Skip to main content

Table 1 Genetic distance, aLRT and posterior probability of 8 major clusters of Slovenian sequences and substitution rate (*10 -2 ) obtained by employing Bayesian analysis on two different sets of sequences; set comprised of all Slovenian subtype B sequences and separate sets of only clustered sequences

From: Bridging epidemiology with population genetics in a low incidence MSM-driven HIV-1 subtype B epidemic in Central Europe

  Maximum pairwise genetic distance2 aLRT2 Posterior probability3 Substitution rate - full analysis3 Substitution rate - analysis based on cluster strains3
   Mean Median 95% HPD Mean Median 95% HPD
Cluster 1 2.38% 0.986 1 3.20 2.85 0.80–6.53 1.71 1.70 1.24–2.22
Cluster 2 2.56% 0.991 1 3.85 3.55 1.29–7.34 1.41 1.38 0.76–2.14
Cluster 3 1.85% 0.985 0.9998 2.19 2.02 0.76–4.00    
Cluster 4 2.12% 0.999 0.9999 2.74 2.49 0.92–5.23    
Cluster 5 1 3.14% 0.928 0.9996 2.46 2.16 0.50–5.27    
Cluster 6 3.73% 0.981 1 2.46 2.19 0.63–4.97    
Cluster 7 1.32% 0.972 1 2.06 1.87 0.60–3.86    
Cluster 8 1.01% 0.999 1 2.41 2.25 1.04–4.29    
  1. NOTE: The Bayesian analysis was performed in duplicate by using a relaxed clock model with uncorrelated lognormal distribution and Bayesian skyline coalescent model.
  2. 1numbers are shown for the newly defined Cluster 5 with only 10 patients.
  3. 2values obtained by maximum likelihood analysis.
  4. 3values obtained by Bayesian analysis.
  5. aLRT = approximate likelihood ratio test branch support values, HPD = highest posterior density.