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-   -   Generate regex from multiple sequence alignment (http://www.molecularstation.com/forum/bioinformatics/85914-generate-regex-multiple-sequence-alignment.html)

LucasVS 06-16-2012 12:24 AM

Generate regex from multiple sequence alignment
 
Hi all !

That's the week-end, I am lazy, and I am wondering if it exist a program or a script for writing a regex from a multiple sequence alignment.

e.g.

input (= multiple sequence alignment):
ATGCTGC
ATCCGAT
ATCCCTT

output (= regex):
AT[GC]C[TGC][GAT][CT]

Thanks !

mmorgan 08-16-2012 04:31 PM

Re: Generate regex from multiple sequence alignment
 
MEME will do something similar to what you want. [Only registered and activated users can see links. Click Here To Register...]

Although it isn't exactly an aligner so it might only work for certain applications


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