Home → Our Services → Software → Sequence Alignment - Local

• BLAST using TimeLogic - Find regions of local similarity between sequences using TimeLogic DeCypher accelerator cards
  • blastp - Compare peptide sequence queries to peptide sequence databases
  • blastn - Compare nucleotide sequence queries to nucleotide sequence databases
  • blastx - Compare nucleotide sequence queries, dynamically translated in all 6 reading frames, to peptide sequence databases
  • tblastn - Compare peptide sequence queries to nucleotide sequence databases dynamically translated in all 6 reading frames
  • tblastx - Compare nucleotide sequence queries dynamically translated in all 6 reading frames to nucleotide sequence databases dynamically translated in all 6 reading frames (6 x 6 = 36 pairwise combinations of reading frames)
• Blat - BLAST-like searches against a genome instead of a target database
• matcher - Find the best local alignment between two sequences (part of the EMBOSS package)
• MegaBLAST - Align DNA sequences that differ only by sequencing errors, or by equivalent errors from other sources
• MSPcrunch - Filter and parse raw BLAST output
• MUMmer - Rapidly align entire genomes and ultra-fast alignment of large-scale DNA and protein sequences
• seqmatchall - All-against-all comparison of a set of sequences (part of the EMBOSS package)
• supermatcher - Match large sequences against one or more sequences (part of the EMBOSS package)
• water - Smith-Waterman local alignment (part of the EMBOSS package)
• wordmatch - Find all exact matches of a given size between two sequences (part of the EMBOSS package)
• WU BLAST - Gapped BLAST
  • blastp - Compare peptide sequence queries to peptide sequence databases
  • blastn - Compare nucleotide sequence queries to nucleotide sequence databases
  • blastx - Compare nucleotide sequence queries, dynamically translated in all 6 reading frames, to peptide sequence databases
  • tblastn - Compare peptide sequence queries to nucleotide sequence databases dynamically translated in all 6 reading frames
  • tblastx - Compare nucleotide sequence queries dynamically translated in all 6 reading frames to nucleotide sequence databases dynamically translated in all 6 reading frames (6 x 6 = 36 pairwise combinations of reading frames)