Schema for Combined Repeats - RepeatMasker using Combined Custom Repeat Libraries

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Schema for Combined Repeats - RepeatMasker using Combined Custom Repeat Libraries

Database: DmojImproved Primary Table: centroids Row Count: 153,591

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	improved_6498	`varchar(255)`	values
`chromStart`	0	`int(10) unsigned`	range
`chromEnd`	768	`int(10) unsigned`	range
`name`	DmojImproved_PILER_0.124	`varchar(255)`	values
`score`	4494	`int(10) unsigned`	range
`strand`	-	`char(1)`	values
`thickStart`	0	`int(10) unsigned`	range
`thickEnd`	768	`int(10) unsigned`	range
`itemRgb`	15095053	`int(10) unsigned`	range
`blockCount`	1	`int(10) unsigned`	range
`blockSizes`	768	`longblob`
`chromStarts`	0	`longblob`

Sample Rows

bin	chrom	chromStart	chromEnd	name	score	strand	thickStart	thickEnd	itemRgb	blockCount	blockSizes	chromStarts
585	improved_6498	0	768	DmojImproved_PILER_0.124	4494	-	0	768	230,85,13	1	768	0
585	improved_6498	770	1209	DmojImproved_recon_115	2995	+	770	1209	0,0,200	1	439	0
585	improved_6498	1234	4624	DmojImproved_recon_2	30748	+	1234	4624	230,85,13	1	3390	0
585	improved_6498	4608	6536	DmojImproved_recon_127	12487	+	4608	6536	230,85,13	1	1928	0
585	improved_6498	5700	8324	DmojImproved_RpM_1_family-33	22723	+	5700	8324	0,0,128	1	2624	0
585	improved_6498	7233	9261	DmojImproved_recon_577	13958	+	7233	9261	0,0,64	1	2028	0
585	improved_6498	8136	9926	DmojImproved_recon_581	11217	+	8136	9926	230,85,13	1	1790	0
585	improved_6498	9300	15073	DmojImproved_recon_752	5015	-	9300	15073	230,85,13	2	1022,848	0,4925
585	improved_6498	10324	10944	DmojImproved_recon_577	3961	+	10324	10944	0,0,64	1	620	0
585	improved_6498	10463	13236	DmojImproved_RpM_1_family-33	24125	+	10463	13236	0,0,128	1	2773	0

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

Combined Repeats (centroids) Track Description


	Description This track shows the transposon fragments identified by RepeatMasker using the combined transposon library created by the GEP. References Smit AFA, Hubley R, Green P. RepeatMasker Open-3.0. http://www.repeatmasker.org. 1996-2010.