Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
  Database: rn6    Primary Table: microsat    Row Count: 243,669   Data last updated: 2015-05-23
Format description: Browser extensible data
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
chromStart 5764int(10) unsigned range Start position in chromosome
chromEnd 5815int(10) unsigned range End position in chromosome
name 25xATvarchar(255) values Name of item

Sample Rows
 
binchromchromStartchromEndname
585chr15764581525xAT
585chr1541975425118xTAT
586chr120753720757117xGT
586chr124116024120723xGA
587chr127480327485417xTAT
587chr132163132168828xAG
588chr139501939506221xAC
588chr139506139511024xAG
588chr139992739997222xAC
588chr139997140001220xAG

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

Microsatellite (microsat) Track Description
 

Description

This track displays regions that are likely to be useful as microsatellite markers. These are sequences of at least 15 perfect di-nucleotide and tri-nucleotide repeats and tend to be highly polymorphic in the population.

Methods

The data shown in this track are a subset of the Simple Repeats track, selecting only those repeats of period 2 and 3, with 100% identity and no indels and with at least 15 copies of the repeat. The Simple Repeats track is created using the Tandem Repeats Finder. For more information about this program, see Benson (1999).

Credits

Tandem Repeats Finder was written by Gary Benson.

References

Benson G. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 1999 Jan 15;27(2):573-80. PMID: 9862982; PMC: PMC148217