Overview

PatternHunter is a general-purpose homology search tool, based on innovative and proprietary technologies. It provides all the tools necessary for fast and sensitive homology search in all flavors including DNA-DNA, Protein-Protein, translated DNA-protein, and translated DNA-DNA searches. It is recognized and used by leading genomics centers around the world.

PatternHunter is fast. Working with the Mouse Genome Sequence Consortium, PatternHunter finished comparing the mouse genome with the human genome in 20 CPU-days (Nature, 420(6915):520-522. December 2002)., while BLAST needs at least 20 CPU-years to do the same at the same sensitivity.

PatternHunter is sensitive. BLAST was invented to trade speed with sensitivity. With our proprietary multiple optimal spaced seed technology, PatternHunter improves speed and sensitivity simultaneously. See Bioinformatics, 18(3):440-445. March 2002. PatternHunter can even approach to the Smith-Waterman exhaustive dynamic programming sensitivity at a speed 3000 times faster than Smith-Waterman. GIW, 164-175, 2003