Question: Showing the original subject when running BLAST
0
gravatar for kdsilva
3.4 years ago by
kdsilva0
kdsilva0 wrote:

I'm running the following command:

blastn -query references.fasta -subject reads.fasta -task blastn-short -outfmt "6" -out output.csv

I would like to see the ENTIRE subject sequence in the output. Is there a way to do this? It looks like including "sseq" in the outfmt shows me the aligned part of the subject sequence, but I'd like to see the entire thing.

dna blast alignment read command • 811 views
ADD COMMENTlink modified 9 months ago by RamRS22k • written 3.4 years ago by kdsilva0
1

You can always look-up the entire sequence using the subject identifier. BLAST is local alignment, it doesn't concern itself with entire sequences.

ADD REPLYlink written 3.4 years ago by RamRS22k
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