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Table 1 Population genetic parameters inferred from 19 microsatellites and genome-wide SNPs for nine populations of Arabidopsis halleri. Allelic richness (A r), expected heterozygosity (SSR-H e) and inbreeding coefficient F IS including its one-sided p-value (i.e. heterozygote deficiency) are given. No F IS value was significantly different from zero after Bonferroni correction. θ Watterson was calculated for 20,617 genes. Expected heterozygosity (SNP-H e) was calculated from all SNPs across the genome. Tajima’s D was calculated for 22,210 genes, p-values refer to deviations from zero (t-test)

From: Estimating genomic diversity and population differentiation – an empirical comparison of microsatellite and SNP variation in Arabidopsis halleri

Population

Microsatellites

SNPs

 

A r

SSR-H e

F IS

F IS p-values

θ Watterson

SNP-H e

Tajima’s D

Tajima’s D p-values

Aha09

2.7

0.392

0.073

0.051

0.0088

0.154

−0.029

<0.001

Aha11

2.6

0.318

0.043

0.217

0.0081

0.138

−0.114

<0.001

Aha18

2.6

0.360

−0.015

0.386

0.0086

0.152

−0.009

0.743

Aha19

2.8

0.332

−0.084

0.027

0.0086

0.150

−0.033

<0.001

Aha21

2.7

0.404

0.075

0.075

0.0083

0.148

−0.021

0.106

Aha31

3.1

0.387

0.068

0.082

0.0093

0.157

−0.119

<0.001

AhaN1

2.9

0.465

0.081

0.030

0.0092

0.155

−0.169

<0.001

AhaN3

3.1

0.399

0.110

0.010

0.0089

0.154

−0.151

<0.001

AhaN4

2.2

0.343

0.058

0.151

0.0067

0.119

−0.103

<0.001

Mean

2.7

0.378

0.045

 

0.0085

0.148

−0.083