Extended Data Fig. 6. Simul-walks statistics not dependent on the selected percolation parameters.

Simul-walks statistics do not change considerably by changing the selected percolation parameter r_cutoff (Left: r_cutoff = 75 nm, Right: r_cutoff = 60 nm). The left panel is shown in the main Figure 4 because the r_cutoff is chosen in such a way that the maximum number of steps in simul-walks in the histogram is ~3-4 which is similar to the peak in the histogram of C-walks in Figure 2C. Regardless, the top two histograms show that most walks still involve only 1 or 2 inter-chromosomal or inter-domain interactions. At the bottom, the shift between the simul-walks (black solid lines) and randomly permutated versions (circles) remains the same as well. The r_cutoff value cannot be changed much more than this, because the minimum center to center distance of two touching beads is ~50-60 nm and choosing larger cutoffs will result in skipping some neighboring chains in the percolation path search. Therefore, our results are independent of the parameters we used to find the simul-walks.