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

Database: DereCAF1 Primary Table: microsat Row Count: 146 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	scaffold_3327	`varchar(255)`	values
`chromStart`	9745	`int(10) unsigned`	range
`chromEnd`	9999	`int(10) unsigned`	range
`name`	84xATA	`varchar(255)`	values

Sample Rows

bin	chrom	chromStart	chromEnd	name
585	scaffold_3327	9745	9999	84xATA
585	scaffold_437	0	56	28xTG
585	scaffold_4496	12318	12369	25xTA
588	scaffold_4512	504390	504421	15xAG
593	scaffold_4512	1173058	1173105	23xAT
589	scaffold_4644	558466	558529	31xCT
591	scaffold_4644	818701	818759	29xGT
596	scaffold_4644	1467880	1467912	16xCA
596	scaffold_4644	1476637	1476670	16xAC
599	scaffold_4644	1888545	1888580	17xAT

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