Fig. 2.

For the 1-, 2-, and 3-kb libraries (blue, green, and red), we identified the nearest-neighbor E. coli mapped pairs that were within 1.5 μm of each other and 4,000 bp genomic distance by comparing (A) read 1 against read 2 and (B) read 2 against read 1. The cumulative number of cluster pairs is plotted against the numerically sorted genomic distance for each nearest-neighbor pair.