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Track down why some simulated sequences have errors when they are set to none #3

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dkoslicki opened this issue Jun 21, 2022 · 0 comments

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@dkoslicki
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dkoslicki commented Jun 21, 2022

eg.
simulation
@SYN_4_58_207_0_-18312_1._aaa:Acav_3531|oligopeptide/dipeptide$ABC$transporter,$ATPase$subunit|ko:K02031 1:
CCATGAGCGCCATCGCGGTGAGCGACTTCCCGCAGCCCGACTCGCCCACCAGGCCGAGCGTGCCGCCGCGTGCGAGCGTGAAATCCACCCCGCGCACCGCCCGCGCCATGCCGTGGCGGGTGGGCAGGTCCACCTGGAGGCCGCGCACCT

reference

aaa:Acav_3531|oligopeptide/dipeptide ABC transporter, ATPase subunit|ko:K02031
gtgacttccgggacgttcctcccctcctcccatgttcccgctccgggcactctgctcgaggtgcgcggcctccaggtggacctgcccacccgccacggcatggcgcgggcggtgcgcggggtggatttcacgctcgcacgcggcggcacgctcggcctggtgggcgagtcgggctgcgggaagtcgctcaccgcgatggcgctcatgggcctgctgcccgaaggcgcccaggccacgggccgtgtgcgcttcgatggccaggaattgctggacatgcccgagtccgaactggcgcgcctgcgcggacggcgcatcgcgatggtgttccaggagccgatgacggcgctcaaccccgtgcacaccatcggcgcgcaggtggccgagccgctgcgacggcacctcggcctggcgcgggccgaggcgcgcatgcaggcggtggcattgctggaccgcgtgggtattccgcgggcagcgcagcgcttcgacgcctatccgcatgaattctcgggcgggcagcgccagcgcatcaccatcgcgatggcgctggcctgcgggccggacgtgctgatcgccgacgaaccgacgaccgcgctggatgccaccgtgcagcgccagatcctggagctgatcgcggggctcgtggccgagcggggcatggcgctggtgctgatctcgcacgatctgggcgtggtcgcgcagaacgtggaccgggtgctggtgatgtacggcggcagcgtggtcgaggacggcccgacgcgcgaggtgttcgcgcaccgtgcccatccctacacgcatgggctgttcgccgcgcggccgcgctgggcggacgaggccggaagaggaaatggaagcggccgggcgcggctgccgaccattcccggcacggtgccggagatcggcgcgctgccaccgggctgcccattcgcgggccgctgcgccttcacggtgccggactgcgacgccggcttgccggagccggtggccgtagggccggcgcaccatgcgcgctgcatccggctggaagccgtgaaggcagcacaggcagcacagacggcggaggcagggcggtga

Handy aligner: https://gagniuc.github.io/Jupiter-Bioinformatics-V2-dark/

And note that KO's are not unique. But the aaa:ACAV_3531 looks to be unique

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