[Genome] aligning sequences

[Archana Thakkapallayil]

Hello Upendra,

I assume you already have the sequence for your gene, and wants to know 
how to generate a multiple alignment. Unfortunately, we don't provide 
any tools for multiple alignments. One of our developers suggests to use 
some standard genome multiple alignments programs such as:

ClustalW - http://www.ebi.ac.uk/clustalw/
The program can also be downloaded via link from this site.
MAFFT - http://www.biophys.kyoto-u.ac.jp/~katoh/programs/align/mafft/
T-Coffee - http://www.ebi.ac.uk/t-coffee/
and others: http://pbil.univ-lyon1.fr/alignment.html

I hope that this helps you. If this does not answer your question, 
please don't hesitate to write back to the list.

Regards,

Archana
UCSC Genome Bioinformatics Group

We invite you to give us your feedback on the UCSC Genome Browser through May 31, 2007: http://www.surveymonkey.com/s.asp?U=881163743177


Kar, Upendra wrote:
> Dear Madam/Sir,
>
>  
>
> I would like to align the sequence of myd88 and compare the sequence
> similarity between human, pig, mouse and Rat...etc. so if I get the
> sequence of anyone them how to align them???I want to know the possible
> similarity region between them.
>
>  
>
> Sincerely
>
> Upendra
>
>
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