Table 2

Categorization and abundance of tags

Summary

L1

L2

L3

L4

L5

L6

L7

L8


Raw tag

Total

5986157

6040684

5895889

6168748

5865045

6216559

6198321

6131056

Distinct tag

466332

351691

351724

375846

591374

504549

519273

525066

Clean tag

Total number

5739999

5846807

5731901

5970775

5476878

5900343

5930716

5862642

Distinct tag number

224154

162415

191994

181792

204639

206998

233839

257077

All Tag Mapping to Gene

Total number

4801389

4749586

5060517

5106678

4461094

4703005

4633630

4622199

Total % of clean tag

83.65%

82.86%

86.55%

85.53%

81.45%

79.71%

78.13%

78.84%

Distinct Tag number

106706

97198

101471

103126

109186

115835

113282

120719

Distinct Tag % of clean tag

47.60%

50.63%

62.48%

56.73%

53.36%

55.96%

48.44%

46.96%

Total number

3292723

3227948

3507713

3554706

3256090

3434881

3343733

3402403

Total % of clean tag

57.36%

56.32%

59.99%

59.54%

59.45%

58.21%

56.38%

58.04%

Unambiguous Tag Mapping to Gene

Distinct Tag number

81596

75187

78233

79048

83632

88491

86619

92556

Distinct Tag % of clean tag

36.40%

39.16%

48.17%

43.48%

40.87%

42.75%

37.04%

36.00%

number

37582

36093

35450

35798

37001

36554

36752

38802

% of ref genes

56.76%

54.51%

53.54%

54.07%

55.88%

55.21%

55.51%

58.60%

All Tag-mapped Genes

number

29503

28271

27960

27977

29174

28799

29217

30581

% of ref genes

44.56%

42.70%

42.23%

42.25%

44.06%

43.50%

44.13%

46.19%

Unambiguous Tag-mapped Genes

Total number

271

460

131

180

567

396

434

626

Total % of clean tag

0.00%

0.01%

0.00%

0.00%

0.01%

0.01%

0.01%

0.01%

Mapping to Mitochondrion

Distinct Tag number

39

44

25

32

57

41

38

68

Distinct Tag % of clean tag

0.02%

0.02%

0.02%

0.02%

0.03%

0.02%

0.02%

0.03%

Total number

55363

40659

19740

21626

7022

6884

5876

7903

Total % of clean tag

0.96%

0.71%

0.34%

0.36%

0.13%

0.12%

0.10%

0.13%

Mapping to Chloroplast

Distinct Tag number

580

509

387

478

357

348

284

379

Distinct Tag % of clean tag

0.26%

0.27%

0.24%

0.26%

0.17%

0.17%

0.12%

0.15%

Total number

556745

583356

494737

541514

547827

615239

579952

689884

Total % of clean tag

9.70%

10.18%

8.46%

9.07%

10.00%

10.43%

9.78%

11.77%

Mapping to Genome

Distinct Tag number

76405

59263

38836

48896

47539

44830

45655

77752

Distinct Tag % of clean tag

34.09%

30.87%

23.91%

26.90%

23.23%

21.66%

19.52%

30.24%

Total number

326231

357840

271682

300777

460368

574819

710824

542030

Total % of clean tag

5.68%

6.24%

4.65%

5.04%

8.41%

9.74%

11.99%

9.25%

Unknown Tag

Distinct Tag number

40424

34980

21696

29260

47500

45944

74580

58159

Distinct Tag % of clean tag

18.03%

18.22%

13.36%

16.10%

23.21%

22.20%

31.89%

22.62%


Clean tags are those remaining after low quality tags have been removed from the raw data. Distinct tags are different kinds of tags. Unambiguous tags are the clean tags remaining after removal of tags mapped to reference sequences from multiple genes.

Hao et al. BMC Genomics 2011 12:525   doi:10.1186/1471-2164-12-525

Open Data