Sequence analysis of near full-size proviruses.

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Sequence analysis of near full-size proviruses. Sequence analysis of near full-size proviruses. (A) Pie charts summarize sequence analysis at the preinfusion (wk-2) and week 12 (wk12) time points. The number in the middle of the pie represents the number of near full-size proviruses sequenced. Pie slices depict the proportion of sequences for each participant that were intact or had different lethal defects, including premature stop codons mediated by hypermutation, single nucleotide indels, nonsense mutations, packaging signal (ψ) deletions, and MSD site mutations. (B) Scatterplot showing the frequency and location of stop codons mediated by hypermutation (red circles) or by other mechanisms (green circles) (Upper) and indels (blue squares) (Lower). The location of stop codons and indels was determined using HXB2 genome as reference. Frequency is expressed as percentage of all defective sequences. Ching-Lan Lu et al. PNAS 2018;115:48:E11341-E11348 ©2018 by National Academy of Sciences