Table 3

The numbers of hotspot-SNP pairs, and the numbers of hotspots and SNPs involved in those pairs

Number of hotspot-SNP pairs

Number of hotspots in the pairs

Number of SNPs in the pairs

SNPs outside hotspots

Total

99,899

781

44,713

Real (q < 0.01)

1,430

115

1,361

Random (q < 0.01)

85

18

85

Intersection of real and random

45

11

45

SNPs inside hotspots

Total

1,440

615

1,436

Real (q < 0.01)

67

44

67

Random (q < 0.01)

4

2

4

Intersection of real and random

3

2

3

SNPs inside or outside hotspots

Total

101,339

781

44,896

Real (q < 0.01)

1,497

120

1,426

Random (q < 0.01)

89

18

89

Intersection of real and random

48

11

48

If a hotspot or a SNP is involved in multiple pairs, we counted it only once.

Zheng et al. Genome Biology 2010 11:R103   doi:10.1186/gb-2010-11-10-r103