Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
  Database: galVar1    Primary Table: microsat    Row Count: 39,713   Data last updated: 2016-03-04
Format description: Browser extensible data
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 586smallint(5) unsigned range Indexing field to speed chromosome range queries.
chrom NW_007726111v1varchar(255) values Reference sequence chromosome or scaffold
chromStart 172934int(10) unsigned range Start position in chromosome
chromEnd 172974int(10) unsigned range End position in chromosome
name 20xTGvarchar(255) values Name of item

Sample Rows
 
binchromchromStartchromEndname
586NW_007726111v117293417297420xTG
586NW_007726111v124565524575834xAGT
587NW_007726111v126513826519418xTAG
587NW_007726111v130377830381116xAG
587NW_007726111v134793734798021xAC
587NW_007726111v138610538613615xAC
588NW_007726111v141548141553828xAG
588NW_007726111v148909148913321xAC
589NW_007726111v156022756026217xAC
589NW_007726111v157289757296031xTC

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