Model parameter summaries over all 4 runs sampled in files "TOL_sabd_8cl_2mu_2g.run1.p", "TOL_sabd_8cl_2mu_2g.run2.p" etc: Summaries are based on a total of 1000 samples from 4 runs. Each run produced 500 samples of which 250 samples were included. Parameter summaries saved to file "TOL_sabd_8cl_2mu_2g.pstat". Overwriting file "TOL_sabd_8cl_2mu_2g.pstat" 95% HPD Interval -------------------- Parameter Mean Variance Lower Upper Median min ESS* avg ESS PSRF+ -------------------------------------------------------------------------------------------------------------------- TH{all} 0.663773 0.001037 0.599708 0.719311 0.666670 13.29 33.39 1.194 TL{all} 18.073746 0.479270 16.936030 19.449360 18.015320 6.35 27.26 1.703 r(A<->C){1} 0.080581 0.000009 0.075113 0.086298 0.080592 232.27 244.79 1.001 r(A<->G){1} 0.376179 0.000070 0.359850 0.391757 0.376341 166.65 206.04 0.998 r(A<->T){1} 0.093273 0.000021 0.084029 0.101458 0.093191 166.20 212.56 0.998 r(C<->G){1} 0.040420 0.000002 0.037503 0.043353 0.040464 127.17 194.34 1.000 r(C<->T){1} 0.346687 0.000064 0.331435 0.362944 0.346502 195.59 215.11 0.999 r(G<->T){1} 0.062861 0.000006 0.058110 0.067482 0.062815 207.33 227.47 0.999 r(A<->C){2} 0.120103 0.000013 0.113465 0.127339 0.119934 195.25 218.82 0.998 r(A<->G){2} 0.364232 0.000053 0.349756 0.377423 0.364590 208.75 233.67 0.998 r(A<->T){2} 0.051712 0.000005 0.047456 0.055964 0.051741 128.10 193.25 0.999 r(C<->G){2} 0.112804 0.000017 0.105046 0.120802 0.112810 216.41 238.73 0.998 r(C<->T){2} 0.271604 0.000044 0.259268 0.284020 0.271346 172.88 212.11 0.998 r(G<->T){2} 0.079544 0.000010 0.072929 0.085485 0.079443 232.83 242.27 0.998 r(A<->C){3} 0.135459 0.000038 0.122205 0.146175 0.135365 181.24 232.81 0.998 r(A<->G){3} 0.316801 0.000111 0.295220 0.335842 0.316721 190.60 235.15 0.999 r(A<->T){3} 0.049972 0.000014 0.043087 0.056986 0.049837 247.71 249.43 0.999 r(C<->G){3} 0.102369 0.000035 0.091424 0.113789 0.102229 126.85 203.45 0.999 r(C<->T){3} 0.338826 0.000124 0.315626 0.359891 0.338667 160.32 227.58 0.999 r(G<->T){3} 0.056574 0.000021 0.047523 0.065191 0.056638 120.68 215.92 0.998 r(A<->C){4} 0.098251 0.000007 0.093590 0.103860 0.098241 163.02 223.75 1.000 r(A<->G){4} 0.303835 0.000035 0.292583 0.315343 0.303714 159.50 217.93 0.998 r(A<->T){4} 0.074720 0.000007 0.069769 0.079805 0.074810 126.09 170.95 1.001 r(C<->G){4} 0.084869 0.000008 0.079405 0.090229 0.084780 178.20 225.63 0.998 r(C<->T){4} 0.343424 0.000044 0.331131 0.356458 0.343311 155.50 213.89 0.999 r(G<->T){4} 0.094901 0.000011 0.088221 0.101295 0.094990 196.27 228.58 0.998 r(A<->C){5} 0.084635 0.000005 0.080784 0.089278 0.084616 209.15 239.79 0.999 r(A<->G){5} 0.373019 0.000036 0.361658 0.384806 0.373099 250.00 250.00 0.998 r(A<->T){5} 0.054203 0.000003 0.051507 0.057520 0.054175 169.95 215.10 1.001 r(C<->G){5} 0.064716 0.000007 0.059442 0.069558 0.064654 221.46 240.71 0.998 r(C<->T){5} 0.343767 0.000032 0.332975 0.354863 0.343446 250.00 250.00 0.999 r(G<->T){5} 0.079661 0.000006 0.074722 0.083778 0.079677 198.18 229.14 0.998 r(A<->C){6} 0.094145 0.000007 0.088973 0.099303 0.094189 176.75 203.48 0.999 r(A<->G){6} 0.341474 0.000037 0.329842 0.353313 0.341212 149.85 212.66 0.999 r(A<->T){6} 0.050998 0.000003 0.047314 0.054337 0.050980 171.77 230.44 0.999 r(C<->G){6} 0.102092 0.000014 0.095026 0.109258 0.101986 209.74 230.08 0.998 r(C<->T){6} 0.325007 0.000039 0.312412 0.336570 0.325215 164.62 220.28 1.000 r(G<->T){6} 0.086283 0.000008 0.081207 0.092079 0.086261 112.84 211.44 1.002 r(A<->C){7} 0.140074 0.000073 0.123167 0.155347 0.139806 161.65 209.35 1.003 r(A<->G){7} 0.345461 0.000172 0.322472 0.372582 0.345448 204.26 231.46 1.000 r(A<->T){7} 0.099590 0.000067 0.083767 0.115798 0.099314 150.31 225.08 0.999 r(C<->G){7} 0.124852 0.000060 0.109978 0.140295 0.124681 167.52 229.38 0.999 r(C<->T){7} 0.215564 0.000120 0.194074 0.236753 0.215083 217.37 239.21 1.002 r(G<->T){7} 0.074459 0.000041 0.061384 0.086588 0.074488 160.39 227.60 0.999 pi(A){1} 0.125926 0.000008 0.120715 0.131476 0.125708 250.00 250.00 0.999 pi(C){1} 0.383000 0.000025 0.372601 0.391957 0.382932 202.11 217.93 1.000 pi(G){1} 0.320319 0.000026 0.309946 0.329879 0.320136 227.19 244.30 0.999 pi(T){1} 0.170755 0.000012 0.163952 0.177174 0.170643 250.00 250.00 0.998 pi(A){2} 0.275441 0.000017 0.267819 0.283429 0.275510 243.03 248.26 0.999 pi(C){2} 0.243754 0.000016 0.235883 0.251362 0.243794 208.15 224.19 0.998 pi(G){2} 0.217182 0.000014 0.210279 0.224386 0.217073 150.85 197.08 0.999 pi(T){2} 0.263623 0.000017 0.255528 0.271257 0.263354 100.94 200.24 0.999 pi(A){3} 0.309529 0.000025 0.300108 0.318813 0.309397 163.69 220.60 0.998 pi(C){3} 0.220914 0.000022 0.211561 0.229338 0.220978 157.73 183.17 0.999 pi(G){3} 0.240216 0.000023 0.231587 0.250106 0.240152 203.53 233.83 1.000 pi(T){3} 0.229342 0.000023 0.220723 0.239800 0.229269 118.92 211.84 0.999 pi(A){4} 0.333498 0.000016 0.325736 0.341101 0.333556 178.05 219.13 0.998 pi(C){4} 0.249296 0.000014 0.242077 0.256257 0.249358 217.33 241.83 0.999 pi(G){4} 0.241125 0.000013 0.234468 0.248365 0.241070 248.97 249.74 1.000 pi(T){4} 0.176081 0.000011 0.169246 0.182436 0.176046 178.70 204.09 0.998 pi(A){5} 0.283489 0.000012 0.277031 0.290241 0.283512 229.78 241.30 0.999 pi(C){5} 0.237308 0.000010 0.231410 0.243589 0.237246 249.68 249.92 0.999 pi(G){5} 0.185566 0.000010 0.179466 0.191553 0.185587 182.30 224.34 0.999 pi(T){5} 0.293638 0.000012 0.286945 0.300123 0.293720 230.67 245.17 0.999 pi(A){6} 0.354435 0.000018 0.346592 0.362524 0.354446 185.59 223.52 0.998 pi(C){6} 0.187270 0.000011 0.180802 0.194000 0.187251 119.95 215.48 0.999 pi(G){6} 0.200650 0.000011 0.193991 0.207133 0.200604 190.07 235.02 1.003 pi(T){6} 0.257645 0.000016 0.250000 0.265452 0.257555 186.42 219.80 1.000 alpha{1} 2.040714 0.005974 1.879220 2.174162 2.042078 140.83 207.26 0.998 alpha{2} 0.845608 0.002723 0.738528 0.939949 0.844242 250.00 250.00 0.998 alpha{3} 0.747123 0.004650 0.615888 0.872816 0.743134 136.95 221.74 0.999 alpha{4} 2.148607 0.011785 1.928308 2.357158 2.148284 216.73 239.02 0.999 alpha{5} 4.269558 0.043716 3.893370 4.692648 4.252392 164.62 228.66 0.998 alpha{6} 4.130844 0.049125 3.714535 4.536574 4.128240 142.81 202.43 0.999 alpha{7} 1.185789 0.025871 0.881339 1.506147 1.175045 195.06 229.28 0.999 alpha{8,9,10,11,12,13,14} 1.314774 0.001104 1.251245 1.380447 1.314665 162.37 196.51 1.003 pinvar{1} 0.020523 0.000020 0.010861 0.028159 0.020472 151.82 198.88 0.999 pinvar{2} 0.174628 0.000341 0.138137 0.207728 0.175269 250.00 250.00 0.999 pinvar{3} 0.610033 0.000239 0.579678 0.639038 0.610941 250.00 250.00 0.999 pinvar{4} 0.040497 0.000057 0.024556 0.054197 0.040394 242.72 248.18 0.999 pinvar{5} 0.018577 0.000010 0.012501 0.024624 0.018467 250.00 250.00 1.000 pinvar{6} 0.033317 0.000016 0.025390 0.040967 0.033211 200.53 231.63 0.999 pinvar{7} 0.160345 0.001175 0.090648 0.222406 0.163182 230.22 245.06 0.998 m{1} 2.051228 0.000613 2.004861 2.099363 2.051345 150.17 200.15 1.000 m{2} 0.589152 0.000083 0.572408 0.607020 0.589270 205.17 230.90 0.999 m{3} 0.199692 0.000036 0.187851 0.210412 0.199782 118.82 191.34 0.999 m{4} 0.996597 0.000129 0.975060 1.018302 0.996158 190.02 235.00 0.998 m{5} 1.404260 0.000145 1.379802 1.425981 1.404430 144.04 215.49 0.999 m{6} 1.417662 0.000238 1.385585 1.445707 1.418036 222.93 239.29 0.998 m{7} 0.884063 0.001253 0.810361 0.949684 0.883689 119.54 182.50 0.999 net_speciation{all} 0.021653 0.000010 0.015280 0.027892 0.021647 221.86 242.96 1.001 relative_extinction{all} 0.922430 0.001099 0.856480 0.977217 0.928512 68.59 158.30 1.005 relative_fossilization{all} 0.000773 0.000000 0.000160 0.001773 0.000648 142.24 199.79 1.003 igrvar{1,2,3,4,5,6,7} 0.151160 0.000375 0.115458 0.187404 0.149383 72.09 174.24 1.080 igrvar{8} 0.047774 0.000063 0.033562 0.064356 0.047511 63.13 81.42 1.016 igrvar{9} 0.029098 0.000026 0.018192 0.038533 0.028788 48.84 73.94 1.000 igrvar{10} 0.039835 0.000065 0.025040 0.056317 0.039720 26.25 62.25 1.013 igrvar{11} 0.035136 0.000028 0.026350 0.046043 0.034652 57.06 126.22 1.010 igrvar{12} 0.052829 0.000044 0.040878 0.066835 0.052533 81.48 114.66 1.003 igrvar{13} 0.034777 0.000058 0.019040 0.048869 0.034409 23.02 55.84 1.011 igrvar{14} 0.067035 0.000177 0.042332 0.092754 0.066881 38.12 73.34 1.009 clockrate{all} 0.002869 0.000000 0.002587 0.003124 0.002881 13.66 36.05 1.199 -------------------------------------------------------------------------------------------------------------------- * Convergence diagnostic (ESS = Estimated Sample Size); min and avg values correspond to minimal and average ESS among runs. ESS value below 100 may indicate that the parameter is undersampled. + Convergence diagnostic (PSRF = Potential Scale Reduction Factor; Gelman and Rubin, 1992) should approach 1.0 as runs converge.