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Table 4 Nested clusters of repetitive elements in the Mycosphaerella graminicola genome with an LTR retrotransposon as base element and a verified target site duplication (TSD)

From: The landscape of transposable elements in the finished genome of the fungal wheat pathogen Mycosphaerella graminicola

Chr

Cluster start

Cluster end

Base family

Cluster size (bp)

Target site duplication

Internal family§

1

910,151

924,049

49

13,898

GGTAG

15

1

3,757,104

3,770,311

115

13,207

CCTAC

263

2

162,839

175,222

242

12,383

CTTAG

49

2

811,149

825,327

242

14,178

CTGTG

623

2

1,675,912

1,693,177

15

17,265

CGAC

242

2

1,868,450

1,894,757

263

26,307

AAGGT/C

(2477 (495, 623))

2

3,605,891

3,620,926

15

15,035

ACAGG

623

3

575,530

603,863

940

28,333

ATTGA

(263 (623, 115))

3

787,112

832,923

495

45,811

CTAC

(2477, 623, 633 (623), 49 (115))

3

1,573,516

1,594,725

495

21,209

CCAG

(1045, 2477)

3

2,416,365

2,433,023

15

16,658

CTGC

623

4

1,534,719

1,552,726

100

18,007

ATTAG

609

4

1,567,363

1,594,101

491

26,738

ATAC

(603, 623)

5

192,764

204,730

165

11,966

TTTTG

623

6

191,008

210,165

242

19,157

ATGA

(623, 242)

6

420,117

467,482

491

47,365

TGGAA

(263 (623), 623 (495))

6

771,418

802,180

491

30,762

GGATG/GGCCG

623 (x3)

6

2,542,200

2,570,636

100

28,436

CATTG

(623 (495))

7

1,261,818

1,284,705

633

22,887

GAGCT

495

7

1,787,729

1,808,698

165

20,969

GCATC

495

7

1,821,242

1,835,308

603

14,066

GCATA/G

623

7

2,535,616

2,549,001

242

13,385

ATATC

623

9

64,037

77,995

49

13,958

GATAG

623

9

79,932

109,217

603

29,285

CATTGG

623

9

962,581

977,124

49

14,543

CCAAT

1008

9

1,052,214

1,078,572

242

26,358

TATGA

(49 (263 (623)))

10

863,891

879,094

633

15,203

GCTGC

242

10

1,306,971

1,330,127

165

23,156

AGATA

(623 (623), 623)

12

609,353

623,337

940

13,984

GCTTC

49

13

1,028,648

1,051,790

100

23,142

G/CAAAG

495

14

411,612

433,895

603

22,283

TTAAG

495

14

587,485

599,441

165

11,956

CGGTT

623

15

192,089

204,601

242

12,512

GCTTT

623

16

510,094

526,146

15

16,052

TTCT

263

18

294,431

312,546

242

18,115

GAAGA

(623, 623)

  1. Columns: Chr, Chromosome. §The brackets represent the level on nesting.