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Table 1 Genetic variation, co-receptor usage and clinical information for the different infants included in this study

From: Characterization of HIV-1 subtype C envelope glycoproteins from perinatally infected children with different courses of disease

Sample

M

N

H

AA %

DNA %

dN/dS

PNGS

V1V5 length

Co-receptor usage

Cause of death

1449 i02m

2

26

21

0.6

0.3

0.71

21(18–21)

330(330-330)

CCR5

 

1449 i04m

4

44

37

1.1

0.5

1.15

21(20–22)

330(323–330)

  

1449 i08m

8

43

42

1.9

0.8

1.37

21(19–23)

328(327–330)

CCR5

Pneumonia

2669 i02m

2

30

29

1.1

0.6

0.61

25(23–25)

339(335–339)

CCR5

 

2669 i06m

6

33

33

1.3

0.7

0.66

25(23–26)

337(329–339)

CCR5

Bronchitis

2873 i02m

2

29

26

1.2

0.6

0.91

28(27–29)

356(356-356)

CCR5

 

2873 i04m

4

29

27

1.0

0.5

0.77

28(27–28)

356(356-356)

CCR5

Tuberculosis

2617 i02m

2

27

27

1.1

0.6

0.52

23(22–24)

336(336-336)

  

2617 i04m

4

23

23

1.3

0.8

0.41

23(22–24)

336(336-336)

  

2617 i06m

6

26

26

1.8

1.0

0.69

24(23–24)

336(336-336)

CCR5

Pyrexia

1984 i04m

4

25

25

2.1

1.0

0.97

21(19–22)

343(343-343)

  

1984 i06m

6

27

26

1.7

0.7

1.21

22(20–24)

342(332–343)

CCR5

 

1984 i12m

12

27

27

2.8

1.3

0.94

23(21–24)

340(331–343)

CCR5

 

1984 i24m

24

26

26

4.2

2.0

0.98

24(22–26)

329(325–340)

CCR5

 

1984 i36m

36

29

27

5.4

2.6

1.04

24(22–26)

332(326–341)

CCR5

 

1984 i48m

48

26

26

6.6

3.3

1.02

24(22–26)

331(323–344)

CCR5

 

1084 i06m

6

25

25

2.4

1.2

0.68

21(19–23)

319(319–328)

  

1084 i27m

27

28

28

1.3

0.7

0.65

25(24–25)

328(328-328)

CCR5

 

1084 i36m

36

25

24

5

2.6

1.1

25(22–28)

336(325–344)

CCR5

 

1084 i48m

48

48

40

8.9

4.9

0.76

27(18–28)

344(325–344)

CCR5

 

1690 i12m

12

28

28

1.8

1.0

0.71

26(23–27)

338(331–339)

CCR5

 

1690 i24m

24

31

31

2.1

1.1

0.65

23(22–25)

329(325–336)

  

1690 i36m

36

30

30

3.0

1.7

0.72

23(19–25)

327(319–338)

  

1690 i48m

48

26

26

4.4

2.2

1.01

24(23–26)

336(331–341)

CXCR4/CCR5

 
  1. Months after birth (M); number of sequences per time point (N); number of unique haplotypes (H); mean number of pairwise amino acid differences as percentage (AA %); mean number of pairwise nucleotide differences as percentage (DNA %); ratio of non-synonymous (dN) to synonymous (dS) rate of substitution (dN/dS); number of putative N-linked glycosylation sites (PNGS) in Env V1–V5 region as median (min-max) and Env V1–V5 length in codons (V1V5 length) as median (min-max)