Top > Science > Biology > Bioinformatics > Online Services > Homology Detection

» BLAST - NCBI's sequence similarity search tool designed to support analysis of nucleotide and protein databases.

» ESPript - Formating of multiple sequence alignments to a color postscript file. Can include graphical features by using PDB entry.

» 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.

» GWBLAST - Genome-Wide BLAST search for similarity searching against genes or proteins. Integrated with multiple alignments and phylogenetic tree capabilities.

» 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

» Interactive Blast Query - Utility for online manipulation of Blast results. Results organized in a table format.

» 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.

» Meta-MEME - Software toolkit for building and using motif-based hidden Markov models of DNA and proteins - from the Univ. of California-San Diego.

» mreps : maximal tandem repeats search - Open source tool for identifying serial repeats (tandem repeats) in DNA sequences.

» PatternHunter - Commercial general homology search software significantly faster than BLAST.

» 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.

» WU-BLAST Archives - Sensitive, selective, and rapid sequence database searching with gapped alignments - from Washington Univ.-St.Louis.

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