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bgrueningbgruening
authored
Merge pull request #2693 from dfornika/tetyper
Add TETyper
2 parents 867e4a6 + ba18ee6 commit ee0a9ac

9 files changed

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‎tools/tetyper/.shed.yml‎

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categories:
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- Sequence Analysis
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description: 'Type a specific transposable element (TE) of interest from paired-end sequencing data.'
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long_description: |
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TETyper is designed for typing a specific transposable element (TE) of interest from paired-end sequencing data. It determines single nucleotide variants (SNVs) and deletions within the TE, as well as flanking sequences surrounding the TE.
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name: tetyper
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owner: iuc
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remote_repository_url: https://github.com/galaxyproject/tools-iuc/tree/master/tools/tetyper
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homepage_url: https://github.com/aesheppard/TETyper
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type: unrestricted

‎tools/tetyper/test-data/ERR1911133_Tn4401b-1_mapped_subsampled_1.fastq‎

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‎tools/tetyper/test-data/ERR1911133_Tn4401b-1_mapped_subsampled_2.fastq‎

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‎tools/tetyper/test-data/Tn4401b-1.fasta‎

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>Tn4401b-1
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GGGGTTCTAAGCGGGAATCCCAGAAAATTCCGTCATTCCGTATGATGAAAATTCAGTCGA
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CTCCTCGCTTGACGTGACGAGCGCCAAAAGCCTGCCGCATCTGCCTGGCGCGCTCGAGCT
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CATCGCCATGCAAATACATCGACGTCGTGGCGATCGACGCATGGCGTAGGTTGTCGCGCA
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CCGCGGTGAGCTGAGCTCCCCGGGCCAACGCATGGCTGGCATGACTGTGACGCATCCAAT
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GAGGCGTGGCACGGCGCAGCTTTTCGGCGGCGACCGGATGATCGGCCTCAATGGCCTCAG
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CGGCTTGCGTAAAGAATCTTCGCAACACGCACCAAAGGTGAGGGCCGGTGATGCCGGCAT
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TACCGTCTTCCCCAAGACTGCCCACCAGGGGCGTTTTCGGATTCCACCGTTCCCGGCTGA
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CTGGCAGTTGACGCTGTGCCAAGTATTGGTCCAGCGCCGTATACGCGAGCGGCGGCAAGG
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CCACCTTACCTGGTTTGCCACCTTTGCCAACCAAATGCAGCCAGTGGTCACCGTGCTCGT
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CGAGGCGGACATTACCCAGGACGGCGCCGACCAGTTCGCTAGCGCGCAGGCCCGTGGCAT
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AGCCGAAGTCGAGCATGAAGCGCAGGCGTTGTGCTGCCGGCTCGGACCAGCCGTAGGACC
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ATTCCAGGCCGTCTGCAATGGCGCGCAGCAGTAGCCATTCTCCCTCGGTAAAGCCTCGCG
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CCGTATCCAGTGCGGGCCGCAAGGCGTGACCGCGTACCTTGACGCCGGCGAAAGGGTTGG
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CCAGCACATAGCGCTGCTCGATGAGCCACCGGAACAGCGCCGAGAGCACCGTCAGCGCAT
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ACGCTGCCGAGCGTGCGGACAAGCCGCCCGAGAAGGGGCGCCATTCCACCGAATCGCGTG
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GTCGAGGTGGCCCCACCCAACGCTCGCGCGGGGTCGGGTGCCGGACAAAGGCCCGGTACG
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CGATTGCATCGTCCGTGGTCAGGGATGATAGCGCCCGTCCGCGTTCGACGATGGCCCACA
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GGATTAGCCGCGCAGCCTCCTTGCGATAGGCGCGCTGTGTGGCGACAGTCTCGTGCAGCG
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CCAGCCAGGCCTGCACGGCCTCGTAGTCGTTGGTCGCATTCAGCGTGCAAGCGTTGCGCG
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GGGCCCGGAAATTGCCCTGCGAGCCGTCGACTTCGTTCGGCAGACGCAACTGCTCCCACG
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GCACGATGCCGCTGGGCTGAATAATCGGGATCAGGGCCCGGGCGCGCTCGGTGAGCTGCG
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GATGTGCGGCAAAGAAAGCCTCGACCTGCCGGGCGCCTGTCATGCCGAGTCCCTCGATGG
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CTTTCCACCAGCCACGCCGGCGGGGAATGCGCACGGTCAGCGCCGAGAGGGTGTGGATAC
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CGTACGCCTGCAGTGCCCTGACGGTCCTCGGAGACAGCCACTGGTCGATGCTGTCGCTGA
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TCTGGGGCTTCGGCGCCGGCAGCGTGGGCAAGAGCCGGATCGCGCGTTCGACGGCACCCG
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CGCGCCCCTGTCGCTCTTCGGGGGCGTGCTGGAACACGTCGGCCAGATCCGGCCGGTGGC
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GGCTGTTGGCGAAAACGATGAGCTGGCGGCGGATATGCCCCAGCATCCCTCGCGCTGATT
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GACCGGCGGCCTTGCGTGCCGCCAGGTAGTGTTCAACGGCCGCGCGAGAGCTGAGTCCCG
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CGTACCAGCCGCGCAAGGCAGCCAGCGAATCCGCATCGGGAAAGCCGACTGGGGTAGAAC
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TCGAAGCCGTAGTCTGGCCCGTTTTCATATGGACAGGTTGCGATTCGAAAAGCGAGTAAC
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GCGATAATAACGATTATTTCAGTAGAATCGAAAATGCCCCATGTTTCTACGAAACCTCAA
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GATAGCAAGAACGGGCCATGAGCAAGAAGAACAAGCTACTCAGCGTCCTATCCGACGCCG
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AACAGGAGGCCTTGTATGGCCTGCCGGAGTTCGATGATGCGCAGCAGCTGGAATATCTGG
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CTGTGACAGAAACCGAGTTGGCGCTTGCCAACAGCCGGCCCAGTCTTCATGCCAAGGTCT
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ATTGCCTCTTGCAGATCGGCTACTTCAAGGCCAAGCATGCCTTCTTCAGTTTCGACTGGG
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ACGAAGTCGAGGACGATTGCGCTTTCGTGCTGAGCCGCTATTTCCACGGCGAGGTGTTCG
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AACCCAAGGCGATCACCAAGCATGAACGCTACACCCAGCGCGAGCAGATCGCCAAACTAT
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TCGGCTACTGGCCGTGGTCGGCCGCCTTCCTGCCGCAGCTCGAGCAGCAGGCCGCACGGA
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CCGTGCGGCGTGACGTAACGCCGGGGTTCGTCGCCGCCGAGCTGATCGTCTGGCTCAATG
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AGCACAAGATTATCCGGCCCGGCTATACGACCTTGCAAGAGTTGGTCAGCGAAACGCTAT
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CCGCCGAGCGCCGGCGCCTGGGCAATCTGCTGGAGCAAGCGTTGGACGAATCTGCCAAGG
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CCGCGCTGAGCCAGCTTCTGGTCCGTGATGACACCCTGTCGCAACTGGCGGCGCTCAAGC
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AGGACGCCAAGAATTTCGGCTGGCGCCAGATGGTCCGCGAGCGCGAAAAGCGCGCCACGC
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TGGAGCCGCTGCACGCAATCGCCAAGACACTGCTGCCTAAACTCGACGTCTCGCAGCAGA
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ACCTGCTGTACTACGCGAGCCTGGCAAACTTCTACACCGTCCACGACCTGCGCAATCTGA
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AGGCCGATCAGACCCAACTCTACCTGCTGTGCTATGCCTGGGTACGCTACCGGCAGCTCT
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CCGACAACCTGGTCGATGCGATGGCGTACCACATGAAGCAGTTGGAGGACGAAAGCAGCG
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CTGGTGCCAAACAATCCTTTGCCGACGAGCAGGTGCGCCGTCAGCAGGAAACGCCGCGGG
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TAGGCCGCCTGCTGTCACTCTACGTTGATGATAGCGTGGCCGATCCCACGCCCTTCGGCG
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AGGTGCGGCAGCGCGCCTACAAGATCATGCCTCGCGATACGCTGCAAACCACGGCGCAGC
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GTATGAGCGTGAAGCCGGCGAGCAAGCTGGCCTTGCAGTGGCAGGCGGTGGACGGGCTGG
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CCGACCGCATGCGCCGCCATCTTCGTCCACTGTACGTTGCGCTCGACCTCTCCGGCTCCA
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ATCCAGACAGTCCATGGCTTGCCGCGCTGGCCTGGGCCAAAGGTGTTTTTGCCAAGCAGC
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AGCGGCTGTCGCAACGGCCACTCGACGAGTGGCCCGCGGCGACACTTCCGAAACGCTTGC
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GGCCGTACCTGCTGACCTTCGACGCCGACGGTAAACCAACCGGCCTGCACGCTGACCGCT
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ACGAGTTCTGGCTGTACCGCCAGATCAGGAAGCGTCTCCAATCGGGTGAACTCTACCTCG
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ACGACAGCCTGCAACACCGGCACTTCTCAGATGAACTGGTTGAGATGGACAGGAAGATCG
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ATGTGCTCGCAAAAATGGAGATCCCCTTCCTGCAGCAACCCGTCCATGCCCAACTCGATG
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CGCTGACTGCCGAACTGCGCACGCAGTGGCTGGCGTTCAACCGCGAGCTGAAACAGGGCA
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AGCTGACGCACCTCGAATACAACAAGGACACGCAGAAACTGACCTGGCGCAAGCCCAAGA
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GCGAGAATGAGAAAGCGCGCGAAAAGGCATTCTACGAGAAGCTTCCGTTCTGCGACGTGG
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CCGACGTGTTTCGCTTCGTCAACGACGAGTGCAAGTTTCTGTCGGCGTTCACGCCCATGC
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AGCCGCGCTACGCGAAGAAGGTCGCCGACGCTGACAGCCTGATGGCGGTCATCATCGCGC
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AAGCGATGAACCACGGCAACCACGTCATGGCGCGCACCAGCGACATCCCGTACCACGTGC
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TGGATAGCGGCTACCAGCAGTACCTGCGCCAGGCAACGCTGCACGCGGCCAACGACTGCA
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TCAGCAACGCCATCGCCACGCTACCGATCTTCCCATACTACTCGTTCGACCTCGAAACGC
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TGTACGGTGCCGTCGACGGGCAGAAATTCAGCGTCGAACGGCCGACCGTGAAGGCGCGCT
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ATTCGCGCAAGTACTTCGGGCGCGGCAAGGGCGTGGTCGCCTACACGCTGCTGTGCAACC
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ACATCCCGCTCAACGGCTACCTGATCGGCGCGCACGACTACGAGGCCCACCACGTGTTCG
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ACATCTGGTATCGCAACACGTCGGACATCATGCCGACCGCGATCACCGGCGACATGCACA
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GCGTCAACAAGGCCAACTTCGCCATCCTGCATTGGTTTGGCCGGCGGTTCGAGCCGCGCT
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TCACCGACCTCAACGCGCAATTGAAAGAACTCTACTGCGCTGACGATCCAGCACAGTATC
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AGGCGTGCCTGATTCGGCCAGTCGGGAAAATCGACTGCGATCTCATCCATCGCGAGAAGC
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CGAACATCGACCGGATCGTCGCCACACTCGGGCTGAAGGAAATGACGCAGGGCACGCTGA
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TCCGCAAGCTGTGCACCTACACCACGACGAACCCGACGCGGCGCGCGATCTTCGAGTTCG
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ACAAGCTCATCCGCAGCATCTACACGCTTCGCTACCTGCGCGATCCGCAACTGGAACGCA
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ACGTGCACCGCTCGCAAAATCGCCTCGAGTCCTACCATCAGCTACGCTCGGCCATTGCCC
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AGGTCGGCGGTAAGAAGGAACTGACCGGTCGCACCGACATTGAAATCGAGATCAGCAACC
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AGTGCGCACGGCTGATCGCCAACACGATCATTTTCTACAACTCGGCAATCTTGTCGCGGC
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TGGTGACCAAGTACGAGGCGGCCGGCAACAGCAAGGCGCTGGCACTCATCACAAAAATTT
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CGCCTGCGGCATGGCGGCACATCCTGCTCAACGGGCACTACACCTTTCAAAGCAGCGGCA
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AGACGATCGATCTCGATGCGATCGTCGCAGGCCTGGAACTGGAGTGACGGAATTTTCAGC
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GGTTCCGTGTTAGCAGCAGTGTAAAACTGACCCACCCCAGCGAAGTAAAACTGATCCACC
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TGGGCTAGTTTGGCGGCCTTTTCGAGGCCGTCGATGTTGACCCAGGAGCAAACCGTGGAA
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ATCAGAGTTCTTGCCCGACAGGGCCACTCCATCCGGCACATCGCCCGCACGTTGGGGGTC
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TCGCGCAATACCGTGCGCCGCTACCTCCGCGATCCGTCGGTAGCGCGATACCAGCCCCGT
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GAACCACGCCCCACCAAACTGGGGCCATTTGAATCTTATCTGCGGCAACGGGTCGAGCAG
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GCCCACCCCATCTGGCTGCCTGCCACCGTCCTGAATCGGGAAATCCGCGCTCAAGGGTAT
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GGCGGCGGTCTCTCGTTATTGCGCGCCTTCCTCGCCACGCTCAAGCCCGCCCGCCGCGAA
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GCAGGTCCGGCCGTCCGTTTCGAGACCGAGCCCGGACGGCAGTTGCAGGCTGATTTCGTG
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GTCTTGCGCCGGGCCAGATCCCCCATGTCGGCCTTCGTCGCCACGCTGGGATACAGCCGC
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ATGACGTTTGTCACCTTCGTACCGGACGAATCCTTCGAGTCCGTGCGGGACTCCCTGTTG
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CTGGCTTTTGACTATCTGGGCGGTGTGCCCCGCGAGGTGTTGTTCGACAACATGAAGACC
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GTGGTGCTGGAACGCGATGCCTACGGTGACGGCAAGCACCGTTTTCACCCCGGCTTGCTT
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CAACTGGCCGATGACCTGGGGTTCCGGATCCGGCTGTGTCGCCCGTATCGGGCCCAGACC
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AAAGGCAAGGTCGAGCGCTTCAATCGCTACTTCCGCGAGAGCTTCTACAACCCGTTGCTG
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ACCCGGATGAAGGGCACGGGGCTGCTGCTCGATTGTGCTGCTGCCAACCGACGCGTCCGT
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GACTGGTTGGCAGACGAGGCGAATGTGCGGGTCCACGCCACCCTGAACGAGCGCCCCATC
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GACCGTTGGCGGCAGGAGCGGGAACACCTGCAACCCTTGCCATCCCGTGTGCGGCGCGAC
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GAGGCCCCCCTGCTGGATAACAGTCTCCGCCCGGTACCACTGGAATCTCTCCAGCACCCA
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CTGTCTGTCTATGACGCAATTGGGGAGGCCTGCCGATGAACCTCCAGCATGAGCGGATCG
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ACGCCCTGTGCCAGCAACTCAAACTCGAACGGGTGGCAACGCATTACCCCGTCCTGGCGC
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AGCAGGCGGTGCGCGAGGACTTCAGCTTCACCGACTTCCTGGAACACCTGTTGCGGCATG
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AAGCGGGGTGTCGCCAGCAGCGCAGCCGCGAACTGCTGACGCGGATGGCTTGCTTCCCGG
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GCATCAAGACCCTGGAGGACTATGACTTCAGCTTCAACCCCGGCGTGCCCAAGGCACTGG
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TGCAGGAGCTGGGCAGTCTGGCGTTTGTCGAACGGGCCGAGAACGTGGTGCTGATCGGAC
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CCTCTGGCATCGGCAAGACCCACCTCGCCATCGCCTTGGGTTACAAGGCCGCGCAAGCCG
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GGGTCAAGACACGCTTCATCACGGCAGCCGACCTGATGCTGCAACTGAGCACGGCGCAGC
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GACAAGGGCGGCTGAAGGAATACTTCAACCGCGCCATCCTCGGTCCACGGCTGCTGGTGA
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TCGATGAGATCGGCTACCTGCCTTTCGGACGCGAGGAAGCGAACCTGTTCTTTCAGGTGG
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TGGCGAAGCGCTATGAGAAAGGGGCGATGATCCTGACCTCGAACCTGCCGTTCAGCCAGT
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GGGCCGACGCGTTTGCCGGCGATACCACCCTGACAGCCGCGATGCTGGATCGGCTGCTGC
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ACCATGCCCATATCCTGACCCTGAGCGGCGAAAGCTACCGCTTGAAGGACAAGAGGAAGG
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CGGGAGTGGTCAGGAAAAATTCCAAACCCGAATGATCCAGGTGGGTCAGTATTACTTTGG
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TGATTCAGGGGTAAAGTGGGTCAGTTTTCAGTTGGTGTTGACACCGGCGTACCCTCGGTG
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CTATCTTCGCGCCCCAATAGTCGGGGCTTGGCCAGGACTTCCTGAGGCCGTCCGTAACGT
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GGATGCCGAGGTCAGGCGAGGTGGCCGACCCATGAACGCCGACCTGATTCGTTTTTCAAT
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AGCGCTGGACGTTGTGGTGCCAGGGACTTACCAACCCGATGTGTGCCCATCCGGGGCAGT
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TACAGCCGTTACAGCCTCTGGAGAGGGAGCGGCTTGCCGCTCGGTGATAATCCCAGCTGT
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AGCGGCCTGATTACATCCGGCCGCTACACCTAGCTCCACCTTCAAACAAGGAATATCGTT
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GATGTCACTGTATCGCCGTCTAGTTCTGCTGTCTTGTCTCTCATGGCCGCTGGCTGGCTT
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TTCTGCCACCGCGCTGACCAACCTCGTCGCGGAACCATTCGCTAAACTCGAACAGGACTT
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TGGCGGCTCCATCGGTGTGTACGCGATGGATACCGGCTCAGGCGCAACTGTAAGTTACCG
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CGCTGAGGAGCGCTTCCCACTGTGCAGCTCATTCAAGGGCTTTCTTGCTGCCGCTGTGCT
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GGCTCGCAGCCAGCAGCAGGCCGGCTTGCTGGACACACCCATCCGTTACGGCAAAAATGC
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GCTGGTTCCGTGGTCACCCATCTCGGAAAAATATCTGACAACAGGCATGACGGTGGCGGA
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GCTGTCCGCGGCCGCCGTGCAATACAGTGATAACGCCGCCGCCAATTTGTTGCTGAAGGA
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GTTGGGCGGCCCGGCCGGGCTGACGGCCTTCATGCGCTCTATCGGCGATACCACGTTCCG
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TCTGGACCGCTGGGAGCTGGAGCTGAACTCCGCCATCCCAGGCGATGCGCGCGATACCTC
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ATCGCCGCGCGCCGTGACGGAAAGCTTACAAAAACTGACACTGGGCTCTGCACTGGCTGC
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GCCGCAGCGGCAGCAGTTTGTTGATTGGCTAAAGGGAAACACGACCGGCAACCACCGCAT
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CCGCGCGGCGGTGCCGGCAGACTGGGCAGTCGGAGACAAAACCGGAACCTGCGGAGTGTA
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TGGCACGGCAAATGACTATGCCGTCGTCTGGCCCACTGGGCGCGCACCTATTGTGTTGGC
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CGTCTACACCCGGGCGCCTAACAAGGATGACAAGCACAGCGAGGCCGTCATCGCCGCTGC
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GGCTAGACTCGCGCTCGAGGGATTGGGCGTCAACGGGCAGTAAGGCTCTGAAAATCATCT
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ATTGGCCCACCACCGCCGCCCTTGCGGGCGGCATGGATTACCAACCACTGTCACATTTAG
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GCTAGGAGTCTGCGCGGCAGAGCCGTGTGACCGGTTTTCTGTAGAGCACTGACGATGGCG
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GCGGCGCTCTCTGCAATTGGCAAGGCGTCGGCGCCAAGGATACCAATCTTGCGGCGCGCG
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GCGTGTTATGACGACTGGGGTGCATTTGAGCCGCCCCATTTAACCTTCGCCCTCACAGAT
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ACGCCATTCGCCTCAGATTTAGCGCCATGCAGACGAGCTTCCACTCGGCTTGCACCTTGT
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CCAGGCCCCTCATGCTGAACTGACGCAATCCCATCACCGCCTTGATCCAACCATTCGGAG
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CCTCCACGATCGACTTGCGCCGGCGGTAAGCTGCATCGCCTTGCTCCGTTTTCAATTTCG
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CCGCAATCGCCGCCGTATGCGGATGGGTCTTGGCATTGACCTTGGCATCTTCACGTCCCT
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CGCGGCCGAGGGCAACGATGACATCGCCGTGGTGATCGGCGACCTTTGCCAGAACAGCCT
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CACTACGGAATCCCGCATCCGCCAGCGTCTGGGCCGGCATTTCTCCGGTGTTGGCCTGAA
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CTGCTGCCAGCATGCCCAGCAGCGCCTGACTGTCCGCGGCGCAGTTGGTCAACTCCGCCG
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CCACGATGATCTGGTGCTCGGCATCGACCGCTGTGTACCCGTTGTAGCTCTGCTCGGAGC
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CACCACCGGCGTGTTTCATGATCCGGCTGTCCGGATCGGTGAAGCTTTCCTGATCACGGT
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CATCCGGCACACCAAACTCGCGTTTGTACGAGCCACCGCCCTTGTCCGAGCCATCCGGAT
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GGCGAGGCCGGCGGCCATCGTCTTCGCTGCGCCCCCGGGCCTGGTCCGCTTCACGCTGGC
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GCGCTTCCAGGCGCGCCTTTGCCGCCTGGATCGCCTCCAGGCGCTTCTCGCGGCGAGAAA
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TCTCGGCAGGAATGTCCAGCTCCGGCTCGTTACGCTCCTGGTCGTCGGTAGCCTTGGCGC
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GATCAAGCAGCGCCTTGATCTCGCAATGCAATTCGTCCTCGGCCGGCTTCATGCGCTTAT
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AGCTCATCGCCTTGTGGCGGCTGGCGTTGGCTTTTACCTTGGTGCCGTCGACCGCGATCG
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TGCCAAGCTTCACCAGCCCACATTCGCGCGCCAGTTGCACCACCTGAACGAACAAATTCT
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CAAGCTCGGTCAGGTGTAGGGCACGGAAGTCACTCAGCGTGCGGTGGGCCGGGAAGTTTC
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CAGCGGCCAGCACACGCAACGCGACATCCTCGTACAGCTTCCTGGCTAGTTTGCGCGAAG
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AGAAGACGCCGCTCGCGTAACCATAGATCAGCACTTTGACCATCATCGCCGGATGAAACG
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GCTGATTGCCCGGACCACCGCCGGCATACCGGGCGTGGAATGCGCTCAAGTCCAGCGTAT
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CGACAGTCTCGCTGATGAAGTAGGCAAGATGCCCTTCAGGTAGCCACTCTCCCAGAGAAG
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GGGGCAGCAGATAGGATTGGTCGGGTCGGTAAGGAAGGTAACTGGCAGCCATCCCCGTAT
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CGTCCTCGATCTTCCGCCGATTTGGCTTCTGCCGCGCAGGCTCCTAGGCCACCGTAGCTA
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AACATACGAGAAAAACCGCTTCTTGAGCGCTCTCTGAGACCACCTTGCCGACAACGCAGA
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AACGGTTGCGGAAAAATCGGCGTTTCCGGCGTACGCCACCCGACCTGGACGAACTATTGC
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GGACCTGGAACTGGAGTAGCGGAATTCCCCGGGGTTTCAGCGTCGCGCCACAGCGCCTCA
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GATAGATGCGGTAGCCTTTGGCGGGTCGTCATGCCGCGGACCACCCCCCCAAAAAATTCC
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ACAATGCGGAATGGCGGAATTTTCTGGGGTTCCCGCTTACCCCCCC

‎tools/tetyper/test-data/Tn4401b_snp_profiles.txt‎

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1 none none
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2 C8015T none
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3 C8015T|T9621C none
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4 T7199A|C8015T|T9621C none
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6 C7509G|T7917G none
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7 T6800C|C7509G|T7917G none
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8 T9663C none
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9 G8226A none
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10 A420G|C8015T none
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11 C9677T none
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12 A5178G none
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13 C8015T|T9663C none
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14 A6243G|G8293A none
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15 A4390G|C8015T none
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16 C7137G none
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N2 none C8015Y
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N4 none A5178R
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N5 none C8015Y|T9663Y
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N6 none T9663Y
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N8 none G7637K
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N9 none C7147Y
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N10 none G7637K|T9663Y
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N11 none C1338Y

‎tools/tetyper/test-data/Tn4401b_struct_profiles.txt‎

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Tn4401b none
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Tn4401a 7020-7118
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Tn4401h 6919-7106
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Tn4401d 7008-7075
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Tn4401e 6920-7174
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Tn4401_UA 7075-7153
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Tn4401_truncA 1-6654
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Tn4401_truncB 1-6727
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Tn4401_truncC 1-7127|9198-10006
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Tn4401_truncD 9985-10006
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Tn4401_truncE 9299-10006

‎tools/tetyper/test-data/output_summary_1.txt‎

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Deletions Structural_variant SNPs_homozygous SNPs_heterozygous Heterozygous_SNP_counts SNP_variant Combined_variant Left_flanks Right_flanks Left_flank_counts Right_flank_counts
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7020-7118 unknown none none none unknown unknown-unknown TAAAT TAAAT 17 13

‎tools/tetyper/test-data/output_summary_2.txt‎

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Deletions Structural_variant SNPs_homozygous SNPs_heterozygous Heterozygous_SNP_counts SNP_variant Combined_variant Left_flanks Right_flanks Left_flank_counts Right_flank_counts
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7020-7118 Tn4401a none none none 1 Tn4401a-1 TAAAT TAAAT 17 13

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