Table 2.

Number of filtered SNPs generated through de novo SNP discovery in the skim global diversity panel.

Skim level	Minimum read depth	No. of SNPs in de novo skim sets	% of list-based SNPs identified by de novo discovery	Fold increase in SNP no.	Increase in SNP no.
0.25x	5	5,591	100	44.0	5,464
	4	7,573	100	36.8	7,367
	3	10,310	100	19.5	9,781
	2	16,674	99.94	5.3	13,537
0.5x	5	11,224	100	19.0	10,633
	4	14,659	99.92	11.6	13,396
	3	20,245	99.97	6.1	16,952
	2	39,520	99.99	2.3	21,987
1x	5	23,157	99.95	5.6	18,992
	4	33,985	99.98	3.3	23,717
	3	63,924	99.99	1.9	30,766
	2	225,924	99.998	1.2	44,818
2x	5	100,028	99.98	1.6	39,089
	4	220,638	99.99	1.3	55,316
	3	541,071	99.997	1.2	82,063
	2	1,309,224	99.999	1.1	115,856
3x	5	354,623	97.28	1.2	56,520
	4	732,973	97.72	1.1	77,304
	3	1,429,815	97.81	1.1	96,726
	2	2,354,165	98.34	1.1	125,131
4x	5	825,813	97.59	1.1	83,815
	4	1,456,258	97.83	1.1	107,080
	3	2,348,359	97.92	1.1	124,455
	2	3,121,869	98.50	1.1	192,144
5x	5	1,394,073	97.65	1.1	108,046
	4	2,167,536	97.80	1.1	129,092
	3	3,080,766	97.9	1.0	145,193
	2	3,650,078	98.59	1.1	344,248