Finishing a whole-genome shotgun: Release 3 of the Drosophila melanogastereuchromatic genome sequence

Table 2 Sequence content of gaps in Release 2

	X		2L		2R		3L		3R		4		Subtotals		Total
Total gaps	743		154		145		269		189		31				1531
	D*	U^†	D	U	D	U	D	U	D	U	D	U	D	U
	606	137	86	68	77	68	189	80	128	61	21	10	1107	424	1531
															0
Content
TEs	61	42	48	33	42	42	52	47	50	39	9	5	262	208	470
Simple repeats	353	10	19	9	15	4	109	2	38	9	10	2	544	36	580
Homopolymers	10	0	1	0	3	0	2	0	3	0	0	0	19	0	19
Unique sequence	150	23	13	8	8	11	21	24	28	3	1	0	221	69	290
Tandem repeats	14	34	1	12	3	6	0	0	1	10	0	1	19	63	82
Missassemblies	3	18	1	4	1	2	0	1	7	0	1	0	13	25	38
Gross misassemblies	1	0	1	1	3	0	0	0	1	0	0	1	6	2	8
Not yet determined	14	10	2	1	2	3	5	6	0	0	0	1	23	21	44

Analysis of the sequence gaps in Release 2 determined by comparison with Release 3 (see text for details).*Declared (D) gaps represented in Release 2 by sets of Ns. ^†Undeclared (U) gaps not recognized in Release 2, and identified by comparison to Release 3.

ISSN: 1474-760X