There are many command line parameters that can be applied to a BLAST search to customize the results. Here are a few of the most commonly used parameters. For a complete listing please see the BLAST® Command Line Applications User Manual.
|Input file name
|Database being searched
|Output file name
|Start and stop position in the query sequence to specify a shorter section of the sequence to be searched. (Format: start-stop)
|Number of one-line descriptions of hits to report in the output file
|Number of alignments of hits to display in the output file
|Number of threads (CPUs) to use in the blast search