H2AX and infection: Figure 3A compares MVM VADs at 16 hpi, to sites of DNA damage (as determined by γ-H2AX ChIP-seq) for chromosomes 17 and 19 as infection progressed. Large VAD regions in Figure 3A are boxed for comparison purposes, but are not meant to restrict overlap only to VADs of that size. Comparisons for the full mouse genome are shown in Figure 3—figure supplement 1 and while there is significant variation, the overlap between VADs and sites positive for γ-H2AX ChIP-seq was strikingly consistent.