Repeat search

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Tandem repeats

satellites (spanning megabases of DNA, associated with heterochromatin)
minisatellites (repeat units in the range 6-100 bp, spanning hundreds of base-pairs)
microsatellites (repeat units in the range 1-5 bp, spanning a few tens of nucleotides).

Software Packages

MUMer repeat-match : does not classify the repeats
RepeatModeler
RepeatScout
RepeatMasker ; RepBase : mostly eukariotic genomes
Microorganisms Tandem Repeats Database (Online,FR)
CRISPRfinder (Online,FR); Article
TRF

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