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Table 1 Genome assembly statistics for three strains of Verticillium dahliae

From: Dynamics of Verticillium dahliae race 1 population under managed agricultural ecosystems

Strain

VdLs.16

JR2

VdLs.17

Genome assembly

 

Scaffold

Contig

Scaffold

Contig

Scaffold

Contig

Total number

14

17

8

8

8

8

Total length of (bp)

36,092,517

36,089,483

36,150,287

36,150,287

35,973,870

35,973,870

Gap number (bp)

3034

0

0

Average length (bp)

2,578,037

2,122,911

4,518,786

4,518,786

4,496,734

4,496,734

N50 length (bp)

4,722,744

3,663,785

4,168,633

4,168,633

5,894,008

5,894,008

N90 length (bp)

2,532,149

2,375,583

3,361,230

3,361,230

3,290,897

3,290,897

Maximum length (bp)

8,087,087

8,087,087

9,275,483

9,275,483

6,210,300

6,210,300

Minimum length (bp)

50,807

41,068

3,277,570

3,277,570

3,272,870

3,272,870

GC content (%)

53.8

53.8

53.88

53.88

54

54

Genome prediction

Protein-coding genes

10,799

10,875

10,825

Length of genes (bp)

18,863,221

19,050,607

19,146,372

Mean gene length (bp)

1,747

1752

1769

Gene GC %

58.56

58.49

58.46

Length of CDS (bp)

16,527,821

16,720,002

16,761,722

Mean length of CDS (bp)

1530

1537

1548

CDS GC %

59.41

59.31

59.29

Exon no.

31,232

31,303

31,696

Coding gene with introns

1.89

1.87

1.92

Mean exons per gene

2.89

2.87

2.92

Mean exons length (bp)

529

534

529

Intron no.

20,433

20,428

20,871

Mean intron length (bp)

114

114

114

Intron GC %

52.26

52.25

52.29

Mean intergenic length (bp)

1584

1571

1553

No. of transposons

4870

4665

5262

Total length of transposons (bp)

3,879,742

4,057,098

4,803,307

Percentage in genome

10.7494

11.2228

13.3522

Genome annotation

Secretome

797

803

803

CAZymes

588

589

590

Pectin degradation

36

35

35

Cellulose degradation

84

84

82

Hemicellulose degradation

67

67

65

Ligin degradation

4

5

4

CAZymes (secreted)

266

268

270

SCRPs

302

313

297

LysM effectors

6

6

7

NLPs

7

7

8

Protein kinases

150

156

154

Transcription factors

432

482

500

PHI homologs

2797

2778

2789