Figure 3. Deletion maps for proviruses retrieved from T_N and T_EM cells at 2 and 9 years after ART initiation.

Intact and defective proviruses from T_N and T_EM cells were aligned to HXB2 at an early and late time point after ART initiation. Each horizontal bar represents 1 proviral sequence. Proviruses are color-coded based on size and location of deletion. Green bars are intact (D1⁺D4⁺), black bars are nearly intact (D1⁺D4⁺), red bars are 3′ deleted (D1⁺D4^–), blue bars are 5′ deleted (D1^–D4⁺), and yellow bars are massively deleted (D1^–D4^–) proviruses. Hypermutated proviruses are represented as purple bars. The shaded beige, light green, and dark green regions correspond to the gag, gag-pol, and pol regions of HXB2, respectively. The percentage of intact proviruses is reported in the upper right corner of each deletion map.