Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
  Database: mm39    Primary Table: microsat    Row Count: 197,239   Data last updated: 2020-07-28
Format description: Browser extensible data
fieldexampleSQL type info description
bin 608smallint(5) unsigned range Indexing field to speed chromosome range queries.
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
chromStart 3054830int(10) unsigned range Start position in chromosome
chromEnd 3054886int(10) unsigned range End position in chromosome
name 28xACvarchar(255) values Name of item

Sample Rows
 
binchromchromStartchromEndname
608chr13054830305488628xAC
608chr13065706306576127xTC
608chr13082147308219323xTA
608chr13120295312039834xTTC
608chr13121177312122624xAC
609chr13148891314892316xTG
609chr13149717314976917xAAG
609chr13186677318673629xAT
609chr13192380319241417xAG
609chr13239447323948217xAC

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