Bowtie is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences.
It is particularly good at aligning reads of about 50 up to 100s or 1,000s of characters, and particularly good at aligning to relatively long (e.g. mammalian) genomes. Bowtie indexes the genome with an FM Index to keep its memory footprint small: for the human genome, its memory footprint is typically around 3.2 GB. Bowtie supports gapped, local, and paired-end alignment modes.
Basic information about the package and its components can be found
in the doc folder distributed with this software module:
More information about Bowtie can be found on the website:
A Demo for using the Bowtie package can be found in
In case of problems, please contact 'email@example.com'.