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LASTZ

LASTZ is a program for aligning DNA sequences, a pairwise aligner. Originally designed to handle sequences the size of human chromosomes and from different species, it is also useful for sequences produced by high-throughput sequencing technologies such as Roche 454.

LASTZ is available as a module on Apocrita.

Usage

To run the latest installed version of LASTZ, simply load the lastz module:

module load lastz
lastz -h

For full usage documentation, run lastz -h

Example job

Serial job

Here is an example job using 1 core and 1GB of memory:

#!/bin/bash
#$ -cwd
#$ -j y
#$ -pe smp 1
#$ -l h_vmem=1G
#$ -l h_rt=1:0:0

module load lastz

lastz example1.fasta example2.fasta > output

References