Schema for Microsatellite - Microsatellites - Di-nucleotide and Tri-nucleotide Repeats

Database: DperCAF1 Primary Table: microsat Row Count: 1,018 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	591	`smallint(5) unsigned`	range
`chrom`	super_0	`varchar(255)`	values
`chromStart`	805487	`int(10) unsigned`	range
`chromEnd`	805518	`int(10) unsigned`	range
`name`	15xAG	`varchar(255)`	values

Sample Rows

bin	chrom	chromStart	chromEnd	name
591	super_0	805487	805518	15xAG
591	super_0	885022	885054	16xAC
591	super_0	885152	885188	18xAG
592	super_0	917973	918006	16xTC
592	super_0	944059	944102	21xAC
592	super_0	956227	956259	16xCT
592	super_0	967530	967569	19xCA
592	super_0	1045998	1046037	19xCA
593	super_0	1070734	1070765	15xAC
596	super_0	1506157	1506189	16xAG

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

Description