Mutiple alignement of blast results

[Natalia Maltsev]

>Hi,

You can try to use our new experimental server of BlocksBlast and 
Phyloblocks written by our Luke Ulrich.

1. BlocksBlast:
http://compbio.mcs.anl.gov/blast/psiblast_phylo.html

After you'll Blast your sequence you are given an option to select 
sequences and submit them to Phyloblocks directly from Blast (a standalone 
server for PhyloBlocks is at : http://compbio.mcs.anl.gov/ulrich/phyloblock/)

It will allign the sequences using Clustalw and also give you a tree from 
which you can create the subsets using color coding of the clustal tree. 
You can send  selected sequence groups to BlockMaker (Henikoff's ) to 
create HMM profiles, concensus sequences  and alignments specific to the 
subsets.

We will very much appreciate your comments about these tools. A paper 
describing these tools should be out shortly

Cheers,
Natalia Maltsev



>-----Original Message-----
>From: owner-emboss at hgmp.mrc.ac.uk [mailto:owner-emboss at hgmp.mrc.ac.uk]On 
>Behalf Of Jean-Christophe AME
>Sent: Wednesday, March 05, 2003 3:44 PM
>To: emboss at hgmp.mrc.ac.uk
>Subject: Mutiple alignement of blast results
>
>Hi all,
>I am looking for a program (preferably for unix or Mac) that does a 
>multiple alignment of a blast result. There used to be Mulblast 
>(http://www.cbs.cnrs.fr/Soft_ModMol/MulBlast/MulBlast-en.html) but it 
>doesn't seem to work anymore with the last blast outputs.
>
>Does anybody have any idea on the subject. This could be a nice and useful 
>EMBOSS program.
>Thanks for any help.
>Jean-Christophe
>
>
>
>
>
>________________________
>Jean-Christophe Amé, PhD
>U.P.R. 9003 du CNRS - Cancérogénèse et Mutagénèse Moléculaire et Structurale
>École Supérieure de Biotechnologie de Strasbourg
>Pôle API
>Boulevard Sébastien-Brant
>67400 Illkirch
>France
>
>tel.: 33 3 90 24 47 05
>Fax.: 33 3 90 24 46 86
>
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Natalia Maltsev
Computational Biology Group
Mathematics & Computer Science Division
Argonne National Laboratory
9700 S. Cass Avenue
Argonne, Illinois  60439

tel. (630) 252-5195 (of.)
fax  (630) 252-5986
E-mail: maltsev at mcs.anl.gov