Sequence aligner

Compare sequences in your browser with Needleman–Wunsch global alignment. Choose pairwise alignment for two sequences (e.g. Sanger read vs reference), or multi-sequence alignment when you have three or more FASTA records. All processing stays local — nothing is uploaded. A lot more information is available on each tool, explaining how it works and how to use it on each of the tool pages. Just select if you want to perform a pairwise (two-sequence) alignment or a multi-sequence (three or more) alignment.

Pairwise alignment Paste two DNA or protein sequences side by side. Inspect matches, substitutions, and gaps with identity and score summary. Multi-sequence alignment Paste or load a multi-FASTA file (3–30 sequences). Progressive merge builds one aligned column set with a consensus line.

About the author: This page was written by Dr Mark Bond from The Bond Lab at the University of Bristol. These notes reflect the methodology used in our cardiovascular and cell-signalling research. Questions about these methods: contact us or email mark.bond@bristol.ac.uk ORCID.