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Table 1 Statistics of categorization and abundance of DGE tags

From: Digital gene expression analysis of gene expression differences within Brassica diploids and allopolyploids

Summary

 

B. rapa

B. nigra

B. oleracea

B. napus

B. juncea

B. carinata

Raw Tag

Total

6178564

5881618

6059222

5964594

6076830

5795234

Raw Tag

Distinct Tag

293575

214427

243895

269285

400134

278768

Clean Tag

Total number

6018254

5772449

5930726

5823113

5858527

5657697

Clean Tag

Distinct Tag number

133499

106552

116771

128967

181965

142281

Tag Mapping to Gene

Total number

1964909

1990442

1747843

2253347

1857572

1915305

Tag Mapping to Gene

Distinct Tag number

44267

30413

36220

45358

56289

40425

Unambiguous Tag Mapping to Gene

Total number

1679848

1635594

1475050

1924944

1531974

1594991

Unambiguous Tag Mapping to Gene

Total% of clean tag

27.91%

28.33%

24.87%

33.06%

26.15%

28.19%

Unambiguous Tag Mapping to Gene

Distinct Tag number

39414

26114

31933

40561

49892

35285

Unambiguous Tag Mapping to Gene

Distinct Tag% of clean tag

29.52%

24.51%

27.35%

31.45%

27.42%

24.80%

Tag-mapped Genes

number

19023

16687

18547

19955

21995

19436

Tag-mapped Genes

% of ref genes

46.20%

40.53%

45.05%

48.47%

53.42%

47.20%

Unambiguous Tag-mapped Genes

number

16574

13867

15970

17448

19424

16645

Unambiguous Tag-mapped Genes

% of ref genes

40.25%

33.68%

38.79%

42.38%

47.18%

40.43%

Mapping to Genome

Total number

2437918

1147106

2105332

2164464

2047451

1462061

Mapping to Genome

Total% of clean tag

40.51%

19.87%

35.50%

37.17%

34.95%

25.84%

Mapping to Genome

Distinct Tag number

44076

15159

30703

40689

50304

29547

Mapping to Genome

Distinct Tag% of clean tag

33.02%

14.23%

26.29%

31.55%

27.64%

20.77%

Unknown Tag

Total number

1615427

2634901

2077551

1405302

1953504

2280331

Unknown Tag

Total% of clean tag

26.84%

45.65%

35.03%

24.13%

33.34%

40.30%

Unknown Tag

Distinct Tag number

45156

60980

49848

42920

75372

72309

Unknown Tag

Distinct Tag% of clean tag

33.82%

57.23%

42.69%

33.28%

41.42%

50.82%

  1. Clean tags are tags after filtering low-quality tags from raw data. Distinct tags are different tags and unambiguous tags are the remaining clean tags after removing tags mapped to more than one locus of reference genome.