diff options
author | Justin Bedo <cu@cua0.org> | 2019-04-07 21:10:00 +1000 |
---|---|---|
committer | Justin Bedo <cu@cua0.org> | 2019-04-07 21:10:00 +1000 |
commit | e97bc0b22b9f49d95d6b449b2b20e7222b42622d (patch) | |
tree | 36b05f35f29ec5bbabd981fd83a69964fa285174 /examples | |
parent | 761d47937eeb6787ff807c34be7a3623a4bde0e9 (diff) |
Update example data and expand tests
Diffstat (limited to 'examples')
-rw-r--r-- | examples/ref.fa | 80305 | ||||
-rw-r--r-- | examples/sample1-1.fq | 41998 | ||||
-rw-r--r-- | examples/sample1-2.fq | 42000 | ||||
-rw-r--r-- | examples/sample2-1.fq | 42000 | ||||
-rw-r--r-- | examples/sample2-2.fq | 42000 |
5 files changed, 156000 insertions, 92303 deletions
diff --git a/examples/ref.fa b/examples/ref.fa index fdc51e6..47a130e 100644 --- a/examples/ref.fa +++ b/examples/ref.fa @@ -1,4 +1,4 @@ ->SL1344 genome sequence +>SL1344 subset genome sequence agagattacgtctggttgcaagagatcatgacagggggaattggttgaaaataaatatat cgccagcagcacatgaacaagtttcggaatgtgatcaatttaaaaatttattgacttagg cgggcagatactttaaccaatataggaatacaagacagacaaataaaaatgacagagtac @@ -997,80306 +997,3 @@ tcaggaaatcacttcaccagagatcgatgctgaacataaacagattgtcagctattggcg cggcggttgctgcagccatggcgtcaatgtgtatcgctggaaaggaaaaacgattgaact gatcgatcgcggtgaaagctactttcagcctgtgatcagtaaaggcaaaatgtataactg ctacatgacaccttcctacgctgatgggcgtattatttatccgctagtacgtaaaaatgg -tcatttgacgccgcctcttagccttgatgggacgtgtcaatctttttggctaaccggtaa -tgttcgtaccgtgattcaggcagaaaaacccggcgctgagcccgaatcgcttgagattca -gtggcaggaaaacaaagcatcgccagggcgtttttgcccattagttccgtttgtcgaagg -tgataagctaagtccgcgtctggtgacggatgacgatgtgcctgatgcctgtatcagtcg -cgctgagtatgaagatataaaacaataggtcaggagagcattaatgacagcatccctaca -cattattcttgataccgatccgggcattgatgacgcggctgcgattgccgctgcgctgtt -cgccccccagcttgatctgcaactaataaccaccgtcgcaggtaatgtttccgttgaaaa -aacgacccgtaatgcgttgcagcttctgcatttctggaacagcgatatcccacttgccca -gggggccgcgacaccgctgctgcgtccgttacgcgatgcggcatacgtccacggcgaatc -cggtatggaaggctatgattttgtcgaccatcagcgccaaccgttggcgaagcctgcgtt -tatcgctatccgggatgtgctgatgaacgccccggagcccatgacattagtggcgattgg -gccattgaccaatattgcgttgctactgatgcactatccggagtgtgcgtgtaacattcg -ccgtctggtgttgatgggcggttccgcagggcgcggcaattttacgcctaatgctgaatt -taacattgctgtcgatccggaggccgcggcgctggtgttccgcagcggtctggagattgt -gatgtgtgggctggacgttacaaatcaggcaatgctctcgccagattttctgaataaact -gcccgcgctgaatcgcaccggtaagatgttgcacagcctgttcaaccattatcgcagcgg -tagtatgcgcactggcgtccggatgcacgatctctgcgctatcgcctggctggtgcgtcc -ggagctttttaccctgcaatcctgttttgtggccgtagaaacgcaggggcaatataccgc -cggtaccacggtggtggatattgaagggcgtctggggcagcccgccaacgcgcaggtggc -gctggcgctggatgtggacggttttcgtcagtgggtggctgaggtgtttgcctatgcgcc -gtaattacatgttggcgccataatctcatactttgccgcgatagagtctctccggcctgc -ccactttcccgtagctgatctccgcttcgagaaagttatttttcacgccttgttccagat -agcgtcgggcagtggttttactgctgcccagaatttgcgccagagtgtctgctgtatgta -ctgcctgcgggtcggcgaatatttgtcgtacccggttgaaggtgttttcatcaattcccc -gcagtccgctattcggttctgcggtttgttctttggcctggatattaaataaggcatcaa -cgtgcgtctggtttgcctgctcactggaacgtaacgaactgcggtaacgggtgaaccgct -ccagggtatgctgcaggcgctgataatgtaccggcttaatcaggtaatcgaatacgccca -tgcgtaaggcatcgctgatggtatccatatgattgtcggcggtaatgaaaataattcgcc -ccgtgtagttggtgctgatggtatgacgaattaaatcgatccctttgccatcgggtaaaa -aattatccaatagaattaactgtggttgatagaggcgtatttgcttcttcgcactttcca -gtttgtctgcgatgccgacgattgaaaactggggaaaaatcttgatggtgtccaccagga -tttccgctagcatcggttcgtcttcaacgatgagtgtcgtaatgctatccatgttattct -tctctggtaaaagggatatagagggtaaaaatggtgccaaaaggattattgttatcgacg -ataatgtcaccattggcctgcttgacgtagctgtgcaccaaccataatccaattccgtga -tcgccgttgttgtgggtggtcactccacgctcgaaaatatgctggcggatattttcgtca -ataccacatccctgatcggcaacttcaataatgacttcattaccttcgctgttgatcagg -cactcaatctgtcgcgagccttcgcgattgagcagggtggcgttataggcgttgtccaat -aaattgccaacaatcgaaatccattcattatgcgagagcgatgacggcaggtgttcaaca -aagcttgaaggatcgaaaatcagctccagccccagctcttttgcccgataatatttaccg -attaatagccccgcaaggtggtggtcgcggaaattatgggaaataaaatcgagtactttc -tggtggctttccgactgctgctgaatcagcgccagcgcattatcgtagcgcttcaggaac -agcagtccggcaatggtggaaataaggttgcgatgctcatgctgcacggcgcgcaggtta -tcggcgtattgccgcacctgacttaactgcaggctgagtgtattgatatcgtctttgttg -cgaaagctaataacccagccctgaggctggttgtcaataatgaccgccatgcgactggcg -atgactttcatttggttaaaggtgacgatctcatcttttttgtttttttgcggcgcatcg -taaaagaaggcctccggcaacacgacatggtggattgcatagccaatgagttcagactcc -ggttggctcagattcagtaagcggcgagccgtttggttaatggcggtaatacggtgatgg -gagtcaatggcgatcaacccttcaaataccgactcaaataacacgctttgctgaattaat -agttgtgaaagctgctgcggctccatgttaagcatctgctttttaatatgcagcgagaag -cggcgggcacagtacaacagtaccagcagcagtaacgccatcgggaacagcaacgagctg -atttgtaagttaagccagctctccaactgttccagagtatagccgacggaaacaataccg -atgactttaccggtactgtcctgaatcggggatttaccacgtagggaagagcctaatgaa -cctttgcgcaccgatacgtagcttttagcgttatacagcgcgtcgtcgctatcgccgccc -tccatatatttgccgatctcatccgggttgacgtgatacagtcgctgacctttttcgttg -ccaacggtaatgtaagtcgcatccgaaaacgagcgcattgggtcaatcaacgctttgatg -cgtgacaaatcatgcgcttctacggcttcaactaattctggcatagcggatatttgcatt -gcctgaataagcacacgttggcccacctgataatgcaggcgttctttcgtgatatcggtc -agataccaggtgattgccagcatcacgatggtggatgtaaacaggatcagtagaaatatc -cggttttgaaacgagtgtctggcaaaccagcgtgtaatttcccgtataaacatattggta -tttaaatatttaattacggtattttcttgcattcggcatcaccggaacctgaaccagttc -atacttacttttctttcagaaaaaatttggatgaaaatgggatacgacatgcgtatccca -tccactattacatcgccagcacgtatttcagcatcacgcccgcggcaatggccgagccaa -tcacccccgccacgttcgggcccatcgcgtgcatcagcaggaagttctgcgggtctgatt -ccagccccactttgttcgatacgcgggccgccatcggcaccgccgagacccccgccgaac -cgataagcgggttgattttgttcttactgcacaggttcagcagcttcgccatcagcaccc -cggccgccgtcccgataccaaacgcaatcacccccagcagcagaatgcccagcgtctgcg -gttgcaggaacttatccgccaccagcttcgcgcccaccgacagcccgaggaaaatggtga -cgatattaatcagcccgttctgtaccgtgtcgctcagacgctccaccacgccgctttcgc -gcatcaggttgccaaaacagaacatccccagcagcggcgccgcgtccggcagcagcaggg -ccaccagcatgagcagcaccaccgggaagaggattttttcccgcttactcaccgtgcgca -gctgcaccatgcggattttccgctccgtctcgctggtcagcgccttcataatcggcggct -ggattaacggcaccagcgccatatacgagtacgccgccaccgcgatggcccccagcagct -ccggcgccagcttgcccgacaggtaaatcgccgtcgggccgtccgcgccgccgataatgc -cgatggccgccgcctgcggcagggtgaagctgataaggccgaagtagttcagcgtcagcg -ccccgagcaccgtggcgaagataccgaactgcgccgccgcccccagcagcagggtgcgcg -ggttggccagcagcgggccgaagtcggtcatcgcgccgacgcccatgaagatgaccagcg -gcgcgacaccggaaccaatcgccactttgtagaacagcgccagtacgccaggcgtgtagc -ccatgtccaccgccaggttctccatctggccctgcaccgacggtagcgccagcgctaacg -cctctttaatggcatgcacgtccggcgcgcagttcagcttcgcggcaatcaccgccagtt -gcccggcgtcgtggtgcgccagcaggctttccagcgcggtcagcgccatacccgcttccg -ggatgttggagagcagcccgccgaagccaattggcagcagcagtaacggctcgaacttct -tcgcaatcgccagccacagcagcagcaggctcaccagcagcatgatggcctggcctgcgc -caaggtgcatcagccccatgccctgaagcagggcgttcagactttccatttcagttctcc -gttacgccagcgtcatcagggtgtcgccgacggagaccgcgtccccggacttcaccgcga -taccgcgtaccgtcccggcctgcgcggcgcggatttcggtttccatcttcatggcttcca -gaatcagcagcacgtcgccttcggccaccgtctggccctcggtggcaatcaccttccaga -tattccccgccagcggcgcggtgaccggggtgccggcgcctgccggggcggcagcctgaa -ccggtgcggaagaggccgccggaacagccgcagtgagctggctgatatcgccgccgtcgc -tgaccttcaccacaaaggctttgccttccacttccacggtgtagataccggaggcggcag -gcttctctgcttttgccaccggctgcgcggcttccgcctgcggcagtggctcaaacgccg -ccgggttattgcggttctcaaggaatttgaggccgatttgcgggaacagcgccacggtga -gcacgtcgtcgatggcgtttcccgccagagtaatccccttctcctgcgcctggcgcctga -cgtccgcttccagttcagccagttccggtttgagtaaatccgccggacggcaggtcaccg -gggcgcccccttccagcacgcgggcctgtaacgcggcgttcaccggcaccggggtgtggc -cgtattcgcctttcagaatgcccgccgtttctttggcaatggttttgtagcgctcgccgg -tcaggacgttgagcaccgcctgggtgccgacaatctgcgaggttggggtcaccagcggga -taaagccgaggtcctcgcgcacgcgggggatttccgccagcacctggtcgagtttgtccg -ccgcgttctgctgcttcagctggctttcgaggttggtgagcattccgcccggtacctggg -ccaccagaatacggctgtcgtagcccttcagctggccttcaaaggcgtgatactttttgc -gcacctcgcggaagtacgcggcgatattttccagcttcaggatatccagcccggtgtcgt -gttccgtgccggcaagcgttgccaccagcgcttcggtggccgggtggccgtaggtggcgc -tcatggaggaaatcgccgtgtccacgccgtcgacgcccgcctcgatagccttcagcaggg -ccatctccgccatcccggtggtggcgtgacagtgcaggtgcaggcgcacctcaaaacgtt -ttttgatttcgctgaccagctcatacgccgccatcggtgtgagaatgccggacatatcct -tgatggcaatcgagtcaacgccggtttccagcagttgctccgttaaatccagccaggtct -gcagggtgtgcgccgggctggtggtgtaactcagggtcccctgggcgtgcgcgccgtggc -tgcgcaccgcctgtaatgcggctttcatattgcgcgggtcgttcatggcatcgaagacgc -ggaacacatccatgccgtttttcaccgcgcgttcgacgaagcgctccaccacgtcatcgg -cgtagtggcggtagccgagcaggttctggccgcgcagcaacatctgcagcggggttttgg -gcatggcttttttgagttcgcgcaggcgcagccacgggtcttcgccgagaaagcggatac -aggcgtcaaaggtggcgccgccccagcactccagcgacccgtagcccacgtcatcgagcg -cggcggcaatcggcagcatgtcatcaaggcgcaggcgggtggcgaacagagactggtggg -cgtcacgcaggacgacgtcggtaatggcaatggtcatggatccctccgggaaattaaacg -tggtggcggtgatggtgaatggcggcggcaatcaccggctttaagcgggtgaagtcgtcc -acgacgggaacggcgcgcggtgcgggcgcggcgacgggttccgggaagaagcgagtaatc -acggcagacatgccgcgaatggcaaagatgagcaggaacagaaagctcagtacgaacccc -atccctaaaaacatcagggtgaaaccttcacccagtagtacagcttcgttcatgaatcat -tttccataatgagaggcacgacggtggccttgacgacaaccttcctggtgaatccggcta -aggagtagagtggatttcccttggccacctctggctttggcctctacttttctccaggtc -gtttgctgccaagacaccgccgtgcgtttttttacaccatcatgctgaacacgatgctag -cgataaccagcacaataccgccgcccagacgagaggaaatttgtgcatatgaaatgaggt -tcatacggttacaggcggagagcacttccagatcgccggagccgccgcggttggccatac -aaagacccgcagtaatggatgattcaatcgggtagaagccaatcaaccagcccccgatag -ctgcgccaacgactgcgccgaccacaatgattgcggcgataactacgttcgcgaacgtca -gggcatcgatgatctcttgcagatcggtgtagcaaacacccacacctaccatcagcaccc -acagtagctgtttggagaagaagtcagaaagacgtttcgccccggctttaatctccggtg -agcaaagacctgatgcgttcagcgcagcaacaatcaggaccatccaggcgaagtagtgaa -tagagacgccgccgatgcttggcagaattttcttggcaacaacataggccagcaggaagc -aggtggtggatagcaccatgccaaccgccgtttcacgatgggtaatctgaccggcctttt -catcatcttcggttttgaaggaagccttacgaaccaactcgccttcaccgctaagccagg -tgtattttttgcctatcatatcgaggagggcggcgaaaataatggcgaagatattcgcaa -tggtcagaatagcaatagccgttgagtaatactcttcgcgagaacgtccggtaaccgagt -gataaatttcagacagaggcacggcgcccgcgccgttaccaccgcccataatcggcagaa -cgtacagcatcatgatacggtcgaccgggataccgaagcacagaccaatgacgataccga -aaagggacgcgccgacaatcccggcgaggatggttgggatatagcccagcagtgatttta -atagcagcttacggtttaccgacaggatcgcgcctgtgatcaacactgcgataaacaggt -taaggaagttgcttttatccattacgttgctgatcgcatcaatttctttctgcgtaaata -tgccagcatagacaaaataagctgcaaccagaaatatcataaccggtgcgccgccaatat -atttattgaagatcggtaaacgtttgccgatttcaccaaaaatggcccccatcacaaaca -taagggcaaaaccacctactaagtcagtcggtatagcattataaaaatgagaaagtaata -aagtaattaatgcaaaggcataaagcggtagcggcataccaaagattttgaatctgagta -aatcgctagccccctttttctccgtcgccgaagcctgggtcatgttggtcataaacattt -tcctgtgtattgatgggtaacaagacccgcgcatactaataaattcaatgaaccatgaga -tgtgactatcttcactgaatggttgtgtttttaattaatttaattatttttattaactct -ggttaattaaggaaataaaaaccataaagcttataaaagcaagggggaaagtgtgatgtc -tattccagacgagtaatacaaacgctggcgaaatatgcgacgttatttgctgacggatgc -agaatagagtgaatctaatatttaaacgcatttatttgcaaaaggatgtattgcgtcgcg -agtcggtcgccatgtttctggagggcgtgggactcgccctggaagacgattgtgaaatcg -cggtatgcgcatattggcagggtgagatagtcgggtgcggttctctggccgggagcgtac -tgaaatgcatcgccgtttccccggttttacaaggggaagggctcagcctcaaactgctga -ccgagctgcttacattggcctacgagttaaaccgcagcgagcttttcctgttcactaagc -cgcaaaatcggttgctgttttctggcgcggggttttggcccattgcgcaggcaggtgagc -tggcggtgttaatggagaacagcagtgaacggttagcgcgcttttgtcgccaactggcgc -tttatcgtcaaccgggaaaaacgatcggcgccatcgtcatgaacgccaatccgtttacat -tgggccaccgttatctggtggagcaagcggctgcggcctgtgactggttgcatctgtttg -tagtcaaagaagatgcttcatttttttcctataccgaccgttgggcgctgatcgaacaag -gaatcgcgggcattgacaacgtcacgttgcattccggctccgcttatatgatctcgcgtg -cgacgtttcccggctatttcctcaaagaaaaaggggttgtggacgactgccattgccaga -tcgatctgcaactcttccgtgaacatctggctccagcgctggggattattacccatcgtt -ttgtcggcagtgaaccgttttgtcctctgacctgtgcctataaccagcgaatgcacgaca -ttttgcacgatccgaagcgtagcggcccggttattgaggtcgtcgagctggcgcgggtgg -agaaaaacggcgcggctatttccgcctctcgcgtcagaaaactgtatagcgaacgtaatt -ggtcggcaataagcgcgctggtgcctgctggcaccctggcatatctgcagcggcatgccg -ccagacacactgaaaccatatgacgtaacaccgttaacaaggaacataactaatgaaaat -cattaaagatgccctggcaggcacgctggaatccagcgatgtgatgatcaggattggtcc -atccagcgagccaggaattcggctggagctagagagtctggtgaagcagcagtttggcgc -ggcgattgagcaggtggtgcgcgaaacgctggcgaagctgggcgttgaacgcgcgctggt -tagcgtcgatgacaaaggcgcgctggagtgcattttacgcgcccgagtgcaggcggcggc -gttacgcgctgcagaacaaacggaaattcaatggagtgcgttatgagaccacgtcgcagt -atgttgtttatccccggcgcaaatgcggccatgttgagcacctcgtttgtctacggtgcg -gacgcggtgatattcgacttagaagacgccgtagcgttacgtgagaaagataccgcccgt -cttttagtccatcacgcgcttcaacatccgttctatcaggatgttgaaaaagtggtgcgc -attaatccactgaacacgccgtttggtctggccgatcttgaagccgtcgtgcgtggtggc -gcggatatcgtgcgtctgccgaaaaccgacagcaaaaacgatgtgctggagctggaagcg -caggtcgaacggatcgaacgtgaatgtggacgcgaggtcggcagtaccaggctgatggcg -gcgatcgaatcagcgaaaggcgtggtcaatgccgtcgacatcgccacctccagcccgcgc -atggtggcaattgcgctggcggcatttgattacgtgatggatatgggcaccagccggggc -gatggcaccgagctgttctacgcccgctgcgcagtgctgcatgcggcgcgcgttgcgggt -attgccgcctatgatgtcgtttggtcggatatcaataatgaagaaggcttcctgaaggaa -gtgcagttggcgaaagggcttggttttaacggtaagtccttagtgaacccacgtcagatt -gagctgttacatcaggcttattctccgacacgtaaagaagttgagcatgcgtatgaggtg -attgccgccgctgaagaggctgagtctcgcggtctgggcgtcgtttcactcaacggcaaa -atgattgacggcccgattatcgaccacgcgcgcaaagtggtggcgctgtcggcttccggt -attcgtgattaaggaaggaaccatgaaagagactgtaaccatgctcaaccagcaatatgt -cgtaccggaaggattacagccctaccagggggtaacagcgaacagcccgtggcttgccag -tgaaacggaaaagcgtcggcgtaaaatttgtgactcgcttgaagaggctatccgtcgttc -cgggcttaaaaatggcatgacgatatccttccaccatgcgtttcgtggtggcgacaaagt -cgtcaatatggtgatggcgaagctggcggaaatgggattccgcgatctgacgcttgcctc -cagctcattaattgatgcccactggccgcttatcgaacacattaaaaatggcgtggtgcg -gcagatttacacctccgggctgcgcggcaagttaggggaagagatctccgctggcctgat -ggaaaacccggtacagatccactctcacggcggccgcgtaaagctgattcagagcggtga -gctgaatattgatgtcgctttcctcggcgtgccgtgctgcgatgaatttggtaatgctaa -cggctttagcggcaagtcacgctgcggctctttggggtatgcgcaggttgatgcgcagta -cgctaaatgtgtggtgctcctgactgaagagtgggtcgaattccccaattatccggccag -tatcgcgcaggatcaggttgatttgatcgtacaggtggacgaagtaggggatccggaaaa -aatcaccgcgggtgcgattcgtctgtccagcaacccgcgtgaactgttgatcgcccggca -ggcggccaatgtgatcgaacactcaggttatttttgtgatggtttctcgctgcaaaccgg 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