Table 1.
Point estimates and intervals on bias
| Mammals | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| |
solo-LTRs |
Full-length recomb. |
Full-length no recomb. |
||||||
| |
point |
lower |
upper |
point |
lower |
upper |
point |
lower |
upper |
| human* |
1.36 |
1.03 |
1.79 |
38.24 |
2.56 |
∞ |
0.86 |
0.09 |
3.32 |
| chimp |
1.36 |
0.89 |
2.08 |
NA |
1.48 |
∞ |
1.44 |
0 |
∞ |
| gorilla |
NA |
0 |
0.05 |
0.35 |
0 |
16.13 |
NA |
0 |
0.7 |
| orangutan |
NA |
NA |
NA |
NA |
0.63 |
∞ |
1.73 |
0 |
∞ |
| macaque |
4.47 |
3.35 |
6.28 |
2.18 |
0.13 |
∞ |
0.03 |
0 |
1.65 |
| marmoset |
NA |
NA |
NA |
NA |
3.39 |
∞ |
NA |
0.19 |
∞ |
| mouse* |
0.37 |
0.28 |
0.48 |
4.39 |
1.73 |
33.87 |
0.29 |
0 |
0.84 |
| rat* |
0.34 |
0.23 |
0.46 |
0.68 |
0 |
3.74 |
NA |
0 |
0.23 |
| rabbit* |
1.99 |
1.53 |
2.62 |
NA |
0 |
2.85 |
NA |
0 |
0.12 |
| dog* |
0.97 |
0.78 |
1.2 |
NA |
0 |
1.79 |
NA |
NA |
NA |
| cat |
2.56 |
1.17 |
7.12 |
NA |
0 |
2.02 |
NA |
0 |
0 |
| horse* |
0.76 |
0.01 |
3.18 |
NA |
0 |
4.98 |
NA |
0 |
0.33 |
| pig* |
NA |
0 |
0.07 |
NA |
NA |
NA |
NA |
NA |
NA |
| cow* |
2.38 |
2.02 |
2.82 |
0.03 |
0 |
1.06 |
NA |
NA |
NA |
| opossum* |
11.22 |
5.12 |
167.79 |
NA |
4.39 |
∞ |
77.19 |
0.28 |
∞ |
| |
|
|
|
|
Birds |
|
|
|
|
| |
point |
lower |
upper |
point |
lower |
upper |
point |
lower |
upper |
| turkey |
NA |
0 |
∞ |
NA |
0 |
∞ |
NA |
0 |
∞ |
| chicken |
0.53 |
0 |
∞ |
NA |
0 |
∞ |
0.19 |
0 |
∞ |
| zebra finch | NA | NA | NA | NA | NA | NA | NA | NA | NA |
Point estimates and intervals on bias β implied by measurement of: solo-LTR distribution (left); full-length proviral distribution under the recombination linked deletion model (middle); full-length proviral distribution under the non recombination linked deletion model (right). Although each model implies a single bias β, we also ask what bias values delineate the range (lower and upper) under which we could expect to measure our observed ratios with a probability of less than 0.05. We use ‘NA’ to mark those situations in which no point estimate or boundary value of β can be computed. Asterisks mark the genomes we consider as trustworthy and discuss in the Results section.