.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2624_139x348_2006.phy . Data type : aa . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : WAG . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Amino acid equilibrium frequencies : model . Optimise tree topology : yes . Tree topology search : Best of NNIs and SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 347 patterns found. (out of a total of 348 sites) . 60 sites without polymorphism (17.24%). . Computing pairwise distances... . Building BioNJ tree... . WARNING: this analysis will use at least 120Mo of memory space... . Maximizing likelihood (using NNI moves)... . ( 5 sec) [ -13793.7531] [Alpha ][ 0.587356] . ( 5 sec) [ -13793.7531] [Topology ] . ( 18 sec) [ -13520.6553] [Topology ] . ( 31 sec) [ -13438.0077] [Topology ] . ( 44 sec) [ -13368.0135] [Topology ] . ( 58 sec) [ -13341.9865] [Topology ] . ( 71 sec) [ -13331.9316] [Topology ] . ( 84 sec) [ -13325.8669] [Topology ] . ( 97 sec) [ -13316.8766] [Topology ] . ( 109 sec) [ -13310.0047] [Topology ] . ( 122 sec) [ -13302.2940] [Topology ] . Checking for NNIs, optimizing five branches... . ( 245 sec) [ -13284.4697] [Topology ] . ( 248 sec) [ -13279.3145] [Alpha ][ 0.713896] . ( 249 sec) [ -13279.3145] [Topology ] . ( 262 sec) [ -13275.1223] [Topology ] . ( 275 sec) [ -13271.4961] [Topology ] . ( 290 sec) [ -13267.0941] [Topology ] . ( 306 sec) [ -13263.3892] [Topology ] . ( 320 sec) [ -13260.9448] [Topology ] . ( 333 sec) [ -13259.4216] [Topology ] . Checking for NNIs, optimizing five branches... . ( 458 sec) [ -13245.1691] [Topology ] . ( 460 sec) [ -13245.1552] [Alpha ][ 0.721149] . ( 461 sec) [ -13245.1552] [Topology ] . ( 474 sec) [ -13240.8513] [Topology ] . ( 488 sec) [ -13239.8187] [Topology ] . ( 501 sec) [ -13239.1737] [Topology ] . ( 514 sec) [ -13238.7619] [Topology ] . ( 527 sec) [ -13238.6037] [Topology ] . ( 539 sec) [ -13238.5114] [Topology ] . ( 552 sec) [ -13238.4450] [Topology ] . ( 565 sec) [ -13238.3907] [Topology ] . Checking for NNIs, optimizing five branches... . ( 669 sec) [ -13232.8902] [Topology ] . ( 671 sec) [ -13232.8902] [Alpha ][ 0.721149] . ( 672 sec) [ -13232.8902] [Topology ] . ( 685 sec) [ -13231.4025] [Topology ] . ( 698 sec) [ -13230.4220] [Topology ] . ( 710 sec) [ -13230.0884] [Topology ] . ( 723 sec) [ -13229.9880] [Topology ] . ( 736 sec) [ -13229.9371] [Topology ] . ( 749 sec) [ -13229.9090] [Topology ] . ( 761 sec) [ -13229.8927] [Topology ] . ( 774 sec) [ -13229.8830] [Topology ] . Checking for NNIs, optimizing five branches... . ( 880 sec) [ -13225.1200] [Topology ] . ( 882 sec) [ -13225.1200] [Alpha ][ 0.721870] . ( 883 sec) [ -13225.1200] [Topology ] . ( 896 sec) [ -13225.0969] [Topology ] . ( 909 sec) [ -13225.0924] [Topology ] . ( 921 sec) [ -13225.0905] [Topology ] . ( 934 sec) [ -13225.0896] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1040 sec) [ -13220.7379] [Topology ] . ( 1042 sec) [ -13220.7379] [Alpha ][ 0.721870] . ( 1043 sec) [ -13220.7379] [Topology ] . ( 1056 sec) [ -13220.4553] [Topology ] . ( 1068 sec) [ -13220.2922] [Topology ] . ( 1081 sec) [ -13220.2543] [Topology ] . ( 1094 sec) [ -13220.2441] [Topology ] . ( 1106 sec) [ -13220.2414] [Topology ] . ( 1119 sec) [ -13220.2407] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1224 sec) [ -13215.8776] [Topology ] . ( 1226 sec) [ -13215.8776] [Alpha ][ 0.721870] . ( 1227 sec) [ -13215.8776] [Topology ] . ( 1239 sec) [ -13215.8621] [Topology ] . ( 1252 sec) [ -13215.8600] [Topology ] . ( 1264 sec) [ -13215.8594] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1370 sec) [ -13212.4824] [Topology ] . ( 1372 sec) [ -13212.4824] [Alpha ][ 0.721148] . ( 1373 sec) [ -13212.4824] [Topology ] . ( 1386 sec) [ -13209.8751] [Topology ] . ( 1398 sec) [ -13209.3164] [Topology ] . ( 1411 sec) [ -13209.2102] [Topology ] . ( 1424 sec) [ -13208.8807] [Topology ] . ( 1436 sec) [ -13208.0600] [Topology ] . ( 1449 sec) [ -13206.5285] [Topology ] . ( 1461 sec) [ -13205.9782] [Topology ] . ( 1474 sec) [ -13205.8797] [Topology ] . ( 1487 sec) [ -13205.8510] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1601 sec) [ -13204.0406] [Topology ] . ( 1603 sec) [ -13204.0405] [Alpha ][ 0.721870] . ( 1603 sec) [ -13204.0405] [Topology ] . ( 1616 sec) [ -13203.9287] [Topology ] . ( 1629 sec) [ -13203.9275] [Topology ] . ( 1641 sec) [ -13200.1512] [Topology ] . ( 1654 sec) [ -13196.5738] [Topology ] . ( 1666 sec) [ -13194.5729] [Topology ] . ( 1679 sec) [ -13193.8221] [Topology ] . ( 1692 sec) [ -13192.6245] [Topology ] . ( 1704 sec) [ -13191.8344] [Topology ] . ( 1717 sec) [ -13191.6880] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1830 sec) [ -13190.0646] [Topology ] . ( 1832 sec) [ -13190.0630] [Alpha ][ 0.724334] . ( 1833 sec) [ -13190.0630] [Topology ] . ( 1845 sec) [ -13189.5071] [Topology ] . ( 1858 sec) [ -13181.3201] [Topology ] . ( 1871 sec) [ -13179.8319] [Topology ] . ( 1884 sec) [ -13176.6713] [Topology ] . ( 1896 sec) [ -13175.3010] [Topology ] . ( 1909 sec) [ -13172.9735] [Topology ] . ( 1922 sec) [ -13171.0032] [Topology ] . ( 1935 sec) [ -13169.9000] [Topology ] . ( 1947 sec) [ -13169.6685] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2059 sec) [ -13168.5938] [Topology ] . ( 2061 sec) [ -13168.5936] [Alpha ][ 0.725185] . ( 2062 sec) [ -13168.5936] [Topology ] . ( 2075 sec) [ -13168.5688] [Topology ] . ( 2087 sec) [ -13168.5557] [Topology ] . ( 2100 sec) [ -13168.5475] [Topology ] . ( 2113 sec) [ -13168.5421] [Topology ] . ( 2125 sec) [ -13168.5386] [Topology ] . ( 2138 sec) [ -13168.5362] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2238 sec) [ -13167.7703] [Topology ] . ( 2240 sec) [ -13167.7703] [Alpha ][ 0.725185] . ( 2241 sec) [ -13167.7703] [Topology ] . ( 2253 sec) [ -13167.4837] [Topology ] . ( 2266 sec) [ -13167.1672] [Topology ] . ( 2279 sec) [ -13167.1121] [Topology ] . ( 2291 sec) [ -13167.0937] [Topology ] . ( 2304 sec) [ -13167.0864] [Topology ] . ( 2317 sec) [ -13167.0831] [Topology ] . ( 2329 sec) [ -13167.0815] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2429 sec) [ -13166.4656] [Topology ] . ( 2431 sec) [ -13166.4653] [Alpha ][ 0.726195] . ( 2432 sec) [ -13166.4653] [Topology ] . ( 2445 sec) [ -13166.4406] [Topology ] . ( 2457 sec) [ -13166.4354] [Topology ] . ( 2470 sec) [ -13166.4333] [Topology ] . ( 2483 sec) [ -13166.4320] [Topology ] . ( 2495 sec) [ -13166.4312] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2598 sec) [ -13165.1013] [Topology ] . ( 2600 sec) [ -13165.1012] [Alpha ][ 0.726921] . ( 2601 sec) [ -13165.1012] [Topology ] . ( 2614 sec) [ -13165.0844] [Topology ] . ( 2626 sec) [ -13165.0799] [Topology ] . ( 2639 sec) [ -13165.0776] [Topology ] . ( 2652 sec) [ -13165.0761] [Topology ] . ( 2664 sec) [ -13165.0750] [Topology ] . ( 2677 sec) [ -13165.0742] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2779 sec) [ -13164.6526] [Topology ] . ( 2781 sec) [ -13164.6525] [Alpha ][ 0.727648] . ( 2781 sec) [ -13164.6525] [Topology ] . ( 2794 sec) [ -13164.5517] [Topology ] . ( 2807 sec) [ -13164.5181] [Topology ] . ( 2819 sec) [ -13161.2571] [Topology ] . ( 2832 sec) [ -13160.3559] [Topology ] . ( 2845 sec) [ -13157.8482] [Topology ] . ( 2858 sec) [ -13150.2335] [Topology ] . ( 2870 sec) [ -13145.5830] [Topology ] . ( 2883 sec) [ -13144.5284] [Topology ] . ( 2896 sec) [ -13144.3239] [Topology ] . Checking for NNIs, optimizing five branches... . ( 2998 sec) [ -13143.9256] [Topology ] . ( 3000 sec) [ -13143.9254] [Alpha ][ 0.728482] . ( 3001 sec) [ -13143.9254] [Topology ] . ( 3014 sec) [ -13143.8162] [Topology ] . ( 3027 sec) [ -13143.7636] [Topology ] . ( 3039 sec) [ -13143.6201] [Topology ] . ( 3052 sec) [ -13143.5211] [Topology ] . ( 3065 sec) [ -13143.4964] [Topology ] . ( 3078 sec) [ -13143.4849] [Topology ] . ( 3091 sec) [ -13143.4380] [Topology ] . ( 3104 sec) [ -13143.2886] [Topology ] . ( 3117 sec) [ -13143.2536] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3225 sec) [ -13143.1266] [Topology ] . ( 3227 sec) [ -13143.1266] [Alpha ][ 0.728482] . ( 3228 sec) [ -13143.1266] [Topology ] . ( 3241 sec) [ -13143.0260] [Topology ] . ( 3253 sec) [ -13142.9909] [Topology ] . ( 3266 sec) [ -13142.9653] [Topology ] . ( 3279 sec) [ -13142.9432] [Topology ] . ( 3292 sec) [ -13142.9224] [Topology ] . ( 3305 sec) [ -13142.9026] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3400 sec) [ -13142.9016] [Topology ] . ( 3402 sec) [ -13142.9016] [Alpha ][ 0.728482] . ( 3403 sec) [ -13142.9016] [Topology ] . ( 3416 sec) [ -13142.8703] [Topology ] . ( 3429 sec) [ -13142.8461] [Topology ] . ( 3442 sec) [ -13142.8240] [Topology ] . ( 3454 sec) [ -13142.8032] [Topology ] . ( 3467 sec) [ -13142.7865] [Topology ] . ( 3480 sec) [ -13142.7788] [Topology ] . ( 3493 sec) [ -13142.7762] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3589 sec) [ -13142.7752] [Topology ] . ( 3591 sec) [ -13142.7752] [Alpha ][ 0.728482] . ( 3592 sec) [ -13142.7752] [Topology ] . ( 3605 sec) [ -13142.7694] [Topology ] . ( 3618 sec) [ -13142.7651] [Topology ] . ( 3630 sec) [ -13142.7635] [Topology ] . ( 3643 sec) [ -13142.7628] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3741 sec) [ -13142.7628] [Alpha ][ 0.728482] . ( 3742 sec) [ -13142.7628] [Topology ] . ( 3755 sec) [ -13142.7625] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 3950 sec) [ -13793.7531] [Alpha ][ 0.587356] . ( 3955 sec) [ -13793.5943] [ 2318] [depth= 1] . ( 3956 sec) [ -13793.3766] [ 2318] [depth= 1] . ( 3958 sec) [ -13793.3429] [ 2318] [depth= 1] . ( 3963 sec) [ -13793.1509] [ 2318] [depth= 1] . ( 3964 sec) [ -13792.4523] [ 2318] [depth= 1] . ( 3966 sec) [ -13792.4316] [ 2318] [depth= 1] . ( 3977 sec) [ -13775.7445] [ 2318] [depth= 1] . ( 3978 sec) [ -13765.9972] [ 2318] [depth= 1] . ( 3988 sec) [ -13756.6095] [ 2315] [depth= 2] . ( 3989 sec) [ -13756.2925] [ 2318] [depth= 1] . ( 3993 sec) [ -13754.9427] [ 2315] [depth= 1] . ( 3996 sec) [ -13754.3792] [ 2319] [depth= 1] . ( 4009 sec) [ -13748.0524] [ 2324] [depth= 2] . ( 4010 sec) [ -13739.8797] [ 2320] [depth= 2] . ( 4012 sec) [ -13735.9151] [ 2321] [depth= 1] . ( 4013 sec) [ -13733.5529] [ 2321] [depth= 1] . ( 4015 sec) [ -13726.0345] [ 2318] [depth= 1] . ( 4028 sec) [ -13706.1504] [ 2316] [depth= 4] . ( 4030 sec) [ -13676.8374] [ 2305] [depth= 9] . ( 4031 sec) [ -13675.9165] [ 2307] [depth= 7] . ( 4059 sec) [ -13663.2889] [ 2306] [depth= 1] . ( 4060 sec) [ -13663.0499] [ 2306] [depth= 2] . ( 4072 sec) [ -13653.1229] [ 2305] [depth= 1] . ( 4079 sec) [ -13651.3550] [ 2305] [depth= 1] . ( 4087 sec) [ -13626.6391] [ 2293] [depth= 11] . ( 4089 sec) [ -13623.2763] [ 2292] [depth= 1] . ( 4090 sec) [ -13601.5735] [ 2288] [depth= 7] . ( 4092 sec) [ -13570.6331] [ 2281] [depth= 6] . ( 4094 sec) [ -13526.8637] [ 2269] [depth= 11] . ( 4095 sec) [ -13520.5355] [ 2268] [depth= 1] . ( 4097 sec) [ -13513.9596] [ 2268] [depth= 2] . ( 4098 sec) [ -13493.1363] [ 2262] [depth= 5] . ( 4100 sec) [ -13477.9599] [ 2262] [depth= 3] . ( 4101 sec) [ -13466.6384] [ 2262] [depth= 1] . ( 4103 sec) [ -13374.7411] [ 2238] [depth= 11] . ( 4106 sec) [ -13372.3376] [ 2238] [depth= 2] . ( 4108 sec) [ -13368.7876] [ 2237] [depth= 3] . ( 4116 sec) [ -13362.1308] [ 2235] [depth= 3] . ( 4118 sec) [ -13360.1275] [ 2235] [depth= 3] . ( 4119 sec) [ -13359.8561] [ 2235] [depth= 1] . ( 4121 sec) [ -13349.3757] [ 2233] [depth= 2] . ( 4124 sec) [ -13339.0267] [ 2228] [depth= 6] . ( 4126 sec) [ -13293.7497] [ 2214] [depth= 14] . ( 4127 sec) [ -13292.6002] [ 2213] [depth= 1] . ( 4128 sec) [ -13292.2884] [ 2212] [depth= 3] . ( 4134 sec) [ -13290.5210] [ 2212] [depth= 1] . ( 4135 sec) [ -13290.3000] [ 2213] [depth= 1] . ( 4138 sec) [ -13289.4927] [ 2215] [depth= 1] . ( 4142 sec) [ -13286.9914] [ 2216] [depth= 1] . ( 4144 sec) [ -13285.9712] [ 2214] [depth= 1] . ( 4146 sec) [ -13284.1159] [ 2212] [depth= 6] . ( 4148 sec) [ -13268.6962] [ 2210] [depth= 12] . ( 4149 sec) [ -13268.3357] [ 2208] [depth= 1] . ( 4150 sec) [ -13267.0741] [ 2208] [depth= 1] . ( 4152 sec) [ -13266.7426] [ 2208] [depth= 1] . ( 4155 sec) [ -13264.0041] [ 2208] [depth= 1] . ( 4157 sec) [ -13263.9403] [ 2208] [depth= 1] . ( 4158 sec) [ -13263.5602] [ 2208] [depth= 1] . ( 4174 sec) [ -13259.5980] [ 2209] [depth= 1] . ( 4175 sec) [ -13236.4215] [ 2208] [depth= 2] . ( 4177 sec) [ -13235.0346] [ 2206] [depth= 2] . ( 4182 sec) [ -13233.2562] [ 2207] [depth= 1] . ( 4187 sec) [ -13232.2852] [ 2208] [depth= 1] . ( 4188 sec) [ -13231.1487] [ 2207] [depth= 4] . ( 4192 sec) [ -13203.3142] [ 2200] [depth= 8] . ( 4196 sec) [ -13202.8258] [ 2201] [depth= 1] . ( 4198 sec) [ -13201.8187] [ 2200] [depth= 1] . ( 4203 sec) [ -13200.6499] [ 2202] [depth= 2] . ( 4205 sec) [ -13197.0671] [ 2202] [depth= 1] . ( 4206 sec) [ -13196.3461] [ 2201] [depth= 1] . ( 4220 sec) [ -13192.7648] [ 2202] [depth= 2] . ( 4221 sec) [ -13173.5052] [ 2197] [depth= 6] . ( 4225 sec) [ -13173.3332] [ 2197] [depth= 1] . ( 4227 sec) [ -13171.7260] [ 2195] [depth= 3] . ( 4228 sec) [ -13171.2663] [ 2195] [depth= 2] . ( 4230 sec) [ -13164.6161] [ 2195] [depth= 1] . ( 4231 sec) [ -13141.6081] [ 2192] [depth= 6] . ( 4233 sec) [ -13135.8094] [ 2192] [depth= 3] . ( 4235 sec) [ -13135.2979] [ 2192] [depth= 3] . ( 4236 sec) [ -13107.4538] [ 2187] [depth= 12] . ( 4238 sec) [ -13107.4156] [ 2187] [depth= 5] . ( 4240 sec) [ -13105.8293] [ 2187] [depth= 1] . ( 4243 sec) [ -13105.4432] [ 2187] [depth= 2] . ( 4245 sec) [ -13104.9557] [ 2187] [depth= 2] . ( 4247 sec) [ -13101.8807] [ 2186] [depth= 3] . ( 4249 sec) [ -13100.9820] [ 2186] [depth= 1] . ( 4251 sec) [ -13100.1709] [ 2186] [depth= 1] . ( 4252 sec) [ -13099.5573] [ 2187] [depth= 1] . ( 4260 sec) [ -13099.1565] [ 2187] [depth= 2] . ( 4261 sec) [ -13098.0531] [ 2187] [depth= 2] . ( 4264 sec) [ -13097.5354] [ 2187] [depth= 1] . ( 4269 sec) [ -13097.1396] [ 2187] [depth= 1] . ( 4270 sec) [ -13090.8414] [ 2186] [depth= 1] . ( 4274 sec) [ -13090.7045] [ 2186] [depth= 1] . ( 4275 sec) [ -13090.5489] [ 2186] [depth= 2] . ( 4280 sec) [ -13089.6035] [ 2186] [depth= 1] . ( 4283 sec) [ -13089.0252] [ 2187] [depth= 4] . ( 4285 sec) [ -13089.0111] [ 2187] [depth= 2] . ( 4286 sec) [ -13087.9764] [ 2189] [depth= 1] . ( 4288 sec) [ -13087.7221] [ 2189] [depth= 1] . ( 4289 sec) [ -13083.6959] [ 2188] [depth= 1] . ( 4291 sec) [ -13083.3358] [ 2188] [depth= 2] . ( 4297 sec) [ -13078.3683] [ 2187] [depth= 2] . ( 4298 sec) [ -13077.1170] [ 2187] [depth= 1] . ( 4303 sec) [ -13076.1466] [ 2187] [depth= 4] . ( 4304 sec) [ -13071.8185] [ 2188] [depth= 2] . ( 4306 sec) [ -13071.4761] [ 2188] [depth= 1] . ( 4324 sec) [ -13071.3022] [ 2188] [depth= 1] . ( 4336 sec) [ -13070.1176] [ 2189] [depth= 1] . ( 4337 sec) [ -13069.0867] [ 2188] [depth= 1] . ( 4344 sec) [ -13067.2618] [ 2189] [depth= 3] . ( 4345 sec) [ -13066.4716] [ 2188] [depth= 2] . ( 4362 sec) [ -13065.5878] [ 2188] [depth= 1] . ( 4364 sec) [ -13065.4746] [ 2188] [depth= 1] . ( 4365 sec) [ -13065.4360] [ 2189] [depth= 1] . ( 4367 sec) [ -13065.1851] [ 2189] [depth= 1] . ( 4370 sec) [ -13064.5043] [ 2189] [depth= 1] . ( 4384 sec) [ -13058.9299] [ 2188] [depth= 3] . ( 4385 sec) [ -13058.7959] [ 2188] [depth= 1] . ( 4387 sec) [ -13058.7304] [ 2188] [depth= 1] . ( 4388 sec) [ -13052.5370] [ 2187] [depth= 2] . ( 4390 sec) [ -13050.2265] [ 2188] [depth= 1] . ( 4397 sec) [ -13049.9081] [ 2188] [depth= 1] . ( 4400 sec) [ -13048.9231] [ 2191] [depth= 7] . ( 4402 sec) [ -13048.7421] [ 2191] [depth= 1] . ( 4406 sec) [ -13045.5597] [ 2191] [depth= 1] . ( 4408 sec) [ -13045.4863] [ 2191] [depth= 2] . ( 4410 sec) [ -13045.1382] [ 2191] [depth= 3] . ( 4416 sec) [ -13040.5369] [ 2189] [depth= 2] . ( 4417 sec) [ -13040.5019] [ 2190] [depth= 1] . ( 4419 sec) [ -13038.6367] [ 2191] [depth= 2] . ( 4425 sec) [ -13037.8834] [ 2191] [depth= 1] . ( 4426 sec) [ -13037.6357] [ 2191] [depth= 2] . ( 4430 sec) [ -13036.4306] [ 2191] [depth= 6] . ( 4432 sec) [ -13035.2017] [ 2191] [depth= 1] . ( 4437 sec) [ -13031.3024] [ 2190] [depth= 4] . ( 4447 sec) [ -13030.8243] [ 2189] [depth= 1] . ( 4449 sec) [ -13029.9148] [ 2188] [depth= 1] . ( 4451 sec) [ -13029.7673] [ 2189] [depth= 4] . ( 4452 sec) [ -13029.4536] [ 2189] [depth= 3] . ( 4453 sec) [ -13023.2685] [ 2187] [depth= 1] . ( 4454 sec) [ -13023.0534] [ 2187] [depth= 1] . ( 4456 sec) [ -13020.9811] [ 2185] [depth= 4] . ( 4460 sec) [ -13019.6298] [ 2185] [depth= 3] . ( 4462 sec) [ -13019.2002] [ 2185] [depth= 1] . ( 4464 sec) [ -13018.4425] [ 2185] [depth= 2] . ( 4465 sec) [ -13016.7036] [ 2185] [depth= 2] . ( 4466 sec) [ -13015.5989] [ 2184] [depth= 1] . ( 4476 sec) [ -12925.0074] [Branch lengths ] . ( 4479 sec) [ -12921.4114] [Alpha ][ 0.699755] . ( 4484 sec) [ -12921.3680] [ 2184] [depth= 1] . ( 4504 sec) [ -12921.0593] [ 2185] [depth= 1] . ( 4513 sec) [ -12920.5124] [ 2181] [depth= 1] . ( 4547 sec) [ -12920.3065] [ 2180] [depth= 2] . ( 4563 sec) [ -12919.9108] [ 2180] [depth= 1] . ( 4587 sec) [ -12919.7378] [ 2179] [depth= 1] . ( 4594 sec) [ -12919.5367] [ 2179] [depth= 1] . ( 4601 sec) [ -12919.0645] [ 2179] [depth= 1] . ( 4616 sec) [ -12918.9764] [ 2179] [depth= 2] . ( 4617 sec) [ -12918.9399] [ 2179] [depth= 1] . ( 4619 sec) [ -12918.5421] [ 2181] [depth= 1] . ( 4620 sec) [ -12917.9926] [ 2181] [depth= 1] . ( 4638 sec) [ -12917.3919] [ 2181] [depth= 1] . ( 4650 sec) [ -12917.3270] [ 2181] [depth= 1] . ( 4652 sec) [ -12917.1707] [ 2181] [depth= 2] . ( 4657 sec) [ -12916.9932] [ 2181] [depth= 1] . ( 4659 sec) [ -12911.5485] [ 2178] [depth= 1] . ( 4665 sec) [ -12910.9903] [ 2178] [depth= 2] . ( 4686 sec) [ -12910.8216] [ 2178] [depth= 1] . ( 4693 sec) [ -12910.7293] [ 2178] [depth= 1] . ( 4715 sec) [ -12909.1435] [ 2178] [depth= 4] . ( 4731 sec) [ -12907.2378] [ 2177] [depth= 6] . ( 4742 sec) [ -12907.1840] [ 2177] [depth= 1] . ( 4771 sec) [ -12905.4979] [ 2177] [depth= 1] . ( 4773 sec) [ -12905.4070] [ 2177] [depth= 2] . ( 4779 sec) [ -12904.7182] [ 2177] [depth= 2] . ( 4782 sec) [ -12904.3577] [ 2177] [depth= 14] . ( 4796 sec) [ -12904.2708] [ 2177] [depth= 1] . ( 4821 sec) [ -12904.1409] [ 2177] [depth= 4] . ( 4822 sec) [ -12902.0904] [ 2176] [depth= 4] . ( 4826 sec) [ -12902.0219] [ 2176] [depth= 3] . ( 4829 sec) [ -12901.3720] [ 2176] [depth= 9] . ( 4831 sec) [ -12901.2508] [ 2176] [depth= 3] . ( 4833 sec) [ -12901.1570] [ 2176] [depth= 2] . ( 4842 sec) [ -12901.0081] [ 2176] [depth= 1] . ( 4845 sec) [ -12900.8449] [ 2176] [depth= 2] . ( 4857 sec) [ -12900.8208] [ 2176] [depth= 1] . ( 4859 sec) [ -12900.7938] [ 2176] [depth= 1] . ( 4864 sec) [ -12900.7459] [ 2176] [depth= 1] . ( 4872 sec) [ -12900.6710] [ 2176] [depth= 1] . ( 4907 sec) [ -12900.6346] [ 2176] [depth= 2] . ( 4915 sec) [ -12900.3021] [ 2175] [depth= 1] . ( 4917 sec) [ -12900.2265] [ 2175] [depth= 1] . ( 4978 sec) [ -12900.1911] [ 2175] [depth= 1] . ( 4980 sec) [ -12899.1709] [ 2175] [depth= 1] . ( 4988 sec) [ -12899.1535] [ 2175] [depth= 2] . ( 5009 sec) [ -12899.0788] [ 2176] [depth= 1] . ( 5026 sec) [ -12898.9084] [ 2176] [depth= 1] . ( 5028 sec) [ -12895.9564] [ 2171] [depth= 6] . ( 5034 sec) [ -12893.0324] [ 2170] [depth= 1] . ( 5036 sec) [ -12892.9948] [ 2170] [depth= 1] . ( 5037 sec) [ -12891.6223] [ 2170] [depth= 7] . ( 5046 sec) [ -12891.6079] [ 2170] [depth= 1] . ( 5089 sec) [ -12891.4833] [ 2169] [depth= 1] . ( 5104 sec) [ -12891.4677] [ 2169] [depth= 1] . ( 5118 sec) [ -12891.4479] [ 2169] [depth= 1] . ( 5122 sec) [ -12877.1716] [Branch lengths ] . ( 5125 sec) [ -12876.9648] [Alpha ][ 0.728771] . ( 5131 sec) [ -12876.9155] [ 2169] [depth= 1] . ( 5369 sec) [ -12876.4549] [ 2168] [depth= 3] . ( 5558 sec) [ -12876.2229] [ 2167] [depth= 13] . ( 5567 sec) [ -12876.1835] [ 2167] [depth= 2] . ( 5569 sec) [ -12875.5073] [ 2167] [depth= 1] . ( 5591 sec) [ -12875.4162] [ 2167] [depth= 1] . ( 5594 sec) [ -12875.1435] [ 2167] [depth= 4] . ( 5637 sec) [ -12875.1303] [ 2167] [depth= 1] . ( 5643 sec) [ -12875.0809] [ 2167] [depth= 2] . ( 5809 sec) [ -12875.0701] [ 2167] [depth= 1] . ( 5810 sec) [ -12874.1049] [ 2167] [depth= 1] . ( 5820 sec) [ -12874.0917] [ 2168] [depth= 1] . ( 5825 sec) [ -12873.9343] [ 2168] [depth= 1] . ( 5840 sec) [ -12873.7674] [ 2168] [depth= 2] . ( 5899 sec) [ -12869.9810] [Branch lengths ] . ( 5901 sec) [ -12869.9718] [Alpha ][ 0.735084] . ( 5906 sec) [ -12869.9605] [ 2168] [depth= 1] . ( 6164 sec) [ -12869.9176] [ 2168] [depth= 3] . ( 6218 sec) [ -12868.4700] [ 2168] [depth= 7] . ( 6377 sec) [ -12867.2708] [ 2167] [depth= 8] . ( 6385 sec) [ -12867.2443] [ 2167] [depth= 1] . ( 6406 sec) [ -12867.1943] [ 2167] [depth= 2] . ( 6433 sec) [ -12867.1778] [ 2167] [depth= 1] . ( 6435 sec) [ -12867.1160] [ 2167] [depth= 1] . ( 6448 sec) [ -12867.0940] [ 2167] [depth= 1] . ( 6545 sec) [ -12866.4484] [ 2167] [depth= 1] . ( 6554 sec) [ -12865.9444] [ 2167] [depth= 1] . ( 6696 sec) [ -12864.9992] [ 2167] [depth= 1] . ( 6747 sec) [ -12864.9615] [ 2167] [depth= 1] . ( 6751 sec) [ -12862.9944] [Branch lengths ] . ( 6753 sec) [ -12862.9934] [Alpha ][ 0.737092] . ( 7651 sec) [ -12862.6528] [Branch lengths ] . ( 7652 sec) [ -12862.6528] [Topology ] . ( 7665 sec) [ -12862.3980] [Topology ] . ( 7678 sec) [ -12861.4719] [Topology ] . ( 7691 sec) [ -12859.7142] [Topology ] . ( 7703 sec) [ -12858.6257] [Topology ] . ( 7716 sec) [ -12858.1707] [Topology ] . ( 7729 sec) [ -12857.9908] [Topology ] . ( 7731 sec) [ -12857.9901] [Alpha ][ 0.738764] . ( 7732 sec) [ -12857.9901] [Topology ] . ( 7745 sec) [ -12857.9477] [Topology ] . ( 7758 sec) [ -12857.9364] [Topology ] . ( 7771 sec) [ -12857.9330] [Topology ] . ( 7784 sec) [ -12857.9318] [Topology ] . ( 7796 sec) [ -12857.9313] [Topology ] . ( 7799 sec) [ -12857.9313] [Alpha ][ 0.738764] . ( 7799 sec) [ -12857.9313] [Topology ] . ( 7812 sec) [ -12857.9312] [Topology ] . ( 7814 sec) [ -12857.9312] [Alpha ][ 0.738764] . Checking for NNIs, optimizing five branches... . ( 7910 sec) [ -12857.9311] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -13142.762463 . Log likelihood obtained after SPR moves : -12857.931052 . Log likelihood of the current tree: -12857.931052. . Printing the most likely tree in file 'proteic_M2624_139x348_2006.phy_phyml_tree.txt'... . Time used 2h13m25s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 7978.75user 0.00system 2:13:35elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps