CRISPRcompar specifications

Information


Unique identifier OMICS_03721
Name CRISPRcompar
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Ibtissem Grissa <>

Publication for CRISPRcompar

CRISPRcompar in publications

 (11)
PMCID: 5177637
PMID: 28066391
DOI: 10.3389/fmicb.2016.02077

[…] associated cas genes, and direct repeats were identified within the respective cyanobacterium genome bins of r. reptotaenium ao1 () and geitlerinema sp. bbd_1991 () with crisprfinder, crisprdb and crisprcompar (). only confirmed crispr arrays were considered. to assess protospacers and potential self-targeting spacers, crispr arrays were compared to: (a) publicly available databases: viral […]

PMCID: 5154133
PMID: 27964731
DOI: 10.1186/s12864-016-3346-2

[…] from rebase (the restriction enzyme database) []. prophage regions were predicted using phast []. crispr arrays were identified using crisprfinder [], and the genomes crispr content compared using crisprcompar []. spacer sequences were searched against the genbank-phage, refseq-plasmid, refseq-viral and genbank-environmental databases (accessed 1/10/2015) using crisprtarget [] in addition […]

PMCID: 4667477
PMID: 26626322
DOI: 10.1186/s12864-015-2216-7

[…] for the presence of clustered regularly interspaced short palindromic repeats (crisprs) against the crisprdb database [] using the crisprfinder tool [] and any such sequences compared using the crisprcompar website []. however, although questionable crisprs were identified for all genomes, no confirmed crisprs were uncovered by this analysis. questionable crisprs include small crisprs […]

PMCID: 4634907
PMID: 26537657
DOI: 10.1186/s12864-015-2026-y

[…] shifts) was conducted using fasta program packages [, ] and blast [, ]. the coding differences between the hn016 and ym001 genomes were checked manually., crisprdb database, crisprs finder, and crisprcompar were used to display crisprs, generate dictionary of spacers and repeats, and compare crisprs (http://crispr.u-psud.fr/) [–]. phast (http://phast.wishartlab.com/index.html) was used […]

PMCID: 4592067
PMID: 26431037
DOI: 10.1371/journal.pone.0139115

[…] for salmonella (http://www.pasteur.fr/recherche/genopole/pf8/crispr/crisprdb.html). no matching spacers or direct repeats were assigned according to appropriate spacer nomenclature []. we used crisprcompar for spacer arrangement analysis and dnastar version 7.1.0 (lasergene) for single nucleotide polymorphism analysis []., the phs operon, containing the phsa, phsb, and phsc genes, […]


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CRISPRcompar institution(s)
Univ Paris-Sud 11, CNRS, UMR8621, Institut de Génétique et Microbiologie, Orsay, France; DGA/D4S - Mission pour la Recherche et l’Innovation Scientifique, Armées, France

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