Blast Output

[Desai]

Dear Friends,

I am newbie in bioinfofield so I have no idea about output of blast and how to interpret for the further analysis. I had run BLASTx command, my command is /blastx -query input_file -db /nr -out out -evalue 1e-6 -outfmt 7 -max_target_seqs 3 -num_threads 4. Can anyone tell me what should I do?

[GenoMax]

It is a little odd that you did an analysis without a clear understanding of what you want to get out of it.

A basic rule of bioinformatics is just because a command works and generates output does not mean that the result is correct or even what you expect.

An easy explanation of the -outfmt 7 is available in this blog post: http://blastedbio.blogspot.in/2012/0...criptions.html

Please refer to the command line manual of blast available at this link for a comprehensive guide: http://www.ncbi.nlm.nih.gov/books/NBK1763/ Appendix C.