Validation of a strain-specific copy number variant in B. anthracis A0377. Unique coverage near the left end of (top) the A2012 and (bottom) A0377 chromosomes, is depicted as described in Figure 1. The orange box indicates the approximate boundaries of the amplified region in A0377. The eight large cyan bars correspond to the first eight rRNA loci in the genome, which are nearly identical to each other. TaqMan® assays were designed, two internal to the amplified region and one to each side, with the approximate coordinates indicated on the X axis of the inset (in kb). These assays were run in triplicate on genomic DNA from each of the two strains, and relative fold-change of A0377 versus A2012 was calculated and normalized to the assay at coordinate 50 kb (inset).