Hi all
Does anyone have an idea how I can get the query coverage of my hits from local BLAST (in unix). The -m 8 option gives you a tabular output that does not contain the 'Descriptions' part of the online BLAST. If I blast a gene against a genome with no contigs, I expect to see an overall percentage similarity of the gene against this genome, which is given in the Descriptions section in online BLAST, but cannot get that in local BLAST. One can get a rough idea from -m 8 option but with so many overlaps it can prove to be a bit difficult. Any ideas anyone?
Thanks