Skip to main content

Table 1 Summary statistics based on sequence variation in the LTα gene

From: Multiple selective sweeps of ancient polymorphisms in and around LTα located in the MHC class III region on chromosome 6

Population

2N

S

Singletons

h-diversity

θπ

θW

DT

H

M-K test

DN

DS

PN

PS

ACB

192

16

3

0.721

1.34 × 10−3

1.25 × 10− 3

0.190

−0.247

0.400

0

2

3

1

ASW

120

12

1

0.760

1.39 × 10−3

1.02 × 10− 3

0.942

0.341

0.100

0

2

3

0

ESN

198

13

3

0.704

1.22 × 10−3

1.01 × 10− 3

0.511

−0.956

0.333

0

2

2

0

GWD

226

13

4

0.700

1.32 × 10−3

9.90 × 10− 4

0.816

0.204

0.333

0

2

2

0

LWK

198

10

2

0.660

1.18 × 10−3

7.80 × 10− 4

1.208

−0.439

0.333

0

2

0

2

MSL

162

10

1

0.709

1.29 × 10−3

8.00 × 10− 4

1.449

−0.007

0.100

0

2

3

0

YRI

214

15

5

0.742

1.36 × 10−3

1.15 × 10− 3

0.460

−0.107

0.333

0

2

2

0

BEB

168

13

2

0.741

1.19 × 10−3

1.04 × 10− 3

0.364

1.340

0.067

0

2

4

0

GIH

206

13

3

0.736

1.25 × 10−3

1.00 × 10− 3

0.603

1.102

0.100

0

2

3

0

ITU

198

13

1

0.763

1.27 × 10−3

1.01 × 10− 3

0.638

0.896

0.100

0

2

3

0

PJL

186

12

2

0.744

1.33 × 10−3

9.40 × 10−4

1.014

0.681

0.067

0

2

4

0

STU

198

14

4

0.734

1.33 × 10−3

1.09 × 10− 3

0.570

0.569

0.100

0

2

3

0

FIN

198

12

1

0.808

1.48 × 10−3

9.30 × 10−4

1.433

1.365

0.100

0

2

3

0

GBR

178

15

4

0.775

1.41 × 10−3

1.19 × 10− 3

0.486

0.724

0.100

0

2

3

0

IBS

214

15

3

0.728

1.34 × 10−3

1.15 × 10− 3

0.416

0.285

0.067

0

2

4

0

TSI

214

18

5

0.780

1.39 × 10−3

1.38 × 10− 3

0.011

0.995

0.400

0

2

3

1

CDX

186

8

2

0.616

1.19 × 10−3

6.30 × 10−4

1.974

−0.643

0.067

0

3

4

0

CHB

206

13

2

0.694

1.32 × 10−3

1.00 × 10− 3

0.774

0.138

0.143

0

2

4

1

CHS

210

9

3

0.610

1.19 × 10−3

6.90 × 10−4

1.620

−0.792

0.100

0

2

3

0

JPT

208

12

3

0.644

1.28 × 10−3

9.20 × 10−4

0.942

−0.440

0.429

0

2

3

2

KHV

198

15

5

0.687

1.33 × 10−3

1.17 × 10− 3

0.369

−0.009

0.048

0

2

5

0

  1. Tajima’s D (DT) measures the difference between two estimates of nucleotide diversity, θπ and θw. Fay and Wu’s H (H) measures an excess of high compared to intermediate frequency variants. Statistical significance for each statistic was determined by comparing observed estimates to expected values under different scenarios of population growth (Additional file 2: Tables S3 and S4) Numbers in bold indicate significance at P < 0.05. 2N is the number of gene copies analyzed in each population; S is the number of segregating sites; h is the number of haplotypes; and h-diversity is the haplotype diversity. The number of singletons is listed for each population. The number of silent polymorphic sites (PS), replacement polymorphic sites (PN), silent divergent sites (DS), and replacement divergent sites (DN) in the LTα coding region is also given. Statistical significance for the McDonald–Kreitman (M-K) test was determined using the Fisher’s exact test; significant (P < 0.05) values are given in bold
Back to article page

BMC Ecology and Evolution

ISSN: 2730-7182

Contact us