PatMatch Notes

Owned by Tanya Berardini
Apr 25, 2024
1 min read

TAIR's PatMatch software allows you to search for short nucleotide or peptide sequences, or ambiguous/degenerate patterns. It uses the same Arabidopsis datasets as TAIR's BLAST implementation.

Features

  • Set the minimum number of hits per sequence.
  • Set the maximum number of hits per sequence.
  • The maximum number of hits retrieved is increased to 250,000.
  • The minimum number of the input pattern is 3 residues.
  • Select the number of total mismatches and types of mismatches allowed.
  • Improved checking of input pattern syntax.
  • Modified pattern syntax for peptide searches to conform to standard one-letter codes for amino acids.
  • Patterns containing regular expressions now support mismatch options.
  • Patterns containing wildcards now support mismatch options.