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hit length in the tabular blast output

Hi all,

I have a basic question, so sorry in advance. I'm getting a bit confused about "hit length" in the blast output (ncbi-blast-2.2.30+). Please kindly tell me how I can get the "hit length" in the blast output in tabular format (-outfmt 6)?

Thanks

blast hit length tabular output
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updated by 5heikki 5heikki • written by seta seta

1 answer 

blastp -help
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updated by Ram Ram • written by 5heikki 5heikki

I think it is obtained either by the flag of either "alignment length" or "slen", which one is correct?

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updated by Ram Ram • written by seta seta

Only you can know what you mean by hit length. Length of the subject sequence? Length of the alignment between the subject and query sequence?

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updated by Ram Ram • written by 5heikki 5heikki

That's right, actually, the mean of hit length is what I want to know.

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written by seta seta

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