From: Phylogeny and divergence of the pinnipeds (Carnivora: Mammalia) assessed using a multigene dataset
 | Phylogeny estimation | Fitting to supertree topology |  | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
Gene | Number of taxa | Number of bps | Model selected | Nonclock ln L | Model selected | Nonclock ln L | Clock ln L | Chi-squared | df | LRT P-value | Clock? |
ALDOA | 7 | 120 | K80 * | 228.5901 | K80 | 228.5901 | 228.98093 | 0.78166 | 5 | 0.9782 | yes |
ALDOC | 7 | 129 | K3P * | 213.1006 | K81+I | 216.4168 | 218.7521 | 4.6706 | 5 | 0.4574 | yes |
APOB (editing region) | 5 | 175 | TVM * | 317.7049 | TVM+G | 317.3427 | 319.90041 | 5.1154 | 3 | 0.1635 | yes |
APOB (exon 26) | 6 | 963 | HKY | 1701.6729 | HKY | 1701.673 | 1705.76283 | 8.1797 | 4 | 0.08521 | yes |
APOB (exon 29) | 3 | 621 | n/a | n/a | TVM+G | 1380.1937 | 1381.96031 | 3.5332 | 1 | 0.06015 | yes |
CYP1A1 | 5 | 1560 | HKY | 2641.2015 | HKY+I | 2913.9797 | 3546.2776 | 1264.6 | 3 | 0 | Â |
CYP1A2 | 5 | 1539 | TVM+G | 2859.5616 | TVM+I | 2861.4082 | 2863.05456 | 3.2927 | 3 | 0.3487 | yes |
H2AFZ | 7 | 52 | TrNef * | 95.5468 | TrNef | 97.6302 | 99.00264 | 2.7449 | 5 | 0.7392 | yes |
HLA-DOA | 5 | 399 | HKY * | 598.9182 | HKY | 598.9182 | 599.15301 | 0.46962 | 3 | 0.9255 | yes |
LEP | 5 | 504 | GTR * | 1110.6539 | GTR | 1110.6539 | 1126.3367 | 31.366 | 3 | 7.12E-07 | Â |
LYZ | 3 | 447 | n/a | n/a | K80 | 677.5543 | 677.71442 | 0.32024 | 1 | 0.5715 | yes |
MHC-DQA1 | 7 | 162 | TVMef * | 393.3731 | TVMef | 393.7065 | 395.79033 | 4.1677 | 5 | 0.5255 | yes |
MHC-DQA2 | 7 | 230 | HKY+G * | 455.7005 | HKY+I | 458.4345 | 460.01745 | 3.1659 | 5 | 0.6744 | yes |
MHC-DQB1 | 5 | 141 | K3Puf+G * | 307.2022 | TVM+I | 306.0257 | 306.25311 | 0.45482 | 3 | 0.9287 | yes |
MT-ATP6 | 22 | 681 | GTR+I+G * | 4821.8578 | TVM+I+G | 4823.9243 | 4837.61057 | 27.373 | 20 | 0.1251 | yes |
MT-ATP8 | 22 | 204 | HKY+I+G * | 1598.4148 | TVM+I+G | 1597.1221 | 1609.01567 | 23.787 | 20 | 0.2518 | yes |
MT-CO1 | 25 | 1545 | GTR+I+G * | 10168.6228 | TVM+I+G | 10171.9424 | 10194.06882 | 44.253 | 23 | 0.004901 | yes |
MT-CO2 | 25 | 687 | HKY+I+G * | 4427.0054 | HKY+I+G | 4428.0015 | 4446.36885 | 36.735 | 23 | 0.03465 | yes |
MT-CO3 | 22 | 784 | HKY+I+G * | 4896.904 | TVM+I+G | 4893.5391 | 4909.02367 | 30.969 | 20 | 0.0556 | yes |
MT-CYB | 35 | 1140 | TrN+I+G * | 8835.9098 | GTR+I+G | 8836.9434 | 8872.23839 | 70.59 | 33 | 0.0001522 | Â |
MT-ND1 | 22 | 957 | HKY+I+G * | 5866.8206 | TVM+I+G | 5863.5283 | 5882.62305 | 38.19 | 20 | 0.008394 | yes |
MT-ND2 | 24 | 1044 | TrN+I+G * | 7689.7091 | TIM+I+G | 7698.3613 | 7720.88041 | 45.038 | 22 | 0.002625 | yes |
MT-ND3 | 22 | 350 | HKY+G * | 2365.8095 | TVM+I+G | 2363.5559 | 2374.43717 | 21.763 | 20 | 0.3535 | yes |
MT-ND4 | 21 | 1378 | GTR+I+G * | 9587.3198 | TVM+I+G | 9586.7549 | 9609.42621 | 45.343 | 19 | 0.0006135 | Â |
MT-ND4L | 22 | 300 | HKY+I+G * | 1900.4839 | HKY+I+G | 1897.8574 | 1909.16103 | 22.607 | 20 | 0.3085 | yes |
MT-ND5 | 22 | 1836 | GTR+I+G * | 13444.3742 | TVM+I+G | 13450.124 | 13482.66844 | 65.089 | 20 | 1.13E-06 | Â |
MT-ND6 | 13 | 528 | HKY+I+G * | 2457.8525 | HKY+I+G | 2457.8848 | 2466.38674 | 17.004 | 11 | 0.1078 | yes |
MT-RNR1 | 18 | 984 | GTR+G * | 4033.2182 | GTR+I+G | 4033.6277 | 4047.13902 | 27.023 | 16 | 0.04123 | yes |
MT-RNR2 | 14 | 1608 | GTR+I+G | 5722.1966 | GTR+I+G | 5710.8447 | 5730.04437 | 38.399 | 12 | 0.0001321 | Â |
MT-TA | 7 | 69 | HKY+G * | 193.586 | HKY+G | 192.1818 | 197.11463 | 9.8657 | 5 | 0.07913 | yes |
MT-TC | 7 | 69 | K80+G * | 190.9928 | K80+G | 190.9817 | 192.76403 | 3.5647 | 5 | 0.6136 | yes |
MT-TD | 7 | 68 | HKY+G * | 177.8663 | HKY+G | 177.7805 | 178.50213 | 1.4433 | 5 | 0.9195 | yes |
MT-TE | 9 | 72 | HKY+G * | 205.1879 | HKY+I | 204.3486 | 208.84935 | 9.0015 | 7 | 0.2525 | yes |
MT-TF | 7 | 72 | TrNef * | 201.267 | TrN+G | 197.1401 | 202.84986 | 11.42 | 5 | 0.04366 | yes |
MT-TG | 7 | 72 | TrNef+G * | 269.0899 | HKY+G | 267.3327 | 271.41557 | 8.1657 | 5 | 0.1473 | yes |
MT-TH | 7 | 69 | HKY+G * | 201.8982 | HKY+G | 203.5126 | 205.11176 | 3.1983 | 5 | 0.6694 | yes |
MT-TI | 7 | 71 | HKY+G * | 141.7316 | HKY+I | 142.4105 | 145.12331 | 5.4256 | 5 | 0.3662 | yes |
MT-TK | 7 | 70 | HKY+G * | 219.0096 | HKY+G | 221.4528 | 228.78366 | 14.662 | 5 | 0.01191 | yes |
MT-TM | 7 | 71 | K80+G * | 140.5878 | TrNef+I+G | 135.8801 | 145.67015 | 19.58 | 5 | 0.001498 | yes |
MT-TN | 7 | 73 | K80+G * | 204.0605 | HKY+I | 201.8885 | 205.49416 | 7.2113 | 5 | 0.2054 | yes |
MT-TP | 8 | 68 | HKY+G * | 200.9591 | HKY+G | 202.8423 | 204.98693 | 4.2893 | 6 | 0.6376 | yes |
MT-TQ | 7 | 76 | HKY+G * | 202.9076 | TrN+G | 203.4861 | 222.92371 | 38.875 | 5 | 2.52E-07 | Â |
MT-TR | 8 | 71 | HKY+G * | 197.8915 | K81uf+G | 196.7379 | 201.8366 | 10.197 | 6 | 0.1166 | yes |
MT-TT | 9 | 74 | K80+G * | 226.9842 | HKY+I | 224.7003 | 230.34978 | 11.299 | 7 | 0.1261 | yes |
MT-TV | 8 | 76 | K80+G * | 231.1146 | HKY+G | 230.1562 | 233.04494 | 5.7775 | 6 | 0.4486 | yes |
MT-TW | 7 | 68 | K80+I+G * | 215.6285 | HKY+I+G | 211.9622 | 218.25694 | 12.589 | 5 | 0.02755 | yes |
MT-TY | 7 | 70 | K80+G * | 225.9578 | HKY+I | 222.7287 | 230.7563 | 16.055 | 5 | 0.006689 | yes |
MX1 | 4 | 1980 | TrN+G | 3887.1331 | TrN+G | 3887.1331 | 3892.79094 | 11.316 | 2 | 0.003489 | yes |
RAG1 | 5 | 741 | HKY+G | 1713.0793 | TVM+I | 1709.8627 | 1712.53176 | 5.3381 | 3 | 0.1486 | yes |
RHO | 5 | 1077 | HKY+I+G | 2055.8504 | HKY+I | 2056.0244 | 2056.56021 | 1.0716 | 3 | 0.7839 | yes |
SERPINA7 | 7 | 442 | TrNef * | 869.6311 | TrNef | 869.631 | 870.82096 | 2.3799 | 5 | 0.7945 | yes |
SRY | 21 | 231 | HKY * | 488.8158 | HKY | 488.3143 | 494.82962 | 13.031 | 19 | 0.837 | yes |
TOTAL | Â | 26818 | Â | Â | Â | Â | Â | Â | Â | Â | Â |