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Table 1 Sequencing results of small RNA cDNA libraries

From: Changes in cellular microRNA expression induced by porcine circovirus type 2-encoded proteins

Category

Control

ORF1

ORF2

ORF3

Count

%

Count

%

Count

%

Count

%

Raw reads

4 654 382

100.00

5 014 372

100.00

5 887 207

100.00

4 565 856

100.00

Low-quality reads

42 632

0.92

45 864

0.91

57 174

0.97

40 451

0.89

High-quality reads

4 611 750

99.08

4 968 508

99.09

5 830 033

99.03

4 525 405

99.11

High-quality reads

4 611 750

100.00

4 968 508

100.00

5 830 033

100.00

4 525 405

100.00

Clean reads (≥18 nucleotides)

3 476 739

75.39

3 604 325

72.54

4 293 063

73.64

3 648 407

80.62

Clean reads

3 476 739

100.00

3 604 325

100.00

4 293 063

100.00

3 648 407

100.00

miRNA

1 205 500

34.67

861 472

23.90

623 299

14.52

1 409 182

38.62

rRNA

698 265

20.08

775 446

21.51

1 568 539

36.54

808 436

22.16

scRNA

4100

0.12

3292

0.09

2835

0.07

2541

0.07

snRNA

15 446

0.44

12 003

0.33

19 892

0.46

12 971

0.36

snoRNA

16 659

0.48

10 548

0.29

11 925

0.28

11 051

0.30

srpRNA

332

0.01

509

0.01

1428

0.03

591

0.02

tRNA

186 300

5.36

289 446

8.03

283 870

6.61

192 332

5.27

mRNA

44 231

1.27

48 588

1.35

68 330

1.59

52 302

1.43

Repeat-associated small RNA

8168

0.23

8876

0.25

10 357

0.24

9058

0.25

Unannotateda

1 297 738

37.33

1 594 145

44.23

1 702 588

39.66

1 149 943

31.52

  1. aSequences do not match any known RNA species.