BLAST

The Basic Local Alignment Search Tool (BLAST) finds regions of local similarities between sequences. It compares either nucleotide or protein sequences against sequence databases (such as nt or nr) and calculates the statistical significance of the matches.

For more information please see the official BLAST documentation.

To load BLAST on Palmetto 2 first load the module:

module load blast

Once loaded you can run BLAST queries against nt or nr using the correct blast command shown here:

blastn
blastp
blastx
makeblastdb
update_blastdb.pl

Running the commands differs depending upon which tool and what BLAST settings you wish to set. Please see the documentation linked above for more information.

tip

Several other tools load with this module. Review additional available tools using the command below:

report_subtools.sh blast

Parallel Capabilities: see documentation.