Question: BLAST qcov equals to 0
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gravatar for Ming
5 weeks ago by
Ming20
Ming20 wrote:

Hello All,

I just performed a blastn, and I have some alignment returning qcovs = 0. I am not sure how this is possible because the alignment reports a pident and a bitscore for that alignment. For instance:

    qseqid sseqid pident bitscore evalue qcovs qcovhsp length
k127_1554010 ref|NZ_AONQ01000017.1| 77.007 409 2.85e-110 0 0

From my understanding, qcovs = query coverage. A qcovs = 0 means that 0% of the query is aligned to the subject. But why is the pident and bitscore reported as positive values?

Thank you in advanced!

blast • 77 views
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