Make+a+BLAST+database+3-30-13

You may want to blast two fasta files against one another. To do this you need to transform one of the blast files into a database with a command like makeblastdb -in prot_3-30-13.fa -dbtype prot -title protdb

Note that the fasta file has to be just right. The protein sequences can't contain any spaces, and new lines should have both the \r and \n symbols.

Note that two fasta files can often just be blasted against eachother without making a blast database as well.