Using MouseBLAST - Available BLAST Programs
More Help

This MouseBLAST Help document contains the following information:

Back to Overview

Which BLAST programs can I use with MouseBLAST?

You can use five different programs from the WU-BLAST version 2.0 package in MGI MouseBLAST. WU-BLAST, developed by Warren Gish at Washington University, is an implementation of the BLAST (Basic Local Alignment Search Tool) algorithm by Altschul et al., 1990.

BLASTNNucleotide query sequence against nucleotide sequence database.
BLASTXNucleotide query sequence translated in all reading frames against a protein sequence database. You can use this option to find potential translation products of an unknown nucleotide sequence.
TBLASTX Six-frame translations of a nucleotide query sequence against the six-frame translations of a nucleotide sequence database.
BLASTP Amino acid query sequence against a protein sequence database.
TBLASTN Protein query sequence against a nucleotide sequence database dynamically translated in all six reading frames (both strands).

What's the history of BLAST?

The Basic Local Alignment Search Tool (BLAST) was first published by Stephen Altschul, Warren Gish, Webb Miller, Eugene Myers, and David Lipman1 in 1990 from the NCBI. After September 1994, Warren Gish at Washington University started to release enhanced versions of BLAST, WU-BLAST (then at version 1.4). Until that time, there was a single source for BLAST at the NCBI (also at version 1.4).

Where can I find additional information?

The NCBI provides BLAST FAQs and a course on the Statistics of Sequence Similarity Scores. Additional BLAST resources are available at the NCBI BLAST site.


  1. Altschul, SF, Gish, W, Miller, W, Myers, EW, Lipman, DJ. Basic local alignment search tool. J. Mol. Biol. (1990), 215(3), 403-10.
  2. Altschul, SF, Madden, TL, Schaffer, AA, Zhang, J, Zhang, Z, Miller, W, Lipman, DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. (1997), 25(17), 3389-402.
  3. Zhang, Z, Schaffer, AA, Miller, W, Madden, TL, Lipman, DJ, Koonin, EV, Altschul, SF. Protein sequence similarity searches using patterns as seeds. Nucleic Acids Res. (1998), 26(17), 3986-90.