Sequence Analysis in a Nutshell: A Guide to Common Tools and Databases

Kent, W. James. 2002. BLAT The BLAST-Like Alignment Tool. Genome Research 12 (4):656-664.

Main page

http://genome.ucsc.edu/cgi-bin/hgBlat?command=start

User guide

http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html

Download

http://www.soe.ucsc.edu/~kent/exe/