAATTCTTACAGTCTGATTCTGTCTTCTTCCCTTCTCTAGCTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGATGATGAGgtatttggcagggataagttccagggaggaggtgagtctctatggaacag Alignment from Pairagon CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG ccacacaagctaattcttacagtctgattctgtcttcttcccttctctagC---------------------------------TGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGATGATGAGgtatttggcagggataagttccagggaggaggtgagtctctatggaacag Alignment from Exonerate_protein2genome TTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG ccacacaagctaattcttacagtctgattctgtcttcttcccttctctagCTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGATGATGAGgtatttggcagggataagttccagggaggaggtgagtctctatggaacag Alignment from Exonerate_coding2genome TTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG ccacacaagctaattcttacagtctgattctgtcttcttcccttctctagCTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGATGATGAGgtatttggcagggataagttccagggaggaggtgagtctctatggaacag Alignment from GeneWise TTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG ccacacaagctaattcttacagtctgattctgtcttcttcccttctctagCTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCACAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTATCAGCCACAGCCCTAGAAGAAGATGATGAGgtatttggcagggataagttccagggaggaggtgagtctctatggaacag #### Rela_ID1126_3 --> 2 - 0 Original Alignment agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gatttggggctgcaagaagagcacctgaacactatgaatttatctttcagagCCAGCCCAGGCTTCTGGGCCTTACGTGGAGATCATCGAACAGCCAAAGCAACGGGGCATGCGATTCCGCTATAAATCCGAGGGGCGCTCAGCAGGCAGTATTCCTGGTGAGAGAAGCACAGATACCACAAAGACA---------------gtgagtaagggccccgcaatagtacgtctgcaggggtgttgtgtggtgga Alignment from CESAR agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gatttggggctgcaagaagagcacctgaacactatgaatttatctttcagagCCAGCCCAGGCTTCTGGGCCTTACGTGGAGATCATCGAACAGCCAAAGCAACGGGGCATGCGATTCCGCTATAAATCCGAGGGGCGCTCAGCAGGCAGTATTCCTGGTGAGAGAAGCACAGATACCACAAAGACA---------------gtgagtaagggccccgcaatagtacgtctgcaggg Alignment from Spaln_aa2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gatttggggctgcaagaagagcacctgaacactatgaatttatctttcagAGCCAGCCCAGGCTTCTGGGCCTTACGTGGAGATCATCGAACAGCCAAAGCAACGGGGCATGCGATTCCGCTATAAATCCGAGGGGCGCTCAGCAGGCAGTATTCCTGGTGAGAGAAGCACAGATACCACAAAGACAGTGAGTAAGGGCCCCgcaatagtacgtctgcaggggtgttgtgtggtgga Alignment from Spaln_nt2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACA gatttggggctgcaagaagagcacctgaacactatgaatttatctttcagAGCCAGCCCAGGCTTCTGGGCCTTACGTGGAGATCATCGAACAGCCAAAGCAACGGGGCATGCGATTCCGCTATAAATCCGAGGGGCGCTCAGCAGGCAGTATTCCTGGTGAGAGAAGCACAGATACCACAAAGACAgtgagtaagggccccgcaatagtacgtctgcaggggtgttgtgtggtgga Alignment from Pairagon AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACA gatttggggctgcaagaagagcacctgaacactatgaatttatctttcagAGCCAGCCCAGGCTTCTGGGCCTTACGTGGAGATCATCGAACAGCCAAAGCAACGGGGCATGCGATTCCGCTATAAATCCGAGGGGCGCTCAGCAGGCAGTATTCCTGGTGAGAGAAGCACAGATACCACAAAGACAgtgagtaagggccccgcaatagtacgtctgcaggggtgttgtgtggtgga Alignment from Exonerate_protein2genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gatttggggctgcaagaagagcacctgaacactatgaatttatctttcagAGCCAGCCCAGGCTTCTGGGCCTTACGTGGAGATCATCGAACAGCCAAAGCAACGGGGCATGCGATTCCGCTATAAATCCGAGGGGCGCTCAGCAGGCAGTATTCCTGGTGAGAGAAGCACAGATACCACAAAGACAGTGAGTAAGGGCCCCgcaatagtacgtctgcaggggtgttgtgtggtgga Alignment from Exonerate_coding2genome ATCTTTCCCTCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG gatttggggctgcaagaagagcacctgaacactatgaATTTATCTTTCAGAGCCAGCCCAGGCTTCTGGGCCTTACGTGGAGATCATCGAACAGCCAAAGCAACGGGGCATGCGATTCCGCTATAAATCCGAGGGGCGCTCAGCAGGCAGTATTCCTGGTGAGAGAAGCACAGATACCACAAAGACAGTGAGTAAGGGCCCCgcaatagtacgtctgcaggggtgttgtgtggtgga Alignment from GeneWise GACGATCTGTTTCCCCTCATCTTTCCCTCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACA---CACCCCACCATCAAGATC gagcacctgaacactatga------------------ATTTATCTTTCAGAGCCAGCCCAGGCTTCTGGGCCTTACGTGGAGATCATCGAACAGCCAAAGCAACGGGGCATGCGATTCCGCTATAAATCCGAGGGGCGCTCAGCAGGCAGTATTCCTGGTGAGAGAAGCACAGATACCACAAAGACAGTGAGTAAGGGCCCCGCAATAgtacgtctgcaggggtgttgtgtggtgga #### Rela_ID1127_4 --> 0 - 2 Original Alignment ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATag gagccagattagggaatgctggccactatctcccgatctcccccgcgcagATCAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATC---aggtatctggctacctatgggctgggggtggtgtcaggggggtgtaggagta Alignment from CESAR ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATag gagccagattagggaatgctggccactatctcccgatctcccccgcgcagATCAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATC---aggtatctggctacctatgggctgggggtggtgtcaggggggtgtaggagta Alignment from Spaln_aa2Genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCA gagccagattagggaatgctggccactatctcccgatctcccccgcgcagATCAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCAGgtatctggctacctatgggctgggggtggtgtcaggggggtgtaggagta Alignment from Spaln_nt2Genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattagggaatgctggccactatctcccgatctcccccgcgcagATCAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATC---AGgtatctggctacctatgggctgggggtggtgtcaggggggtgtaggagta Alignment from Pairagon ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattagggaatgctggccactatctcccgatctcccccgcgcagATCAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATC---AGgtatctggctacctatgggctgggggtggtgtcaggggggtgtaggagta Alignment from Exonerate_protein2genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattagggaatgctggccactatctcccgatctcccccgcgcagATCAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATC---AGgtatctggctacctatgggctgggggtggtgtcaggggggtgtaggagta Alignment from Exonerate_coding2genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattagggaatgctggccactatctcccgatctcccccgcgcagATCAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATC---AGgtatctggctacctatgggctgggggtggtgtcaggggggtgtaggagta Alignment from GeneWise ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCA gagccagattagggaatgctggccactatctcccgatctcccccgcgcagATCAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCAGgtatctggctacctatgggctgggggtggtgtcaggggggtgtaggagta #### Rela_ID1130_7 --> 2 - 1 Original Alignment ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------g ggcgggtgttagagctcctgcagggtactcactccgttttcctcctccagggGCCCCCAACACCGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTCGGTGGGGATGAGATCTTCTTGCTGTGTGACAAGGTACAGAAACGGGATggtaggtactggactctgcatggagaggggaggggtgaggctgagtggagg Alignment from CESAR ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------g ggcgggtgttagagctcctgcagggtactcactccgttttcctcctccagggGCCCCCAACACCGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTCGGTGGGGATGAGATCTTCTTGCTGTGTGACAAGGTACAGAAACGGGATggtaggtactggactctgcatggagaggggaggggtgaggctgagtggagg Alignment from Spaln_aa2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------G ggcgggtgttagagctcctgcagggtactcactccgttttcctcctccagGGGCCCCCAACACCGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTCGGTGGGGATGAGATCTTCTTGCTGTGTGACAAGGTACAGAAACGGGATGgtaggtactggactctgcatggagaggggaggggtgaggctgagtggagg Alignment from Spaln_nt2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAG ggcgggtgttagagctcctgcagggtactcactccgttttcctcctccagGGGCCCCCAACACCGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTCGGTGGGGATGAGATCTTCTTGCTGTGTGACAAGgtacagaaacgggatggtaggtactggactctgcatggagaggggaggggtgaggctgagtggagg Alignment from Pairagon GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA------G ggcgggtgttagagctcctgcagggtactcactccgttttcctcctccagGGGCCCCCAACACCGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTCGGTGGGGATGAGATCTTCTTGCTGTGTGACAAGGTACAGAAACGGGATGgtaggtactggactctgcatggagaggggaggggtgaggctgagtggagg Alignment from Exonerate_protein2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggcgggtgttagagctcctgcagggtactcactccgttttcctcctccagGGGCCCCCAACACCGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTCGGTGGGGATGAGATCTTCTTGCTGTGTGACAAGGTACAGAAACgggatggtaggtactggactctgcatggagaggggaggggtgaggctgagtggagg Alignment from Exonerate_coding2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggcgggtgttagagctcctgcagggtactcactccgttttcctcctccagGGGCCCCCAACACCGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTCGGTGGGGATGAGATCTTCTTGCTGTGTGACAAGGTACAGAAACgggatggtaggtactggactctgcatggagaggggaggggtgaggctgagtggagg Alignment from GeneWise GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAGAAGAC- ggcgggtgttagagctcctgcagggtactcactccgttttcctcctccagGGGCCCCCAACACCGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTCGGTGGGGATGAGATCTTCTTGCTGTGTGACAAGGTACAGAAACGGGATGgtaggtactggactctgcatggagaggggaggggtgaggctgagtggagg #### Rin1_ID807_2 --> 1 - 0 Original Alignment g---CCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gcccaggatgggaagacgtgttcaccccatacttttttttccttaaaaaggGATCCATCTACAGACCCACTGTATGACACACCTGATACGAGAGGGGTACAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCAGGGgtaaggctctccatttcctcaaggcctagcccgccaaggatgggagggaa Alignment from CESAR g---CCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gcccaggatgggaagacgtgttcaccccatacttttttttccttaaaaaggGATCCATCTACAGACCCACTGTATGACACACCTGATACGAGAGGGGTACAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCAGGGgtaaggctctccatttcctcaaggcctagcccgccaaggatgggagggaa Alignment from Spaln_aa2Genome GCCATCTACAGAC---CCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gcccaggatgggaagacgtgttcaccccatacttttttttccttaaaaagGGATCCATCTACAGACCCACTGTATGACACACCTGATACGAGAGGGGTACAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCAGGGgtaaggctctccatttcctcaaggcctagcccgccaaggatgggagggaa Alignment from Spaln_nt2Genome GCCATCTACA---GACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gcccaggatgggaagacgtgttcaccccatacttttttttccttaaaaagGGATCCATCTACAGACCCACTGTATGACACACCTGATACGAGAGGGGTACAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCAGGGgtaaggctctccatttcctcaaggcctagcccgccaaggatgggagggaa Alignment from Pairagon ------------------------------------------------------CCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG GCCCAGGATGGGAAGACGTGTTCACCCCATACTTTTTTTTCCTTAAAAAGGGATCCATCTACAGACCCACTGTATGACACACCTGATACGAGAGGGGTACAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCAGGGgtaaggctctccatttcctcaaggcctagcccgccaaggatgggagggaa Alignment from Exonerate_protein2genome G---CCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gcccaggatgggaagacgtgttcaccccatacttttttttccttaaaaagGGATCCATCTACAGACCCACTGTATGACACACCTGATACGAGAGGGGTACAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCAGGGgtaaggctctccatttcctcaaggcctagcccgccaaggatgggagggaa Alignment from Exonerate_coding2genome G---CCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gcccaggatgggaagacgtgttcaccccatacttttttttccttaaaaagGGATCCATCTACAGACCCACTGTATGACACACCTGATACGAGAGGGGTACAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCAGGGgtaaggctctccatttcctcaaggcctagcccgccaaggatgggagggaa Alignment from GeneWise -AAGCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gcccaggatgggaagacgtgttcaccccatacttttttttccttaaaaagGGATCCATCTACAGACCCACTGTATGACACACCTGATACGAGAGGGGTACAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCAGGGgtaaggctctccatttcctcaaggcctagcccgccaaggatgggagggaa #### Rin1_ID808_3 --> 0 - 1 Original Alignment ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg acatggctggacatggaggaccagagccccattcttcctgtacactctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAA------------ggtgaggagggtacgaattccatacgcctggagggtaggggcacaaagaca Alignment from CESAR ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg acatggctggacatggaggaccagagccccattcttcctgtacactctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAA------------ggtgaggagggtacgaattccatacgcctggagggtaggggcacaaagaca Alignment from Spaln_aa2Genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG acatggctggacatggaggaccagagccccattcttcctgtacactctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATT---GAAGGTGAGGAGGgtacgaattccatacgcctggagggtaggggcacaaagaca Alignment from Spaln_nt2Genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG acatggctggacatggaggaccagagccccattcttcctgtacactctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAG---GTGAGGAGGgtacgaattccatacgcctggagggtaggggcacaaag Alignment from Pairagon ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAG acatggctggacatggaggaccagagccccattcttcctgtacactctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGgtgaggagggtacgaattccatacgcctggagggtaggggcacaaagaca Alignment from Exonerate_protein2genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTG acatggctggacatggaggaccagagccccattcttcctgtacactctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGGTGAGGAGGgtacgaattccatacgcctggagggtaggggcacaaagaca Alignment from Exonerate_coding2genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTG acatggctggacatggaggaccagagccccattcttcctgtacactctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGGTGAGGAGGgtacgaattccatacgcctggagggtaggggcacaaagaca Alignment from GeneWise ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTG acatggctggacatggaggaccagagccccattcttcctgtacactctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGGTGAGGAGGgtacgaattccatacgcctggagggtaggggcacaaagaca #### Rin1_ID809_4 --> 2 - 2 Original Alignment gtGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag gcacatgagggaggtcctcagagaacagtcttgcctttttgtctggataggtGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTGGTACAGCTCATC------TATTGT------aggtaggttcacctctgcctggggggcacctgctgagctctcaaccccactc Alignment from CESAR gtGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag gcacatgagggaggtcctcagagaacagtcttgcctttttgtctggataggtGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTGGTACAGCTCATC------TATTGT------aggtaggttcacctctgcctggggggcacctgctgagctctcaaccccactc Alignment from Spaln_aa2Genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCG gcacatgagggaggtcctcagagaacagtcttgcctttttgtctggatagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTGGTACAGCTCATC------TATTGTAGgtaggttcacctctgcctggggggcacctgctgagctctcaaccccactc Alignment from Spaln_nt2Genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGT- gcacatgagggaggtcctcagagaacagtcttgcctttttgtctggatagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTGGTACAGCTCATCTATTgtaggtaggttcacctctgcctggggggcacctgctgagctctcaaccccactc Alignment from Pairagon GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTG gcacatgagggaggtcctcagagaacagtcttgcctttttgtctggatagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTGGTACAGCTCATCTATTgtaggtaggttcacctctgcctggggggcacctgctgagctctcaaccccactc Alignment from Exonerate_protein2genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCG gcacatgagggaggtcctcagagaacagtcttgcctttttgtctggatagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTGGTACAGCTCATC------TATTGTAGgtaggttcacctctgcctggggggcacctgctgagctctcaaccccactc Alignment from Exonerate_coding2genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCG gcacatgagggaggtcctcagagaacagtcttgcctttttgtctggatagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTGGTACAGCTCATC------TATTGTAGgtaggttcacctctgcctggggggcacctgctgagctctcaaccccactc Alignment from GeneWise GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATC---TGT-- gcacatgagggaggtcctcagagaacagtcttgcctttttgtctggatagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTGGTACAGCTCATCTATTGTAGgtaggttcacctctgcctggggggcacctgctgagctctcaaccccactc #### Rin1_ID810_5 --> 1 - 1 Original Alignment a---------------------------GCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg tccttgctcatccttagggatgctcttctactacgtgcatgtccccacagaCCACCTCCGGCTATCTTCAATGAGATCGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCTATCTCCCATCTGGGCATGggtatgagtaccctgcagcctgttacatagatggacacacagaggttaaat Alignment from CESAR tcagacatagttctggtgtgcaaagaagggatatgactgctgttcttcagg Alignment from Spaln_aa2Genome ---GCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATG tccttgctcatccttagggatgctcttctactacgtgcatgtccccacagaccacctccggctatcttcaatgagATCGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCTATCTCCCATCTGGGCATGGgtatgagtaccctgcagcctgttacatagatggacacacagaggttaaat Alignment from Spaln_nt2Genome A--GCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggatgctcttctactacgtgcatgtccccacagaccacctccggctatcttcaatgagATCGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCTATCTCCCATCTGGGCATGGgtatgagtaccctgcagcctgttacatagatggacacacagaggttaaat Alignment from Pairagon A---------------------------GCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggatgctcttctactacgtgcatgtccccacagACCACCTCCGGCTATCTTCAATGAGATCGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCTATCTCCCATCTGGGCATGGgtatgagtaccctgcagcctgttacatagatggacacacagaggttaaat Alignment from Exonerate_protein2genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggatgctcttctactacgtgcatgtccccacagaccacctccggctatcttcaatgagatCGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCTATCTCCCATCTGGGCATGGgtatgagtaccctgcagcctgttacatagatggacacacagaggttaaat Alignment from Exonerate_coding2genome AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggatgctcttctactacgtgcatgtccccacagaccacctccggctatcttcaatgagatCGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCTATCTCCCATCTGGGCATGGgtatgagtaccctgcagcctgttacatagatggacacacagaggttaaat Alignment from GeneWise -------------------------AGAGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggatgctcttctactacgtgcatgtccccacagACCACCTCCGGCTATCTTCAATGAGATCGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCTATCTCCCATCTGGGCATGGgtatgagtaccctgcagcctgttacatagatggacacacagaggttaaat #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCA---------g gtacggatccgtataaactcccctgactctcctgtctgtcccgcccacagaaTTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCGCCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAATTAAGGATggtgtgtcccccaccaccttcccctgtgccactgttttggagtagaaacca Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCA---------g gtacggatccgtataaactcccctgactctcctgtctgtcccgcccacagaaTTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCGCCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAATTAAGGATggtgtgtcccccaccaccttcccctgtgccactgttttggagtagaaacca Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCA---------G gtacggatccgtataaactcccctgactctcctgtctgtcccgcccacagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCGCCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAATTAAGGATGgtgtgtcccccaccaccttcccctgtgccactgttttggagtagaaacca Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCA---------G gtacggatccgtataaactcccctgactctcctgtctgtcccgcccacagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCGCCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAATTAAGGATGgtgtgtcccccaccaccttcccctgtgccactgttttggagtagaaacca Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCA---------G gtacggatccgtataaactcccctgactctcctgtctgtcccgcccacagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCGCCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAATTAAGGATGgtgtgtcccccaccaccttcccctgtgccactgttttggagtagaaacca Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gtacggatccgtataaactcccctgactctcctgtctgtcccgcccacagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCGCCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAAttaaggatggtgtgtcccccaccaccttcccctgtgccactgttttggagtagaaacca Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gtacggatccgtataaactcccctgactctcctgtctgtcccgcccacagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCGCCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAAttaaggatggtgtgtcccccaccaccttcccctgtgccactgttttggagtagaaacca Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCA---------G gtacggatccgtataaactcccctgactctcctgtctgtcccgcccacagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCGCCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAATTAAGGATGgtgtgtcccccaccaccttcccctgtgccactgttttggagtagaaacca #### Rin1_ID813_8 --> 2 - 1 Original Alignment gaGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGg ccttcagacctctgaggaggctggactcggttatttatatcttaccccaggaGAAAATGCAGGAGCTGATGAGTTCCTGCCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT------ggtaaggtggctagttccctcatttcttgtctgggtgaaattggggcttgt Alignment from CESAR gaGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGg ccttcagacctctgaggaggctggactcggttatttatatcttaccccaggaGAAAATGCAGGAGCTGATGAGTTCCTGCCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACT------ggtaaggtggctagttccctcatttcttgtctgggtgaaattggggcttgt Alignment from Spaln_aa2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTG ccttcagacctctgaggaggctggactcggttatttatatcttaccccagGAGAAAATGCAGGAGCTGATGAGTTCCTGCCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGgtaaggtggctagttccctcatttcttgtctgggtgaaattggggcttgt Alignment from Spaln_nt2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAG ccttcagacctctgaggaggctggactcggttatttatatcttaccccagGAGAAAATGCAGGAGCTGATGAGTTCCTGCCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGTAAGgtggctagttccctcatttcttgtctgggtgaaattggggcttgt Alignment from Pairagon GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTG ccttcagacctctgaggaggctggactcggttatttatatcttaccccagGAGAAAATGCAGGAGCTGATGAGTTCCTGCCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGgtaaggtggctagttccctcatttcttgtctgggtgaaattggggcttgt Alignment from Exonerate_protein2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAG ccttcagacctctgaggaggctggactcggttatttatatcttaccccagGAGAAAATGCAGGAGCTGATGAGTTCCTGCCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGTAAGgtggctagttccctcatttcttgtctgggtgaaattggggcttgt Alignment from Exonerate_coding2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAG ccttcagacctctgaggaggctggactcggttatttatatcttaccccagGAGAAAATGCAGGAGCTGATGAGTTCCTGCCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGTAAGgtggctagttccctcatttcttgtctgggtgaaattggggcttgt Alignment from GeneWise GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAG------G ccttcagacctctgaggaggctggactcggttatttatatcttaccccagGAGAAAATGCAGGAGCTGATGAGTTCCTGCCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGTAAGGTGGCTAgttccctcatttcttgtctgggtgaaattggggcttgt #### Rnaseh2c_ID1103_2 --> 2 - 0 Original Alignment ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC------ gggctttgtggcctgtggcagatgccaccactgggatctttaatatatagggCTACAGGCGGCATTTCGTGGTCGCGGCCTGCGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGAGAAGGGAAAAGGGTTGATAGGGAAATTGAACTTCTCTGGGGACGCGGAGGACAAAACAGATGAGGCACAGGAGCCGTTGGAGCGGGACTTCTCCCTAgtaagtatagggagatggtaagttttgggtgagggcagtagctgctgtcc Alignment from CESAR ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC------ gggctttgtggcctgtggcagatgccaccactgggatctttaatatatagggCTACAGGCGGCATTTCGTGGTCGCGGCCTGCGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGAGAAGGGAAAAGGGTTGATAGGGAAATTGAACTTCTCTGGGGACGCGGAGGACAAAACAGATGAGGCACAGGAGCCGTTGGAGCGGGACTTCTCCCTAgtaagtatagggagatggtaagttttgggtgagggcagtagctgctgtcc Alignment from Spaln_aa2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC------ gggctttgtggcctgtggcagatgccaccactgggatctttaatatatagGGCTACAGGCGGCATTTCGTGGTCGCGGCCTGCGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGAGAAGGGAAAAGGGTTGATAGGGAAATTGAACTTCTCTGGGGACGCGGAGGACAAAACAGATGAGGCACAGGAGCCGTTGGAGCGGGACTTCTCCCTAgtaagtatagggagatggtaagttttgggtgagggcagtagctgctgtcc Alignment from Spaln_nt2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC------ gggctttgtggcctgtggcagatgccaccactgggatctttaatatatagGGCTACAGGCGGCATTTCGTGGTCGCGGCCTGCGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGAGAAGGGAAAAGGGTTGATAGGGAAATTGAACTTCTCTGGGGACGCGGAGGACAAAACAGATGAGGCACAGGAGCCGTTGGAGCGGGACTTCTCCCTAgtaagtatagggagatggtaagttttgggtgagggcagtagctgctgtcc Alignment from Pairagon GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC------ gggctttgtggcctgtggcagatgccaccactgggatctttaatatatagGGCTACAGGCGGCATTTCGTGGTCGCGGCCTGCGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGAGAAGGGAAAAGGGTTGATAGGGAAATTGAACTTCTCTGGGGACGCGGAGGACAAAACAGATGAGGCACAGGAGCCGTTGGAGCGGGACTTCTCCCTAgtaagtatagggagatggtaagttttgggtgagggcagtagctgctgtcc Alignment from Exonerate_protein2genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC------ gggctttgtggcctgtggcagatgccaccactgggatctttaatatatagGGCTACAGGCGGCATTTCGTGGTCGCGGCCTGCGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGAGAAGGGAAAAGGGTTGATAGGGAAATTGAACTTCTCTGGGGACGCGGAGGACAAAACAGATGAGGCACAGGAGCCGTTGGAGCGGGACTTCTCCCTAgtaagtatagggagatggtaagttttgggtgagggcagtagctgctgtcc Alignment from Exonerate_coding2genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC------ gggctttgtggcctgtggcagatgccaccactgggatctttaatatatagGGCTACAGGCGGCATTTCGTGGTCGCGGCCTGCGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGAGAAGGGAAAAGGGTTGATAGGGAAATTGAACTTCTCTGGGGACGCGGAGGACAAAACAGATGAGGCACAGGAGCCGTTGGAGCGGGACTTCTCCCTAgtaagtatagggagatggtaagttttgggtgagggcagtagctgctgtcc Alignment from GeneWise GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC------ gggctttgtggcctgtggcagatgccaccactgggatctttaatatatagGGCTACAGGCGGCATTTCGTGGTCGCGGCCTGCGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGAGAAGGGAAAAGGGTTGATAGGGAAATTGAACTTCTCTGGGGACGCGGAGGACAAAACAGATGAGGCACAGGAGCCGTTGGAGCGGGACTTCTCCCTAgtaagtatagggagatggtaagttttgggtgagggcagtagctgctgtcc #### Rom1_ID2497_2 --> 1 - 0 Original Alignment c---------------CGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ctgctctcacatcactgcacctcatgaccttctttctccttgtcccttagcTTTTTAAATGGCTGTCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGCTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGgtaagttgctaagggccctaactcctactttcagctttgtgaccttaaac Alignment from CESAR c---------------CGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ctgctctcacatcactgcacctcatgaccttctttctccttgtcccttagcTTTTTAAATGGCTGTCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGCTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGgtaagttgctaagggccctaactcctactttcagctttgtgaccttaaac Alignment from Spaln_aa2Genome CCGGATCCAGAGC---------------AATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ctgctctcacatcactgcacctcatgaccttctttctccttgtcccttagCTTTTTAAATGGCTGTCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGCTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGgtaagttgctaagggccctaactcctactttcagctttgtgaccttaaac Alignment from Spaln_nt2Genome GTAGTTGACCGGATCCAG-------AGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ctgctctcacatcactgcacctcatgaccttctttctccttgtcccttagCTTTTTAAATGGCTGTCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGCTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCT---TCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGgtaagttgctaagggccctaactcctactttcagctttgtgaccttaaac Alignment from Pairagon C---------------CGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ctgctctcacatcactgcacctcatgaccttctttctccttgtcccttagCTTTTTAAATGGCTGTCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGCTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCT---TCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGgtaagttgctaagggccctaactcctactttcagctttgtgaccttaaac Alignment from Exonerate_protein2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ctgctctcacatcactgcacctcatgaccttctttctccttgtcccttagctttttaaatggctgTCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGCTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGgtaagttgctaagggccctaactcctactttcagctttgtgaccttaaac Alignment from Exonerate_coding2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ctgctctcacatcactgcacctcatgaccttctttctccttgtcccttagctttttaaatggctgTCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGCTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGgtaagttgctaagggccctaactcctactttcagctttgtgaccttaaac Alignment from GeneWise -------------GACCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ctgctctcacatcactgcacctcatgaccttctttctccttgtcccttagCTTTTTAAATGGCTGTCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGCTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAGgtaagttgctaagggccctaactcctactttcagctttgtgaccttaaac #### Rpp30_ID7088_8 --> 0 - 0 Original Alignment ---------AATGTAATTCTGTCCAGTGCTGCAGAAAGG tatgttattgatcatctaagatttatatatggtctctctggggtttgcagTTGCTGTATAATGTAATTCTGTCCAGTACTGCAGAAAGGgtcagtatagctggaatactatgtcccagcagttacagagcttgactaca Alignment from CESAR ---------AATGTAATTCTGTCCAGTGCTGCAGAAAGG tatgttattgatcatctaagatttatatatggtctctctggggtttgcagTTGCTGTATAATGTAATTCTGTCCAGTACTGCAGAAAGGgtcagtatagctggaatactatgtcccagcagttacagagcttgactaca Alignment from Spaln_aa2Genome -------AATGTAATTCTGTCCAGTGCTGCAGAAAGG tatgttattgatcatctaagatttatatatggtctctctggggtttgcagTTGCTGTATAATGTAATTCTGTCCAGTACTGCAGAAAGGgtcagtatagctggaatactatgtcccagcagttacagagcttgactaca Alignment from Spaln_nt2Genome AATGTAATT---------CTGTCCAGTGCTGCAGAAAGG tatgttattgatcatctaagatttatatatggtctctctggggtttgcagTTGCTGTATAATGTAATTCTGTCCAGTACTGCAGAAAGGgtcagtatagctggaatactatgtcccagcagttacagagcttgactaca Alignment from Pairagon ---------AATGTAATTCTGTCCAGTGCTGCAGAAAGG tatgttattgatcatctaagatttatatatggtctctctggggtttgcagTTGCTGTATAATGTAATTCTGTCCAGTACTGCAGAAAGGgtcagtatagctggaatactatgtcccagcagttacagagcttgactaca Alignment from Exonerate_protein2genome AATGTAATTCTGTCCAGTGCTGCAGAAAGG tatgttattgatcatctaagatttatatatggtctctctggggtttgcagttgctgtatAATGTAATTCTGTCCAGTACTGCAGAAAGGgtcagtatagctggaatactatgtcccagcagttacagagcttgactaca Alignment from Exonerate_coding2genome AATGTAATTCTGTCCAGTGCTGCAGAAAGG tatgttattgatcatctaagatttatatatggtctctctggggtttgcagttgctgtatAATGTAATTCTGTCCAGTACTGCAGAAAGGgtcagtatagctggaatactatgtcccagcagttacagagcttgactaca Alignment from GeneWise tatgttattgatcatctaagatttatatatggtctctctggggtttgcagttgctgtataatgtaattctgtccagtactgcagaaagggtcagtatagctggaatactatgtcccagcagttacagagcttgactaca #### Rps6ka4_ID1804_16 --> 2 - 0 Original Alignment gg---------CTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG tcagagtcagattgagtcttttttccagctgacatcctggcttccctcagggTGCCCCTTTCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCACGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACTTTCATGgtaggaggagggctgctggtaggcggaacctgcctttgatgaggtagggg Alignment from CESAR gg---------CTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG tcagagtcagattgagtcttttttccagctgacatcctggcttccctcagggTGCCCCTTTCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCACGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACTTTCATGgtaggaggagggctgctggtaggcggaacctgcctttgatgaggtagggg Alignment from Spaln_aa2Genome GGCTACTGACAGTC---------GACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG tcagagtcagattgagtcttttttccagctgacatcctggcttccctcagGGTGCCCCTTTCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCACGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACTTTCATGgtaggaggagggctgctggtaggcggaacctgcctttgatgaggtagggg Alignment from Spaln_nt2Genome GGCTACTGACA---------GTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG tcagagtcagattgagtcttttttccagctgacatcctggcttccctcagGGTGCCCCTTTCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCACGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACTTTCATGgtaggaggagggctgctggtaggcggaacctgcctttgatgaggtagggg Alignment from Pairagon GG---------CTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG tcagagtcagattgagtcttttttccagctgacatcctggcttccctcagGGTGCCCCTTTCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCACGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACTTTCATGgtaggaggagggctgctggtaggcggaacctgcctttgatgaggtagggg Alignment from Exonerate_protein2genome GG---------CTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG tcagagtcagattgagtcttttttccagctgacatcctggcttccctcagGGTGCCCCTTTCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCACGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACTTTCATGgtaggaggagggctgctggtaggcggaacctgcctttgatgaggtagggg Alignment from Exonerate_coding2genome GG---------CTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG tcagagtcagattgagtcttttttccagctgacatcctggcttccctcagGGTGCCCCTTTCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCACGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACTTTCATGgtaggaggagggctgctggtaggcggaacctgcctttgatgaggtagggg Alignment from GeneWise --------GGGCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCGCGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCCGGGCTCAATGCCACTTTCATG tcagagtcagattgagtcttttttccagctgacatcctggcttccctcagGGTGCCCCTTTCTACTGACAGTCGACCCCGCCAAGCGGCTGAAGCTGGAGGGGCTGCGTAGCAGCTCGTGGCTTCAGGACGGCAGCGCACGCTCCTCGCCCCCGCTCCGCACGCCGGATGTGCTGGAGTCCTCTGGGCCAGCTGTGCGTTCTGGGCTCAATGCCACTTTCATGgtaggaggagggctgctggtaggcggaacctgcctttgatgaggtagggg #### Rps6ka4_ID1805_15 --> 0 - 1 Original Alignment TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAg gcctgtctgctggcagtctgggatggtctgttgaatctctgtctttgcagTACATGATGCTGTCTAGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGTTTCTCCCTGGACGGGGAGGCCTGGCAAGGTGTATCGGAGGAAGCCAAGGAGCTGGTC---ggtgtgttccagctggaggactcggggcatcattagggaaggaacgtcatg Alignment from CESAR TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAg gcctgtctgctggcagtctgggatggtctgttgaatctctgtctttgcagTACATGATGCTGTCTAGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGTTTCTCCCTGGACGGGGAGGCCTGGCAAGGTGTATCGGAGGAAGCCAAGGAGCTGGTC---ggtgtgttccagctggaggactcggggcatcattagggaaggaacgtcatg Alignment from Spaln_aa2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTC- gcctgtctgctggcagtctgggatggtctgttgaatctctgtctttgcagTACATGATGCTGTCTAGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGTTTCTCCCTGGACGGGGAGGCCTGGCAAGGTGTATCGGAGGAAGCCAAGGAGCTGGTCGgtgtgttccagctggaggactcggggcatcattagggaaggaacgtcatg Alignment from Spaln_nt2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAG gcctgtctgctggcagtctgggatggtctgttgaatctctgtctttgcagTACATGATGCTGTCTAGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGTTTCTCCCTGGACGGGGAGGCCTGGCAAGGTGTATCGGAGGAAGCCAAGGAGCTGGTC---Ggtgtgttccagctggaggactcggggcatcattagggaaggaacgtcatg Alignment from Pairagon TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCG------------------------------------------------- gcctgtctgctggcagtctgggatggtctgttgaatctctgtctttgcagTACATGATGCTGTCTAGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGTTTCTCCCTGGACGGGGAGGCCTGGCAAGGTGTATCGGAGGAAGCCAAGGAGCTGGTCGGTGTGTTCCAGCTGGAGGACTCGGGGCATCATTAGGGAAGGAACGTCATG Alignment from Exonerate_protein2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAG gcctgtctgctggcagtctgggatggtctgttgaatctctgtctttgcagTACATGATGCTGTCTAGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGTTTCTCCCTGGACGGGGAGGCCTGGCAAGGTGTATCGGAGGAAGCCAAGGAGCTGGTC---Ggtgtgttccagctggaggactcggggcatcattagggaaggaacgtcatg Alignment from Exonerate_coding2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAG gcctgtctgctggcagtctgggatggtctgttgaatctctgtctttgcagTACATGATGCTGTCTAGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGTTTCTCCCTGGACGGGGAGGCCTGGCAAGGTGTATCGGAGGAAGCCAAGGAGCTGGTC---Ggtgtgttccagctggaggactcggggcatcattagggaaggaacgtcatg Alignment from GeneWise TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCC gcctgtctgctggcagtctgggatggtctgttgaatctctgtctttgcagTACATGATGCTGTCTAGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGTTTCTCCCTGGACGGGGAGGCCTGGCAAGGTGTATCGGAGGAAGCCAAGGAGCTGGTCGgtgtgttccagctggaggactcggggcatcattagggaaggaacgtcatg #### Rps6ka4_ID1806_14 --> 0 - 0 Original Alignment AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG--------- gcacctatgctgggtccagcccctgactacacggcttgctgtctgttcagAACATCTTGTACGCGGATGACACTCCCGGGGCCCCGGTGAAAATCATCGACTTCGGGTTCGCACAACTGCGGCCCCAGAGCCCGGCAGAACCTATGCAGACTCCTTGCTTTACACTGCAGTACGCTGCACCTGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGTGATCTATGGAGCCTGGGTGTCGTTCTGTTCATTGCGgtgaggttctcggaggagcgggggttatttttcctgatagttagcccggg Alignment from CESAR AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG--------- gcacctatgctgggtccagcccctgactacacggcttgctgtctgttcagAACATCTTGTACGCGGATGACACTCCCGGGGCCCCGGTGAAAATCATCGACTTCGGGTTCGCACAACTGCGGCCCCAGAGCCCGGCAGAACCTATGCAGACTCCTTGCTTTACACTGCAGTACGCTGCACCTGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGTGATCTATGGAGCCTGGGTGTCGTTCTGTTCATTGCGgtgaggttctcggaggagcgggggttatttttcctgatagttagcccggg Alignment from Spaln_aa2Genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG--------- gcacctatgctgggtccagcccctgactacacggcttgctgtctgttcagAACATCTTGTACGCGGATGACACTCCCGGGGCCCCGGTGAAAATCATCGACTTCGGGTTCGCACAACTGCGGCCCCAGAGCCCGGCAGAACCTATGCAGACTCCTTGCTTTACACTGCAGTACGCTGCACCTGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGTGATCTATGGAGCCTGGGTGTCGTTCTGTTCATTGCGgtgaggttctcggaggagcgggggttatttttcctgatagttagcccggg Alignment from Spaln_nt2Genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCT gcacctatgctgggtccagcccctgactacacggcttgctgtctgttcagAACATCTTGTACGCGGATGACACTCCCGGGGCCCCGGTGAAAATCATCGACTTCGGGTTCGCACAACTGCGGCCCCAGAGCCCGGCAGAACCTATGCAGACTCCTTGCTTTACACTGCAGTACGCTGCACCTGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGTGATCTATGGAGCCTGGGTGTCGTTCTgttcattgcggtgaggttctcggaggagcgggggttatttttcctgatagttagcccggg Alignment from Pairagon AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG--------- gcacctatgctgggtccagcccctgactacacggcttgctgtctgttcagAACATCTTGTACGCGGATGACACTCCCGGGGCCCCGGTGAAAATCATCGACTTCGGGTTCGCACAACTGCGGCCCCAGAGCCCGGCAGAACCTATGCAGACTCCTTGCTTTACACTGCAGTACGCTGCACCTGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGTGATCTATGGAGCCTGGGTGTCGTTCTGTTCATTGCGgtgaggttctcggaggagcgggggttatttttcctgatagttagcccggg Alignment from Exonerate_protein2genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcacctatgctgggtccagcccctgactacacggcttgctgtctgttcagAACATCTTGTACGCGGATGACACTCCCGGGGCCCCGGTGAAAATCATCGACTTCGGGTTCGCACAACTGCGGCCCCAGAGCCCGGCAGAACCTATGCAGACTCCTTGCTTTACACTGCAGTACGCTGCACCTGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGTGATCTATGGAGCCTGGGTGTCGTTCTGttcattgcggtgaggttctcggaggagcgggggttatttttcctgatagttagcccggg Alignment from Exonerate_coding2genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcacctatgctgggtccagcccctgactacacggcttgctgtctgttcagAACATCTTGTACGCGGATGACACTCCCGGGGCCCCGGTGAAAATCATCGACTTCGGGTTCGCACAACTGCGGCCCCAGAGCCCGGCAGAACCTATGCAGACTCCTTGCTTTACACTGCAGTACGCTGCACCTGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGTGATCTATGGAGCCTGGGTGTCGTTCTGttcattgcggtgaggttctcggaggagcgggggttatttttcctgatagttagcccggg Alignment from GeneWise AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTGTAC------ gcacctatgctgggtccagcccctgactacacggcttgctgtctgttcagAACATCTTGTACGCGGATGACACTCCCGGGGCCCCGGTGAAAATCATCGACTTCGGGTTCGCACAACTGCGGCCCCAGAGCCCGGCAGAACCTATGCAGACTCCTTGCTTTACACTGCAGTACGCTGCACCTGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGTGATCTATGGAGCCTGGGTGTCGTTCTGTTCATTGCGgtgaggttctcggaggagcgggggttatttttcctgatagttagcccggg #### Rps6ka4_ID1807_13 --> 0 - 0 Original Alignment CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccaccatgatacctgagcagacagataccctctgcctctgtttacagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGC---------------gtaagcgcaggactttaatctgaatttgcagggcagtggagcaggactgc Alignment from CESAR CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccaccatgatacctgagcagacagataccctctgcctctgtttacagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGC---------------gtaagcgcaggactttaatctgaatttgcagggca Alignment from Spaln_aa2Genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGC caaccaccatgatacctgagcagacagataccctctgcctctgtttacagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCgtaagcgcaggactttaatctgaatttgcagggcagtggagcaggactgc Alignment from Spaln_nt2Genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGC caaccaccatgatacctgagcagacagataccctctgcctctgtttacagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCgtaagcgcaggactttaatctgaatttgcagggcagtggagcaggactgc Alignment from Pairagon CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGC caaccaccatgatacctgagcagacagataccctctgcctctgtttacagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCgtaagcgcaggactttaatctgaatttgcagggcagtggagcaggactgc Alignment from Exonerate_protein2genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGC caaccaccatgatacctgagcagacagataccctctgcctctgtttacagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCgtaagcgcaggactttaatctgaatttgcagggcagtggagcaggactgc Alignment from Exonerate_coding2genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGC caaccaccatgatacctgagcagacagataccctctgcctctgtttacagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCgtaagcgcaggactttaatctgaatttgcagggcagtggagcaggactgc Alignment from GeneWise CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGC caaccaccatgatacctgagcagacagataccctctgcctctgtttacagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCgtaagcgcaggactttaatctgaatttgcagggcagtggagcaggactgc #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---ag cctagggattggagatgccaacatcacttcacttaattgttctctcctagGGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCGACaggttcgtggcagggcaggtatgtgtctggggcagggttcccgagcatggac Alignment from CESAR GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---ag cctagggattggagatgccaacatcacttcacttaattgttctctcctagGGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCGACaggttcgtggcagggcaggtatgtgtctggggcagggttcccgagcatggac Alignment from Spaln_aa2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAGC-- cctagggattggagatgccaacatcacttcacttaattgttctctcctagGGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCGACAGgttcgtggcagggcaggtatgtgtctggggcagggttcccgagcatggac Alignment from Spaln_nt2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---AG cctagggattggagatgccaacatcacttcacttaattgttctctcctagGGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCGACAGgttcgtggcagggcaggtatgtgtctggggcagggttcccgagcatggac Alignment from Pairagon GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCAT-------------------CAG cctagggattggagatgccaacatcacttcacttaattgttctctcctagGGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCGACAGGTTCGTGGCAGGGCAGgtatgtgtctggggcagggttcccgagcatggac Alignment from Exonerate_protein2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---AG cctagggattggagatgccaacatcacttcacttaattgttctctcctagGGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCGACAGgttcgtggcagggcaggtatgtgtctggggcagggttcccgagcatggac Alignment from Exonerate_coding2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC---AG cctagggattggagatgccaacatcacttcacttaattgttctctcctagGGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCGACAGgttcgtggcagggcaggtatgtgtctggggcagggttcccgagcatggac Alignment from GeneWise GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAGC-- cctagggattggagatgccaacatcacttcacttaattgttctctcctagGGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCGACAGgttcgtggcagggcaggtatgtgtctggggcagggttcccgagcatggac #### Rps6kb2_ID370_12 --> 0 - 0 Original Alignment AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gataggcagggagagtgattgacatagtctaacagttggtgtctgcttagAGGCACCCCTTCTTCCGACACATCAATTGGGACGACCTCTTGGCCTGCCGTGTGGACCCTCCCTTCAGGCCAAGTCTGTATCCACAAgtaacaatatgggggtcatcttgaccacatggcatgcagaggtcctgtcc Alignment from CESAR AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gataggcagggagagtgattgacatagtctaacagttggtgtctgcttagAGGCACCCCTTCTTCCGACACATCAATTGGGACGACCTCTTGGCCTGCCGTGTGGACCCTCCCTTCAGGCCAAGTCTGTATCCACAAgtaacaatatgggggtcatcttgaccacatggcatgcagaggtcctgtcc Alignment from Spaln_aa2Genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gataggcagggagagtgattgacatagtctaacagttggtgtctgcttagAGGCACCCCTTCTTCCGACACATCAATTGGGACGACCTCTTGGCCTGCCGTGTGGACCCTCCCTTCAGGCCAAGTCTGTATCCACAAgtaacaatatgggggtcatcttgaccacatggcatgcagaggtcctgtcc Alignment from Spaln_nt2Genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCT gataggcagggagagtgattgacatagtctaacagttggtgtctgcttagAGGCACCCCTTCTTCCGACACATCAATTGGGACGACCTCTTGGCCTGCCGTGTGGACCCTCCCTTCAGGCCAAGTCTgtatccacaagtaacaatatgggggtcatcttgaccacatggcatgcagaggtcctgtcc Alignment from Pairagon AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG--------- gataggcagggagagtgattgacatagtctaacagttggtgtctgcttagAGGCACCCCTTCTTCCGACACATCAATTGGGACGACCTCTTGGCCTGCCGTGTGGACCCTCCCTTCAGGCCAAGTCTGTATCCACAAgtaacaatatgggggtcatcttgaccacatggcatgcagaggtcctgtcc Alignment from Exonerate_protein2genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCT gataggcagggagagtgattgacatagtctaacagttggtgtctgcttagAGGCACCCCTTCTTCCGACACATCAATTGGGACGACCTCTTGGCCTGCCGTGTGGACCCTCCCTTCAGGCCAAGTCTgtatccacaagtaacaatatgggggtcatcttgaccacatggcatgcagaggtcctgtcc Alignment from Exonerate_coding2genome AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCT gataggcagggagagtgattgacatagtctaacagttggtgtctgcttagAGGCACCCCTTCTTCCGACACATCAATTGGGACGACCTCTTGGCCTGCCGTGTGGACCCTCCCTTCAGGCCAAGTCTgtatccacaagtaacaatatgggggtcatcttgaccacatggcatgcagaggtcctgtcc Alignment from GeneWise AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG------CAA gataggcagggagagtgattgacatagtctaacagttggtgtctgcttagAGGCACCCCTTCTTCCGACACATCAATTGGGACGACCTCTTGGCCTGCCGTGTGGACCCTCCCTTCAGGCCAAGTCTGTATCCACAAgtaacaatatgggggtcatcttgaccacatggcatgcagaggtcctgtcc #### Rps6kb2_ID371_11 --> 0 - 0 Original Alignment TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG taccatctacttctctccagaccttccacagtgtttgtaaccctttgtag---------CGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGgtaggcatggatatgttacagtgaacttaggctggaggatgacatggata Alignment from CESAR TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG ctgggcacttaccatctacttctctccacagtgtttgtaaccctttgtag---------CGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGgtaggcatggatatgttacagtgaacttaggctggaggatgacatggata Alignment from Spaln_aa2Genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG taccatctacttctctccagaccttccacagtgtttgtaaccctttgtag---------CGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGgtaggcatggatatgttacagtgaacttaggctggaggatgacatggata Alignment from Spaln_nt2Genome CGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG taccatctacttctctccagaccttccacagtgtttgtaaccctttgtagCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGgtaggcatggatatgttacagtgaacttaggctggaggatgacatggata Alignment from Pairagon TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG taccatctacttctctccagaccttccacagtgtttgtaaccctttgtag---------CGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGgtaggcatggatatgttacagtgaacttaggctggaggatgacatggata Alignment from Exonerate_protein2genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG taccatctacttctctccagaccttccacagtgtttgtaacCCTTTGTAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGgtaggcatggatatgttacagtgaacttaggctggaggatgacatggata Alignment from Exonerate_coding2genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG taccatctacttctctccagaccttccacagtgtttgtaacCCTTTGTAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGgtaggcatggatatgttacagtgaacttaggctggaggatgacatggata Alignment from GeneWise CGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG taccatctacttctctccagaccttccacagtgtttgtaaccctttgtagCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGgtaggcatggatatgttacagtgaacttaggctggaggatgacatggata #### Rps6kb2_ID372_10 --> 0 - 0 Original Alignment CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttggggagatctcttccaggtcccctcctggttggttgtttcttctttag------TTCACTGCCGAGAACCGGAAGAAAACTACGGATAAAATCATTAAAGGGAAGCTGGTGCTTCCCCCGTACCTCACCCCAGACGCCCGGGACCTTGCCAAAAAGgtaagtctccctctcatccagaggcttatttctgcctcctccctaaaccc Alignment from CESAR CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gagatgttggggagatctcttccagtcctggttggttgtttcttctttag------TTCACTGCCGAGAACCGGAAGAAAACTACGGATAAAATCATTAAAGGGAAGCTGGTGCTTCCCCCGTACCTCACCCCAGACGCCCGGGACCTTGCCAAAAAGgtaagtctccctctcatccagaggcttatttctgcctcctccctaaaccc Alignment from Spaln_aa2Genome TTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttggggagatctcttccaggtcccctcctggttggttgtttcttctttagTTCACTGCCGAGAACCGGAAGAAAACTACGGATAAAATCATTAAAGGGAAGCTGGTGCTTCCCCCGTACCTCACCCCAGACGCCCGGGACCTTGCCAAAAAGgtaagtctccctctcatccagaggcttatttctgcctcctccctaaaccc Alignment from Spaln_nt2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttggggagatctcttccaggtcccctcctggttggttgtttcttctttag------TTCACTGCCGAGAACCGGAAGAAAACTACGGATAAAATCATTAAAGGGAAGCTGGTGCTTCCCCCGTACCTCACCCCAGACGCCCGGGACCTTGCCAAAAAGgtaagtctccctctcatccagaggcttatttctgcctcctccctaaaccc Alignment from Pairagon CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttggggagatctcttccaggtcccctcctggttggttgtttcttctttag------TTCACTGCCGAGAACCGGAAGAAAACTACGGATAAAATCATTAAAGGGAAGCTGGTGCTTCCCCCGTACCTCACCCCAGACGCCCGGGACCTTGCCAAAAAGgtaagtctccctctcatccagaggcttatttctgcctcctccctaaaccc Alignment from Exonerate_protein2genome TTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttggggagatctcttccaggtcccctcctggttggttgtttcttctttagTTCACTGCCGAGAACCGGAAGAAAACTACGGATAAAATCATTAAAGGGAAGCTGGTGCTTCCCCCGTACCTCACCCCAGACGCCCGGGACCTTGCCAAAAAGgtaagtctccctctcatccagaggcttatttctgcctcctccctaaaccc Alignment from Exonerate_coding2genome TTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttggggagatctcttccaggtcccctcctggttggttgtttcttctttagTTCACTGCCGAGAACCGGAAGAAAACTACGGATAAAATCATTAAAGGGAAGCTGGTGCTTCCCCCGTACCTCACCCCAGACGCCCGGGACCTTGCCAAAAAGgtaagtctccctctcatccagaggcttatttctgcctcctccctaaaccc Alignment from GeneWise TTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttggggagatctcttccaggtcccctcctggttggttgtttcttctttagTTCACTGCCGAGAACCGGAAGAAAACTACGGATAAAATCATTAAAGGGAAGCTGGTGCTTCCCCCGTACCTCACCCCAGACGCCCGGGACCTTGCCAAAAAGgtaagtctccctctcatccagaggcttatttctgcctcctccctaaaccc #### Rps6kb2_ID375_7 --> 1 - 1 Original Alignment cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---g tgcctacaccccaacctttgccctgcctgcgtttctctccccttatgcagcTTCTACCTGGCGGAGATCACACTAGCCCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCTCAAGCCTGAAAACATCATGCTCAGCAGCCAGTTTggtgagtatactgtgtgcatgtatgggtgttacacccctggccttgccagt Alignment from CESAR cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---g tgcctacaccccaacctttgccctgcctgcgtttctctccccttatgcagcTTCTACCTGGCGGAGATCACACTAGCCCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCTCAAGCCTGAAAACATCATGCTCAGCAGCCAGTTTggtgagtatactgtgtgcatgtatgggtgttacacccctggccttgccagt Alignment from Spaln_aa2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G tgcctacaccccaacctttgccctgcctgcgtttctctccccttatgcagCTTCTACCTGGCGGAGATCACACTAGCCCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCTCAAGCCTGAAAACATCATGCTCAGCAGCCAGTTTGgtgagtatactgtgtgcatgtatgggtgttacacccctggccttgccagt Alignment from Spaln_nt2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G tgcctacaccccaacctttgccctgcctgcgtttctctccccttatgcagCTTCTACCTGGCGGAGATCACACTAGCCCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCTCAAGCCTGAAAACATCATGCTCAGCAGCCAGTTTGgtgagtatactgtgtgcatgtatgggtgttacacccctggccttgccagt Alignment from Pairagon CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G tgcctacaccccaacctttgccctgcctgcgtttctctccccttatgcagCTTCTACCTGGCGGAGATCACACTAGCCCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCTCAAGCCTGAAAACATCATGCTCAGCAGCCAGTTTGgtgagtatactgtgtgcatgtatgggtgttacacccctggccttgccagt Alignment from Exonerate_protein2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G tgcctacaccccaacctttgccctgcctgcgtttctctccccttatgcagCTTCTACCTGGCGGAGATCACACTAGCCCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCTCAAGCCTGAAAACATCATGCTCAGCAGCCAGTTTGgtgagtatactgtgtgcatgtatgggtgttacacccctggccttgccagt Alignment from Exonerate_coding2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G tgcctacaccccaacctttgccctgcctgcgtttctctccccttatgcagCTTCTACCTGGCGGAGATCACACTAGCCCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCTCAAGCCTGAAAACATCATGCTCAGCAGCCAGTTTGgtgagtatactgtgtgcatgtatgggtgttacacccctggccttgccagt Alignment from GeneWise CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGGGC- tgcctacaccccaacctttgccctgcctgcgtttctctccccttatgcagCTTCTACCTGGCGGAGATCACACTAGCCCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCTCAAGCCTGAAAACATCATGCTCAGCAGCCAGTTTGgtgagtatactgtgtgcatgtatgggtgttacacccctggccttgccagt #### Rrp12_ID8296_27 --> 1 - 2 Original Alignment aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag aaatgatatggctcaaattactctagacccccctccccttcccatctcaga------------------------------GAGTACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGCGACaggtaatgcatgactcaaccccaagatcttagtctacccccacccaaattct Alignment from CESAR aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACag gaggaggggttcttggcaacctctagacccccctccccttcccatctcaga------------------------------GAGTACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGCGACaggtaatgcatgactcaaccccaagatcttagtctacccccacccaaattct Alignment from Spaln_aa2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG tatggctcaaattactctagACCCCCCTCCCCTTCCCATCTC------AGAGAGTACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGCGACAGgtaatgcatgactcaaccccaagatcttagtctacccccacccaaattct Alignment from Spaln_nt2Genome CAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG aaatgatatggctcaaattactctagacccccctccccttcccatctcag-AGAGTACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGCGACAGgtaatgcatgactcaaccccaagatcttagtctacccccacccaaattct Alignment from Pairagon ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG aaatgatatggctcaaattactctagacccccctccccttcccatctcag------------------------------AGAGTACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGCGACAGgtaatgcatgactcaaccccaagatcttagtctacccccacccaaattct Alignment from Exonerate_protein2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG tatggctcaaattactctagACCCCCCTCCCCTTCCCATCTC------AGAGAGTACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGCGACAGgtaatgcatgactcaaccccaagatcttagtctacccccacccaaattct Alignment from Exonerate_coding2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG tatggctcaaattactctagACCCCCCTCCCCTTCCCATCTC------AGAGAGTACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGCGACAGgtaatgcatgactcaaccccaagatcttagtctacccccacccaaattct Alignment from GeneWise ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAG tatggctcaaattactctagACCCCCCTCCCCTTCCCATCTC------AGAGAGTACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGCGACAGgtaatgcatgactcaaccccaagatcttagtctacccccacccaaattct #### Rrp12_ID8300_23 --> 0 - 1 Original Alignment GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAg cacccagcctgtgcttcagttccatgtcaaggcttggtcatctgttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGACATGCTTTCCTGCGCTTTGGCTCC---------ggtgagggggccaaaggaactgagaactggagtggacaaactgccttggcc Alignment from CESAR GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAg cacccagcctgtgcttcagttccatgtcaaggcttggtcatctgttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGACATGCTTTCCTGCGCTTTGGCTCC---------ggtgagggggccaaaggaactgagaactggagtggacaaactgccttggcc Alignment from Spaln_aa2Genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCC- cacccagcctgtgcttcagttccatgtcaaggcttggtcatctgttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGACATGCTTTCCTGCGCTTTGGCTCCGgtgagggggccaaaggaactgagaactggagtggacaaactgccttggcc Alignment from Spaln_nt2Genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCA cacccagcctgtgcttcagttccatgtcaaggcttggtcatctgttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGACATGCTTTCCTGCGCTTTGGCTCCGgtgagggggccaaaggaactgagaactggagtggacaaactgccttggcc Alignment from Pairagon GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAG cacccagcctgtgcttcagttccatgtcaaggcttggtcatctgttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGACATGCTTTCCTGCGCTTTGGCTCC---------Ggtgagggggccaaaggaactgagaactggagtggacaaactgccttggcc Alignment from Exonerate_protein2genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCA cacccagcctgtgcttcagttccatgtcaaggcttggtcatctgttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGACATGCTTTCCTGCGCTTTGGCTCCGgtgagggggccaaaggaactgagaactggagtggacaaactgccttggcc Alignment from Exonerate_coding2genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCA cacccagcctgtgcttcagttccatgtcaaggcttggtcatctgttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGACATGCTTTCCTGCGCTTTGGCTCCGgtgagggggccaaaggaactgagaactggagtggacaaactgccttggcc Alignment from GeneWise GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCA cacccagcctgtgcttcagttccatgtcaaggcttggtcatctgttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGACATGCTTTCCTGCGCTTTGGCTCCGgtgagggggccaaaggaactgagaactggagtggacaaactgccttggcc #### Rrp12_ID8315_8 --> 2 - 0 Original Alignment gt---------TCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG agtggaagtgggagtagtctaggagaggaccctccttcatccacacacaggtCAGCGTGGCTCCAAAGAGGCCACTACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTGgtgagtgctagacacaggaggaaggggaaattagtgagtgagtggggcca Alignment from CESAR gt---------TCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG agtggaagtgggagtagtctaggagaggaccctccttcatccacacacaggtCAGCGTGGCTCCAAAGAGGCCACTACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTGgtgagtgctagacacaggaggaaggggaaattagtgagtgagtggggcca Alignment from Spaln_aa2Genome GTTCCAAAGAGGCCACC---------ACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG agtggaagtgggagtagtctaggagaggaccctccttcatccacacacagGTCAGCGTGGCTCCAAAGAGGCCACTACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTGgtgagtgctagacacaggaggaaggggaaattagtgagtgagtggggcca Alignment from Spaln_nt2Genome GTTCCAAAGAG---------GCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG agtggaagtgggagtagtctaggagaggaccctccttcatccacacacagGTCAGCGTGGCTCCAAAGAGGCCACTACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTGgtgagtgctagacacaggaggaaggggaaattagtgagtgagtggggcca Alignment from Pairagon -------------------------------------------------------------TCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG AGTGGAAGTGGGAGTAGTCTAGGAGAGGACCCTCCTTCATCCACACACAGGTCAGCGTGGCTCCAAAGAGGCCACTACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTGgtgagtgctagacacaggaggaaggggaaattagtgagtgagtggggcca Alignment from Exonerate_protein2genome AGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG agtggaagtgggagtagtctaggagaggaccctccttcatccacacacaggtcagcgtggctccaaagAGGCCACTACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTGgtgagtgctagacacaggaggaaggggaaattagtgagtgagtggggcca Alignment from Exonerate_coding2genome AGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG agtggaagtgggagtagtctaggagaggaccctccttcatccacacacaggtcagcgtggctccaaagAGGCCACTACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTGgtgagtgctagacacaggaggaaggggaaattagtgagtgagtggggcca Alignment from GeneWise --------GGTTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG agtggaagtgggagtagtctaggagaggaccctccttcatccacacacagGTCAGCGTGGCTCCAAAGAGGCCACTACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTGgtgagtgctagacacaggaggaaggggaaattagtgagtgagtggggcca #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG--------------------------- cgtatgaccccataaactcggggtctgcagctgcttctctttcctgttagGTGCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCCTAGTGTTCAATGCCACTTCTGAATTCTGCCGCACACTGGGGGAGATCCCCACCTATGGGTTGGCTGGCAACCGTGAGGGGCAGGAAGAGCTCATGATGAAAATCAAAAGGAAATCACGAATTgtgaggcaactgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG--------------------------- cgtatgaccccataaactcggggtctgcagctgcttctctttcctgttagGTGCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCCTAGTGTTCAATGCCACTTCTGAATTCTGCCGCACACTGGGGGAGATCCCCACCTATGGGTTGGCTGGCAACCGTGAGGGGCAGGAAGAGCTCATGATGAAAATCAAAAGGAAATCACGAATTgtgaggcaactgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cgtatgaccccataaactcggggtctgcagctgcttctctttcctgttagGTGCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCCTAGTGTTCAATGCCACTTCTGAATTCTGCCGCACACTGGGGGAGATCCCCACCTATGGGTTGGCTGGCAACCGTGAGGGGCAGGAAGAGCTCATGatgaaaatcaaaaggaaatcacgaattgtgaggcaactgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cgtatgaccccataaactcggggtctgcagctgcttctctttcctgttagGTGCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCCTAGTGTTCAATGCCACTTCTGAATTCTGCCGCACACTGGGGGAGATCCCCACCTATGGGTTGGCTGGCAACCGTGAGGGGCAGGAAGAGCTCATGatgaaaatcaaaaggaaatcacgaattgtgaggcaactgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG--------------------------- cgtatgaccccataaactcggggtctgcagctgcttctctttcctgttagGTGCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCCTAGTGTTCAATGCCACTTCTGAATTCTGCCGCACACTGGGGGAGATCCCCACCTATGGGTTGGCTGGCAACCGTGAGGGGCAGGAAGAGCTCATGATGAAAATCAAAAGGAAATCACGAATTgtgaggcaactgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cgtatgaccccataaactcggggtctgcagctgcttctctttcctgttagGTGCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCCTAGTGTTCAATGCCACTTCTGAATTCTGCCGCACACTGGGGGAGATCCCCACCTATGGGTTGGCTGGCAACCGTGAGGGGCAGGAAGAGCTCATGatgaaaatcaaaaggaaatcacgaattgtgaggcaactgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Exonerate_coding2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG cgtatgaccccataaactcggggtctgcagctgcttctctttcctgttagGTGCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCCTAGTGTTCAATGCCACTTCTGAATTCTGCCGCACACTGGGGGAGATCCCCACCTATGGGTTGGCTGGCAACCGTGAGGGGCAGGAAGAGCTCATGatgaaaatcaaaaggaaatcacgaattgtgaggcaactgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG--------------------------- cgtatgaccccataaactcggggtctgcagctgcttctctttcctgttagGTGCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCCTAGTGTTCAATGCCACTTCTGAATTCTGCCGCACACTGGGGGAGATCCCCACCTATGGGTTGGCTGGCAACCGTGAGGGGCAGGAAGAGCTCATGATGAAAATCAAAAGGAAATCACGAATTgtgaggcaactgtttcctggcttttgtccttaggctgctgatttctgctt #### Sart1_ID963_12 --> 2 - 0 Original Alignment agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG agggcagttgtgtgagcaggataactccagagaaaccttgctccccacagag---------GCTCTTCCGCCAGGGTCCCCAGATGGGCTGGAGGAAGATGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGgtaggacagagcaaggacatcatgtgggacttgtctctgagtgtgtgaga Alignment from CESAR agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ctgcaggcaagggcagttgtgtgagtccagagaaaccttgctccccacagag---------GCTCTTCCGCCAGGGTCCCCAGATGGGCTGGAGGAAGATGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGgtaggacagagcaaggacatcatgtgggacttgtctctgagtgtgtgaga Alignment from Spaln_aa2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG agggcagttgtgtgagcaggataactccagagaaaccttgctccccacagAG---------GCTCTTCCGCCAGGGTCCCCAGATGGGCTGGAGGAAGATGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGgtaggacagagcaaggacatcatgtgggacttgtctctgagtgtgtgaga Alignment from Spaln_nt2Genome AG-CTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG agggcagttgtgtgagcaggataactccagagaaaccttgctccccacagAGGCTCTTCCGCCAGGGTCCCCAGATGGGCTGGAGGAAGATGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGgtaggacagagcaaggacatcatgtgggacttgtctctgagtgtgtgaga Alignment from Pairagon AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG agggcagttgtgtgagcaggataactccagagaaaccttgctccccacagAG---------GCTCTTCCGCCAGGGTCCCCAGATGGGCTGGAGGAAGATGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGgtaggacagagcaaggacatcatgtgggacttgtctctgagtgtgtgaga Alignment from Exonerate_protein2genome GAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG agggcagttgtgtgagcaggataactccagagaaaccttgctccccacagAGGCTCTTCCGCCAGGGTCCCCAGATGGGCTGGAGGAAGATGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGgtaggacagagcaaggacatcatgtgggacttgtctctgagtgtgtgaga Alignment from Exonerate_coding2genome GAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG agggcagttgtgtgagcaggataactccagagaaaccttgctccccacagAGGCTCTTCCGCCAGGGTCCCCAGATGGGCTGGAGGAAGATGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGgtaggacagagcaaggacatcatgtgggacttgtctctgagtgtgtgaga Alignment from GeneWise GCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG agggcagttgtgtgagcaggataactccagagaaaccttgctccccacagagGCTCTTCCGCCAGGGTCCCCAGATGGGCTGGAGGAAGATGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAGgtaggacagagcaaggacatcatgtgggacttgtctctgagtgtgtgaga #### Sart1_ID965_10 --> 0 - 2 Original Alignment GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCag ttcaggactaagggggcctgcatgctccgaatttctttttcaccggtcagGTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAGACCCGAAAGAAGGAGCAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGTGATCAGACTCAGGATGGC------------aggtaagtatgacaccgaaggacacagtagtgggtgtgaggtggaccagctt Alignment from CESAR GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCag ttcaggactaagggggcctgcatgctccgaatttctttttcaccggtcagGTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAGACCCGAAAGAAGGAGCAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGTGATCAGACTCAGGATGGC------------aggtaagtatgacaccgaaggacacagtagtgggtgtgaggtggaccagctt Alignment from Spaln_aa2Genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGA ttcaggactaagggggcctgcatgctccgaatttctttttcaccggtcagGTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAGACCCGAAAGAAGGAGCAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGTGATCAGACTCAGGATGGCAGgtaagtatgacaccgaaggacacagtagtgggtgtgaggtggaccagctt Alignment from Spaln_nt2Genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG ttcaggactaagggggcctgcatgctccgaatttctttttcaccggtcagGTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAGACCCGAAAGAAGGAGCAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGTGATCAGACTCAGGATGG------------CAGgtaagtatgacaccgaaggacacagtagtgggtgtgaggtggaccagctt Alignment from Pairagon GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG ttcaggactaagggggcctgcatgctccgaatttctttttcaccggtcagGTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAGACCCGAAAGAAGGAGCAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGTGATCAGACTCAGGATGG------------CAGgtaagtatgacaccgaaggacacagtagtgggtgtgaggtggaccagctt Alignment from Exonerate_protein2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGA ttcaggactaagggggcctgcatgctccgaatttctttttcaccggtcagGTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAGACCCGAAAGAAGGAGCAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGTGATCAGACTCAGGATGGCAGgtaagtatgacaccgaaggacacagtagtgggtgtgaggtggaccagctt Alignment from Exonerate_coding2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGA ttcaggactaagggggcctgcatgctccgaatttctttttcaccggtcagGTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAGACCCGAAAGAAGGAGCAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGTGATCAGACTCAGGATGGCAGgtaagtatgacaccgaaggacacagtagtgggtgtgaggtggaccagctt Alignment from GeneWise GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGG-- ttcaggactaagggggcctgcatgctccgaatttctttttcaccggtcagGTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAGACCCGAAAGAAGGAGCAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGTGATCAGACTCAGGATGGCAGgtaagtatgacaccgaaggacacagtagtgggtgtgaggtggaccagctt #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ggttgtctatgtggttgcccattcatctctaaatcttacttcttttctag------GAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGAGCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCGAGAGAATGCAGCCTGCAAgtaagcagaactgtgggcccctcccctgatgcgaccccacctgaacttgg Alignment from CESAR CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctatgtggttgcctctctaaatcttacttcttttctag------GAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGAGCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCGAGAGAATGCAGCCTGCAAgtaagcagaactgtgggcccctcccctgatgcgaccccacctgaacttgg Alignment from Spaln_aa2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ggttgtctatgtggttgcccattcatctctaaatcttacttcttttctag------GAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGAGCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCGAGAGAATGCAGCCTGCAAgtaagcagaactgtgggcccctcccctgatgcgaccccacctgaacttgg Alignment from Spaln_nt2Genome GAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ggttgtctatgtggttgcccattcatctctaaatcttacttcttttctagGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGAGCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCGAGAGAATGCAGCCTGCAAgtaagcagaactgtgggcccctcccctgatgcgaccccacctgaacttgg Alignment from Pairagon CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ggttgtctatgtggttgcccattcatctctaaatcttacttcttttctag------GAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGAGCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCGAGAGAATGCAGCCTGCAAgtaagcagaactgtgggcccctcccctgatgcgaccccacctgaacttgg Alignment from Exonerate_protein2genome GAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ggttgtctatgtggttgcccattcatctctaaatcttacttcttttctagGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGAGCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCGAGAGAATGCAGCCTGCAAgtaagcagaactgtgggcccctcccctgatgcgaccccacctgaacttgg Alignment from Exonerate_coding2genome GAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ggttgtctatgtggttgcccattcatctctaaatcttacttcttttctagGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGAGCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCGAGAGAATGCAGCCTGCAAgtaagcagaactgtgggcccctcccctgatgcgaccccacctgaacttgg Alignment from GeneWise GAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG ggttgtctatgtggttgcccattcatctctaaatcttacttcttttctagGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGAGCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCGAGAGAATGCAGCCTGCAAgtaagcagaactgtgggcccctcccctgatgcgaccccacctgaacttgg #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG taggaagtattccccagctggctttgtttgctgctacctctcctttgcagag------CAGATACGACACTTCAAGGGCCAAGCCCAAAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCGCGTGACATAAGAGAGAGGACTCACAAAGAGgtaaaatcctggcgtttggtctcacagggtctccagcttgttgggaccac Alignment from CESAR agCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG tggggataggaagtattccccagctgtttgctgctacctctcctttgcagag------CAGATACGACACTTCAAGGGCCAAGCCCAAAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCGCGTGACATAAGAGAGAGGACTCACAAAGAGgtaaaatcctggcgtttggtctcacagggtctccagcttgttgggaccac Alignment from Spaln_aa2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG taggaagtattccccagctggctttgtttgctgctacctctcctttgcagAG------CAGATACGACACTTCAAGGGCCAAGCCCAAAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCGCGTGACATAAGAGAGAGGACTCACAAAGAGgtaaaatcctggcgtttggtctcacagggtctccagcttgttgggaccac Alignment from Spaln_nt2Genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG taggaagtattccccagctggctttgtttgctgctacctctcctttgcagAG------CAGATACGACACTTCAAGGGCCAAGCCCAAAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCGCGTGACATAAGAGAGAGGACTCACAAAGAGgtaaaatcctggcgtttggtctcacagggtctccagcttgttgggaccac Alignment from Pairagon AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG taggaagtattccccagctggctttgtttgctgctacctctcctttgcagAGC------AGATACGACACTTCAAGGGCCAAGCCCAAAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCGCGTGACATAAGAGAGAGGACTCACAAAGAGgtaaaatcctggcgtttggtctcacagggtctccagcttgttgggaccac Alignment from Exonerate_protein2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG taggaagtattccccagctggctttgtttgctgctacctctcctttgcagAG------CAGATACGACACTTCAAGGGCCAAGCCCAAAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCGCGTGACATAAGAGAGAGGACTCACAAAGAGgtaaaatcctggcgtttggtctcacagggtctccagcttgttgggaccac Alignment from Exonerate_coding2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG taggaagtattccccagctggctttgtttgctgctacctctcctttgcagAG------CAGATACGACACTTCAAGGGCCAAGCCCAAAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCGCGTGACATAAGAGAGAGGACTCACAAAGAGgtaaaatcctggcgtttggtctcacagggtctccagcttgttgggaccac Alignment from GeneWise AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG taggaagtattccccagctggctttgtttgctgctacctctcctttgcagAG------CAGATACGACACTTCAAGGGCCAAGCCCAAAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCGCGTGACATAAGAGAGAGGACTCACAAAGAGgtaaaatcctggcgtttggtctcacagggtctccagcttgttgggaccac #### Sema4g_ID9248_6 --> 2 - 1 Original Alignment atGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATg tgttcctgattgcacatgccatatatctctaaccctgctatcttccccagatGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTC---ggtaggtggcagagagtaactaggggttgggggaggggggagtccatttct Alignment from CESAR atGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATg tgttcctgattgcacatgccatatatctctaaccctgctatcttccccagatGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTC---ggtaggtggcagagagtaactaggggttgggggaggggggagtccatttct Alignment from Spaln_aa2Genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTC- tgttcctgattgcacatgccatatatctctaaccctgctatcttccccagATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCGgtaggtggcagagagtaactaggggttgggggaggggggagtccatttct Alignment from Spaln_nt2Genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG tgttcctgattgcacatgccatatatctctaaccctgctatcttccccagATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTC---Ggtaggtggcagagagtaactaggggttgggggaggggggagtccatttct Alignment from Pairagon ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG tgttcctgattgcacatgccatatatctctaaccctgctatcttccccagATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTC---Ggtaggtggcagagagtaactaggggttgggggaggggggagtccatttct Alignment from Exonerate_protein2genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG tgttcctgattgcacatgccatatatctctaaccctgctatcttccccagATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTC---Ggtaggtggcagagagtaactaggggttgggggaggggggagtccatttct Alignment from Exonerate_coding2genome ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCAATG tgttcctgattgcacatgccatatatctctaaccctgctatcttccccagATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTC---Ggtaggtggcagagagtaactaggggttgggggaggggggagtccatttct Alignment from GeneWise ATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCA tgttcctgattgcacatgccatatatctctaaccctgctatcttccccagATGGAGGCCTCTACACAGCCACCCGGTATGAATTCCGGAGCATTCCTGATATCCGCCGGAGCCGCCACCCACACTCTCTGAGAACTGAGGAGGCACCCATGCACTGGCTCGgtaggtggcagagagtaactaggggttgggggaggggggagtccatttct #### Sema4g_ID9249_7 --> 2 - 0 Original Alignment at------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gagggcttgacctgtttcataagccacccctctccctcctctctctgcagatGAACAGGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGTACAGTGGGTGATGATGACAGGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGCAGCCCGAGTATGCAAGgtcagtctgatgcactcagggtatggggaaagggaaaggccagacctctg Alignment from CESAR at------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gagggcttgacctgtttcataagccacccctctccctcctctctctgcagatGAACAGGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGTACAGTGGGTGATGATGACAGGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGCAGCCCGAGTATGCAAGgtcagtctgatgcactcagggtatggggaaagggaaaggccagacctctg Alignment from Spaln_aa2Genome AT------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gagggcttgacctgtttcataagccacccctctccctcctctctctgcagATGAACAGGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGTACAGTGGGTGATGATGACAGGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGCAGCCCGAGTATGCAAGgtcagtctgatgcactcagggtatggggaaagggaaaggccagacctctg Alignment from Spaln_nt2Genome ATG------CTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gagggcttgacctgtttcataagccacccctctccctcctctctctgcagATGAACAGGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGTACAGTGGGTGATGATGACAGGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGCAGCCCGAGTATGCAAGgtcagtctgatgcactcagggtatggggaaagggaaaggccagacctctg Alignment from Pairagon AT------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gagggcttgacctgtttcataagccacccctctccctcctctctctgcagATGAACAGGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGTACAGTGGGTGATGATGACAGGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGCAGCCCGAGTATGCAAGgtcagtctgatgcactcagggtatggggaaagggaaaggccagacctctg Alignment from Exonerate_protein2genome AT------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gagggcttgacctgtttcataagccacccctctccctcctctctctgcagATGAACAGGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGTACAGTGGGTGATGATGACAGGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGCAGCCCGAGTATGCAAGgtcagtctgatgcactcagggtatggggaaagggaaaggccagacctctg Alignment from Exonerate_coding2genome AT------GCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gagggcttgacctgtttcataagccacccctctccctcctctctctgcagATGAACAGGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGTACAGTGGGTGATGATGACAGGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGCAGCCCGAGTATGCAAGgtcagtctgatgcactcagggtatggggaaagggaaaggccagacctctg Alignment from GeneWise -----GATGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGCGCAGTGGGTGATGATGACAAGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGTAGCCCGTGTGTGCAAG gagggcttgacctgtttcataagccacccctctccctcctctctctgcagATGAACAGGCTGAGTTTGTGTTCTCTGTGCTGGTGCGGGAGAGCAAGACAAGTACAGTGGGTGATGATGACAGGATTTATTTCTTCTTCATGGAGCGTGAGGAAGGCTCCAGCAGCTTCACACAGAGTCGCAGCAGCCACCGTGTGGCTAGAGCAGCCCGAGTATGCAAGgtcagtctgatgcactcagggtatggggaaagggaaaggccagacctctg #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg gccaacagcgtctgcagagccttggaatgactttcctgtctgtcctgcag------ACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGAACACACGTCAGTACACCTGCCGGACCTACCTATGAGCTGCTCTTTCTGGGCACAggtgagtctgactccaatcctgatccttaaatggccttggttactgatctt Alignment from CESAR TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg caggtggccaacagcgtctgcagagaatgactttcctgtctgtcctgcag------ACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGAACACACGTCAGTACACCTGCCGGACCTACCTATGAGCTGCTCTTTCTGGGCACAggtgagtctgactccaatcctgatccttaaatggccttggttactgatctt Alignment from Spaln_aa2Genome ACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gccaacagcgtctgcagagccttggaatgactttcctgtctgtcctgcagACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGAACACACGTCAGTACACCTGCCGGACCTACCTATGAGCTGCTCTTTCTGGGCACAGgtgagtctgactccaatcctgatccttaaatggccttggttactgatctt Alignment from Spaln_nt2Genome ACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gccaacagcgtctgcagagccttggaatgactttcctgtctgtcctgcagACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGAACACACGTCAGTACACCTGCCGGACCTACCTATGAGCTGCTCTTTCTGGGCACAGgtgagtctgactccaatcctgatccttaaatggccttggttactgatctt Alignment from Pairagon TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gccaacagcgtctgcagagccttggaatgactttcctgtctgtcctgcag------ACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGAACACACGTCAGTACACCTGCCGGACCTACCTATGAGCTGCTCTTTCTGGGCACAGgtgagtctgactccaatcctgatccttaaatggccttggttactgatctt Alignment from Exonerate_protein2genome ACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gccaacagcgtctgcagagccttggaatgactttcctgtctgtcctgcagACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGAACACACGTCAGTACACCTGCCGGACCTACCTATGAGCTGCTCTTTCTGGGCACAGgtgagtctgactccaatcctgatccttaaatggccttggttactgatctt Alignment from Exonerate_coding2genome ACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gccaacagcgtctgcagagccttggaatgactttcctgtctgtcctgcagACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGAACACACGTCAGTACACCTGCCGGACCTACCTATGAGCTGCTCTTTCTGGGCACAGgtgagtctgactccaatcctgatccttaaatggccttggttactgatctt Alignment from GeneWise ACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gccaacagcgtctgcagagccttggaatgactttcctgtctgtcctgcagACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGAACACACGTCAGTACACCTGCCGGACCTACCTATGAGCTGCTCTTTCTGGGCACAGgtgagtctgactccaatcctgatccttaaatggccttggttactgatctt #### Sf1_ID1664_5 --> 1 - 2 Original Alignment gCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCC---ag tatgcatgtcaccttccagaaatagatgctgccctatgctctgactgcaggCCTCCAGCAACACGTGTGAGCGATAAAGTGATGATACCACAAGATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCGTGaggtaaggaattactagtctatggcaccctaggttttaattgtatttggatt Alignment from CESAR gCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCC---ag tatgcatgtcaccttccagaaatagatgctgccctatgctctgactgcaggCCTCCAGCAACACGTGTGAGCGATAAAGTGATGATACCACAAGATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCGTGaggtaaggaattactagtctatggcaccctaggttttaattgtatttggatt Alignment from Spaln_aa2Genome GCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAGA-- tatgcatgtcaccttccagaaatagatgctgccctatgctctgactgcagGCCTCCAGCAACACGTGTGAGCGATAAAGTGATGATACCACAAGATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCGTGAGgtaaggaattactagtctatggcaccctaggttttaattgtatttggatt Alignment from Spaln_nt2Genome GCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCC---AG tatgcatgtcaccttccagaaatagatgctgccctatgctctgactgcagGCCTCCAGCAACACGTGTGAGCGATAAAGTGATGATACCACAAGATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCGTGAGgtaaggaattactagtctatggcaccctaggttttaattgtatttggatt Alignment from Pairagon GCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCC---AG tatgcatgtcaccttccagaaatagatgctgccctatgctctgactgcagGCCTCCAGCAACACGTGTGAGCGATAAAGTGATGATACCACAAGATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCGTGAGgtaaggaattactagtctatggcaccctaggttttaattgtatttggatt Alignment from Exonerate_protein2genome GCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCC---AG tatgcatgtcaccttccagaaatagatgctgccctatgctctgactgcagGCCTCCAGCAACACGTGTGAGCGATAAAGTGATGATACCACAAGATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCGTGAGgtaaggaattactagtctatggcaccctaggttttaattgtatttggatt Alignment from Exonerate_coding2genome GCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCC---AG tatgcatgtcaccttccagaaatagatgctgccctatgctctgactgcagGCCTCCAGCAACACGTGTGAGCGATAAAGTGATGATACCACAAGATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCGTGAGgtaaggaattactagtctatggcaccctaggttttaattgtatttggatt Alignment from GeneWise GCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAGA-- tatgcatgtcaccttccagaaatagatgctgccctatgctctgactgcagGCCTCCAGCAACACGTGTGAGCGATAAAGTGATGATACCACAAGATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCGTGAGgtaaggaattactagtctatggcaccctaggttttaattgtatttggatt #### Sf1_ID1669_10 --> 0 - 1 Original Alignment TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg gccatcagggggcaccggtgtggacattctatgccccttttgttttatagTCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCCCACCCACCTGGGCAC------------------ggtgggtaagtgttagaccagaatgtgtgccagcctcagaacccttggggc Alignment from CESAR TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg gccatcagggggcaccggtgtggacattctatgccccttttgttttatagTCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCCCACCCACCTGGGCAC------------------ggtgggtaagtgttagaccagaatgtgtgccagcctcagaacccttggggc Alignment from Spaln_aa2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGG gccatcagggggcaccggtgtggacattctatgccccttttgttttatagTCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCCCACCCACCTGGGCACGGTGGgtaagtgttagaccagaatgtgtgccagcctcagaacccttggggc Alignment from Spaln_nt2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGG gccatcagggggcaccggtgtggacattctatgccccttttgttttatagTCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCCCACCCACCTGGGCACGGTGGgtaagtgttagaccagaatgtgtgccagcctcagaacccttggggc Alignment from Pairagon TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGG gccatcagggggcaccggtgtggacattctatgccccttttgttttatagTCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCCCACCCACCTGGGCACGGTGGgtaagtgttagaccagaatgtgtgccagcctcagaacccttggggc Alignment from Exonerate_protein2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCC gccatcagggggcaccggtgtggacattctatgccccttttgttttatagTCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCCCACCCACCTGGGCACGGTGGGTAAGTgttagaccagaatgtgtgccagcctcagaacccttggggc Alignment from Exonerate_coding2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCC gccatcagggggcaccggtgtggacattctatgccccttttgttttatagTCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCCCACCCACCTGGGCACGGTGGGTAAGTgttagaccagaatgtgtgccagcctcagaacccttggggc Alignment from GeneWise TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCAC- gccatcagggggcaccggtgtggacattctatgccccttttgttttatagTCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCCCACCCACCTGGGCACGgtgggtaagtgttagaccagaatgtgtgccagcctcagaacccttggggc #### Sf1_ID1670_11 --> 2 - 1 Original Alignment atCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg caaatgtcctaataatttctcagtactctaattctaaacttcatttttagat---------GGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAggtaagtccgcttactctcttgggatctctgtctaggactgggagcaaatg Alignment from CESAR atCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg gggccagttcaaatgtcctaataatctctaattctaaacttcatttttagat---------GGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAggtaagtccgcttactctcttgggatctctgtctaggactgggagcaaatg Alignment from Spaln_aa2Genome ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG caaatgtcctaataatttctcagtactctaattctaaacttcatttttagAT---------GGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaagtccgcttactctcttgggatctctgtctaggactgggagcaaatg Alignment from Spaln_nt2Genome ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG caaatgtcctaataatttctcagtactctaattctaaacttcatttttagAT---------GGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaagtccgcttactctcttgggatctctgtctaggactgggagcaaatg Alignment from Pairagon ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG caaatgtcctaataatttctcagtactctaattctaaacttcatttttagAT---------GGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaagtccgcttactctcttgggatctctgtctaggactgggagcaaatg Alignment from Exonerate_protein2genome TGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG caaatgtcctaataatttctcagtactctaattctaaacttcatttttagATGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaagtccgcttactctcttgggatctctgtctaggactgggagcaaatg Alignment from Exonerate_coding2genome TGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG caaatgtcctaataatttctcagtactctaattctaaacttcatttttagATGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaagtccgcttactctcttgggatctctgtctaggactgggagcaaatg Alignment from GeneWise ATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG caaatgtcctaataatttctcagtactctaattctaaacttcatttttagAT---------GGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaagtccgcttactctcttgggatctctgtctaggactgggagcaaatg #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggcccatatctctgagagtctggagggtgtgctcttgcccgtcacagGTTATGAGCCGGAAGGGCGCGGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCACCTGAGGAATTGGAGTTGGACCCTATGGCCATGATGCAGAAGTACGAGGAGCATGTTCGGGAACAGCAGGCACAAGTAGAGAAGGAAGACTTCAGTGATATGGTGGCTGAGCATGCTGCTAAG------gtaggaaagccagcaattggtgggcctagaaggagggctatcctttctgg Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggcccatatctctgagagtctggagggtgtgctcttgcccgtcacagGTTATGAGCCGGAAGGGCGCGGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCACCTGAGGAATTGGAGTTGGACCCTATGGCCATGATGCAGAAGTACGAGGAGCATGTTCGGGAACAGCAGGCACAAGTAGAGAAGGAAGACTTCAGTGATATGGTGGCTGAGCATGCTGCT------AAGgtaggaaagccagcaattggtgggcctagaaggagggctatcctttctgg Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAG tggggcccatatctctgagagtctggagggtgtgctcttgcccgtcacagGTTATGAGCCGGAAGGGCGCGGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCACCTGAGGAATTGGAGTTGGACCCTATGGCCATGATGCAGAAGTACGAGGAGCATGTTCGGGAACAGCAGGCACAAGTAGAGAAGGAAGACTTCAGTGATATGGTGGCTGAGCATGCTGCTAAGgtaggaaagccagcaattggtgggcctagaaggagggctatcctttctgg Alignment from Spaln_nt2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAG tggggcccatatctctgagagtctggagggtgtgctcttgcccgtcacagGTTATGAGCCGGAAGGGCGCGGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCACCTGAGGAATTGGAGTTGGACCCTATGGCCATGATGCAGAAGTACGAGGAGCATGTTCGGGAACAGCAGGCACAAGTAGAGAAGGAAGACTTCAGTGATATGGTGGCTGAGCATGCTGCTAAGgtaggaaagccagcaattggtgggcctagaaggagggctatcctttctgg Alignment from Pairagon GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAG tggggcccatatctctgagagtctggagggtgtgctcttgcccgtcacagGTTATGAGCCGGAAGGGCGCGGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCACCTGAGGAATTGGAGTTGGACCCTATGGCCATGATGCAGAAGTACGAGGAGCATGTTCGGGAACAGCAGGCACAAGTAGAGAAGGAAGACTTCAGTGATATGGTGGCTGAGCATGCTGCTAAGgtaggaaagccagcaattggtgggcctagaaggagggctatcctttctgg Alignment from Exonerate_protein2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggcccatatctctgagagtctggagggtgtgctcttgcccgtcacagGTTATGAGCCGGAAGGGCGCGGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCACCTGAGGAATTGGAGTTGGACCCTATGGCCATGATGCAGAAGTACGAGGAGCATGTTCGGGAACAGCAGGCACAAGTAGAGAAGGAAGACTTCAGTGATATGGTGGCTGAGCATGCTGCT------AAGgtaggaaagccagcaattggtgggcctagaaggagggctatcctttctgg Alignment from Exonerate_coding2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggcccatatctctgagagtctggagggtgtgctcttgcccgtcacagGTTATGAGCCGGAAGGGCGCGGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCACCTGAGGAATTGGAGTTGGACCCTATGGCCATGATGCAGAAGTACGAGGAGCATGTTCGGGAACAGCAGGCACAAGTAGAGAAGGAAGACTTCAGTGATATGGTGGCTGAGCATGCTGCT------AAGgtaggaaagccagcaattggtgggcctagaaggagggctatcctttctgg Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATGGTGGCTGAGCATGCTGCTAAGCAGAAG tggggcccatatctctgagagtctggagggtgtgctcttgcccgtcacagGTTATGAGCCGGAAGGGCGCGGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCACCTGAGGAATTGGAGTTGGACCCTATGGCCATGATGCAGAAGTACGAGGAGCATGTTCGGGAACAGCAGGCACAAGTAGAGAAGGAAGACTTCAGTGATATGGTGGCTGAGCATGCTGCT------AAGgtaggaaagccagcaattggtgggcctagaaggagggctatcctttctgg #### Sf3b2_ID901_17 --> 0 - 2 Original Alignment ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag cagtaaataggcagtaagtacttgttgaactaactcacatttctctgtag---------------------------------------GGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACaggtcagtacagaggctgttcccctagagcagcctgcctgtctgtggctatg Alignment from CESAR ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag agtgccagatacagtaagtacttgttgaactaactcacatttctctgtag---------------------------------------GGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACaggtcagtacagaggctgttcccctagagcagcctgcctgtctgtggctatg Alignment from Spaln_aa2Genome GGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG cagtaaataggcagtaagtacttgttgaactaactcacatttctctgtagGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtcagtacagaggctgttcccctagagcagcctgcctgtctgtggctatg Alignment from Spaln_nt2Genome GGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG cagtaaataggcagtaagtacttgttgaactaactcacatttctctgtagGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtcagtacagaggctgttcccctagagcagcctgcctgtctgtggctatg Alignment from Pairagon ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG cagtaaataggcagtaagtacttgttgaactaactcacatttctctgtag---------------------------------------GGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtcagtacagaggctgttcccctagagcagcctgcctgtctgtggctatg Alignment from Exonerate_protein2genome GAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG cagtaaataggcagtaagtacttgttgaactaactcacatttctctgtaggggGAACTGGAACCTTCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtcagtacagaggctgttcccctagagcagcctgcctgtctgtggctatg Alignment from Exonerate_coding2genome GAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG cagtaaataggcagtaagtacttgttgaactaactcacatttctctgtaggggGAACTGGAACCTTCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtcagtacagaggctgttcccctagagcagcctgcctgtctgtggctatg Alignment from GeneWise GGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG cagtaaataggcagtaagtacttgttgaactaactcacatttctctgtagGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtcagtacagaggctgttcccctagagcagcctgcctgtctgtggctatg #### Sf3b2_ID908_10 --> 0 - 0 Original Alignment CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG--------- gagtcagaaaaggcggtgtgctgagatgtactgaaccttttgttgttaagCTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTCCCCAAGAAAAAGGGCTTTGAGGAGGAGCACAAAGACAGTGACGATGACAGCAGTGATGATGAGCAGAGTGGTTTCgtgggtacccctatgtgggagagagatgcagggcccagggaggtggagtg Alignment from CESAR CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG--------- gagtcagaaaaggcggtgtgctgagatgtactgaaccttttgttgttaagCTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTCCCCAAGAAAAAGGGCTTTGAGGAGGAGCACAAAGACAGTGACGATGACAGCAGTGATGATGAGCAGAGTGGTTTCgtgggtacccctatgtgggagagagatgcagggcccagggaggtggagtg Alignment from Spaln_aa2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG--------- gagtcagaaaaggcggtgtgctgagatgtactgaaccttttgttgttaagCTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTCCCCAAGAAAAAGGGCTTTGAGGAGGAGCACAAAGACAGTGACGATGACAGCAGTGATGATGAGCAGAGTGGTTTCgtgggtacccctatgtgggagagagatgcagggcccagggaggtggagtg Alignment from Spaln_nt2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG- gagtcagaaaaggcggtgtgctgagatgtactgaaccttttgttgttaagCTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTCCCCAAGAAAAAGGGCTTTGAGGAGGAGCACAAAGACAGTGACGATGACAGCAGTGATGATGAGCAGAgtggtttcgtgggtacccctatgtgggagagagatgcagggcccagggaggtggagtg Alignment from Pairagon CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG--------- gagtcagaaaaggcggtgtgctgagatgtactgaaccttttgttgttaagCTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTCCCCAAGAAAAAGGGCTTTGAGGAGGAGCACAAAGACAGTGACGATGACAGCAGTGATGATGAGCAGAGTGGTTTCgtgggtacccctatgtgggagagagatgcagggcccagggaggtggagtg Alignment from Exonerate_protein2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gagtcagaaaaggcggtgtgctgagatgtactgaaccttttgttgttaagCTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTCCCCAAGAAAAAGGGCTTTGAGGAGGAGCACAAAGACAGTGACGATGACAGCAGTGATGATGAGCAGagtggtttcgtgggtacccctatgtgggagagagatgcagggcccagggaggtggagtg Alignment from Exonerate_coding2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gagtcagaaaaggcggtgtgctgagatgtactgaaccttttgttgttaagCTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTCCCCAAGAAAAAGGGCTTTGAGGAGGAGCACAAAGACAGTGACGATGACAGCAGTGATGATGAGCAGagtggtttcgtgggtacccctatgtgggagagagatgcagggcccagggaggtggagtg Alignment from GeneWise CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG--------- gagtcagaaaaggcggtgtgctgagatgtactgaaccttttgttgttaagCTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTCCCCAAGAAAAAGGGCTTTGAGGAGGAGCACAAAGACAGTGACGATGACAGCAGTGATGATGAGCAGAGTGGTTTCgtgggtacccctatgtgggagagagatgcagggcccagggaggtggagtg #### Sf3b2_ID909_9 --> 0 - 0 Original Alignment AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gggatgcggatcctctgacttagacccccaaccaccctcctcctccctag------CGAAAGCGTCAGAACCGGAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGTTCCGGGGACCGAGAAAAGGACTCCGGTCGGTCCCGAGGCTCGGACCCCCCTGCAGCT---GTAGAGATTGAGTATGTGAGCGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAGgtaggtagggtggtgtgctctgaggacctaccttgctgagggggacaggg Alignment from CESAR AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG aggtgtgggatgcggatcctctgacccccaaccaccctcctcctccctag------CGAAAGCGTCAGAACCGGAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGTTCCGGGGACCGAGAAAAGGACTCCGGTCGGTCCCGAGGCTCGGACCCCCCTGCAGCT---GTAGAGATTGAGTATGTGAGCGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAGgtaggtagggtggtgtgctctgaggacctaccttgctgagggggacaggg Alignment from Spaln_aa2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gggatgcggatcctctgacttagacccccaaccaccctcctcctccctag------CGAAAGCGTCAGAACCGGAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGTTCCGGGGACCGAGAAAAGGACTCCGGTCGGTCCCGAGGCTCGGACCCCCCTGCAGCT---GTAGAGATTGAGTATGTGAGCGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAGgtaggtagggtggtgtgctctgaggacctaccttgctgagggggacaggg Alignment from Spaln_nt2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gggatgcggatcctctgacttagacccccaaccaccctcctcctccctag------CGAAAGCGTCAGAACCGGAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGTTCCGGGGACCGAGAAAAGGACTCCGGTCGGTCCCGAGGCTCGGACCCCCCTGCAGCT---GTAGAGATTGAGTATGTGAGCGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAGgtaggtagggtggtgtgctctgaggacctaccttgctgagggggacaggg Alignment from Pairagon AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gggatgcggatcctctgacttagacccccaaccaccctcctcctccctag------CGAAAGCGTCAGAACCGGAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGTTCCGGGGACCGAGAAAAGGACTCCGGTCGGTCCCGAGGCTCGGACCCCCCTGCAGCT---GTAGAGATTGAGTATGTGAGCGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAGgtaggtagggtggtgtgctctgaggacctaccttgctgagggggacaggg Alignment from Exonerate_protein2genome CGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gggatgcggatcctctgacttagacccccaaccaccctcctcctccctagCGAAAGCGTCAGAACCGGAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGTTCCGGGGACCGAGAAAAGGACTCCGGTCGGTCCCGAGGCTCGGACCCCCCTGCAGCT---GTAGAGATTGAGTATGTGAGCGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAGgtaggtagggtggtgtgctctgaggacctaccttgctgagggggacaggg Alignment from Exonerate_coding2genome CGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gggatgcggatcctctgacttagacccccaaccaccctcctcctccctagCGAAAGCGTCAGAACCGGAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGTTCCGGGGACCGAGAAAAGGACTCCGGTCGGTCCCGAGGCTCGGACCCCCCTGCAGCT---GTAGAGATTGAGTATGTGAGCGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAGgtaggtagggtggtgtgctctgaggacctaccttgctgagggggacaggg Alignment from GeneWise AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG gggatgcggatcctctgacttagacccccaaccaccctcctcctccctagCGA------AAGCGTCAGAACCGGAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGTTCCGGGGACCGAGAAAAGGACTCCGGTCGGTCCCGAGGCTCGGACCCCCCTGCAGCT---GTAGAGATTGAGTATGTGAGCGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAGgtaggtagggtggtgtgctctgaggacctaccttgctgagggggacaggg #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg agaggaggaaggcattgggtttcagcccgctccctgccctctgtcctcagATGGATGATCCTTCTGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGGAAGAGATGAACTCTCAG---ggtgtgtattgctattgtatcttgatgctgcaacacaggactgagccatat Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg agaggaggaaggcattgggtttcagcccgctccctgccctctgtcctcagATGGATGATCCTTCTGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGGAAGAGATGAACTCT---CAGggtgtgtattgctattgtatcttgatgctgcaacacaggactgagccatat Alignment from Spaln_aa2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG- agaggaggaaggcattgggtttcagcccgctccctgccctctgtcctcagATGGATGATCCTTCTGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGGAAGAGATGAACTCTCAGGgtgtgtattgctattgtatcttgatgctgcaacacaggactgagccatat Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG agaggaggaaggcattgggtttcagcccgctccctgccctctgtcctcagATGGATGATCCTTCTGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGGAAGAGATGAACTCT---CAGGgtgtgtattgctattgtatcttgatgctgcaacacaggactgagccatat Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG agaggaggaaggcattgggtttcagcccgctccctgccctctgtcctcagATGGATGATCCTTCTGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGGAAGAGATGAACTCT---CAGGgtgtgtattgctattgtatcttgatgctgcaacacaggactgagccatat Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGC agaggaggaaggcattgggtttcagcccgctccctgccctctgtcctcagATGGATGATCCTTCTGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGGAAGAGATGAACTCTCAGGgtgtgtattgctattgtatcttgatgctgcaacacaggactgagccatat Alignment from Exonerate_coding2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGC agaggaggaaggcattgggtttcagcccgctccctgccctctgtcctcagATGGATGATCCTTCTGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGGAAGAGATGAACTCTCAGGgtgtgtattgctattgtatcttgatgctgcaacacaggactgagccatat Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG agaggaggaaggcattgggtttcagcccgctccctgccctctgtcctcagATGGATGATCCTTCTGTGGGCCCCAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGGAAGAGATGAACTCT---CAGGgtgtgtattgctattgtatcttgatgctgcaacacaggactgagccatat #### Sfxn2_ID9969_7 --> 0 - 1 Original Alignment AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG---------a agccctggacacttgaaaagtgatccctctcttgtccgctctcctctcagAGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGGAATGGAAAagtaaggtggatggggaacacctcatacatcaggagggatccttgaatacc Alignment from CESAR AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG---------a agccctggacacttgaaaagtgatccctctcttgtccgctctcctctcagAGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGGAATGGAAAagtaaggtggatggggaacacctcatacatcaggagggatccttgaatacc Alignment from Spaln_aa2Genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG---------A agccctggacacttgaaaagtgatccctctcttgtccgctctcctctcagAGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGGAATGGAAAAgtaaggtggatggggaacacctcatacatcaggagggatccttgaatacc Alignment from Spaln_nt2Genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG---------A agccctggacacttgaaaagtgatccctctcttgtccgctctcctctcagAGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGGAATGGAAAAgtaaggtggatggggaacacctcatacatcaggagggatccttgaatacc Alignment from Pairagon AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG---------A agccctggacacttgaaaagtgatccctctcttgtccgctctcctctcagAGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGGAATGGAAAAgtaaggtggatggggaacacctcatacatcaggagggatccttgaatacc Alignment from Exonerate_protein2genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGA agccctggacacttgaaaagtgatccctctcttgtccgctctcctctcagAGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGGaatggaaaagtaaggtggatggggaacacctcatacatcaggagggatccttgaatacc Alignment from Exonerate_coding2genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGA agccctggacacttgaaaagtgatccctctcttgtccgctctcctctcagAGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGGaatggaaaagtaaggtggatggggaacacctcatacatcaggagggatccttgaatacc Alignment from GeneWise AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG---------A agccctggacacttgaaaagtgatccctctcttgtccgctctcctctcagAGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGGAATGGAAAAgtaaggtggatggggaacacctcatacatcaggagggatccttgaatacc #### Sfxn2_ID9970_8 --> 2 - 0 Original Alignment tcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--- ttggctgagatttgtctgcagcagtgggttctctctctcttcttatttagtcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAGCgtaaggcattctccctgttattcccccacactcccaccgcatgccgacat Alignment from CESAR tcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--- ttggctgagatttgtctgcagcagtgggttctctctctcttcttatttagtcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAGCgtaaggcattctccctgttattcccccacactcccaccgcatgccgacat Alignment from Spaln_aa2Genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAAG ttggctgagatttgtctgcagcagtgggttctctctctcttcttatttagTCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAGCgtaaggcattctccctgttattcccccacactcccaccgcatgccgacat Alignment from Spaln_nt2Genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--- ttggctgagatttgtctgcagcagtgggttctctctctcttcttatttagTCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAGCgtaaggcattctccctgttattcccccacactcccaccgcatgccgacat Alignment from Pairagon TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--- ttggctgagatttgtctgcagcagtgggttctctctctcttcttatttagTCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAGCgtaaggcattctccctgttattcccccacactcccaccgcatgccgacat Alignment from Exonerate_protein2genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAAG ttggctgagatttgtctgcagcagtgggttctctctctcttcttatttagTCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAGCgtaaggcattctccctgttattcccccacactcccaccgcatgccgacat Alignment from Exonerate_coding2genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAA ttggctgagatttgtctgcagcagtgggttctctctctcttcttatttagTCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAgagcgtaaggcattctccctgttattcccccacactcccaccgcatgccgacat Alignment from GeneWise TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAAG ttggctgagatttgtctgcagcagtgggttctctctctcttcttatttagTCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAGAGCgtaaggcattctccctgttattcccccacactcccaccgcatgccgacat #### Sfxn3_ID9284_2 --> 1 - 2 Original Alignment gGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTACag acaggtctgacccctgccacagcctctttctttttttttttttttttaaggGCTGGTGCGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCTAAATACGTGTATGACTCAGCATTCCATCCAGACACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTT---aggtatgtgtacatatcctgtgcctcctgcctgagtgctatgcccagagcat Alignment from CESAR gGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTC---TACag acaggtctgacccctgccacagcctctttctttttttttttttttttaaggGCTGGTGCGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCTAAATACGTGTATGACTCAGCATTCCATCCAGACACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTTAGGTATgtgtacatatcctgtgcctcctgcctgagtgctatgcccagagcat Alignment from Spaln_aa2Genome GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTC---TACAG acaggtctgacccctgccacagcctctttctttttttttttttttttaagGGCTGGTGCGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCTAAATACGTGTATGACTCAGCATTCCATCCAGACACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTTAGGTATGTgtacatatcctgtgcctcctgcctgagtgctatgcccagagcat Alignment from Spaln_nt2Genome GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTC---TACAG acaggtctgacccctgccacagcctctttctttttttttttttttttaagGGCTGGTGCGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCTAAATACGTGTATGACTCAGCATTCCATCCAGACACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTTAGGTATGTgtacatatcctgtgcctcctgcctgagtgctatgcccagagcat Alignment from Pairagon GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTACAG acaggtctgacccctgccacagcctctttctttttttttttttttttaagGGCTGGTGCGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCTAAATACGTGTATGACTCAGCATTCCATCCAGACACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTT---TAGgtatgtgtacatatcctgtgcctcctgcctgagtgctatgcccagagcat Alignment from Exonerate_protein2genome GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTACAG acaggtctgacccctgccacagcctctttctttttttttttttttttaagGGCTGGTGCGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCTAAATACGTGTATGACTCAGCATTCCATCCAGACACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTT---AGgtatgtgtacatatcctgtgcctcctgcctgagtgctatgcccagagcat Alignment from Exonerate_coding2genome GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTCTACAG acaggtctgacccctgccacagcctctttctttttttttttttttttaagGGCTGGTGCGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCTAAATACGTGTATGACTCAGCATTCCATCCAGACACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTT---AGgtatgtgtacatatcctgtgcctcctgcctgagtgctatgcccagagcat Alignment from GeneWise GGCTGGTGTGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCCAAATACGTGTATGACTCAGCATTCCATCCGGACACGGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTCACCTTC---TACAG acaggtctgacccctgccacagcctctttctttttttttttttttttaagGGCTGGTGCGGCAACCCCGGGTCTCACTGAGGACCAGCTATGGCGAGCTAAATACGTGTATGACTCAGCATTCCATCCAGACACAGGGGAGAAGGTGGTCTTGATTGGCCGTATGTCAGCCCAGGTGCCCATGAACATGACCATTACTGGCTGCATGCTTACCTTTAGGTATGTgtacatatcctgtgcctcctgcctgagtgctatgcccagagcat #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG aaactcgggctggacacatctctccctgttccccacctgattgtccctaggCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCT---------gtaagatctgacttcttgccctaccactattggcctctcacagatccttt Alignment from CESAR gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG aaactcgggctggacacatctctccctgttccccacctgattgtccctaggCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCT---------gtaagatctgacttcttgccctaccactattggcctctcac Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCT aaactcgggctggacacatctctccctgttccccacctgattgtccctagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTgtaagatctgacttcttgccctaccactattggcctctcacagatccttt Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCT aaactcgggctggacacatctctccctgttccccacctgattgtccctagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTgtaagatctgacttcttgccctaccactattggcctctcacagatccttt Alignment from Pairagon GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCT aaactcgggctggacacatctctccctgttccccacctgattgtccctagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTgtaagatctgacttcttgccctaccactattggcctctcacagatccttt Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG aaactcgggctggacacatctctccctgttccccacctgattgtccctagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTGTAAGATCTgacttcttgccctaccactattggcctctcacagatccttt Alignment from Exonerate_coding2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG aaactcgggctggacacatctctccctgttccccacctgattgtccctagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTGTAAGATCTgacttcttgccctaccactattggcctctcacagatccttt Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG aaactcgggctggacacatctctccctgttccccacctgattgtccctagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAG---------TCTgtaagatctgacttcttgccctaccactattggcctctcacagatccttt #### Sipa1_ID1138_14 --> 1 - 0 Original Alignment gCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtgtgggagcctccgcttctgctgtattgagcagtagctttcctttcagg---GAACCTGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAACTCCAGGAGGACTTGCAGAGGgtgagttgagagcctggcaggggtgcacgggggtgcccctgacaagggct Alignment from CESAR gCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG gagtgtgtgggagcctccgcttctgtattgagcagtagctttcctttcagg---GAACCTGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAACTCCAGGAGGACTTGCAGAGGgtgagttgagagcctggcaggggtgcacgggggtgcccctgacaagggct Alignment from Spaln_aa2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtgtgggagcctccgcttctgctgtattgagcagtagctttcctttcagGGAACCTGGGAGCCTG---TCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAACTCCAGGAGGACTTGCAGAGGgtgagttgagagcctggcaggggtgcacgggggtgcccctgacaagggct Alignment from Spaln_nt2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtgtgggagcctccgcttctgctgtattgagcagtagctttcctttcagG---GAACCTGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAACTCCAGGAGGACTTGCAGAGGgtgagttgagagcctggcaggggtgcacgggggtgcccctgacaagggct Alignment from Pairagon GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtgtgggagcctccgcttctgctgtattgagcagtagctttcctttcagG---GAACCTGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAACTCCAGGAGGACTTGCAGAGGgtgagttgagagcctggcaggggtgcacgggggtgcccctgacaagggct Alignment from Exonerate_protein2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtgtgggagcctccgcttctgctgtattgagcagtagctttcctttcagG---GAACCTGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAACTCCAGGAGGACTTGCAGAGGgtgagttgagagcctggcaggggtgcacgggggtgcccctgacaagggct Alignment from Exonerate_coding2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtgtgggagcctccgcttctgctgtattgagcagtagctttcctttcagG---GAACCTGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAACTCCAGGAGGACTTGCAGAGGgtgagttgagagcctggcaggggtgcacgggggtgcccctgacaagggct Alignment from GeneWise GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtgtgggagcctccgcttctgctgtattgagcagtagctttcctttcagG---GAACCTGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAACTCCAGGAGGACTTGCAGAGGgtgagttgagagcctggcaggggtgcacgggggtgcccctgacaagggct #### Sipa1_ID1139_13 --> 2 - 2 Original Alignment gaCAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---------ga gccaggaggatgtttattccttcagaccagtccttttctattctccttagggCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTTATGGCGACgagtaagctttctgccctaacatacccactcttgtgtttgtgtacttccctg Alignment from CESAR gaCAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---------ga gccaggaggatgtttattccttcagaccagtccttttctattctccttagggCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTTATGGCGACgagtaagctttctgccctaacatacccactcttgtgtttgtgtacttccctg Alignment from Spaln_aa2Genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAG-------- gccaggaggatgtttattccttcagaccagtccttttctattctccttagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTTATGGCGACGAgtaagctttctgccctaacatacccactcttgtgtttgtgtacttccctg Alignment from Spaln_nt2Genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---------GA gccaggaggatgtttattccttcagaccagtccttttctattctccttagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTTATGGCGACGAgtaagctttctgccctaacatacccactcttgtgtttgtgtacttccctg Alignment from Pairagon GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---------GA gccaggaggatgtttattccttcagaccagtccttttctattctccttagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTTATGGCGACGAgtaagctttctgccctaacatacccactcttgtgtttgtgtacttccctg Alignment from Exonerate_protein2genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA gccaggaggatgtttattccttcagaccagtccttttctattctccttagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTTAtggcgacgagtaagctttctgccctaacatacccactcttgtgtttgtgtacttccctg Alignment from Exonerate_coding2genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA gccaggaggatgtttattccttcagaccagtccttttctattctccttagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTTAtggcgacgagtaagctttctgccctaacatacccactcttgtgtttgtgtacttccctg Alignment from GeneWise GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---------GA gccaggaggatgtttattccttcagaccagtccttttctattctccttagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTTATGGCGACGAgtaagctttctgccctaacatacccactcttgtgtttgtgtacttccctg #### Sipa1_ID1140_12 --> 2 - 1 Original Alignment ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg ctcccaaccccaccctccctaatcatgctaactttgattttgttcttaagtt------GAAGCTGGTAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCCCGGGAGggtgagtctgcaagggcccagaggggacgagccaggaggatgtttattcct Alignment from CESAR ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg tccctcctcccaaccccaccctccctgctaactttgattttgttcttaagtt------GAAGCTGGTAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCCCGGGAGggtgagtctgcaagggcccagaggggacgagccaggaggatgtttattcct Alignment from Spaln_aa2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ctcccaaccccaccctccctaatcatgctaactttgattttgttcttaagTT------GAAGCTGGTAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCCCGGGAGGgtgagtctgcaagggcccagaggggacgagccaggaggatgtttattcct Alignment from Spaln_nt2Genome TCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ctcccaaccccaccctccctaatcatgctaactttgattttgttcttaagT-TGAAGCTGGTAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCCCGGGAGGgtgagtctgcaagggcccagaggggacgagccaggaggatgtttattcct Alignment from Pairagon TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ctcccaaccccaccctccctaatcatgctaactttgattttgttcttaagTT------GAAGCTGGTAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCCCGGGAGGgtgagtctgcaagggcccagaggggacgagccaggaggatgtttattcct Alignment from Exonerate_protein2genome AAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ctcccaaccccaccctccctaatcatgctaactttgattttgttcttaagttgAAGCTGGTAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCCCGGGAGGgtgagtctgcaagggcccagaggggacgagccaggaggatgtttattcct Alignment from Exonerate_coding2genome AAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ctcccaaccccaccctccctaatcatgctaactttgattttgttcttaagttgAAGCTGGTAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCCCGGGAGGgtgagtctgcaagggcccagaggggacgagccaggaggatgtttattcct Alignment from GeneWise TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ctcccaaccccaccctccctaatcatgctaactttgattttgttcttaagTT------GAAGCTGGTAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCCCGGGAGGgtgagtctgcaagggcccagaggggacgagccaggaggatgtttattcct #### Sipa1_ID1141_11 --> 0 - 1 Original Alignment GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gcagaggtgacattggatgctacaccgtctttttccttttttggccttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACTCTGTCTCTGCGGAATTCCATCAGT---agtaggtagtcggagccagggaataggtcaggaggagaagactgcccctac Alignment from CESAR GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gcagaggtgacattggatgctacaccgtctttttccttttttggccttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACTCTGTCTCTGCGGAATTCCATCAGT---agtaggtagtcggagccagggaataggtcaggaggagaagactgcccctac Alignment from Spaln_aa2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGT- gcagaggtgacattggatgctacaccgtctttttccttttttggccttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACTCTGTCTCTGCGGAATTCCATCAGTAgtaggtagtcggagccagggaataggtcaggaggagaagactgcccctac Alignment from Spaln_nt2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA- gcagaggtgacattggatgctacaccgtctttttccttttttggccttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACTCTGTCTCTGCGGAATTCCATCAGTAGTAGgtagtcggagccagggaataggtcaggaggagaagactgcccctac Alignment from Pairagon GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTA gcagaggtgacattggatgctacaccgtctttttccttttttggccttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACTCTGTCTCTGCGGAATTCCATCAGTAgtaggtagtcggagccagggaataggtcaggaggagaagactgcccctac Alignment from Exonerate_protein2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gcagaggtgacattggatgctacaccgtctttttccttttttggccttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACTCTGTCTCTGCGGAATTCCATCAGTAGTAggtagtcggagccagggaataggtcaggaggagaagactgcccctac Alignment from Exonerate_coding2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gcagaggtgacattggatgctacaccgtctttttccttttttggccttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACTCTGTCTCTGCGGAATTCCATCAGTAGTAggtagtcggagccagggaataggtcaggaggagaagactgcccctac Alignment from GeneWise GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTA gcagaggtgacattggatgctacaccgtctttttccttttttggccttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACTCTGTCTCTGCGGAATTCCATCAGTAgtaggtagtcggagccagggaataggtcaggaggagaagactgcccctac #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG--------- tagctgtggaaaagcagctctccgttctgtaacacattgtgcctttgcagcTCCCTGTCCGATGAGGCCCCAGTCCTGCCCAACACCACGCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCGCCTGATACTGACAGAGAAACACCCCCTTCCCAGTCATCTCTGgtaatgtgcagaggtgacattggatgctacaccgttttggatctgcattt Alignment from CESAR cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG--------- tagctgtggaaaagcagctctccgttctgtaacacattgtgcctttgcagcTCCCTGTCCGATGAGGCCCCAGTCCTGCCCAACACCACGCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCGCCTGATACTGACAGAGAAACACCCCCTTCCCAGTCATCTCTGgtaatgtgcagaggtgacattggatgctacaccgtctttttccttttttg Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG--------- tagctgtggaaaagcagctctccgttctgtaacacattgtgcctttgcagCTCCCTGTCCGATGAGGCCCCAGTCCTGCCCAACACCACGCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCGCCTGATACTGACAGAGAAACACCCCCTTCCCAGTCATCTCTGgtaatgtgcagaggtgacattggatgctacaccgttttggatctgcattt Alignment from Spaln_nt2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCA tagctgtggaaaagcagctctccgttctgtaacacattgtgcctttgcagCTCCCTGTCCGATGAGGCCCCAGTCCTGCCCAACACCACGCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCGCCTGATACTGACAGAGAAACACCCCCTTCCCAgtcatctctggtaatgtgcagaggtgacattggatgctacaccgttaatttgtttctttt Alignment from Pairagon CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCC-------------------------------------------------------------- tagctgtggaaaagcagctctccgttctgtaacacattgtgcctttgcagCTCCCTGTCCGATGAGGCCCCAGTCCTGCCCAACACCACGCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCGCCTGATACTGACAGAGAAACACCCCCTTCCCAGTCATCTCTGGTAATGTGCAGAGGTGACATTGGATGCTACACCGTTAATTTGTTTCTTTT Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG tagctgtggaaaagcagctctccgttctgtaacacattgtgcctttgcagCTCCCTGTCCGATGAGGCCCCAGTCCTGCCCAACACCACGCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCGCCTGATACTGACAGAGAAACACCCCCTTCCCAGtcatctctggtaatgtgcagaggtgacattggatgctacaccgttttggatctgcattt Alignment from Exonerate_coding2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG tagctgtggaaaagcagctctccgttctgtaacacattgtgcctttgcagCTCCCTGTCCGATGAGGCCCCAGTCCTGCCCAACACCACGCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCGCCTGATACTGACAGAGAAACACCCCCTTCCCAGtcatctctggtaatgtgcagaggtgacattggatgctacaccgttttggatctgcattt Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCC-------------------------------------------------------------- tagctgtggaaaagcagctctccgttctgtaacacattgtgcctttgcagCTCCCTGTCCGATGAGGCCCCAGTCCTGCCCAACACCACGCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCGCCTGATACTGACAGAGAAACACCCCCTTCCCAGTCATCTCTGGTAATGTGCAGAGGTGACATTGGATGCTACACCGTTAATTTGTTTCTTTT #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment ------CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag aggggggcacaacaaagatcacctcttcgggaagcatggttgtcccccagAACCGGCTCCTGAGGAAGCGTCATATTGGCAATGATATTGTGACCATCGTGTTCCAGGAGCCTGGCAGCAAGCCCTTCTGCCCTACGACAATCTGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGAGCACATGCTCCCTGCACCCCCCACACCTCATACaggtaagggctagggtgaactcaggtcatagggtgaactcaggtcatgggca Alignment from CESAR ------CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag aggggggcacaacaaagatcacctcttcgggaagcatggttgtcccccagAACCGGCTCCTGAGGAAGCGTCATATTGGCAATGATATTGTGACCATCGTGTTCCAGGAGCCTGGCAGCAAGCCCTTCTGCCCTACGACAATCTGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGAGCACATGCTCCCTGCACCCCCCACACCTCATACaggtaagggctagggtgaactcaggtcatagggtgaactcaggtcatgggca Alignment from Spaln_aa2Genome CTCCTGAGGAAG------CGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG aggggggcacaacaaagatcacctcttcgggaagcatggttgtcccccagAACCGGCTCCTGAGGAAGCGTCATATTGGCAATGATATTGTGACCATCGTGTTCCAGGAGCCTGGCAGCAAGCCCTTCTGCCCTACGACAATCTGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGAGCACATGCTCCCTGCACCCCCCACACCTCATACAGgtaagggctagggtgaactcaggtcatagggtgaactcaggtcatgggca Alignment from Spaln_nt2Genome GCTCCTGAGG-----AAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG aggggggcacaacaaagatcacctcttcgggaagcatggttgtcccccagAACCGGCTCCTGAGGAAGCGTCATATTGGCAATGATATTGTGACCATCGTGTTCCAGGAGCCTGGCAGCAAGCCCTTCTGCCCTACGACAATCTGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGAGCACATGCTCCCTGCACCCCCCACACCTCATACAGgtaagggctagggtgaactcaggtcatagggtgaactcaggtcatgggca Alignment from Pairagon ------CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG aggggggcacaacaaagatcacctcttcgggaagcatggttgtcccccagAACCGGCTCCTGAGGAAGCGTCATATTGGCAATGATATTGTGACCATCGTGTTCCAGGAGCCTGGCAGCAAGCCCTTCTGCCCTACGACAATCTGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGAGCACATGCTCCCTGCACCCCCCACACCTCATACAGgtaagggctagggtgaactcaggtcatagggtgaactcaggtcatgggca Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG aggggggcacaacaaagatcacctcttcgggaagcatggttgtcccccagaaccggCTCCTGAGGAAGCGTCATATTGGCAATGATATTGTGACCATCGTGTTCCAGGAGCCTGGCAGCAAGCCCTTCTGCCCTACGACAATCTGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGAGCACATGCTCCCTGCACCCCCCACACCTCATACAGgtaagggctagggtgaactcaggtcatagggtgaactcaggtcatgggca Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG aggggggcacaacaaagatcacctcttcgggaagcatggttgtcccccagaaccggCTCCTGAGGAAGCGTCATATTGGCAATGATATTGTGACCATCGTGTTCCAGGAGCCTGGCAGCAAGCCCTTCTGCCCTACGACAATCTGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGAGCACATGCTCCCTGCACCCCCCACACCTCATACAGgtaagggctagggtgaactcaggtcatagggtgaactcaggtcatgggca Alignment from GeneWise ------CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG aggggggcacaacaaagatcacctcttcgggaagcatggttgtcccccagAACCGGCTCCTGAGGAAGCGTCATATTGGCAATGATATTGTGACCATCGTGTTCCAGGAGCCTGGCAGCAAGCCCTTCTGCCCTACGACAATCTGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGAGCACATGCTCCCTGCACCCCCCACACCTCATACAGgtaagggctagggtgaactcaggtcatagggtgaactcaggtcatgggca #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tgTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCT---------------------------g aggcaggggcatgatcttgctatgagggttttctctgtcttgctttgcagtgTTTGCCTTCTCCAGTAGCTATGCCTTCCTGCTGATTGCCAAGTCACTGCAGGGAATTGGCTCCTCTTGCTCATCTGTGGCTTATGTGGTCCCCAGGGAGATGTTTACTggtgaggatgaaatcatcagtgtgtggggagctgagctggggacttatgtg Alignment from CESAR tgTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCT---------------------------g aggcaggggcatgatcttgctatgagggttttctctgtcttgctttgcagtgTTTGCCTTCTCCAGTAGCTATGCCTTCCTGCTGATTGCCAAGTCACTGCAGGGAATTGGCTCCTCTTGCTCATCTGTGGCTTATGTGGTCCCCAGGGAGATGTTTACTggtgaggatgaaatcatcagtgtgtggggagctgagctggggacttatgtg Alignment from Spaln_aa2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG aggcaggggcatgatcttgctatgagggttttctctgtcttgctttgcagTGTTTGCCTTCTCCAGTAGCTATGCCTTCCTGCTGATTGCCAAGTCACTGCAGGGAATTGGCTCCTCTTGCTCATCTGTGGCTTatgtggtccccagggagatgtttactggtgaggatgaaatcatcagtgtgtggggagctgagctggggacttatgtg Alignment from Spaln_nt2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCT-----G aggcaggggcatgatcttgctatgagggttttctctgtcttgctttgcagTGTTTGCCTTCTCCAGTAGCTATGCCTTCCTGCTGATTGCCAAGTCACTGCAGGGAATTGGCTCCTCTTGCTCATCTGTGGCTTATGTGgtccccagggagatgtttactggtgaggatgaaatcatcagtgtgtggggagctgagctggggacttatgtg Alignment from Pairagon TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGG---------------------------CTG aggcaggggcatgatcttgctatgagggttttctctgtcttgctttgcagTGTTTGCCTTCTCCAGTAGCTATGCCTTCCTGCTGATTGCCAAGTCACTGCAGGGAATTGGCTCCTCTTGCTCATCTGTGGCTTATGTGGTCCCCAGGGAGATGTTTACTGgtgaggatgaaatcatcagtgtgtggggagctgagctggggacttatgtg Alignment from Exonerate_protein2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG aggcaggggcatgatcttgctatgagggttttctctgtcttgctttgcagTGTTTGCCTTCTCCAGTAGCTATGCCTTCCTGCTGATTGCCAAGTCACTGCAGGGAATTGGCTCCTCTTGCTCATCTGTGGCTTatgtggtccccagggagatgtttactggtgaggatgaaatcatcagtgtgtggggagctgagctggggacttatgtg Alignment from Exonerate_coding2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG aggcaggggcatgatcttgctatgagggttttctctgtcttgctttgcagTGTTTGCCTTCTCCAGTAGCTATGCCTTCCTGCTGATTGCCAAGTCACTGCAGGGAATTGGCTCCTCTTGCTCATCTGTGGCTTatgtggtccccagggagatgtttactggtgaggatgaaatcatcagtgtgtggggagctgagctggggacttatgtg Alignment from GeneWise TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCT---------------------------G aggcaggggcatgatcttgctatgagggttttctctgtcttgctttgcagTGTTTGCCTTCTCCAGTAGCTATGCCTTCCTGCTGATTGCCAAGTCACTGCAGGGAATTGGCTCCTCTTGCTCATCTGTGGCTTATGTGGTCCCCAGGGAGATGTTTACTGgtgaggatgaaatcatcagtgtgtggggagctgagctggggacttatgtg #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATC------ag aggacagggaatatcgcaccccacactgctgttgctcctcacgttcctagggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGTTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCTAGTGAACTCTTCCCCACTGTGATCGCTATAaggtatgactgtcattggctcaaggagcgcactccagcctagtgaaaagctg Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATC------ag aggacagggaatatcgcaccccacactgctgttgctcctcacgttcctagggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGTTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCTAGTGAACTCTTCCCCACTGTGATCGCTATAaggtatgactgtcattggctcaaggagcgcactccagcctagtgaaaagctg Alignment from Spaln_aa2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAGG----- aggacagggaatatcgcaccccacactgctgttgctcctcacgttcctagGGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGTTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCTAGTGAACTCTTCCCCACTGTGATCGCTATAAGgtatgactgtcattggctcaaggagcgcactccagcctagtgaaaagctg Alignment from Spaln_nt2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATC------AG aggacagggaatatcgcaccccacactgctgttgctcctcacgttcctagGGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGTTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCTAGTGAACTCTTCCCCACTGTGATCGCTATAAGgtatgactgtcattggctcaaggagcgcactccagcctagtgaaaagctg Alignment from Pairagon GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATC------AG aggacagggaatatcgcaccccacactgctgttgctcctcacgttcctagGGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGTTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCTAGTGAACTCTTCCCCACTGTGATCGCTATAAGgtatgactgtcattggctcaaggagcgcactccagcctagtgaaaagctg Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTG------ATCAG aggacagggaatatcgcaccccacactgctgttgctcctcacgttcctagGGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGTTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCTAGTGAACTCTTCCCCACTGTGATCGCTATAAGgtatgactgtcattggctcaaggagcgcactccagcctagtgaaaagctg Alignment from Exonerate_coding2genome GATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCA------G aggacagggaatatcgcaccccacactgctgttgctcctcacgttcctaggGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGTTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCTAGTGAACTCTTCCCCACTGTGATCGCTATAAGgtatgactgtcattggctcaaggagcgcactccagcctagtgaaaagctg Alignment from GeneWise GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAGGATG-- aggacagggaatatcgcaccccacactgctgttgctcctcacgttcctagGGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGTTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCTAGTGAACTCTTCCCCACTGTGATCGCTATAAGgtatgactgtcattggctcaaggagcgcactccagcctagtgaaaagctg #### Slc22a12_ID1790_7 --> 1 - 1 Original Alignment gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg gcccaggctaatctgtctaggccactgtcttttctctttctctccttcagg---------GGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGTCAATTATTGGGATTGTAGACTTCCCGGTGAAGACAGGCAGCCTGCTCCTGATCAGCCGCTTGGGCCAGCGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTGTCCAATATACTGGTGCCCCATggtaagatgccacctggctgagggtgagcataaggaggcaaaactgtggtg Alignment from CESAR gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg gagcagctggcccaggctaatctgttgtcttttctctttctctccttcagg---------GGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGTCAATTATTGGGATTGTAGACTTCCCGGTGAAGACAGGCAGCCTGCTCCTGATCAGCCGCTTGGGCCAGCGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTGTCCAATATACTGGTGCCCCATggtaagatgccacctggctgagggtgagcataaggaggcaaaactgtggtg Alignment from Spaln_aa2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG gcccaggctaatctgtctaggccactgtcttttctctttctctccttcagG---------GGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGTCAATTATTGGGATTGTAGACTTCCCGGTGAAGACAGGCAGCCTGCTCCTGATCAGCCGCTTGGGCCAGCGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTGTCCAATATACTGGTGCCCCATGgtaagatgccacctggctgagggtgagcataaggaggcaaaactgtggtg Alignment from Spaln_nt2Genome G--CTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG gcccaggctaatctgtctaggccactgtcttttctctttctctccttcagGGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGTCAATTATTGGGATTGTAGACTTCCCGGTGAAGACAGGCAGCCTGCTCCTGATCAGCCGCTTGGGCCAGCGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTGTCCAATATACTGGTGCCCCATGgtaagatgccacctggctgagggtgagcataaggaggcaaaactgtggtg Alignment from Pairagon TGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG gcccaggctaatctgtctaggccactgtcttttctctttctctccttcagGGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGTCAATTATTGGGATTGTAGACTTCCCGGTGAAGACAGGCAGCCTGCTCCTGATCAGCCGCTTGGGCCAGCGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTGTCCAATATACTGGTGCCCCATGgtaagatgccacctggctgagggtgagcataaggaggcaaaactgtggtg Alignment from Exonerate_protein2genome TGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG gcccaggctaatctgtctaggccactgtcttttctctttctctccttcagGGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGTCAATTATTGGGATTGTAGACTTCCCGGTGAAGACAGGCAGCCTGCTCCTGATCAGCCGCTTGGGCCAGCGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTGTCCAATATACTGGTGCCCCATGgtaagatgccacctggctgagggtgagcataaggaggcaaaactgtggtg Alignment from Exonerate_coding2genome TGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG gcccaggctaatctgtctaggccactgtcttttctctttctctccttcagGGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGTCAATTATTGGGATTGTAGACTTCCCGGTGAAGACAGGCAGCCTGCTCCTGATCAGCCGCTTGGGCCAGCGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTGTCCAATATACTGGTGCCCCATGgtaagatgccacctggctgagggtgagcataaggaggcaaaactgtggtg Alignment from GeneWise ----------CTGTGCTGGTTTGCCTTT---GGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG gcccaggctaatctgtctagGCCACTGTCTTTTCTCTTTCTCTCCTTCAGGGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGTCAATTATTGGGATTGTAGACTTCCCGGTGAAGACAGGCAGCCTGCTCCTGATCAGCCGCTTGGGCCAGCGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTGTCCAATATACTGGTGCCCCATGgtaagatgccacctggctgagggtgagcataaggaggcaaaactgtggtg #### Slc22a12_ID1794_3 --> 1 - 1 Original Alignment gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt gagctgtggttgctggccattagcgtgtcccatctgcttttcctccccagg---GGGCGCAGAAGGGTACTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCTGCTGCCTTCATGCCCACCTTCCCCCTTCACTGTCTGTTTTGTTTCCTGCTGGCCTCTGCAGTGGCAGGCATCATGATGAACACAGCCAGTCTCtgtaagacccctgattagtgtgaggtcgtgaaggctgcatgccggacccag Alignment from CESAR gTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt ccagagctgtggttgctggccattatgtcccatctgcttttcctccccagg---GGGCGCAGAAGGGTACTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCTGCTGCCTTCATGCCCACCTTCCCCCTTCACTGTCTGTTTTGTTTCCTGCTGGCCTCTGCAGTGGCAGGCATCATGATGAACACAGCCAGTCTCtgtaagacccctgattagtgtgaggtcgtgaaggctgcatgccggacccag Alignment from Spaln_aa2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gagctgtggttgctggccattagcgtgtcccatctgcttttcctccccagG---GGGCGCAGAAGGGTACTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCTGCTGCCTTCATGCCCACCTTCCCCCTTCACTGTCTGTTTTGTTTCCTGCTGGCCTCTGCAGTGGCAGGCATCATGATGAACACAGCCAGTCTCTgtaagacccctgattagtgtgaggtcgtgaaggctgcatgccggacccag Alignment from Spaln_nt2Genome GGG-CGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gagctgtggttgctggccattagcgtgtcccatctgcttttcctccccagGGGGCGCAGAAGGGTACTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCTGCTGCCTTCATGCCCACCTTCCCCCTTCACTGTCTGTTTTGTTTCCTGCTGGCCTCTGCAGTGGCAGGCATCATGATGAACACAGCCAGTCTCTgtaagacccctgattagtgtgaggtcgtgaaggctgcatgccggacccag Alignment from Pairagon GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gagctgtggttgctggccattagcgtgtcccatctgcttttcctccccagG---GGGCGCAGAAGGGTACTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCTGCTGCCTTCATGCCCACCTTCCCCCTTCACTGTCTGTTTTGTTTCCTGCTGGCCTCTGCAGTGGCAGGCATCATGATGAACACAGCCAGTCTCTgtaagacccctgattagtgtgaggtcgtgaaggctgcatgccggacccag Alignment from Exonerate_protein2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gagctgtggttgctggccattagcgtgtcccatctgcttttcctccccagG---GGGCGCAGAAGGGTACTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCTGCTGCCTTCATGCCCACCTTCCCCCTTCACTGTCTGTTTTGTTTCCTGCTGGCCTCTGCAGTGGCAGGCATCATGATGAACACAGCCAGTCTCTgtaagacccctgattagtgtgaggtcgtgaaggctgcatgccggacccag Alignment from Exonerate_coding2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gagctgtggttgctggccattagcgtgtcccatctgcttttcctccccagG---GGGCGCAGAAGGGTACTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCTGCTGCCTTCATGCCCACCTTCCCCCTTCACTGTCTGTTTTGTTTCCTGCTGGCCTCTGCAGTGGCAGGCATCATGATGAACACAGCCAGTCTCTgtaagacccctgattagtgtgaggtcgtgaaggctgcatgccggacccag Alignment from GeneWise GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gagctgtggttgctggccattagcgtgtcccatctgcttttcctccccagG---GGGCGCAGAAGGGTACTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCTGCTGCCTTCATGCCCACCTTCCCCCTTCACTGTCTGTTTTGTTTCCTGCTGGCCTCTGCAGTGGCAGGCATCATGATGAACACAGCCAGTCTCTgtaagacccctgattagtgtgaggtcgtgaaggctgcatgccggacccag #### Slc22a26_ID2221_4 --> 2 - 2 Original Alignment tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag aggtccttccctttgtttttagcagtcaaccccctgctttctgtgcacagtgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCC---aggtaagatggacttttgtttctcctctgtattttgaaattgtggggtaacc Alignment from CESAR tgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAag aggtccttccctttgtttttagcagtcaaccccctgctttctgtgcacagtgTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCC---aggtaagatggacttttgtttctcctctgtattttgaaattgtggggtaacc Alignment from Spaln_aa2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAGG aggtccttccctttgtttttagcagtcaaccccctgctttctgtgcacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCAGg taagatggacttttgtttctcctctgtattttgaaattgtggggta Alignment from Spaln_nt2Genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG aggtccttccctttgtttttagcagtcaaccccctgctttctgtgcacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCC---AGgtaagatggacttttgtttctcctctgtattttgaaattgtggggtaacc Alignment from Pairagon TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG aggtccttccctttgtttttagcagtcaaccccctgctttctgtgcacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCC---AGgtaagatggacttttgtttctcctctgtattttgaaattgtggggtaacc Alignment from Exonerate_protein2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAAG aggtccttccctttgtttttagcagtcaaccccctgctttctgtgcacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCC---AGgtaagatggacttttgtttctcctctgtattttgaaattgtggggtaacc Alignment from Exonerate_coding2genome TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCACAA aggtccttccctttgtttttagcagtcaaccccctgctttctgtgcacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCC--AGgtaagatggacttttgtttctcctctgtattttgaaattgtggggtaacc Alignment from GeneWise TGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCAC aggtccttccctttgtttttagcagtcaaccccctgctttctgtgcacagTGTTAGAATGGACAAGCCCTAAAACCCAAGCCTTGGTGACCACACTGTCAATGAGTTCTCATCATTTTGGAGGCCTTATCCTGGCAGGTCTGGCATTTGCATTTCAAAACTGGCACCACCTTCAGCTGGCAATATCTGTGCCAATATTTGTCTTGCTTATACCCAGgtaagatggacttttgtttctcctctgtattttgaaattgtggggtaacc #### Slc22a6_ID2284_5 --> 1 - 0 Original Alignment gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG--- tgaaactgagaccacaccaacatctgcctttatgatgctgttgtttttaggTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTCCAGAGAGTGGCCTGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGTGTATAGAGTTGgttagttttgtttgttcctagacaccgcctgaactccaacccaagtccca Alignment from CESAR gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG--- tgaaactgagaccacaccaacatctgcctttatgatgctgttgtttttaggTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTCCAGAGAGTGGCCTGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGTGTATAGAGTTGgttagttttgtttgttcctagacaccgcctgaactccaacccaagtccca Alignment from Spaln_aa2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG--- tgaaactgagaccacaccaacatctgcctttatgatgctgttgtttttagGTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTCCAGAGAGTGGCCTGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGTGTATAGAGTTGgttagttttgtttgttcctagacaccgcctgaactccaacccaagtccca Alignment from Spaln_nt2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG--- tgaaactgagaccacaccaacatctgcctttatgatgctgttgtttttagGTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTCCAGAGAGTGGCCTGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGTGTATAGAGTTGgttagttttgtttgttcctagacaccgcctgaactccaacccaagtccca Alignment from Pairagon GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG--- tgaaactgagaccacaccaacatctgcctttatgatgctgttgtttttagGTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTCCAGAGAGTGGCCTGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGTGTATAGAGTTGgttagttttgtttgttcctagacaccgcctgaactccaacccaagtccca Alignment from Exonerate_protein2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG tgaaactgagaccacaccaacatctgcctttatgatgctgttgtttttagGTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTCCAGAGAGTGGCCTGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGTGTATAGAGttggttagttttgtttgttcctagacaccgcctgaactccaacccaagtccca Alignment from Exonerate_coding2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG tgaaactgagaccacaccaacatctgcctttatgatgctgttgtttttagGTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTCCAGAGAGTGGCCTGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGTGTATAGAGttggttagttttgtttgttcctagacaccgcctgaactccaacccaagtccca Alignment from GeneWise GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAGGTG tgaaactgagaccacaccaacatctgcctttatgatgctgttgtttttagGTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTCCAGAGAGTGGCCTGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGTGTATAGAGTTGgttagttttgtttgttcctagacaccgcctgaactccaacccaagtccca #### Slc22a8_ID2276_9 --> 1 - 2 Original Alignment gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg aaagccttaggcactggcccgcaaaattatggacttcttgttcctttcagg---ACAGGTATGGGTATCAGTAACATATGGGCTCGGGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTAGGAGGCAGTGCTGCCTTTTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACCATCGAGGACATACAAGACtggtcaggtcttcacctctgtcacacatgtcccccttttaagcaaacaggcc Alignment from CESAR gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg ttaaaagccttaggcactggcccgcattatggacttcttgttcctttcagg---ACAGGTATGGGTATCAGTAACATATGGGCTCGGGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTAGGAGGCAGTGCTGCCTTTTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACCATCGAGGACATACAAGACtggtcaggtcttcacctctgtcacacatgtcccccttttaagcaaacaggcc Alignment from Spaln_aa2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaagccttaggcactggcccgcaaaattatggacttcttgttcctttcagG---ACAGGTATGGGTATCAGTAACATATGGGCTCGGGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTAGGAGGCAGTGCTGCCTTTTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACCATCGAGGACATACAAGACTGgtcaggtcttcacctctgtcacacatgtcccccttttaagcaaacaggcc Alignment from Spaln_nt2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaagccttaggcactggcccgcaaaattatggacttcttgttcctttcagG---ACAGGTATGGGTATCAGTAACATATGGGCTCGGGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTAGGAGGCAGTGCTGCCTTTTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACCATCGAGGACATACAAGACTGgtcaggtcttcacctctgtcacacatgtcccccttttaagcaaacaggcc Alignment from Pairagon GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaagccttaggcactggcccgcaaaattatggacttcttgttcctttcagG---ACAGGTATGGGTATCAGTAACATATGGGCTCGGGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTAGGAGGCAGTGCTGCCTTTTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACCATCGAGGACATACAAGACTGgtcaggtcttcacctctgtcacacatgtcccccttttaagcaaacaggcc Alignment from Exonerate_protein2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaagccttaggcactggcccgcaaaattatggacttcttgttcctttcagG---ACAGGTATGGGTATCAGTAACATATGGGCTCGGGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTAGGAGGCAGTGCTGCCTTTTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACCATCGAGGACATACAAGACTGgtcaggtcttcacctctgtcacacatgtcccccttttaagcaaacaggcc Alignment from Exonerate_coding2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaagccttaggcactggcccgcaaaattatggacttcttgttcctttcagG---ACAGGTATGGGTATCAGTAACATATGGGCTCGGGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTAGGAGGCAGTGCTGCCTTTTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACCATCGAGGACATACAAGACTGgtcaggtcttcacctctgtcacacatgtcccccttttaagcaaacaggcc Alignment from GeneWise GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG aaagccttaggcactggcccgcaaaattatggacttcttgttcctttcagG---ACAGGTATGGGTATCAGTAACATATGGGCTCGGGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTAGGAGGCAGTGCTGCCTTTTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACCATCGAGGACATACAAGACTGgtcaggtcttcacctctgtcacacatgtcccccttttaagcaaacaggcc #### Slc25a45_ID1291_2 --> 2 - 0 Original Alignment gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- tggacttgctttttagacttggcacctctcttaaaatccttctgttttaggaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAGGATGAGCTGgtaagtgtagcaaaggcacgggaggaagagatggtctcactagaacctgg Alignment from CESAR gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- tggacttgctttttagacttggcacctctcttaaaatccttctgttttaggaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAGGATGAGCTGgtaagtgtagcaaaggcacgggaggaagagatggtctcactagaacctgg Alignment from Spaln_aa2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- tggacttgctttttagacttggcacctctcttaaaatccttctgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAGGATGAGCTGgtaagtgtagcaaaggcacgggaggaagagatggtctcactagaacctgg Alignment from Spaln_nt2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- tggacttgctttttagacttggcacctctcttaaaatccttctgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAGGATGAGCTGgtaagtgtagcaaaggcacgggaggaagagatggtctcactagaacctgg Alignment from Pairagon GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- tggacttgctttttagacttggcacctctcttaaaatccttctgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAGGATGAGCTGgtaagtgtagcaaaggcacgggaggaagagatggtctcactagaacctgg Alignment from Exonerate_protein2genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG tggacttgctttttagacttggcacctctcttaaaatccttctgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAGgatgagctggtaagtgtagcaaaggcacgggaggaagagatggtctcactagaacctgg Alignment from Exonerate_coding2genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG tggacttgctttttagacttggcacctctcttaaaatccttctgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAGgatgagctggtaagtgtagcaaaggcacgggaggaagagatggtctcactagaacctgg Alignment from GeneWise GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG--------- tggacttgctttttagacttggcacctctcttaaaatccttctgttttagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAGGATGAGCTGgtaagtgtagcaaaggcacgggaggaagagatggtctcactagaacctgg #### Slc25a45_ID1292_3 --> 0 - 0 Original Alignment ---------GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgccattgtaggagcagccctggcttgccctaaatggttgtgtcttgcagTTTATATATGTGCGGTTACAGACCCAAAGCACATACCAGGGCATTGTGGACTGTGTAGCCAAGACATACCGCCATGAGTCAgtaagtagcccacttgttggcggtaaagagtcatcagagcaggtggggtc Alignment from CESAR ---------GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgccattgtaggagcagccctggcttgccctaaatggttgtgtcttgcagTTTATATATGTGCGGTTACAGACCCAAAGCACATACCAGGGCATTGTGGACTGTGTAGCCAAGACATACCGCCATGAGTCAgtaagtagcccacttgttggcggtaaagagtcatcagagcaggtggggtc Alignment from Spaln_aa2Genome GTGCGGTTACAGACCCAA---------AGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgccattgtaggagcagccctggcttgccctaaatggttgtgtcttgcagTTTATATATGTGCGGTTACAGACCCAAAGCACATACCAGGGCATTGTGGACTGTGTAGCCAAGACATACCGCCATGAGTCAgtaagtagcccacttgttggcggtaaagagtcatcagagcaggtggggtc Alignment from Spaln_nt2Genome GTGCGGTTACA---------GACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgccattgtaggagcagccctggcttgccctaaatggttgtgtcttgcagTTTATATATGTGCGGTTACAGACCCAAAGCACATACCAGGGCATTGTGGACTGTGTAGCCAAGACATACCGCCATGAGTCAgtaagtagcccacttgttggcggtaaagagtcatcagagcaggtggggtc Alignment from Pairagon ---------GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgccattgtaggagcagccctggcttgccctaaatggttgtgtcttgcagTTTATATATGTGCGGTTACAGACCCAAAGCACATACCAGGGCATTGTGGACTGTGTAGCCAAGACATACCGCCATGAGTCAgtaagtagcccacttgttggcggtaaagagtcatcagagcaggtggggtc Alignment from Exonerate_protein2genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgccattgtaggagcagccctggcttgccctaaatggttgtgtcttgcagtttatatatGTGCGGTTACAGACCCAAAGCACATACCAGGGCATTGTGGACTGTGTAGCCAAGACATACCGCCATGAGTCAgtaagtagcccacttgttggcggtaaagagtcatcagagcaggtggggtc Alignment from Exonerate_coding2genome GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgccattgtaggagcagccctggcttgccctaaatggttgtgtcttgcagtttatatatGTGCGGTTACAGACCCAAAGCACATACCAGGGCATTGTGGACTGTGTAGCCAAGACATACCGCCATGAGTCAgtaagtagcccacttgttggcggtaaagagtcatcagagcaggtggggtc Alignment from GeneWise ---------GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgccattgtaggagcagccctggcttgccctaaatggttgtgtcttgcagTTTATATATGTGCGGTTACAGACCCAAAGCACATACCAGGGCATTGTGGACTGTGTAGCCAAGACATACCGCCATGAGTCAgtaagtagcccacttgttggcggtaaagagtcatcagagcaggtggggtc #### Slc29a2_ID791_5 --> 2 - 1 Original Alignment ccTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCa cttggtgtggctgtctaagtgttggaataaaaacattctctctataccagcc---TGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCagtgagtgcacctgggggtctgaagagctggctagaaaaagcagatacagg Alignment from CESAR ccTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCa cctcttggtgtggctgtctaagtgtaataaaaacattctctctataccagcc---TGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCagtgagtgcacctgggggtctgaagagctggctagaaaaagcagatacagg Alignment from Spaln_aa2Genome CCTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA cttggtgtggctgtctaagtgttggaataaaaacattctctctataccagCC---TGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtgagtgcacctgggggtctgaagagctggctagaaaaagcagatacagg Alignment from Spaln_nt2Genome CCTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA cttggtgtggctgtctaagtgttggaataaaaacattctctctataccagC---CTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtgagtgcacctgggggtctgaagagctggctagaaaaagcagatacagg Alignment from Pairagon CCTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA cttggtgtggctgtctaagtgttggaataaaaacattctctctataccagC---CTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtgagtgcacctgggggtctgaagagctggctagaaaaagcagatacagg Alignment from Exonerate_protein2genome CCTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA cttggtgtggctgtctaagtgttggaataaaaacattctctctatacCAGCCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtgagtgcacctgggggtctgaagagctggctagaaaaagcagatacagg Alignment from Exonerate_coding2genome CCTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA cttggtgtggctgtctaagtgttggaataaaaacattctctctatacCAGCCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtgagtgcacctgggggtctgaagagctggctagaaaaagcagatacagg Alignment from GeneWise TCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA cttggtgtggctgtctaagtgttggaataaaaacattctctctataccagCCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtgagtgcacctgggggtctgaagagctggctagaaaaagcagatacagg #### Slc29a2_ID795_9 --> 0 - 1 Original Alignment ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGG------g tgcacatgggacttccctgaccactcaccttctgcttgccacccccccagATCTGGCTGACAGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTATCGGTTTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAGTGGCCAAAAggtaagtgctgggataatgcaggggatggggcagggggggaagggaggata Alignment from CESAR ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGG------g tgcacatgggacttccctgaccactcaccttctgcttgccacccccccagATCTGGCTGACAGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTATCGGTTTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAGTGGCCAAAAggtaagtgctgggataatgcaggggatggggcagggggggaagggaggata Alignment from Spaln_aa2Genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGG------G tgcacatgggacttccctgaccactcaccttctgcttgccacccccccagATCTGGCTGACAGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTATCGGTTTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAGTGGCCAAAAGgtaagtgctgggataatgcaggggatggggcagggggggaagggaggata Alignment from Spaln_nt2Genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGG------G tgcacatgggacttccctgaccactcaccttctgcttgccacccccccagATCTGGCTGACAGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTATCGGTTTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAGTGGCCAAAAGgtaagtgctgggataatgcaggggatggggcagggggggaagggaggata Alignment from Pairagon ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGG------G tgcacatgggacttccctgaccactcaccttctgcttgccacccccccagATCTGGCTGACAGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTATCGGTTTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAGTGGCCAAAAGgtaagtgctgggataatgcaggggatggggcagggggggaagggaggata Alignment from Exonerate_protein2genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGG------G tgcacatgggacttccctgaccactcaccttctgcttgccacccccccagATCTGGCTGACAGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTATCGGTTTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAGTGGCCAAAAGgtaagtgctgggataatgcaggggatggggcagggggggaagggaggata Alignment from Exonerate_coding2genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGG------G tgcacatgggacttccctgaccactcaccttctgcttgccacccccccagATCTGGCTGACAGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTATCGGTTTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAGTGGCCAAAAGgtaagtgctgggataatgcaggggatggggcagggggggaagggaggata Alignment from GeneWise ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGG------G tgcacatgggacttccctgaccactcaccttctgcttgccacccccccagATCTGGCTGACAGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTATCGGTTTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAGTGGCCAAAAGgtaagtgctgggataatgcaggggatggggcagggggggaagggaggata #### Slc29a2_ID796_10 --> 2 - 0 Original Alignment gtCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG--------------------- gaagggaggatatggggactgggctgagcccctgtctcctctctgttcaggtCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGGTTGCAACATCGGCTCAAAAGGgttagtttctctgggctaaaccagccagaagtttaggaagtaactgagga Alignment from CESAR gtCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG--------------------- gaagggaggatatggggactgggctgagcccctgtctcctctctgttcaggtCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGGTTGCAACATCGGCTCAAAAGGgttagtttctctgggctaaaccagccagaagtttaggaagtaactgagga Alignment from Spaln_aa2Genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG--------------------- gaagggaggatatggggactgggctgagcccctgtctcctctctgttcagGTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGGTTGCAACATCGGCTCAAAAGGgttagtttctctgggctaaaccagccagaagtttaggaagtaactgagga Alignment from Spaln_nt2Genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTG gaagggaggatatggggactgggctgagcccctgtctcctctctgttcagGTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGgttgcaacatcggctcaaaagggttagtttctctgggctaaaccagccagaagtttaggaagtaactgagga Alignment from Pairagon GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG--------------------- gaagggaggatatggggactgggctgagcccctgtctcctctctgttcagGTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGGTTGCAACATCGGCTCAAAAGGgttagtttctctgggctaaaccagccagaagtttaggaagtaactgagga Alignment from Exonerate_protein2genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG gaagggaggatatggggactgggctgagcccctgtctcctctctgttcagGTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGGttgcaacatcggctcaaaagggttagtttctctgggctaaaccagccagaagtttaggaagtaactgagga Alignment from Exonerate_coding2genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG gaagggaggatatggggactgggctgagcccctgtctcctctctgttcagGTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGGttgcaacatcggctcaaaagggttagtttctctgggctaaaccagccagaagtttaggaagtaactgagga Alignment from GeneWise GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG--------------------- gaagggaggatatggggactgggctgagcccctgtctcctctctgttcagGTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGGTTGCAACATCGGCTCAAAAGGgttagtttctctgggctaaaccagccagaagtttaggaagtaactgagga #### Slc3a2_ID2300_9 --> 0 - 0 Original Alignment CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG--------------------- gtacccaccctttttttttttttttaaaaaaattgtcttcttctttgtagCCTGTGAAGGCCCCACTCATGCCATGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAGATGAATATGATAACAATTGAAgtaagaagttgcggtctgcccctcagggtggtcaagtgttgtacagatgg Alignment from CESAR CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG--------------------- gtacccaccctttttttttttttttaaaaaaattgtcttcttctttgtagCCTGTGAAGGCCCCACTCATGCCATGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAGATGAATATGATAACAATTGAAgtaagaagttgcggtctgcccctcagggtggtcaagtgttgtacagatgg Alignment from Spaln_aa2Genome CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG gtacccaccctttttttttttttttaaaaaaattgtcttcttctttgtagCCTGTGAAGGCCCCACTCATGCCATGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAGatgaatatgataacaattgaagtaagaagttgcggtctgcccctcagggtggtcaagtgttgtacagatgg Alignment from Spaln_nt2Genome CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG gtacccaccctttttttttttttttaaaaaaattgtcttcttctttgtagCCTGTGAAGGCCCCACTCATGCCATGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAGatgaatatgataacaattgaagtaagaagttgcggtctgcccctcagggtggtcaagtgttgtacagatgg Alignment from Pairagon CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG--------------------- gtacccaccctttttttttttttttaaaaaaattgtcttcttctttgtagCCTGTGAAGGCCCCACTCATGCCATGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAGATGAATATGATAACAATTGAAgtaagaagttgcggtctgcccctcagggtggtcaagtgttgtacagatgg Alignment from Exonerate_protein2genome CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG gtacccaccctttttttttttttttaaaaaaattgtcttcttctttgtagCCTGTGAAGGCCCCACTCATGCCATGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAGatgaatatgataacaattgaagtaagaagttgcggtctgcccctcagggtggtcaagtgttgtacagatgg Alignment from Exonerate_coding2genome CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG gtacccaccctttttttttttttttaaaaaaattgtcttcttctttgtagCCTGTGAAGGCCCCACTCATGCCATGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAGatgaatatgataacaattgaagtaagaagttgcggtctgcccctcagggtggtcaagtgttgtacagatgg Alignment from GeneWise CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG--------------------- gtacccaccctttttttttttttttaaaaaaattgtcttcttctttgtagCCTGTGAAGGCCCCACTCATGCCATGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAGATGAATATGATAACAATTGAAgtaagaagttgcggtctgcccctcagggtggtcaagtgttgtacagatgg #### Slc3a2_ID2301_8 --> 0 - 0 Original Alignment GTGTCGCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gcgggcggagaaacttaggtaggtgttatagctgttattttcctatgcag---------------------------------CCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTTCCAGGGACTCCTGTTTTCAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCTCTTCCTGGACAGgtaagccttgccttctgccttgcacggaaatagtgtatacgttatggcat Alignment from CESAR GTGTCGCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG aggtgtaggtgggaagtggtaggtgttatagctgttattttcctatgcag---------------------------------CCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTTCCAGGGACTCCTGTTTTCAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCTCTTCCTGGACAGgtaagccttgccttctgccttgcacggaaatagtgtatacgttatggcat Alignment from Spaln_aa2Genome AGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gcgggcggagaaacttaggtaggtgttatagCTGTTATTTTCCTATGCAG------CCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTTCCAGGGACTCCTGTTTTCAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCTCTTCCTGGACAGgtaagccttgccttctgccttgcacggaaatagtgtatacgttatggcat Alignment from Spaln_nt2Genome CCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gcgggcggagaaacttaggtaggtgttatagctgttattttcctatgcagCCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTTCCAGGGACTCCTGTTTTCAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCTCTTCCTGGACAGgtaagccttgccttctgccttgcacggaaatagtgtatacgttatggcat Alignment from Pairagon GTGTCGCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gcgggcggagaaacttaggtaggtgttatagctgttattttcctatgcag---------------------------------CCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTTCCAGGGACTCCTGTTTTCAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCTCTTCCTGGACAGgtaagccttgccttctgccttgcacggaaatagtgtatacgttatggcat Alignment from Exonerate_protein2genome GCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gcgggcggagaaacttaggtagGTGTTATAGCTGTTATTTTCCTATGCAGCCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTTCCAGGGACTCCTGTTTTCAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCTCTTCCTGGACAGgtaagccttgccttctgccttgcacggaaatagtgtatacgttatggcat Alignment from Exonerate_coding2genome GCAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gcgggcggagaaacttaggtagGTGTTATAGCTGTTATTTTCCTATGCAGCCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTTCCAGGGACTCCTGTTTTCAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCTCTTCCTGGACAGgtaagccttgccttctgccttgcacggaaatagtgtatacgttatggcat Alignment from GeneWise -CAAGCAGGACTCCTCGCAGACTTTATACCGGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTGCCAGGGACTCCTGTTTTTAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCCCTTCCTGGACAG gcgggcggagaaacttaggtagGTGTTATAGCTGTTATTTTCCTATGCAGCCAGACCATCTTCTCCGACTCTACCAGCTGCTGCTCTTCACTCTTCCAGGGACTCCTGTTTTCAGCTACGGGGATGAGCTTGGCCTTCAGGGTGCTCTTCCTGGACAGgtaagccttgccttctgccttgcacggaaatagtgtatacgttatggcat #### Slc3a2_ID2302_7 --> 1 - 0 Original Alignment gCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGCAGCTGGAGT ctcttttattctttgctttgtgcaggctaatttctttccgtttgttttaggCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAGTCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCAACTGGCAGCCAA---------------gtgaggagcatgatggggcacagcaggggtgtgggtctaggtgaaggtgg Alignment from CESAR gCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGCAGCTGGAGT ctcttttattctttgctttgtgcaggctaatttctttccgtttgttttaggCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAGTCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCAACTGGCAGCCAA---------------gtgaggagcatgatggggcacagcaggggtgtggg Alignment from Spaln_aa2Genome GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAA ctcttttattctttgctttgtgcaggctaatttctttccgtttgttttagGCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAGTCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCAACTGGCAGCCAAgtgaggagcatgatggggcacagcaggggtgtgggtctaggtgaaggtgg Alignment from Spaln_nt2Genome GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAA TGGTGCAGCT ctcttttattctttgctttgtgcaggctaatttctttccgtttgttttagGCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAGTCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCAACTGGCAGCCAAgtgaggagcatgatggggcacagcaggggtgtgggtctag--GTGAAGGT Alignment from Pairagon GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAA ctcttttattctttgctttgtgcaggctaatttctttccgtttgttttagGCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAGTCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCAACTGGCAGCCAAgtgaggagcatgatggggcacagcaggggtgtgggtctaggtgaaggtgg Alignment from Exonerate_protein2genome GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGCAGCTGGAGT ctcttttattctttgctttgtgcaggctaatttctttccgtttgttttagGCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAGTCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCAACTGGCAGCCAAGTGAGGAGCATGATGgggcacagcaggggtgtgggtctaggtgaaggtgg Alignment from Exonerate_coding2genome GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAATGGTGCAGCTGGAGT ctcttttattctttgctttgtgcaggctaatttctttccgtttgttttagGCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAGTCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCAACTGGCAGCCAAGTGAGGAGCATGATGgggcacagcaggggtgtgggtctaggtgaaggtgg Alignment from GeneWise GCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAATCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCCACTGGCAGCCAA ctcttttattctttgctttgtgcaggctaatttctttccgtttgttttagGCTTTTGATTGCAGGGACTGAGTCCTCTGACCTGCAGCAAATTGTCAACATACTTGAGTCCACCAGCGACCTGCTGTTGACCAGCTCCTACCTGTCAAATTCCACTTTCACTGGGGAGCGTACTGAATCCCTAGTCACTAGGTTTTTGAATGCAACTGGCAGCCAAgtgaggagcatgatggggcacagcaggggtgtgggtctaggtgaaggtgg #### Slc3a2_ID2303_6 --> 0 - 2 Original Alignment AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACag tgggaaggtgtgttacctgtttttttttcgtcttccctctccttgcatag------CCCTTGTACTTAGCTGAGTGGCAGAACATCACCAAGAACTTAAGTGAGGACaggtaagaacccagcaccccagcctggctgagcccattatgggagccctgag Alignment from CESAR AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACag cagccatgggaaggtgtgttacctgtttcgtcttccctctccttgcatag------CCCTTGTACTTAGCTGAGTGGCAGAACATCACCAAGAACTTAAGTGAGGACaggtaagaacccagcaccccagcctggctgagcccattatgggagccctgag Alignment from Spaln_aa2Genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG tgggaaggtgtgttacctgtttttttttcgtcttccctctccttgcatag------CCCTTGTACTTAGCTGAGTGGCAGAACATCACCAAGAACTTAAGTGAGGACAGgtaagaacccagcaccccagcctggctgagcccattatgggagccctgag Alignment from Spaln_nt2Genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG tgggaaggtgtgttacctgtttttttttcgtcttccctctccttgcatag------CCCTTGTACTTAGCTGAGTGGCAGAACATCACCAAGAACTTAAGTGAGGACAGgtaagaacccagcaccccagcctggctgagcccattatgggagccctgag Alignment from Pairagon AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG tgggaaggtgtgttacctgtttttttttcgtcttccctctccttgcatag------CCCTTGTACTTAGCTGAGTGGCAGAACATCACCAAGAACTTAAGTGAGGACAGgtaagaacccagcaccccagcctggctgagcccattatgggagccctgag Alignment from Exonerate_protein2genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG tgggaaggtgtgttacctgtttttttttcgtcttccctctccttGCATAGCCCTTGTACTTAGCTGAGTGGCAGAACATCACCAAGAACTTAAGTGAGGACAGgtaagaacccagcaccccagcctggctgagcccattatgggagccctgag Alignment from Exonerate_coding2genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG tgggaaggtgtgttacctgtttttttttcgtcttccctctccttGCATAGCCCTTGTACTTAGCTGAGTGGCAGAACATCACCAAGAACTTAAGTGAGGACAGgtaagaacccagcaccccagcctggctgagcccattatgggagccctgag Alignment from GeneWise CCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACAG tgggaaggtgtgttacctgtttttttttcgtcttccctctccttgcatagCCCTTGTACTTAGCTGAGTGGCAGAACATCACCAAGAACTTAAGTGAGGACAGgtaagaacccagcaccccagcctggctgagcccattatgggagccctgag #### Slit1_ID8222_17 --> 1 - 2 Original Alignment aCGACTGAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAat ggttgaccacatatgtatgtgtttggtgatgagctgtttgggtctcacaga---CTAAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAGGAAGCTCTCACATCTGAAGAAAatgtataattcccactggtgggagggtccctggcaagacacacatgggatgg Alignment from CESAR aCGACTGAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAat tcaggttgaccacatatgtatgtgtgtgatgagctgtttgggtctcacaga---CTAAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAGGAAGCTCTCACATCTGAAGAAAatgtataattcccactggtgggagggtccctggcaagacacacatgggatgg Alignment from Spaln_aa2Genome ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT ggttgaccacatatgtatgtgtttggtgatgagctgtttgggtctcacagACTAAACAAC---AATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAGGAAGCTCTCACATCTGAAGAAAATgtataattcccactggtgggagggtccctggcaagacacacatgggatgg Alignment from Spaln_nt2Genome ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT ggttgaccacatatgtatgtgtttggtgatgagctgtttgggtctcacag---ACTAAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAGGAAGCTCTCACATCTGAAGAAAATgtataattcccactggtgggagggtccctggcaagacacacatgggatgg Alignment from Pairagon ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT ggttgaccacatatgtatgtgtttggtgatgagctgtttgggtctcacag---ACTAAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAGGAAGCTCTCACATCTGAAGAAAATgtataattcccactggtgggagggtccctggcaagacacacatgggatgg Alignment from Exonerate_protein2genome ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT ggttgaccacatatgtatgtgtttggtgatgagctgtttgggtctcacagA---CTAAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAGGAAGCTCTCACATCTGAAGAAAATgtataattcccactggtgggagggtccctggcaagacacacatgggatgg Alignment from Exonerate_coding2genome ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT ggttgaccacatatgtatgtgtttggtgatgagctgtttgggtctcacagA---CTAAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAGGAAGCTCTCACATCTGAAGAAAATgtataattcccactggtgggagggtccctggcaagacacacatgggatgg Alignment from GeneWise ACGACTGAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAAGAAGCTCTCACATCTGAAGAAAAT ggttgaccacatatgtatgtgtttggtgatgagctgtttgggtctcacagA---CTAAACAACAATGAGATTTCTATCCTAGAGGCCACTGGGTTGTTTAGGAAGCTCTCACATCTGAAGAAAATgtataattcccactggtgggagggtccctggcaagacacacatgggatgg #### Slit1_ID8223_16 --> 2 - 2 Original Alignment ggACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGct agcttacttaggccctcaaatatatggtccatttctttctttcttttaaggg---------TACCACCTGAACAGCGAGTGTACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACAACTGAGctgtactgcctgtggtgcccacccaactcccacctccattcctgtgcctggt Alignment from CESAR ggACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGct actgcttggagcttacttaggccctggtccatttctttctttcttttaaggg---------TACCACCTGAACAGCGAGTGTACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACAACTGAGctgtactgcctgtggtgcccacccaactcccacctccattcctgtgcctggt Alignment from Spaln_aa2Genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT agcttacttaggccctcaaatatatggtccatttctttctttcttttaagGG---------TACCACCTGAACAGCGAGTGTACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACAACTGAGCTgtactgcctgtggtgcccacccaactcccacctccattcctgtgcctggt Alignment from Spaln_nt2Genome ACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT agcttacttaggccctcaaatatatggtccatttctttctttcttttaagGGTACCACCTGAACAGCGAGTGTACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACAACTGAGCTgtactgcctgtggtgcccacccaactcccacctccattcctgtgcctggt Alignment from Pairagon GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT agcttacttaggccctcaaatatatggtccatttctttctttcttttaagGG---------TACCACCTGAACAGCGAGTGTACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACAACTGAGCTgtactgcctgtggtgcccacccaactcccacctccattcctgtgcctggt Alignment from Exonerate_protein2genome GACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT agcttacttaggccctcaaatatatggtccatttctttctttcttttaaGGGTACCACCTGAACAGCGAGTGTACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACAACTGAGCTgtactgcctgtggtgcccacccaactcccacctccattcctgtgcctggt Alignment from Exonerate_coding2genome GACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT agcttacttaggccctcaaatatatggtccatttctttctttcttttaaGGGTACCACCTGAACAGCGAGTGTACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACAACTGAGCTgtactgcctgtggtgcccacccaactcccacctccattcctgtgcctggt Alignment from GeneWise ACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT agcttacttaggccctcaaatatatggtccatttctttctttcttttaagGGTACCACCTGAACAGCGAGTGTACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACAACTGAGCTgtactgcctgtggtgcccacccaactcccacctccattcctgtgcctggt #### Slit1_ID8232_7 --> 1 - 2 Original Alignment gACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt gggtgtgtgctgctgggcaggtgttaaacatggcctttccatgtacccaggACCCTGAACAACAACAACATCAGCACCATCCCTGTGTCCAGTTTCAATCATATGCCTAAGCTT------ttgtacacctagtccaccttggcagttagaagagggtgtgggtataagtggg Alignment from CESAR gACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt gggtgtgtgctgctgggcaggtgttaaacatggcctttccatgtacccaggACCCTGAACAACAACAACATCAGCACCATCCCTGTGTCCAGTTTCAATCATATGCCTAAGCTT------ttgtacacctagtccaccttggcagttagaagagggtgtgggtataagtggg Alignment from Spaln_aa2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAG---CTTCGGACCTT gggtgtgtgctgctgggcaggtgttaaacatggcctttccatgtacccagGACCCTGAACAACAACAACATCAGCACCATCCCTGTGTCCAGTTTCAATCATATGCCTAAGCTTTTGTACACCTAgtccaccttggcagttagaagagggtgtgggtataagtggg Alignment from Spaln_nt2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGG---ACCTT gggtgtgtgctgctgggcaggtgttaaacatggcctttccatgtacccagGACCCTGAACAACAACAACATCAGCACCATCCCTGTGTCCAGTTTCAATCATATGCCTAAGCTTTTGTACACCTAgtccaccttggcagttagaagagggtgtgggtataagtggg Alignment from Pairagon GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT gggtgtgtgctgctgggcaggtgttaaacatggcctttccatgtacccagGACCCTGAACAACAACAACATCAGCACCATCCCTGTGTCCAGTTTCAATCATATGCCTAAGCTT------TTgtacacctagtccaccttggcagttagaagagggtgtgggtataagtggg Alignment from Exonerate_protein2genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT gggtgtgtgctgctgggcaggtgttaaacatggcctttccatgtacccagGACCCTGAACAACAACAACATCAGCACCATCCCTGTGTCCAGTTTCAATCATATGCCTAAGCTTTTGTACACctagtccaccttggcagttagaagagggtgtgggtataagtggg Alignment from Exonerate_coding2genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT gggtgtgtgctgctgggcaggtgttaaacatggcctttccatgtacccagGACCCTGAACAACAACAACATCAGCACCATCCCTGTGTCCAGTTTCAATCATATGCCTAAGCTTTTGTACACctagtccaccttggcagttagaagagggtgtgggtataagtggg Alignment from GeneWise GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTT---CGGACCTT gggtgtgtgctgctgggcaggtgttaaacatggcctttccatgtacccagGACCCTGAACAACAACAACATCAGCACCATCCCTGTGTCCAGTTTCAATCATATGCCTAAGCTTTTGTACACCTAgtccaccttggcagttagaagagggtgtgggtataagtggg #### Smc3_ID11318_6 --> 0 - 2 Original Alignment ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC------ac agttgtccagctggccatctgggcttttttcttttctttttccactgcagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCTCCCTacgtcagcatttgtttttgcttacagtgtgttacaaatgttcatgaaaacat Alignment from CESAR ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC------ac agttgtccagctggccatctgggcttttttcttttctttttccactgcagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCTCCCTacgtcagcatttgtttttgcttacagtgtgttacaaatgttcatgaaaacat Alignment from Spaln_aa2Genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCACG----- agttgtccagctggccatctgggcttttttcttttctttttccactgcagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCTCCCTACgtcagcatttgtttttgcttacagtgtgttacaaatgttcatgaaaacat Alignment from Spaln_nt2Genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC------AC agttgtccagctggccatctgggcttttttcttttctttttccactgcagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCTCCCTACgtcagcatttgtttttgcttacagtgtgttacaaatgttcatgaaaacat Alignment from Pairagon ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC------AC agttgtccagctggccatctgggcttttttcttttctttttccactgcagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCTCCCTACgtcagcatttgtttttgcttacagtgtgttacaaatgttcatgaaaacat Alignment from Exonerate_protein2genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCACGAAAAA agttgtccagctggccatctgggcttttttcttttctttttccactgcagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCTCCCTACgtcagcatttgtttttgcttacagtgtgttacaaatgttcatgaaaacat Alignment from Exonerate_coding2genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCACGAAAAA agttgtccagctggccatctgggcttttttcttttctttttccactgcagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCTCCCTACgtcagcatttgtttttgcttacagtgtgttacaaatgttcatgaaaacat Alignment from GeneWise ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC------AC agttgtccagctggccatctgggcttttttcttttctttttccactgcagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCTCCCTACgtcagcatttgtttttgcttacagtgtgttacaaatgttcatgaaaacat #### Smc3_ID11338_26 --> 0 - 0 Original Alignment GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG ttgtttcaggtgtagaaacatgcctaagtcttatctccttcaatttttagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGTCAATCTCAGGACGAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTCGGGATC---gtaagtgtaaaccctttatattcagtttttgctacagctttatcatcgta Alignment from CESAR GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG ttgtttcaggtgtagaaacatgcctaagtcttatctccttcaatttttagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGTCAATCTCAGGACGAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTCGGGATC---gtaagtgtaaaccctttatattcagtttttgctacagctttatcatc Alignment from Spaln_aa2Genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATC ttgtttcaggtgtagaaacatgcctaagtcttatctccttcaatttttagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGTCAATCTCAGGACGAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTCGGGATCgtaagtgtaaaccctttatattcagtttttgctacagctttatcatcgta Alignment from Spaln_nt2Genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATC ttgtttcaggtgtagaaacatgcctaagtcttatctccttcaatttttagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGTCAATCTCAGGACGAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTCGGGATCgtaagtgtaaaccctttatattcagtttttgctacagctttatcatcgta Alignment from Pairagon GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATC ttgtttcaggtgtagaaacatgcctaagtcttatctccttcaatttttagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGTCAATCTCAGGACGAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTCGGGATCgtaagtgtaaaccctttatattcagtttttgctacagctttatcatcgta Alignment from Exonerate_protein2genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG ttgtttcaggtgtagaaacatgcctaagtcttatctccttcaatttttagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGTCAATCTCAGGACGAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTCGGGATC---gtaagtgtaaaccctttatattcagtttttgctacagctttatcatc Alignment from Exonerate_coding2genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG ttgtttcaggtgtagaaacatgcctaagtcttatctccttcaatttttagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGTCAATCTCAGGACGAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTCGGGATC---gtaagtgtaaaccctttatattcagtttttgctacagctttatcatc Alignment from GeneWise ---TCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGGGTG ttgtttcaggtgtagaaacatgcctaagtcttatctccttcaatttttagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGCAGTCAATCTCAGGACGAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTCGGGATCGTAAGTgtaaaccctttatattcagtttttgctacagctttatcatcgta #### Smc5_ID5113_20 --> 0 - 0 Original Alignment ---GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagaactcactattccatctttagtgatgtcctgtctttcccactacagATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCGgtaagttgtcatattctcagtatccatcccacagttattatactgctgtc Alignment from CESAR ---GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagaactcactattccatctttagtgatgtcctgtctttcccactacagATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCGgtaagttgtcatattctcagtatccatcccacagttattatactgctgtc Alignment from Spaln_aa2Genome ATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagaactcactattccatctttagtgatgtcctgtctttcccactacagATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCGgtaagttgtcatattctcagtatccatcccacagttattatactgctgtc Alignment from Spaln_nt2Genome ATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagaactcactattccatctttagtgatgtcctgtctttcccactacagATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCGgtaagttgtcatattctcagtatccatcccacagttattatactgctgtc Alignment from Pairagon ATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagaactcactattccatctttagtgatgtcctgtctttcccactacagATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCGgtaagttgtcatattctcagtatccatcccacagttattatactgctgtc Alignment from Exonerate_protein2genome ATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagaactcactattccatctttagtgatgtcctgtctttcccactacagATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCGgtaagttgtcatattctcagtatccatcccacagttattatactgctgtc Alignment from Exonerate_coding2genome ATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagaactcactattccatctttagtgatgtcctgtctttcccactacagATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCGgtaagttgtcatattctcagtatccatcccacagttattatactgctgtc Alignment from GeneWise ---GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagaactcactattccatctttagtgatgtcctgtctttcccactacagATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCGgtaagttgtcatattctcagtatccatcccacagttattatactgctgtc #### Snx32_ID1066_12 --> 2 - 0 Original Alignment agCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG ccccacccaacacccattatccatccttcacattcttctccacatgctagaaCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCTGAACTGGAGCTCAAG---------gtaacagcttgatcctgccactgcctgctccatcatgaggctgctcccgc Alignment from CESAR agCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG ccccacccaacacccattatccatccttcacattcttctccacatgctagaaCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCTGAACTGGAGCTC---------AAGgtaacagcttgatcctgccactgcctgctccatcatgaggctgctcccgc Alignment from Spaln_aa2Genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG ccccacccaacacccattatccatccttcacattcttctccacatgctagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCTGAACTGGAGCTCAAG---GTAACAgcttgatcctgccactgcctgctccatcatgaggctgctcc Alignment from Spaln_nt2Genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAG ccccacccaacacccattatccatccttcacattcttctccacatgctagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCTGAACTGGAGCTCAAGgtaacagcttgatcctgccactgcctgctccatcatgaggctgctcccgc Alignment from Pairagon AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAG ccccacccaacacccattatccatccttcacattcttctccacatgctagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCTGAACTGGAGCTCAAGgtaacagcttgatcctgccactgcctgctccatcatgaggctgctcccgc Alignment from Exonerate_protein2genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCA ccccacccaacacccattatccatccttcacattcttctccacatgctagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCTGAACTGGAGCTCAAGGTAACAGcttgatcctgccactgcctgctccatcatgaggctgctcccgc Alignment from Exonerate_coding2genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCA ccccacccaacacccattatccatccttcacattcttctccacatgctagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCTGAACTGGAGCTCAAGGTAACAGcttgatcctgccactgcctgctccatcatgaggctgctcccgc Alignment from GeneWise AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG ccccacccaacacccattatccatccttcacattcttctccacatgctagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCTGAACTGGAGCTC---------AAGgtaacagcttgatcctgccactgcctgctccatcatgaggctgctcccgc #### Snx32_ID1068_10 --> 0 - 0 Original Alignment ------AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaggaccaccagccctctaggttccaattgaggcattgtttttccagGAATCTAAATTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtaagtggcagtctgggaagtctgagcattgaaccatgtggacagtcatc Alignment from CESAR ------AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaggaccaccagccctctaggttccaattgaggcattgtttttccagGAATCTAAATTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtaagtggcagtctgggaagtctgagcattgaaccatgtggacagtcatc Alignment from Spaln_aa2Genome AAACTGGAAGGC------CGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaggaccaccagccctctaggttccaattgaggcattgtttttccagGAATCTAAATTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtaagtggcagtctgggaagtctgagcattgaaccatgtggacagtcatc Alignment from Spaln_nt2Genome AAACTGGAAGG------CCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaggaccaccagccctctaggttccaattgaggcattgtttttccagGAATCTAAATTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtaagtggcagtctgggaagtctgagcattgaaccatgtggacagtcatc Alignment from Pairagon ------AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaggaccaccagccctctaggttccaattgaggcattgtttttccagGAATCTAAATTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtaagtggcagtctgggaagtctgagcattgaaccatgtggacagtcatc Alignment from Exonerate_protein2genome CTGAGAAAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaggaccaccagccctctaggttccaattgaggcattgtttttccagGAATCTAAATTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtaagtggcagtctgggaagtctgagcattgaaccatgtggacagtcatc Alignment from Exonerate_coding2genome CTGAGAAAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaggaccaccagccctctaggttccaattgaggcattgtttttccagGAATCTAAATTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtaagtggcagtctgggaagtctgagcattgaaccatgtggacagtcatc Alignment from GeneWise ------AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaggaccaccagccctctaggttccaattgaggcattgtttttccagGAATCTAAATTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtaagtggcagtctgggaagtctgagcattgaaccatgtggacagtcatc #### Snx32_ID1069_9 --> 1 - 0 Original Alignment g------AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctgagagggaagccttgagctgccccagtaatctgcactcttccacgcaggCAGGACAGCTTCCTGAAGCTGGCGGAGCTCTTTGAACGGCTGAGAgtcagtactaccttctgcactcggtcttccctagcggtgccaaggtgcgc Alignment from CESAR g------AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctgagagggaagccttgagctgccccagtaatctgcactcttccacgcaggCAGGACAGCTTCCTGAAGCTGGCGGAGCTCTTTGAACGGCTGAGAgtcagtactaccttctgcactcggtcttccctagcggtgccaaggtgcgc Alignment from Spaln_aa2Genome GAGCTTCCTGAAG------CTGGCAGAGCTCTTTGAACGGCTGAGA ctgagagggaagccttgagctgccccagtaatctgcactcttccacgcagGCAGGACAGCTTCCTGAAGCTGGCGGAGCTCTTTGAACGGCTGAGAgtcagtactaccttctgcactcggtcttccctagcggtgccaaggtgcgc Alignment from Spaln_nt2Genome GAGCTTCCTG--AAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctgagagggaagccttgagctgccccagtaatctgcactcttccacgcaggcagGACAGCTTCCTGAAGCTGGCGGAGCTCTTTGAACGGCTGAGAgtcagtactaccttctgcactcggtcttccctagcggtgccaaggtgcgc Alignment from Pairagon G------AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctgagagggaagccttgagctgccccagtaatctgcactcttccacgcagGCAGGACAGCTTCCTGAAGCTGGCGGAGCTCTTTGAACGGCTGAGAgtcagtactaccttctgcactcggtcttccctagcggtgccaaggtgcgc Alignment from Exonerate_protein2genome G------AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctgagagggaagccttgagctgccccagtaatctgcactcttccacgcagGCAGGACAGCTTCCTGAAGCTGGCGGAGCTCTTTGAACGGCTGAGAgtcagtactaccttctgcactcggtcttccctagcggtgccaaggtgcgc Alignment from Exonerate_coding2genome G------AGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctgagagggaagccttgagctgccccagtaatctgcactcttccacgcagGCAGGACAGCTTCCTGAAGCTGGCGGAGCTCTTTGAACGGCTGAGAgtcagtactaccttctgcactcggtcttccctagcggtgccaaggtgcgc Alignment from GeneWise ----AGGAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA ctgagagggaagccttgagctgccccagtaatctgcactcttccacgcagGCAGGACAGCTTCCTGAAGCTGGCGGAGCTCTTTGAACGGCTGAGAgtcagtactaccttctgcactcggtcttccctagcggtgccaaggtgcgc #### Snx32_ID1072_6 --> 0 - 0 Original Alignment CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG--------------------- acgacaccacctggtgcacccaagcgtctactggggctcatttgcttcagCTGAGTGTTCGGGAGAAGAACAGGAAGGAAGTATTGGGGGGGCTCCTGAGAAGCATTGTCAGGTCTGCAGACGAAGTCCTCATCACCGGCGGCATATCAGGGCTCAAGGACGAAAAAAATCAACCAAATgtaagtctttctgtgggaggagacccatgaacagagcgggctcccaggga Alignment from CESAR CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG--------------------- acgacaccacctggtgcacccaagcgtctactggggctcatttgcttcagCTGAGTGTTCGGGAGAAGAACAGGAAGGAAGTATTGGGGGGGCTCCTGAGAAGCATTGTCAGGTCTGCAGACGAAGTCCTCATCACCGGCGGCATATCAGGGCTCAAGGACGAAAAAAATCAACCAAATgtaagtctttctgtgggaggagacccatgaacagagcgggctcccaggga Alignment from Spaln_aa2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG--------------------- acgacaccacctggtgcacccaagcgtctactggggctcatttgcttcagCTGAGTGTTCGGGAGAAGAACAGGAAGGAAGTATTGGGGGGGCTCCTGAGAAGCATTGTCAGGTCTGCAGACGAAGTCCTCATCACCGGCGGCATATCAGGGCTCAAGGACGAAAAAAATCAACCAAATgtaagtctttctgtgggaggagacccatgaacagagcgggctcccaggga Alignment from Spaln_nt2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAGGAGGTAG-------------- acgacaccacctggtgcacccaagcgtctactggggctcatttgcttcagCTGAGTGTTCGGGAGAAGAACAGGAAGGAAGTATTGGGGGGGCTCCTGAGAAGCATTGTCAGGTCTGCAGACGAAGTCCTCATCACCGGCGGCATATCAGGGCTCAAGGACGAAAAAAATCAACCAAATgtaagtctttctgtgggaggagacccatgaacagagcgggctcccaggga Alignment from Pairagon CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCAC---CGGCATATCAGGGCTCAAG--------------------- acgacaccacctggtgcacccaagcgtctactggggctcatttgcttcagCTGAGTGTTCGGGAGAAGAACAGGAAGGAAGTATTGGGGGGGCTCCTGAGAAGCATTGTCAGGTCTGCAGACGAAGTCCTCATCACCGGCGGCATATCAGGGCTCAAGGACGAAAAAAATCAACCAAATgtaagtctttctgtgggaggagacccatgaacagagcgggctcccaggga Alignment from Exonerate_protein2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acgacaccacctggtgcacccaagcgtctactggggctcatttgcttcagCTGAGTGTTCGGGAGAAGAACAGGAAGGAAGTATTGGGGGGGCTCCTGAGAAGCATTGTCAGGTCTGCAGACGAAGTCCTCATCACCGGCGGCATATCAGGGCTCAAGgacgaaaaaaatcaaccaaatgtaagtctttctgtgggaggagacccatgaacagagcgggctcccaggga Alignment from Exonerate_coding2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG acgacaccacctggtgcacccaagcgtctactggggctcatttgcttcagCTGAGTGTTCGGGAGAAGAACAGGAAGGAAGTATTGGGGGGGCTCCTGAGAAGCATTGTCAGGTCTGCAGACGAAGTCCTCATCACCGGCGGCATATCAGGGCTCAAGgacgaaaaaaatcaaccaaatgtaagtctttctgtgggaggagacccatgaacagagcgggctcccaggga Alignment from GeneWise CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGC---ATATCAGGGCTCAAGGAG------------------ acgacaccacctggtgcacccaagcgtctactggggctcatttgcttcagCTGAGTGTTCGGGAGAAGAACAGGAAGGAAGTATTGGGGGGGCTCCTGAGAAGCATTGTCAGGTCTGCAGACGAAGTCCTCATCACCGGCGGCATATCAGGGCTCAAGGACGAAAAAAATCAACCAAATgtaagtctttctgtgggaggagacccatgaacagagcgggctcccaggga #### Snx32_ID1074_4 --> 0 - 2 Original Alignment ---------------------ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aggatggatgcctgtgacagccccttgggtagtttttttgtttactccagTTTCGACCTATCTCTGCTAGTCTTCCCCCAGCCCCTCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAGGAGCTAGAAgcgtgaggatctcccccacccctgcccattcctccagggtttcttcactaac Alignment from CESAR ---------------------ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aggatggatgcctgtgacagccccttgggtagtttttttgtttactccagTTTCGACCTATCTCTGCTAGTCTTCCCCCAGCCCCTCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAGGAGCTAGAAgcgtgaggatctcccccacccctgcccattcctccagggtttcttcactaac Alignment from Spaln_aa2Genome CCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatgcctgtgacagccccttgggtagtttttttgtttactccagtttcgacctatctctgctagtcttcccccagCCCCTCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAGGAGCTAGAAGCgtgaggatctcccccacccctgcccattcctccagggtttcttcactaac Alignment from Spaln_nt2Genome A-TTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatgcctgtgacagccccttgggtagtttttttgtttactccagtttcgacctatctctgctagTCTTCCCCCAGCCCCTCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAGGAGCTAGAAGCgtgaggatctcccccacccctgcccattcctccagggtttcttcactaac Alignment from Pairagon ---------------------ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatgcctgtgacagccccttgggtagtttttttgtttactccagTTTCGACCTATCTCTGCTAGTCTTCCCCCAGCCCCTCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAGGAGCTAGAAGCgtgaggatctcccccacccctgcccattcctccagggtttcttcactaac Alignment from Exonerate_protein2genome CCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatgcctgtgacagccccttgggtagtttttttgtttactccagtttcgacctatctctgctagtcttcccccagCCCCTCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAGGAGCTAGAAGCgtgaggatctcccccacccctgcccattcctccagggtttcttcactaac Alignment from Exonerate_coding2genome CCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatgcctgtgacagccccttgggtagtttttttgtttactccagtttcgacctatctctgctagtcttcccccagCCCCTCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAGGAGCTAGAAGCgtgaggatctcccccacccctgcccattcctccagggtttcttcactaac Alignment from GeneWise ---------------------ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatgcctgtgacagccccttgggtagtttttttgtttactccagTTTCGACCTATCTCTGCTAGTCTTCCCCCAGCCCCTCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAGGAGCTAGAAGCgtgaggatctcccccacccctgcccattcctccagggtttcttcactaac #### Snx32_ID1075_3 --> 0 - 0 Original Alignment ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC gaggcagctttgggaaagatgggatctcataataaaatgctttcttccagACCAGTGGCCTTCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTACACCAGCCTCATTgtatccaggggcggggcagggctggggtgttgggaacatgaataaggatg Alignment from CESAR ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC gaggcagctttgggaaagatgggatctcataataaaatgctttcttccagACCAGTGGCCTTCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTACACCAGCCTCATTgtatccaggggcggggcagggctggggtgttgggaacatgaataaggatg Alignment from Spaln_aa2Genome AGTGGCCTCCCT---CACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC gaggcagctttgggaaagatgggatctcataataaaatgctttcttccagACCAGTGGCCTTCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTACACCAGCCTCATTgtatccaggggcggggcagggctggggtgttgggaacatgaataaggatg Alignment from Spaln_nt2Genome GAGTGGCCTCCC--TCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC gaggcagctttgggaaagatgggatctcataataaaatgctttcttccagACCAGTGGCCTTCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTACACCAGCCTCATTgtatccaggggcggggcagggctggggtgttgggaacatgaataaggatg Alignment from Pairagon ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC gaggcagctttgggaaagatgggatctcataataaaatgctttcttccagACCAGTGGCCTTCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTACACCAGCCTCATTgtatccaggggcggggcagggctggggtgttgggaacatgaataaggatg Alignment from Exonerate_protein2genome ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC gaggcagctttgggaaagatgggatctcataataaaatgctttcttccagACCAGTGGCCTTCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTACACCAGCCTCATTgtatccaggggcggggcagggctggggtgttgggaacatgaataaggatg Alignment from Exonerate_coding2genome ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC gaggcagctttgggaaagatgggatctcataataaaatgctttcttccagACCAGTGGCCTTCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTACACCAGCCTCATTgtatccaggggcggggcagggctggggtgttgggaacatgaataaggatg Alignment from GeneWise ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC gaggcagctttgggaaagatgggatctcataataaaatgctttcttccagACCAGTGGCCTTCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTACACCAGCCTCATTgtatccaggggcggggcagggctggggtgttgggaacatgaataaggatg #### Sptbn2_ID628_23 --> 0 - 2 Original Alignment GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag ctcttacccccaagcacctgctgcctgacgccatgcttgtccctttacagGACGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAGACCATTAAACAACTATCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCA---aggtaagcagagtgtgagtatcatgagccttggccgcatagaatagaaagct Alignment from CESAR GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag ctcttacccccaagcacctgctgcctgacgccatgcttgtccctttacagGACGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAGACCATTAAACAACTATCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCA---aggtaagcagagtgtgagtatcatgagccttggccgcatagaatagaaagct Alignment from Spaln_aa2Genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGA ctcttacccccaagcacctgctgcctgacgccatgcttgtccctttacagGACGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAGACCATTAAACAACTATCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAAGgtaagcagagtgtgagtatcatgagccttggccgcatagaatagaaagct Alignment from Spaln_nt2Genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttacccccaagcacctgctgcctgacgccatgcttgtccctttacagGACGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAGACCATTAAACAACTATCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCA---AGgtaagcagagtgtgagtatcatgagccttggccgcatagaatagaaagct Alignment from Pairagon GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttacccccaagcacctgctgcctgacgccatgcttgtccctttacagGACGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAGACCATTAAACAACTATCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCA---AGgtaagcagagtgtgagtatcatgagccttggccgcatagaatagaaagct Alignment from Exonerate_protein2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttacccccaagcacctgctgcctgacgccatgcttgtccctttacagGACGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAGACCATTAAACAACTATCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCA---AGgtaagcagagtgtgagtatcatgagccttggccgcatagaatagaaagct Alignment from Exonerate_coding2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG ctcttacccccaagcacctgctgcctgacgccatgcttgtccctttacagGACGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAGACCATTAAACAACTATCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCA---AGgtaagcagagtgtgagtatcatgagccttggccgcatagaatagaaagct Alignment from GeneWise GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGA ctcttacccccaagcacctgctgcctgacgccatgcttgtccctttacagGACGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGATTATGCCCAGACCATTAAACAACTATCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAAGgtaagcagagtgtgagtatcatgagccttggccgcatagaatagaaagct #### Sptbn2_ID633_28 --> 0 - 1 Original Alignment ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg gagaccatggtaaagctccattaatcatatgcctgtctgtctttccacagATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGG---------------------------ggtgagtcacttggcaatgtcacaggagtcgctcagttaccgtgccaaagg Alignment from CESAR ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg gagaccatggtaaagctccattaatcatatgcctgtctgtctttccacagATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGG---------------------------ggtgagtcacttggcaatgtcacaggagtcgctcagttaccgtgccaaagg Alignment from Spaln_aa2Genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG gagaccatggtaaagctccattaatcatatgcctgtctgtctttccacagATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGGGTGAGTCA---------------CTTGgcaatgtcacaggagtcgctcag Alignment from Spaln_nt2Genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGC - gagaccatggtaaagctccattaatcatatgcctgtctgtctttccacagATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGGgtgagtcacttggcaatgtcacaggagtcgctcagttaccgtgccaaagG Alignment from Pairagon ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG gagaccatggtaaagctccattaatcatatgcctgtctgtctttccacagATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGG---------------------------Ggtgagtcacttggcaatgtcacaggagtcgctcagttaccgtgccaaagg Alignment from Exonerate_protein2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGC gagaccatggtaaagctccattaatcatatgcctgtctgtctttccacagATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGGGTGAGTCACTTGGCAATGTCACAGgagtcgctcagttaccgtgccaaagg Alignment from Exonerate_coding2genome ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGC gagaccatggtaaagctccattaatcatatgcctgtctgtctttccacagATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGGGTGAGTCACTTGGCAATGTCACAGgagtcgctcagttaccgtgccaaagg Alignment from GeneWise ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTGTTTTGGAG gagaccatggtaaagctccattaatcatatgcctgtctgtctttccacagATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGGGTGAGTCA---------CTTGGCAATGTCACAGGAgtcgctcagttaccg #### Sptbn2_ID634_29 --> 2 - 0 Original Alignment ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG tctaaccttccaactttctataccctcaggcctttttgtgttttgtgtagtt------GTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGCGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcaggacctcagaggtgcccaaccccattactgccttattt Alignment from CESAR ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ttgcactctaaccttccaactttcttcaggcctttttgtgttttgtgtagtt------GTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGCGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcaggacctcagaggtgcccaaccccattactgccttattt Alignment from Spaln_aa2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG tctaaccttccaactttctataccctcaggcctttttgtgttttgtgtagTT------GTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGCGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcaggacctcagaggtgcccaaccccattactgccttattt Alignment from Spaln_nt2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG tctaaccttccaactttctataccctcaggcctttttgtgttttgtgtagTT------GTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGCGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcaggacctcagaggtgcccaaccccattactgccttattt Alignment from Pairagon TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG tctaaccttccaactttctataccctcaggcctttttgtgttttgtgtagTT------GTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGCGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcaggacctcagaggtgcccaaccccattactgccttattt Alignment from Exonerate_protein2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG tctaaccttccaactttctataccctcaggcctttttgtgttttGTGTAGTTGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGCGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcaggacctcagaggtgcccaaccccattactgccttattt Alignment from Exonerate_coding2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG tctaaccttccaactttctataccctcaggcctttttgtgttttGTGTAGTTGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGCGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcaggacctcagaggtgcccaaccccattactgccttattt Alignment from GeneWise AGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG tctaaccttccaactttctataccctcaggcctttttgtgttttgtgtagTTGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGCGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcaggacctcagaggtgcccaaccccattactgccttattt #### Sptbn2_ID635_30 --> 0 - 2 Original Alignment CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg cagcttttcaactccccctgattctcgcatcctcttcctctcccgatcagCTGGAAGAGCGGGAAAATGAACGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAACCTCCTACTTCAGAGCCTATGGCTAGTCAGCCAGAAGGGAGTCTGGTGGATGGCCAGAGAGTTCCTGACACTGCTTGG---gggttggttaagcttgatacctgggccaggatgctaaagctaagcccaagcc Alignment from CESAR CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATgg cagcttttcaactccccctgattctcgcatcctcttcctctcccgatcagCTGGAAGAGCGGGAAAATGAACGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAACCTCCTACTTCAGAGCCTATGGCTAGTCAGCCAGAAGGGAGTCTGGTGGATGGCCAGAGAGTTCCTGACACTGCTTGG---gggttggttaagcttgatacctgggccaggatgctaaagctaagcccaagcc Alignment from Spaln_aa2Genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGA cagcttttcaactccccctgattctcgcatcctcttcctctcccgatcagCTGGAAGAGCGGGAAAATGAACGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAACCTCCTACTTCAGAGCCTATGGCTAGTCAGCCAGAAGGGAGTCTGGTGGATGGCCAGAGAGTTCCTGACACTGCTTGGGGgttggttaagcttgatacctgggccaggatgctaaagctaagcccaagcc Alignment from Spaln_nt2Genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG cagcttttcaactccccctgattctcgcatcctcttcctctcccgatcagCTGGAAGAGCGGGAAAATGAACGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAACCTCCTACTTCAGAGCCTATGGCTAGTCAGCCAGAAGGGAGTCTGGTGGATGGCCAGAGAGTTCCTGACACTGCTTGG---GGgttggttaagcttgatacctgggccaggatgctaaagctaagcccaagcc Alignment from Pairagon CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGG---------------------------------------------------- cagcttttcaactccccctgattctcgcatcctcttcctctcccgatcagCTGGAAGAGCGGGAAAATGAACGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAACCTCCTACTTCAGAGCCTATGGCTAGTCAGCCAGAAGGGAGTCTGGTGGATGGCCAGAGAGTTCCTGACACTGCTTGGGGGTTGGTTAAGCTTGATACCTGGGCCAGGATGCTAAAGCTAAGCCCAAGCC Alignment from Exonerate_protein2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG cagcttttcaactccccctgattctcgcatcctcttcctctcccgatcagCTGGAAGAGCGGGAAAATGAACGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAACCTCCTACTTCAGAGCCTATGGCTAGTCAGCCAGAAGGGAGTCTGGTGGATGGCCAGAGAGTTCCTGACACTGCTTGG---GGgttggttaagcttgatacctgggccaggatgctaaagctaagcccaagcc Alignment from Exonerate_coding2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG cagcttttcaactccccctgattctcgcatcctcttcctctcccgatcagCTGGAAGAGCGGGAAAATGAACGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAACCTCCTACTTCAGAGCCTATGGCTAGTCAGCCAGAAGGGAGTCTGGTGGATGGCCAGAGAGTTCCTGACACTGCTTGG---GGgttggttaagcttgatacctgggccaggatgctaaagctaagcccaagcc Alignment from GeneWise CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGA cagcttttcaactccccctgattctcgcatcctcttcctctcccgatcagCTGGAAGAGCGGGAAAATGAACGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAACCTCCTACTTCAGAGCCTATGGCTAGTCAGCCAGAAGGGAGTCTGGTGGATGGCCAGAGAGTTCCTGACACTGCTTGGGGgttggttaagcttgatacctgggccaggatgctaaagctaagcccaagcc #### Sptbn2_ID636_31 --> 1 - 0 Original Alignment g------ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG cccaagccagccaccggttaatgatcctaacttgttgttttctctttaaggAGAGAAACTCAGTCAAAATTGCCACCGTCGACACAAGCACCCAGTGTTAATGGGGTCTGCACAGACACCGACTCCTCACAGgtgagatcatgttgctggacatccctttcaacccagccagcctccagatc Alignment from CESAR g------ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG cccaagccagccaccggttaatgatcctaacttgttgttttctctttaaggAGAGAAACTCAGTCAAAATTGCCACCGTCGACACAAGCACCCAGTGTTAATGGGGTCTGCACAGACACCGACTCCTCACAGgtgagatcatgttgctggacatccctttcaacccagccagcctccagatc Alignment from Spaln_aa2Genome GACTCAGTCAAAATTG---CCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG cccaagccagccaccggttaatgatcctaacttgttgttttctctttaaggagAGAAACTCAGTCAAAATTGCCACCGTCGACACAAGCACCCAGTGTTAATGGGGTCTGCACAGACACCGACTCCTCACAGgtgagatcatgttgctggacatccctttcaacccagccagcctccagatc Alignment from Spaln_nt2Genome GACTCAGTCA------AAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG cccaagccagccaccggttaatgatcctaacttgttgttttctctttaagGAGAGAAACTCAGTCAAAATTGCCACCGTCGACACAAGCACCCAGTGTTAATGGGGTCTGCACAGACACCGACTCCTCACAGgtgagatcatgttgctggacatccctttcaacccagccagcctccagatc Alignment from Pairagon ---------------------------------------------------------ACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG CCCAAGCCAGCCACCGGTTAATGATCCTAACTTGTTGTTTTCTCTTTAAGGAGAGAAACTCAGTCAAAATTGCCACCGTCGACACAAGCACCCAGTGTTAATGGGGTCTGCACAGACACCGACTCCTCACAGgtgagatcatgttgctggacatccctttcaacccagccagcctccagatc Alignment from Exonerate_protein2genome GGATGGGACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG cccaagccagccaccggttaatgatcctaacttgttgttttctctttaagGAGAGAAACTCAGTCAAAATTGCCACCGTCGACACAAGCACCCAGTGTTAATGGGGTCTGCACAGACACCGACTCCTCACAGgtgagatcatgttgctggacatccctttcaacccagccagcctccagatc Alignment from Exonerate_coding2genome GGATGGGACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG cccaagccagccaccggttaatgatcctaacttgttgttttctctttaagGAGAGAAACTCAGTCAAAATTGCCACCGTCGACACAAGCACCCAGTGTTAATGGGGTCTGCACAGACACCGACTCCTCACAGgtgagatcatgttgctggacatccctttcaacccagccagcctccagatc Alignment from GeneWise -GGGACTCAGTCAAAATTGCCACCATCCACACAAGCACCCAGTGTTAATGGGGTCTGCACGGACACCGACTCCTCACAG cccaagccagccaccggttaatgatcctaacttgttgttttctctttaaggagAGAAACTCAGTCAAAATTGCCACCGTCGACACAAGCACCCAGTGTTAATGGGGTCTGCACAGACACCGACTCCTCACAGgtgagatcatgttgctggacatccctttcaacccagccagcctccagatc #### Sptbn2_ID637_32 --> 0 - 0 Original Alignment CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT------ cctttcaacccagccagcctccagatccctcgttctttgtgtccatgcagCCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCTAACCTGgtgagtctacctaaagggctgggtatgggtgccgggagatgagggggcaa Alignment from CESAR CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT------ cctttcaacccagccagcctccagatccctcgttctttgtgtccatgcagCCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCTAACCTGgtgagtctacctaaagggctgggtatgggtgccgggagatgagggggcaa Alignment from Spaln_aa2Genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT------ cctttcaacccagccagcctccagatccctcgttctttgtgtccatgcagCCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCTAACCTGgtgagtctacctaaagggctgggtatgggtgccgggagatgagggggcaa Alignment from Spaln_nt2Genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT------ cctttcaacccagccagcctccagatccctcgttctttgtgtccatgcagCCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCTAACCTGgtgagtctacctaaagggctgggtatgggtgccgggagatgagggggcaa Alignment from Pairagon CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT------ cctttcaacccagccagcctccagatccctcgttctttgtgtccatgcagCCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCTAACCTGgtgagtctacctaaagggctgggtatgggtgccgggagatgagggggcaa Alignment from Exonerate_protein2genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT------ cctttcaacccagccagcctccagatccctcgttctttgtgtccatgcagCCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCTAACCTGgtgagtctacctaaagggctgggtatgggtgccgggagatgagggggcaa Alignment from Exonerate_coding2genome CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT------ cctttcaacccagccagcctccagatccctcgttctttgtgtccatgcagCCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCTAACCTGgtgagtctacctaaagggctgggtatgggtgccgggagatgagggggcaa Alignment from GeneWise CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT------ cctttcaacccagccagcctccagatccctcgttctttgtgtccatgcagCCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCTAACCTGgtgagtctacctaaagggctgggtatgggtgccgggagatgagggggcaa #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag accatcgatgtcatcctttgctctgggtattttcccttatcctaccttag---------ACAGGAGATGAGTCCAGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAAAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTACCCACACGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACaggtatgtatcctggctgtgctgtgctgaggcctgtggcctctcagattctg Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag gggaaggataccatcgatgtcatccggtattttcccttatcctaccttag---------ACAGGAGATGAGTCCAGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAAAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTACCCACACGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACaggtatgtatcctggctgtgctgtgctgaggcctgtggcctctcagattctg Alignment from Spaln_aa2Genome GAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG accatcgatgtcatcctttgctctgggtattttcccttatcctaccttagacagGAGATGAGTCCAGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAAAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTACCCACACGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACAGgtatgtatcctggctgtgctgtgctgaggcctgtggcctctcagattctg Alignment from Spaln_nt2Genome ACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG accatcgatgtcatcctttgctctgggtattttcccttatcctaccttagACAGGAGATGAGTCCAGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAAAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTACCCACACGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACAGgtatgtatcctggctgtgctgtgctgaggcctgtggcctctcagattctg Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG accatcgatgtcatcctttgctctgggtattttcccttatcctaccttag---------ACAGGAGATGAGTCCAGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAAAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTACCCACACGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACAGgtatgtatcctggctgtgctgtgctgaggcctgtggcctctcagattctg Alignment from Exonerate_protein2genome ACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG accatcgatgtcatcctttgctctgggtattttcccttatcctaccttagACAGGAGATGAGTCCAGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAAAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTACCCACACGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACAGgtatgtatcctggctgtgctgtgctgaggcctgtggcctctcagattctg Alignment from Exonerate_coding2genome ACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG accatcgatgtcatcctttgctctgggtattttcccttatcctaccttagACAGGAGATGAGTCCAGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAAAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTACCCACACGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACAGgtatgtatcctggctgtgctgtgctgaggcctgtggcctctcagattctg Alignment from GeneWise GAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG accatcgatgtcatcctttgctctgggtattttcccttatcctaccttagacagGAGATGAGTCCAGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAAAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTACCCACACGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACAGgtatgtatcctggctgtgctgtgctgaggcctgtggcctctcagattctg #### Sptbn2_ID639_34 --> 1 - 2 Original Alignment gTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTG---gg accaggttcctgaccctgaaggtttctggcttgctgtctctctaatgcaggTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTTGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCAGGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGTGTgggtgagttttcaagctggggtaagtacctgggctcctcttgggttgggagg Alignment from CESAR gTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTG---gg accaggttcctgaccctgaaggtttctggcttgctgtctctctaatgcaggTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTTGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCAGGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGTGTgggtgagttttcaagctggggtaagtacctgggctcctcttgggttgggagg Alignment from Spaln_aa2Genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGGC-- accaggttcctgaccctgaaggtttctggcttgctgtctctctaatgcagGTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTTGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCAGGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGTGTGGgtgagttttcaagctggggtaagtacctgggctcctcttgggttgggagg Alignment from Spaln_nt2Genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTG---GG accaggttcctgaccctgaaggtttctggcttgctgtctctctaatgcagGTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTTGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCAGGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGTGTGGgtgagttttcaagctggggtaagtacctgggctcctcttgggttgggagg Alignment from Pairagon GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTG---GG accaggttcctgaccctgaaggtttctggcttgctgtctctctaatgcagGTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTTGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCAGGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGTGTGGgtgagttttcaagctggggtaagtacctgggctcctcttgggttgggagg Alignment from Exonerate_protein2genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTG---GG accaggttcctgaccctgaaggtttctggcttgctgtctctctaatgcagGTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTTGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCAGGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGTGTGGgtgagttttcaagctggggtaagtacctgggctcctcttgggttgggagg Alignment from Exonerate_coding2genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTG---GG accaggttcctgaccctgaaggtttctggcttgctgtctctctaatgcagGTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTTGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCAGGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGTGTGGgtgagttttcaagctggggtaagtacctgggctcctcttgggttgggagg Alignment from GeneWise GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGGC-- accaggttcctgaccctgaaggtttctggcttgctgtctctctaatgcagGTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTTGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCAGGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGTGTGGgtgagttttcaagctggggtaagtacctgggctcctcttgggttgggagg #### Ssh3_ID444_12 --> 1 - 2 Original Alignment aGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCag aggctacttgggttggaaaggcatggacagggattcggtgtgtgtttcagaGCACAGGGCACTCGAGTGCTAGTCCACTGCAAGACGGGTGTCAGCCGATCTGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACACCCCAACCACAGCTTCCTGCGCCAGCTACGGACCTACCAAGGCATTCTGACT---aggtcagtggtgtggagaggacaagggcggtgttgtgtatactgaggggtgg Alignment from CESAR aGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCag aggctacttgggttggaaaggcatggacagggattcggtgtgtgtttcagaGCACAGGGCACTCGAGTGCTAGTCCACTGCAAGACGGGTGTCAGCCGATCTGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACACCCCAACCACAGCTTCCTGCGCCAGCTACGGACCTACCAAGGCATTCTGACT---aggtcagtggtgtggagaggacaagggcggtgttgtgtatactgaggggtgg Alignment from Spaln_aa2Genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAGCCGG aggctacttgggttggaaaggcatggacagggattcggtgtgtgtttcagAGCACAGGGCACTCGAGTGCTAGTCCACTGCAAGACGGGTGTCAGCCGATCTGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACACCCCAACCACAGCTTCCTGCGCCAGCTACGGACCTACCAAGGCATTCTGACTAGGTCAGTGgtgtggagaggacaagggcggtgttgtgtatactgaggggtgg Alignment from Spaln_nt2Genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG aggctacttgggttggaaaggcatggacagggattcggtgtgtgtttcagAGCACAGGGCACTCGAGTGCTAGTCCACTGCAAGACGGGTGTCAGCCGATCTGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACACCCCAACCACAGCTTCCTGCGCCAGCTACGGACCTACCAAGGCATTCTGACT---AGgtcagtggtgtggagaggacaagggcggtgttgtgtatactgaggggtgg Alignment from Pairagon AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG aggctacttgggttggaaaggcatggacagggattcggtgtgtgtttcagAGCACAGGGCACTCGAGTGCTAGTCCACTGCAAGACGGGTGTCAGCCGATCTGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACACCCCAACCACAGCTTCCTGCGCCAGCTACGGACCTACCAAGGCATTCTGACT---AGgtcagtggtgtggagaggacaagggcggtgttgtgtatactgaggggtgg Alignment from Exonerate_protein2genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAGCCGG aggctacttgggttggaaaggcatggacagggattcggtgtgtgtttcagAGCACAGGGCACTCGAGTGCTAGTCCACTGCAAGACGGGTGTCAGCCGATCTGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACACCCCAACCACAGCTTCCTGCGCCAGCTACGGACCTACCAAGGCATTCTGACTAGGTCAGTGgtgtggagaggacaagggcggtgttgtgtatactgaggggtgg Alignment from Exonerate_coding2genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAGCCGG aggctacttgggttggaaaggcatggacagggattcggtgtgtgtttcagAGCACAGGGCACTCGAGTGCTAGTCCACTGCAAGACGGGTGTCAGCCGATCTGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACACCCCAACCACAGCTTCCTGCGCCAGCTACGGACCTACCAAGGCATTCTGACTAGGTCAGTGgtgtggagaggacaagggcggtgttgtgtatactgaggggtgg Alignment from GeneWise AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAGCCGG aggctacttgggttggaaaggcatggacagggattcggtgtgtgtttcagAGCACAGGGCACTCGAGTGCTAGTCCACTGCAAGACGGGTGTCAGCCGATCTGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACACCCCAACCACAGCTTCCTGCGCCAGCTACGGACCTACCAAGGCATTCTGACTAGGTCAGTGgtgtggagaggacaagggcggtgttgtgtatactgaggggtgg #### Ssh3_ID445_11 --> 1 - 2 Original Alignment aGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCag gttcctctgccacatcaggtctacattagctctccggcccctccccacaga------CACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGTTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCAGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGGATGCCaggtaagtctgctcccagcttctgatgcgccagcttccagtggaggctggta Alignment from CESAR aGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCag cgcctggttcctctgccacatcaggttagctctccggcccctccccacaga------CACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGTTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCAGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGGATGCCaggtaagtctgctcccagcttctgatgcgccagcttccagtggaggctggta Alignment from Spaln_aa2Genome AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG gttcctctgccacatcaggtctacattagctctccggcccctccccacagA------CACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGTTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCAGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaagtctgctcccagcttctgatgcgccagcttccagtggaggctggta Alignment from Spaln_nt2Genome TCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG gttcctctgccacatcaggtctacattagctctccggcccctccccacagACACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGTTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCAGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaagtctgctcccagcttctgatgcgccagcttccagtggaggctggta Alignment from Pairagon AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG gttcctctgccacatcaggtctacattagctctccggcccctccccacagA------CACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGTTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCAGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaagtctgctcccagcttctgatgcgccagcttccagtggaggctggta Alignment from Exonerate_protein2genome AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG gttcctctgccacatcaggtctacattagctctccggcccctccccacagA------CACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGTTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCAGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaagtctgctcccagcttctgatgcgccagcttccagtggaggctggta Alignment from Exonerate_coding2genome AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG gttcctctgccacatcaggtctacattagctctccggcccctccccacagA------CACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGTTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCAGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaagtctgctcccagcttctgatgcgccagcttccagtggaggctggta Alignment from GeneWise AGTAAGTCACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGCTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCGGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTCATTGAGGATGCCAG gttcctctgccacatcaggtctacattagctctccggcccctccccacagA------CACATCTTGAACATGGCCCGGGAGATTGACAACTTCTTCCCTGAGCGTTTCACCTATTACAATGTACGTGTCTGGGATGAGGAATCAGCACAGCTTCTGCCCCACTGGAAGGAGACACATCGATTTATTGAGGATGCCAGgtaagtctgctcccagcttctgatgcgccagcttccagtggaggctggta #### Ssh3_ID446_10 --> 0 - 2 Original Alignment TTCCCCCACCTCTACTTG ---GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag TTCCCCCACCTCTACTTGgtgtgcggccacctggtctcaatcacccacagTGGGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAGAACaggtaagttttccagccttgggtctgccgcttcttctctcagcctctctgtg Alignment from CESAR TTCCCCCACCTCTACTTG ---GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag TTCCCCCACCTCTACTTGgtaaggggccacctggtctcaatcacccacagTGGGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAGAACaggtaagttttccagccttgggtctgccgcttcttctctcagcctctctgtg Alignment from Spaln_aa2Genome TTCCCCCACCTCTACTTG GGCTCTGAGTGG---AATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTCCCCCACCTCTACTTGgtgtgcggccacctggtctcaatcacccacagTGGGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAGAACAGgtaagttttccagccttgggtctgccgcttcttctctcagcctctctgtg Alignment from Spaln_nt2Genome TTCCCCCACCTCTACTT- GGGCTCTGAGT--GGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTCCCCCACCTCTACTTGgtgataggccacctggtctcaatcacccacagTGGGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAGAACAGgtaagttttccagccttgggtctgccgcttcttctctcagcctctctgtg Alignment from Pairagon TTCCCCCACCTCTACTT-----------------------------------GGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTCCCCCACCTCTACTTGGTGATAGGCCACCTGGTCTCAATCACCCACAGTGGGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAGAACAGgtaagttttccagccttgggtctgccgcttcttctctcagcctctctgtg Alignment from Exonerate_protein2genome TTCCCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTCCCCCACCTCTACTTGgtgtgcggccacctggtctcaatcacccacagtggGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAGAACAGgtaagttttccagccttgggtctgccgcttcttctctcagcctctctgtg Alignment from Exonerate_coding2genome TTCCCCCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTCCCCCACCTCTACTTGgtgtgcggccacctggtctcaatcacccacagtggGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAGAACAGgtaagttttccagccttgggtctgccgcttcttctctcagcctctctgtg Alignment from GeneWise TTCCCCCACCTCTACTTG ---GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG TTCCCCCACCTCTACTTGgtgataggccacctggtctcaatcacccacagTGGGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAGAACAGgtaagttttccagccttgggtctgccgcttcttctctcagcctctctgtg #### Ssh3_ID447_9 --> 0 - 0 Original Alignment ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAATGCT ttcacaatggggggcctattcttttgccttctgtaatttccctgacacagATCCGTCAGGCCCTGGAGCTGCGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGTTGCTTCTAATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGGGAgtaagtggcctcttgcatctctgtttccacagGGCTCTGAGTGGAATGCT Alignment from CESAR ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAATGCT ttcacaatggggggcctattcttttgccttctgtaatttccctgacacagATCCGTCAGGCCCTGGAGCTGCGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGTTGCTTCTAATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGGGAgtaagtggcccccacttccactgccttcccagGGCTCTGAGTGGAATGCT Alignment from Spaln_aa2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAATGCT ttcacaatggggggcctattcttttgccttctgtaatttccctgacacagATCCGTCAGGCCCTGGAGCTGCGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGTTGCTTCTAATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGGGAgtaagtggcctcttgcatctctgtttccacagGGCTCTGAGTGGAATGCT Alignment from Spaln_nt2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAATGCT ttcacaatggggggcctattcttttgccttctgtaatttccctgacacagATCCGTCAGGCCCTGGAGCTGCGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGTTGCTTCTAATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGGGAgtaagtggcctaactagtttgttgtcttgcagGGCTCTGAGTGGAATGCT Alignment from Pairagon ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG--- GGCTCTGAGTGGAATGCT ttcacaatggggggcctattcttttgccttctgtaatttccctgacacagATCCGTCAGGCCCTGGAGCTGCGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGTTGCTTCTAATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGGGAgtaagtggcctaactagtttgttgtcttgcagGGCTCTGAGTGGAATGCT Alignment from Exonerate_protein2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAATGCT ttcacaatggggggcctattcttttgccttctgtaatttccctgacacagATCCGTCAGGCCCTGGAGCTGCGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGTTGCTTCTAATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGggagtaagtggcctcttgcatctctgtttccacagGGCTCTGAGTGGAATGCT Alignment from Exonerate_coding2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAATGCT ttcacaatggggggcctattcttttgccttctgtaatttccctgacacagATCCGTCAGGCCCTGGAGCTGCGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGTTGCTTCTAATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGggagtaagtggcctcttgcatctctgtttccacagGGCTCTGAGTGGAATGCT Alignment from GeneWise ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGGGC ---TCTGAGTGGAATGCT ttcacaatggggggcctattcttttgccttctgtaatttccctgacacagATCCGTCAGGCCCTGGAGCTGCGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGTTGCTTCTAATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTGGGAgtaagtggcctaactagtttgttgtcttgcagGGCTCTGAGTGGAATGCT #### Ssh3_ID450_6 --> 1 - 2 Original Alignment gGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg atgaacaggtagcctggtatttggttccgtttttatctttttacttgcagaGGCTTAAGTGTGACATCTGGTGGTCAAAGTCGAATCTTCAAGCCTGTCTCTATCCAG------tggtgggtatccgcgctgcacagctgtaaccttggaccaggcacttaggtgg Alignment from CESAR gGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg atgaacaggtagcctggtatttggttccgtttttatctttttacttgcagaGGCTTAAGTGTGACATCTGGTGGTCAAAGTCGAATCTTCAAGCCTGTCTCTATCCAG------tggtgggtatccgcgctgcacagctgtaaccttggaccaggcacttaggtgg Alignment from Spaln_aa2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGAC atgaacaggtagcctggtatttggttccgtttttatctttttacttgcagAGGCTTAAGTGTGACATCTGGTGGTCAAAGTCGAATCTTCAAGCCTGTCTCTATCCAGTGgtgggtatccgcgctgcacagctgtaaccttggaccaggcacttaggtgg Alignment from Spaln_nt2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG atgaacaggtagcctggtatttggttccgtttttatctttttacttgcagAGGCTTAAGTGTGACATCTGGTGGTCAAAGTCGAATCTTCAAGCCTGTCTCTATCCA------GTGgtgggtatccgcgctgcacagctgtaaccttggaccaggcacttaggtgg Alignment from Pairagon GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG atgaacaggtagcctggtatttggttccgtttttatctttttacttgcagAGGCTTAAGTGTGACATCTGGTGGTCAAAGTCGAATCTTCAAGCCTGTCTCTATCCA------GTGgtgggtatccgcgctgcacagctgtaaccttggaccaggcacttaggtgg Alignment from Exonerate_protein2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG atgaacaggtagcctggtatttggttccgtttttatctttttacttgcagAGGCTTAAGTGTGACATCTGGTGGTCAAAGTCGAATCTTCAAGCCTGTCTCTATCCAGTGGTGGGTatccgcgctgcacagctgtaaccttggaccaggcacttaggtgg Alignment from Exonerate_coding2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG atgaacaggtagcctggtatttggttccgtttttatctttttacttgcagAGGCTTAAGTGTGACATCTGGTGGTCAAAGTCGAATCTTCAAGCCTGTCTCTATCCAGTGGTGGGTatccgcgctgcacagctgtaaccttggaccaggcacttaggtgg Alignment from GeneWise GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGAC atgaacaggtagcctggtatttggttccgtttttatctttttacttgcagAGGCTTAAGTGTGACATCTGGTGGTCAAAGTCGAATCTTCAAGCCTGTCTCTATCCAGTGgtgggtatccgcgctgcacagctgtaaccttggaccaggcacttaggtgg #### Ssh3_ID451_5 --> 1 - 2 Original Alignment tTCCCAC---------AGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGAT---------gg gccaaggctgtaatgtgctggggaacaatgtttcccttctctcatttcagtTCCCACAGCTGTACCAGCTGCACCCTGGGTCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGATGGAGATGTTGTGGAAgggtatttggctttctgtaggaacaggaggggaaggacaagaatgggtagat Alignment from CESAR tTCCCACAGC---------TGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGAT---------gg gccaaggctgtaatgtgctggggaacaatgtttcccttctctcatttcagtTCCCACAGCTGTACCAGCTGCACCCTGGGTCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGATGGAGATGTTGTGGAAgggtatttggctttctgtaggaacaggaggggaaggacaagaatgggtagat Alignment from Spaln_aa2Genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGGG-------- gccaaggctgtaatgtgctggggaacaatgtttcccttctctcatttcagttcccacagCTGTACCAGCTGCACCCTGGGTCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGATGGAGATGTTGTGGAAGGgtatttggctttctgtaggaacaggaggggaaggacaagaatgggtagat Alignment from Spaln_nt2Genome TTCCCACAGCTG---------CACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGGG gccaaggctgtaatgtgctggggaacaatgtttcccttctctcatttcagTTCCCACAGCTGTACCAGCTGCACCCTGGGTCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGATGGAGATGTTgtggaagggtatttggctttctgtaggaacaggaggggaaggacaagaatgggtagat Alignment from Pairagon TTCCCA---------CAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGAT---------GG gccaaggctgtaatgtgctggggaacaatgtttcccttctctcatttcagTTCCCACAGCTGTACCAGCTGCACCCTGGGTCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGATGGAGATGTTGTGGAAGGgtatttggctttctgtaggaacaggaggggaaggacaagaatgggtagat Alignment from Exonerate_protein2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATG gccaaggctgtaatgtgctggggaacaatgtttcccttctctcatttcagttcccacagCTGTACCAGCTGCACCCTGGGTCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGATGGAGATGttgtggaagggtatttggctttctgtaggaacaggaggggaaggacaagaatgggtagat Alignment from Exonerate_coding2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATG gccaaggctgtaatgtgctggggaacaatgtttcccttctctcatttcagttcccacagCTGTACCAGCTGCACCCTGGGTCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGATGGAGATGttgtggaagggtatttggctttctgtaggaacaggaggggaaggacaagaatgggtagat Alignment from GeneWise TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGAT---------GG gccaaggctgtaatgtgctggggaacaatgtttcccttctctcatttcagttcccacagCTGTACCAGCTGCACCCTGGGTCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGATGGAGATGTTGTGGAAGGgtatttggctttctgtaggaacaggaggggaaggacaagaatgggtagat #### Stx3_ID3299_7 --> 2 - 0 Original Alignment ct------------------GGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagttgtacgttgagcttatatttgcgtggctgcactgccttccagctAAATACAAGAAACCCAAGGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGGgtgagtaacatcagcacttgcttcagtggacaggaatgagcccatgtggg Alignment from CESAR ct------------------GGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagttgtacgttgagcttatatttgcgtggctgcactgccttccagctAAATACAAGAAACCCAAGGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGGgtgagtaacatcagcacttgcttcagtggacaggaatgagcccatgtggg Alignment from Spaln_aa2Genome GGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagttgtacgttgagcttatatttgcgtggctgcactgccttccagctaaatacaagaaacccaagGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGGgtgagtaacatcagcacttgcttcagtggacaggaatgagcccatgtggg Alignment from Spaln_nt2Genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagttgtacgttgagcttatatttgcgtggctgcactgccttccagctaaatacaagaaacccaag--GGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGGgtgagtaacatcagcacttgcttcagtggacaggaatgagcccatgtggg Alignment from Pairagon CT------------------GGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagttgtacgttgagcttatatttgcgtggctgcactgccttccagCTAAATACAAGAAACCCAAGGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGGgtgagtaacatcagcacttgcttcagtggacaggaatgagcccatgtggg Alignment from Exonerate_protein2genome GGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagttgtacgttgagcttatatttgcgtggctgcactgccttccagctaaatacaagaaacccaagGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGGgtgagtaacatcagcacttgcttcagtggacaggaatgagcccatgtggg Alignment from Exonerate_coding2genome GGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagttgtacgttgagcttatatttgcgtggctgcactgccttccagctaaatacaagaaacccaagGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGGgtgagtaacatcagcacttgcttcagtggacaggaatgagcccatgtggg Alignment from GeneWise -----------------ACTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagttgtacgttgagcttatatttgcgtggctgcactgccttccagCTAAATACAAGAAACCCAAGGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGGgtgagtaacatcagcacttgcttcagtggacaggaatgagcccatgtggg #### Stx5a_ID2331_3 --> 1 - 1 Original Alignment gCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCt gcctctttgctgcccttaggtacagcatgctcccatctctgtgtccacaggCGCATTGGGAAAGATCTCAGCAATACGTTTGCCAAGCTGGAGAAG---------tgtaagagttcttataatgtgggaggcctttcctaggtgagccagtgaaac Alignment from CESAR gCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCt gcctctttgctgcccttaggtacagcatgctcccatctctgtgtccacaggCGCATTGGGAAAGATCTCAGCAATACGTTTGCCAAGCTGGAGAAG---------tgtaagagttcttataatgtgggaggcctttcctaggtgagccagtgaaac Alignment from Spaln_aa2Genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGC gcctctttgctgcccttaggtacagcatgctcccatctctgtgtccacagGCGCATTGGGAAAGATCTCAGCAATACGTTTGCCAAGCTGGAGAAGTgtaagagttcttataatgtgggaggcctttcctaggtgagccagtgaaac Alignment from Spaln_nt2Genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGC gcctctttgctgcccttaggtacagcatgctcccatctctgtgtccacagGCGCATTGGGAAAGATCTCAGCAATACGTTTGCCAAGCTGGAGAAGTgtaagagttcttataatgtgggaggcctttcctaggtgagccagtgaaac Alignment from Pairagon GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACAATCT gcctctttgctgcccttaggtacagcatgctcccatctctgtgtccacagGCGCATTGGGAAAGATCTCAGCAATACGTTTGCCAAGCTGGAGAAG---------Tgtaagagttcttataatgtgggaggcctttcctaggtgagccagtgaaac Alignment from Exonerate_protein2genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGC gcctctttgctgcccttaggtacagcatgctcccatctctgtgtccacagGCGCATTGGGAAAGATCTCAGCAATACGTTTGCCAAGCTGGAGAAGTgtaagagttcttataatgtgggaggcctttcctaggtgagccagtgaaac Alignment from Exonerate_coding2genome GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGC gcctctttgctgcccttaggtacagcatgctcccatctctgtgtccacagGCGCATTGGGAAAGATCTCAGCAATACGTTTGCCAAGCTGGAGAAGTgtaagagttcttataatgtgggaggcctttcctaggtgagccagtgaaac Alignment from GeneWise GCGCATTGGGAAAGATCTCAGCAATACATTTGCCAAGCTGGAGAAGCTAACA- gcctctttgctgcccttaggtacagcatgctcccatctctgtgtccacagGCGCATTGGGAAAGATCTCAGCAATACGTTTGCCAAGCTGGAGAAGTGTAAGAgttcttataatgtgggaggcctttcctaggtgagccagtgaaac #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggaaagcagaaaataacctcaaatcttaactctgctttcctcctagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGG---------------gtaggctaagggcagggaattgtaccggccggttcagaggagggtaccca Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggaaagcagaaaataacctcaaatcttaactctgctttcctcctagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGG---------------gtaggctaagggcagggaattgtaccggccggttc Alignment from Spaln_aa2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGG caggggaaagcagaaaataacctcaaatcttaactctgctttcctcctagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGgtaggctaagggcagggaattgtaccggccggttcagaggagggtaccca Alignment from Spaln_nt2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggaaagcagaaaataacctcaaatcttaactctgctttcctcctagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGTAG----GCTAAGGgcagggaattgtaccggccggttcagaggagggta Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAG------------------------------CAGAGATGG------- caggggaaagcagaaaataacctcaaatcttaactctgctttcctcctagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGTAGGCTAAGGGCAGGGAATTGTACCGGCCGGTTCAGAGGAGGGTACCCA Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggaaagcagaaaataacctcaaatcttaactctgctttcctcctagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGTAGGCTAAGGGCAGggaattgtaccggccggttcagaggagggtaccca Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggaaagcagaaaataacctcaaatcttaactctgctttcctcctagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGTAGGCTAAGGGCAGggaattgtaccggccggttcagaggagggtaccca Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggaaagcagaaaataacctcaaatcttaactctgctttcctcctagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTG---------------AGGgtaggctaagggcagggaattgtaccggccggttcagaggagggtaccca #### Syvn1_ID1384_3 --> 0 - 0 Original Alignment ---CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gagggtacccaaatgatttgttttcatagtgctcctcctgctgcccacagGGCCACCTTCTGGAACGGTCCTGGTATGCTGTTACTGAGACTTGTTTGGCCTTCACTGTTTTTCGGGATGACTCCAGTCCTCGCTTTGTGGCACTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCAGTGGTTGGCTGAAGACCATGTGGACTTTgtacggtgggagtggctgatgggcatgccagtggattggggtgtggggcg Alignment from CESAR ---CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gagggtacccaaatgatttgttttcatagtgctcctcctgctgcccacagGGCCACCTTCTGGAACGGTCCTGGTATGCTGTTACTGAGACTTGTTTGGCCTTCACTGTTTTTCGGGATGACTCCAGTCCTCGCTTTGTGGCACTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCAGTGGTTGGCTGAAGACCATGTGGACTTTgtacggtgggagtggctgatgggcatgccagtggattggggtgtggggcg Alignment from Spaln_aa2Genome CACCTTCTGGAA---CGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gagggtacccaaatgatttgttttcatagtgctcctcctgctgcccacagGGCCACCTTCTGGAACGGTCCTGGTATGCTGTTACTGAGACTTGTTTGGCCTTCACTGTTTTTCGGGATGACTCCAGTCCTCGCTTTGTGGCACTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCAGTGGTTGGCTGAAGACCATGTGGACTTTgtacggtgggagtggctgatgggcatgccagtggattggggtgtggggcg Alignment from Spaln_nt2Genome CACCTTCTG---GAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gagggtacccaaatgatttgttttcatagtgctcctcctgctgcccacagGGCCACCTTCTGGAACGGTCCTGGTATGCTGTTACTGAGACTTGTTTGGCCTTCACTGTTTTTCGGGATGACTCCAGTCCTCGCTTTGTGGCACTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCAGTGGTTGGCTGAAGACCATGTGGACTTTgtacggtgggagtggctgatgggcatgccagtggattggggtgtggggcg Alignment from Pairagon ---CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gagggtacccaaatgatttgttttcatagtgctcctcctgctgcccacagGGCCACCTTCTGGAACGGTCCTGGTATGCTGTTACTGAGACTTGTTTGGCCTTCACTGTTTTTCGGGATGACTCCAGTCCTCGCTTTGTGGCACTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCAGTGGTTGGCTGAAGACCATGTGGACTTTgtacggtgggagtggctgatgggcatgccagtggattggggtgtggggcg Alignment from Exonerate_protein2genome ---CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gagggtacccaaatgatttgttttcatagtgctcctcctgctgcccacagGGCCACCTTCTGGAACGGTCCTGGTATGCTGTTACTGAGACTTGTTTGGCCTTCACTGTTTTTCGGGATGACTCCAGTCCTCGCTTTGTGGCACTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCAGTGGTTGGCTGAAGACCATGTGGACTTTgtacggtgggagtggctgatgggcatgccagtggattggggtgtggggcg Alignment from Exonerate_coding2genome GGAGCACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gagggtacccaaatgatttgttttcatagtgctcctcctgctgcccacagGGC-CACCTTCTGGAACGGTCCTGGTATGCTGTTACTGAGACTTGTTTGGCCTTCACTGTTTTTCGGGATGACTCCAGTCCTCGCTTTGTGGCACTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCAGTGGTTGGCTGAAGACCATGTGGACTTTgtacggtgggagtggctgatgggcatgccagtggattggggtgtggggcg Alignment from GeneWise ---CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT gagggtacccaaatgatttgttttcatagtgctcctcctgctgcccacagGGCCACCTTCTGGAACGGTCCTGGTATGCTGTTACTGAGACTTGTTTGGCCTTCACTGTTTTTCGGGATGACTCCAGTCCTCGCTTTGTGGCACTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCAGTGGTTGGCTGAAGACCATGTGGACTTTgtacggtgggagtggctgatgggcatgccagtggattggggtgtggggcg #### Syvn1_ID1385_4 --> 0 - 1 Original Alignment ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCt ggggtgtggggcgcccccaaccatcttgccttttcctcatttcccaacagATGGAACGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGC------tgtaaaagaacgggatactcgatactcattgaagctgtgggggtgacttgt Alignment from CESAR ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCt ggggtgtggggcgcccccaaccatcttgccttttcctcatttcccaacagATGGAACGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGC------tgtaaaagaacgggatactcgatactcattgaagctgtgggggtgacttgt Alignment from Spaln_aa2Genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGC- ggggtgtggggcgcccccaaccatcttgccttttcctcatttcccaacagATGGAACGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCTgtaaaagaacgggatactcgatactcattgaagctgtgggggtgacttgt Alignment from Spaln_nt2Genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggggtgtggggcgcccccaaccatcttgccttttcctcatttcccaacagATGGAACGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCG------CTgtaaaagaacgggatactcgatactcattgaagctgtgggggtgacttgt Alignment from Pairagon ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggggtgtggggcgcccccaaccatcttgccttttcctcatttcccaacagATGGAACGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCG------CTgtaaaagaacgggatactcgatactcattgaagctgtgggggtgacttgt Alignment from Exonerate_protein2genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggggtgtggggcgcccccaaccatcttgccttttcctcatttcccaacagATGGAACGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCTGTAAAAgaacgggatactcgatactcattgaagctgtgggggtgacttgt Alignment from Exonerate_coding2genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTCT ggggtgtggggcgcccccaaccatcttgccttttcctcatttcccaacagATGGAACGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCTGTAAAAgaacgggatactcgatactcattgaagctgtgggggtgacttgt Alignment from GeneWise ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCA ggggtgtggggcgcccccaaccatcttgccttttcctcatttcccaacagATGGAACGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCTgtaaaagaacgggatactcgatactcattgaagctgtgggggtgacttgt #### Syvn1_ID1386_5 --> 2 - 0 Original Alignment ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG ctctgctgacctcaattcctaactctgccccctgctccctgtccctgcagct---------CTCCTGGGTATCCTGGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTGgtaaggctggcttgggggaagaagcgagctcgtcctgtgtgtgctgtgag Alignment from CESAR ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG ttctcaggcctctgctgacctcaattgccccctgctccctgtccctgcagct---------CTCCTGGGTATCCTGGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTGgtaaggctggcttgggggaagaagcgagctcgtcctgtgtgtgctgtgag Alignment from Spaln_aa2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG ctctgctgacctcaattcctaactctgccccctgctccctgtccctgcagCT---------CTCCTGGGTATCCTGGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTGgtaaggctggcttgggggaagaagcgagctcgtcctgtgtgtgctgtgag Alignment from Spaln_nt2Genome ATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG ctctgctgacctcaattcctaactctgccccctgctccctgtccctgcag----CTCTCCTGGGTATCCTGGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTGgtaaggctggcttgggggaagaagcgagctcgtcctgtgtgtgctgtgag Alignment from Pairagon CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG ctctgctgacctcaattcctaactctgccccctgctccctgtccctgcagC---------TCTCCTGGGTATCCTGGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTGgtaaggctggcttgggggaagaagcgagctcgtcctgtgtgtgctgtgag Alignment from Exonerate_protein2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG ctctgctgacctcaattcctaactctgccccctgctccctgTCCCTGCAGCTCTCCTGGGTATCCTGGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTGgtaaggctggcttgggggaagaagcgagctcgtcctgtgtgtgctgtgag Alignment from Exonerate_coding2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG ctctgctgacctcaattcctaactctgccccctgctccctgTCCCTGCAGCTCTCCTGGGTATCCTGGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTGgtaaggctggcttgggggaagaagcgagctcgtcctgtgtgtgctgtgag Alignment from GeneWise CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG ctctgctgacctcaattcctaactctgccccctgctccctgtccctgcagCTCTC---------CTGGGTATCCTGGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTGgtaaggctggcttgggggaagaagcgagctcgtcctgtgtgtgctgtgag #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG---ag ggtgtgtctgccagccctgcggtcagctcagcccatgtcttcttcatcaggcTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGGCCaggtaagtctggccttgtcccttacttcctcagactggtcactcccatgtct Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG---ag ggtgtgtctgccagccctgcggtcagctcagcccatgtcttcttcatcaggcTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGGCCaggtaagtctggccttgtcccttacttcctcagactggtcactcccatgtct Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAGG-- ggtgtgtctgccagccctgcggtcagctcagcccatgtcttcttcatcagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGGCCAGgtaagtctggccttgtcccttacttcctcagactggtcactcccatgtct Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG---AG ggtgtgtctgccagccctgcggtcagctcagcccatgtcttcttcatcagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGGCCAGgtaagtctggccttgtcccttacttcctcagactggtcactcccatgtct Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG---AG ggtgtgtctgccagccctgcggtcagctcagcccatgtcttcttcatcagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGGCCAGgtaagtctggccttgtcccttacttcctcagactggtcactcccatgtct Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG---AG ggtgtgtctgccagccctgcggtcagctcagcccatgtcttcttcatcagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGGCCAGgtaagtctggccttgtcccttacttcctcagactggtcactcccatgtct Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATG---AG ggtgtgtctgccagccctgcggtcagctcagcccatgtcttcttcatcagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGGCCAGgtaagtctggccttgtcccttacttcctcagactggtcactcccatgtct Alignment from GeneWise GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAGG-- ggtgtgtctgccagccctgcggtcagctcagcccatgtcttcttcatcagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGGCCAGgtaagtctggccttgtcccttacttcctcagactggtcactcccatgtct #### Syvn1_ID1391_10 --> 1 - 1 Original Alignment cTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt gggcattggctcatggggacctgctgacatcttctatttttgtacttcagcTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGCCTGACATGCCGCATGGATGTCCTGCGGGCATCATTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCCGACCAAGGACCACCCCCTGCACCTCATCCCCAACCA---------------------tgtagagggcacttcatttgcccaaaaattagccttcgagtcccacagagt Alignment from CESAR cTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATt gggcattggctcatggggacctgctgacatcttctatttttgtacttcagcTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGCCTGACATGCCGCATGGATGTCCTGCGGGCATCATTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCCGACCAAGGACCACCCCCTGCACCTCATCCCCAACCA---------------------tgtagagggcacttcatttgcccaaaaattagccttcgagtcccacagagt Alignment from Spaln_aa2Genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT gggcattggctcatggggacctgctgacatcttctatttttgtacttcagCTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGCCTGACATGCCGCATGGATGTCCTGCGGGCATCATTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCCGACCAAGGACCACCCCCTGCACCTCATCCCCAACCATGTAGAGGGCAC---TTCATTTgcccaaaaattagccttcgagtcccacag Alignment from Spaln_nt2Genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGC gggcattggctcatggggacctgctgacatcttctatttttgtacttcagCTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGCCTGACATGCCGCATGGATGTCCTGCGGGCATCATTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCCGACCAAGGACCACCCCCTGCACCTCATCCCCAACCATgtagagggcacttcatttgcccaaaaattagccttcgagtcccacagagt Alignment from Pairagon CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATT gggcattggctcatggggacctgctgacatcttctatttttgtacttcagCTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGCCTGACATGCCGCATGGATGTCCTGCGGGCATCATTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCCGACCAAGGACCACCCCCTGCACCTCATCCCCAACCA---------------------Tgtagagggcacttcatttgcccaaaaattagccttcgagtcccacagagt Alignment from Exonerate_protein2genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGC gggcattggctcatggggacctgctgacatcttctatttttgtacttcagCTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGCCTGACATGCCGCATGGATGTCCTGCGGGCATCATTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCCGACCAAGGACCACCCCCTGCACCTCATCCCCAACCATGTAGAGggcacttcatttgcccaaaaattagccttcgagtcccacagagt Alignment from Exonerate_coding2genome CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGCTGCTGCCACAGCCCCCTAATTTCCCCCAGGGCCTCCTGCCTCCTTTTCCTC gggcattggctcatggggacctgctgacatcttctatttttgtacttcagCTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGCCTGACATGCCGCATGGATGTCCTGCGGGCATCATTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCCGACCAAGGACCACCCCCTGCACCTCATCCCCAACC---ATGTAGAGGGCACTTCATTTGCCCAAAAATTAGCCTTCGAGTCCCACAGAgt Alignment from GeneWise CTGCCTGCGCTCCTGGTTCCAGAGACAGCAGACCTGCCCGACATGCCGCATGGATGTCCTGCGGGCATCGTTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCTGACCAAGGACCACCCCCCGCCCCTCATCCCCAACCGC gggcattggctcatggggacctgctgacatcttctatttttgtacttcagCTGCTTGCACTCCTGGTTCCGGAGACAGCAGACCTGCCTGACATGCCGCATGGATGTCCTGCGGGCATCATTGCCAGCCCAGTCACCACCACCTCCTGAGCCTGCCGACCAAGGACCACCCCCTGCACCTCATCCCCAACCATgtagagggcacttcatttgcccaaaaattagccttcgagtcccacagagt #### Syvn1_ID1392_11 --> 2 - 1 Original Alignment tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACA------g ggtgagactgacagcccagcctcttctctctctctctttttatcctttagtcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACATCAACCggcaagtcctgtgcatgccagggtagctggggggtggcagttggatctgga Alignment from CESAR tcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACA------g ggtgagactgacagcccagcctcttctctctctctctttttatcctttagtcCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACATCAACCggcaagtcctgtgcatgccagggtagctggggggtggcagttggatctgga Alignment from Spaln_aa2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACA------G ggtgagactgacagcccagcctcttctctctctctctttttatcctttagTCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACATCAACCGgcaagtcctgtgcatgccagggtagctggggggtggcagttggatctgga Alignment from Spaln_nt2Genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACA------G ggtgagactgacagcccagcctcttctctctctctctttttatcctttagTCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACATCAACCGgcaagtcctgtgcatgccagggtagctggggggtggcagttggatctgga Alignment from Pairagon TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTA----------------------------------------------------------- ggtgagactgacagcccagcctcttctctctctctctttttatcctttagTCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACATCAACCGGCAAGTCCTGTGCATGCCAGGGTAGCTGGGGGGTGGCAGTTGGATCTGGA Alignment from Exonerate_protein2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtgagactgacagcccagcctcttctctctctctctttttatcctttagTCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACATcaaccggcaagtcctgtgcatgccagggtagctggggggtggcagttggatctgga Alignment from Exonerate_coding2genome TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACAG ggtgagactgacagcccagcctcttctctctctctctttttatcctttagTCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAGTACATcaaccggcaagtcctgtgcatgccagggtagctggggggtggcagttggatctgga Alignment from GeneWise TCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTGTGGCCCCCAATGGGTCCCTTTCCACCTGTCCCGCCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACC- ggtgagactgacagcccagcctcttctctctctctctttttatcctttagTCCCCCAGGGCCTCCTGCCTCCTTTTCCTCCAGGCATGTTCCCACTATGGCCCCCAATGGGTCCCTTTCCACCTGTCCCACCTCCCCCAAGCTCAGGAGAGGCTGCGGCCCCTCCACCCACCAgtacatcaaccggcaagtcctgtgcatgccagggtagctggggggtggcagttggatctgga #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg cagttggatctggagaccaggagatcctgacccttggctcctctgtgcagct---TCTCGGCCTAGTGGAGCAGCGACCACCACAGCTGCTGGCACCAGTCCTTCTGCCCCGGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCGCCTTTTggtgagttggccattctcttggatctggggtggaaagctgaggctcaggta Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg tggcagttggatctggagaccaggacctgacccttggctcctctgtgcagct---TCTCGGCCTAGTGGAGCAGCGACCACCACAGCTGCTGGCACCAGTCCTTCTGCCCCGGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCGCCTTTTggtgagttggccattctcttggatctggggtggaaagctgaggctcaggta Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG cagttggatctggagaccaggagatcctgacccttggctcctctgtgcagCT---TCTCGGCCTAGTGGAGCAGCGACCACCACAGCTGCTGGCACCAGTCCTTCTGCCCCGGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCGCCTTTTGgtgagttggccattctcttggatctggggtggaaagctgaggctcaggta Alignment from Spaln_nt2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG cagttggatctggagaccaggagatcctgacccttggctcctctgtgcagC---TTCTCGGCCTAGTGGAGCAGCGACCACCACAGCTGCTGGCACCAGTCCTTCTGCCCCGGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCGCCTTTTGgtgagttggccattctcttggatctggggtggaaagctgaggctcaggta Alignment from Pairagon CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG cagttggatctggagaccaggagatcctgacccttggctcctctgtgcagC---TTCTCGGCCTAGTGGAGCAGCGACCACCACAGCTGCTGGCACCAGTCCTTCTGCCCCGGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCGCCTTTTGgtgagttggccattctcttggatctggggtggaaagctgaggctcaggta Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG cagttggatctggagaccaggagatcctgacccttggctcctctgtgCAGCTTCTCGGCCTAGTGGAGCAGCGACCACCACAGCTGCTGGCACCAGTCCTTCTGCCCCGGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCGCCTTTTGgtgagttggccattctcttggatctggggtggaaagctgaggctcaggta Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG cagttggatctggagaccaggagatcctgacccttggctcctctgtgCAGCTTCTCGGCCTAGTGGAGCAGCGACCACCACAGCTGCTGGCACCAGTCCTTCTGCCCCGGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCGCCTTTTGgtgagttggccattctcttggatctggggtggaaagctgaggctcaggta Alignment from GeneWise --TCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG cagttggatctggagaccaggagatcctgacccttggctcctctgtgcagCTTCTCGGCCTAGTGGAGCAGCGACCACCACAGCTGCTGGCACCAGTCCTTCTGCCCCGGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCGCCTTTTGgtgagttggccattctcttggatctggggtggaaagctgaggctcaggta #### Taf5_ID10096_4 --> 0 - 2 Original Alignment ---GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACag ccaaacatgttggacaaaagtttaagactatgtgtgtttttctttattagTTTGTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCCTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACaggtgagtagtacataaaggcggaagctatggcacagagggctggagtgtat Alignment from CESAR ---GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACag ccaaacatgttggacaaaagtttaagactatgtgtgtttttctttattagTTTGTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCCTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACaggtgagtagtacataaaggcggaagctatggcacagagggctggagtgtat Alignment from Spaln_aa2Genome GTATTTTTTGGT---TTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG ccaaacatgttggacaaaagtttaagactatgtgtgtttttctttattagTTTGTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCCTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtgagtagtacataaaggcggaagctatggcacagagggctggagtgtat Alignment from Spaln_nt2Genome GTATTTTTTGG---TTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG ccaaacatgttggacaaaagtttaagactatgtgtgtttttctttattagTTTGTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCCTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtgagtagtacataaaggcggaagctatggcacagagggctggagtgtat Alignment from Pairagon ---GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG ccaaacatgttggacaaaagtttaagactatgtgtgtttttctttattagTTTGTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCCTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtgagtagtacataaaggcggaagctatggcacagagggctggagtgtat Alignment from Exonerate_protein2genome ---GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG ccaaacatgttggacaaaagtttaagactatgtgtgtttttctttattagTTTGTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCCTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtgagtagtacataaaggcggaagctatggcacagagggctggagtgtat Alignment from Exonerate_coding2genome ---GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG ccaaacatgttggacaaaagtttaagactatgtgtgtttttctttattagTTTGTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCCTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtgagtagtacataaaggcggaagctatggcacagagggctggagtgtat Alignment from GeneWise ---GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG ccaaacatgttggacaaaagtttaagactatgtgtgtttttctttattagTTTGTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCCTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtgagtagtacataaaggcggaagctatggcacagagggctggagtgtat #### Taf5_ID10102_10 --> 0 - 1 Original Alignment GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA------g tctactttagtctgatcagatagatttactttttgttttcatctatacagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCACAATATggtaagacatttcagggccgtggggtaaagaaaccacagtaaacacaagta Alignment from CESAR GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA------g tctactttagtctgatcagatagatttactttttgttttcatctatacagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCACAATATggtaagacatttcagggccgtggggtaaagaaaccacagtaaacacaagta Alignment from Spaln_aa2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA------G tctactttagtctgatcagatagatttactttttgttttcatctatacagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCACAATATGgtaagacatttcagggccgtggggtaaagaaaccacagtaaacacaagta Alignment from Spaln_nt2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA------G tctactttagtctgatcagatagatttactttttgttttcatctatacagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCACAATATGgtaagacatttcagggccgtggggtaaagaaaccacagtaaacacaagta Alignment from Pairagon GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA------G tctactttagtctgatcagatagatttactttttgttttcatctatacagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCACAATATGgtaagacatttcagggccgtggggtaaagaaaccacagtaaacacaagta Alignment from Exonerate_protein2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA------G tctactttagtctgatcagatagatttactttttgttttcatctatacagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCACAATATGgtaagacatttcagggccgtggggtaaagaaaccacagtaaacacaagta Alignment from Exonerate_coding2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA------G tctactttagtctgatcagatagatttactttttgttttcatctatacagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCACAATATGgtaagacatttcagggccgtggggtaaagaaaccacagtaaacacaagta Alignment from GeneWise GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA------G tctactttagtctgatcagatagatttactttttgttttcatctatacagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCACAATATGgtaagacatttcagggccgtggggtaaagaaaccacagtaaacacaagta #### Tbc1d10c_ID399_5 --> 1 - 0 Original Alignment gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG cagggggatgcctgggtggctagcccgatcccatcgctttctgctttcagg---CAGGGGCTGCTGCAAGTTATCAAGGCTTACAACCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCCGCTGTGCTGCTCATGCATCTACCCCCAGAGgtaagtgaccttgaacctgctatgagaccctcaacccctagtgatccgag Alignment from CESAR gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG agacagggggatgcctgggtggctacgatcccatcgctttctgctttcagg---CAGGGGCTGCTGCAAGTTATCAAGGCTTACAACCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCCGCTGTGCTGCTCATGCATCTACCCCCAGAGgtaagtgaccttgaacctgctatgagaccctcaacccctagtgatccgag Alignment from Spaln_aa2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG cagggggatgcctgggtggctagcccgatcccatcgctttctgctttcagG---CAGGGGCTGCTGCAAGTTATCAAGGCTTACAACCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCCGCTGTGCTGCTCATGCATCTACCCCCAGAGgtaagtgaccttgaacctgctatgagaccctcaacccctagtgatccgag Alignment from Spaln_nt2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG cagggggatgcctgggtggctagcccgatcccatcgctttctgctttcag---GCAGGGGCTGCTGCAAGTTATCAAGGCTTACAACCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCCGCTGTGCTGCTCATGCATCTACCCCCAGAGgtaagtgaccttgaacctgctatgagaccctcaacccctagtgatccgag Alignment from Pairagon GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG cagggggatgcctgggtggctagcccgatcccatcgctttctgctttcag---GCAGGGGCTGCTGCAAGTTATCAAGGCTTACAACCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCCGCTGTGCTGCTCATGCATCTACCCCCAGAGgtaagtgaccttgaacctgctatgagaccctcaacccctagtgatccgag Alignment from Exonerate_protein2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG cagggggatgcctgggtggctagcccgatcccatcgctttctgctttcagG---CAGGGGCTGCTGCAAGTTATCAAGGCTTACAACCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCCGCTGTGCTGCTCATGCATCTACCCCCAGAGgtaagtgaccttgaacctgctatgagaccctcaacccctagtgatccgag Alignment from Exonerate_coding2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG cagggggatgcctgggtggctagcccgatcccatcgctttctgctttcagG---CAGGGGCTGCTGCAAGTTATCAAGGCTTACAACCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCCGCTGTGCTGCTCATGCATCTACCCCCAGAGgtaagtgaccttgaacctgctatgagaccctcaacccctagtgatccgag Alignment from GeneWise GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG cagggggatgcctgggtggctagcccgatcccatcgctttctgctttcagGCAG---GGGCTGCTGCAAGTTATCAAGGCTTACAACCTGTACCGGCCAGAGCAGGGATACTGCCAGGCTCAGGGACCTGTAGCCGCTGTGCTGCTCATGCATCTACCCCCAGAGgtaagtgaccttgaacctgctatgagaccctcaacccctagtgatccgag #### Tbc1d10c_ID400_4 --> 0 - 2 Original Alignment ------GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg acagctccttgccacctaaccctccatatcaccctctgttttgtttaaagGAACTAGAGCTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCACGAGATGTTTGTGTCACCTCAGGGACACgggtaagtggccaggagtacccatgctcctcatgctagattctttagttcta Alignment from CESAR ------GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg acagctccttgccacctaaccctccatatcaccctctgttttgtttaaagGAACTAGAGCTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCACGAGATGTTTGTGTCACCTCAGGGACACgggtaagtggccaggagtacccatgctcctcatgctagattctttagttcta Alignment from Spaln_aa2Genome GAGCTGGCAGCA------GCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG acagctccttgccacctaaccctccatatcaccctctgttttgtttaaagGAACTAGAGCTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCACGAGATGTTTGTGTCACCTCAGGGACACGGgtaagtggccaggagtacccatgctcctcatgctagattctttagttcta Alignment from Spaln_nt2Genome GAGCTGGCAG------CAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG acagctccttgccacctaaccctccatatcaccctctgttttgtttaaagGAACTAGAGCTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCACGAGATGTTTGTGTCACCTCAGGGACACGGgtaagtggccaggagtacccatgctcctcatgctagattctttagttcta Alignment from Pairagon ------GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG acagctccttgccacctaaccctccatatcaccctctgttttgtttaaagGAACTAGAGCTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCACGAGATGTTTGTGTCACCTCAGGGACACGGgtaagtggccaggagtacccatgctcctcatgctagattctttagttcta Alignment from Exonerate_protein2genome ------GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG acagctccttgccacctaaccctccatatcaccctctgttttgtttaaagGAACTAGAGCTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCACGAGATGTTTGTGTCACCTCAGGGACACGGgtaagtggccaggagtacccatgctcctcatgctagattctttagttcta Alignment from Exonerate_coding2genome ------GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG acagctccttgccacctaaccctccatatcaccctctgttttgtttaaagGAACTAGAGCTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCACGAGATGTTTGTGTCACCTCAGGGACACGGgtaagtggccaggagtacccatgctcctcatgctagattctttagttcta Alignment from GeneWise ------GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG acagctccttgccacctaaccctccatatcaccctctgttttgtttaaagGAACTAGAGCTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCACGAGATGTTTGTGTCACCTCAGGGACACGGgtaagtggccaggagtacccatgctcctcatgctagattctttagttcta #### Tbx10_ID259_4 --> 1 - 0 Original Alignment g---TACGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGCAAGGCAGACCCTGCCACGCCTGGCAGGGTGCACTTCCACCCTGACTCGCCAGCCAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTGACCAACAACCTGATGGACGACAATGGCCAC ggctgagtggggcaaggacagctgctgatatgcctttctcactccatcaggGACTATGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGTAAGGCAGACCCTGCCATGCCTGGCAGGGTGCACTTCCACCCTGACTCACCAGCTAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTAACCAACAACTTGATGGATGACAATGGCCACgtgacacacaagccactaagctgtcatggggaggggctgaactggtgtaa Alignment from CESAR g---TACGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGCAAGGCAGACCCTGCCACGCCTGGCAGGGTGCACTTCCACCCTGACTCGCCAGCCAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTGACCAACAACCTGATGGACGACAATGGCCAC ggctgagtggggcaaggacagctgctgatatgcctttctcactccatcaggGACTATGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGTAAGGCAGACCCTGCCATGCCTGGCAGGGTGCACTTCCACCCTGACTCACCAGCTAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTAACCAACAACTTGATGGATGACAATGGCCACgtgacacacaagccactaagctgtcatggggaggggctgaactggtgtaa Alignment from Spaln_aa2Genome GTACGCATTC---CACAGTTCTGCCTGGCTGGTGGCAGGCAAGGCAGACCCTGCCACGCCTGGCAGGGTGCACTTCCACCCTGACTCGCCAGCCAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTGACCAACAACCTGATGGACGACAATGGCCAC ggctgagtggggcaaggacagctgctgatatgcctttctcactccatcagGGACTATGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGTAAGGCAGACCCTGCCATGCCTGGCAGGGTGCACTTCCACCCTGACTCACCAGCTAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTAACCAACAACTTGATGGATGACAATGGCCACgtgacacacaagccactaagctgtcatggggaggggctgaactggtgtaa Alignment from Spaln_nt2Genome GTACGCATTCCAC---AGTTCTGCCTGGCTGGTGGCAGGCAAGGCAGACCCTGCCACGCCTGGCAGGGTGCACTTCCACCCTGACTCGCCAGCCAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTGACCAACAACCTGATGGACGACAATGGCCAC ggctgagtggggcaaggacagctgctgatatgcctttctcactccatcagGGACTATGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGTAAGGCAGACCCTGCCATGCCTGGCAGGGTGCACTTCCACCCTGACTCACCAGCTAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTAACCAACAACTTGATGGATGACAATGGCCACgtgacacacaagccactaagctgtcatggggaggggctgaactggtgtaa Alignment from Pairagon G---TACGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGCAAGGCAGACCCTGCCACGCCTGGCAGGGTGCACTTCCACCCTGACTCGCCAGCCAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTGACCAACAACCTGATGGACGACAATGGCCAC ggctgagtggggcaaggacagctgctgatatgcctttctcactccatcagGGACTATGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGTAAGGCAGACCCTGCCATGCCTGGCAGGGTGCACTTCCACCCTGACTCACCAGCTAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTAACCAACAACTTGATGGATGACAATGGCCACgtgacacacaagccactaagctgtcatggggaggggctgaactggtgtaa Alignment from Exonerate_protein2genome G---TACGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGCAAGGCAGACCCTGCCACGCCTGGCAGGGTGCACTTCCACCCTGACTCGCCAGCCAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTGACCAACAACCTGATGGACGACAATGGCCAC ggctgagtggggcaaggacagctgctgatatgcctttctcactccatcagGGACTATGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGTAAGGCAGACCCTGCCATGCCTGGCAGGGTGCACTTCCACCCTGACTCACCAGCTAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTAACCAACAACTTGATGGATGACAATGGCCACgtgacacacaagccactaagctgtcatggggaggggctgaactggtgtaa Alignment from Exonerate_coding2genome G---TACGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGCAAGGCAGACCCTGCCACGCCTGGCAGGGTGCACTTCCACCCTGACTCGCCAGCCAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTGACCAACAACCTGATGGACGACAATGGCCAC ggctgagtggggcaaggacagctgctgatatgcctttctcactccatcagGGACTATGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGTAAGGCAGACCCTGCCATGCCTGGCAGGGTGCACTTCCACCCTGACTCACCAGCTAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTAACCAACAACTTGATGGATGACAATGGCCACgtgacacacaagccactaagctgtcatggggaggggctgaactggtgtaa Alignment from GeneWise -AGGTACGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGCAAGGCAGACCCTGCCACGCCTGGCAGGGTGCACTTCCACCCTGACTCGCCAGCCAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTGACCAACAACCTGATGGACGACAATGGCCAC ggctgagtggggcaaggacagctgctgatatgcctttctcactccatcagGGACTATGCATTCCACAGTTCTGCCTGGCTGGTGGCAGGTAAGGCAGACCCTGCCATGCCTGGCAGGGTGCACTTCCACCCTGACTCACCAGCTAAGGGTGCCCAGTGGATGCGGCAGATTGTGTCCTTTGACAAACTCAAGCTAACCAACAACTTGATGGATGACAATGGCCACgtgacacacaagccactaagctgtcatggggaggggctgaactggtgtaa #### Tbx10_ID260_5 --> 0 - 0 Original Alignment ATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCACGTGGTCTTCGTGGACCCACGCAAGGACAGTGCCCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCACGGAGACCCAGTTTACAGCTGTGACAGCCTATCAGAACCACAGG tggctgaaccagctccactgtgcgtgcaatgattttattttggtttgcagATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCATGTGGTTTTTGTAGACCCATGCAAGGACACTGCTCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCTCAGAGACCCAGTTTACAGCTGTGACAGCCTATCAG---------gtaaggtgtctggaggttcccacagctccaaaggaccagctcagctctgg Alignment from CESAR ATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCACGTGGTCTTCGTGGACCCACGCAAGGACAGTGCCCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCACGGAGACCCAGTTTACAGCTGTGACAGCCTATCAGAACCACAGG tggctgaaccagctccactgtgcgtgcaatgattttattttggtttgcagATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCATGTGGTTTTTGTAGACCCATGCAAGGACACTGCTCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCTCAGAGACCCAGTTTACAGCTGTGACAGCCTATCAG---------gtaaggtgtctggaggttcccacagctccaaaggaccagct Alignment from Spaln_aa2Genome ATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCACGTGGTCTTCGTGGACCCACGCAAGGACAGTGCCCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCACGGAGACCCAGTTTACAGCTGTGACAGCCTATCAG tggctgaaccagctccactgtgcgtgcaatgattttattttggtttgcagATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCATGTGGTTTTTGTAGACCCATGCAAGGACACTGCTCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCTCAGAGACCCAGTTTACAGCTGTGACAGCCTATCAGgtaaggtgtctggaggttcccacagctccaaaggaccagctcagctctgg Alignment from Spaln_nt2Genome ATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCACGTGGTCTTCGTGGACCCACGCAAGGACAGTGCCCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCACGGAGACCCAGTTTACAGCTGTGACAGCCTATCAG tggctgaaccagctccactgtgcgtgcaatgattttattttggtttgcagATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCATGTGGTTTTTGTAGACCCATGCAAGGACACTGCTCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCTCAGAGACCCAGTTTACAGCTGTGACAGCCTATCAGgtaaggtgtctggaggttcccacagctccaaaggaccagctcagctctgg Alignment from Pairagon ATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCACGTGGTCTTCGTGGACCCACGCAAGGACAGTGCCCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCACGGAGACCCAGTTTACAGCTGTGACAGCCTATCAG tggctgaaccagctccactgtgcgtgcaatgattttattttggtttgcagATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCATGTGGTTTTTGTAGACCCATGCAAGGACACTGCTCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCTCAGAGACCCAGTTTACAGCTGTGACAGCCTATCAGgtaaggtgtctggaggttcccacagctccaaaggaccagctcagctctgg Alignment from Exonerate_protein2genome ATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCACGTGGTCTTCGTGGACCCACGCAAGGACAGTGCCCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCACGGAGACCCAGTTTACAGCTGTGACAGCCTATCAGAACCA tggctgaaccagctccactgtgcgtgcaatgattttattttggtttgcagATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCATGTGGTTTTTGTAGACCCATGCAAGGACACTGCTCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCTCAGAGACCCAGTTTACAGCTGTGACAGCCTATCAGGTAAGgtgtctggaggttcccacagctccaaaggaccagctcagctctgg Alignment from Exonerate_coding2genome ATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCACGTGGTCTTCGTGGACCCACGCAAGGACAGTGCCCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCACGGAGACCCAGTTTACAGCTGTGACAGCCTATCAGAACCA tggctgaaccagctccactgtgcgtgcaatgattttattttggtttgcagATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCATGTGGTTTTTGTAGACCCATGCAAGGACACTGCTCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCTCAGAGACCCAGTTTACAGCTGTGACAGCCTATCAGGTAAGgtgtctggaggttcccacagctccaaaggaccagctcagctctgg Alignment from GeneWise ATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCACGTGGTCTTCGTGGACCCACGCAAGGACAGTGCCCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCACGGAGACCCAGTTTACAGCTGTGACAGCCTATCAGAAC-- tggctgaaccagctccactgtgcgtgcaatgattttattttggtttgcagATCATCCTCAACTCCATGCATCGTTATCAGCCCCGTTTCCATGTGGTTTTTGTAGACCCATGCAAGGACACTGCTCGCTATGCCCAGGAAAACTTCAAGTCCTTTGTCTTCTCAGAGACCCAGTTTACAGCTGTGACAGCCTATCAGGTAAGgtgtctggaggttcccacagctccaaaggaccagctcagctctgg #### Tbx10_ID262_7 --> 1 - 1 Original Alignment gCCTGTGACCCCCCGGCCACTGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCAGAACGAGAGAAAg tcccttgcccctgcccccatttctgtttttgggtgtgcaacactacatagg---------CCCCGGCCACAGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCCGAACGAGAGAAAggtaaatactcagcccaatccacaatgccaggcacacaggcctccaggaag Alignment from CESAR gCCTGTGACCCCCCGGCCACTGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCAGAACGAGAGAAAg tgggggcgctcccttgcccctgccctttttgggtgtgcaacactacatagg---------CCCCGGCCACAGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCCGAACGAGAGAAAggtaaatactcagcccaatccacaatgccaggcacacaggcctccaggaag Alignment from Spaln_aa2Genome GCCTGTGACCCCCCGGCCACTGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCAGAACGAGAGAAAG tcccttgcccctgcccccatttctgtttttgggtgtgcaacactacatagG---------CCCCGGCCACAGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCCGAACGAGAGAAAGgtaaatactcagcccaatccacaatgccaggcacacaggcctccaggaag Alignment from Spaln_nt2Genome GCCTGTGACCCCCCGGCCACTGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCAGAACGAGAGAAAG tcccttgcccctgcccccatttctgtttttgggtgtgcaacactacatagG---------CCCCGGCCACAGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCCGAACGAGAGAAAGgtaaatactcagcccaatccacaatgccaggcacacaggcctccaggaag Alignment from Pairagon GCCTGTGACCCCCCGGCCACTGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCAGAACGAGAGAAAG tcccttgcccctgcccccatttctgtttttgggtgtgcaacactacatagG---------CCCCGGCCACAGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCCGAACGAGAGAAAGgtaaatactcagcccaatccacaatgccaggcacacaggcctccaggaag Alignment from Exonerate_protein2genome TGACCCCCCGGCCACTGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCAGAACGAGAGAAAG tcccttgcccctgcccccatttctgtttttgggtgtgcaacactacATAGGCCCCGGCCACAGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCCGAACGAGAGAAAGgtaaatactcagcccaatccacaatgccaggcacacaggcctccaggaag Alignment from Exonerate_coding2genome TGACCCCCCGGCCACTGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCAGAACGAGAGAAAG tcccttgcccctgcccccatttctgtttttgggtgtgcaacactacATAGGCCCCGGCCACAGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCCGAACGAGAGAAAGgtaaatactcagcccaatccacaatgccaggcacacaggcctccaggaag Alignment from GeneWise GCCTGTGACCCCCCGGCCACTGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCAGAACGAGAGAAAG tcccttgcccctgcccccatttctgtttttgggtgtgcaacactacatagGCCC---------CGGCCACAGCTCAGCATCCCTGCCCGGAGTCGTAGCAGCCTCAGTCCCTGCCTCCTTAAGGGCTCTGCCGAACGAGAGAAAGgtaaatactcagcccaatccacaatgccaggcacacaggcctccaggaag #### Tcirg1_ID170_17 --> 0 - 1 Original Alignment ---TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc aggaagggctgccagctctggctattgttttttccttcctgtgtgtaaagAACTTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTTGGCTGCATCTCCAACACAGCCTCCTACTTGCGGCTCTGGGCCTTGAGCCTGGCCCATGCTcgtatgagacctttctctcagggtcacatcacagtatcctacctggtcaaa Alignment from CESAR ---TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc aggaagggctgccagctctggctattgttttttccttcctgtgtgtaaagAACTTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTTGGCTGCATCTCCAACACAGCCTCCTACTTGCGGCTCTGGGCCTTGAGCCTGGCCCATGCTcgtatgagacctttctctcagggtcacatcacagtatcctacctggtcaaa Alignment from Spaln_aa2Genome TTTGTCCCT---TCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC aggaagggctgccagctctggctattgttttttccttcctgtgtgtaaagAACTTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTTGGCTGCATCTCCAACACAGCCTCCTACTTGCGGCTCTGGGCCTTGAGCCTGGCCCATGCTCgtatgagacctttctctcagggtcacatcacagtatcctacctggtcaaa Alignment from Spaln_nt2Genome AGTTTGTCCCT-TCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC aggaagggctgccagctctggctattgttttttccttcctgtgtgtaaagAACTTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTTGGCTGCATCTCCAACACAGCCTCCTACTTGCGGCTCTGGGCCTTGAGCCTGGCCCATGCTCgtatgagacctttctctcagggtcacatcacagtatcctacctggtcaaa Alignment from Pairagon -----------------------------------------------------TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC AGGAAGGGCTGCCAGCTCTGGCTATTGTTTTTTCCTTCCTGTGTGTAAAGAACTTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTTGGCTGCATCTCCAACACAGCCTCCTACTTGCGGCTCTGGGCCTTGAGCCTGGCCCATGCTCgtatgagacctttctctcagggtcacatcacagtatcctacctggtcaaa Alignment from Exonerate_protein2genome ---TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC aggaagggctgccagctctggctattgttttttccttcctgtgtgtaaagAACTTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTTGGCTGCATCTCCAACACAGCCTCCTACTTGCGGCTCTGGGCCTTGAGCCTGGCCCATGCTCgtatgagacctttctctcagggtcacatcacagtatcctacctggtcaaa Alignment from Exonerate_coding2genome ---TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC aggaagggctgccagctctggctattgttttttccttcctgtgtgtaaagAACTTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTTGGCTGCATCTCCAACACAGCCTCCTACTTGCGGCTCTGGGCCTTGAGCCTGGCCCATGCTCgtatgagacctttctctcagggtcacatcacagtatcctacctggtcaaa Alignment from GeneWise ---TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC aggaagggctgccagctctggctattgttttttccttcctgtgtgtaaagAACTTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTTGGCTGCATCTCCAACACAGCCTCCTACTTGCGGCTCTGGGCCTTGAGCCTGGCCCATGCTCgtatgagacctttctctcagggtcacatcacagtatcctacctggtcaaa #### Tcirg1_ID171_16 --> 0 - 0 Original Alignment GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG cacaggccatttcaggggctggagctgaacttttcctcccacatttctag---GAGGACACAGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAAgtaagtagaacagtaatttgttgaggaagggctgccagctctggctattg Alignment from CESAR GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG tggcacaggccatttcaggggctggtgaacttttcctcccacatttctag---GAGGACACAGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAAgtaagtagaacagtaatttgttgaggaagggctgccagctctggctattg Alignment from Spaln_aa2Genome GAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG cacaggccatttcaggggctggagctgaacttttcctcccacatttctagGAGGACACAGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAAgtaagtagaacagtaatttgttgaggaagggctgccagctctggctattg Alignment from Spaln_nt2Genome ATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG cacaggccatttcaggggctggagctgaacttttcctcccacatttctag--GAGGACACAGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAAgtaagtagaacagtaatttgttgaggaagggctgccagctctggctattg Alignment from Pairagon GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG cacaggccatttcaggggctggagctgaacttttcctcccacatttctag---GAGGACACAGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAAgtaagtagaacagtaatttgttgaggaagggctgccagctctggctattg Alignment from Exonerate_protein2genome CAGGATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG cacaggccatttcaggggctggagctgaacttttcctcccacatTTCTAGGAGGACACAGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAAgtaagtagaacagtaatttgttgaggaagggctgccagctctggctattg Alignment from Exonerate_coding2genome CAGGATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG cacaggccatttcaggggctggagctgaacttttcctcccacatTTCTAGGAGGACACAGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAAgtaagtagaacagtaatttgttgaggaagggctgccagctctggctattg Alignment from GeneWise GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG cacaggccatttcaggggctggagctgaacttttcctcccacatttctagGAG---GACACAGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAAgtaagtagaacagtaatttgttgaggaagggctgccagctctggctattg #### Tcirg1_ID173_14 --> 1 - 0 Original Alignment g---------CACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG gtgggcagtctttgtgggtctagggtgcagctgtctgtgattcctttcaggGAGACATTACACTTTGGCCAGGCCCACCGGCTGCTGCTGGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTCTTTGGCTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCCGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtgaggcagttacagaggatggctgacttcttcactggggttgttctagt Alignment from CESAR g---------CACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG gtgggcagtctttgtgggtctagggtgcagctgtctgtgattcctttcaggGAGACATTACACTTTGGCCAGGCCCACCGGCTGCTGCTGGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTCTTTGGCTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCCGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtgaggcagttacagaggatggctgacttcttcactggggttgttctagt Alignment from Spaln_aa2Genome GCACTTTGGC---------CAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG gtgggcagtctttgtgggtctagggtgcagctgtctgtgattcctttcagGGAGACATTACACTTTGGCCAGGCCCACCGGCTGCTGCTGGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTCTTTGGCTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCCGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtgaggcagttacagaggatggctgacttcttcactggggttgttctagt Alignment from Spaln_nt2Genome GCACTTTGGC---------CAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG gtgggcagtctttgtgggtctagggtgcagctgtctgtgattcctttcagGGAGACATTACACTTTGGCCAGGCCCACCGGCTGCTGCTGGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTCTTTGGCTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCCGCCCCCA------TTATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtgaggcagttacagaggatggctgacttcttcactggggttgttctagt Alignment from Pairagon ------------------------------------------------------------CACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG GTGGGCAGTCTTTGTGGGTCTAGGGTGCAGCTGTCTGTGATTCCTTTCAGGGAGACATTACACTTTGGCCAGGCCCACCGGCTGCTGCTGGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTCTTTGGCTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCCGCCCCCA------TTATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtgaggcagttacagaggatggctgacttcttcactggggttgttctagt Alignment from Exonerate_protein2genome G---------CACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG gtgggcagtctttgtgggtctagggtgcagctgtctgtgattcctttcagGGAGACATTACACTTTGGCCAGGCCCACCGGCTGCTGCTGGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTCTTTGGCTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCCGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtgaggcagttacagaggatggctgacttcttcactggggttgttctagt Alignment from Exonerate_coding2genome G---------CACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG gtgggcagtctttgtgggtctagggtgcagctgtctgtgattcctttcagGGAGACATTACACTTTGGCCAGGCCCACCGGCTGCTGCTGGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTCTTTGGCTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCCGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtgaggcagttacagaggatggctgacttcttcactggggttgttctagt Alignment from GeneWise ---GTGCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG gtgggcagtctttgtgggtctagggtgcagctgtctgtgattcctttcagggagACATTACACTTTGGCCAGGCCCACCGGCTGCTGCTGGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTCTTTGGCTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCCGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtgaggcagttacagaggatggctgacttcttcactggggttgttctagt #### Tcirg1_ID175_12 --> 1 - 0 Original Alignment tGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--------- agggcacctggccaactgtgcagctcagtgtggtcaactctctctttcagtGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGATCCAGGCGAATGTgtatgtgggcataccagtgcatggaaaggaggcagctgggaaggcttgtc Alignment from CESAR tGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--------- agggcacctggccaactgtgcagctcagtgtggtcaactctctctttcagtGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGATCCAGGCGAATGTgtatgtgggcataccagtgcatggaaaggaggcagctgggaaggcttgtc Alignment from Spaln_aa2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--------- agggcacctggccaactgtgcagctcagtgtggtcaactctctctttcagTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGATCCAGGCGAATGTgtatgtgggcataccagtgcatggaaaggaggcagctgggaaggcttgtc Alignment from Spaln_nt2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCC-G agggcacctggccaactgtgcagctcagtgtggtcaactctctctttcagTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGATCCAGgcgaatgtgtatgtgggcataccagtgcatggaaaggaggcagctgggaaggcttgtc Alignment from Pairagon ------------------------------------------------AGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--------- AGGGCACCTGGCCAACTGTGCAGCTCAGTGTGGTCAACTCTCTCTTTCAGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGATCCAGGCGAATGTgtatgtgggcataccagtgcatggaaaggaggcagctgggaaggcttgtc Alignment from Exonerate_protein2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG agggcacctggccaactgtgcagctcagtgtggtcaactctctctttcagTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGATCCAggcgaatgtgtatgtgggcataccagtgcatggaaaggaggcagctgggaaggcttgtc Alignment from Exonerate_coding2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG agggcacctggccaactgtgcagctcagtgtggtcaactctctctttcagTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGATCCAggcgaatgtgtatgtgggcataccagtgcatggaaaggaggcagctgggaaggcttgtc Alignment from GeneWise TATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--------- agggcacctggccaactgtgcagctcagtgtggtcaactctctctttcagtgacgagTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGATCCAGGCGAATGTgtatgtgggcataccagtgcatggaaaggaggcagctgggaaggcttgtc #### Tcirg1_ID179_8 --> 0 - 0 Original Alignment GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA gctccctcaaggcttccttgataattaaaggcttagctttacactttcag------GGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGTCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTCTACCTGACCCTCAACCAATGCAGTGTGAACACCACACACAAGTGCCTCATTGCAGAGGTTTGGTGTGCTGCGAGGGACCTGCCCACTGTGCAACAGGCCCTACAGAGTGGCTCAgtaagtatccaggctgccagaggcctgctcctttcctccttctactccca Alignment from CESAR GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA ctaatagctccctcaaggcttcctttaaaggcttagctttacactttcag------GGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGTCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTCTACCTGACCCTCAACCAATGCAGTGTGAACACCACACACAAGTGCCTCATTGCAGAGGTTTGGTGTGCTGCGAGGGACCTGCCCACTGTGCAACAGGCCCTACAGAGTGGCTCAgtaagtatccaggctgccagaggcctgctcctttcctccttctactccca Alignment from Spaln_aa2Genome GGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA gctccctcaaggcttccttgataattaaaggcttagctttacactttcagGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGTCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTCTACCTGACCCTCAACCAATGCAGTGTGAACACCACACACAAGTGCCTCATTGCAGAGGTTTGGTGTGCTGCGAGGGACCTGCCCACTGTGCAACAGGCCCTACAGAGTGGCTCAgtaagtatccaggctgccagaggcctgctcctttcctccttctactccca Alignment from Spaln_nt2Genome GGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA gctccctcaaggcttccttgataattaaaggcttagctttacactttcagGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGTCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTCTACCTGACCCTCAACCAATGCAGTGTGAACACCACACACAAGTGCCTCATTGCAGAGGTTTGGTGTGCTGCGAGGGACCTGCCCACTGTGCAACAGGCCCTACAGAGTGGCTCAgtaagtatccaggctgccagaggcctgctcctttcctccttctactccca Alignment from Pairagon GTCCTGGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA gctccctcaaggcttccttgataattaaaggcttagctttacactttcag------GGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGTCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTCTACCTGACCCTCAACCAATGCAGTGTGAACACCACACACAAGTGCCTCATTGCAGAGGTTTGGTGTGCTGCGAGGGACCTGCCCACTGTGCAACAGGCCCTACAGAGTGGCTCAgtaagtatccaggctgccagaggcctgctcctttcctccttctactccca Alignment from Exonerate_protein2genome GGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA gctccctcaaggcttccttgataattaaaggcttagctttacactttcagGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGTCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTCTACCTGACCCTCAACCAATGCAGTGTGAACACCACACACAAGTGCCTCATTGCAGAGGTTTGGTGTGCTGCGAGGGACCTGCCCACTGTGCAACAGGCCCTACAGAGTGGCTCAgtaagtatccaggctgccagaggcctgctcctttcctccttctactccca Alignment from Exonerate_coding2genome GGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA gctccctcaaggcttccttgataattaaaggcttagctttacactttcagGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGTCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTCTACCTGACCCTCAACCAATGCAGTGTGAACACCACACACAAGTGCCTCATTGCAGAGGTTTGGTGTGCTGCGAGGGACCTGCCCACTGTGCAACAGGCCCTACAGAGTGGCTCAgtaagtatccaggctgccagaggcctgctcctttcctccttctactccca Alignment from GeneWise GGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGCCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTGTACCTGACCCTCAACCAGTGCAGTGTGAACACCACACACAAGTGCCTCATCGCGGAGGTCTGGTGTGCCGCGAGGGACCTGCCCACTGTGCAGCAGGCGCTGCAGAGCGGCTCA gctccctcaaggcttccttgataattaaaggcttagctttacactttcagGGGGAGACAGACCGGTTCCTGAGCCAGGTGTTGGGTCGGGTGCAGCAGCTGCTGCCCCCATGGCAGGTGCAGATCCACAAGATGAAGGCAGTCTACCTGACCCTCAACCAATGCAGTGTGAACACCACACACAAGTGCCTCATTGCAGAGGTTTGGTGTGCTGCGAGGGACCTGCCCACTGTGCAACAGGCCCTACAGAGTGGCTCAgtaagtatccaggctgccagaggcctgctcctttcctccttctactccca #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG--------------- GGTGAGCCT ctgtgaggagagttgggaggaggctgcaccatctttttttcttggtccagtTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACGAAACGCAAGACCGAGgtgaggttacagggaagaccctatttgtttttcttttccagGGTGAGCCT Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG--------------- GGTGAGCCT ctgtgaggagagttgggaggaggctgcaccatctttttttcttggtccagtTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACGAAACGCAAGACCGAGgtgaggttacagggaagacacctgcaggctgctttttgtagGGTGAGCCT Alignment from Spaln_aa2Genome TCAGGCACCGGCTACAAGCTCAGCCCCTTCACCTTCACTGTGGACAGTGAC ggttctaaactgccctgctgaggtgctctctcctctccctcctctttgcag Alignment from Spaln_nt2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG---- GGTGAGCCT ctgtgaggagagttgggaggaggctgcaccatctttttttcttggtccagTTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACGAAACgcaagaccgaggtgaggttacagggaagacaattgttttctccatttcccagGGTGAGCCT Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGAC--------------------------------------------------------GGGTGAGCCT ctgtgaggagagttgggaggaggctgcaccatctttttttcttggtccagTTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACGAAACGCAAGACCGAGGTGAGGTTACAGGGAAGACAATTGTTTTCTCCATTTCCCAGGGTGAGCCT Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaccatctttttttcttggtccagTTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACGaaacgcaagaccgaggtgaggttacagggaagaccctatttgtttttcttttccagGGTGAGCCT Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaccatctttttttcttggtccagTTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACGaaacgcaagaccgaggtgaggttacagggaagaccctatttgtttttcttttccagGGTGAGCCT Alignment from GeneWise TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG--------------- GGTGAGCCT ctgtgaggagagttgggaggaggctgcaccatctttttttcttggtccagTTTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACGAAACGCAAGACCGAGgtgaggttacagggaagacaattgttttctccatttcccagGGTGAGCCT #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment ---CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa atcccctcccagaggttctgatacatatacatctctttggccctccatagAAATTCAATGAATCCGTGAGTGCGTTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGTGAGGAACTGGAGAAGACGTTTagtaggctggacccattcacatcccatggtatgagtactaggcaggcttgg Alignment from CESAR ---CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa atcccctcccagaggttctgatacatatacatctctttggccctccatagAAATTCAATGAATCCGTGAGTGCGTTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGTGAGGAACTGGAGAAGACGTTTagtaggctggacccattcacatcccatggtatgagtactaggcaggcttgg Alignment from Spaln_aa2Genome ---CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTT atcccctcccagaggttctgatacatatacatctctttggccctccatagAAATTCAATGAATCCGTGAGTGCGTTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGTGAGGAACTGGAGAAGACGTTTAgtaggctggacccattcacatcccatggtatgagtactaggcaggcttgg Alignment from Spaln_nt2Genome C---TCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA atcccctcccagaggttctgatacatatacatctctttggccctccatagAAATTCAATGAATCCGTGAGTGCGTTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGTGAGGAACTGGAGAAGACGTTTAgtaggctggacccattcacatcccatggtatgagtactaggcaggcttgg Alignment from Pairagon ---CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA atcccctcccagaggttctgatacatatacatctctttggccctccatagAAATTCAATGAATCCGTGAGTGCGTTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGTGAGGAACTGGAGAAGACGTTTAgtaggctggacccattcacatcccatggtatgagtactaggcaggcttgg Alignment from Exonerate_protein2genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA atcccctcccagaggttctgatacatatacatctctttggccctccatagaaaTTCAATGAATCCGTGAGTGCGTTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGTGAGGAACTGGAGAAGACGTTTAgtaggctggacccattcacatcccatggtatgagtactaggcaggcttgg Alignment from Exonerate_coding2genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA atcccctcccagaggttctgatacatatacatctctttggccctccatagaaaTTCAATGAATCCGTGAGTGCGTTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGTGAGGAACTGGAGAAGACGTTTAgtaggctggacccattcacatcccatggtatgagtactaggcaggcttgg Alignment from GeneWise ---CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTA atcccctcccagaggttctgatacatatacatctctttggccctccatagAAATTCAATGAATCCGTGAGTGCGTTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGTGAGGAACTGGAGAAGACGTTTAgtaggctggacccattcacatcccatggtatgagtactaggcaggcttgg #### Tctn3_ID7993_8 --> 0 - 0 Original Alignment TTCCAGGTTCCTGTGACGCTTGCCTCACAAGCCAGCCCTCCTCTGTTGGCTGGAAACACATGTCAGAATATCGTTTCCCAG acagaggcgattttcacatctccgttgatgactttgctattttcccacagTTCCAGGTTCCTGTGACACTTGCCTCACAAGCC------------------------------------------------gtacctaaactctaactctcctcataagaactgcatttagtctgttttta Alignment from CESAR TTCCAGGTTCCTGTGACGCTTGCCTCACAAGCCAGCCCTCCTCTGTTGGCTGGAAACACATGTCAGAATATCGTTTCCCAG acagaggcgattttcacatctccgttgatgactttgctattttcccacagTTCCAGGTTCCTGTGACACTTGCCTCACAAGCC------------------------------------------------gt Alignment from Spaln_aa2Genome TTCCAGGTTCCTGTGACGCTTGCCTCACAAGCC acagaggcgattttcacatctccgttgatgactttgctattttcccacagTTCCAGGTTCCTGTGACACTTGCCTCACAAGCCgtacctaaactctaactctcctcataagaactgcatttagtctgttttta Alignment from Spaln_nt2Genome TTCCAGGTTCCTGTGACGCTTGCCTCACAAGCCAGCCCTC--CTCTG--TTGGCTGGAAACACATGTCAGAATATCGTTTCCC acagaggcgattttcacatctccgttgatgactttgctattttcccacagTTCCAGGTTCCTGTGACACTTGCCTCACAAGCCGTACCTAAACTCTAACTCTCCTCATAAGAACTGCATTTAGTCTGTTTTTA Alignment from Pairagon TTCCAGGTTCCTGTGACGCTTGCCTCACAAGCC acagaggcgattttcacatctccgttgatgactttgctattttcccacagTTCCAGGTTCCTGTGACACTTGCCTCACAAGCCgtacctaaactctaactctcctcataagaactgcatttagtctgttttta Alignment from Exonerate_protein2genome TTCCAGGTTCCTGTGACGCTTGCCTCACAAGCCAGCCCTCCTCT acagaggcgattttcacatctccgttgatgactttgctattttcccacagTTCCAGGTTCCTGTGACACTTGCCTCACAAGCCGTACCTAAACTctaactctcctcataagaactgcatttagtctgttttta Alignment from Exonerate_coding2genome TTCCAGGTTCCTGTGACGCTTGCCTCACAAGCCAGCCCTCCTCT acagaggcgattttcacatctccgttgatgactttgctattttcccacagTTCCAGGTTCCTGTGACACTTGCCTCACAAGCCGTACCTAAACTctaactctcctcataagaactgcatttagtctgttttta Alignment from GeneWise acagaggcgattttcacatctccgttgatgactttgctattttcccacagttccaggttcctgtgacacttgcctcacaagccgtacctaaactctaactctcctcataagaactgcatttagtctgttttta #### Tctn3_ID7996_5 --> 0 - 1 Original Alignment GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg ccttggttgttgaatccagcctcacagcattttaccgttttcacccacagGCCGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTT---------------------ggtgagcccggtgcaggagtgccattacgagttcgtacgtactactggcct Alignment from CESAR GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg ccttggttgttgaatccagcctcacagcattttaccgttttcacccacagGCCGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTT---------------------ggtgagcccggtgcaggagtgccattacgagttcgtacgtactactggcct Alignment from Spaln_aa2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG ccttggttgttgaatccagcctcacagcattttaccgttttcacccacagGCCGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTGGTGAG------------CCCGgtgcaggagtgccattacgagttcgtacg Alignment from Spaln_nt2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTT ccttggttgttgaatccagcctcacagcattttaccgttttcacccacagGCCGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTGgtgagcccggtgcaggagtgccattacgagttcgtacgtactactggcct Alignment from Pairagon GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG ccttggttgttgaatccagcctcacagcattttaccgttttcacccacagGCCGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTT---------------------Ggtgagcccggtgcaggagtgccattacgagttcgtacgtactactggcct Alignment from Exonerate_protein2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTT ccttggttgttgaatccagcctcacagcattttaccgttttcacccacagGCCGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTGgtgagcccggtgcaggagtgccattacgagttcgtacgtactactggcct Alignment from Exonerate_coding2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTT ccttggttgttgaatccagcctcacagcattttaccgttttcacccacagGCCGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTGgtgagcccggtgcaggagtgccattacgagttcgtacgtactactggcct Alignment from GeneWise GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTT ccttggttgttgaatccagcctcacagcattttaccgttttcacccacagGCCGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTGgtgagcccggtgcaggagtgccattacgagttcgtacgtactactggcct #### Tctn3_ID7999_2 --> 2 - 2 Original Alignment ct------TTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAag caggaaaactttgggggagtttcatctttttccttcctttttctgaatagctAGGCTGTTACCGATCTGTGTCTGTGACCTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAaggtaatttgtggtgcccctccagtggaggagtgagagtgagtctcctgccc Alignment from CESAR ct------TTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAag caggaaaactttgggggagtttcatctttttccttcctttttctgaatagctAGGCTGTTACCGATCTGTGTCTGTGACCTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAaggtaatttgtggtgcccctccagtggaggagtgagagtgagtctcctgccc Alignment from Spaln_aa2Genome CT------TTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggaaaactttgggggagtttcatctttttccttcctttttctgaatagCTAGGCTGTTACCGATCTGTGTCTGTGACCTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAGgtaatttgtggtgcccctccagtggaggagtgagagtgagtctcctgccc Alignment from Spaln_nt2Genome CT------TTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggaaaactttgggggagtttcatctttttccttcctttttctgaatagCTAGGCTGTTACCGATCTGTGTCTGTGACCTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAGgtaatttgtggtgcccctccagtggaggagtgagagtgagtctcctgccc Alignment from Pairagon CT------TTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggaaaactttgggggagtttcatctttttccttcctttttctgaatagCTAGGCTGTTACCGATCTGTGTCTGTGACCTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAGgtaatttgtggtgcccctccagtggaggagtgagagtgagtctcctgccc Alignment from Exonerate_protein2genome CT------TTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggaaaactttgggggagtttcatctttttccttcctttttctgaatagCTAGGCTGTTACCGATCTGTGTCTGTGACCTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAGgtaatttgtggtgcccctccagtggaggagtgagagtgagtctcctgccc Alignment from Exonerate_coding2genome CT------TTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggaaaactttgggggagtttcatctttttccttcctttttctgaatagCTAGGCTGTTACCGATCTGTGTCTGTGACCTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAGgtaatttgtggtgcccctccagtggaggagtgagagtgagtctcctgccc Alignment from GeneWise -----GCTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggaaaactttgggggagtttcatctttttccttcctttttctgaatagCTAGGCTGTTACCGATCTGTGTCTGTGACCTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAGgtaatttgtggtgcccctccagtggaggagtgagagtgagtctcctgccc #### Tdrd1_ID12222_23 --> 2 - 0 Original Alignment ag------ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccctcactgccatgacctaggcccatcctcttttgcctgggattcagagCCTTGCATACCACACAGCAGAGACTGCTGTTGCACAGAATTACAGAAACAGgtaagtgctgcttccgacatgaagcccacatgctgcctcccattgacata Alignment from CESAR ag------ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccctcactgccatgacctaggcccatcctcttttgcctgggattcagagCCTTGCATACCACACAGCAGAGACTGCTGTTGCACAGAATTACAGAAACAGgtaagtgctgcttccgacatgaagcccacatgctgcctcccattgacata Alignment from Spaln_aa2Genome AG------ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccctcactgccatgacctaggcccatcctcttttgcctgggattcagAGCCTTGCATACCACACAGCAGAGACTGCTGTTGCACAGAATTACAGAAACAGgtaagtgctgcttccgacatgaagcccacatgctgcctcccattgacata Alignment from Spaln_nt2Genome AG------ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccctcactgccatgacctaggcccatcctcttttgcctgggattcagAGCCTTGCATACCACACAGCAGAGACTGCTGTTGCACAGAATTACAGAAACAGgtaagtgctgcttccgacatgaagcccacatgctgcctcccattgacata Alignment from Pairagon AG------ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccctcactgccatgacctaggcccatcctcttttgcctgggattcagAGCCTTGCATACCACACAGCAGAGACTGCTGTTGCACAGAATTACAGAAACAGgtaagtgctgcttccgacatgaagcccacatgctgcctcccattgacata Alignment from Exonerate_protein2genome AG------ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccctcactgccatgacctaggcccatcctcttttgcctgggattcagAGCCTTGCATACCACACAGCAGAGACTGCTGTTGCACAGAATTACAGAAACAGgtaagtgctgcttccgacatgaagcccacatgctgcctcccattgacata Alignment from Exonerate_coding2genome AG------ATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccctcactgccatgacctaggcccatcctcttttgcctgggattcagAGCCTTGCATACCACACAGCAGAGACTGCTGTTGCACAGAATTACAGAAACAGgtaagtgctgcttccgacatgaagcccacatgctgcctcccattgacata Alignment from GeneWise -----GAGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccctcactgccatgacctaggcccatcctcttttgcctgggattcagAGCCTTGCATACCACACAGCAGAGACTGCTGTTGCACAGAATTACAGAAACAGgtaagtgctgcttccgacatgaagcccacatgctgcctcccattgacata #### Tex40_ID1868_4 --> 0 - 1 Original Alignment CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCa accacttcagctttccataggactggttatgtcttctcttttcttaccagCTGCCTCTCCCCCTGATGGAGTTCATGGAGACTGAA------------------------------agtatgaactccaccctaccccaaccctagctgccgccgtctgcatataca Alignment from CESAR CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCa accacttcagctttccataggactggttatgtcttctcttttcttaccagCTGCCTCTCCCCCTGATGGAGTTCATGGAGACTGAA------------------------------agtatgaactccaccctaccccaaccctagctgccgccgtctgcatataca Alignment from Spaln_aa2Genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAG accacttcagctttccataggactggttatgtcttctcttttcttaccagCTGCCTCTCCCCCTGATGGAGTTCATGGAGACTGAAAgtatgaactccaccctaccccaaccctagctgccgccgtctgcatataca Alignment from Spaln_nt2Genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAG accacttcagctttccataggactggttatgtcttctcttttcttaccagCTGCCTCTCCCCCTGATGGAGTTCATGGAGACTGAAAgtatgaactccaccctaccccaaccctagctgccgccgtctgcatataca Alignment from Pairagon CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATATTCTCAAAAAAGCCCTCATCA accacttcagctttccataggactggttatgtcttctcttttcttaccagCTGCCTCTCCCCCTGATGGAGTTCATGGAGACTGAA------------------------------Agtatgaactccaccctaccccaaccctagctgccgccgtctgcatataca Alignment from Exonerate_protein2genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATA accacttcagctttccataggactggttatgtcttctcttttcttaccagCTGCCTCTCCCCCTGATGGAGTTCATGGAGACTGAAAGTATGAACTccaccctaccccaaccctagctgccgccgtctgcatataca Alignment from Exonerate_coding2genome CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAGTTCTGGATA accacttcagctttccataggactggttatgtcttctcttttcttaccagCTGCCTCTCCCCCTGATGGAGTTCATGGAGACTGAAAGTATGAACTccaccctaccccaaccctagctgccgccgtctgcatataca Alignment from GeneWise CTGCCTCTGCCTCTGATGGAGCTCATGGAGACTGAAG accacttcagctttccataggactggttatgtcttctcttttcttaccagCTGCCTCTCCCCCTGATGGAGTTCATGGAGACTGAAAgtatgaactccaccctaccccaaccctagctgccgccgtctgcatataca #### Tle4_ID3625_13 --> 2 - 0 Original Alignment caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG--------------------- accgaagaaggtgcaactaccattttcttaatatctgtttttatttccagcaTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGTATGAACGGAGAGCTGACCAGCCCCGGAGCTGCATATGCTGGGCTCCACAACATCTCCCCCCAGATGAGTGCCGCTACTGCTGCAGCTGCAGCAGCAGCAGCCTATGGAAGATCACCTGTGCTTCATATTCGCTGCATCTTCgtaggtttacatgcatttatagttgtttcagaacacacagcattcttttt Alignment from CESAR caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG accgaagaaggtgcaactaccattttcttaatatctgtttttatttccagcaTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGTATGAACGGAGAGCTGACCAGCCCCGGAGCTGCATATGCTGGGCTCCACAACATCTCCCCCCAGATGAGTGCCGCTACTGCTGCAGCTGCAGCAGCAGCAGCCTATGGAAGATCACCT---gtgcttcatattcgctgcatcttcgtaggtttacatgcatttatagttgtttcagaacacacagcattcttttt Alignment from Spaln_aa2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCT accgaagaaggtgcaactaccattttcttaatatctgtttttatttccagCATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGTATGAACGGAGAGCTGACCAGCCCCGGAGCTGCATATGCTGGGCTCCACAACATCTCCCCCCAGATGAGTGCCGCTACTGCTGCAGCTGCAGCAGCAGCAGCCTATGGAAGATCACCTgtgcttcatattcgctgcatcttcgtaggtttacatgcatttatagttgtttcagaacacacagcattcttttt Alignment from Spaln_nt2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGT accgaagaaggtgcaactaccattttcttaatatctgtttttatttccagCATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGTATGAACGGAGAGCTGACCAGCCCCGGAGCTGCATATGCTGGGCTCCACAACATCTCCCCCCAGATGAGTGCCGCTACTGCTGCAGCTGCAGCAGCAGCAGCCTATGGAAGATCACCTGTgcttcatattcgctgcatcttcgtaggtttacatgcatttatagttgtttcagaacacacagcattcttttt Alignment from Pairagon CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG--------------------- accgaagaaggtgcaactaccattttcttaatatctgtttttatttccagCATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGTATGAACGGAGAGCTGACCAGCCCCGGAGCTGCATATGCTGGGCTCCACAACATCTCCCCCCAGATGAGTGCCGCTACTGCTGCAGCTGCAGCAGCAGCAGCCTATGGAAGATCACCTGTGCTTCATATTCGCTGCATCTTCgtaggtttacatgcatttatagttgtttcagaacacacagcattcttttt Alignment from Exonerate_protein2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG accgaagaaggtgcaactaccattttcttaatatctgtttttatttccagCATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGTATGAACGGAGAGCTGACCAGCCCCGGAGCTGCATATGCTGGGCTCCACAACATCTCCCCCCAGATGAGTGCCGCTACTGCTGCAGCTGCAGCAGCAGCAGCCTATGGAAGATCACCTGTGcttcatattcgctgcatcttcgtaggtttacatgcatttatagttgtttcagaacacacagcattcttttt Alignment from Exonerate_coding2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG accgaagaaggtgcaactaccattttcttaatatctgtttttatttccagCATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGTATGAACGGAGAGCTGACCAGCCCCGGAGCTGCATATGCTGGGCTCCACAACATCTCCCCCCAGATGAGTGCCGCTACTGCTGCAGCTGCAGCAGCAGCAGCCTATGGAAGATCACCTGTGcttcatattcgctgcatcttcgtaggtttacatgcatttatagttgtttcagaacacacagcattcttttt Alignment from GeneWise CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCT accgaagaaggtgcaactaccattttcttaatatctgtttttatttccagCATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGTATGAACGGAGAGCTGACCAGCCCCGGAGCTGCATATGCTGGGCTCCACAACATCTCCCCCCAGATGAGTGCCGCTACTGCTGCAGCTGCAGCAGCAGCAGCCTATGGAAGATCACCTgtgcttcatattcgctgcatcttcgtaggtttacatgcatttatagttgtttcagaacacacagcattcttttt #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment c------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA catcctccccaccccttctaccaacctgcgttttcatctctgtctctcagcACGGGCTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaacccacagggatacaccaagattaagcaactgtagcttaagtgtgtt Alignment from CESAR c------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA catcctccccaccccttctaccaacctgcgttttcatctctgtctctcagcACGGGCTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaacccacagggatacaccaagattaagcaactgtagcttaagtgtgtt Alignment from Spaln_aa2Genome C-------TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA catcctccccaccccttctaccaacctgcgttttcatctctgtctctcagCACGGGCTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaacccacagggatacaccaagattaagcaactgtagcttaagtgtgtt Alignment from Spaln_nt2Genome GCTGCTCTGA-----AGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA catcctccccaccccttctaccaacctgcgttttcatctctgtctctcagCACGGGCTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaacccacagggatacaccaagattaagcaactgtagcttaagtgtgtt Alignment from Pairagon ------CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA catcctccccaccccttctaccaacctgcgttttcatctctgtctctcagCACGGGCTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaacccacagggatacaccaagattaagcaactgtagcttaagtgtgtt Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA catcctccccaccccttctaccaacctgcgttttcatctctgtctctcagcacgggCTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaacccacagggatacaccaagattaagcaactgtagcttaagtgtgtt Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA catcctccccaccccttctaccaacctgcgttttcatctctgtctctcagcacgggCTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaacccacagggatacaccaagattaagcaactgtagcttaagtgtgtt Alignment from GeneWise ----AGCTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA catcctccccaccccttctaccaacctgcgttttcatctctgtctctcagCACGGGCTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaacccacagggatacaccaagattaagcaactgtagcttaagtgtgtt #### Tmem2_ID4946_8 --> 0 - 2 Original Alignment ------ATCAAAGACACCATTGGCTTCGACACACTAGGTCATTGCTTCTTTTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTATCATAACTTGGGGCTTCTTACCAAGCCGGGCACTCTCCTCCCAACGGACAGGAACAGCTCCATGTGCACCGTCATGCGTGATGGAGTGTTTGGAAACTACGTCCCTGTGCCTACCACAGACTGCat actccgattggccttgtgactagtgactaaatgttttaaatttattatagGCTGACATCAAAGACACCATTGGCTTCGACACACTAGGACATTGTGTCTTCTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTTTCATAACTTGGGGCTTCTTACCCAGCCAGGCACTCTCCTCCCAACAGACAGGAACAGCTCCATGTGCACTATCATGCGTGATGGAGTGTTTGGAAACTATATCCCTGTGCCCACCACAGACTGCatgtaagaaatttttgtggacagggtattgtatagtgatgaaggccttaggg Alignment from CESAR ------ATCAAAGACACCATTGGCTTCGACACACTAGGTCATTGCTTCTTTTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTATCATAACTTGGGGCTTCTTACCAAGCCGGGCACTCTCCTCCCAACGGACAGGAACAGCTCCATGTGCACCGTCATGCGTGATGGAGTGTTTGGAAACTACGTCCCTGTGCCTACCACAGACTGCat actccgattggccttgtgactagtgactaaatgttttaaatttattatagGCTGACATCAAAGACACCATTGGCTTCGACACACTAGGACATTGTGTCTTCTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTTTCATAACTTGGGGCTTCTTACCCAGCCAGGCACTCTCCTCCCAACAGACAGGAACAGCTCCATGTGCACTATCATGCGTGATGGAGTGTTTGGAAACTATATCCCTGTGCCCACCACAGACTGCatgtaagaaatttttgtggacagggtattgtatagtgatgaaggccttaggg Alignment from Spaln_aa2Genome ATCAAAGACACCATT------GGCTTCGACACACTAGGTCATTGCTTCTTTTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTATCATAACTTGGGGCTTCTTACCAAGCCGGGCACTCTCCTCCCAACGGACAGGAACAGCTCCATGTGCACCGTCATGCGTGATGGAGTGTTTGGAAACTACGTCCCTGTGCCTACCACAGACTGCAT actccgattggccttgtgactagtgactaaatgttttaaatttattatagGCTGACATCAAAGACACCATTGGCTTCGACACACTAGGACATTGTGTCTTCTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTTTCATAACTTGGGGCTTCTTACCCAGCCAGGCACTCTCCTCCCAACAGACAGGAACAGCTCCATGTGCACTATCATGCGTGATGGAGTGTTTGGAAACTATATCCCTGTGCCCACCACAGACTGCATgtaagaaatttttgtggacagggtattgtatagtgatgaaggccttaggg Alignment from Spaln_nt2Genome ATCAAAGAC------ACCATTGGCTTCGACACACTAGGTCATTGCTTCTTTTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTATCATAACTTGGGGCTTCTTACCAAGCCGGGCACTCTCCTCCCAACGGACAGGAACAGCTCCATGTGCACCGTCATGCGTGATGGAGTGTTTGGAAACTACGTCCCTGTGCCTACCACAGACTGCAT actccgattggccttgtgactagtgactaaatgttttaaatttattatagGCTGACATCAAAGACACCATTGGCTTCGACACACTAGGACATTGTGTCTTCTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTTTCATAACTTGGGGCTTCTTACCCAGCCAGGCACTCTCCTCCCAACAGACAGGAACAGCTCCATGTGCACTATCATGCGTGATGGAGTGTTTGGAAACTATATCCCTGTGCCCACCACAGACTGCATgtaagaaatttttgtggacagggtattgtatagtgatgaaggccttaggg Alignment from Pairagon ------ATCAAAGACACCATTGGCTTCGACACACTAGGTCATTGCTTCTTTTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTATCATAACTTGGGGCTTCTTACCAAGCCGGGCACTCTCCTCCCAACGGACAGGAACAGCTCCATGTGCACCGTCATGCGTGATGGAGTGTTTGGAAACTACGTCCCTGTGCCTACCACAGACTGCAT actccgattggccttgtgactagtgactaaatgttttaaatttattatagGCTGACATCAAAGACACCATTGGCTTCGACACACTAGGACATTGTGTCTTCTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTTTCATAACTTGGGGCTTCTTACCCAGCCAGGCACTCTCCTCCCAACAGACAGGAACAGCTCCATGTGCACTATCATGCGTGATGGAGTGTTTGGAAACTATATCCCTGTGCCCACCACAGACTGCATgtaagaaatttttgtggacagggtattgtatagtgatgaaggccttaggg Alignment from Exonerate_protein2genome ATCAAAGACACCATTGGCTTCGACACACTAGGTCATTGCTTCTTTTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTATCATAACTTGGGGCTTCTTACCAAGCCGGGCACTCTCCTCCCAACGGACAGGAACAGCTCCATGTGCACCGTCATGCGTGATGGAGTGTTTGGAAACTACGTCCCTGTGCCTACCACAGACTGCAT actccgattggccttgtgactagtgactaaatgttttaaatttattataggctgacATCAAAGACACCATTGGCTTCGACACACTAGGACATTGTGTCTTCTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTTTCATAACTTGGGGCTTCTTACCCAGCCAGGCACTCTCCTCCCAACAGACAGGAACAGCTCCATGTGCACTATCATGCGTGATGGAGTGTTTGGAAACTATATCCCTGTGCCCACCACAGACTGCATgtaagaaatttttgtggacagggtattgtatagtgatgaaggccttaggg Alignment from Exonerate_coding2genome ATCAAAGACACCATTGGCTTCGACACACTAGGTCATTGCTTCTTTTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTATCATAACTTGGGGCTTCTTACCAAGCCGGGCACTCTCCTCCCAACGGACAGGAACAGCTCCATGTGCACCGTCATGCGTGATGGAGTGTTTGGAAACTACGTCCCTGTGCCTACCACAGACTGCAT actccgattggccttgtgactagtgactaaatgttttaaatttattataggctgacATCAAAGACACCATTGGCTTCGACACACTAGGACATTGTGTCTTCTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTTTCATAACTTGGGGCTTCTTACCCAGCCAGGCACTCTCCTCCCAACAGACAGGAACAGCTCCATGTGCACTATCATGCGTGATGGAGTGTTTGGAAACTATATCCCTGTGCCCACCACAGACTGCATgtaagaaatttttgtggacagggtattgtatagtgatgaaggccttaggg Alignment from GeneWise ------ATCAAAGACACCATTGGCTTCGACACACTAGGTCATTGCTTCTTTTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTATCATAACTTGGGGCTTCTTACCAAGCCGGGCACTCTCCTCCCAACGGACAGGAACAGCTCCATGTGCACCGTCATGCGTGATGGAGTGTTTGGAAACTACGTCCCTGTGCCTACCACAGACTGCAT actccgattggccttgtgactagtgactaaatgttttaaatttattatagGCTGACATCAAAGACACCATTGGCTTCGACACACTAGGACATTGTGTCTTCTTGGAAGATGGTGTTGAACAGCGAAATATTTTGTTTCATAACTTGGGGCTTCTTACCCAGCCAGGCACTCTCCTCCCAACAGACAGGAACAGCTCCATGTGCACTATCATGCGTGATGGAGTGTTTGGAAACTATATCCCTGTGCCCACCACAGACTGCATgtaagaaatttttgtggacagggtattgtatagtgatgaaggccttaggg #### Trmt112_ID1861_2 --> 0 - 0 Original Alignment GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctacctcactgaatgtttttgacacctccaatacctgggtctttcag------GAGGTCCGCATCAACCCTGTGGAGTTCAACCCAGAGTTTGTGGCGCGTATGATCCCCAAGGTGGAGTGGGCAGCACTTGTCCAGGCTGCAGACACCgtgagaaccctgcccttcctgttgtaccttaggggcaggctcaggctctg Alignment from CESAR GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctggacctacctcactgaatgtcacctccaatacctgggtctttcag------GAGGTCCGCATCAACCCTGTGGAGTTCAACCCAGAGTTTGTGGCGCGTATGATCCCCAAGGTGGAGTGGGCAGCACTTGTCCAGGCTGCAGACACCgtgagaaccctgcccttcctgttgtaccttaggggcaggctcaggctctg Alignment from Spaln_aa2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctacctcactgaatgtttttgacacctccaatacctgggtctttcag------GAGGTCCGCATCAACCCTGTGGAGTTCAACCCAGAGTTTGTGGCGCGTATGATCCCCAAGGTGGAGTGGGCAGCACTTGTCCAGGCTGCAGACACCgtgagaaccctgcccttcctgttgtaccttaggggcaggctcaggctctg Alignment from Spaln_nt2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctacctcactgaatgtttttgacacctccaatacctgggtctttcag------GAGGTCCGCATCAACCCTGTGGAGTTCAACCCAGAGTTTGTGGCGCGTATGATCCCCAAGGTGGAGTGGGCAGCACTTGTCCAGGCTGCAGACACCgtgagaaccctgcccttcctgttgtaccttaggggcaggctcaggctctg Alignment from Pairagon GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctacctcactgaatgtttttgacacctccaatacctgggtctttcag------GAGGTCCGCATCAACCCTGTGGAGTTCAACCCAGAGTTTGTGGCGCGTATGATCCCCAAGGTGGAGTGGGCAGCACTTGTCCAGGCTGCAGACACCgtgagaaccctgcccttcctgttgtaccttaggggcaggctcaggctctg Alignment from Exonerate_protein2genome GAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctacctcactgaatgtttttgacacctccaatacctgggtctttcagGAGGTCCGCATCAACCCTGTGGAGTTCAACCCAGAGTTTGTGGCGCGTATGATCCCCAAGGTGGAGTGGGCAGCACTTGTCCAGGCTGCAGACACCgtgagaaccctgcccttcctgttgtaccttaggggcaggctcaggctctg Alignment from Exonerate_coding2genome GAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctacctcactgaatgtttttgacacctccaatacctgggtctttcagGAGGTCCGCATCAACCCTGTGGAGTTCAACCCAGAGTTTGTGGCGCGTATGATCCCCAAGGTGGAGTGGGCAGCACTTGTCCAGGCTGCAGACACCgtgagaaccctgcccttcctgttgtaccttaggggcaggctcaggctctg Alignment from GeneWise GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctacctcactgaatgtttttgacacctccaatacctgggtctttcagGAG------GTCCGCATCAACCCTGTGGAGTTCAACCCAGAGTTTGTGGCGCGTATGATCCCCAAGGTGGAGTGGGCAGCACTTGTCCAGGCTGCAGACACCgtgagaaccctgcccttcctgttgtaccttaggggcaggctcaggctctg #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gtcccactgctgcagcctcttcacacctcttgttcctgtgtctcctgtag---------------CTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCCTCAGGATTGCCA---GACCCTGGTGTTATCAGCggtgagtgtcaccattacctagtctctcctccctggtctccaccaaaggtc Alignment from CESAR GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg cagtgcatgaaaggggtcccactgccctcttgttcctgtgtctcctgtag---------------CTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCCTCAGGATTGCCA---GACCCTGGTGTTATCAGCggtgagtgtcaccattacctagtctctcctccctggtctccaccaaaggtc Alignment from Spaln_aa2Genome CTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtcccactgctgcagcctcttcacacctcttgttcctgtgtctcctgtagCTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCCTCAGGATTGCCA---GACCCTGGTGTTATCAGCGgtgagtgtcaccattacctagtctctcctccctggtctccaccaaaggtc Alignment from Spaln_nt2Genome CTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtcccactgctgcagcctcttcacacctcttgttcctgtgtctcctgtagCTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCCTCAGGATTGCC---AGACCCTGGTGTTATCAGCGgtgagtgtcaccattacctagtctctcctccctggtctccaccaaaggtc Alignment from Pairagon GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtcccactgctgcagcctcttcacacctcttgttcctgtgtctcctgtag---------------CTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCCTCAGGATTGCC---AGACCCTGGTGTTATCAGCGgtgagtgtcaccattacctagtctctcctccctggtctccaccaaaggtc Alignment from Exonerate_protein2genome CTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtcccactgctgcagcctcttcacacctcttgttcctgtgtctcctgtagCTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCCTCAGGATTGCCA---GACCCTGGTGTTATCAGCGgtgagtgtcaccattacctagtctctcctccctggtctccaccaaaggtc Alignment from Exonerate_coding2genome CTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtcccactgctgcagcctcttcacacctcttgttcctgtgtctcctgtagCTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCCTCAGGATTGCCA---GACCCTGGTGTTATCAGCGgtgagtgtcaccattacctagtctctcctccctggtctccaccaaaggtc Alignment from GeneWise CTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtcccactgctgcagcctcttcacacctcttgttcctgtgtctcctgtagCTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCCTCAGGATTGCCA---GACCCTGGTGTTATCAGCGgtgagtgtcaccattacctagtctctcctccctggtctccaccaaaggtc #### Trpt1_ID1983_6 --> 2 - 1 Original Alignment atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACA------c atggaagggcactatcatgtggtcacattctattttctttatggctctagatGGAATCCCTTTCTTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTGCAGCTTCGACCTACAATCCTAcgtgagcaaacaaaccaccccccaccccggtctgaagcctgaggccttctc Alignment from CESAR atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACA------c atggaagggcactatcatgtggtcacattctattttctttatggctctagatGGAATCCCTTTCTTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTGCAGCTTCGACCTACAATCCTAcgtgagcaaacaaaccaccccccaccccggtctgaagcctgaggccttctc Alignment from Spaln_aa2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACA------C atggaagggcactatcatgtggtcacattctattttctttatggctctagATGGAATCCCTTTCTTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTGCAGCTTCGACCTACAATCCTACgtgagcaaacaaaccaccccccaccccggtctgaagcctgaggccttctc Alignment from Spaln_nt2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACA------C atggaagggcactatcatgtggtcacattctattttctttatggctctagATGGAATCCCTTTCTTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTGCAGCTTCGACCTACAATCCTACgtgagcaaacaaaccaccccccaccccggtctgaagcctgaggccttctc Alignment from Pairagon ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTAC------AC atggaagggcactatcatgtggtcacattctattttctttatggctctagATGGAATCCCTTTCTTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTGCAGCTTCGACCTACAATCCTACgtgagcaaacaaaccaccccccaccccggtctgaagcctgaggccttctc Alignment from Exonerate_protein2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACA------C atggaagggcactatcatgtggtcacattctattttctttatggctctagATGGAATCCCTTTCTTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTGCAGCTTCGACCTACAATCCTACgtgagcaaacaaaccaccccccaccccggtctgaagcctgaggccttctc Alignment from Exonerate_coding2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACA------C atggaagggcactatcatgtggtcacattctattttctttatggctctagATGGAATCCCTTTCTTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTGCAGCTTCGACCTACAATCCTACgtgagcaaacaaaccaccccccaccccggtctgaagcctgaggccttctc Alignment from GeneWise ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACA------C atggaagggcactatcatgtggtcacattctattttctttatggctctagATGGAATCCCTTTCTTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTGCAGCTTCGACCTACAATCCTACgtgagcaaacaaaccaccccccaccccggtctgaagcctgaggccttctc #### Ubxn1_ID2442_6 --> 1 - 0 Original Alignment aCAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tggtccatgtctgacctatcctttgctctttttttctcctttgttatcaga---------CGTGAAAAAATTGAAAGGGACAGAGCAGAGAGAGCTAAGAAGgtaagagatcacaaagtcagggtatactggagcatgctggttaatttcct Alignment from CESAR aCAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG gatttgtcttggtccatgtctgaccctctttttttctcctttgttatcaga---------CGTGAAAAAATTGAAAGGGACAGAGCAGAGAGAGCTAAGAAGgtaagagatcacaaagtcagggtatactggagcatgctggttaatttcct Alignment from Spaln_aa2Genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tggtccatgtctgacctatcctttgctctttttttctcctttgttatcagA---------CGTGAAAAAATTGAAAGGGACAGAGCAGAGAGAGCTAAGAAGgtaagagatcacaaagtcagggtatactggagcatgctggttaatttcct Alignment from Spaln_nt2Genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tggtccatgtctgacctatcctttgctctttttttctcctttgttatcagA---------CGTGAAAAAATTGAAAGGGACAGAGCAGAGAGAGCTAAGAAGgtaagagatcacaaagtcagggtatactggagcatgctggttaatttcct Alignment from Pairagon ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tggtccatgtctgacctatcctttgctctttttttctcctttgttatcagA---------CGTGAAAAAATTGAAAGGGACAGAGCAGAGAGAGCTAAGAAGgtaagagatcacaaagtcagggtatactggagcatgctggttaatttcct Alignment from Exonerate_protein2genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tggtccatgtctgacctatcctttgctctttttttctccttTGTTATCAGACGTGAAAAAATTGAAAGGGACAGAGCAGAGAGAGCTAAGAAGgtaagagatcacaaagtcagggtatactggagcatgctggttaatttcct Alignment from Exonerate_coding2genome ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tggtccatgtctgacctatcctttgctctttttttctccttTGTTATCAGACGTGAAAAAATTGAAAGGGACAGAGCAGAGAGAGCTAAGAAGgtaagagatcacaaagtcagggtatactggagcatgctggttaatttcct Alignment from GeneWise ACAAAGGGTTCGAGAAAAAATTGAAAGGGACAAAGCAGAGAGAGCCAAGAAG tggtccatgtctgacctatcctttgctctttttttctcctttgttatcagA---------CGTGAAAAAATTGAAAGGGACAGAGCAGAGAGAGCTAAGAAGgtaagagatcacaaagtcagggtatactggagcatgctggttaatttcct #### Unc93b1_ID211_2 --> 0 - 1 Original Alignment TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTG---------g gcttggagtttgagtggggagccaacaatttttactgtgtgccttctcagTTGGACGAACTCGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGTAAGCGCCTTGGAGTGGTTAAGAATGTGCTGGCAGCCAGCACGGGTGTCACCCTTACTTATGGCATCTACCTGTCTATAGTGggtgagtaggacatagtaactctgcttgccctctgcctctacagcttcaaa Alignment from CESAR TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTG---------g gcttggagtttgagtggggagccaacaatttttactgtgtgccttctcagTTGGACGAACTCGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGTAAGCGCCTTGGAGTGGTTAAGAATGTGCTGGCAGCCAGCACGGGTGTCACCCTTACTTATGGCATCTACCTGTCTATAGTGggtgagtaggacatagtaactctgcttgccctctgcctctacagcttcaaa Alignment from Spaln_aa2Genome TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTG---------G gcttggagtttgagtggggagccaacaatttttactgtgtgccttctcagTTGGACGAACTCGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGTAAGCGCCTTGGAGTGGTTAAGAATGTGCTGGCAGCCAGCACGGGTGTCACCCTTACTTATGGCATCTACCTGTCTATAGTGGgtgagtaggacatagtaactctgcttgccctctgcctctacagcttcaaa Alignment from Spaln_nt2Genome TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTG---------G gcttggagtttgagtggggagccaacaatttttactgtgtgccttctcagTTGGACGAACTCGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGTAAGCGCCTTGGAGTGGTTAAGAATGTGCTGGCAGCCAGCACGGGTGTCACCCTTACTTATGGCATCTACCTGTCTATAGTGGgtgagtaggacatagtaactctgcttgccctctgcctctacagcttcaaa Alignment from Pairagon TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACC---------TGG gcttggagtttgagtggggagccaacaatttttactgtgtgccttctcagTTGGACGAACTCGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGTAAGCGCCTTGGAGTGGTTAAGAATGTGCTGGCAGCCAGCACGGGTGTCACCCTTACTTATGGCATCTACCTGTCTATAGTGGgtgagtaggacatagtaactctgcttgccctctgcctctacagcttcaaa Alignment from Exonerate_protein2genome TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCT gcttggagtttgagtggggagccaacaatttttactgtgtgccttctcagTTGGACGAACTCGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGTAAGCGCCTTGGAGTGGTTAAGAATGTGCTGGCAGCCAGCACGGGTGTCACCCTTACTTATGGCATCTACCTgtctatagtgggtgagtaggacatagtaactctgcttgccctctgcctctacagcttcaaa Alignment from Exonerate_coding2genome TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCT gcttggagtttgagtggggagccaacaatttttactgtgtgccttctcagTTGGACGAACTCGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGTAAGCGCCTTGGAGTGGTTAAGAATGTGCTGGCAGCCAGCACGGGTGTCACCCTTACTTATGGCATCTACCTgtctatagtgggtgagtaggacatagtaactctgcttgccctctgcctctacagcttcaaa Alignment from GeneWise TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGGGCCTCCTG- gcttggagtttgagtggggagccaacaatttttactgtgtgccttctcagTTGGACGAACTCGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGTAAGCGCCTTGGAGTGGTTAAGAATGTGCTGGCAGCCAGCACGGGTGTCACCCTTACTTATGGCATCTACCTGTCTATAGTGGgtgagtaggacatagtaactctgcttgccctctgcctctacagcttcaaa #### Vegfb_ID1955_5 --> 1 - 2 Original Alignment a---CCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACag acgagtgtaagaggtttgggtttctttaaagggttttcttcccttcctagaAAACCTAAAAAAAAGGAGACAGCTGTGAAGCCAGACcggtaagcttttgggattctcggtgctggtccaggagagagagctcatttgg Alignment from CESAR a---CCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACag acgagtgtaagaggtttgggtttctttaaagggttttcttcccttcctagaAAACCTAAAAAAAAGGAGACAGCTGTGAAGCCAGACcggtaagcttttgggattctcggtgctggtccaggagagagagctcatttgg Alignment from Spaln_aa2Genome ACCAAAAAAAAAG---GAGAGTGCTGTGAAGCCAGACAG acgagtgtaagaggtttgggtttctttaaagggttttcttcccttcctagAAAACCTAAAAAAAAGGAGACAGCTGTGAAGCCAGACCGgtaagcttttgggattctcggtgctggtccaggagagagagctcatttgg Alignment from Spaln_nt2Genome ACCAAAAAAAA---AGGAGAGTGCTGTGAAGCCAGACAG acgagtgtaagaggtttgggtttctttaaagggttttcttcccttcctagAAAACCTAAAAAAAAGGAGACAGCTGTGAAGCCAGACCGgtaagcttttgggattctcggtgctggtccaggagagagagctcatttgg Alignment from Pairagon ---ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG acgagtgtaagaggtttgggtttctttaaagggttttcttcccttcctagAAAACCTAAAAAAAAGGAGACAGCTGTGAAGCCAGACCGgtaagcttttgggattctcggtgctggtccaggagagagagctcatttgg Alignment from Exonerate_protein2genome ACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG acgagtgtaagaggtttgggtttctttaaagggttttcttcccttcctagaaaACCTAAAAAAAAGGAGACAGCTGTGAAGCCAGACCGgtaagcttttgggattctcggtgctggtccaggagagagagctcatttgg Alignment from Exonerate_coding2genome GCAGACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG acgagtgtaagaggtttgggtttctttaaagggttttcttcccttcctagA-AAACCTAAAAAAAAGGAGACAGCTGTGAAGCCAGACCGgtaagcttttgggattctcggtgctggtccaggagagagagctcatttgg Alignment from GeneWise -AGACCAAAAAAAAAGGAGAGTGCTGTGAAGCCAGACAG acgagtgtaagaggtttgggtttctttaaagggttttcttcccttcctagAAAACCTAAAAAAAAGGAGACAGCTGTGAAGCCAGACCGgtaagcttttgggattctcggtgctggtccaggagagagagctcatttgg #### Vegfb_ID1957_3 --> 2 - 0 Original Alignment tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gataagaaggagacctgataagaacttactgatccttgctctctgtttagtgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGGCCACTGGGCAACACCAAGTC---------gtaagggtgcccctctttcctatgggtcaggtgtgttgaggggacactga Alignment from CESAR tgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gataagaaggagacctgataagaacttactgatccttgctctctgtttagtgGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGGCCACTGGGCAACACCAAGTC---------gtaagggtgcccctctttcctatgggtcaggtgtgttgagg Alignment from Spaln_aa2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gataagaaggagacctgataagaacttactgatccttgctctctgtttagTGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGGCCACTGGGCAACACCAAGTC---GTAAGGgtgcccctctttcctatgggtcaggtgtgttgaggggacac Alignment from Spaln_nt2Genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTC gataagaaggagacctgataagaacttactgatccttgctctctgtttagTGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGGCCACTGGGCAACACCAAGTCgtaagggtgcccctctttcctatgggtcaggtgtgttgaggggacactga Alignment from Pairagon TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTC gataagaaggagacctgataagaacttactgatccttgctctctgtttagTGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGGCCACTGGGCAACACCAAGTCgtaagggtgcccctctttcctatgggtcaggtgtgttgaggggacactga Alignment from Exonerate_protein2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTC gataagaaggagacctgataagaacttactgatccttgctctctgtttagTGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGGCCACTGGGCAACACCAAGTCgtaagggtgcccctctttcctatgggtcaggtgtgttgaggggacactga Alignment from Exonerate_coding2genome TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gataagaaggagacctgataagaacttactgatccttgctctctgtttagTGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGGCCACTGGGCAACACCAAGT---CGTAAGGgtgcccctctttcctatgggtcaggtgtgttgaggggacactga Alignment from GeneWise TGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGTGCCTCTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGCCCACTGGGCAACACCAAGTCCGAATGCAG gataagaaggagacctgataagaacttactgatccttgctctctgtttagTGGTGCCATGGATAGACGTTTATGCACGTGCCACATGCCAGCCCAGGGAGGTGGTGGCACCACTGAGCATGGAACTCATGGGCAATGTGGTCAAACAACTAGTGCCCAGCTGTGTGACTGTGCAGCGCTGTGGTGGCTGCTGCCCTGACGATGGCCTGGAATGTGTGGCCACTGGGCAACACCAAGTC---GTAAGGgtgcccctctttcctatgggtcaggtgtgttgaggggacac #### Vegfb_ID1958_2 --> 0 - 1 Original Alignment ---GCCCCTGTGTCCCAGTTTGATGGCCCCAGCCACCAGAAGAAAg gccagcccttttagagtgcaccttgggcatttcttcttgattattttcagTTGGCCCCTGTGTCGCAGTTTGATGGCCCCAGCCACCAGAAGAAAggtagatatagttatagcttgccaccagccagtacgaagaggggttagcat Alignment from CESAR ---GCCCCTGTGTCCCAGTTTGATGGCCCCAGCCACCAGAAGAAAg gccagcccttttagagtgcaccttgggcatttcttcttgattattttcagTTGGCCCCTGTGTCGCAGTTTGATGGCCCCAGCCACCAGAAGAAAggtagatatagttatagcttgccaccagccagtacgaagaggggttagcat Alignment from Spaln_aa2Genome GCCCCTGTGTCC---CAGTTTGATGGCCCCAGCCACCAGAAGAAAG gccagcccttttagagtgcaccttgggcatttcttcttgattattttcagTTGGCCCCTGTGTCGCAGTTTGATGGCCCCAGCCACCAGAAGAAAGgtagatatagttatagcttgccaccagccagtacgaagaggggttagcat Alignment from Spaln_nt2Genome GGCCCCTGTGT--CCCAGTTTGATGGCCCCAGCCACCAGAAGAAAG gccagcccttttagagtgcaccttgggcatttcttcttgattattttcagTTGGCCCCTGTGTCGCAGTTTGATGGCCCCAGCCACCAGAAGAAAGgtagatatagttatagcttgccaccagccagtacgaagaggggttagcat Alignment from Pairagon ---GCCCCTGTGTCCCAGTTTGATGGCCCCAGCCACCAGAAGAAAG gccagcccttttagagtgcaccttgggcatttcttcttgattattttcagTTGGCCCCTGTGTCGCAGTTTGATGGCCCCAGCCACCAGAAGAAAGgtagatatagttatagcttgccaccagccagtacgaagaggggttagcat Alignment from Exonerate_protein2genome GCCCCTGTGTCCCAGTTTGATGGCCCCAGCCACCAGAAGAAAG gccagcccttttagagtgcaccttgggcatttcttcttgattattttcagttgGCCCCTGTGTCGCAGTTTGATGGCCCCAGCCACCAGAAGAAAGgtagatatagttatagcttgccaccagccagtacgaagaggggttagcat Alignment from Exonerate_coding2genome GCCCCTGTGTCCCAGTTTGATGGCCCCAGCCACCAGAAGAAAG gccagcccttttagagtgcaccttgggcatttcttcttgattattttcagttgGCCCCTGTGTCGCAGTTTGATGGCCCCAGCCACCAGAAGAAAGgtagatatagttatagcttgccaccagccagtacgaagaggggttagcat Alignment from GeneWise ---GCCCCTGTGTCCCAGTTTGATGGCCCCAGCCACCAGAAGAAAG gccagcccttttagagtgcaccttgggcatttcttcttgattattttcagTTGGCCCCTGTGTCGCAGTTTGATGGCCCCAGCCACCAGAAGAAAGgtagatatagttatagcttgccaccagccagtacgaagaggggttagcat #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------------- gcacaagcttggggagaaagtagctgaacctgatagaatctctccaccagacCTTGTCAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGGATTACGGACTCATGgtaaatcttgtgattcacgtctatgtgtgcatctgtgaagcagttctaga Alignment from CESAR acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------------- gcacaagcttggggagaaagtagctgaacctgatagaatctctccaccagacCTTGTCAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGGATTACGGACTCATGgtaaatcttgtgattcacgtctatgtgtgcatctgtgaagcagttctaga Alignment from Spaln_aa2Genome CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------------- caagcttggggagaaagtagctgaacctgatagaatctctccacca gACCTTGTCAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGGATTACGGACTCATGgtaaatcttgtgattcacgtctatgtgtgcatctgtgaagcagttctaga Alignment from Spaln_nt2Genome CACTCGACCTTGTC--------AAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------------- gcacaagcttggggagaaagtagctgaacctgatagAATCTCTCCACCAGACCTTGTCAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGGATTACGGACTCATGgtaaatcttgtgattcacgtctatgtgtgcatctgtgaagcagttctaga Alignment from Pairagon ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG--------------- gcacaagcttggggagaaagtagctgaacctgatagaatctctccaccagACCTTGTCAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGGATTACGGACTCATGgtaaatcttgtgattcacgtctatgtgtgcatctgtgaagcagttctaga Alignment from Exonerate_protein2genome TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcacaagcttggggagaaagtagctgaacctgatagaatctctccacCAGACCTTGTCAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGgattacggactcatggtaaatcttgtgattcacgtctatgtgtgcatctgtgaagcagttctaga Alignment from Exonerate_coding2genome TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcacaagcttggggagaaagtagctgaacctgatagaatctctccacCAGACCTTGTCAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGgattacggactcatggtaaatcttgtgattcacgtctatgtgtgcatctgtgaagcagttctaga Alignment from GeneWise TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGGAT------------ gcacaagcttggggagaaagtagctgaacctgatagaatctctccaccagAC---CTTGTCAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAGGATTACGGACTCATGgtaaatcttgtgattcacgtctatgtgtgcatctgtgaagcagttctaga #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT caccagtaataactgagcctttgcctgaccactcccatctgtgcccacaggtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGCGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGGCTACGAGAGGGCATCACTCGAGGAGGAAAAGGCCTT------gtaagaactagatttccctgggcttagaaacacatcagcaaaatcacttt Alignment from CESAR gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT caccagtaataactgagcctttgcctgaccactcccatctgtgcccacaggtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGCGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGGCTACGAGAGGGCATCACTCGAGGAGGAAAAGGCCTT------gtaagaactagatttccctgggcttagaaacacatcagcaaaat Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTT caccagtaataactgagcctttgcctgaccactcccatctgtgcccacagGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGCGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGGCTACGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTgtaagaactagatttccctgggcttagaaacacatcagcaaaatcacttt Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTT caccagtaataactgagcctttgcctgaccactcccatctgtgcccacagGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGCGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGGCTACGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTgtaagaactagatttccctgggcttagaaacacatcagcaaaatcacttt Alignment from Pairagon GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTT caccagtaataactgagcctttgcctgaccactcccatctgtgcccacagGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGCGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGGCTACGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTgtaagaactagatttccctgggcttagaaacacatcagcaaaatcacttt Alignment from Exonerate_protein2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTT caccagtaataactgagcctttgcctgaccactcccatctgtgcccacagGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGCGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGGCTACGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTgtaagaactagatttccctgggcttagaaacacatcagcaaaatcacttt Alignment from Exonerate_coding2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTT caccagtaataactgagcctttgcctgaccactcccatctgtgcccacagGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGCGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGGCTACGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTgtaagaactagatttccctgggcttagaaacacatcagcaaaatcacttt Alignment from GeneWise GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTT caccagtaataactgagcctttgcctgaccactcccatctgtgcccacagGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGCGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGGCTACGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTgtaagaactagatttccctgggcttagaaacacatcagcaaaatcacttt #### Vps13a_ID4059_64 --> 0 - 1 Original Alignment ---GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg acagttgctatcacaccaggtctttacttcttacattttcttttttccagATTGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTggtaaatagcagggaaacccagcaacactgcccacaccagtaataactgag Alignment from CESAR ---GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg acagttgctatcacaccaggtctttacttcttacattttcttttttccagATTGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTggtaaatagcagggaaacccagcaacactgcccacaccagtaataactgag Alignment from Spaln_aa2Genome GGGGCTATCCAG---GGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG acagttgctatcacaccaggtctttacttcttacattttcttttttccagATTGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTGgtaaatagcagggaaacccagcaacactgcccacaccagtaataactgag Alignment from Spaln_nt2Genome GGGGCTATCC---AGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG acagttgctatcacaccaggtctttacttcttacattttcttttttccagATTGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTGgtaaatagcagggaaacccagcaacactgcccacaccagtaataactgag Alignment from Pairagon ---GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG acagttgctatcacaccaggtctttacttcttacattttcttttttccagATTGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTGgtaaatagcagggaaacccagcaacactgcccacaccagtaataactgag Alignment from Exonerate_protein2genome ---GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG acagttgctatcacaccaggtctttacttcttacattttcttttttccagATTGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTGgtaaatagcagggaaacccagcaacactgcccacaccagtaataactgag Alignment from Exonerate_coding2genome ---GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG acagttgctatcacaccaggtctttacttcttacattttcttttttccagATTGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTGgtaaatagcagggaaacccagcaacactgcccacaccagtaataactgag Alignment from GeneWise ---GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG acagttgctatcacaccaggtctttacttcttacattttcttttttccagATTGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTGgtaaatagcagggaaacccagcaacactgcccacaccagtaataactgag #### Vps13a_ID4074_49 --> 0 - 0 Original Alignment ---------------------------GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA aataattggatggtatataaattgtaatgctttcctccatccgcctgcagCAGGATGACAACAACCTCAATTCCATCGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAAgtgagcttcttctgtgctaaagaaactttcatttgcattatatctactag Alignment from CESAR ---------------------------GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA aataattggatggtatataaattgtaatgctttcctccatccgcctgcagCAGGATGACAACAACCTCAATTCCATCGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAAgtgagcttcttctgtgctaaagaaactttcatttgcattatatctactag Alignment from Spaln_aa2Genome CTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA aataattggatggtatataaattgtaatgctttcctccatccgcctgcagcaggatgacaacaacctcaattccatcgttcagCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAAgtgagcttcttctgtgctaaagaaactttcatttgcattatatctactag Alignment from Spaln_nt2Genome CTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA aataattggatggtatataaattgtaatgctttcctccatccgcctgcagcaggatgacaacaacctcaattccatcgttcagCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAAgtgagcttcttctgtgctaaagaaactttcatttgcattatatctactag Alignment from Pairagon ---------------------------GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA aataattggatggtatataaattgtaatgctttcctccatccgcctgcagCAGGATGACAACAACCTCAATTCCATCGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAAgtgagcttcttctgtgctaaagaaactttcatttgcattatatctactag Alignment from Exonerate_protein2genome GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA aataattggatggtatataaattgtaatgctttcctccatccgcctgcagcaggatgacaacaacctcaattccatcGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAAgtgagcttcttctgtgctaaagaaactttcatttgcattatatctactag Alignment from Exonerate_coding2genome GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA aataattggatggtatataaattgtaatgctttcctccatccgcctgcagcaggatgacaacaacctcaattccatcGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAAgtgagcttcttctgtgctaaagaaactttcatttgcattatatctactag Alignment from GeneWise CTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA aataattggatggtatataaattgtaatgctttcctccatccgcctgcagcaggatgacaacaacctcaattccatcgttcagCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAAgtgagcttcttctgtgctaaagaaactttcatttgcattatatctactag #### Vps13a_ID4114_9 --> 0 - 0 Original Alignment CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG atggcaaaatctttaaaacaaaagtaaccgcctcctctctcccttaccag------CGGTTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGgtaggtagatatttatgtgcatatctgttgttttatattgtataatgctt Alignment from CESAR CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG ggatgcatggcaaaatctttaaaacaaccgcctcctctctcccttaccag------CGGTTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGgtaggtagatatttatgtgcatatctgttgttttatattgtataatgctt Alignment from Spaln_aa2Genome CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG atggcaaaatctttaaaacaaaagtaaccgcctcctctctcccttaccag------CGGTTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGgtaggtagatatttatgtgcatatctgttgttttatattgtataatgctt Alignment from Spaln_nt2Genome CGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG atggcaaaatctttaaaacaaaagtaaccgcctcctctctcccttaccagCGGTTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGgtaggtagatatttatgtgcatatctgttgttttatattgtataatgctt Alignment from Pairagon CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG atggcaaaatctttaaaacaaaagtaaccgcctcctctctcccttaccag------CGGTTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGgtaggtagatatttatgtgcatatctgttgttttatattgtataatgctt Alignment from Exonerate_protein2genome CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG atggcaaaatctttaaaacaaaagtaaccgcctcctctctccctTACCAGCGGTTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGgtaggtagatatttatgtgcatatctgttgttttatattgtataatgctt Alignment from Exonerate_coding2genome CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG atggcaaaatctttaaaacaaaagtaaccgcctcctctctccctTACCAGCGGTTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGgtaggtagatatttatgtgcatatctgttgttttatattgtataatgctt Alignment from GeneWise CTAATCCGATTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTG atggcaaaatctttaaaacaaaagtaaccgcctcctctctcccttaccagCGG------TTAGATAATCTCTTTGCTTACTGGAATGTGAACTCTGAGATGTTTTATCTGAATGATTACGATGAATCGCTGgtaggtagatatttatgtgcatatctgttgttttatattgtataatgctt #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ggtcacttgtttgtcaccccagtatatcctttatggattttatatttcaggg---AACCTTCAACGGAAACATGCAGCAAATTTCACACCATCCGGACAGCCACGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaggtagcctctggccgggccagagctaaaggatgcctgacaatcctga Alignment from CESAR ggGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aggggtcacttgtttgtcaccccagatcctttatggattttatatttcaggg---AACCTTCAACGGAAACATGCAGCAAATTTCACACCATCCGGACAGCCACGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaggtagcctctggccgggccagagctaaaggatgcctgacaatcctga Alignment from Spaln_aa2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ggtcacttgtttgtcaccccagtatatcctttatggattttatatttcagGG---AACCTTCAACGGAAACATGCAGCAAATTTCACACCATCCGGACAGCCACGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaggtagcctctggccgggccagagctaaaggatgcctgacaatcctga Alignment from Spaln_nt2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ggtcacttgtttgtcaccccagtatatcctttatggattttatatttcagG---GAACCTTCAACGGAAACATGCAGCAAATTTCACACCATCCGGACAGCCACGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaggtagcctctggccgggccagagctaaaggatgcctgacaatcctga Alignment from Pairagon GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ggtcacttgtttgtcaccccagtatatcctttatggattttatatttcagG---GAACCTTCAACGGAAACATGCAGCAAATTTCACACCATCCGGACAGCCACGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaggtagcctctggccgggccagagctaaaggatgcctgacaatcctga Alignment from Exonerate_protein2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ggtcacttgtttgtcaccccagtatatcctttatggattttatatttcagGG---AACCTTCAACGGAAACATGCAGCAAATTTCACACCATCCGGACAGCCACGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaggtagcctctggccgggccagagctaaaggatgcctgacaatcctga Alignment from Exonerate_coding2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ggtcacttgtttgtcaccccagtatatcctttatggattttatatttcagGG---AACCTTCAACGGAAACATGCAGCAAATTTCACACCATCCGGACAGCCACGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaggtagcctctggccgggccagagctaaaggatgcctgacaatcctga Alignment from GeneWise GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA ggtcacttgtttgtcaccccagtatatcctttatggattttatatttcagGG---AACCTTCAACGGAAACATGCAGCAAATTTCACACCATCCGGACAGCCACGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaggtagcctctggccgggccagagctaaaggatgcctgacaatcctga #### Wdr74_ID2318_8 --> 1 - 1 Original Alignment tTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAg agaagggatccagaagtcacactgatcctctatctctgtttcctccacagtTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATTTTCGG---ggtgggttgtggaccatgggtttcttgagaaggggagcaaaggaagggtca Alignment from CESAR tTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAg agaagggatccagaagtcacactgatcctctatctctgtttcctccacagtTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATTTTCGG---ggtgggttgtggaccatgggtttcttgagaaggggagcaaaggaagggtca Alignment from Spaln_aa2Genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG agaagggatccagaagtcacactgatcctctatctctgtttcctccacagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATTTTCGG---Ggtgggttgtggaccatgggtttcttgagaaggggagcaaaggaagggtca Alignment from Spaln_nt2Genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG- agaagggatccagaagtcacactgatcctctatctctgtttcctccacagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATTTTCGGGGTGGgttgtggaccatgggtttcttgagaaggggagcaaaggaagggtca Alignment from Pairagon TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG agaagggatccagaagtcacactgatcctctatctctgtttcctccacagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATTTTCGG---Ggtgggttgtggaccatgggtttcttgagaaggggagcaaaggaagggtca Alignment from Exonerate_protein2genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGC agaagggatccagaagtcacactgatcctctatctctgtttcctccacagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATTTTCGGGgtgggttgtggaccatgggtttcttgagaaggggagcaaaggaagggtca Alignment from Exonerate_coding2genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGC agaagggatccagaagtcacactgatcctctatctctgtttcctccacagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATTTTCGGGgtgggttgtggaccatgggtttcttgagaaggggagcaaaggaagggtca Alignment from GeneWise TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAA-- agaagggatccagaagtcacactgatcctctatctctgtttcctccacagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATTTTCGGGGTGGgttgtggaccatgggtttcttgagaaggggagcaaaggaagggtca #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG acactagagtggctggttagccaacacctgctggccgctctctcttgcagggCGACTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTA---------gtaggagcctcatctacacaaacctttgcactggccattctaacttacct Alignment from CESAR ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG acactagagtggctggttagccaacacctgctggccgctctctcttgcagggCGACTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTA---------gtaggagcctcatctacacaaacctttgcactggccattct Alignment from Spaln_aa2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTA acactagagtggctggttagccaacacctgctggccgctctctcttgcagGGCGACTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAgtaggagcctcatctacacaaacctttgcactggccattctaacttacct Alignment from Spaln_nt2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTA acactagagtggctggttagccaacacctgctggccgctctctcttgcagGGCGACTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAgtaggagcctcatctacacaaacctttgcactggccattctaacttacct Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTA acactagagtggctggttagccaacacctgctggccgctctctcttgcagGGCGACTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAgtaggagcctcatctacacaaacctttgcactggccattctaacttacct Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGG acactagagtggctggttagccaacacctgctggccgctctctcttgcagGGCGACTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGgctagtaggagcctcatctacacaaacctttgcactggccattctaacttacct Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGG acactagagtggctggttagccaacacctgctggccgctctctcttgcagGGCGACTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGgctagtaggagcctcatctacacaaacctttgcactggccattctaacttacct Alignment from GeneWise GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTA acactagagtggctggttagccaacacctgctggccgctctctcttgcagGGCGACTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAgtaggagcctcatctacacaaacctttgcactggccattctaacttacct #### Wdr96_ID10334_37 --> 0 - 1 Original Alignment ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg atcaactctttgaacattgttttggggtacttttgtaaatgtgcttctagACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAA---ggtaaggattactttttttcaatcaatcaaagggattctaacagtcatagc Alignment from CESAR ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg atcaactctttgaacattgttttggggtacttttgtaaatgtgcttctagACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAA---ggtaaggattactttttttcaatcaatcaaagggattctaacagtcatagc Alignment from Spaln_aa2Genome ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAG- atcaactctttgaacattgttttggggtacttttgtaaatgtgcttctagACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAGgtaaggattactttttttcaatcaatcaaagggattctaacagtcatagc Alignment from Spaln_nt2Genome ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG atcaactctttgaacattgttttggggtacttttgtaaatgtgcttctagACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGA---AGgtaaggattactttttttcaatcaatcaaagggattctaacagtcatagc Alignment from Pairagon ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG atcaactctttgaacattgttttggggtacttttgtaaatgtgcttctagACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGA---AGgtaaggattactttttttcaatcaatcaaagggattctaacagtcatagc Alignment from Exonerate_protein2genome ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGA atcaactctttgaacattgttttggggtacttttgtaaatgtgcttctagACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAGgtaaggattactttttttcaatcaatcaaagggattctaacagtcatagc Alignment from Exonerate_coding2genome ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGA atcaactctttgaacattgttttggggtacttttgtaaatgtgcttctagACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAGgtaaggattactttttttcaatcaatcaaagggattctaacagtcatagc Alignment from GeneWise ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGA atcaactctttgaacattgttttggggtacttttgtaaatgtgcttctagACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAGgtaaggattactttttttcaatcaatcaaagggattctaacagtcatagc #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG tcacaaagctttggactcagggacttaagaccctcttccacatgtcctaggg---CAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAATTTGTGGATGCCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgtagtgcctgcagctgtcggaactagggagccagcttcatccagtatcag Alignment from CESAR ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG agctcacaaagctttggactcagggtaagaccctcttccacatgtcctaggg---CAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAATTTGTGGATGCCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgtagtgcctgcagctgtcggaactagggagccagcttcatccagtatcag Alignment from Spaln_aa2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG tcacaaagctttggactcagggacttaagaccctcttccacatgtcctagGGCAAGGTTGGCTC---TGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAATTTGTGGATGCCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgtagtgcctgcagctgtcggaactagggagccagcttcatccagtatcag Alignment from Spaln_nt2Genome GCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG tcacaaagctttggactcagggacttaagaccctcttccacatgtcctagGGCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAATTTGTGGATGCCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgtagtgcctgcagctgtcggaactagggagccagcttcatccagtatcag Alignment from Pairagon GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG tcacaaagctttggactcagggacttaagaccctcttccacatgtcctagGG---CAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAATTTGTGGATGCCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgtagtgcctgcagctgtcggaactagggagccagcttcatccagtatcag Alignment from Exonerate_protein2genome CTGGGGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG tcacaaagctttggactcagggacttaagaccctcttccacatGTCCTAGGGCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAATTTGTGGATGCCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgtagtgcctgcagctgtcggaactagggagccagcttcatccagtatcag Alignment from Exonerate_coding2genome CTGGGGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG tcacaaagctttggactcagggacttaagaccctcttccacatGTCCTAGGGCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAATTTGTGGATGCCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgtagtgcctgcagctgtcggaactagggagccagcttcatccagtatcag Alignment from GeneWise GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG tcacaaagctttggactcagggacttaagaccctcttccacatgtcctagGG---CAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAATTTGTGGATGCCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgtagtgcctgcagctgtcggaactagggagccagcttcatccagtatcag #### Yif1a_ID830_2 --> 2 - 0 Original Alignment gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG gttcttactctgcaattatgtaatctacgtcccctgtgtcctccctaaaggtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGTGGATACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAA---gtaggtagtcctgggcccccaggaggagggaggcagggtttgtggccagg Alignment from CESAR gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG gttcttactctgcaattatgtaatctacgtcccctgtgtcctccctaaaggtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGTGGATACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAA---gtaggtagtcctgggcccccaggaggagggaggcagggtttgtggcc Alignment from Spaln_aa2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAA gttcttactctgcaattatgtaatctacgtcccctgtgtcctccctaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGTGGATACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAgtaggtagtcctgggcccccaggaggagggaggcagggtttgtggccagg Alignment from Spaln_nt2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAG-AG gttcttactctgcaattatgtaatctacgtcccctgtgtcctccctaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGTGGATACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGTAGgtagtcctgggcccccaggaggagggaggcagggtttgtggccagg Alignment from Pairagon GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAG------------------------------------------------- gttcttactctgcaattatgtaatctacgtcccctgtgtcctccctaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGTGGATACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGTAGGTAGTCCTGGGCCCCCAGGAGGAGGGAGGCAGGGTTTGTGGCCAGG Alignment from Exonerate_protein2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG gttcttactctgcaattatgtaatctacgtcccctgtgtcctccctaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGTGGATACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGTAggtagtcctgggcccccaggaggagggaggcagggtttgtggccagg Alignment from Exonerate_coding2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG gttcttactctgcaattatgtaatctacgtcccctgtgtcctccctaaagGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGTGGATACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGTAggtagtcctgggcccccaggaggagggaggcagggtttgtggccagg Alignment from GeneWise GCTTACCATTCGGCATATGGAGTCCACGGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG gttcttactctgcaattatgtaATCTACGTCCCCTGTGTCCTCCCTAAAGGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGTGGATACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCAC---AAAgtaggtagtcctgggcccccaggaggagggaggcagggtttgtggccagg #### Yif1a_ID831_3 --> 0 - 0 Original Alignment CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG caatcttacaggaaggaccgctatccatcttttgcacttctgtgatgcagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTAGGGCTATTAGTCTTCCCATACACACAT---gtaagtaggttcccatccagagcgctggccagcctctccctacttgcgga Alignment from CESAR CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG caatcttacaggaaggaccgctatccatcttttgcacttctgtgatgcagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTAGGGCTATTAGTCTTCCCATACACACAT---gtaagtaggttcccatccagagcgctggccagcctctccctacttgc Alignment from Spaln_aa2Genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACAT caatcttacaggaaggaccgctatccatcttttgcacttctgtgatgcagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTAGGGCTATTAGTCTTCCCATACACACATgtaagtaggttcccatccagagcgctggccagcctctccctacttgcgga Alignment from Spaln_nt2Genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATC-AG caatcttacaggaaggaccgctatccatcttttgcacttctgtgatgcagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTAGGGCTATTAGTCTTCCCATACACACATGTAAgtaggttcccatccagagcgctggccagcctctccctacttgcgga Alignment from Pairagon CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACAT caatcttacaggaaggaccgctatccatcttttgcacttctgtgatgcagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTAGGGCTATTAGTCTTCCCATACACACATgtaagtaggttcccatccagagcgctggccagcctctccctacttgcgga Alignment from Exonerate_protein2genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACAT caatcttacaggaaggaccgctatccatcttttgcacttctgtgatgcagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTAGGGCTATTAGTCTTCCCATACACACATgtaagtaggttcccatccagagcgctggccagcctctccctacttgcgga Alignment from Exonerate_coding2genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACAT caatcttacaggaaggaccgctatccatcttttgcacttctgtgatgcagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTAGGGCTATTAGTCTTCCCATACACACATgtaagtaggttcccatccagagcgctggccagcctctccctacttgcgga Alignment from GeneWise CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACAT caatcttacaggaaggaccgctatccatcttttgcacttctgtgatgcagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTAGGGCTATTAGTCTTCCCATACACACATgtaagtaggttcccatccagagcgctggccagcctctccctacttgcgga #### Yif1a_ID834_6 --> 1 - 2 Original Alignment gTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTG---------gg agctgacccaccttgggcctaccctgacttttcatctgttacatattaaggTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGTTCCTAGAGgggtaaacgcctgaaggccgagaggagcctgaagggtcttaggctacaggtt Alignment from CESAR gTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTG---------gg agctgacccaccttgggcctaccctgacttttcatctgttacatattaaggTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGTTCCTAGAGgggtaaacgcctgaaggccgagaggagcctgaagggtcttaggctacaggtt Alignment from Spaln_aa2Genome GTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGT agctgacccaccttgggcctaccctgacttttcatctgttacatattaagGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTgttcctagaggggtaaacgcctgaaggccgagaggagcctgaagggtcttaggctacaggtt Alignment from Spaln_nt2Genome GTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTG---------GG agctgacccaccttgggcctaccctgacttttcatctgttacatattaagGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGTTCCTAGAGGGgtaaacgcctgaaggccgagaggagcctgaagggtcttaggctacaggtt Alignment from Pairagon GTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGT---------GGG agctgacccaccttgggcctaccctgacttttcatctgttacatattaagGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGTTCCTAGAGGGgtaaacgcctgaaggccgagaggagcctgaagggtcttaggctacaggtt Alignment from Exonerate_protein2genome GTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGGG agctgacccaccttgggcctaccctgacttttcatctgttacatattaagGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGTTcctagaggggtaaacgcctgaaggccgagaggagcctgaagggtcttaggctacaggtt Alignment from Exonerate_coding2genome GTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATAT agctgacccaccttgggcctaccctgacttttcatctgttacatattaagGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATgtgttcctagaggggtaaacgcctgaaggccgagaggagcctgaagggtcttaggctacaggtt Alignment from GeneWise GTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTG---------GG agctgacccaccttgggcctaccctgacttttcatctgttacatattaagGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGTTCCTAGAGGGgtaaacgcctgaaggccgagaggagcctgaagggtcttaggctacaggtt #### Yif1a_ID835_7 --> 1 - 0 Original Alignment g---------------------------ATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT ccagttcactgcatccccagttcattcctgtacttgcattttgcttccaggATGGGTTTATTTATTGACAAAGGTCGCATGATCCTTAGTGTGCTCACGGGACTGCTCTTCGGCAGTGATAGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATTgtgagcgtggggcggcccctccccctctcctctgggccacaagtcttctt Alignment from CESAR gATG---------------------------ATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT ccagttcactgcatccccagttcattcctgtacttgcattttgcttccaggATGGGTTTATTTATTGACAAAGGTCGCATGATCCTTAGTGTGCTCACGGGACTGCTCTTCGGCAGTGATAGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATTgtgagcgtggggcggcccctccccctctcctctgggccaattttccaatt Alignment from Spaln_aa2Genome ------ATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCAT ccagttcactgcatccccagttcattcctgtacttgcattttgcttccaggatgggtttatttattgacaaagGTCGCATGATCCTTAGTGTGCTCACGGGACTGCTCTTCGGCAGTGATAGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATTgtgagcgtggggcggcccctccccctctcctctgggccacaagtcttctt Alignment from Spaln_nt2Genome GATGATCCTT----AGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT ccagttcactgcatccccagttcattcctgtacttgcattttgcttccaggatgggtttatttattgacaaagGTCGCATGATCCTTAGTGTGCTCACGGGACTGCTCTTCGGCAGTGATAGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATTgtgagcgtggggcggcccctccccctctcctctgggccatgaatttcttc Alignment from Pairagon G---------------------------ATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT ccagttcactgcatccccagttcattcctgtacttgcattttgcttccagGATGGGTTTATTTATTGACAAAGGTCGCATGATCCTTAGTGTGCTCACGGGACTGCTCTTCGGCAGTGATAGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATTgtgagcgtggggcggcccctccccctctcctctgggccatgaatttcttc Alignment from Exonerate_protein2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT ccagttcactgcatccccagttcattcctgtacttgcattttgcttccaggatgggtttatttattgacaaaggtcgCATGATCCTTAGTGTGCTCACGGGACTGCTCTTCGGCAGTGATAGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATTgtgagcgtggggcggcccctccccctctcctctgggccacaagtcttctt Alignment from Exonerate_coding2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT ccagttcactgcatccccagttcattcctgtacttgcattttgcttccaggatgggtttatttattgacaaaggtcgCATGATCCTTAGTGTGCTCACGGGACTGCTCTTCGGCAGTGATAGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATTgtgagcgtggggcggcccctccccctctcctctgggccacaagtcttctt Alignment from GeneWise -------------------------GGGATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT ccagttcactgcatccccagttcattcctgtacttgcattttgcttccagGATGGGTTTATTTATTGACAAAGGTCGCATGATCCTTAGTGTGCTCACGGGACTGCTCTTCGGCAGTGATAGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATTgtgagcgtggggcggcccctccccctctcctctgggccatgaatttcttc #### Zfand5_ID4879_2 --> 2 - 2 Original Alignment ggACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCA---------ag ttttctgtaagtaagaaacaaatgagcaccatctctttaaatcccaccagggACAGCTAGTGGTTCCAACAGTCCCACCTCGGATGCTGCATCGGTACAGAAAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAAAATCCATaggtgcgtgtgaatgtttctgagtttctctagaccaagctgtctttgctata Alignment from CESAR ggACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCA---------ag ttttctgtaagtaagaaacaaatgagcaccatctctttaaatcccaccagggACAGCTAGTGGTTCCAACAGTCCCACCTCGGATGCTGCATCGGTACAGAAAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAAAATCCATaggtgcgtgtgaatgtttctgagtttctctagaccaagctgtctttgctata Alignment from Spaln_aa2Genome GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAGA-------- ttttctgtaagtaagaaacaaatgagcaccatctctttaaatcccaccagGGACAGCTAGTGGTTCCAACAGTCCCACCTCGGATGCTGCATCGGTACAGAAAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAAAATCCATAGgtgcgtgtgaatgtttctgagtttctctagaccaagctgtctttgctata Alignment from Spaln_nt2Genome GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAA---------G ttttctgtaagtaagaaacaaatgagcaccatctctttaaatcccaccagGGACAGCTAGTGGTTCCAACAGTCCCACCTCGGATGCTGCATCGGTACAGAAAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAAAATCCATAGgtgcgtgtgaatgtttctgagtttctctagaccaagctgtctttgctata Alignment from Pairagon GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCA---------AG ttttctgtaagtaagaaacaaatgagcaccatctctttaaatcccaccagGGACAGCTAGTGGTTCCAACAGTCCCACCTCGGATGCTGCATCGGTACAGAAAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAAAATCCATAGgtgcgtgtgaatgtttctgagtttctctagaccaagctgtctttgctata Alignment from Exonerate_protein2genome GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCA ttttctgtaagtaagaaacaaatgagcaccatctctttaaatcccaccagGGACAGCTAGTGGTTCCAACAGTCCCACCTCGGATGCTGCATCGGTACAGAAAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAaaaatccataggtgcgtgtgaatgtttctgagtttctctagaccaagctgtctttgctata Alignment from Exonerate_coding2genome GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCA ttttctgtaagtaagaaacaaatgagcaccatctctttaaatcccaccagGGACAGCTAGTGGTTCCAACAGTCCCACCTCGGATGCTGCATCGGTACAGAAAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAaaaatccataggtgcgtgtgaatgtttctgagtttctctagaccaagctgtctttgctata Alignment from GeneWise GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAGA-------- ttttctgtaagtaagaaacaaatgagcaccatctctttaaatcccaccagGGACAGCTAGTGGTTCCAACAGTCCCACCTCGGATGCTGCATCGGTACAGAAAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAAAATCCATAGgtgcgtgtgaatgtttctgagtttctctagaccaagctgtctttgctata ####