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Sl.No | Description and Link | Remarks |
1. | EBI FASTA European Bioinformatics Institute http://www.ebi.ac.uk/fasta33 | ********* |
2. | EBI Proteomes & Genomes Fasta3 European Bioinformatics Institute http://www.ebi.ac.uk/fasta33/genomes.html | ********* |
3. | FASTA Programs of U. of Virginia University of Virginia http://fasta.bioch.virginia.edu/ | ********* |
4. | FASTA Sequence similarity search Genome Net http://fasta.genome.ad.jp/ | ********* |
5. | FASTA: SEARCH AND ANALYSIS DDBJ Japan http://spiral.genes.nig.ac.jp/homology/fasta-e.shtml | ********* |
6. | FASTA Cambridge University http://www.bio.cam.ac.uk/cgi-bin/fasta3/fasta33_cgi.pl?conf=33 | ********* |
7. | FASTA Cambridge University http://www.bio.cam.ac.uk/cgi-bin/fasta3/fasta3.pl | ********* |
8. | FASTA : Sequence database search (version 3) (W. Pearson) Pasteur Institute http://bioweb.pasteur.fr/seqanal/interfaces/fasta.html | ********* |
8. | FASTA/BLAST ANTHEPROT (ANalyse THE PROTeins) http://antheprot-pbil.ibcp.fr/Fasta.html | ********* |
10. | MolbioWorkbench ANTHEPROT (ANalyse THE PROTeins) http://www.micro.bio.uni-giessen.de/LOCAL_SERVERS/fasta.html | ********* |
MView is a tool for converting the results of a sequence database search (BLAST, FASTA, etc.) into the form of a coloured multiple alignment of hits stacked against the query. Alternatively, an existing multiple alignment (MSF, PIR, CLUSTALW, etc.) can be processed. In either case, the output is simply HTML, so the result is platform independent and does not require a separate application or applet to be loaded. MView is NOT a multiple alignment program, nor is it a general purpose alignment editor.
Get the software
The latest version of the software is available free for FTP from http://mathbio.nimr.mrc.ac.uk/ftp/nbrown/MView/ as a UNIX gzipped tar archive .
Multiple alignments of protein sequences are important tools in studying sequences. The basic information they provide is identification of conserved sequence regions. This is very useful in designing experiments to test and modify the function of specific proteins, in predicting the function and structure of proteins, and in identifying new members of protein families. Sequences can be aligned across their entire length (global alignment) or only in certain regions (local alignment). This is true for pairwise and multiple alignments. Global alignments need to use gaps (representing insertions/deletions) while local alignments can avoid them, aligning regions between gaps.
ClustalW - a fully automatic program for global multiple alignment of DNA and protein sequences. The alignment is progressive and considers the sequence redundancy. Trees can also be calculated from multiple alignments (see below). The program has some adjustable parameters with reasonable defaults. ClustalW is available on the WWW and for various computer operating systems.
Availability-
www: http://www2.ebi.ac.uk/clustalw/
Software: ftp://ftp.ebi.ac.uk/pub/software/
Phylodendron is an application for drawing phylogenetic trees, used in evolutionary biology. It will read tree data in New Hampshire (Newick) format, then display graphical views of the phylogenetic tree. Various options allow you to modify, adorn and edit the tree. Standard application functions to save, print, edit and manage preferences are included. This program will not estimate nor produce the tree data. For that, software such as Phylip, Clustal W, and others may be used.
Phylodendron is available at
ftp://iubio.bio.indiana.edu/molbio/java/apps/trees/
http://iubio.bio.indiana.edu/soft/molbio/java/apps/trees/
FASTA Executable was downloaded from . The unix version of the executable was obtained and installed on Sun server (420E) under Solaris 7.0.
FASTA Executable is available at
ftp://ftp.virginia.edu/pub/fasta