Table 2. SIV genetic compartmentalization at peak virus replication.
| ID | Vaccinee/Control | wk 2 blood n = | wk 2 semen n = | s | N(s'≤s) | P |
| AX89 | C | 27 | 52 | 12 | 0 | <0.0001*** |
| C161 | C | 31 | 4 | 3 | 950 | 0.095 |
| C171 | C | 21 | 3 | 2 | 10000 | 1 |
| DA2D | C | 14 | 3 | 2 | 10000 | 1 |
| CK7J | C | 17 | 43 | 13 | 1325 | 0.1325 |
| CM8X | C | 35 | 32 | 22 | 4873 | 0.4873 |
| CP6E | C | 9 | 12 | 5 | 932 | 0.0932 |
| D135 | V | 12 | 4 | 3 | 2464 | 0.2464 |
| AX93 | V | 19 | 36 | 14 | 148 | 0.148 |
| AY11 | V | 22 | 3 | 3 | 10000 | 1 |
| AY28 | V | 11 | 3 | 2 | 10000 | 1 |
| AY47 | V | 16 | 5 | 5 | 10000 | 1 |
| AY89 | V | 4 | 12 | 4 | 10000 | 1 |
| C179 | V | 9 | 35 | 8 | 4286 | 0.4286 |
SIV env clones from control (C) and vaccinated (V) monkeys were amplified by SGA from semen and blood plasma 2 weeks after infection with a sequence-defined SIVmac251 stock. Shown are the number of clones per compartment (n), the number of Slatkin-Maddison migration events (s), and the number of permuted replicates having at most s migrations (N(s'≤s)) with associated P values (P) from 10,000 replicate permutations.