Figure 11. Plotting co-localization interval distributions and their fits to models.

All three panels show plots of the same example data set (taken from ref. [5]) of 0.1 nM σ⁵⁴RNA polymerase binding to 3,591 bp target DNA molecules containing a σ⁵⁴ promoter (blue, N = 122 DNA, L = 1000 co-localizations) and to non-target control sites (black, N_C = 157, L_C = 129). Data were fit using biexponential distributions for both the target sites (red; r₁ = 0.34 s⁻¹, r₂ = 1.6 × 10⁻² s⁻¹, and a = 0.85; Eqs. 11 and 12) and the non-target sites (cyan; r_1c = 0.75 s⁻¹, r_2c = 2.4 × 10⁻³ s⁻¹, and a_c = 0.96; Eqs. 9 and 10). (A) Cumulative frequency distributions of co-localization intervals at target and non-target sites. Inset: semilog plot of the same data on an expanded timescale. (Redrawn from ref. [5].) (B) Same data and fit as in (A), with the bootstrap estimate of the 95% confidence limits (dashed) of the data. (C) The data and fit from (A) visualized as a probability density function (± s.e.).