Consensus from Multiple Alignments
txs at po.cwru.edu
Wed Oct 25 10:53:27 EST 2000
THANK YOU VERY MUCH!!!!
GENEDOC appears to be just what I need!!!
Andrea Hansen wrote:
> Tim Spahlinger <txs at po.cwru.edu> writes:
> Hi Tim,
> what about GENEDOC? A nice free tool for multiple alignments.
> GeneDoc - A Full Featured Multiple Sequence Alignment Editor,
> Analyser and Shading Utility for Windows.
> Another way is to look at the long list of online tools :
> > Hi,
> > I'm either very naive in making a request for such a dynamic
> > program, or I'm too new and inexperienced with such things
> > but:
> > Can somebody recommend a web site (preferred) or a software
> > package (I'd rather save my limited funding) that will give
> > me a consensus sequence of bases derived from the multiple
> > alignments of several sequences? For example:
> > temp1 AATGCCGA
> > temp2 AATGGCGA
> > temp3 AATGCCGA
> > consensus AATGCCGA
> > I've used ClustalW which indicates conservation at base
> > positions. But, I have ALOT of sequences to align and if
> > even 1 base out of 100 within a column is different the "*"
> > of a conserved column will be missing, forcing me to look
> > for where the substitutions are and to count how many
> > substitutions are made. I really need a consensus sequence.
> > ClustalX will graphically show where substitutions are made
> > but doesn't offer a consensus (at least I haven't figured
> > out how to get one from the graphic display; trying to print
> > the graphic display is another mystery to me)!
> > THANKS in advance for your help!!!!!
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