IUBio GIL .. BIOSCI/Bionet News .. Biosequences .. Software .. FTP

repeat search

Fred dynamin at hotmail.com
Wed Apr 19 00:22:00 EST 2000


I posted a similar question a month back in "proteins".  The best
replies that I found useful are shown below, but none are very
satisfying to me.  Anybody got better ideas please???

Repro is the most famous.  The only working copy I have found is
http://mathbio.nimr.mrc.ac.uk/~rgeorge/repro/

SIM - Alignment Tool for protein sequences
http://www.expasy.ch/tools/sim-prot.html
(note, here, enter the same sequence as seequence 2)

SAPs give repeats as part of its result.
http://www.isrec.isb-sib.ch/software/SAPS_form.html


I don't know if these programs will handle "genomes", but they work ok
for proteins.

Phil, Sydney
At hotmail on dynamin at .....



Vladislav Grebenyuk wrote:
> 
> Hi there,
> I'm looking for repeats in Sponge genome. There are something around 500
> clones already sequenced in this lab. But there is no any software for
> repeat search here.
> Could anybody help me?
> Vlad





More information about the Bio-soft mailing list

Send comments to us at archive@iubioarchive.bio.net