Fig. 2: Traces of intra-host recombination as shifts in AF. | Nature Communications

Fig. 2: Traces of intra-host recombination as shifts in AF.

From: Systematic detection of co-infection and intra-host recombination in more than 2 million global SARS-CoV-2 samples

Fig. 2

a Theoretical AF shifts of defining mutations occurring at a recombinant breakpoint in samples containing the mixture of two parental and a recombinant strain with different ratios. b Examples of putative intra-host recombinant samples. (For the whole list, see Supplementary Methods 2). The black vertical line shows the location of the putative breakpoint, dashed lines and shaded, semi-transparent regions mark the means and standard deviations of relevant AFs before and after the breakpoint. OR: odds-ratio of models fitted to the data with and without a recombination breakpoint; RR: ratio of recombinant genomes in the sample.

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