Extended Data Fig. 1: Global and nucleotide specific mutation rates.
From: Short- and long-range interactions in the HIV-1 5′ UTR regulate genome dimerization and packaging
Global and nucleotide specific mutation rates expressed as mutations per nucleotide. (a) Global mutation rates for mutated (blue) and unmutated (red) samples that were untreated (left panel), ethanol treated (middle panel) and DMS treated samples (right panel). Mutation rates are higher in mutated compared to unmutated samples. Untreated samples, and samples treated as DMS control (EtOH) have similar mutation rates. DMS treated samples show a greatly increase mutation rate in both mutated and unmutated samples compared to the controls. (b) Nucleotide specific mutation rates (A, C, G, U) for mutated (blue) and unmutated (red) samples that were untreated (left panel), ethanol treated (middle panel) and DMS treated samples (right panel). Mutation frequencies in the mutated samples are consistently higher at all nucleotides in the mutated compared to unmutated samples. In the DMS treated samples, mutations are greatly enriched at C and A residues, as expected by the selectivity of the DMS chemical. Box plots show quartile 1 (Q1) to quartile 3 (Q3). The second quartile (Q2) is marked by a line inside the box. Whiskers correspond to the box’ edges + /− 1.5 times the interquartile range (IQR: Q3-Q1). Outliers are shown as points. Data are pooled from two independent experiments, each consisting of 32 independent samples.
