Table 2 Mutation-prone sequence motifs in HIV-1 env.

From: The external domains of the HIV-1 envelope are a mutational cold spot

Motif*

Fraction mutated†

Odds ratio‡

Likely source

GG

17/166

2.9***

A3G

TGG

9/64

3.9**

 

GGA

12/67

5.0***

 

TGGA

8/26

8.6***

 

TTGG

6/13

12.8***

 

GA

23/202

3.2***

A3D/F/H

GAA

17/73

6.5***

 

TGA

10/38

7.3***

 

GGAA

5/23

6.0**

 

ATGA

4/10

11.1***

 

GTGA

5/9

12.3***

 

TGAA

9/15

16.7***

 

TG

26/183

4.0***

A3/RT

TTG

9/47

5.3***

 

ATG

10/50

5.6***

 

TTCT

4/11

10.11**

 
  1. *The mutated base is underlined.
  2. †Mutated/total motifs in env.
  3. ‡Fold mutation rate increase relative to the background rate. Asterisks indicate statistical significance, based on Fisher’s exact test using Dunn–Sidak multiple test correction (*P<0.05, **P<0.01, ***P<0.001 after correction).
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