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By Finn R., Eddy S., Last update 1494698999
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hmmsearch description

Hmmsearch searches profile(s) against a sequence database. hmmsearch is used to search one or more profiles against a sequence database. For each profile in , use that query profile to search the target database of sequences in , and output ranked lists of the sequences with the most significant matches to the profile. To build profiles from multiple alignments, see hmmbuild.

Parent program: hmmer

HMMER software allows search for protein homologs and also permits multiple protein sequence alignment. Unlike BLAST, HMMER uses probabilistic models called profile hidden Markov models which provide a significantly more accurate and more sensitive detection of remote homologs. The HMMER software suite has been widely used, particularly for protein family databases such as Pfam and InterPro and their associated search tools. Also HMMER has several programs for protein sequence analysis such as phmmer, hmmscan, hmmsearch and jackhmmer.