How can I get the sequence of each orf?

[fefe89]

Hey guys, I'm very new of the bioinformatic world.

I'm trying to blast some data from metagenomic analysis against different database (NCBI, COG), using blastp (blast+).

My problem is that I need a FASTA file with all my ORFs and their sequences but all I have is a FASTA file with only the contigs and their sequences (unpadded file from MIRA).

How can I get a file with the name of all my ORFs and the sequences???


Thank you a lot

[maubp]

You need to annotate your contigs, i.e. find the genes. There are tools out there for gene finding, a nice all-in-one package for bacteria etc which will also annotate the genes is Prokka.

http://www.vicbioinformatics.com/software.prokka.shtml