Schema for LTR_Finder - LTR Fragments Identified by LTR

Schema for LTR_Finder - LTR Fragments Identified by LTR_Finder

Database: DmojImproved Primary Table: ltr_finder_repeat Row Count: 12,627

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	improved_6498	`varchar(255)`	values
`chromStart`	1237	`int(10) unsigned`	range
`chromEnd`	17504	`int(10) unsigned`	range
`name`	LTRfinder_repeat_1	`varchar(255)`	values
`score`	6	`int(10) unsigned`	range
`strand`	-	`char(1)`	values

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand
585	improved_6498	1237	17504	LTRfinder_repeat_1	6	-
585	improved_6498	1237	13226	LTRfinder_repeat_0	6	+
585	improved_6498	5392	15938	LTRfinder_repeat_3	6	-
585	improved_6498	5392	13226	LTRfinder_repeat_2	6	+
585	improved_6498	5709	13226	LTRfinder_repeat_4	6	+
585	improved_6498	116222	124351	LTRfinder_repeat_5	6	-
586	improved_6498	178775	191347	LTRfinder_repeat_6	6	-
586	improved_6498	180010	188421	LTRfinder_repeat_7	7	-
586	improved_6498	184851	204321	LTRfinder_repeat_8	6	-
586	improved_6498	186326	191347	LTRfinder_repeat_9	6	-

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

LTR_Finder (ltr_finder) Track Description


	Description LTR_Finder is used to identify putative LTR retrotransposons in the D. mojavensis genome. References Zhao Xu, Hao Wang LTR_FINDER: an efficient tool for the prediction of full-length LTR retrotransposons. Nucleic Acids Research. 2007 July; 35(Web Server issue): W265-W268.

Description