Color Alignment by Conservation

Aligned sequences

Sequence typeShade when at least this % agreeLine length

Output

How to color an alignment by conservation

Paste an alignment in FASTA format, with gaps written as -.
Choose DNA or protein and the share of sequences that must agree for a column to be shaded.
Identical residues are shaded dark blue and, for proteins, similar ones light blue. Download saves the colored alignment as a web page.

Frequently asked questions

How do I paste it into a document?

Select the colored alignment on the page and copy it; most word processors keep the colors. The downloaded file opens in any browser.

Is my sequence uploaded?

No. Everything runs in your browser, so your sequences never leave your device.

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