Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
  Database: canFam3    Primary Table: microsat    Row Count: 61,492   Data last updated: 2015-05-23
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 chr1varchar(255) values Reference sequence chromosome or scaffold
chromStart 231143int(10) unsigned range Start position in chromosome
chromEnd 231176int(10) unsigned range End position in chromosome
name 16xTCvarchar(255) values Name of item

Sample Rows
 
binchromchromStartchromEndname
586chr123114323117616xTC
586chr123943623948022xCA
587chr129467829471418xCT
587chr130729230733923xAC
587chr131671131676125xTC
587chr135628935632216xTG
587chr137454937458417xGT
587chr137929937934121xCA
588chr141578741582318xGT
589chr164237364240516xAG

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