[ssml] Re: Multiple sequence alignment

Eric Pettersen pett at cgl.ucsf.edu
Mon Aug 1 13:55:49 EDT 2005

> From: Barnali Chaudhuri <neel at mbi.ucla.edu>
> Subject: [ssml] Multiple sequence alignment
> To: ssml-general at bioinformatics.org
> Message-ID: <Pine.LNX.4.58.0507312251270.24473 at ewald.mbi.ucla.edu>
> Content-Type: TEXT/PLAIN; charset=US-ASCII
> Hi all,
> How can I "quickly" evaluate the significance of a
> multiple sequence alignment (using entropy or some such)?
> Thanks
> Neel

I guessing you mean computing column conservation.  The program AL2CO  
provides a variety of such measures, including entropy.  ftp:// 

                         Eric Pettersen
                         UCSF Computer Graphics Lab
                         pett at cgl.ucsf.edu

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