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Table 3 The number of SNPs and indels detected in each transcript-read pairing of 12 Ae. umbellulata accessions

From: RNA-seq analysis reveals considerable genetic diversity and provides genetic markers saturating all chromosomes in the diploid wild wheat relative Aegilops umbellulata

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Read

total NR SNPs and indels

KU-

4017

KU-

4026

KU-

4035

KU-

4043

KU-

4052

KU-

4103

KU-

5934

KU-

5954

KU-

12,180

KU-

12,198

KU-

8–5

KU-

8–7

KU-

 

2925

16,611

11,171

12,091

5316

24,975

14,064

29,726

23,244

13,400

24,601

85,758

4017

 

77

524

348

381

169

854

401

869

648

443

846

3284

KU-

10,754

 

16,535

11,666

12,869

5428

19,463

11,889

23,915

17,452

11,478

20,185

63,233

4026

350

 

612

429

420

153

762

405

787

565

412

754

2645

KU-

9069

3639

 

11,969

13,141

5372

25,450

14,991

30,925

23,575

13,356

25,797

89,369

4035

274

94

 

426

423

167

889

387

901

651

396

847

3303

KU-

9748

2959

17,571

 

11,772

5325

24,871

15,017

30,191

22,942

13,557

26,117

85,656

4043

287

83

611

 

404

155

867

423

883

662

459

809

3398

KU-

10,355

3393

20,370

11,585

 

5172

25,332

14,713

30,020

23,340

14,824

26,197

88,716

4052

347

92

665

408

 

153

848

406

951

716

493

872

3525

KU-

11,611

3811

19,020

13,758

13,022

 

21,807

13,405

25,741

19,851

14,038

21,764

71,071

4103

348

99

672

462

429

 

827

417

786

605

474

732

2932

KU-

14,265

3465

25,574

16,432

16,766

6131

 

13,619

31,109

23,359

15,968

25,591

89,344

5934

443

97

854

582

527

187

 

385

932

663

540

855

3489

KU-

15,032

3585

28,423

18,003

18,391

6424

25,505

 

30,219

22,205

17,868

25,394

91,059

5954

433

89

909

572

560

174

859

 

942

650

563

872

3723

KU-

24,232

6057

44,751

27,569

29,176

9695

42,984

27,022

 

24,142

30,721

34,445

99,411

12,180

698

163

1389

901

896

296

1384

768

 

719

935

1140

4246

KU-

21,096

5282

40,683

24,658

25,784

9259

39,208

22,641

26,570

 

27,036

31,815

100,683

12,198

614

117

1311

777

805

246

1263

627

809

 

813

1022

4085

KU-

12,822

3444

23,775

15,520

16,626

5893

24,993

15,271

30,526

23,495

 

25,746

91,080

8–5

375

100

784

558

577

164

907

439

952

689

 

860

3635

KU-

17,577

5041

33,501

20,936

21,374

7235

32,035

18,925

30,559

24,589

21,646

 

94,187

8–7

530

128

1068

694

650

227

1057

557

924

716

670

 

3728

  1. Upper and lower numbers at each comparison indicate SNPs and indels, respectively. NR non-redundant