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first implementation but far to be optimal

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Eric Coissac
2026-04-16 22:38:20 +02:00
commit de3f9b16cf
19336 changed files with 380276 additions and 0 deletions
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test.sk.fasta
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>F1FE4776BF3E1F06 {"seq_length":51,"kmer_size":31,"minimizer_size":11,"partition":229,"minimizer":"AAAAAAAATTA"}
GAGTATACTCATGTGAGGGTAAAAAAAATTAAGTCCCATATTGAAACATTA
>C14BF81526DD6CB7 {"seq_length":31,"kmer_size":31,"minimizer_size":11,"partition":84,"minimizer":"AAAAAAATTAA"}
AAAAAAATTAAGTCCCATATTGAAACATTAT
>9156D79605E4AC23 {"seq_length":31,"kmer_size":31,"minimizer_size":11,"partition":87,"minimizer":"AAAAAATTAAG"}
AAAAAATTAAGTCCCATATTGAAACATTATC
>74666D1D78812D1E {"seq_length":31,"kmer_size":31,"minimizer_size":11,"partition":118,"minimizer":"AAAAATTAAGT"}
AAAAATTAAGTCCCATATTGAAACATTATCA
>45EEFC3520FBDA9A {"seq_length":31,"kmer_size":31,"minimizer_size":11,"partition":32,"minimizer":"AAAATTAAGTC"}
AAAATTAAGTCCCATATTGAAACATTATCAC
>5F44864B90170AF4 {"seq_length":49,"kmer_size":31,"minimizer_size":11,"partition":137,"minimizer":"AAACATTATCA"}
AAATTAAGTCCCATATTGAAACATTATCACAAATGTGAGTTGTTAATAT
>8D10A11C86F8EF26 {"seq_length":42,"kmer_size":31,"minimizer_size":11,"partition":26,"minimizer":"AAATGTGAGTT"}
AACATTATCACAAATGTGAGTTGTTAATATTACATAATTGGG
>C18F1086D0AF6E34 {"seq_length":32,"kmer_size":31,"minimizer_size":11,"partition":9,"minimizer":"TGTGAGTTGTT"}
AATGTGAGTTGTTAATATTACATAATTGGGTT
>933477394DAF03BB {"seq_length":31,"kmer_size":31,"minimizer_size":11,"partition":48,"minimizer":"TAATTGGGTTT"}
TGTGAGTTGTTAATATTACATAATTGGGTTT
>3CEE7E5227956042 {"seq_length":36,"kmer_size":31,"minimizer_size":11,"partition":252,"minimizer":"AATTGGGTTTT"}
GTGAGTTGTTAATATTACATAATTGGGTTTTATGCT
>1BAF5B8767D63D0B {"seq_length":33,"kmer_size":31,"minimizer_size":11,"partition":201,"minimizer":"AAAGGCTCCCT"}
TGAAAGGCTCCCTAGCGTGTTAATTAATCTCCC
>8368A897DB263C6F {"seq_length":38,"kmer_size":31,"minimizer_size":11,"partition":22,"minimizer":"CCTAGCGTGTT"}
AAGGCTCCCTAGCGTGTTAATTAATCTCCCTGACAAGT
>247DC82E11CF8055 {"seq_length":35,"kmer_size":31,"minimizer_size":11,"partition":128,"minimizer":"AATCTCCCTGA"}
CTAGCGTGTTAATTAATCTCCCTGACAAGTAGTGT
>11C93BBC8A5F6327 {"seq_length":35,"kmer_size":31,"minimizer_size":11,"partition":62,"minimizer":"CAAGTAGTGTT"}
GTGTTAATTAATCTCCCTGACAAGTAGTGTTAGTG