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

Database: dm6 Primary Table: wMel1_megablast Row Count: 54

field	example	SQL type	info
`bin`	631	`smallint(5) unsigned`	range
`matches`	417	`int(10) unsigned`	range
`misMatches`	220	`int(10) unsigned`	range
`repMatches`	0	`int(10) unsigned`	range
`nCount`	0	`int(10) unsigned`	range
`qNumInsert`	2	`int(10) unsigned`	range
`qBaseInsert`	2	`int(10) unsigned`	range
`tNumInsert`	2	`int(10) unsigned`	range
`tBaseInsert`	2	`int(10) unsigned`	range
`strand`	-	`char(2)`	values
`qName`	AE017196	`varchar(255)`	values
`qSize`	1267782	`int(10) unsigned`	range
`qStart`	935850	`int(10) unsigned`	range
`qEnd`	936489	`int(10) unsigned`	range
`tName`	chr2L	`varchar(255)`	values
`tSize`	23513712	`int(10) unsigned`	range
`tStart`	6061203	`int(10) unsigned`	range
`tEnd`	6061842	`int(10) unsigned`	range
`blockCount`	5	`int(10) unsigned`	range
`blockSizes`	60,8,314,5,250,	`longblob`
`qStarts`	331293,331354,331362,331677...	`longblob`
`tStarts`	6061203,6061263,6061272,606...	`longblob`

Sample Rows

bin	matches	misMatches	qNumInsert	qBaseInsert	tNumInsert	tBaseInsert	strand	qName	qSize	qStart	qEnd	tName	tSize	tStart	tEnd	blockCount	blockSizes	qStarts	tStarts
631	417	220	2	2	2	2	-	AE017196	1267782	935850	936489	chr2L	23513712	6061203	6061842	5	60,8,314,5,250,	331293,331354,331362,331677,331682,	6061203,6061263,6061272,6061586,6061592,
662	201	87	0	0	0	0	+	AE017196	1267782	472364	472652	chr2L	23513712	10190177	10190465	1	288,	472364,	10190177,
664	262	107	3	8	3	8	-	AE017196	1267782	300702	301079	chr2L	23513712	10357051	10357428	7	85,4,9,21,155,3,92,	966703,966788,966792,966805,966829,966984,966988,	10357051,10357139,10357147,10357156,10357177,10357333,10357336,
676	377	188	4	8	4	5	-	AE017196	1267782	954443	955016	chr2L	23513712	12000141	12000711	9	90,6,116,5,255,14,7,4,68,	312766,312856,312863,312979,312986,313244,313258,313265,313271,	12000141,12000232,12000238,12000356,12000361,12000616,12000631,12000639,12000643,
693	228	112	1	1	1	1	+	AE017196	1267782	892064	892405	chr2R	25286936	14253745	14254086	3	257,6,77,	892064,892321,892328,	14253745,14254003,14254009,
693	91	37	0	0	0	0	+	AE017196	1267782	893000	893128	chr2R	25286936	14254852	14254980	1	128,	893000,	14254852,
719	467	251	3	4	5	10	+	AE017196	1267782	935559	936281	chr2R	25286936	17596192	17596920	9	67,13,3,8,113,11,323,19,161,	935559,935628,935641,935644,935652,935765,935777,936100,936120,	17596192,17596259,17596275,17596281,17596291,17596405,17596416,17596740,17596759,
719	134	60	1	1	1	1	+	AE017196	1267782	936429	936624	chr2R	25286936	17597068	17597263	3	48,5,141,	936429,936478,936483,	17597068,17597116,17597122,
732	709	393	5	12	6	15	-	AE017196	1267782	418482	419596	chr2R	25286936	19393115	19394232	12	120,134,11,19,7,58,6,224,10,103,10,400,	848186,848306,848440,848454,848476,848483,848541,848549,848774,848784,848890,848900,	19393115,19393238,19393376,19393387,19393406,19393415,19393475,19393481,19393705,19393716,19393819,19393832,
756	135	59	0	0	0	0	-	AE017196	1267782	969315	969509	chr2R	25286936	22493307	22493501	1	194,	298273,	22493307,

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.