How to draw boxes, arrows, etc. on multiple alignments?

David Mathog mathog at
Thu Jun 19 03:48:33 EST 2003

On 17 Jun 2003 15:35:06 +0100
peter_frankde at (Peter Frank) wrote:

> In journal articles I saw multiple sequence alignments which were
> heavily "annotated" with text and symbols like boxes and arrows. It
> was more than what is possible with software like GeneDoc.

Try "alscript".  It's a bit complex but it should let you
mark up an alignment to your heart's content.


David Mathog
mathog at
Manager, Sequence Analysis Facility, Biology Division, Caltech

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