| Directory > Science > Biology > Bioinformatics > Online Services > Homology Detection Interactive Blast Query
Utility for online manipulation of Blast results. Results organized in a table format.
http://www.aridolan.com/biq/Query.aspx
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ESPript
Formating of multiple sequence alignments to a color postscript file. Can include graphical
features by using PDB entry.
http://prodes.toulouse.inra.fr/ESPript/ESPript/index.php
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Sequence Alignment and Modeling System
Implementation of hidden Markov models for sequence analysis. Free UNIX software for nonprofit
groups, and sequences can be submitted online.
http://www.cse.ucsc.edu/research/compbio/sam.html
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GWBLAST
Genome-Wide BLAST search for similarity searching against genes or proteins. Integrated with
multiple alignments and phylogenetic tree capabilities.
http://www.imtech.res.in/raghava/gwblast/
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DeCypher II
Smith-Waterman protein and nucleic acid database search program - from TimeLogic Corp.
http://171.65.26.24/algo-sw/swexample_aa.shtml
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HMM library for all proteins of known structure
This is a server for structural superfamily assignments to protein sequences using Hidden Markov
Models. The services included are: -homology searching -alignments -genome assignments
http://supfam.mrc-lmb.cam.ac.uk/SUPERFAMILY/
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The ISREC Group Servers
Detection and assessment of similarity between distantly related sequences by means of a variety of
remotely-executable software - from the Swiss Inst. for Experimental Cancer Research.
http://www.isrec.isb-sib.ch/
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Meta-MEME v2.0.1
Software toolkit for building and using motif-based hidden Markov models of DNA and proteins - from
the Univ. of California-San Diego.
http://metameme.sdsc.edu/
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GeneStream II
Sequence comparision and search programs, including the rigorous Smith-Waterman algorithm (in FastA
and Ssearch) - from the IGH, Montpellier FR.
http://xylian.igh.cnrs.fr/
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GeneMatcher
Access to Smith-Waterman-based FDF sequence comparison program, with excellent explanation of when
to use it vs. BLAST - from the Univ. of Lausanne, FR.
http://www.ch.embnet.org/software/GMFDF_form.html
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BLAST
NCBI's sequence similarity search tool designed to support analysis of nucleotide and protein
databases.
http://www.ncbi.nlm.nih.gov/BLAST/
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WU-BLAST Archives
Sensitive, selective, and rapid sequence database searching with gapped alignments - from
Washington Univ.-St.Louis.
http://blast.wustl.edu
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