I think wise2 (the estwise and estwisedb programs) does this .

http://www.ebi.ac.uk/Wise2/

Stefanie

> Hello,
> 
> Is there an EMBOSS equivalent of GCG:FrameAlign?
> 
> It creates an optimal alignment of the best segment of similarity
> (local alignment) between a protein sequence and the codons in all
> possible reading frames on a single strand of a nucleotide
> sequence. Optimal alignments may include reading frame shifts.
> 
> This is a very crucial tool for the evolutionary biologists.
> 
> -thanks
> 
> -laxman
> 
> 
> 
> 
> 
> Lakshmanan Iyer, Ph. D.
> 
> Computational Biologist
> 
> Manager of Collaboration and Training
> 
> Computational Biology Group
> 
> Bauer Center for Genomics Research
> 
> Bauer Laboratory
> 
> 7 Divinity Ave.
> 
> Cambridge, MA 02138
> 
> www.cgr.harvard.edu <http://www.cgr.harvard.edu>
> 
> Phone:617-384-7647
> 
> Fax: 617-495-2196
> 
> 

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