Table 10 Statistical analyses of the gene structure annotation of the X. davidi.

From: Chromosome-scale assembly of the Xenocypris davidi using PacBio HiFi reads and Hi-C technologies

 

Gene set

Number

Average transcript length(bp)

Average CDS length(bp)

Average exons per gene

Average exon length(bp)

Average intron length(bp)

De novo

Augustus

41,765

10,053.32

1,121.54

6.28

178.57

1,691.46

GlimmerHMM

106,335

8,754.46

573.66

3.89

147.46

2,830.35

SNAP

59,634

12,134.09

673.63

4.87

138.4

2,963.41

Geneid

32,058

19,612.36

1,344.29

6.3

213.33

3,445.94

Genscan

31,763

22,650.39

1,559.14

8.21

189.9

2,925.14

Homolog

Ctenopharyngodon idellus

29,826

9,959.04

1,251.03

6.87

182.16

1,484.06

Opsariichthys bidens

26,232

13,465.66

1,449.43

7.96

182.16

1,727.23

Onychostoma macrolepis

24,228

14,824.04

1,520.60

8.58

177.18

1,754.54

Megalobrama amblycephala

24,907

14,497.76

1,576.73

8.68

181.66

1,682.52

Carassius auratus

29,056

10,456.97

1,301.02

7.02

185.33

1,520.97

Cyprinus carpio

26,439

10,919.42

1,317.09

7.12

184.91

1,568.31

Danio rerio

23,752

14,024.94

1,547.84

8.39

184.57

1,689.21

RNAseq

PASA

26,100

15,024.86

1,453.96

8.96

162.26

1,704.73

Transcripts

33,355

26,488.96

2,770.83

9.87

280.77

2,674.37

EVM

38,936

12,542.04

1,232.01

6.93

177.83

1,907.85

Pasa-update*

38,720

12,882.32

1,250.40

7.03

177.78

1,927.93

Final set*

27,360

16,345.93

1,566.90

8.87

176.69

1,878.35

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