EMBOSS

| ALIGNMENT LOCAL

Local sequence alignment

Program name | Description
--- | ---
matcher | Finds the best local alignments between two sequences
seqmatchall | All-against-all comparison of a set of sequences
supermatcher | Match large sequences against one or more other sequences
water | Smith-Waterman local alignment
wordfinder | Match large sequences against one or more other sequences
wordmatch | Finds all exact matches of a given size between 2 sequences