Table 3.

Call rates on reference genome NA12878, a healthy individual. Although the number of damaging coding and non-coding variants in a healthy individual’s genome is still unknown, presumably damaging variants comprise a low percentage of the total. Relative percentages are shown in the top panel, absolute numbers are shown in the bottom. Rare variants denotes variants with gnomAD population frequencies < 1/1000

	All Variants (%)			Rare Variants (%)
CODING	VVP	CADD	SIFT	VVP	CADD	SIFT
Pathogenic	4.0	11.1	13.2	23.5	31.7	24.5
Benign	96.0	88.9	58.1	76.5	68.6	56.9
Not Scored	0.0	0.0	28.7	0	0.0	18.6
NON-CODING	VVP	CADD	SIFT	VVP	CADD	SIFT
Pathogenic	1.7	3.5	0	43.23	4.33	0
Benign	98.3	96.5	0	56.77	95.67	0
Not Scored	0	0	100	0	0	100
	All Variants (variants)			Rare Variants (variants)
CODING	VVP	CADD	SIFT	VVP	CADD	SIFT
Pathogenic	577	1577	1883	48	64	50
Benign	13,710	12,710	8304	156	140	116
Not Scored	0.0	0.0	4100	0	0.0	38
NON-CODING	VVP	CADD	SIFT	VVP	CADD	SIFT
Pathogenic	31,079	64,571	0	3769	378	0
Benign	1,825,253	1,791,761	0	4949	8340	0
Not Scored	0	0	1,856,322	0	0	8718