Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
  Database: taeGut2    Primary Table: microsat    Row Count: 3,144   Data last updated: 2015-05-22
Format description: Browser extensible data
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 66868int(10) unsigned range Start position in chromosome
chromEnd 66963int(10) unsigned range End position in chromosome
name 31xAGAvarchar(255) values Name of item

Sample Rows
 
binchromchromStartchromEndname
585chr1668686696331xAGA
585chr111433911444836xAGA
588chr147878947887328xTAT
588chr148205048211622xTAT
592chr192792192799223xTTA
592chr199544199548815xTAA
595chr11361212136126517xTAA
598chr11751806175185315xATA
598chr11757202175727925xATA
599chr11907006190705725xAT

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