Schema for Gap - Gap Locations

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Schema for Gap - Gap Locations

Database: DmirGB2 Primary Table: gap Row Count: 7,148 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(6)`	range
`chrom`	CM001516	`varchar(255)`	values
`chromStart`	2289	`int(10) unsigned`	range
`chromEnd`	2299	`int(10) unsigned`	range
`ix`	2	`int(11)`	range
`n`	N	`char(1)`	values
`size`	10	`int(10) unsigned`	range
`type`	contig	`varchar(255)`	values
`bridge`	yes	`varchar(255)`	values

Sample Rows

bin	chrom	chromStart	chromEnd	ix	n	size	type	bridge
585	CM001516	2289	2299	2	N	10	contig	yes
585	CM001516	6709	6719	4	N	10	contig	yes
585	CM001516	8284	10777	6	N	2493	contig	yes
585	CM001516	36154	36164	8	N	10	contig	yes
585	CM001516	38185	39241	10	N	1056	contig	yes
585	CM001516	98664	98674	12	N	10	contig	yes
586	CM001516	173741	173751	14	N	10	contig	yes
586	CM001516	176884	177807	16	N	923	contig	yes
586	CM001516	220211	220285	18	N	74	contig	yes
586	CM001516	244920	244950	20	N	30	contig	yes

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

Gap (gap) Track Description


	Description This track depicts gaps — represented by black boxes — in the D. miranda genome sequence. An assembly region is designated as a gap if the sequence contains a series of Ns. The minimum number of Ns that constitute a gap varies among assemblies.