Search a protein or DNA sequence library for sequence segments matching a profile. pfsearch compares a query profile against a DNA or protein sequence library. The result is an unsorted list of profile-sequence matches written to the standard output. A variety of output formats containing different informations can be specified via the options -l, -L, -r, and -z. The file *profile* contains a profile in PROSITE format. The *sequence_library* file contains a sequence library in EMBL or SWISS-PROT format (assumed by default) or in Pearson or Fasta format (indicated by option -f). If *-* is specified instead of one of the filenames, the corresponding data is read from the standard input.
Parent program: pftools
PFTools is a collection of programs supporting the generalized profile format and search method of PROSITE.