[Jalview-discuss] posting a question to the list?

jprocter at compbio.dundee.ac.uk jprocter at compbio.dundee.ac.uk
Wed Jan 18 23:53:01 GMT 2012

Hi Mohammed 

'fraid you do have to be subscribed.. otherwise we'd we inundated with spam.

As to your question, the 'show unconserved' applet parameter sounds like the one you want.

Take a look at the Jalview applet parameters documentation to see how to use it.


J. B. Procter Jalview/enfin Barton group

-----Original Message-----
From: "Khalfan, Mohammed" <mkhalfan at cshl.edu>
To: "jalview-discuss-owner at jalview.org" <jalview-discuss-owner at jalview.org>
Sent: Wed, 18 Jan 2012 22:32
Subject: posting a question to the list?


I'm trying to post a question to the list, but it rejects me right away. Do I have to be subscribed in order to post questions? If you could help me with this I would greatly appreciate it! Please see my question below.

Thank you!


We're currently using Jalview to display MUSCLE alignments in our web app DNA Subway (http://www.dnasubway.org).

Currently, jalview colors all conserved nucleotides, however what I am interested in is coloring only the unconserved bases and possibly even hiding all the conserved nucleotides so all you see is the nucleotides which are different from the consensus. Has this ever been discussed and is it possible?

Any advice would be greatly appreciated!

Thank you,

Mohammed Khalfan
Bioinformatics Developer
DNA Learning Center
Cold Spring Harbor Laboratory
1 Bungtown Road
Cold Spring Harbor NY 11724

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