PILER-CR: fast and accurate identification of CRISPR repeats.

ABSTRACT:

Background

Sequencing of prokaryotic genomes has recently revealed the presence of CRISPR elements: short, highly conserved repeats separated by unique sequences of similar length. The distinctive sequence signature of CRISPR repeats can be found using general-purpose repeat- or pattern-finding software tools. However, the output of such tools is not always ideal for studying these repeats, and significant effort is sometimes needed to build additional tools and perform manual analysis of the output.

Results

We present PILER-CR, a program specifically designed for the identification and analysis of CRISPR repeats. The program executes rapidly, completing a 5 Mb genome in around 5 seconds on a current desktop computer. We validate the algorithm by manual curation and by compa

SUBMITTER: Edgar RC 

PROVIDER: S-EPMC1790904 | biostudies-literature | 2007 Jan

REPOSITORIES: biostudies-literature