DNA/Protein homology search

Burkhard Morgenstern morgenst at gsf.de
Tue Feb 10 09:38:43 EST 1998


Maido Remm wrote:
> 
> Hei,
> 
> Has anybody written script or program to align gene DNA sequences according
> to their protein sequence: I mean it should do the following
> 
> 1. Query and target are DNA
> 2. Translate both sequences correctly to protein sequence
> 3. Align protein sequences
> 4. Output the same alignment as DNA sequence
> 
> I would name it codon alignment. It should have much more sense than
> straigth comparision of DNA. I have been told that similar program have
> announced here recently, but i was unable to find something like that in
> archives.
> 
> Thanks for your time,
> Maido Remm
> Estonian Biocentre.

Hello,

I have written an alignment program that does exactly
what you are looking for. It is called DIALIGN. 

Executables for various UNIX platforms (including LINUX)
are available at

  http://www.gsf.de/biodv/dialign.html

Hope this helps

  Burkhard Morgenstern




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