[BiO BB] display DNA multiple alignements with gray levels

Martin Gollery mgollery at unr.edu
Wed Apr 28 13:02:35 EDT 2004

Jalview has many color choices, but I have not seen the particular one 
that you are asking for. Still, you might take a look to see if it meets 
your needs at http://www.ebi.ac.uk/~michele/jalview/


c.plessy at mangoosta.net wrote:

> Hello,
> 	I am looking for a free program that would process DNA
> multiple alignments, so that that conserved nucleotides would be on a
> black background, moderately conserved on a grey background according
> to the frequency of the most frequent nucleotide, and non conserved
> nucleotides on a white background.
> 	Boxshade does that kind of thing, but uses gray for
> similarity, which is not useful for DNA multiple alignments.
> (<http://www.ch.embnet.org/software/BOX_form.html>)
> 	Ideally, the output would be in eps, or something else
> importable in Illustrator.
> I would be mega happy If somebody knew such a tool.
> Have a nice day,
> Charles

Martin Gollery
Associate Director
Center For Bioinformatics
University of Nevada at Reno
Dept. of Biochemistry / MS330
'Don't worry that the world will end today- it's already tomorrow in 
Australia...' -Charles Schulz

More information about the BBB mailing list