Fig. 2

Mu samples the entire genome regardless of the presence of MuB. a. The six starting prophage locations on the E. coli genome monitored in this study are indicated by red arrows (see Table 1 for their exact locations). These locations were chosen because they are distributed throughout the chromosome, and therefore ideally suited for sampling features across the genome. oriC in the Ori region is the site where bi-directional replication begins (green arrow), terminating at the dif site, exactly opposite to oriC within the Ter region (cyan arrow). OPL, Ori proximal left; OPR, Ori proximal right; TPL, Ter proximal left; TPR, Ter proximal right. The boundaries of the various colored regions are taken from [31]. b. The genome was partitioned into 200 equally sized bins (a), and the normalized number of unique insertions into each bin for each prophage was computed, as displayed by the color bar on the right. The highest number of unique insertions for any non-starting bin was ~ 8000 insertions corresponding to just under 1.0. Each starting bin position can be identified by the dark blue bars. The multi-color strip on top of each panel corresponds to chromosomal regions shown in a. The Ter region (cyan) as explored by the ΔMuB prophages is 217 kbp larger than earlier estimates [31]. This is recognizable as a square block of lighter red insertions in the Ter-ΔMuB prophage, which lines up with identical blocks of darker red insertions in the other five ∆MuB prophages