Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
  Database: danRer11    Primary Table: microsat    Row Count: 127,131   Data last updated: 2017-06-05
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 6811int(10) unsigned range Start position in chromosome
chromEnd 6856int(10) unsigned range End position in chromosome
name 22xAGvarchar(255) values Name of item

Sample Rows
 
binchromchromStartchromEndname
585chr16811685622xAG
585chr17006704821xCA
585chr17974803329xGT
585chr19520955216xGT
585chr1125211256321xGT
585chr1134701350015xTG
585chr1142401428623xTG
585chr1151471521031xTG
585chr1162361627519xGT
585chr1163771644835xTG

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