Introduction

BLAT on DNA is designed to quickly find sequences of 95% and greater similarity of length 25 bases or more. It may miss more divergent or shorter sequence alignments. It will find perfect sequence matches of 20 bases. BLAT on proteins finds sequences of 80% and greater similarity of length 20 amino acids or more. In practice DNA BLAT works well on primates, and protein blat on land vertebrates.

usage

module display bioinformatics/blat/35.0

Installation

cd /sw/blat/35.0/src
unzip blatSrc35.zip
mv /sw/blat/35.0/src/blatSrc/*  /sw/blat/35.0/


echo $MACHTYPE
x86_64-redhat-linux-gnu
MACHTYPE=x86_64
export MACHTYPE

mkdir -p ~/bin/x86_64
make
mv ~/bin/x86_64 /sw/blat/35.0/bin

Reference

1. http://www.mail-archive.com/genome@lists.soe.ucsc.edu/msg03116.html
2. http://genome.ucsc.edu