Schema for Assembly - Assembly from Fragments

JavaScript is disabled in your web browser

You must have JavaScript enabled in your web browser to use the Genome Browser

Schema for Assembly - Assembly from Fragments

Database: DsuzGB1 Primary Table: gold Row Count: 24,878

field	example	SQL type	info
`bin`	73	`smallint(6)`	range
`chrom`	KI419149	`varchar(255)`	values
`chromStart`	0	`int(10) unsigned`	range
`chromEnd`	235197	`int(10) unsigned`	range
`ix`	1	`int(11)`	range
`type`	W	`char(1)`	values
`frag`	AWUT01000001	`varchar(255)`	values
`fragStart`	0	`int(10) unsigned`	range
`fragEnd`	235197	`int(10) unsigned`	range
`strand`	+	`char(1)`	values

Sample Rows

bin	chrom	chromStart	chromEnd	ix	type	frag	fragStart	fragEnd	strand
73	KI419149	0	235197	1	W	AWUT01000001	0	235197	+
73	KI419149	235282	366514	3	W	AWUT01000002	0	131232	+
73	KI419149	366630	473682	5	W	AWUT01000003	0	107052	+
73	KI419149	473795	945947	7	W	AWUT01000004	0	472152	+
592	KI419149	950871	985502	9	W	AWUT01000005	0	34631	+
9	KI419149	985775	1119093	11	W	AWUT01000006	0	133318	+
74	KI419149	1119163	1180669	13	W	AWUT01000007	0	61506	+
594	KI419149	1180688	1210439	15	W	AWUT01000008	0	29751	+
594	KI419149	1210946	1236550	17	W	AWUT01000009	0	25604	+
594	KI419149	1236562	1283483	19	W	AWUT01000010	0	46921	+

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

Assembly (gold) Track Description


	Description This track shows the draft assembly of the D. suzukii genome. Whole-genome shotgun reads were assembled into contigs and when possible, contigs were grouped into scaffolds (also known as "supercontigs"). The order, orientation and gap sizes between contigs within a scaffold are based on paired-end read evidence. In dense mode, this track depicts the contigs that make up the currently-viewed scaffold. Contig boundaries are distinguished by the use of alternating gold and brown coloration. Where gaps exist between contigs, spaces are shown between the gold and brown blocks. The relative order and orientation of the contigs within a scaffold is always known; therefore, a line is drawn in the graphical display to bridge the blocks. All components within this track are of fragment type "W" (Whole Genome Shotgun contig).