Searches DNA sequences for matches with primer pairs emboss primersearch -seqall $input1 -infile $input2 -outfile $out_file1 -mismatchpercent $mismatchpercent -auto Main sequences Primer file Allowed percent mismatch

You can view the original documentation here_. .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/primersearch.html