Hi to all
I am doing blastx with ncbi standalone blast for large number of sequences.
I am getting the output in outfmt -7 (tabular with comment lines).
There are 'keywords' like frames/qframe/sframe which gives information about which ORF frame that gives the database hit.
By default this information does not appear in output format 7.
Can anybody tell me how to use this "keyword" to get 'frames' information in the output.
I asked this question in ncbi-help before 4 days but I am yet to get a reply, May be they are thinking this could be a silly question (may be they could be right).
for more info see blastx -help in the ncbi standalone blast
thank you
raghul
I have give the specific portion of help section to see as below-
Options 6, 7, and 10 can be additionally configured to produce a custom format specified by space delimited format specifiers.
The supported format specifiers are:
qseqid means Query Seq-id
qgi means Query GI
qacc means Query accesion
sseqid means Subject Seq-id
sallseqid means All subject Seq-id(s), separated by a ';'
sgi means Subject GI
sallgi means All subject GIs
sacc means Subject accession
sallacc means All subject accessions
qstart means Start of alignment in query
qend means End of alignment in query
sstart means Start of alignment in subject
send means End of alignment in subject
...
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