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Tandem repeats occur in DNA a pattern of two or more nucleotides is repeated and the repetitions are directly adjacent to each other. 1
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Example
An example would be:
- ATTCGATTCGATTCG
in which the sequence ATTCG is repeated three or more times.
Terminology
When between 10 and 60 nucleotides are repeated, it is called a minisatellite. Those with fewer are known as microsatellites or short tandem repeats.
When exactly two nucleotides are repeated, it is called a "dinucleotide repeat"; when three are repeated, it is called a "trinucleotide repeat" (as in trinucleotide repeat disorders.)
When the number is not known, variable, or irrelevant, it is sometimes called a variable number tandem repeat. MeSH classifies variable number tandem repeats under minisatellites.2
Uses
Tandem repeat describes a pattern that helps determine an individual's inherited traits.
Tandem repeats can be very useful in determining parentage. Short tandem repeats are used for certain genealogical DNA tests.
DNA is examined from microsatellite within the chromosomal DNA. Minisatellite is another way of saying special regions of the loci. Polymerase chain reaction (or PCR) is performed on the minisatellite areas. The PCR must be performed on each organism being tested. The amplified material is then run through electrophoresis. By checking the percentage of bands that match, parentage is determined.
In the field of Computer Science, tandem repeats in strings (e.g. DNA sequences) can be efficiently detected using suffix trees or suffix arrays.
See also
References
External links
- Examples :
- VNTRs - info and animated example
- Databases :
- Search tools :
- Tandem Repeats Finder
- Mreps
- STAR
- TRED - Tandem Repeats over the Edit Distance
- TandemSWAN
- Microsatellite repeats finder
- JSTRING - Java Search for Tandem Repeats in genomes
- Phobos - a tandem repeat search tool for perfect and imperfect repeats - the maximum pattern size depends only on computational power
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Wikipedia content modification information:
- This page was last modified on 4 October 2008, at 16:07.
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