Table 1.
HIV-1C V1C5 clusters with 5+ members, bootstrap threshold ≥ 0.80
| Cluster ID | Members per cluster | Mochudi- unique, or mixed cluster |
ML bootstrap support |
Internode Certainty* |
The most recent HIV transmission |
Time to the most recent transmission |
Acute, or historic sub- epidemic** |
||
|---|---|---|---|---|---|---|---|---|---|
| Total | From Mochudi |
From outside Mochudi |
|||||||
| c01_n12 | 12 | 12 | 0 | unique | 0.92 | 0.71 | Nov 2007 Oct 2006 | 4.85.3 | historic |
| c02_n09 | 9 | 3 | 6 | mixed | 0.88 | 0.88 | Oct 1996 Jul 1994 | 15.517.8 | historic |
| c03_n07 | 7 | 7 | 0 | unique | 1 | 0.99 | Aug Feb 2009 | 2.73.1 | acute |
| c04_n08 | 8 | 6 | 2 | mixed | 0.8 | 0.84 | Feb 2002 Oct 2000 | 10.611.9 | historic |
| c05_n06 | 6 | 6 | 0 | unique | 0.99 | 0.98 | Jan 2003 Dec 2001 | 9.110.2 | historic |
| c06_n06 | 6 | 6 | 0 | unique | 1 | 1 | May 2005 Aug 2004 | 7.6.9 | historic |
| c07_n06 | 6 | 6 | 0 | unique | 0.86 | 0.53 | Oct 2004 Dec 2003 | 7.48.2 | historic |
| c08_n06 | 6 | 6 | 0 | unique | 0.9 | 0.89 | Jun 2004 Dec 2003 | 8.89.3 | historic |
| c09_n05 | 5 | 1 | 4 | mixed | 0.94 | 0.96 | Aug 1998 Jan 1997 | 12.614.2 | historic |
| c10_n05 | 5 | 5 | 0 | unique | 0.92 | 0.72 | Sep 20032002 | 78.4 | historic |
| c11_n05 | 5 | 5 | 0 | unique | 1 | 1 | Nov Feb 2005 | 6.18 | historic |
| c12_n05 | 5 | 5 | 0 | unique | 1 | 1 | Jan 2006 Apr 2005 | 6.18 | historic |
| c13_n05 | 5 | 5 | 0 | unique | 1 | 1 | Sep Jan 2005 | 5.6.2 | historic |
| c14_n05 | 5 | 5 | 0 | unique | 0.8 | 0.72 | Jun 2007 Nov 2006 | 3.94.5 | acute |
| c15_n05 | 5 | 4 | 1 | mixed | 0.81 | 0.62 | Feb 2004 Jan 2003 | 7.9.1 | historic |
*
most prevalent conflicting bipartitions
**
HIV sub-epidemic with (acute), or without (historic) HIV transmission over last 5 years