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Table 2 Summary of small RNA sequencing data and annotation after alignment to GenBank and Rfam in nine libraries

From: MicroRNA profiling analysis of developing berries for ‘Kyoho’ and its early-ripening mutant during berry ripening

 

FZ1

FZ2

FZ3

FZ4

KY1

KY2

KY3

KY4

KY5

Total

5,511,599

6,292,055

6,206,300

6,835,422

7,080,977

6,531,036

6,498,722

6,944,941

6,876,953

known_miRNA

293,764

(5.33%)

256,923

(4.08%)

195,676

(3.15%)

240,682

(3.52%)

304,883

(4.31%)

220,877

(3.38%)

288,939

(4.45%)

468,847

(6.75%)

473,968

(6.89%)

rRNA

401,277

(7.28%)

461,547

(7.34%)

819,911

(13.21%)

555,173

(8.12%)

490,108

(6.92%)

408,859

(6.26%)

614,342

(9.45%)

530,932

(7.64%)

526,145

(7.65%)

tRNA

2

(0.00%)

1

(0.00%)

0

(0.00%)

1

(0.00%)

1

(0.00%)

2

(0.00%)

1

(0.00%)

0

(0.00%)

0

(0.00%)

snRNA

6216

(0.11%)

7435

(0.12%)

8612

(0.14%)

7961

(0.12%)

8801

(0.12%)

6698

(0.10%)

6213

(0.10%)

7397

(0.11%)

7916

(0.12%)

snoRNA

29,043

(0.53%)

45,448

(0.72%)

25,971

(0.42%)

29,690

(0.43%)

55,917

(0.79%)

47,378

(0.73%)

52,260

(0.80%)

31,061

(0.45%)

28,381

(0.41%)

repeat

705,647

(12.80%)

696,292

(11.07%)

510,942

(8.23%)

605,622

(8.86%)

759,921

(10.73%)

750,842

(11.50%)

743,158

(11.44%)

715,266

(10.30%)

723,924

(10.53%)

NAT

609,654

(11.06%)

640,231

(10.18%)

620,372

(10.00%)

636,276

(9.31%)

664,891

(9.39%)

647,042

(9.91%)

688,849

(10.60%)

866,898

(12.48%)

935,099

(13.60%)

novel_miRNA

123,239

(2.24%)

150,151

(2.39%)

124,871

(2.01%)

181,311

(2.65%)

171,565

(2.42%)

127,118

(1.95%)

168,580

(2.59%)

166,758

(2.40%)

200,238

(2.91%)

TAS

16,101

(0.29%)

13,801

(0.22%)

11,967

(0.19%)

14,884

(0.22%)

14,451

(0.20%)

13,756

(0.21%)

23,823

(0.37%)

17,509

(0.25%)

21,585

(0.31%)

Exon_sense

124,655

(2.26%)

112,184

(1.78%)

96,842

(1.56%)

110,968

(1.62%)

125,125

(1.77%)

101,251

(1.55%)

154,621

(2.38%)

152,438

(2.19%)

160,113

(2.33%)

Exon_antisense

113,779

(2.06%)

84,968

(1.35%)

65,792

(1.06%)

79,570

(1.16%)

101,249

(1.43%)

80,722

(1.24%)

146,666

(2.26%)

124,805

(1.80%)

125,799

(1.83%)

Intron_sense

50,417

(0.91%)

67,408

(1.07%)

56,941

(0.92%)

72,555

(1.06%)

59,421

(0.84%)

67,508

(1.03%)

70,087

(1.08%)

76,390

(1.10%)

85,546

(1.24%)

Intron_antisense

29,843

(0.54%)

30,098

(0.48%)

30,491

(0.49%)

30,652

(0.45%)

32,891

(0.46%)

34,738

(0.53%)

40,122

(0.62%)

47,752

(0.69%)

57,420

(0.83%)

Un_annotated

3,007,962

(54.58%)

3,725,568

(59.21%)

3,637,912

(58.62%)

4,270,077

(62.47%)

4,291,753

(60.61%)

4,024,245

(61.62%)

3,501,061

(53.87%)

3,738,888

(53.84%)

3,530,819

(51.34%)

  1. rRNA/snRNA/snoRNA/tRNA considered; TAS trans-acting small interfering RNA, NAT natural antisense short interfering RNA