Nucleotide distance calculations with panmixia and Slatkin-Maddison (SM) probabilities – experimental cases.

Nucleotide Distance Calculations with panmixia and Slatkin-Maddison (SM) probabilities for experimental patients (HIA, IIA and LIA) are shown. BG = Between Group, APD = Average Pairwise Distance and SM = Slatkin-Maddison Test. #SGS = number of sequences used per compartment in analysis after exclusion of hypermutated and recombinant sequences. For probability of panmixia, p-values<0.05 are considered significant. For IIA, analysis for only one infectious variant is shown. #SGS in brackets for LIA denote number of unique sequences used in Slatkin-Maddison Test. Bracketed Slatkin-Maddison probabilities denotes p SM following removal of duplicate sequences.
* = Statistically significant; N/A = Not applicable.