title: GWFASTA: server for FASTA search in eukaryotic and microbial genomes.
abstract: Similarity searches are a powerful method for solving important biological problems such as database scanning, evolutionary studies, gene prediction, and protein structure prediction. FASTA is a widely used sequence comparison tool for rapid database scanning. Here we describe the GWFASTA server that was developed to assist the FASTA user in similarity searches against partially and/or completely sequenced genomes. GWFASTA consists of more than 60 microbial genomes, eight eukaryote genomes, and proteomes of annotatedgenomes. Infact, it provides the maximum number of databases for similarity searching from a single platform. GWFASTA allows the submission of more than one sequence as a single query for a FASTA search. It also provides integrated post-processing of FASTA output, including compositional analysis of proteins, multiple sequences alignment, and phylogenetic analysis. Furthermore, it summarizes the search results organism-wise for prokaryotes and chromosome-wise for eukaryotes. Thus, the integration of different tools for sequence analyses makes GWFASTA a powerful toolfor biologists.
authors.affiliation: Institute of Microbial Technology, Chandigarh, India.
authors.forename: Biju
authors.initials: B
authors.lastname: Issac
authors.forename: G P S
authors.initials: GP
authors.lastname: Raghava
mesh_terms: D003199:Computer Systems; D003205:Computing Methodologies; D003628:Database Management Systems; D034742:Electronic Mail; D016678:Genome; D016247:Information Storage and Retrieval / Q000379:methods; D020407:Internet; D016415:Sequence Alignment / Q000295:instrumentation / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000295:instrumentation / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000295:instrumentation / Q000379:methods; D014584:User-Computer Interface