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

Database: DanaCAF1 Primary Table: microsat Row Count: 118 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	scaffold_12422	`varchar(255)`	values
`chromStart`	74629	`int(10) unsigned`	range
`chromEnd`	74674	`int(10) unsigned`	range
`name`	22xTA	`varchar(255)`	values

Sample Rows

bin	chrom	chromStart	chromEnd	name
585	scaffold_12422	74629	74674	22xTA
585	scaffold_12578	5273	5333	30xTA
586	scaffold_12613	193149	193199	25xAT
585	scaffold_12903	53423	53455	16xCA
586	scaffold_12903	197364	197400	18xAC
586	scaffold_12903	228061	228091	15xTG
590	scaffold_12903	727346	727379	16xAC
591	scaffold_12911	801319	801355	18xGA
608	scaffold_12911	3022251	3022292	20xAC
618	scaffold_12911	4329552	4329582	15xCA

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