Extended Data Fig. 4: DMS reactivities and Shannon entropies.
From: Short- and long-range interactions in the HIV-1 5′ UTR regulate genome dimerization and packaging
DMS reactivities and Shannon entropies for the (a) 1G/2G dimer class (b) 1G/2G monomer class (c) 3G dimer class and (d) 3G monomer class. Arc plots show base pairing probabilities (green = 70-100%; blue=40-70%; yellow=10-40%; gray=5-10%). (e-h) Dot plots of RNA base pairing probabilities reveal alternative folding possibilities for the (e) 1G/2G dimer class (f) 1G/2G monomer class (g) 3G dimer class and (h) 3G monomer class. RNA stems are shown along the diagonals. (i-l) Bootstrapping analysis of the predicted dimer and monomer structure. Predicted structure is shown in red. The bootstrap support is shown in greyscale, with darker greys signifying better bootstrap support for the (i) 1G/2G dimer class (j) 1G/2G monomer class (k) 3G dimer class and (l) 3G monomer class.
