GWFASTA

GWFASTA performs similarity searches of nucleotide and protein sequences against a collection of sequenced genomes and proteomes to support comparative genomics, gene prediction, evolutionary analysis, and protein structure inference.

Key Features:

• Extensive Database Coverage: Provides access to over 60 microbial genomes, eight eukaryotic genomes, and proteomes from annotated genomes for similarity searches.
• Multi-Sequence Query Capability: Accepts multiple sequences submitted as a single FASTA query to enable batch comparative analyses.
• Integrated Post-Processing Tools: Applies compositional analysis of proteins, multiple sequence alignment, and phylogenetic analysis to search results.
• Organized Search Results: Reports results organized organism-wise for prokaryotes and chromosome-wise for eukaryotes.

Scientific Applications:

• Database Scanning: Identifies homologous sequences within extensive genomic and proteomic databases using FASTA similarity searches.
• Evolutionary Studies: Enables analysis of evolutionary relationships and construction of phylogenetic trees from sequence similarities.
• Gene Prediction: Aids identification of potential genes by comparing query sequences against known genomes and proteomes.
• Protein Structure Prediction: Provides comparative sequence information to support inference of structural relationships for protein structure prediction.

Methodology:

Performs FASTA sequence similarity searches against the internal database, followed by compositional analysis of proteins, multiple sequence alignment, and phylogenetic analysis; organizes results organism-wise for prokaryotes and chromosome-wise for eukaryotes.