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Table 1 Summary of collections of PacificBio transcript isoform data for Japanese larch and Kuril larch

From: Comprehensive collection of genes and comparative analysis of full-length transcriptome sequences from Japanese larch (Larix kaempferi) and Kuril larch (Larix gmelinii var. japonica)

 

Larix kaempferi (DRA:011937, Experiment: DRX279227)

 

Larix gmelinii var. japonica (DRA: 011937, Experiment: DRX279228)

 

1–2 kb (3 cells)

2–3 kb (2 cells)

3–6 kb (2 cells)

5–10 kb (2 cells)

Total

1–2 kb (3 cells)

2–3 kb (3 cells)

3–4 kb (2 cells)

4–10 kb (2 cells)

Total

Read of Insert (ROI)

150,023

122,662

114,064

114,537

501,286

124,921

141,921

102,575

89,851

459,268

Read of bases insert

277,644,841

313,765,905

421,270,147

553,831,092

1,566,511,985

189,871,361

342,758,385

342,431,605

349,381,956

1,224,443,307

Mean read length of insert (bases)

1,850

2,557

3,693

4,835

3,125

1,519

2,415

3,338

3,888

2,666

Mean read quality of insert

0.9236

0.9153

0.8953

0.8579

4

0.9256

0.9241

0.9059

0.8881

4

Mean number of passes

10

8

5

3

26

12

8

5

4

29

Number of filtered short reads of insert

7,192

3,558

1,374

1,075

13,199

6,125

3,233

1,365

1,184

11,907

Number of non-full-length reads of insert

62,498

50,252

51,889

77,378

242,017

49,722

53,965

45,424

49,310

198,421

Number of full-length reads of insert

80,333

68,852

60,801

36,084

246,070

69,074

84,723

55,786

39,357

248,940

Number of full-length non-chimeric reads

78,930

68,352

60,554

34,810

242,646

67,549

84,271

55,564

38,659

246,043

Average full-length non-chimeric read length

1,745

2,608

4,002

5,798

-

1,359

2,445

3,599

4,411

-

Number of consensus isoforms

46,124

43,436

28,889

13,958

132,407

33,508

45,851

29,364

24,534

133,257

Average consensus isoforms read length (bases)

1,753

2,567

4,023

5,246

13,589

1,439

2,583

3,809

4,253

12,084

Number of polished high-quality isoforms

36,281

29,509

17,489

8,435

91,714

26,093

30,438

15,888

10,607

83,026

Number of polished low-quality isoforms

9,843

13,927

11,400

5,523

40,693

7,415

15,410

13,476

13,924

50,225

Non-redundant transcripts

-

-

-

-

79,832

-

-

-

-

66,002

Min. isoform length (bases)

-

-

-

-

300

-

-

-

-

307

Max. isoform length (bases)

-

-

-

-

8,880

-

-

-

-

10,117

Mean isoform length (bases)

-

-

-

-

2,715

-

-

-

-

2,446

BUSCO v3 (odb10; 1,375)

Complete (%)

-

-

-

-

65.1

-

-

-

-

71.9

Complete and single-copy (%)

-

-

-

-

31.9

-

-

-

-

33.1

Complete and duplicated (%)

-

-

-

-

33.2

-

-

-

-

38.8

Fragmented (%)

-

-

-

-

7.8

-

-

-

-

6.7

Missing (%)

-

-

-

-

27.1

-

-

-

-

21.4

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BMC Plant Biology

ISSN: 1471-2229

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