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Bioinformatics & Genomics
Protein & Nucleic Acid Search Servers
Sequence Database Search Servers
BLAST & Post-Processing
FASTA
Smith-Waterman
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Advanced WU-BLAST2 Search
[EMBL] Sensitive similarity searches of protein and nucleotide sequence databases. A selection of 5 different programs and 5 different databases are available.
[more info][10344]
BEAUTY Post-Processor Program Description
[Baylor College of Medicine] “BEAUTY incorporates figures summarizing the information on the locations of local hits and any annotated domains and sites directly into BLAST search results.”
[more info][12133]
BLAST: Basic Local Alignment Search Tool
[National Center for Biotechnology Information] Performs sequence similarity searching against a variety of databases.
[more info][10351]
BLAST Search
[PIR] A search engine using the gapped-BLAST program developed at NCBI for a similarity search.
[more info][10438]
Installing NCBI’s BLAST2.x Executables
[NCBI] This is a quick guide to getting NCBI’s BLAST2.x installed on your system. BLAST2.x will run on Windows machines, but this document only refers to Unix installations.
[more info][12132]
MView
[National Institute for Medical Research] Converts the results of BLAST, FASTA, and other sequence database searches to a coloured multiple alignment of hits stacked against the query.
[more info][12135]
Octopus
[Laboratoire de Min�ralogie-Cristallographie] (Patrick Durand) Octopus is an interactive program designed for the rapid interpretation of BLAST, BLAST-2,
and FASTA output text files. It provides an easy-to-use graphical
user interface for both experienced and inexperienced users with
sequence comparison analysis based on the widely-used BLAST series of softwares.
[more info][12404]
PhyloBLAST
[Pathogenomics Project, Univ. British Columbia] Do molecular phylogenetics analysis of a protein sequence. Enter the sequence at the site. PhyloBLAST uses BLASTP to find related amino acid sequences in the Swiss-Prot database. Select those sequences desired, for a full phylogenetic analysis, satrting with a ClustalW multiple sequence alignment. A choice of Phylip programs, including parsimony, UPGMA, neighbor joining and distance matrix methods, produces a phylogenetic tree.
[more info][13729]
PRINTS BLAST Search
[University of Manchester] “This is an interface to a BLAST search of all protein sequences contained within the PRINTS database. The user entered sequence may be a protein or DNA sequence.”
[more info][12198]
Saturated BLAST
An automated multiple intermediate sequence search used to detect distant sequence
homology. Intermediate sequence search is a strategy for recognizing distant homologues using transitive sequences. This
method is useful when similarity between two remotely homologous sequences can not be detected by normal sequence
comparison.
[more info][13760]
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TAIR BLAST�
[The Arabidopsis Information Resource] A BLAST server located at the Arabidopsis Information Resource that uses NCBI BLAST 2.0, not WU-BLAST 2.0.
[more info][12136]
Webblast
[Hospital for Sick Children, Toronto] A perl program that conducts NCBI blast searches by acting as a WWW client like Netscape or Internet Explorer. The program saves results as local files in HTML or plain text.
[more info][11285]
WebBLAST
[National Human Genome Research Institute] NHGRI WebBLAST is a suite of downloadable software tools to aid in viewing and organizing genetic sequencing data.
[more info][11993]
WU-BLAST
[Washington Univ., St. Louis] This is software for gene and protein identification through sensitive, selective, and rapid similarity searches of protein and nucleotide sequence databases.
[more info][11288]