Table 1. WGS metrics.

		TGen data		GSC data		Illumina data		Pleasance data
		COLO829BL	COLO829	COLO829BL	COLO829	COLO829BL	COLO829	COLO829BL	COLO829
	Mapped reads	2,226,992,988	2,214,792,580	2,626,814,448	2,516,031,030	2,569,616,093	2,890,861,222	1,703,131,862	2,092,759,741
	Mapped paired Reads	2,215,137,161	2,204,283,295	2,600,711,902	2,494,669,592	2,564,928,975	2,888,165,980	1,694,413,815	2,083,919,389
	Median insert size	341	341	400	409	348	336	197	203
	% Alignment	99.0	99.4	99.0	99.1	99.0	99.1	99.3	99.4
	Average coverage	79.42	79.37	101.51	97.22	129.19	120.41	24.29	37.56
	Properly paired reads	2,183,906,643	2,180,616,978	2,518,297,733	2,422,792,278	2,542,369,674	2,864,033,284	1,684,269,960	2,066,734,682
	Mapped bases	246,067,396,020	247,815,655,476	324,367,737,235	310,765,322,484	258,096,280,820	290,447,668,499	126,036,007,551	154,431,022,209
TGen Pipe	Ti/Tv Ratio	4.255		3.88		3.97		4.08
	dbSNP rate	0.06		0.0435		0.0465		0.0663
	#somatic SNVs called	42,122		39,805		40,438		34,695
	#somatic indels called	3,505		6,939		6,315		36,635
GSC Pipe	Ti/Tv Ratio	2.84		3.39		3.25		3.41
	dbSNP rate	0.043		0.032		0.042		0.033
	#somatic SNVs called	45,740		42,428		44,424		39,833
	#somatic indels called	748		693		683		424
Illumina Pipe	Ti/Tv Ratio	3.0058		3.51		3.49		3.59
	dbSNP rate	0.046		0.039		0.042		0.037
	#somatic SNVs called	421,901		40,683		41,287		34,050
	#somatic indels called	597		547		546		327