Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
  Database: equCab3    Primary Table: microsat    Row Count: 10,322   Data last updated: 2018-05-25
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 18442int(10) unsigned range Start position in chromosome
chromEnd 18474int(10) unsigned range End position in chromosome
name 16xATvarchar(255) values Name of item

Sample Rows
 
binchromchromStartchromEndname
585chr1184421847416xAT
586chr122871622875821xTA
587chr129824229827717xTG
593chr11086925108695515xCA
597chr11693985169402419xCA
599chr11917817191785217xGT
601chr12174968217500619xTG
603chr12442355244239520xAT
611chr13490430349046115xAC
613chr13733369373340015xAC

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