Biostar Beta. Not for public use.
sorting blast results by sseq coverage
Entering edit mode
15 months ago
nheb1977 • 0

my query blastn search returns - 3 sequences tie ( subject sequence) with identical score , e-value and alignment length.

These 3 sequences are of different length. Is there any way to output results so that the hit with highest subject sequence coverage (or in other words, the shortest hit) is displayed first?

blast • 101 views
Entering edit mode

Hi nheb1977,

Try adding -outfmt "6 qseqid sseqid pident length mismatch gapopen qstart qend sstart send evalue bitscore slen" when running BLAST, then sort the results using sort -k1,1 -k12,12nr -k11,11n -k4,4nr -k13,13n.


Login before adding your answer.

Similar Posts
Loading Similar Posts
Powered by the version 2.3.1