| ALIGNMENT LOCAL

Local sequence alignment

Program name | Description
--- | ---
matcher | Waterman-Eggert local alignment of two sequences
seqmatchall | All-against-all word comparison of a sequence set
supermatcher | Calculate approximate local pair-wise alignments of larger sequences
water | Smith-Waterman local alignment of sequences
wordfinder | Match large sequences against one or more other sequences
wordmatch | Find regions of identity (exact matches) of two sequences
domainalign | Generate alignments (DAF file) for nodes in a DCF file
domainrep | Reorder DCF file to identify representative structures
seqalign | Extend alignments (DAF file) with sequences (DHF file)
oalistat | Statistics for multiple alignment files