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_ppt Row Count: 11,949

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	improved_6498	`varchar(255)`	values
`chromStart`	3027	`int(10) unsigned`	range
`chromEnd`	3042	`int(10) unsigned`	range
`name`	LTRfinder_ppt_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	3027	3042	LTRfinder_ppt_1	6	-
585	improved_6498	6245	6260	LTRfinder_ppt_3	6	-
585	improved_6498	10239	10254	LTRfinder_ppt_2	6	+
585	improved_6498	10675	10690	LTRfinder_ppt_4	6	+
585	improved_6498	10998	11013	LTRfinder_ppt_0	6	+
585	improved_6498	116681	116696	LTRfinder_ppt_5	6	-
586	improved_6498	178927	178942	LTRfinder_ppt_6	6	-
586	improved_6498	181006	181021	LTRfinder_ppt_7	7	-
586	improved_6498	185304	185319	LTRfinder_ppt_8	6	-
586	improved_6498	186478	186493	LTRfinder_ppt_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