MSA viewer

The viewer reads a multiple sequence alignment in your browser and displays its sequences as an interactive, color-coded residue grid. It also calculates the consensus sequence and conservation at each aligned position.

Click the upload area and select an alignment file, or drag and drop the file onto it. The viewer detects the alignment format and opens the sequences automatically.

You can open aligned FASTA, CLUSTAL, Stockholm, PHYLIP, and MSF files, including common extensions such as .fasta, .aln, .sto, .phy, and .msf.

Yes. The MSA viewer displays an existing alignment but does not align unaligned sequences. Create the alignment with a tool such as Clustal Omega, MAFFT, or MUSCLE before opening it here.