PatternHunter is a fast and sensitive general-purpose homology search tool, supporting DNA-DNA, Protein-Protein, translated DNA-protein, and translated DNA-DNA searches. Utilized by hundreds of genomics centers around the world, PatternHunter provides a fundamental workbench for researcher of all levels.

PatternHunter is Fast.

Working with the Mouse Genome Sequence Consortium, PatternHunter finished comparing the mouse genome with the human genome in 20 CPU-days while BLAST required at least 20 CPU-years to do the same with the same sensitivity.¹

PatternHunter is Sensitive.

BLAST was invented to sacrifice sensitivity for speed. PatternHunter improves speed and sensitivity simultaneously using a multiple optimal spaced seed methodology. PatternHunter can even approach to the Smith-Waterman exhaustive dynamic programming sensitivity at a speed 3000 times faster than Smith-Waterman.²

In short, results obtained using PatternHunter will be available more rapidly and with high confidence, assets for any scientific study.

Footnote:

1. Li M, Brown D. Mouse Genome Sequencing Consortium. Initial sequencing and comparative analysis of the mouse genome. Nature. 420(6915):520-522. December 2002.
2. Ma B, Tromp J, Li M. PatternHunter: Faster and More Sensitive Homology Search. Bioinformatics. 2002 Mar;18(3):440-5.