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_rt Row Count: 192

field	example	SQL type	info
`bin`	586	`smallint(5) unsigned`	range
`chrom`	improved_6498	`varchar(255)`	values
`chromStart`	257385	`int(10) unsigned`	range
`chromEnd`	257847	`int(10) unsigned`	range
`name`	LTRfinder_rt_14	`varchar(255)`	values
`score`	8	`int(10) unsigned`	range
`strand`	-	`char(1)`	values

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand
586	improved_6498	257385	257847	LTRfinder_rt_14	8	-
587	improved_6498	372312	372888	LTRfinder_rt_24	9	+
587	improved_6498	372312	372888	LTRfinder_rt_25	8	+
591	improved_6498	902880	903384	LTRfinder_rt_56	7	-
617	improved_6680	4264330	4264837	LTRfinder_rt_2413	8	+
642	improved_6680	7557404	7557911	LTRfinder_rt_2415	8	-
706	improved_6680	15953312	15953819	LTRfinder_rt_2452	6	-
760	improved_6680	23021051	23021507	LTRfinder_rt_2463	7	+
760	improved_6680	23021051	23021507	LTRfinder_rt_2462	7	+
760	improved_6680	23021051	23021507	LTRfinder_rt_2461	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