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Table 2 Summary of sequencing results of the genomes of five Cameroonian cattle breeds including the number of total reads and variants called in million (M) reads

From: Whole genome characterization of autochthonous Bos taurus brachyceros and introduced Bos indicus indicus cattle breeds in Cameroon regarding their adaptive phenotypic traits and pathogen resistance

Breeds

Mapped Reads

Total Reads

Mapping rate (%)

Coverage [x]

SNPs

Indels

Bs-SNPs

Hom

Het

Het/ Hom

Namchi

930.8

935.3

98.9

102.8

12.74

1.51

0.91

5.54

8.10

1.5

Kapsiki

1154.9

1160.6

99.0

127.6

10.81

1.34

0.83

3.42

8.23

2.4

W. Fulani

1098.0

1103.1

99.0

121.3

12.99

1.56

0.95

5.07

8.87

1.7

R. Fulani

1098.0

1102.2

99.1

121.3

13.54

1.62

1.05

4.73

9.86

2.1

Gudali

1267.0

1271.1

99.1

140.0

13.37

1.62

1.09

4.77

9.70

2.0

N’Dama

271.8

282.1

99.6

30.0

8.53

1.01

0.48

3.32

5.68

1.7

Brahman

176.9

177.0

99.4

19.5

14.21

1.73

1.70

6.53

9.38

1.4

Holstein

453.1

460.6

99.5

50.0

5.66

0.76

0.73

2.59

3.80

1.5

  1. The new reference genome breed was Hereford (ARS-UCD1.2). Whole genome data of the breeds N’Dama, Brahman and Holstein were retrieved from the NCBI archive SRA [Holstein (SRR934414), N’Dama (SRR3693376) and Brahman (SRR6649996)]. Hom = homozygous, Het = heterozygous, Het/ Hom = heterozygous to homozygous ratio, W. Fulani = White Fulani; R. Fulani = Red Fulani. Bs-SNPs = breeds specific SNPs