Schema for wMel Alignments - Regions with Sequence Similarity to wMel Genome Assembly

Database: dm6 Primary Table: wMel1_repeatmasker Row Count: 259

field	example	SQL type	info
`chrom`	chr2L	`varchar(255)`	values
`chromStart`	113031	`int(10) unsigned`	range
`chromEnd`	113178	`int(10) unsigned`	range
`name`	AE017196	`varchar(255)`	values
`score`	968	`int(10) unsigned`	range
`strand`	+	`char(1)`	values
`thickStart`	113031	`int(10) unsigned`	range
`thickEnd`	113178	`int(10) unsigned`	range
`reserved`	0	`int(10) unsigned`	range
`repeatClass`	Unspecified	`varchar(255)`	values
`swScore`	355	`int(10) unsigned`	range

Sample Rows

chrom	chromStart	chromEnd	name	score	strand	thickStart	thickEnd	repeatClass	swScore
chr2L	113031	113178	AE017196	968	+	113031	113178	Unspecified	355
chr2L	729689	729835	AE017196	965	-	729689	729835	Unspecified	271
chr2L	4418963	4419048	AE017196	966	-	4418963	4419048	Unspecified	258
chr2L	5527511	5527680	AE017196	963	-	5527511	5527680	Unspecified	362
chr2L	6061190	6062020	AE017196	963	-	6061190	6062020	Unspecified	1220
chr2L	6965443	6965550	AE017196	966	-	6965443	6965550	Unspecified	269
chr2L	7222473	7222760	AE017196	955	-	7222473	7222760	Unspecified	287
chr2L	8290732	8290787	AE017196	978	+	8290732	8290787	Unspecified	267
chr2L	8381110	8381353	AE017196	962	+	8381110	8381353	Unspecified	409
chr2L	9236530	9236588	AE017196	975	-	9236530	9236588	Unspecified	299

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

wMel Alignments (wMel1_alignments) Track Description

Description

This track shows the regions with sequence similarity to the genomic sequence of the Wolbachia wMel strain. The wMel genome sequence was obtained from the GenBank record NC_002978.

Reference

Wu M, et al. Phylogenomics of the reproductive parasite Wolbachia pipientis wMel: a streamlined genome overrun by mobile genetic elements. PLoS Biol. 2004 Mar;2(3):E69.