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Table 1 Samples, read coverage, SNP calls, and nucleotide diversity in the Exon Pilot dataset

From: The functional spectrum of low-frequency coding variation

Population

YRI

LWK

CHB

CHD

JPT

CEU

TSI

All

Samples

112

108

109

107

105

90

66

697

Technologies

ILL,454

454

ILL,454

ILL,454

ILL,454

ILL,454

ILL

ILL,454

SNPs

5,175

5,459

3,415

3,431

2,900

3,489

3,281

12,758

%dbSNP

53.8

50.1

52.6

50.3

57.9

65.9

65.6

30.36

Ts/Tv

3.56

3.67

3.74

3.64

3.67

3.47

3.53

3.82

Read coverage (first quartile)

18×

19×

18×

30×

20×

20×

20×

19×

Read coverage (median)

27×

25×

22×

36×

26×

43×

57×

29×

Read coverage (mean)

52×

25×

40×

49×

43×

69×

71×

48×

Read coverage (third quartile)

42×

32×

37×

44×

54×

98×

118×

49×

Heterozygosity, all sites

4.42

4.52

3.34

3.35

3.26

3.54

3.5

-

Heterozygosity, four-fold synonymous sites

9.24

9.16

6.6

6.63

6.43

7.12

7.04

-

Heterozygosity, three-fold synonymous sites

5.01

5.41

4.24

4.39

4.6

3.59

3.59

-

Heterozygosity, two-fold synonymous sites

6.04

6.16

4.447

4.42

4.37

4.74

4.68

-

Heterozygosity, non-synonymous sites

2.74

2.86

2.19

2.21

2.12

2.31

2.29

-

  1. Heterozygosity estimates are given in units of 10-4 per base pair. ILL: Illumina; Ts/Tv, transition/transversion ratio.