convert blast output

[rururara]

hai all,

do you know how to convert blastall output into txt or gff format?

eg:

Query= OsSNP0002
(142 letters)

Database: ../u01/perl/uniprot-oryza-sativa-indica.fasta
42,240 sequences; 15,872,719 total letters

Searching..................................................done



Score E
Sequences producing significant alignments: (bits) Value

tr|A2WJN5|A2WJN5_ORYSI Putative uncharacterized protein OS=Oryza... 55 2e-18
tr|B8AKP7|B8AKP7_ORYSI Putative uncharacterized protein OS=Oryza... 53 6e-17
tr|B8AEL6|B8AEL6_ORYSI Putative uncharacterized protein OS=Oryza... 28 1.5
tr|B8B114|B8B114_ORYSI Putative uncharacterized protein OS=Oryza... 28 2.0
tr|B8AQS5|B8AQS5_ORYSI Putative uncharacterized protein OS=Oryza... 27 2.6
tr|B8ADP7|B8ADP7_ORYSI Putative uncharacterized protein OS=Oryza... 27 4.4
tr|A2ZKU4|A2ZKU4_ORYSI Putative uncharacterized protein OS=Oryza... 26 7.5
tr|A2Y774|A2Y774_ORYSI Putative uncharacterized protein OS=Oryza... 26 7.5
tr|A2WXP8|A2WXP8_ORYSI Putative uncharacterized protein OS=Oryza... 25 9.7

thanks!

[Thorondor]

this is in text format, so you don't need to format it. ;-)

to get it into gff, look at:

http://biostar.stackexchange.com/que...results-to-gff

http://www.bioperl.org/wiki/HOWTO:Graphics#Parsing_Real_BLAST_Output

actually it is not totally clear to me what you want and sometimes it is worth the time to ask a search engine first.