.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2839_470x829_2006.phy . Data type : dna . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : GTR . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Nucleotide equilibrium frequencies : empirical . Optimise tree topology : yes . Tree topology search : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . 52 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . 733 patterns found. (out of a total of 829 sites) . 93 sites without polymorphism (11.22%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis will use at least 184Mo of memory space... . Maximizing likelihood (using SPR moves)... . ( 45 sec) [ -44518.3396] [GTR parameters ] . ( 47 sec) [ -44263.3238] [Alpha ][ 0.500960] . ( 48 sec) [ -44259.5209] [ 9075] [depth= 1] . ( 49 sec) [ -44245.3980] [ 9076] [depth= 1] . ( 50 sec) [ -44244.8088] [ 9075] [depth= 1] . ( 50 sec) [ -44242.1418] [ 9070] [depth= 6] . ( 52 sec) [ -44236.8639] [ 9069] [depth= 6] . ( 52 sec) [ -44235.2294] [ 9069] [depth= 1] . ( 53 sec) [ -44234.8373] [ 9069] [depth= 1] . ( 54 sec) [ -44229.0401] [ 9067] [depth= 4] . ( 55 sec) [ -44225.4511] [ 9068] [depth= 1] . ( 56 sec) [ -44216.6620] [ 9067] [depth= 1] . ( 56 sec) [ -44212.1647] [ 9065] [depth= 1] . ( 57 sec) [ -44196.6411] [ 9065] [depth= 1] . ( 58 sec) [ -44196.1911] [ 9065] [depth= 1] . ( 59 sec) [ -44196.0904] [ 9065] [depth= 2] . ( 60 sec) [ -44189.6181] [ 9065] [depth= 1] . ( 64 sec) [ -44189.5548] [ 9065] [depth= 3] . ( 64 sec) [ -44189.0586] [ 9065] [depth= 3] . ( 65 sec) [ -44188.8155] [ 9065] [depth= 1] . ( 66 sec) [ -44188.4521] [ 9065] [depth= 1] . ( 67 sec) [ -44188.3513] [ 9065] [depth= 4] . ( 67 sec) [ -44188.1917] [ 9065] [depth= 1] . ( 68 sec) [ -44188.1086] [ 9065] [depth= 2] . ( 69 sec) [ -44187.8663] [ 9065] [depth= 4] . ( 70 sec) [ -44187.8561] [ 9065] [depth= 2] . ( 71 sec) [ -44187.7079] [ 9065] [depth= 2] . ( 73 sec) [ -44183.7238] [ 9065] [depth= 1] . ( 75 sec) [ -44181.1514] [ 9068] [depth= 1] . ( 75 sec) [ -44180.9650] [ 9067] [depth= 1] . ( 76 sec) [ -44179.3969] [ 9068] [depth= 1] . ( 77 sec) [ -44169.2214] [ 9066] [depth= 2] . ( 77 sec) [ -44168.9262] [ 9066] [depth= 1] . ( 80 sec) [ -44162.7026] [ 9071] [depth= 2] . ( 80 sec) [ -44149.1596] [ 9057] [depth= 5] . ( 83 sec) [ -44131.0433] [ 9057] [depth= 1] . ( 84 sec) [ -44128.8033] [ 9057] [depth= 1] . ( 85 sec) [ -44127.3425] [ 9057] [depth= 1] . ( 87 sec) [ -44127.2527] [ 9057] [depth= 1] . ( 90 sec) [ -44123.8473] [ 9058] [depth= 1] . ( 91 sec) [ -44107.2135] [ 9057] [depth= 1] . ( 93 sec) [ -44104.2384] [ 9060] [depth= 1] . ( 93 sec) [ -44093.9474] [ 9057] [depth= 1] . ( 94 sec) [ -44093.6687] [ 9057] [depth= 2] . ( 95 sec) [ -44092.8364] [ 9057] [depth= 1] . ( 96 sec) [ -44092.8129] [ 9057] [depth= 1] . ( 97 sec) [ -44092.5735] [ 9057] [depth= 1] . ( 98 sec) [ -44091.7650] [ 9058] [depth= 1] . ( 99 sec) [ -44089.9643] [ 9058] [depth= 1] . ( 100 sec) [ -44089.5112] [ 9058] [depth= 1] . ( 102 sec) [ -44086.4825] [ 9062] [depth= 1] . ( 102 sec) [ -44083.0364] [ 9061] [depth= 2] . ( 103 sec) [ -44082.8862] [ 9061] [depth= 1] . ( 109 sec) [ -44079.6900] [ 9060] [depth= 3] . ( 110 sec) [ -44079.1478] [ 9060] [depth= 1] . ( 110 sec) [ -44077.6801] [ 9060] [depth= 1] . ( 111 sec) [ -44077.5756] [ 9060] [depth= 1] . ( 112 sec) [ -44077.4677] [ 9060] [depth= 1] . ( 114 sec) [ -44066.2881] [ 9061] [depth= 1] . ( 117 sec) [ -44065.2944] [ 9061] [depth= 1] . ( 117 sec) [ -44064.4867] [ 9061] [depth= 1] . ( 118 sec) [ -44064.4564] [ 9061] [depth= 1] . ( 119 sec) [ -44064.2188] [ 9061] [depth= 1] . ( 123 sec) [ -44062.5394] [ 9057] [depth= 3] . ( 124 sec) [ -44062.3154] [ 9057] [depth= 1] . ( 126 sec) [ -44058.2010] [ 9056] [depth= 2] . ( 127 sec) [ -44049.9109] [ 9055] [depth= 3] . ( 127 sec) [ -44049.5274] [ 9055] [depth= 1] . ( 128 sec) [ -44045.0083] [ 9054] [depth= 1] . ( 130 sec) [ -44044.0807] [ 9054] [depth= 1] . ( 131 sec) [ -44042.2978] [ 9054] [depth= 1] . ( 134 sec) [ -44034.9063] [ 9050] [depth= 3] . ( 136 sec) [ -44031.0812] [ 9054] [depth= 1] . ( 137 sec) [ -44030.3628] [ 9054] [depth= 1] . ( 137 sec) [ -44023.1110] [ 9052] [depth= 1] . ( 138 sec) [ -44022.0263] [ 9052] [depth= 1] . ( 139 sec) [ -44020.7007] [ 9052] [depth= 1] . ( 141 sec) [ -44020.6449] [ 9052] [depth= 1] . ( 141 sec) [ -44020.5110] [ 9052] [depth= 2] . ( 142 sec) [ -44016.0932] [ 9057] [depth= 1] . ( 143 sec) [ -44013.6492] [ 9057] [depth= 1] . ( 144 sec) [ -44002.5464] [ 9053] [depth= 1] . ( 145 sec) [ -44000.3292] [ 9053] [depth= 1] . ( 146 sec) [ -43994.2345] [ 9053] [depth= 1] . ( 147 sec) [ -43992.9939] [ 9054] [depth= 1] . ( 148 sec) [ -43992.2503] [ 9054] [depth= 1] . ( 149 sec) [ -43992.2008] [ 9054] [depth= 1] . ( 150 sec) [ -43984.2828] [ 9053] [depth= 1] . ( 151 sec) [ -43983.4962] [ 9053] [depth= 1] . ( 152 sec) [ -43983.2184] [ 9053] [depth= 1] . ( 153 sec) [ -43981.4793] [ 9053] [depth= 1] . ( 155 sec) [ -43980.9267] [ 9054] [depth= 1] . ( 156 sec) [ -43979.3985] [ 9053] [depth= 1] . ( 158 sec) [ -43979.3104] [ 9053] [depth= 2] . ( 159 sec) [ -43978.3353] [ 9052] [depth= 1] . ( 160 sec) [ -43976.1038] [ 9048] [depth= 4] . ( 162 sec) [ -43971.8160] [ 9047] [depth= 2] . ( 163 sec) [ -43965.5424] [ 9047] [depth= 2] . ( 164 sec) [ -43965.5239] [ 9047] [depth= 1] . ( 165 sec) [ -43965.3898] [ 9047] [depth= 1] . ( 166 sec) [ -43952.3344] [ 9045] [depth= 29] . ( 166 sec) [ -43924.0002] [ 9041] [depth= 2] . ( 167 sec) [ -43905.7135] [ 9041] [depth= 1] . ( 168 sec) [ -43904.9106] [ 9041] [depth= 1] . ( 169 sec) [ -43902.7728] [ 9040] [depth= 1] . ( 171 sec) [ -43884.8246] [ 9040] [depth= 1] . ( 172 sec) [ -43873.2872] [ 9037] [depth= 5] . ( 173 sec) [ -43855.5483] [ 9037] [depth= 1] . ( 174 sec) [ -43852.7050] [ 9037] [depth= 1] . ( 174 sec) [ -43849.2397] [ 9039] [depth= 1] . ( 175 sec) [ -43844.6079] [ 9039] [depth= 4] . ( 179 sec) [ -43844.4880] [ 9038] [depth= 3] . ( 182 sec) [ -43843.7206] [ 9038] [depth= 1] . ( 183 sec) [ -43842.7316] [ 9038] [depth= 1] . ( 184 sec) [ -43842.6013] [ 9038] [depth= 1] . ( 185 sec) [ -43842.1440] [ 9038] [depth= 1] . ( 189 sec) [ -43836.5455] [ 9040] [depth= 1] . ( 190 sec) [ -43826.1128] [ 9035] [depth= 3] . ( 191 sec) [ -43825.9157] [ 9035] [depth= 1] . ( 192 sec) [ -43825.9050] [ 9035] [depth= 1] . ( 194 sec) [ -43825.7530] [ 9035] [depth= 1] . ( 194 sec) [ -43824.4896] [ 9035] [depth= 1] . ( 195 sec) [ -43823.4628] [ 9035] [depth= 2] . ( 196 sec) [ -43822.6712] [ 9035] [depth= 1] . ( 197 sec) [ -43819.9599] [ 9037] [depth= 1] . ( 198 sec) [ -43818.3839] [ 9037] [depth= 1] . ( 199 sec) [ -43817.9996] [ 9037] [depth= 1] . ( 200 sec) [ -43793.7639] [ 9029] [depth= 8] . ( 201 sec) [ -43780.8640] [ 9029] [depth= 1] . ( 202 sec) [ -43780.4553] [ 9029] [depth= 2] . ( 202 sec) [ -43779.5462] [ 9029] [depth= 1] . ( 203 sec) [ -43778.7462] [ 9029] [depth= 1] . ( 204 sec) [ -43778.0792] [ 9029] [depth= 1] . ( 206 sec) [ -43771.6484] [ 9031] [depth= 2] . ( 206 sec) [ -43766.6455] [ 9031] [depth= 1] . ( 207 sec) [ -43765.1764] [ 9031] [depth= 1] . ( 208 sec) [ -43765.1627] [ 9031] [depth= 2] . ( 209 sec) [ -43765.0877] [ 9031] [depth= 2] . ( 210 sec) [ -43765.0054] [ 9031] [depth= 1] . ( 211 sec) [ -43763.8881] [ 9031] [depth= 1] . ( 212 sec) [ -43763.5786] [ 9031] [depth= 4] . ( 213 sec) [ -43763.0538] [ 9031] [depth= 1] . ( 214 sec) [ -43763.0133] [ 9031] [depth= 2] . ( 214 sec) [ -43762.2524] [ 9031] [depth= 2] . ( 215 sec) [ -43762.0016] [ 9031] [depth= 2] . ( 216 sec) [ -43761.0365] [ 9031] [depth= 2] . ( 217 sec) [ -43760.9473] [ 9031] [depth= 3] . ( 219 sec) [ -43760.9029] [ 9031] [depth= 1] . ( 221 sec) [ -43760.7838] [ 9031] [depth= 1] . ( 222 sec) [ -43760.6065] [ 9031] [depth= 2] . ( 223 sec) [ -43760.5789] [ 9031] [depth= 2] . ( 223 sec) [ -43759.4869] [ 9034] [depth= 1] . ( 224 sec) [ -43759.2504] [ 9034] [depth= 3] . ( 225 sec) [ -43758.9240] [ 9034] [depth= 1] . ( 226 sec) [ -43758.8208] [ 9034] [depth= 1] . ( 227 sec) [ -43758.8082] [ 9034] [depth= 1] . ( 228 sec) [ -43758.5840] [ 9034] [depth= 3] . ( 229 sec) [ -43758.5709] [ 9034] [depth= 1] . ( 230 sec) [ -43757.9778] [ 9034] [depth= 2] . ( 231 sec) [ -43756.8448] [ 9033] [depth= 4] . ( 232 sec) [ -43752.8718] [ 9033] [depth= 1] . ( 233 sec) [ -43752.8223] [ 9033] [depth= 1] . ( 234 sec) [ -43750.7938] [ 9033] [depth= 2] . ( 234 sec) [ -43742.6227] [ 9032] [depth= 2] . ( 235 sec) [ -43742.6008] [ 9032] [depth= 3] . ( 236 sec) [ -43742.5239] [ 9029] [depth= 2] . ( 237 sec) [ -43737.3656] [ 9019] [depth= 8] . ( 238 sec) [ -43736.2771] [ 9019] [depth= 1] . ( 239 sec) [ -43733.9246] [ 9018] [depth= 2] . ( 243 sec) [ -43732.5712] [ 9018] [depth= 2] . ( 244 sec) [ -43729.0196] [ 9018] [depth= 2] . ( 244 sec) [ -43728.8487] [ 9018] [depth= 3] . ( 245 sec) [ -43727.4469] [ 9017] [depth= 3] . ( 247 sec) [ -43725.3453] [ 9017] [depth= 1] . ( 247 sec) [ -43724.5969] [ 9017] [depth= 1] . ( 248 sec) [ -43724.4374] [ 9017] [depth= 3] . ( 252 sec) [ -43724.3447] [ 9017] [depth= 1] . ( 252 sec) [ -43724.2866] [ 9017] [depth= 1] . ( 253 sec) [ -43724.2535] [ 9017] [depth= 3] . ( 254 sec) [ -43723.9210] [ 9017] [depth= 2] . ( 256 sec) [ -43723.8236] [ 9017] [depth= 1] . ( 256 sec) [ -43723.5405] [ 9017] [depth= 1] . ( 257 sec) [ -43723.4219] [ 9017] [depth= 1] . ( 258 sec) [ -43723.4117] [ 9017] [depth= 1] . ( 259 sec) [ -43723.3043] [ 9017] [depth= 1] . ( 260 sec) [ -43723.0383] [ 9017] [depth= 1] . ( 261 sec) [ -43722.5915] [ 9017] [depth= 2] . ( 263 sec) [ -43722.4650] [ 9017] [depth= 2] . ( 264 sec) [ -43722.4513] [ 9017] [depth= 3] . ( 265 sec) [ -43722.1814] [ 9015] [depth= 1] . ( 265 sec) [ -43717.2934] [ 9016] [depth= 1] . ( 266 sec) [ -43714.9413] [ 9018] [depth= 1] . ( 267 sec) [ -43711.3158] [ 9016] [depth= 1] . ( 268 sec) [ -43695.7032] [ 9015] [depth= 1] . ( 268 sec) [ -43693.5932] [ 9015] [depth= 1] . ( 270 sec) [ -43692.8194] [ 9015] [depth= 1] . ( 271 sec) [ -43692.3824] [ 9015] [depth= 2] . ( 273 sec) [ -43690.9278] [ 9015] [depth= 1] . ( 274 sec) [ -43684.3739] [ 9013] [depth= 2] . ( 277 sec) [ -43683.6505] [ 9013] [depth= 2] . ( 277 sec) [ -43683.4985] [ 9013] [depth= 1] . ( 278 sec) [ -43683.1850] [ 9013] [depth= 4] . ( 279 sec) [ -43682.6254] [ 9013] [depth= 1] . ( 280 sec) [ -43682.5480] [ 9013] [depth= 1] . ( 280 sec) [ -43682.2527] [ 9013] [depth= 1] . ( 281 sec) [ -43682.1705] [ 9013] [depth= 2] . ( 282 sec) [ -43682.1287] [ 9013] [depth= 4] . ( 283 sec) [ -43681.3522] [ 9017] [depth= 2] . ( 284 sec) [ -43660.8493] [ 9008] [depth= 2] . ( 284 sec) [ -43660.8001] [ 9008] [depth= 2] . ( 285 sec) [ -43659.6354] [ 9008] [depth= 1] . ( 286 sec) [ -43655.6829] [ 9007] [depth= 3] . ( 287 sec) [ -43655.5772] [ 9007] [depth= 1] . ( 288 sec) [ -43655.4758] [ 9007] [depth= 1] . ( 292 sec) [ -43655.4157] [ 9007] [depth= 1] . ( 292 sec) [ -43654.9615] [ 9007] [depth= 1] . ( 293 sec) [ -43654.1699] [ 9007] [depth= 1] . ( 294 sec) [ -43653.8339] [ 9007] [depth= 1] . ( 295 sec) [ -43653.5963] [ 9007] [depth= 1] . ( 295 sec) [ -43653.5381] [ 9007] [depth= 4] . ( 302 sec) [ -43653.4987] [ 9007] [depth= 1] . ( 303 sec) [ -43653.3328] [ 9007] [depth= 2] . ( 304 sec) [ -43653.2915] [ 9007] [depth= 3] . ( 305 sec) [ -43653.1618] [ 9007] [depth= 2] . ( 305 sec) [ -43653.1480] [ 9007] [depth= 1] . ( 306 sec) [ -43652.8242] [ 9007] [depth= 2] . ( 307 sec) [ -43652.6926] [ 9007] [depth= 2] . ( 308 sec) [ -43652.6693] [ 9007] [depth= 9] . ( 309 sec) [ -43652.6495] [ 9007] [depth= 2] . ( 310 sec) [ -43652.5741] [ 9007] [depth= 2] . ( 311 sec) [ -43652.2066] [ 9007] [depth= 1] . ( 311 sec) [ -43652.1883] [ 9007] [depth= 3] . ( 312 sec) [ -43652.1736] [ 9007] [depth= 1] . ( 313 sec) [ -43652.1421] [ 9007] [depth= 9] . ( 314 sec) [ -43652.0435] [ 9007] [depth= 3] . ( 316 sec) [ -43652.0271] [ 9007] [depth= 11] . ( 316 sec) [ -43651.9711] [ 9007] [depth= 1] . ( 318 sec) [ -43651.8626] [ 9007] [depth= 9] . ( 319 sec) [ -43651.7540] [ 9007] [depth= 1] . ( 320 sec) [ -43651.7350] [ 9007] [depth= 9] . ( 321 sec) [ -43651.6771] [ 9007] [depth= 1] . ( 323 sec) [ -43651.5335] [ 9007] [depth= 8] . ( 323 sec) [ -43651.5031] [ 9007] [depth= 3] . ( 325 sec) [ -43651.4840] [ 9007] [depth= 8] . ( 326 sec) [ -43651.3728] [ 9007] [depth= 8] . ( 328 sec) [ -43651.2857] [ 9007] [depth= 8] . ( 329 sec) [ -43651.1107] [ 9007] [depth= 8] . ( 330 sec) [ -43649.3290] [ 9007] [depth= 4] . ( 331 sec) [ -43649.3113] [ 9007] [depth= 3] . ( 332 sec) [ -43649.0902] [ 9007] [depth= 2] . ( 333 sec) [ -43648.8404] [ 9007] [depth= 7] . ( 340 sec) [ -43648.7956] [ 9007] [depth= 14] . ( 342 sec) [ -43648.7546] [ 9007] [depth= 7] . ( 345 sec) [ -43648.0686] [ 9006] [depth= 9] . ( 346 sec) [ -43648.0570] [ 9006] [depth= 3] . ( 347 sec) [ -43648.0470] [ 9006] [depth= 1] . ( 348 sec) [ -43647.8713] [ 9006] [depth= 11] . ( 350 sec) [ -43647.8302] [ 9006] [depth= 4] . ( 351 sec) [ -43645.0578] [ 9005] [depth= 5] . ( 352 sec) [ -43641.3703] [ 9004] [depth= 2] . ( 352 sec) [ -43641.3108] [ 9004] [depth= 14] . ( 353 sec) [ -43640.7663] [ 9004] [depth= 1] . ( 354 sec) [ -43639.2542] [ 9004] [depth= 1] . ( 356 sec) [ -43639.2402] [ 9004] [depth= 1] . ( 358 sec) [ -43639.2281] [ 9004] [depth= 2] . ( 362 sec) [ -43639.1867] [ 9004] [depth= 8] . ( 363 sec) [ -43636.6905] [ 9004] [depth= 10] . ( 363 sec) [ -43635.1412] [ 9004] [depth= 1] . ( 365 sec) [ -43618.4079] [ 9003] [depth= 1] . ( 365 sec) [ -43602.9506] [ 9002] [depth= 1] . ( 366 sec) [ -43602.5534] [ 9002] [depth= 8] . ( 370 sec) [ -43602.0745] [ 9002] [depth= 1] . ( 371 sec) [ -43602.0613] [ 9002] [depth= 1] . ( 377 sec) [ -43598.0735] [ 9001] [depth= 2] . ( 377 sec) [ -43597.9568] [ 9001] [depth= 1] . ( 378 sec) [ -43597.6752] [ 9001] [depth= 1] . ( 379 sec) [ -43597.0561] [ 9001] [depth= 1] . ( 380 sec) [ -43596.9888] [ 9001] [depth= 1] . ( 381 sec) [ -43594.4894] [ 8999] [depth= 1] . ( 382 sec) [ -43582.5593] [ 8996] [depth= 2] . ( 383 sec) [ -43582.4056] [ 8996] [depth= 2] . ( 384 sec) [ -43582.1868] [ 8996] [depth= 2] . ( 385 sec) [ -43582.1336] [ 8996] [depth= 1] . ( 386 sec) [ -43582.0599] [ 8996] [depth= 1] . ( 387 sec) [ -43582.0225] [ 8996] [depth= 2] . ( 388 sec) [ -43581.9824] [ 8996] [depth= 4] . ( 389 sec) [ -43581.9677] [ 8996] [depth= 1] . ( 390 sec) [ -43581.9117] [ 8996] [depth= 2] . ( 391 sec) [ -43581.8493] [ 8996] [depth= 3] . ( 391 sec) [ -43581.6944] [ 8996] [depth= 3] . ( 393 sec) [ -43581.5366] [ 8996] [depth= 2] . ( 395 sec) [ -43578.1870] [ 8996] [depth= 1] . ( 396 sec) [ -43577.6123] [ 8993] [depth= 3] . ( 397 sec) [ -43575.9964] [ 8994] [depth= 1] . ( 399 sec) [ -43575.6737] [ 8994] [depth= 1] . ( 400 sec) [ -43575.3913] [ 8996] [depth= 1] . ( 400 sec) [ -43574.9862] [ 8996] [depth= 1] . ( 402 sec) [ -43572.0648] [ 8995] [depth= 1] . ( 403 sec) [ -43571.3284] [ 8990] [depth= 4] . ( 409 sec) [ -43567.6480] [ 8989] [depth= 2] . ( 410 sec) [ -43554.9988] [ 8987] [depth= 1] . ( 411 sec) [ -43550.8285] [ 8988] [depth= 1] . ( 412 sec) [ -43550.0996] [ 8987] [depth= 1] . ( 413 sec) [ -43549.2252] [ 8990] [depth= 1] . ( 414 sec) [ -43548.1039] [ 8990] [depth= 1] . ( 415 sec) [ -43547.8149] [ 8989] [depth= 3] . ( 416 sec) [ -43545.1815] [ 8988] [depth= 2] . ( 417 sec) [ -43545.1690] [ 8988] [depth= 1] . ( 418 sec) [ -43543.8729] [ 8988] [depth= 1] . ( 419 sec) [ -43540.9724] [ 8992] [depth= 3] . ( 420 sec) [ -43532.2396] [ 8990] [depth= 2] . ( 421 sec) [ -43532.1909] [ 8990] [depth= 3] . ( 423 sec) [ -43528.9356] [ 8994] [depth= 2] . ( 424 sec) [ -43519.6993] [ 8991] [depth= 2] . ( 425 sec) [ -43517.9908] [ 8992] [depth= 1] . ( 428 sec) [ -43517.3437] [ 8992] [depth= 1] . ( 429 sec) [ -43515.0854] [ 8992] [depth= 1] . ( 430 sec) [ -43514.5449] [ 8994] [depth= 1] . ( 431 sec) [ -43506.3542] [ 8993] [depth= 2] . ( 432 sec) [ -43502.0388] [ 8993] [depth= 1] . ( 433 sec) [ -43501.6136] [ 8993] [depth= 1] . ( 434 sec) [ -43500.5440] [ 8994] [depth= 1] . ( 435 sec) [ -43497.4289] [ 9004] [depth= 7] . ( 437 sec) [ -43497.3704] [ 9005] [depth= 1] . ( 438 sec) [ -43496.8489] [ 9005] [depth= 1] . ( 439 sec) [ -43491.3583] [ 9005] [depth= 1] . ( 440 sec) [ -43488.7473] [ 9003] [depth= 2] . ( 440 sec) [ -43473.4086] [ 8991] [depth= 3] . ( 442 sec) [ -43472.5591] [ 8991] [depth= 1] . ( 443 sec) [ -43450.0457] [ 8986] [depth= 10] . ( 444 sec) [ -43449.6332] [ 8991] [depth= 1] . ( 445 sec) [ -43448.7970] [ 8991] [depth= 1] . ( 446 sec) [ -43448.1755] [ 8990] [depth= 3] . ( 448 sec) [ -43441.9705] [ 8988] [depth= 1] . ( 449 sec) [ -43441.2771] [ 8990] [depth= 1] . ( 449 sec) [ -43440.8741] [ 8990] [depth= 2] . ( 451 sec) [ -43436.2351] [ 8987] [depth= 1] . ( 452 sec) [ -43434.8412] [ 8987] [depth= 1] . ( 453 sec) [ -43434.3764] [ 8987] [depth= 1] . ( 454 sec) [ -43434.1511] [ 8987] [depth= 1] . ( 455 sec) [ -43433.1328] [ 8987] [depth= 1] . ( 456 sec) [ -43432.7868] [ 8987] [depth= 1] . ( 457 sec) [ -43429.8807] [ 8981] [depth= 1] . ( 458 sec) [ -43429.8511] [ 8981] [depth= 1] . ( 459 sec) [ -43428.2285] [ 8979] [depth= 1] . ( 460 sec) [ -43422.6340] [ 8976] [depth= 1] . ( 462 sec) [ -43415.8419] [ 8977] [depth= 1] . ( 463 sec) [ -43412.0376] [ 8976] [depth= 1] . ( 464 sec) [ -43410.4873] [ 8975] [depth= 1] . ( 465 sec) [ -43397.2953] [ 8975] [depth= 1] . ( 465 sec) [ -43396.5079] [ 8975] [depth= 1] . ( 467 sec) [ -43395.7732] [ 8973] [depth= 1] . ( 467 sec) [ -43390.3244] [ 8975] [depth= 1] . ( 468 sec) [ -43390.1340] [ 8976] [depth= 1] . ( 469 sec) [ -43387.7418] [ 8975] [depth= 2] . ( 470 sec) [ -43384.5439] [ 8972] [depth= 2] . ( 472 sec) [ -43377.9860] [ 8971] [depth= 3] . ( 474 sec) [ -43377.8703] [ 8971] [depth= 1] . ( 476 sec) [ -43376.4482] [ 8971] [depth= 1] . ( 477 sec) [ -43375.9053] [ 8971] [depth= 1] . ( 479 sec) [ -43375.5717] [ 8971] [depth= 1] . ( 480 sec) [ -43375.3019] [ 8973] [depth= 1] . ( 481 sec) [ -43374.3592] [ 8975] [depth= 1] . ( 484 sec) [ -43372.5659] [ 8973] [depth= 2] . ( 485 sec) [ -43368.8625] [ 8972] [depth= 1] . ( 486 sec) [ -43368.3891] [ 8972] [depth= 2] . ( 487 sec) [ -43368.2103] [ 8972] [depth= 4] . ( 488 sec) [ -43365.3351] [ 8970] [depth= 1] . ( 489 sec) [ -43365.3103] [ 8970] [depth= 1] . ( 490 sec) [ -43357.0431] [ 8969] [depth= 1] . ( 491 sec) [ -43351.0218] [ 8966] [depth= 1] . ( 492 sec) [ -43347.6899] [ 8967] [depth= 1] . ( 495 sec) [ -43341.1423] [ 8961] [depth= 6] . ( 496 sec) [ -43340.1515] [ 8961] [depth= 3] . ( 497 sec) [ -43338.1555] [ 8961] [depth= 4] . ( 498 sec) [ -43336.9301] [ 8961] [depth= 3] . ( 498 sec) [ -43336.9062] [ 8961] [depth= 6] . ( 499 sec) [ -43330.6280] [ 8959] [depth= 1] . ( 500 sec) [ -43330.5266] [ 8959] [depth= 3] . ( 501 sec) [ -43319.4337] [ 8957] [depth= 1] . ( 502 sec) [ -43318.7662] [ 8957] [depth= 4] . ( 503 sec) [ -43318.6928] [ 8957] [depth= 1] . ( 504 sec) [ -43315.8340] [ 8957] [depth= 2] . ( 504 sec) [ -43315.7327] [ 8957] [depth= 5] . ( 505 sec) [ -43315.6948] [ 8957] [depth= 5] . ( 507 sec) [ -43305.8373] [ 8955] [depth= 3] . ( 507 sec) [ -43303.2291] [ 8955] [depth= 1] . ( 508 sec) [ -43297.9437] [ 8950] [depth= 2] . ( 510 sec) [ -43296.3520] [ 8954] [depth= 2] . ( 511 sec) [ -43296.1433] [ 8956] [depth= 1] . ( 512 sec) [ -43293.4828] [ 8963] [depth= 2] . ( 513 sec) [ -43291.8627] [ 8965] [depth= 1] . ( 514 sec) [ -43291.6312] [ 8958] [depth= 2] . ( 516 sec) [ -43291.4579] [ 8958] [depth= 2] . ( 520 sec) [ -43274.1681] [ 8958] [depth= 1] . ( 520 sec) [ -43272.7332] [ 8958] [depth= 1] . ( 521 sec) [ -43271.6725] [ 8958] [depth= 1] . ( 522 sec) [ -43271.0820] [ 8958] [depth= 1] . ( 523 sec) [ -43270.8571] [ 8958] [depth= 1] . ( 523 sec) [ -43270.7332] [ 8958] [depth= 3] . ( 524 sec) [ -43270.6505] [ 8958] [depth= 4] . ( 526 sec) [ -43267.4468] [ 8958] [depth= 1] . ( 529 sec) [ -43267.2532] [ 8958] [depth= 1] . ( 530 sec) [ -43266.9640] [ 8958] [depth= 3] . ( 531 sec) [ -43266.9001] [ 8958] [depth= 1] . ( 532 sec) [ -43265.9627] [ 8959] [depth= 1] . ( 533 sec) [ -43262.7334] [ 8958] [depth= 1] . ( 533 sec) [ -43257.1321] [ 8957] [depth= 1] . ( 534 sec) [ -43237.4435] [ 8955] [depth= 2] . ( 536 sec) [ -43236.3270] [ 8959] [depth= 2] . ( 536 sec) [ -43236.0184] [ 8959] [depth= 1] . ( 537 sec) [ -43235.5398] [ 8959] [depth= 1] . ( 538 sec) [ -43235.5181] [ 8959] [depth= 1] . ( 540 sec) [ -43234.5136] [ 8956] [depth= 1] . ( 540 sec) [ -43233.7502] [ 8956] [depth= 1] . ( 542 sec) [ -43233.1893] [ 8955] [depth= 2] . ( 544 sec) [ -43232.8145] [ 8955] [depth= 1] . ( 544 sec) [ -43232.4658] [ 8955] [depth= 1] . ( 545 sec) [ -43232.1516] [ 8955] [depth= 2] . ( 546 sec) [ -43232.1006] [ 8955] [depth= 4] . ( 547 sec) [ -43231.6480] [ 8955] [depth= 1] . ( 547 sec) [ -43231.3762] [ 8955] [depth= 1] . ( 549 sec) [ -43231.3429] [ 8955] [depth= 1] . ( 550 sec) [ -43231.1464] [ 8955] [depth= 1] . ( 551 sec) [ -43231.1134] [ 8955] [depth= 6] . ( 552 sec) [ -43231.0766] [ 8955] [depth= 5] . ( 553 sec) [ -43230.9367] [ 8955] [depth= 5] . ( 553 sec) [ -43230.9154] [ 8955] [depth= 1] . ( 555 sec) [ -43230.7457] [ 8955] [depth= 2] . ( 555 sec) [ -43230.5497] [ 8955] [depth= 2] . ( 556 sec) [ -43230.4745] [ 8955] [depth= 3] . ( 557 sec) [ -43230.4356] [ 8955] [depth= 1] . ( 558 sec) [ -43230.3985] [ 8955] [depth= 3] . ( 561 sec) [ -43230.3295] [ 8955] [depth= 2] . ( 563 sec) [ -43230.3179] [ 8955] [depth= 4] . ( 566 sec) [ -43229.3452] [ 8960] [depth= 1] . ( 567 sec) [ -43211.8597] [ 8961] [depth= 1] . ( 568 sec) [ -43209.7452] [ 8958] [depth= 1] . ( 568 sec) [ -43208.1683] [ 8960] [depth= 1] . ( 569 sec) [ -43207.6067] [ 8960] [depth= 1] . ( 570 sec) [ -43205.0221] [ 8957] [depth= 1] . ( 571 sec) [ -43200.2740] [ 8952] [depth= 2] . ( 571 sec) [ -43199.2270] [ 8952] [depth= 1] . ( 572 sec) [ -43198.4864] [ 8952] [depth= 1] . ( 575 sec) [ -43195.8764] [ 8954] [depth= 2] . ( 578 sec) [ -43194.3782] [ 8947] [depth= 1] . ( 580 sec) [ -43193.1024] [ 8947] [depth= 1] . ( 580 sec) [ -43192.1791] [ 8947] [depth= 1] . ( 583 sec) [ -43188.2373] [ 8952] [depth= 1] . ( 584 sec) [ -43186.4585] [ 8950] [depth= 3] . ( 585 sec) [ -43183.7019] [ 8949] [depth= 1] . ( 587 sec) [ -43182.7360] [ 8951] [depth= 2] . ( 590 sec) [ -43182.1428] [ 8951] [depth= 1] . ( 591 sec) [ -43181.8222] [ 8958] [depth= 1] . ( 597 sec) [ -43181.5798] [ 8959] [depth= 1] . ( 597 sec) [ -43179.2600] [ 8959] [depth= 1] . ( 598 sec) [ -43178.5796] [ 8959] [depth= 1] . ( 599 sec) [ -43178.4380] [ 8959] [depth= 1] . ( 600 sec) [ -43177.6029] [ 8959] [depth= 1] . ( 602 sec) [ -43171.0004] [ 8958] [depth= 1] . ( 603 sec) [ -43166.2326] [ 8959] [depth= 1] . ( 604 sec) [ -43166.1963] [ 8959] [depth= 1] . ( 605 sec) [ -43166.1303] [ 8959] [depth= 3] . ( 607 sec) [ -43165.7705] [ 8958] [depth= 1] . ( 608 sec) [ -43164.9821] [ 8958] [depth= 1] . ( 609 sec) [ -43164.9264] [ 8958] [depth= 3] . ( 609 sec) [ -43164.2502] [ 8958] [depth= 1] . ( 610 sec) [ -43164.2324] [ 8958] [depth= 2] . ( 611 sec) [ -43164.2020] [ 8958] [depth= 6] . ( 612 sec) [ -43160.4846] [ 8956] [depth= 1] . ( 613 sec) [ -43160.4142] [ 8956] [depth= 4] . ( 614 sec) [ -43160.3635] [ 8956] [depth= 8] . ( 614 sec) [ -43160.1447] [ 8956] [depth= 4] . ( 615 sec) [ -43160.0042] [ 8956] [depth= 1] . ( 616 sec) [ -43159.8821] [ 8956] [depth= 1] . ( 617 sec) [ -43159.8618] [ 8956] [depth= 7] . ( 618 sec) [ -43159.7849] [ 8956] [depth= 4] . ( 619 sec) [ -43159.4851] [ 8956] [depth= 1] . ( 620 sec) [ -43159.1781] [ 8956] [depth= 5] . ( 620 sec) [ -43159.0139] [ 8956] [depth= 5] . ( 621 sec) [ -43158.8468] [ 8956] [depth= 1] . ( 622 sec) [ -43158.8094] [ 8956] [depth= 8] . ( 624 sec) [ -43151.3701] [ 8964] [depth= 1] . ( 625 sec) [ -43127.0813] [ 8955] [depth= 8] . ( 626 sec) [ -43124.3543] [ 8960] [depth= 3] . ( 629 sec) [ -43122.9645] [ 8965] [depth= 1] . ( 629 sec) [ -43122.6234] [ 8967] [depth= 1] . ( 633 sec) [ -43120.1869] [ 8966] [depth= 1] . ( 634 sec) [ -43116.8533] [ 8961] [depth= 1] . ( 635 sec) [ -43116.8027] [ 8961] [depth= 6] . ( 637 sec) [ -43116.2951] [ 8959] [depth= 1] . ( 638 sec) [ -43106.8525] [ 8964] [depth= 2] . ( 639 sec) [ -43068.4173] [ 8952] [depth= 13] . ( 639 sec) [ -43068.3092] [ 8950] [depth= 1] . ( 640 sec) [ -43068.0475] [ 8948] [depth= 1] . ( 641 sec) [ -43059.7239] [ 8947] [depth= 1] . ( 644 sec) [ -43055.6744] [ 8949] [depth= 1] . ( 645 sec) [ -43040.8759] [ 8944] [depth= 2] . ( 645 sec) [ -43029.9669] [ 8942] [depth= 1] . ( 646 sec) [ -43025.8094] [ 8942] [depth= 1] . ( 649 sec) [ -43025.3892] [ 8944] [depth= 1] . ( 651 sec) [ -43024.8329] [ 8944] [depth= 1] . ( 652 sec) [ -43024.5654] [ 8944] [depth= 1] . ( 653 sec) [ -43024.5341] [ 8944] [depth= 1] . ( 654 sec) [ -42990.9052] [ 8929] [depth= 14] . ( 654 sec) [ -42986.8607] [ 8927] [depth= 1] . ( 655 sec) [ -42986.7932] [ 8927] [depth= 1] . ( 658 sec) [ -42985.9904] [ 8928] [depth= 6] . ( 659 sec) [ -42985.7286] [ 8931] [depth= 1] . ( 660 sec) [ -42975.3778] [ 8928] [depth= 2] . ( 662 sec) [ -42971.4060] [ 8926] [depth= 1] . ( 663 sec) [ -42966.5481] [ 8926] [depth= 1] . ( 666 sec) [ -42962.4037] [ 8925] [depth= 1] . ( 667 sec) [ -42960.3024] [ 8924] [depth= 16] . ( 668 sec) [ -42945.5659] [ 8918] [depth= 1] . ( 669 sec) [ -42945.1273] [ 8918] [depth= 1] . ( 670 sec) [ -42943.0965] [ 8920] [depth= 1] . ( 671 sec) [ -42939.5205] [ 8918] [depth= 1] . ( 672 sec) [ -42936.1088] [ 8918] [depth= 1] . ( 673 sec) [ -42933.8953] [ 8917] [depth= 2] . ( 674 sec) [ -42932.3530] [ 8921] [depth= 4] . ( 675 sec) [ -42930.1266] [ 8917] [depth= 1] . ( 681 sec) [ -42929.1425] [ 8908] [depth= 1] . ( 682 sec) [ -42922.8526] [ 8904] [depth= 7] . ( 683 sec) [ -42922.6118] [ 8903] [depth= 2] . ( 684 sec) [ -42920.8907] [ 8903] [depth= 7] . ( 690 sec) [ -42920.6975] [ 8904] [depth= 1] . ( 690 sec) [ -42920.1965] [ 8904] [depth= 1] . ( 692 sec) [ -42919.7919] [ 8904] [depth= 1] . ( 695 sec) [ -42918.7434] [ 8907] [depth= 3] . ( 696 sec) [ -42917.5997] [ 8908] [depth= 1] . ( 697 sec) [ -42904.9222] [ 8906] [depth= 8] . ( 698 sec) [ -42902.1100] [ 8903] [depth= 1] . ( 699 sec) [ -42871.2545] [ 8893] [depth= 7] . ( 702 sec) [ -42867.6913] [ 8895] [depth= 1] . ( 702 sec) [ -42865.0760] [ 8896] [depth= 1] . ( 704 sec) [ -42859.6951] [ 8892] [depth= 3] . ( 704 sec) [ -42859.6466] [ 8894] [depth= 1] . ( 705 sec) [ -42859.1991] [ 8896] [depth= 1] . ( 706 sec) [ -42851.5968] [ 8891] [depth= 3] . ( 707 sec) [ -42851.0205] [ 8894] [depth= 2] . ( 708 sec) [ -42850.9838] [ 8893] [depth= 1] . ( 709 sec) [ -42849.3811] [ 8892] [depth= 2] . ( 710 sec) [ -42849.1121] [ 8889] [depth= 2] . ( 710 sec) [ -42839.4900] [ 8886] [depth= 1] . ( 712 sec) [ -42838.2092] [ 8886] [depth= 2] . ( 717 sec) [ -42836.3996] [ 8883] [depth= 1] . ( 719 sec) [ -42836.2069] [ 8886] [depth= 1] . ( 720 sec) [ -42833.9565] [ 8883] [depth= 1] . ( 721 sec) [ -42832.7159] [ 8883] [depth= 1] . ( 722 sec) [ -42828.6375] [ 8883] [depth= 2] . ( 723 sec) [ -42827.3015] [ 8880] [depth= 1] . ( 723 sec) [ -42825.6074] [ 8877] [depth= 1] . ( 725 sec) [ -42822.6366] [ 8876] [depth= 2] . ( 728 sec) [ -42820.3021] [ 8876] [depth= 2] . ( 729 sec) [ -42804.9119] [ 8871] [depth= 2] . ( 730 sec) [ -42803.8471] [ 8872] [depth= 1] . ( 733 sec) [ -42801.0450] [ 8871] [depth= 1] . ( 734 sec) [ -42799.3630] [ 8871] [depth= 4] . ( 735 sec) [ -42795.1860] [ 8871] [depth= 1] . ( 736 sec) [ -42794.7853] [ 8869] [depth= 1] . ( 736 sec) [ -42790.2990] [ 8868] [depth= 1] . ( 738 sec) [ -42788.7855] [ 8871] [depth= 1] . ( 740 sec) [ -42788.7161] [ 8873] [depth= 3] . ( 741 sec) [ -42787.7308] [ 8878] [depth= 2] . ( 744 sec) [ -42787.7009] [ 8883] [depth= 11] . ( 745 sec) [ -42787.5332] [ 8883] [depth= 2] . ( 746 sec) [ -42784.7376] [ 8878] [depth= 2] . ( 746 sec) [ -42782.5417] [ 8882] [depth= 1] . ( 747 sec) [ -42781.8657] [ 8888] [depth= 7] . ( 748 sec) [ -42781.0919] [ 8880] [depth= 7] . ( 749 sec) [ -42781.0789] [ 8880] [depth= 1] . ( 754 sec) [ -42780.9492] [ 8879] [depth= 2] . ( 755 sec) [ -42778.7569] [ 8880] [depth= 1] . ( 757 sec) [ -42777.3021] [ 8878] [depth= 3] . ( 761 sec) [ -42775.7781] [ 8877] [depth= 3] . ( 762 sec) [ -42773.0358] [ 8875] [depth= 4] . ( 763 sec) [ -42771.5999] [ 8878] [depth= 1] . ( 763 sec) [ -42766.6022] [ 8875] [depth= 1] . ( 764 sec) [ -42765.4074] [ 8875] [depth= 2] . ( 766 sec) [ -42764.8919] [ 8875] [depth= 2] . ( 767 sec) [ -42763.4946] [ 8874] [depth= 3] . ( 769 sec) [ -42761.8947] [ 8874] [depth= 1] . ( 771 sec) [ -42761.5484] [ 8875] [depth= 2] . ( 774 sec) [ -42759.9475] [ 8874] [depth= 1] . ( 777 sec) [ -42738.8899] [ 8868] [depth= 4] . ( 777 sec) [ -42731.9849] [ 8867] [depth= 4] . ( 778 sec) [ -42729.3414] [ 8866] [depth= 1] . ( 779 sec) [ -42719.5269] [ 8859] [depth= 5] . ( 781 sec) [ -42717.6032] [ 8863] [depth= 3] . ( 782 sec) [ -42715.1993] [ 8863] [depth= 1] . ( 783 sec) [ -42714.4133] [ 8864] [depth= 1] . ( 786 sec) [ -42713.9699] [ 8866] [depth= 3] . ( 787 sec) [ -42712.9341] [ 8865] [depth= 1] . ( 788 sec) [ -42710.7770] [ 8863] [depth= 1] . ( 790 sec) [ -42710.7155] [ 8863] [depth= 1] . ( 793 sec) [ -42710.3570] [ 8864] [depth= 3] . ( 796 sec) [ -42705.4711] [ 8862] [depth= 2] . ( 796 sec) [ -42705.0597] [ 8861] [depth= 1] . ( 797 sec) [ -42704.3497] [ 8861] [depth= 1] . ( 798 sec) [ -42704.3366] [ 8861] [depth= 1] . ( 799 sec) [ -42703.1438] [ 8861] [depth= 1] . ( 802 sec) [ -42701.7272] [ 8860] [depth= 1] . ( 803 sec) [ -42700.8374] [ 8860] [depth= 1] . ( 808 sec) [ -42465.0238] [Branch lengths ] . ( 828 sec) [ -42457.5366] [GTR parameters ] . ( 829 sec) [ -42441.0001] [Alpha ][ 0.610230] . ( 832 sec) [ -42440.9825] [ 8860] [depth= 3] . ( 839 sec) [ -42440.9582] [ 8860] [depth= 4] . ( 839 sec) [ -42440.9376] [ 8860] [depth= 2] . ( 840 sec) [ -42440.8315] [ 8860] [depth= 3] . ( 841 sec) [ -42440.7370] [ 8860] [depth= 1] . ( 843 sec) [ -42440.7243] [ 8860] [depth= 4] . ( 851 sec) [ -42440.7048] [ 8860] [depth= 1] . ( 852 sec) [ -42439.2596] [ 8859] [depth= 1] . ( 856 sec) [ -42439.0070] [ 8859] [depth= 1] . ( 857 sec) [ -42438.1932] [ 8857] [depth= 2] . ( 860 sec) [ -42438.0792] [ 8858] [depth= 1] . ( 862 sec) [ -42438.0672] [ 8858] [depth= 1] . ( 864 sec) [ -42430.7071] [ 8857] [depth= 1] . ( 869 sec) [ -42429.8968] [ 8856] [depth= 3] . ( 870 sec) [ -42429.2398] [ 8855] [depth= 1] . ( 871 sec) [ -42429.0591] [ 8857] [depth= 1] . ( 872 sec) [ -42428.9211] [ 8857] [depth= 1] . ( 873 sec) [ -42428.6290] [ 8857] [depth= 1] . ( 873 sec) [ -42428.3622] [ 8856] [depth= 2] . ( 875 sec) [ -42428.3505] [ 8856] [depth= 1] . ( 877 sec) [ -42428.2234] [ 8857] [depth= 1] . ( 883 sec) [ -42428.2081] [ 8857] [depth= 1] . ( 884 sec) [ -42417.5444] [ 8847] [depth= 2] . ( 887 sec) [ -42414.9615] [ 8847] [depth= 1] . ( 890 sec) [ -42414.9399] [ 8847] [depth= 2] . ( 893 sec) [ -42414.8035] [ 8847] [depth= 1] . ( 902 sec) [ -42414.0079] [ 8842] [depth= 1] . ( 905 sec) [ -42413.9978] [ 8842] [depth= 2] . ( 914 sec) [ -42411.4126] [ 8838] [depth= 1] . ( 917 sec) [ -42409.8217] [ 8837] [depth= 1] . ( 919 sec) [ -42409.3406] [ 8834] [depth= 1] . ( 922 sec) [ -42409.3181] [ 8834] [depth= 1] . ( 929 sec) [ -42409.2596] [ 8834] [depth= 10] . ( 930 sec) [ -42409.2409] [ 8834] [depth= 1] . ( 935 sec) [ -42409.2303] [ 8834] [depth= 2] . ( 952 sec) [ -42409.2086] [ 8834] [depth= 1] . ( 954 sec) [ -42409.1893] [ 8834] [depth= 1] . ( 955 sec) [ -42409.1649] [ 8834] [depth= 1] . ( 957 sec) [ -42409.1457] [ 8834] [depth= 2] . ( 958 sec) [ -42409.0851] [ 8834] [depth= 1] . ( 959 sec) [ -42409.0698] [ 8833] [depth= 1] . ( 971 sec) [ -42409.0534] [ 8833] [depth= 1] . ( 973 sec) [ -42408.5950] [ 8833] [depth= 2] . ( 974 sec) [ -42408.5598] [ 8833] [depth= 1] . ( 978 sec) [ -42408.5145] [ 8833] [depth= 2] . ( 981 sec) [ -42408.5036] [ 8834] [depth= 1] . ( 982 sec) [ -42408.4713] [ 8834] [depth= 1] . ( 989 sec) [ -42408.2866] [ 8835] [depth= 2] . ( 992 sec) [ -42408.2244] [ 8835] [depth= 1] . ( 993 sec) [ -42408.1690] [ 8836] [depth= 2] . ( 996 sec) [ -42408.1493] [ 8836] [depth= 2] . ( 999 sec) [ -42408.1343] [ 8836] [depth= 1] . ( 1001 sec) [ -42406.6967] [ 8836] [depth= 1] . ( 1008 sec) [ -42406.6847] [ 8836] [depth= 2] . ( 1014 sec) [ -42406.6705] [ 8836] [depth= 3] . ( 1017 sec) [ -42406.6554] [ 8836] [depth= 1] . ( 1020 sec) [ -42406.6446] [ 8836] [depth= 12] . ( 1032 sec) [ -42406.6333] [ 8836] [depth= 3] . ( 1033 sec) [ -42404.7022] [ 8835] [depth= 1] . ( 1035 sec) [ -42404.2627] [ 8835] [depth= 5] . ( 1040 sec) [ -42404.2516] [ 8835] [depth= 1] . ( 1041 sec) [ -42404.1586] [ 8835] [depth= 10] . ( 1045 sec) [ -42404.0057] [ 8835] [depth= 3] . ( 1054 sec) [ -42403.9839] [ 8835] [depth= 7] . ( 1055 sec) [ -42403.9581] [ 8835] [depth= 9] . ( 1062 sec) [ -42403.9354] [ 8835] [depth= 2] . ( 1063 sec) [ -42403.9169] [ 8835] [depth= 8] . ( 1077 sec) [ -42403.9016] [ 8835] [depth= 2] . ( 1115 sec) [ -42403.8902] [ 8835] [depth= 3] . ( 1116 sec) [ -42403.8727] [ 8835] [depth= 14] . ( 1127 sec) [ -42403.6478] [ 8835] [depth= 3] . ( 1187 sec) [ -42403.6261] [ 8835] [depth= 1] . ( 1189 sec) [ -42401.7149] [ 8833] [depth= 3] . ( 1193 sec) [ -42401.7047] [ 8833] [depth= 2] . ( 1198 sec) [ -42401.6944] [ 8833] [depth= 4] . ( 1215 sec) [ -42401.6498] [ 8832] [depth= 1] . ( 1218 sec) [ -42400.8084] [ 8836] [depth= 3] . ( 1221 sec) [ -42400.7493] [ 8836] [depth= 1] . ( 1225 sec) [ -42400.7296] [ 8836] [depth= 4] . ( 1226 sec) [ -42400.6217] [ 8836] [depth= 4] . ( 1229 sec) [ -42400.5881] [ 8837] [depth= 1] . ( 1235 sec) [ -42400.5197] [ 8837] [depth= 1] . ( 1239 sec) [ -42399.6497] [ 8835] [depth= 1] . ( 1250 sec) [ -42399.6377] [ 8835] [depth= 1] . ( 1251 sec) [ -42399.6202] [ 8835] [depth= 1] . ( 1253 sec) [ -42399.5715] [ 8835] [depth= 1] . ( 1256 sec) [ -42399.5365] [ 8835] [depth= 1] . ( 1259 sec) [ -42399.5238] [ 8835] [depth= 1] . ( 1260 sec) [ -42399.3684] [ 8835] [depth= 1] . ( 1272 sec) [ -42395.8059] [ 8834] [depth= 5] . ( 1277 sec) [ -42393.9150] [ 8832] [depth= 2] . ( 1281 sec) [ -42393.8892] [ 8832] [depth= 1] . ( 1282 sec) [ -42393.8721] [ 8832] [depth= 1] . ( 1293 sec) [ -42389.9603] [ 8838] [depth= 2] . ( 1301 sec) [ -42389.7896] [ 8840] [depth= 1] . ( 1302 sec) [ -42389.0934] [ 8840] [depth= 1] . ( 1302 sec) [ -42388.6785] [ 8840] [depth= 6] . ( 1311 sec) [ -42388.2522] [ 8840] [depth= 5] . ( 1317 sec) [ -42386.2821] [ 8838] [depth= 2] . ( 1318 sec) [ -42385.5458] [ 8838] [depth= 2] . ( 1320 sec) [ -42385.4288] [ 8838] [depth= 2] . ( 1326 sec) [ -42385.4076] [ 8838] [depth= 1] . ( 1329 sec) [ -42385.3874] [ 8838] [depth= 2] . ( 1330 sec) [ -42385.3762] [ 8838] [depth= 5] . ( 1331 sec) [ -42385.3658] [ 8838] [depth= 3] . ( 1351 sec) [ -42384.0026] [ 8836] [depth= 1] . ( 1356 sec) [ -42383.9445] [ 8836] [depth= 6] . ( 1366 sec) [ -42383.8772] [ 8837] [depth= 1] . ( 1381 sec) [ -42383.8658] [ 8837] [depth= 2] . ( 1385 sec) [ -42383.8554] [ 8837] [depth= 4] . ( 1408 sec) [ -42380.3137] [ 8836] [depth= 6] . ( 1409 sec) [ -42379.7740] [ 8834] [depth= 1] . ( 1412 sec) [ -42379.6550] [ 8832] [depth= 1] . ( 1414 sec) [ -42376.7813] [ 8828] [depth= 1] . ( 1415 sec) [ -42376.7600] [ 8828] [depth= 1] . ( 1418 sec) [ -42374.6937] [ 8829] [depth= 3] . ( 1420 sec) [ -42374.6826] [ 8829] [depth= 8] . ( 1428 sec) [ -42373.0454] [ 8831] [depth= 1] . ( 1432 sec) [ -42370.8774] [ 8829] [depth= 10] . ( 1435 sec) [ -42369.6111] [ 8833] [depth= 1] . ( 1436 sec) [ -42369.0952] [ 8830] [depth= 1] . ( 1442 sec) [ -42368.5562] [ 8831] [depth= 2] . ( 1455 sec) [ -42368.3287] [ 8835] [depth= 1] . ( 1463 sec) [ -42367.5572] [ 8836] [depth= 1] . ( 1467 sec) [ -42367.4507] [ 8837] [depth= 1] . ( 1475 sec) [ -42367.1739] [ 8839] [depth= 1] . ( 1493 sec) [ -42367.1540] [ 8839] [depth= 1] . ( 1502 sec) [ -42367.0396] [ 8840] [depth= 1] . ( 1504 sec) [ -42363.0182] [ 8837] [depth= 3] . ( 1514 sec) [ -42362.8531] [ 8837] [depth= 1] . ( 1515 sec) [ -42360.9827] [ 8836] [depth= 1] . ( 1539 sec) [ -42360.0909] [ 8836] [depth= 2] . ( 1540 sec) [ -42359.5525] [ 8835] [depth= 1] . ( 1549 sec) [ -42317.8343] [Branch lengths ] . ( 1566 sec) [ -42317.0287] [GTR parameters ] . ( 1568 sec) [ -42314.8346] [Alpha ][ 0.655026] . ( 1621 sec) [ -42312.1561] [ 8832] [depth= 6] . ( 1629 sec) [ -42312.1449] [ 8832] [depth= 1] . ( 1653 sec) [ -42312.1223] [ 8832] [depth= 2] . ( 1689 sec) [ -42311.2439] [ 8832] [depth= 2] . ( 1693 sec) [ -42311.2249] [ 8832] [depth= 1] . ( 1697 sec) [ -42311.2087] [ 8831] [depth= 1] . ( 1721 sec) [ -42311.1934] [ 8831] [depth= 1] . ( 1757 sec) [ -42311.1822] [ 8831] [depth= 1] . ( 1996 sec) [ -42311.1718] [ 8831] [depth= 5] . ( 2022 sec) [ -42311.1466] [ 8831] [depth= 1] . ( 2053 sec) [ -42311.1338] [ 8831] [depth= 4] . ( 2176 sec) [ -42311.1197] [ 8831] [depth= 1] . ( 2199 sec) [ -42311.1009] [ 8831] [depth= 1] . ( 2207 sec) [ -42309.2398] [ 8827] [depth= 7] . ( 2208 sec) [ -42308.8589] [ 8822] [depth= 6] . ( 2229 sec) [ -42308.3046] [ 8824] [depth= 1] . ( 2271 sec) [ -42307.8194] [ 8827] [depth= 1] . ( 2322 sec) [ -42292.6022] [Branch lengths ] . ( 2334 sec) [ -42292.3335] [GTR parameters ] . ( 2336 sec) [ -42291.2637] [Alpha ][ 0.688047] . ( 2404 sec) [ -42289.5700] [ 8820] [depth= 7] . ( 2411 sec) [ -42289.3916] [ 8819] [depth= 1] . ( 2425 sec) [ -42289.3755] [ 8819] [depth= 2] . ( 2455 sec) [ -42289.3642] [ 8819] [depth= 1] . ( 2482 sec) [ -42289.3508] [ 8819] [depth= 1] . ( 2740 sec) [ -42289.3221] [ 8818] [depth= 1] . ( 2751 sec) [ -42289.3119] [ 8819] [depth= 1] . ( 2772 sec) [ -42289.2631] [ 8819] [depth= 1] . ( 2777 sec) [ -42289.2504] [ 8819] [depth= 1] . ( 2862 sec) [ -42289.0786] [ 8816] [depth= 1] . ( 2936 sec) [ -42285.8838] [ 8814] [depth= 2] . ( 3003 sec) [ -42285.7997] [ 8810] [depth= 1] . ( 3009 sec) [ -42285.7707] [ 8813] [depth= 1] . ( 3058 sec) [ -42276.5472] [Branch lengths ] . ( 3076 sec) [ -42276.4947] [GTR parameters ] . ( 3077 sec) [ -42276.0634] [Alpha ][ 0.709419] . ( 3770 sec) [ -42276.0534] [ 8817] [depth= 3] . ( 3792 sec) [ -42275.6407] [ 8818] [depth= 2] . ( 3802 sec) [ -42270.1169] [Branch lengths ] . ( 3810 sec) [ -42270.1064] [GTR parameters ] . ( 3811 sec) [ -42269.9268] [Alpha ][ 0.723037] . ( 4446 sec) [ -42269.8799] [ 8818] [depth= 1] . ( 4555 sec) [ -42266.5348] [Branch lengths ] . ( 4566 sec) [ -42266.5193] [GTR parameters ] . ( 4567 sec) [ -42266.4367] [Alpha ][ 0.732355] . ( 5292 sec) [ -42261.2422] [Branch lengths ] . ( 5715 sec) [ -42261.0872] [ 8816] [depth= 1] . ( 6485 sec) [ -42250.4034] [Branch lengths ] . ( 6495 sec) [ -42250.3949] [GTR parameters ] . ( 6496 sec) [ -42250.3363] [Alpha ][ 0.740166] . ( 7248 sec) [ -42250.3100] [ 8816] [depth= 1] . ( 7681 sec) [ -42239.2341] [Branch lengths ] . ( 7684 sec) [ -42239.2320] [GTR parameters ] . ( 7686 sec) [ -42239.2266] [Alpha ][ 0.742538] . ( 8391 sec) [ -42239.2160] [ 8819] [depth= 1] . ( 8507 sec) [ -42239.1413] [ 8819] [depth= 1] . ( 8508 sec) [ -42239.1180] [ 8819] [depth= 7] . ( 8520 sec) [ -42239.1047] [ 8819] [depth= 1] . ( 8896 sec) [ -42235.8535] [Branch lengths ] . ( 8906 sec) [ -42235.8468] [GTR parameters ] . ( 8907 sec) [ -42235.8445] [Alpha ][ 0.744093] . (10153 sec) [ -42235.6747] [Branch lengths ] . (10154 sec) [ -42235.6747] [Topology ] . (10193 sec) [ -42235.4784] [Topology ] . (10233 sec) [ -42235.4243] [Topology ] . (10272 sec) [ -42235.4060] [Topology ] . (10311 sec) [ -42235.4055] [Topology ] . (10323 sec) [ -42235.4011] [GTR parameters ] . (10325 sec) [ -42235.3951] [Alpha ][ 0.746582] . (10325 sec) [ -42235.3951] [Topology ] . (10364 sec) [ -42235.4326] [Topology ] . Moving backward . (10365 sec) [ -42235.3815] [Topology ] . (10405 sec) [ -42235.3923] [Topology ] . Moving backward . (10406 sec) [ -42235.3702] [Topology ] . (10445 sec) [ -42235.3728] [Topology ] . Moving backward . (10446 sec) [ -42235.3659] [Topology ] . (10486 sec) [ -42235.3731] [Topology ] . Moving backward . (10487 sec) [ -42235.3614] [Topology ] . (10526 sec) [ -42235.3702] [Topology ] . Moving backward . (10531 sec) [ -42235.3583] [GTR parameters ] . (10532 sec) [ -42235.3577] [Alpha ][ 0.747328] . (10532 sec) [ -42235.3577] [Topology ] . (10572 sec) [ -42235.3695] [Topology ] . Moving backward . (10573 sec) [ -42235.3534] [Topology ] . (10612 sec) [ -42235.3654] [Topology ] . Moving backward . (10613 sec) [ -42235.3510] [Topology ] . (10652 sec) [ -42235.3659] [Topology ] . Moving backward . (10654 sec) [ -42235.3472] [Topology ] . (10693 sec) [ -42235.3610] [Topology ] . Moving backward . (10694 sec) [ -42235.3454] [Topology ] . (10733 sec) [ -42235.3635] [Topology ] . Moving backward . (10739 sec) [ -42235.3422] [GTR parameters ] . (10740 sec) [ -42235.3418] [Alpha ][ 0.748075] . (10741 sec) [ -42235.3418] [Topology ] . (10780 sec) [ -42235.3805] [Topology ] . Moving backward . (10781 sec) [ -42235.3401] [Topology ] . (10821 sec) [ -42235.3614] [Topology ] . Moving backward . (10822 sec) [ -42235.3386] [Topology ] . (10861 sec) [ -42235.3614] [Topology ] . Moving backward . (10862 sec) [ -42235.3377] [Topology ] . (10866 sec) [ -42235.3377] [GTR parameters ] . (10867 sec) [ -42235.3377] [Alpha ][ 0.748075] . (10867 sec) [ -42235.3377] [Topology ] . (10907 sec) [ -42235.3674] [Topology ] . Moving backward . (10908 sec) [ -42235.3348] [Topology ] . (10947 sec) [ -42235.3606] [Topology ] . Moving backward . (10948 sec) [ -42235.3345] [Topology ] . (10951 sec) [ -42235.3345] [GTR parameters ] . (10952 sec) [ -42235.3345] [Alpha ][ 0.748075] . (10952 sec) [ -42235.3345] [Topology ] . (10992 sec) [ -42235.3688] [Topology ] . Moving backward . (10993 sec) [ -42235.3319] [Topology ] . (11032 sec) [ -42235.3602] [Topology ] . Moving backward . (11033 sec) [ -42235.3282] [Topology ] . (11073 sec) [ -42235.3365] [Topology ] . Moving backward . (11074 sec) [ -42235.3275] [Topology ] . (11076 sec) [ -42235.3275] [GTR parameters ] . (11078 sec) [ -42235.3274] [Alpha ][ 0.748824] . (11078 sec) [ -42235.3274] [Topology ] . (11118 sec) [ -42235.3382] [Topology ] . Moving backward . (11119 sec) [ -42235.3266] [Topology ] . (11121 sec) [ -42235.3266] [GTR parameters ] . (11122 sec) [ -42235.3266] [Alpha ][ 0.748824] . Checking for NNIs, optimizing five branches... . (11221 sec) [ -42235.1192] [Topology ] . Checking for NNIs, optimizing five branches... . (11321 sec) [ -42235.1188] [Topology ] . Checking for NNIs, optimizing five branches... . (11420 sec) [ -42235.1167] [Topology ] . Checking for NNIs, optimizing five branches... . (11519 sec) [ -42235.1163] [Topology ] . Checking for NNIs, optimizing five branches... . (11619 sec) [ -42235.1135] [Topology ] . Checking for NNIs, optimizing five branches... . (11718 sec) [ -42235.1134] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -42235.113394. . Printing the most likely tree in file 'nucleic_M2839_470x829_2006.phy_phyml_tree.txt'... . Time used 3h16m58s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 11835.41user 0.00system 3:17:18elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps