Schema for Gap - Gap Locations

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Schema for Gap - Gap Locations

Database: DpseGB3 Primary Table: gap Row Count: 4,595 Data last updated: 2022-10-20

field	example	SQL type	info
`bin`	585	`smallint(6)`	range
`chrom`	CH379058	`varchar(255)`	values
`chromStart`	14158	`int(10) unsigned`	range
`chromEnd`	14208	`int(10) unsigned`	range
`ix`	3306	`int(11)`	range
`n`	N	`char(1)`	values
`size`	50	`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	CH379058	14158	14208	3306	N	50	contig	yes
585	CH379058	117962	118679	3308	N	717	contig	yes
587	CH379058	306572	306757	3310	N	185	contig	yes
588	CH379058	506857	506858	3312	N	1	contig	yes
589	CH379058	534395	535023	3314	N	628	contig	yes
589	CH379058	606287	606288	3316	N	1	contig	yes
591	CH379058	825228	825229	3318	N	1	contig	yes
592	CH379058	981405	981406	3320	N	1	contig	yes
592	CH379058	983096	983098	3322	N	2	contig	yes
592	CH379058	1001979	1001980	3324	N	1	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. pseudoobscura 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.