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.

Alignment tools

Open a card to start aligning.

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.