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Table 4 Statistics of significantly associated SNPs and indels

From: Association genetics studies on frost tolerance in wheat (Triticum aestivum L.) reveal new highly conserved amino acid substitutions in CBF-A3, CBF-A15, VRN3 and PPD1 genes

Gene/Polymorphism name

CDS and promotor site

P-value

-Log of P

Polymorphism

Effect in %

Observationsa

CBF-A3_SNP1

222

6.28E-10

9.20

A

C

 

15.01

0.00

 

193

42

 

CBF-A3_SNP2

263

6.28E-10

9.20

C

G

 

15.01

0.00

 

193

42

 

CBF-A3_SNP3

367

6.28E-10

9.20

A

G

 

15.01

0.00

 

193

42

 

CBF-A3_SNP4

407

6.28E-10

9.20

C

T

 

15.01

0.00

 

193

42

 

CBF-A5_indel1

−83

6.00E-3

2.22

C

–

 

−4.52

0.00

 

141

84

 

CBF-A10_SNP1

471

6.28E-10

9.20

C

T

 

15.01

0.00

 

193

42

 

CBF-A10_SNP2

518

6.28E-10

9.20

G

C

 

15.01

0.00

 

193

42

 

CBF-A13_SNP1

−11

6.28E-10

9.20

T

C

 

15.01

0.00

 

193

42

 

CBF-A13_indel3

19

6.28E-10

9.20

T

–

 

15.01

0.00

 

193

42

 

CBF-A13_SNP2

92

6.28E-10

9.20

G

A

 

15.01

0.00

 

193

42

 

CBF-A13_indel2

133

6.28E-10

9.20

–

C

 

15.01

0.00

 

193

42

 

134

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

135

6.28E-10

9.20

–

T

 

15.01

0.00

 

193

42

 

136

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

137

6.28E-10

9.20

–

C

 

15.01

0.00

 

193

42

 

138

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

139

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

140

6.28E-10

9.20

–

C

A

15.22

0.00

6.75

193

41

1

141

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

142

6.28E-10

9.20

–

C

 

15.01

0.00

 

193

42

 

143

6.28E-10

9.20

–

A

 

15.01

0.00

 

193

42

 

144

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

145

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

146

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

147

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

148

6.28E-10

9.20

–

C

 

15.01

0.00

 

193

42

 

149

6.28E-10

9.20

–

A

 

15.01

0.00

 

193

42

 

150

6.28E-10

9.20

–

A

 

15.01

0.00

 

193

42

 

151

6.28E-10

9.20

–

C

 

15.01

0.00

 

193

42

 

152

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

153

6.28E-10

9.20

–

C

 

15.01

0.00

 

193

42

 

154

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

155

4.00E-10

9.40

–

G

 

15.01

0.00

 

193

42

 

156

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

157

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

158

6.28E-10

9.20

–

C

 

15.01

0.00

 

193

42

 

159

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

160

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

161

6.28E-10

9.20

–

T

 

15.01

0.00

 

193

42

 

162

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

163

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

164

6.28E-10

9.20

–

G

 

15.01

0.00

 

193

42

 

CBF-A13_SNP3

294

6.28E-10

9.20

C

A

 

15.01

0.00

 

193

42

 

CBF-A14_indel1

−506

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

− 505

6.28E-10

9.20

T

–

 

15.01

0.00

 

193

42

 

− 504

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

−503

6.28E-10

9.20

A

–

 

15.01

0.00

 

193

42

 

− 502

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

−501

6.28E-10

9.20

T

–

 

15.01

0.00

 

193

42

 

−500

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

− 499

6.28E-10

9.20

T

–

 

15.01

0.00

 

193

42

 

−498

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

− 497

6.28E-10

9.20

A

–

 

15.01

0.00

 

193

42

 

−496

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

− 495

6.28E-10

9.20

T

–

 

15.01

0.00

 

193

42

 

CBF-A14_SNP1

− 449

6.28E-10

9.20

T

C

 

15.01

0.00

 

193

42

 

CBF-A14_SNP2

− 158

6.28E-10

9.20

T

C

 

15.01

0.00

 

193

42

 

CBF-A14_SNP3

−53

6.57E-10

9.18

C

G

 

15.01

0.00

 

193

42

 

CBF-A14_SNP4

576

6.28E-10

9.20

G

A

 

15.01

0.00

 

193

42

 

CBF-A15_SNP1

84

6.28E-10

9.20

C

T

 

15.01

0.00

 

193

42

 

CBF-A15_SNP2

243

6.28E-10

9.20

T

C

 

15.01

0.00

 

193

42

 

CBF-A15_SNP3

293

6.28E-10

9.20

C

T

 

15.01

0.00

 

193

42

 

CBF-A15_SNP4

397

6.28E-10

9.20

G

A

 

15.01

0.00

 

193

42

 

CBF-A15_indel1

503

6.28E-10

9.20

T

–

 

15.01

0.00

 

193

42

 

504

6.28E-10

9.20

C

–

 

15.01

0.00

 

193

42

 

505

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

506

6.28E-10

9.20

T

–

 

15.01

0.00

 

193

42

 

507

6.28E-10

9.20

C

–

 

15.01

0.00

 

193

42

 

508

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

509

6.28E-10

9.20

T

–

 

15.01

0.00

 

193

42

 

510

6.28E-10

9.20

C

–

 

15.01

0.00

 

193

42

 

511

6.28E-10

9.20

G

–

 

15.01

0.00

 

193

42

 

CBF-A15_SNP5

694

6.28E-10

9.20

A

G

 

15.01

0.00

 

193

42

 

CBF-A15_SNP6

716

6.28E-10

9.20

C

G

 

15.01

0.00

 

193

42

 

PPD-D1_indel1

1266

3.77E-2

1.42

–

C

 

3.96

0.00

 

68

166

 

1267

3.77E-2

1.42

–

G

 

3.96

0.00

 

68

166

 

1268

3.77E-2

1.42

–

T

 

3.96

0.00

 

68

166

 

1269

3.77E-2

1.42

–

C

 

3.96

0.00

 

68

166

 

1270

3.77E-2

1.42

–

G

 

3.96

0.00

 

68

166

 

VRN-A1_SNP1

349

3.03E-4

3.52

C

T

Y

0.00

1.35

0.11

24

2

209

VRN-B3_SNP1

19

3.76E-2

1.43

C

G

 

3.05

0.00

 

105

128

 
  1. CDS coding DNA sequence, P probability, Log logarithm
  2. anumber of genotypes per allele