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. 2018 Jul 2;46(W1):W246-W251.
doi: 10.1093/nar/gky425.

CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins

David Couvin  1 , Aude Bernheim  2   3 , Claire Toffano-Nioche  1 , Marie Touchon  2   3 , Juraj Michalik  4 , Bertrand Néron  5 , Eduardo P C Rocha  2   3 , Gilles Vergnaud  1 , Daniel Gautheret  1 , Christine Pourcel  1
Affiliations

CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins

David Couvin et al. Nucleic Acids Res. .

Abstract

CRISPR (clustered regularly interspaced short palindromic repeats) arrays and their associated (Cas) proteins confer bacteria and archaea adaptive immunity against exogenous mobile genetic elements, such as phages or plasmids. CRISPRCasFinder allows the identification of both CRISPR arrays and Cas proteins. The program includes: (i) an improved CRISPR array detection tool facilitating expert validation based on a rating system, (ii) prediction of CRISPR orientation and (iii) a Cas protein detection and typing tool updated to match the latest classification scheme of these systems. CRISPRCasFinder can either be used online or as a standalone tool compatible with Linux operating system. All third-party software packages employed by the program are freely available. CRISPRCasFinder is available at https://crisprcas.i2bc.paris-saclay.fr.

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Figures

Figure 1.
Figure 1.
CRISPRCasFinder workflow.
Figure 2.
Figure 2.
Output of CRISPRCasFinder. (A) The summary displays information on CRISPR arrays and cas gene clusters in the order in which they lie along the chromosome. “Direction” is the proposed orientation of the CRISPR cluster according to the CRISPRDirection program. (B) Details on individual CRISPR arrays and cas gene clusters can be viewed.
See this image and copyright information in PMC

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