Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
  Database: mm10    Primary Table: microsat    Row Count: 197,237   Data last updated: 2012-02-09
Format description: Browser extensible data
fieldexampleSQL type info description
bin 607smallint(5) unsigned range Indexing field to speed chromosome range queries.
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
chromStart 3011924int(10) unsigned range Start position in chromosome
chromEnd 3011970int(10) unsigned range End position in chromosome
name 23xTAvarchar(255) values Name of item

Sample Rows
 
binchromchromStartchromEndname
607chr13011924301197023xTA
608chr13050072305017534xTTC
608chr13050954305100324xAC
608chr13078668307870016xTG
608chr13079494307954617xAAG
608chr13116454311651329xAT
608chr13122157312219117xAG
609chr13169224316925917xAC
609chr13189479318952716xTTA
609chr13193518319355518xTG

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