blastn output format with full subject's sequence
1
0
Entering edit mode
2.7 years ago
genya35 ▴ 40

Hello,

Is there an outfmt option for blastn that will return the full subject's sequence in tubular format? I have tried outfmt 6 but it i don't see an option of returning the full subject's sequence.

Thanks

sequence • 1.7k views
ADD COMMENT
2
Entering edit mode
2.7 years ago
h.mon 33k

I don't think there is an option in blastn to return the full sequence. You can parse the tabular output of blastn and retrieve the sequences directly from the blast database with blastdbcmd: Extracting data from BLAST databases with blastdbcmd.

ADD COMMENT

Login before adding your answer.

Traffic: 2121 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6