Question: Local blastp option -qcov_hsp_perc
0
gravatar for fec2
5 days ago by
fec220
fec220 wrote:

Hi all,

I need to performed blastp for 2 genome (against each other). According to the paper, I need to get the number of protein which has "alignable region of the query protein sequence of more than 50%".

For Blastp option, -qcov_hsp_perc should mean Percentage of Query Coverage Per HSP, right? Therefore, if I perform blastp with option "-qcov_hsp_perc 50" mean I only select alignable region of the query protein sequence of more than 50%?

Thank you.

blast genome • 68 views
ADD COMMENTlink modified 5 days ago • written 5 days ago by fec220

You want to align two genomes, or two sets of proteins?

ADD REPLYlink written 5 days ago by h.mon25k

Ya, 2 sets of proteins. I am using -subject option of blastp.

ADD REPLYlink written 4 days ago by fec220
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 568 users visited in the last hour