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Table 2 A summary of observed LD among marker pairs and the number of significant marker pairs per chromosome and genome using original SNPs

From: Genome-wide association study of agronomic traits in bread wheat reveals novel putative alleles for future breeding programs

Chromosome

varieties

Landraces

TNMP

r2

Distance

(cM)

SMP

TNMP

r2

Distance

(cM)

SMP

1A

17,718

0.1106

5.9776

4338 (24.48)

22,647

0.0813

5.1594

5835 (25.77)

1B

24,887

0.1465

3.8458

6559 (26.36)

28,687

0.0963

3.8538

9506 (33.14)

1D

10,568

0.2104

9.3147

3773 (35.70)

13,133

0.1195

10.5104

4337 (33.02)

2A

21,453

0.1341

4.2847

5487 (25.58)

25,306

0.1154

3.9947

8527 (33.70)

2B

36,066

0.1327

3.3614

9728 (26.97)

33,314

0.0925

3.4718

10,666 (32.02)

2D

12,523

0.2959

6.0466

4741 (37.86)

16,319

0.1976

6.1044

5473 (33.54)

3A

21,696

0.1159

7.5667

4831 (22.27)

19,424

0.0748

7.4690

4629 (23.83)

3B

31,120

0.1327

3.8233

8632 (27.74)

33,719

0.0974

3.8089

10,860 (32.21)

3D

4274

0.1117

14.9170

713 (16.68)

7601

0.0994

17.2124

1782 (23.44)

4A

16,982

0.1484

6.6126

4548 (26.78)

17,092

0.1164

7.0726

5002 (29.27)

4B

11,382

0.1679

6.8900

3505 (30.79)

8498

0.0608

8.6884

1554 (18.29)

4D

1918

0.1836

22.8230

492 (25.65)

2329

0.1422

22.8137

1037 (44.53)

5A

15,226

0.1217

6.3518

3614 (23.74)

17,683

0.0867

6.8862

5281 (29.86)

5B

28,463

0.1427

5.4429

8533 (29.98)

29,599

0.0728

5.4563

7454 (25.18)

5D

5524

0.1049

23.4950

848 (15.35)

6152

0.0742

27.2205

1339 (21.77)

6A

16,916

0.1120

6.4506

3578 (21.15)

18,115

0.1161

6.4866

6739 (37.20)

6B

23,696

0.1456

3.5509

7080 (29.88)

28,304

0.0729

3.9161

7225 (25.53)

6D

6899

0.1150

16.5648

1375 (19.93)

8454

0.0828

16.0911

2112 (24.98)

7A

25,653

0.1506

4.8667

6132 (23.90)

30,419

0.1052

4.7313

8988 (29.55)

7B

26,657

0.1136

4.1457

5843 (21.92)

27,880

0.0807

3.9193

7821 (28.05)

7D

8689

0.1822

16.5774

2191 (25.22)

11,063

0.0996

15.7344

2766 (25.00)

A genome

135,644

0.1289

5.9344

32,528 (23.98)

150,686

0.0994

5.9714

45,001 (29.86)

B genome

182,271

0.1372

4.1911

49,880 (27.37)

190,001

0.0819

4.7307

55,086 (28.99)

D genome

50,395

0.1928

13.2910

14,133 (28.04)

65,051

0.1165

16.5267

18,846 (28.97)

Total

368,310

0.1321

6.0783

96,541 (26.21)

405,738

0.0968

6.3498

118,933 (29.31)

  1. TNMP: Total no. of marker pairs, SMP: Significant marker pairs (P<0.01)