adaptive Branch Site REL
results summary
aBSREL found no evidence of episodic diversifying selection in your phylogeny.
A total of 41 branches were formally tested for diversifying selection. Significance was assessed using the Likelihood Ratio Test at a threshold of p ≤ 0.05, after correcting for multiple testing. Significance and number of rate categories inferred at each branch are provided in the detailed results table.
See here for more information about the aBSREL method.
Please cite PMID 25697341 if you use this result in a publication, presentation, or other scientific work.
Tree summary
| ω rate classes | # of branches | % of branches | % of tree length | # under selection |
|---|---|---|---|---|
| 1 | 32 | 78% | 5.9% | 0 |
| 2 | 9 | 22% | 94% | 0 |
This table contains a summary of the inferred aBSREL model complexity. Each row provides information about the branches that were best described by the given number of ω rate categories.
Fitted tree
Detailed results
| Name | B | LRT | Test p-value | Uncorrected p-value | ω distribution over sites | |
|---|---|---|---|---|---|---|
| Node10 | 0.0000 | 5.7158 | 0.8438 | 0.0206 | ω1 = 0.00 (93%) ω2 = 26.8 (7.1%) | |
| CHINESE_HAMSTER | 0.0000 | 5.4654 | 0.9357 | 0.0234 | ω1 = 0.00 (91%) ω2 = 7.61 (9.2%) | |
| MONGOLIAN_GERBIL | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.346 (100%) | |
| LESSER_EGYPTIAN_JERBOA | 0.0000 | 3.0800 | 1.0000 | 0.0802 | ω1 = 0.149 (92%) ω2 = 6.35 (7.7%) | |
| HOUSE_MOUSE | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.778 (100%) | |
| RYUKYU_MOUSE | 0.0000 | 0.0381 | 1.0000 | 0.4634 | ω1 = 1.15 (100%) | |
| SHREW_MOUSE | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.697 (100%) | |
| RAT | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.403 (100%) | |
| DEER_MOUSE | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.337 (100%) | |
| PIKA | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.0925 (100%) | |
| GOLDEN_HAMSTER | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.292 (100%) | |
| PRAIRIE_VOLE | 0.0000 | 4.1900 | 1.0000 | 0.0451 | ω1 = 0.0576 (89%) ω2 = 4.89 (11%) | |
| BLIND_MOLE_RAT | 0.0000 | 2.1504 | 1.0000 | 0.1309 | ω1 = 0.296 (97%) ω2 = 22.2 (2.6%) | |
| NAKED_MOLE_RAT | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.255 (100%) | |
| DAMARA_MOLE_RAT | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.155 (100%) | |
| GUINEA_PIG | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.216 (100%) | |
| DEGU | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.329 (100%) | |
| LONG_TAILED_CHINCHILLA | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.365 (100%) | |
| SQUIRREL | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.294 (100%) | |
| BEAVER | 0.0000 | 1.9501 | 1.0000 | 0.1457 | ω1 = 0.00 (77%) ω2 = 2.16 (23%) | |
| RABBIT | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.146 (100%) | |
| MARMOT | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.398 (100%) | |
| KANGAROO_RAT | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.284 (100%) | |
| Node11 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.203 (100%) | |
| Node15 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.994 (100%) | |
| Node18 | 0.0000 | 0.2067 | 1.0000 | 0.4004 | ω1 = 10000000000 (100%) | |
| Node19 | 0.0000 | 0.1194 | 1.0000 | 0.4286 | ω1 = 5.54 (100%) | |
| Node22 | 0.0000 | 2.5858 | 1.0000 | 0.1039 | ω1 = 0.00 (95%) ω2 = 6.73 (4.6%) | |
| Node24 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.286 (100%) | |
| Node26 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.255 (100%) | |
| Node27 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.226 (100%) | |
| Node28 | 0.0000 | 2.8892 | 1.0000 | 0.0886 | ω1 = 10000000000 (100%) | |
| Node29 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.523 (100%) | |
| Node30 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.172 (100%) | |
| Node36 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.342 (100%) | |
| Node37 | 0.0000 | 1.3638 | 1.0000 | 0.2003 | ω1 = 10000000000 (100%) | |
| Node38 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.358 (100%) | |
| Node4 | 0.0000 | 4.6468 | 1.0000 | 0.0356 | ω1 = 0.00 (83%) ω2 = 3.15 (17%) | |
| Node5 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.295 (100%) | |
| Node8 | 0.0000 | 0.0000 | 1.0000 | 1.0000 | ω1 = 0.614 (100%) | |
| Node9 | 0.0000 | 4.6520 | 1.0000 | 0.0355 | ω1 = 0.269 (98%) ω2 = 10000 (2.4%) |
Model fits
| Model | AICC | log L | Parameters |
|---|---|---|---|
| Nucleotide GTR | 14124.89 | -7012.98 | 49 |
| Baseline MG94xREV | 13717.98 | -6761.21 | 96 |
| Full adaptive model | 13648.29 | -6707.64 | 114 |
This table reports a statistical summary of the models fit to the data. Here, Baseline MG94xREV refers to the MG94xREV baseline model that infers a single ω rate category per branch. Full adaptive model refers to the adaptive aBSREL model that infers an optimized number of ω rate categories per branch.
