It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its memory footprint small: typically about 2.2 GB for the human genome (2.9 GB for paired-end).

Version: 1.1.2 (MARCONI) 1.3.0 (G100)

Availability: GALILEO100, MARCONI

Target: all

Official web site:

Related Commands:

You can load the module with the command:

module load bowtie

A set of precompiled genomic indexes have been placed under $BOWTIE_INDEXES. In case you need additional genomic indexes, contact

Help and Documentation:

You can find documentation on the system, with the command

module help bowtie 

The manual is on the web at the original home page (

CINECA consultants can be reached through the address: