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  • Several studies with all bases having super high quality (100% question mark ASCII)

    I ran into several studies where the samples all seem to have "perfect" quality score of 63 (? over all bases). First time, I thought the samples quality had been tampered with, but then I found 6 more studies sequenced on various illumina platforms that had the same feature. Some examples: SRP410115, SRP403740, SRP423365, SRP424298, SRP425931, SRP434700​.

    @SRR22424534.1 1/1
    GTACTGATACACAAAGTAATGACCTGCAATCCACGATGATTGCTAGGCTTATATTGTTTCTTTTTCATTTTTAAAAATCTTTACTAACTTAAAACCAAAAGGGCACAATGCCCCAAATTGTCTGCAAAGATACGAATAAACGAATAGATA
    +
    ??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????
    @SRR22424534.2 2/1
    AGCGTATTGGAAAGGATTATTGTCCTCGCTATAATTCTTACTAGAATACACCTTGTCTGAGTGAATAAGGCTCAACTGATTGCCATCAGCACGTAAGAAATAAGCATACGGAATAATGAACGGAGTGTGATCAGGCTCAATACATTGGG
    +
    ??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????


    I've heard of quality binning but what I've found doesn't explain a score that high, nor does it explain why ALL bases are perfect; in some cases I still find a decent amount of human DNAs in the samples so I don't expect them to have been QC'd. I can't find anything on the illumina website. Anyone has an explanation?

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