Schema for D. mojavensis CAF1 Difference - Difference with D. mojavensis CAF1 Assembly

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Schema for D. mojavensis CAF1 Difference - Difference with D. mojavensis CAF1 Assembly

Database: DmojImproved Primary Table: diffDmojWGS Row Count: 3,203

field	example	SQL type	info
`bin`	585	`smallint(5) unsigned`	range
`chrom`	improved_6498	`varchar(255)`	values
`chromStart`	47814	`int(10) unsigned`	range
`chromEnd`	48960	`int(10) unsigned`	range

Sample Rows

bin	chrom	chromStart	chromEnd
585	improved_6498	47814	48960
595	improved_6498	1380581	1380582
595	improved_6498	1386685	1387294
595	improved_6498	1391842	1391978
595	improved_6498	1392078	1392832
595	improved_6498	1405577	1406364
595	improved_6498	1406375	1406376
595	improved_6498	1435141	1435146
595	improved_6498	1435705	1435707
596	improved_6498	1451272	1451332

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

D. mojavensis CAF1 Difference (diffDmojWGS) Track Description


	Description This track depicts the differences between the D. mojavensis Comparative Analysis Freeze 1 (CAF1) assembly and the improved D. mojavensis assembly produced by the GEP. The two assemblies are aligned against each other using LAST with default parameters followed by the UCSC whole genome alignment protocol. References Chain/Net Kent WJ, Baertsch R, Hinrichs A, Miller W, and Haussler D. Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes. Proc Natl Acad Sci USA 2003 100(20): 11484-11489. LAST Kielbasa SM, Wan R, Sato K, Horton P, Frith MC. Adaptive seeds tame genomic sequence comparison. Genome Res. 2011 Mar;21(3):487-93.