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Table 1 RNAseq quality and coverage of bean transcriptome

From: Slow darkening of pinto bean seed coat is associated with significant metabolite and transcript differences related to proanthocyanidin biosynthesis

Cultivars

Replicate

Total reads

Q30 bases (%)

Mapped reads

Uniquely mapped reads

Genes hit (%)

1533–15

1

29,823,880

90.39

20,347,924

11,054,222

78.84

2

18,850,340

89.45

12,991,256

8,067,224

76.39

3

53,681,314

87.82

36,390,339

19,694,642

84.75

4

32,211,588

90.49

21,458,754

9,324,847

74.73

CDC Pintium

1

55,184,220

88.77

35,551,838

16,669,271

78.62

2

42,822,186

88.32

26,665,236

12,683,699

76.12

3

22,713,516

88.8

13,754,893

6,909,101

73.25

4

40,101,598

90.23

24,956,759

10,807,837

74.85

  1. Replicate: the variety replicate sequenced; total reads: the total number of sequence reads obtained; Q30 bases (%): the percentage of bases with > 30 quality in the sequencing results; mapped reads: the number of reads that mapped to one of the P. vulgaris transcript models; uniquely mapped reads: number of mapped reads mapping uniquely to a transcript model with a mapping quality ≥20; genes hit: number of gene models with one or more reads mapped to its transcript as a percentage of the total number of gene models
  2. Coverage of pinto bean cv 1533–15 and CDC Pintium seed coat transcriptome ranged from 73.25–84.75%