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reference2.fa
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>Tr1
CGGAGTCTCCCAAGTCCCCGCCGGGCGGGCGCGCGCCAGTGGACGCGGGTGCACGACTGACGCGGCCCGGGCGGCGGGGCGGGGGCTTGGGACCCCCGAGAGGGGCGGGGACTCCGCGACTCCTCGCTGCCGGGCTCGGCCTGGCGGGTGGGTCGGCGAGCCGGGCGTGGGACTGCCCCGGGCGCGGGCGCTGGTGGCCGGGGCGCGGGACTCCAGACGCCCCGGGGAGCCCCGAGGCCCTGGAACTGCGGCGCTCGGCGAGTCGATCCGGGATCGATAGCAGCTCCATGTCTCCGGCCTCTGAGGCCCCGCCGGCCGGCTGGGCAGTCCGGGGAGGCCTGGCGGGCGGCGCGTAGGCGGCGGCTGCGGGCGCCGGGGCGCACTAGCGGACGGCGTGGGCGCGCGGCCAGGCGCCTCCCCGGCCCCCGCGACCCAACTCCAGCCCGGGCCGGAATAAGTTGCTGCCGCCGGCGGAGAGCGGGGCTGCGGAGCCACCGGGGCGCCATGCCGGCGGTCAAGAAGGAGTTCCCGGGCCGCGAGGACCTGGCCCTGGCTCTGGCCACGTTCCACCCGACCCTGGCCGCGCTGCCGCTGCCGCCGCTGCCAGGCTACCTGGCGCCACTGCCCGCGGCGGCCGCCCTCCCCCCGGCCGCCTCGCTGCCCGCCTCGGCCGCCGGTTACGAGGCTCTGCTGGCCCCGCCGCTCCGCCCCCCGCGCGCCTACCTCAGCCTGCACGAGGCCGCCCCGCACCTCCACCTGCCCAGGGACCCGCTGGCCCTCGAGCGCTTCTCGGCCACCGCGGCCGCGGCCCCGGATTTCCAGCCGCTGCTGGACAACGGCGAGCCGTGCATCGAGGTGGAGTGCGGCGCCAACCGCGCGCTGCTCTACGTGCGCAAACTCTGCCAGGGCAGCAAGGGCCCGTCCATCCGCCACCGCGGCGAGTGGCTCACGCCCAACGAGTTCCAGTTCGTCAGCGGCCGCGAGACGGCCAAGGACTGGAAGCGCAGCATCCGCCACAAAGGGAAAAGTCTGAAGACGCTTATGTCCA
>Tr2
GTTTTTTTGAAAAAAGAGTTATGTCTTGAATTCACTTAGAGATTGTCCTGGCATTTGGTGTAGCAAATAAATTAAATATATCTTTTCCCATATTGCTATCCAATTATCCCACCATCACATTAGTAGGCCTTTCCCCCCTGCACTGATTTGAGATACTGTCATTATTATTTACTACTTTTATTATGTGTTTTTAATCTGCTTATAAATTTTCTATTCTACTTTTCCTAAGATAAACATAATTTTGACCCTCTTATCATCTGACTCTCCTTATCTATTAATTCAAGTCACATTTTGACAAACTAGATTCCTTTTTTCTTAGAATATTTAGTGTTCAATTTTATTCTGGCTCAGTGATTCTCCCTGGAAAGAGAAGATATTTGTCAGAATCATTTGTTAAGGTTTTTTTTTTTCAATTTATATTTTCCTTCTATCTTAAATTTTCATCATGCCTTTCTAGGGTGGTAAGGTGGAAGTATATGAGTACACACTTGCACACAAATATACACACTTCCACTCACAAGTACAGTATCCCAAATGAGCATCTGTTAAGATTGGGATGTGTCATATTTCACAAGAATGTTGGGAAAAAGTAAAGTTTGAAACTTTTGGCTTTGTTAATATATAGGATTTTAATAGTATCTAATGTTTATTCATGCTTAATATGTCTCGAAGTGGGCTATTTGATTTATATCTATTTTGTCATTTTCCTTCATAATAACCATGCATAATAGGTATAATCTCCTGTTTATAAATGTAGAAACTAAAGCTCATGAAAGCTACGTAATGTGCCCAAAATCATGATTAATAAGAGTCAGTAGAGTTGAATCCAGCTCTTTGTTTTTTACTTTAAAGCCTGTGCTTTTAAACATTAACCATGGAAAATGACATAGATGGATCCAAGTAATATACTTTGTGCCAACGTGATGAGAGCCTGGATCCCTCTAAATTCTTTCTACTGCTTATGAGCAGTTATACCACAGACGTCTAGGACCTAGAAGGCACATTTCACATTGGCAAACTTACTCTTCCACTCACTCCTGATAATGCCCTCATGGATTCTGGGTTGTTATAGTGGTGGGAGGTGAAGTATAAACTTATAATGGGAGGCGTTTGTTTTTCAACCTCTTAAAAGTTGACATATATCTCCTTACCACTAAGCATATATTTTTTAAATTAAGATGTGACAGTTCTTTTTTTATGTTTTTCACAAAATGGACCAAATAAATTTTTTTTTAAATTTATAAGCTAGGCTATATTTTCTCTCCTTTCTTCTACTAAACTTAGGGTCACACAGGAAGGAACAGGTGTACACAAATACTAATATATTTATGCCTTTCTTTGTTCTAAGAATTAGCAAAAGAATATTTTGAAAGCATAATAACTTTGTATCTGTATTCCAAAATATAACACACAAGTTGTTGAAAGATAAATTGAGGCAATGTATGTGGAAGTTCCTAGACAATTACTAAATTATATGGGAATGGAGGGCACAATTTTCATGAGCTTTACTAAATAACTTACCAACTTCACTATATTTTGTGTCATTATCTGAGATTAATCTCACAGTTATATAAGATCTAAAACTTTACACTAGAATGTGCATCCCATTTTCTCAGCTGTCTTATTGCCGTCTTCATGTCTTTGTTCCTCAGTGTGTATATAATTGGGTTCAAGAGAGGGGTGATCACAGAATAAAATACAGCAAGGAATTTATCTAATGACTTGATGGGGAATGGCCAGGCATAAATAAAGACACATGGTCCAAAGAACAAAAGAACTACTGTAATGTGAGCAGTCAAAGTGGACAGAGCTTTGGACGACTTATCTAAAGGGCGATGCTGGATGGTCATTAGGATGATAGTGTATGAGATGATTAGAAGAACAAAAGAACACACAGTGAGCACACCACTGTTAGCAATGACCATAATATCTAGCCTGTAGGTATCTGTACAGGCAAGTTTGATTACCCTAGGAAGGTCACAATAAAAACTATCGACCTCATTGGGACCACAGAAGAGTAAGTGCACGGCAAACGCCAACTGGCTCACCGAATGGAGAAAGCCAATTCCCCATGTGACAGCCATAATGCCGACACATGCGTTGCCACACATAATTGTAGTGTAGTGTAGGGGCTTGCATATTGCTATATATCTGTCAAAGCCCATGGCTATGAGGATCACCATCTCACTCCCACCAAAGAAGTGAAGGAGAAATATCTGAACAAGGCAGCCCTTGAAAGAGATGACTTTGCGCTGGCTGAAAAAGTCAGTAATCATCTTGGGGGCTGTGACTGAAGACAGAGACAGATCAATGAGTGAGAGGTTGGCTAGCAGGAAGTACATGGGAGAGTGAAGGTGGGAGTCAGATACCACTGTTATGACAATAAGAAGGTTTCCAAACACGATTCCTCCATAGAATACAAAAAACAACATAAATAGGAAGGTCTGGAGTTCCTGAGAATCAGAGAGACCCAGAAAAATGAATTCAGTCACCATAGAGTTATTCGTTTCACTCGTTGATTCATTCCAGGAAATAGCCTCTGCAGTTACCTTCTTCATAACTGGAAGAGACTACAGCAATTTTCACAGAATGAGGCATAAAAACTGAAGAGATCTGGG
>Tr3
CCATATCATGTTTAATGAGAAGGGCTTATTATATCATTTATGAGATCCTCTTGTAAATCACTAGCTGTTTGCATACTCTCTTTATTGCTGCCTTCATCTCCTTATTCCTGAATGTATAGACAACTGGATTCAGAAAAGGAGTGAGAACTGCATCAAAAATAGCCAGAAACTTGTCCATCTGTGAATTAGGGTGTGGCCGTGTATACACAAACATGGGTGGACCAAAGAACAAAAGGACCACTGTGCTGTGAGCTGAAAGAGTGGAAAGGGCCTTGGATGAACCACCTGAGGAATGTTTCCAAACAGTAAACAGGATGAAGACGTAGGAGATTAGAAGTATGAAGAAAGTACCCACACAGATAAACCCACTGTTAACAGTGACCATGAACTGCAATCTGTAGGTGTCGGTACAGGCTAGTCTGAGAAGCCGAGGAAGGTCACAGTAGAAGCTGTCCAACACATTAGGGCCACAGAAGGCTAAATTAACAAGAAATGCCAGTTGGAACAGGGAGTGACTGACACCAAGGGTCCAGGCAACAGCCAGAAATGAAAGGCACATTCTTGGGCTCATAATGGTCAGATAGTGGAGGGGCTTACATAGGGCCACATATCTGTCAAAGGCCATGGCTATGAGCAGCACCATCTCCACACCACCAACGACGTGGATGAAGAAGATTTGAGCGATGCAGCCTCCAAAGGAGATGACTTTGCGCTTTCTGAACAGGTCATAAATCATCTTGGGAGAAGTGACAGAGCAGGCTCCTAAGTCAATGAAGGAGAGACTGGCCAGTAGAAAGTACATGGGGGAGTGTAAGTGAGGGTCAGTGGTCACAGAAAACACAATGAGGATGTTTCCAGTAATGCTTGCCACATAGAGCACAGAGGAAAACACTAGGAGGAGGAGCTGGATCTCCCATGAATGAGTGAGTCCCAGAAACAAAAACTCAGATACCACTGAGTGATTCTCTCCATCCATTGGTCCAGCCAACTGGGCT
>Tr4
CACGGGACAGGCTTTATTATTTATTTTTCAGCATGAAAGACCAAACGTATCGAGAGCTGGGCTGGGCTGGGCTGGTGTGGCTGCTGAAGCCCCACAGCTGTGGGCTGCTGAAGTCAGCTCCGCGGGGGAGCTGACCCTGACGTCAGCAGACCGAGACCAGTCCCAGTTCCAGGGGGAGGCCTGCAGGCCCCTGGCCCCTTCCACCACCTCTGCCCTCCGTCTGCAGACCTCGTCCATCTGCACCAGGCTCTGCCTTCACTCCCCCAAGTCTTTGAAAATTTGTTCCTTTCCTTTGAAGTCACATTTTCTTTTAAAATTTTTTGTTTTGCATCCGAAACCGAAAGAAATAAAGCGGTGGGAGGCAGGGCCATTGTGTTGAGTGGTGGCTCCTGGAGATTTGTGTGGCCCCACCCCTACCCCCGGCAACCTCAACACAGAGGCTGGGAAGGGTCGGGGGCCCCTGGAAGTAGAGCCAAGGTCCCATTCTCCTGCTTGGGTGAAGTTTGACCGGCAAGGGCGTGGCCCCCTCCATAGGGGGACGTGGCCGTCGTGGGGGACAAGGGCTGCTCTCCTGTGCCGAGTTCTCGCTCCGGGGCCCGCAGGGTTGGTGGCTGCAGTGGCAGAGCCACGGGGAAGCTGGCCACGTAGAAAACTCGGCCCAGGCGCCTGGCCACCTGGGCCCGGATCTTGAGGGCGGGCCCCAGCTTCAGCCCCATGTTGGTCAGCAGGTGCTCCTCCGTCAGCAGTGGCAGGGTCTCCCCGTCGATCCCCTGCTCCCTGAAGACCCGAGTGTACTCTCCACAGCCAGACAGGCCCCCCACGAAGCTGCAGACGTCATCCACGGTCCACTTGGTGACGTCCTCAGGGGCTGGGGCCTCCTCCCCATCCATGGAGAGTCCCCCTACCGCGCCTGTGTGGAAGTAGGGGCTGACGGCATAAGGGAAGCCCAGGGGCAGTGTGGACCCTGGGAAAAGCCCCTTCCCCTCGGCGCCGGCCCCTCCAGCTGGAGCTTGGCCCGGAGTGGGCCCCCTGCACCCAACAGCTGCCGTCTCGGGGTCCTCTCCGTCCGAGTCTTTGGGGGGCTCGTCTTCCGAGCCATCTTGTGCCCAGAGCCTAGCCCCCGTCATCTCCTTGGACTCGCTGGGCCGCGCTGAGGCAGGGCCGGGACCCCCCTTCCGGGGGGCTCGCCGGGCAGAGTCCCGGGACGGGGTGGGGGGTCCGGAGCCCGGGGGCCCCTGGGGGGGCAGGGCCAGCAGTGGCGCCGCGCCGTGGTTCAGCACCAGCAGGGCCCCGCGCCGCTGCAGCTCCTCGGCGCCGTCGTTGGGGCGCAGGGCGGTCTCGGGCGCCAGCAGCTGTGGGCGCGCGCTCTCCAGCTCCTTCTGCCGCAGGAGGTCGGCGGGCAGCTCCAGCCGGGCCAGGTTCTGCTTCCGCAGGAGCTCCTGCTGCCAGGCGAACATCTCCGCCTGCGCGGGGGGCAGGAAGCCGTAGCC
>del Tr1
CGGAGTCTCCCAAGTCCCCGCCGGGCGGGCGCGCGCCAGTGGACGCGGGTGCACGACTGACGCGGCCCGGGCGGCGGGGCGGGGGCTTGGGACCCCCGAGAGGGGCGGGGACTCCGCGACTCCTCGCTGCACTCCAGACGCCCCGGGGAGCCCCGAGGCCCTGGAACTGCGGCGCTCGGCGAGTCGATCCGGGATCGATAGCAGCTCCATGTCTCCGGCCTCTGAGGCCCCGCCGGCCGGCTGGGCAGTCCGGGGAGGCCTGGCGGGCGGCGCGTAGGCGGCGGCTGCGGGCGCCGGGGCGCACTAGCGGACGGCGTGGG