TABLE 3.
Informative-site analysis of clones derived from CVLa
| Isolate | Regionb (HXB2 numbering) | No. of informative sites
|
|
|---|---|---|---|
| Plasma-like | CVL-like | ||
| WC10C-3 | gag (793-2296) | 1 | 9 |
| (nonrecombinant) | pol (2088-5099) | 3 | 23 |
| Accessory (5044-6302) | 0 | 12 | |
| env (6230-8805) | 0 | 9 | |
| WC10C-8 | gag (793-2296) | 3 | 3 |
| (recombinant) | pol (2088-5099) | 8 | 13 |
| Accessory (5044-6302) | 10 | 8 | |
| env (6230-8805) | 0 | 7 | |
| WC10C-12 | gag (793-2296) | 6 | 1 |
| (recombinant) | pol (2088-5099) | 10 | 28 |
| Accessory (5044-6302) | 9 | 4 | |
| env (6230-8805) | 0 | 9 | |
a
Distribution of phylogenetically informative sites between plasma and CVL, indicating whether each region of the sequence under analysis clusters phylogenetically with representative sequences from each compartment. The distribution indicates how many informative sites of these clones, all derived from the CVL of WC10, cluster with characteristic genomic sequences obtained from the genital tract and plasma of the same patient.
b
Accessory refers to the region of the HIV-1 genome encompassing the overlapping rev, tat, vif, vpr, and vpu open reading frames.