Skip to main content

Table 1 Genome statistics of the whole-genome sequences of the 83 H. pylori isolates in this study

From: The endemic Helicobacter pylori population in Southern Vietnam has both South East Asian and European origins

S. No

Isolate

Accession number

Read depth coverage

No. of contigs

Genome size (bp)

No. of CDS

Coding percentage

G + C percentage

Lineage

CAG PAI

Vac allele

EPIYA Motif

1

GD13

SRR13341718

56

32

1610603

1504

94.2

38.5

hpEurope

Negative (−)

s2m2

–

2

GD14

SRR13341717

44

33

1630906

1540

94.8

39.1

hspEastAsia

Positive ( +)

s1m1

ABD

3

GD15

SRR13341706

210

44

1611095

1508

95.4

39.5

hspEastAsia

Positive ( +)

s1m1

ABD

4

GD16

SRR13341695

50

52

1678689

1572

91

38.5

hspEastAsia

Positive ( +)

s1m1

ABD

5

GD17

SRR13341684

107

38

1629934

1546

91.1

39.2

hspEastAsia

Positive ( +)

s1m1

ABD

6

GD18

SRR13341673

53

49

1674278

1568

91

39.3

hspEastAsia

Positive ( +)

s1m1

ABD

7

GD19

SRR13341662

119

36

1563624

1480

90.9

39.6

hspEastAsia

Positive ( +)

s1m2

ABCC

8

GD20

SRR13341651

203

64

1696341

1589

95.6

38.9

hspEastAsia

Positive ( +)

s1m1

ABD

9

GD21

SRR13341640

113

28

1603954

1517

91.1

38.9

hspEastAsia

Positive ( +)

s1m2

ABD

10

GD22

SRR13341636

156

29

1567287

1501

94.5

39.6

hspEastAsia

Positive ( +)

s1m2

ABD

11

GD23

SRR13341716

148

49

1641514

1534

93.4

39.5

hpEurope

Negative (−)

s1m2

–

12

GD24

SRR13341715

148

33

1568554

1491

94.1

39.5

hspEastAsia

Positive ( +)

s1m1

ABD

13

GD25

SRR13341714

51

31

1598180

1519

99.1

38.5

hspEastAsia

Positive ( +)

s1m1

ABD

14

GD26

SRR13341713

143

33

1634715

1549

94.8

39.5

hspEastAsia

Positive ( +)

s1m2

ABD

15

GD29

SRR13341712

216

36

1628946

1534

94.5

39.5

hspEastAsia

Positive ( +)

s1m2

ABD

16

GD30

SRR13341711

120

42

1611416

1502

94.6

39

hspEastAsia

Positive ( +)

s1m2

ABD

17

GD31

SRR13341710

100

41

1642696

1540

90.7

39.4

hpEurope

Negative (−)

s1m2

–

18

GD32

SRR13341709

161

30

1597373

1514

93.3

39.5

hspEastAsia

Positive ( +)

s1m1

ABD

19

GD33

SRR13341708

90

36

1674481

1557

92.7

38.7

hspEastAsia

Positive ( +)

s1m2

ABD

20

GD34

SRR13341707

82

41

1682613

1578

95.5

38.5

hspEastAsia

Positive ( +)

s1m1

ABD

21

GD35

SRR13341705

170

24

1553118

1459

93.1

39.5

hspEastAsia

Positive ( +)

s1m2

ABC

22

GD36

SRR13341704

250

34

1683121

1572

94.2

39.3

hpEurope

Negative (−)

s1m2

–

23

GD37

SRR13341703

109

20

1590694

1503

91.1

39.5

hspEastAsia

Positive ( +)

s1m1

ABD

24

GD38

SRR13341702

264

36

1570557

1501

94.1

39.4

hspEastAsia

Positive ( +)

s1m2

ABD

25

GD39

SRR13341701

190

34

1637712

1542

94.4

36.9

hspEastAsia

Positive ( +)

s1m1

ABD

26

GD40

SRR13341700

119

36

1577762

1492

92.8

38.9

hspEastAsia

Positive ( +)

s1m2

ABD

27

GD42

SRR13341699

413

24

1580561

1502

94.7

38.7

hspEastAsia

Positive ( +)

s1m1

ABD

28

GD43

SRR13341698

413

24

1580561

1502

94.5

38.7

hspEastAsia

Positive ( +)

s1m1

ABD

29

GD44

SRR13341697

170

22

1646259

1551

95.8

39

hspEastAsia

Positive ( +)

s1m2

ABD

30

GD45

SRR13341696

199

38

1634413

1536

94.6

38.5

hspEastAsia

Positive ( +)

s1m2

ABD

31

GD46

SRR13341694

291

39

1639952

1534

93.6

38.9

hpEurope

Negative (-)

s1m2

–

32

GD47

SRR13341693

251

31

1653247

1569

96.2

38.7

hspEastAsia

Positive ( +)

s1m1

ABD

33

GD48

SRR13341692

158

38

1637838

1539

93.4

38.8

hpEurope

Negative (−)

s1m2

–

34

GD49

SRR13341691

183

23

1577856

1503

93.9

38.9

hspEastAsia

Positive ( +)

s1m1

ABD

35

GD50

SRR13341690

108

39

1643348

1540

90.5

38.6

hpEurope

Negative (−)

s1m2

–

36

GD51

SRR13341689

360

31

1604541

1509

95.3

39.4

hspEastAsia

Positive ( +)

s1m2

ABD

37

GD52

SRR13341688

184

35

1537698

1471

92.9

39.1

hspEastAsia

Positive ( +)

s1m2

ABD

38

GD53

SRR13341687

175

34

1573076

1480

94.5

39

hspEastAsia

Positive ( +)

s1m2

ABD

39

GD55

SRR13341686

238

43

1638622

1533

93.6

38.6

hpEurope

Negative (-)

s1m2

–

40

GD56

SRR13341685

180

33

1635691

1548

95.3

38.6

hspEastAsia

Positive ( +)

s1m2

ABD

41

GD57

SRR13341683

240

33

1621906

1517

95.8

38.5

hspEastAsia

Positive ( +)

s1m2

ABD

42

GD58

SRR13341682

308

35

1596620

1513

94.7

38.6

hspEastAsia

Positive ( +)

s1m2

ABD

43

GD59

SRR13341681

262

48

1655979

1548

93.5

38.4

hpEurope

Negative (−)

s1m2

–

44

GD60

SRR13341680

178

31

1557741

1464

93.6

38.8

hspEastAsia

Positive ( +)

s1m2

ABD

45

GD61

SRR13341679

163

22

1600212

1512

94.9

38.7

hspEastAsia

Positive ( +)

s1m2

ABD

46

GD62

SRR13341678

210

25

1554217

1451

93.2

39

hspEastAsia

Positive ( +)

s1m2

ABD

47

GD63

SRR13341677

200

28

1574015

1503

94.2

38.3

hspEastAsia

Positive ( +)

s1m2

ABD

48

GD64

SRR13341676

278

29

1628242

1525

95.8

38.7

hspEastAsia

Positive ( +)

s1m2

ABD

49

GD65

SRR13341675

208

27

1652774

1568

95.4

37.5

hspEastAsia

Positive ( +)

s1m1

ABD

50

GD66

SRR13341674

145

36

1593774

1501

94.5

38.7

hspEastAsia

Positive ( +)

s1m1

ABD

51

GD67

SRR13341672

122

32

1593031

1501

91.7

38.7

hspEastAsia

Positive ( +)

s1m2

ABD

52

GD68

SRR13341671

161

29

1593992

1485

94.2

38.8

hspEastAsia

Positive ( +)

s1m1

ABD

53

GD69

SRR13341670

294

33

1562632

1474

93.9

38.6

hspEastAsia

Positive ( +)

s1m1

ABD

54

GD70

SRR13341669

305

36

1622171

1540

94.6

39

hspEastAsia

Positive ( +)

s1m1

ABD

55

GD71

SRR13341668

456

34

1554719

1470

93.3

38.8

hspEastAsia

Positive ( +)

s1m1

ABD

56

GD72

SRR13341667

76

46

1593519

1501

93.3

38.9

hspEastAsia

Positive ( +)

s1m2

ABD

57

GD73

SRR13341666

67

31

1612805

1538

90.5

38.8

hspEastAsia

Positive ( +)

s1m1

ABD

58

GD74

SRR13341665

84

37

1624940

1525

94.9

38.8

hspEastAsia

Positive ( +)

s1m1

ABD

59

GD75

SRR13341664

133

26

1608952

1530

94.6

39.3

hspEastAsia

Positive ( +)

s1m1

ABD

60

GD76

SRR13341663

174

37

1642815

1541

93.4

39.3

hpEurope

Negative (−)

s1m2

–

61

GD77

SRR13341661

149

45

1636257

1530

93.3

39.2

hpEurope

Negative (−)

s1m2

–

62

GD79

SRR13341660

144

28

1563358

1484

95.4

39.6

hspEastAsia

Negative (−)

s1m2

–

63

GD80

SRR13341659

136

41

1667621

1556

95.7

38.8

hpEurope

Positive ( +)

s1m1

ABD

64

GD81

SRR13341658

131

51

1668954

1565

94

38.4

hpEurope

Negative (−)

s1m2

–

65

GD82

SRR13341657

49

38

1620888

1530

91.1

38.6

hspEastAsia

Positive ( +)

s1m1

ABD

66

GD83

SRR13341656

119

30

1547013

1459

93.8

39.6

hspEastAsia

Positive ( +)

s1m1

ABD

67

GD84

SRR13341655

122

34

1642913

1544

93.3

39.2

hpEurope

Negative (−)

s1m2

–

68

GD85

SRR13341654

85

31

1565822

1490

91.4

39.3

hspEastAsia

Positive ( +)

s1m1

ABD

69

GD86

SRR13341653

95

53

1659927

1562

92

38.8

hspEastAsia

Positive ( +)

s1m2

ABD

70

GD87

SRR13341652

113

37

1642282

1536

90.5

39.2

hpEurope

Negative (−)

s1m2

–

71

GD88

SRR13341650

162

31

1553891

1473

93.1

39.6

hspEastAsia

Negative (−)

s1m2

–

72

GD89

SRR13341649

132

35

1605386

1506

92

39.4

hspEastAsia

Positive ( +)

s1m2

ABD

73

GD90

SRR13341648

128

47

1675801

1567

95.5

39.1

hspEastAsia

Positive ( +)

s1m1

ABD

74

GD91

SRR13341647

97

16

1563179

1486

90.3

39.4

hspEastAsia

Positive ( +)

s1m2

ABD

75

GD92

SRR13341646

111

46

1565490

1461

91.2

39.5

hspEastAsia

Positive ( +)

s1m2

ABCC

76

GD93

SRR13341645

38

83

1639304

1518

93.7

38.6

hpEurope

Positive ( +)

s1m2

ABD

77

GD94

SRR13341644

94

56

1637406

1534

94

37.6

hspEastAsia

Positive ( +)

s1m1

ABD

78

GD95

SRR13341643

150

47

1674995

1560

94.3

39.1

hpEurope

Negative (−)

s1m2

–

79

GD96

SRR13341642

123

32

1553728

1478

89.9

39.4

hspEastAsia

Positive ( +)

s1m1

ABD

80

GD97

SRR13341641

187

33

1571349

1473

94.3

39.6

hspEastAsia

Positive ( +)

s1m2

ABD

81

GD98

SRR13341639

132

34

1642357

1552

95

39.1

hspEastAsia

Positive ( +)

s1m2

ABD

82

GD99

SRR13341638

131

41

1641954

1552

94.8

38.4

hspEastAsia

Positive ( +)

s1m1

ABD

83

GD100

SRR13341637

67

34

1673344

1574

91.1

38.3

hspEastAsia

Positive ( +)

s1m1

ABD