Hi dear

you can go to these sites where you may find as many as tools which will be enough for your analysis;

http://www.ccmb.med.umich.edu/bioinf-core/tools

http://www.bioinformatics.org/

Hi,

I think that ExPASy can be very useful for your purposes: as reported on the website, ExPASy is a "Bioinformatics Resource Portal which provides access to scientific databases and software tools n different areas of life sciences including proteomics, genomics, phylogeny, systems biology, population genetics, transcriptomics". I used a bit of services hosted on this Portal, often with excellent results.

http://www.expasy.org/

I agree with the praise of Expasy. Anyway I prefer to use links directory of Bioinformatics.ca:

http://bioinformatics.ca/links_directory/

It's more comprehensive and it contains better description & related links (IMO).