Figure 2.

Alignments of the sequences of the HIV-1 proviruses in clonally expanded cells that were used to validate the IS-qPCR assay. Sequences were aligned using MUSCLE pairwise alignment. Black lines represent the sequences obtained for each of the proviruses and blank spaces represent deletions. Sequences are labeled with a letter and number designation to indicate the donor who was the source of the clone followed by the name of the gene in which the provirus was integrated. Intact infectious proviruses are denoted by ^†.