Command-line tool

blast

brew/blast

Checked 25 Oct 2026, 21:09 UTC · Listing refreshed from Homebrew, winget, npm, Scoop and cargo; npm packages checked against OSV.dev

Basic Local Alignment Search Tool

Website

At a glance

Type

Command-line tool

Install on

macOS, Linux

Last checked

25 Oct 2026, 21:09 UTC

Install it

macOS

brew install blast

Linux

brew install blast

Align two or more sequences using megablast (default), with the e-value threshold of 1e-9, pairwise output format (default)

blastn -query query.fa -subject subject.fa -evalue 1e-9

Align two or more sequences using blastn

blastn -task blastn -query query.fa -subject subject.fa

Align two or more sequences, custom tabular output format, output to file

blastn -query query.fa -subject subject.fa -outfmt '6 qseqid qlen qstart qend sseqid slen sstart send bitscore evalue pident' -out output.tsv

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