TOOLS FOR SEQUENCE ANALYSIS

NCBI provides access to various sequence analysis tools, including:

BLAST

The Basic Local Alignment Search Tool (BLAST) for comparing gene and protein sequences against others in public databases, comes in several types including PSI-BLAST, PHI-BLAST, and BLAST 2 sequences.

Conserved Domain Database (CDD)

A collection of sequence alignments and profiles representing protein domains conserved in molecular evolution. The CD Search Service can be used to search CDD.

Electronic-PCR (e-PCR)

Can be used to compare a query sequence to mapped sequence-tagged sites to find a possible map location for the query sequence.

Entrez Gene

Find information on sequence analyses for a particular gene and organism.

Gene Expression Omnibus (GEO)

GEO provides several tools to assist with the visualization and exploration of curated GEO data.

ORF Finder

A graphical analysis tool that finds all open reading frames of a selected minimum size in a user's sequence or in a sequence already in the database.

Open Mass Spectrometry Search Algorithm

OMSSA allows for identification of MS/MS peptide spectra by searching libraries of known protein sequences.

Trace Archive

Developed to store the raw sequence data underlying sequences generated by various genome projects.

VecScreen

A tool for identifying segments of a nucleic acid sequence that may be of vector, linker, or adapter origin before using Tools for Sequence Analysis or submission.