Table 3.
TransPhylo outputs for triplicate runs of strict and relaxed clock models
|
No. of sequence pairs >50 % transmission posterior prob |
No. of unique sequences and % of endemic clade |
Reproductive no. R 0 (mean ±) |
Proportion of outbreak sampled (mean ±) |
No. of bovine-to-bovine transmission pairs (% of total sequence pairs) |
No. of badger-to-badger transmission pairs (% of total sequence pairs) |
No. of bovine-to-badger transmission pairs (% of total sequence pairs) |
No. of badger-to-bovine transmission pairs (% of total sequence pairs) |
|
|---|---|---|---|---|---|---|---|---|
|
Strict clock run 1 |
24 |
45 (14.9 %) |
2.06 (1.87–2.26) |
0.38 (0.30–0.46) |
22 (91.6 %) |
0 (0 %) |
1 (4.2 %) |
1 (4.2 %) |
|
Strict clock run 2 |
29 |
56 (18.5 %) |
1.70 (1.54–1.87) |
0.42 (0.33–0.51) |
26 (89.7 %) |
0 (0 %) |
2 (6.9 %) |
1 (3.4 %) |
|
Strict clock run 3 |
24 |
45 (14.9 %) |
2.06 (1.87–2.26) |
0.38 (0.31–0.45) |
22 (91.6 %) |
0 (0 %) |
1 (4.2 %) |
1 (4.2 %) |
|
Relaxed clock run 1 |
37 |
68 (22.5 %) |
2.49 (2.26–2.72) |
0.37 (0.30–0.45) |
35 (94.6 %) |
0 (0 %) |
1 (2.7 %) |
1 (2.7 %) |
|
Relaxed clock run 2 |
37 |
68 (22.5 %) |
2.48 (2.25–2.73) |
0.38 (0.31–0.46) |
35 (94.6 %) |
0 (0 %) |
0 (0 %) |
2 (5.4 %) |
|
Relaxed clock run 3 |
34 |
62 (20.5 %) |
2.48 (2.25–2.73) |
0.38 (0.31–0.46) |
33 (97.0 %) |
0 (0 %) |
0 (0 %) |
1 (3.0 %) |