Long-read deep sequencing reveals high rates of multilineage transmission and rapid viral population changes in acute HIV infection.

However, when sample datasets with no hypermutated sequences were excluded there was a strong trend for hypermutated sequences to decline with increasing viral loads: p = 0.0006 and 0.06 for gag at the first and second time windows, respectively, and p = 0.005 and 0.02 for env (Supplementary Fig. 4 ).

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