• Blast with Microbial Genomes @ NCBI

• SALSA DNA and Protein Sequence Database Search against complete genomes @Norway

• COG Clusters of Orthologous Groups @ NCBI

• ORF Finder @ NCBI

• NCBI

• EBI

• BCM Search Launcher @ Human Genome Center, Baylor College of Medicine, Houston TX

• embNet.org Part of the Swiss Institute of Bioinformatics

• GenomeNet @ Kyoto University, Japan

• The Biology WorkBench @ SDSC

• IDEAS Integrated Database and Extended Analysis System for Nucleic Acids and Proteins

• Webgene server

• ANTHEPROT (ANalyse THE PROTein)

• BLAST search page @ GenomeNet, Kyoto, Japan

• BOXSHADE 3.21 Pretty Printing and Shading of Multiple-Alignment files

• CLUSTALW @ PBIL, France

• Consensus @ the Bork group, EMBL

• Tools for Alignment at the Bork group

• Divide-and-Conquer Multiple Sequence Alignment for high quality simultaneous multiple sequence alignments

• DIALIGN 2 especially suited to detect local similarities among distantly related sequences

• Multiple Alignment

• Multiple Alignment Resource Page

• TMAP

• ALIGN Compendium of Protein Sequence Alignments

• SeaView

• CINEMA Colour INteractive Editor for Multiple Alignments

• LalnView @ PBIL

• Match-Box Web Server 1.2 multiple sequences alignment of proteins

• VSNS BioComputing Division Multiple Alignment Resource Page

• MOTIF Searching Protein Sequence Motifs

• PRINTS Protein Motif Fingerprint Database

• Protein Functional Analysis @ BMERC

• ScanProsite Protein against PROSITE

• Paircoils predict the location of coiled-coil regions

• PROSITE Dictionary of protein sites and patterns

• Introduction to Phylogeny

• Taxonomy and Systematics @ Univ of Glasgow

• NJplot for parsimony, distance or maximum likelihood trees

• Unrooted

• PHYLIP a package of programs for inferring phylogenies

• PUZZLE Tree reconstruction for sequences by quartet puzzling and maximum likelihood

• Phylogenetic Tree prediction Putative phylogenetic trees prediction for sequence multiple alignment by cluster and topological algorithms

• TreeView

• MacClade

• Phylogeny and Reconstructing Phylogenetic Trees

• Phylogenetics Software Resources

• PDB

• The Dali server comparing protein structures in 3D @ EBI

• NDB Biological Structure Resource @ Rutgers Univ

• SCOP Structural Classification of Proteins

• FSSP - Fold classification based on Structure-Structure alignment of Proteins

• RasMol Home Page to display molecular structure

• Antibody Structure and Sequence Information

• NNPREDICT Protein Secondary Structure Prediction

• Protein Motions Database

• Image Library of Biological Macromolecules @ JENA

• WWW Signal Scan

• WWW Promoter Scan

• DPInteract DNA-Proteins interactions db

• Entrez The NCBI WWW Entrez Browser

• Sequence Retrieval System- SRS Network Browser for Databanks in Molecular Biology (@EBI)

• ExPASy

• PROSITE Dictionary of protein sites and patterns

• Query Databases @ EBI

• DBGET Integrated Database Retrieval System @ GenomeNet, Japan

• GeneMark @ EBI

• Correspondence Analysis of Codon Usage @ Oxford, UK

• RepeatMasker screens DNA against a library of repetitive elements and returns a masked query sequence ready for database searches

• dbEST Database of Expressed Sequence Tags @ NCBI

• ESSA an integrated and interactive computer tool for analyzing RNA secondary structure

• PSORT Prediction of Protein Sorting Signals and Localization Sites in AminoAcid Sequences

• GPCR Pattern Recognition

• Buffer calculator

• Sequin for submitting entries to the GenBank, EMBL, or DDBJ sequence databases

• Pole Bio-Informatique Lyonnais

• The BioCatalog a software directory @ EBI

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