.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2587_117x1910_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 : 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... . 1192 patterns found. (out of a total of 1910 sites) . 932 sites without polymorphism (48.80%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 74Mo of memory space. . Maximizing likelihood (using NNI moves)... . ( 8 sec) [ -17118.5858] [GTR parameters ] . ( 9 sec) [ -17061.9139] [Alpha ][ 0.510962] . ( 9 sec) [ -17061.9139] [Topology ] . ( 15 sec) [ -16566.4637] [Topology ] . ( 22 sec) [ -16395.7592] [Topology ] . ( 28 sec) [ -16329.6622] [Topology ] . ( 35 sec) [ -16301.5525] [Topology ] . ( 41 sec) [ -16281.5882] [Topology ] . ( 48 sec) [ -16253.3293] [Topology ] . ( 55 sec) [ -16225.5514] [Topology ] . ( 61 sec) [ -16192.4716] [Topology ] . ( 68 sec) [ -16169.6603] [Topology ] . Checking for NNIs, optimizing five branches... . ( 121 sec) [ -16162.8883] [Topology ] . ( 127 sec) [ -16161.1635] [GTR parameters ] . ( 128 sec) [ -16152.8076] [Alpha ][ 0.421205] . ( 128 sec) [ -16152.8076] [Topology ] . ( 134 sec) [ -16146.8031] [Topology ] . ( 141 sec) [ -16143.9114] [Topology ] . ( 148 sec) [ -16142.3110] [Topology ] . ( 154 sec) [ -16141.4056] [Topology ] . ( 161 sec) [ -16140.8910] [Topology ] . ( 167 sec) [ -16140.5715] [Topology ] . ( 174 sec) [ -16140.3591] [Topology ] . Checking for NNIs, optimizing five branches... . ( 221 sec) [ -16140.3560] [Topology ] . ( 224 sec) [ -16140.3138] [GTR parameters ] . ( 225 sec) [ -16138.7899] [Alpha ][ 0.389395] . ( 225 sec) [ -16138.7899] [Topology ] . ( 232 sec) [ -16138.1767] [Topology ] . ( 238 sec) [ -16137.7959] [Topology ] . ( 245 sec) [ -16137.5477] [Topology ] . ( 251 sec) [ -16137.3834] [Topology ] . ( 258 sec) [ -16137.2736] [Topology ] . ( 265 sec) [ -16137.1999] [Topology ] . Checking for NNIs, optimizing five branches... . ( 315 sec) [ -16137.1919] [GTR parameters ] . ( 316 sec) [ -16136.9231] [Alpha ][ 0.377080] . ( 316 sec) [ -16136.9231] [Topology ] . ( 323 sec) [ -16136.7700] [Topology ] . ( 329 sec) [ -16136.6701] [Topology ] . ( 336 sec) [ -16136.6028] [Topology ] . ( 342 sec) [ -16136.5574] [Topology ] . ( 349 sec) [ -16136.5266] [Topology ] . ( 355 sec) [ -16136.5058] [Topology ] . Checking for NNIs, optimizing five branches... . ( 406 sec) [ -16136.5034] [GTR parameters ] . ( 407 sec) [ -16136.4332] [Alpha ][ 0.370790] . ( 407 sec) [ -16136.4332] [Topology ] . ( 413 sec) [ -16136.3904] [Topology ] . ( 420 sec) [ -16136.3622] [Topology ] . ( 426 sec) [ -16136.3432] [Topology ] . ( 433 sec) [ -16136.3303] [Topology ] . ( 440 sec) [ -16136.3216] [Topology ] . ( 446 sec) [ -16136.3156] [Topology ] . Checking for NNIs, optimizing five branches... . ( 497 sec) [ -16136.3147] [GTR parameters ] . ( 497 sec) [ -16136.2980] [Alpha ][ 0.367753] . ( 497 sec) [ -16136.2980] [Topology ] . ( 504 sec) [ -16136.2865] [Topology ] . ( 510 sec) [ -16136.2790] [Topology ] . ( 517 sec) [ -16136.2739] [Topology ] . ( 524 sec) [ -16136.2704] [Topology ] . ( 530 sec) [ -16136.2681] [Topology ] . ( 537 sec) [ -16136.2665] [Topology ] . Checking for NNIs, optimizing five branches... . ( 586 sec) [ -16136.2663] [GTR parameters ] . ( 587 sec) [ -16136.2619] [Alpha ][ 0.366216] . ( 587 sec) [ -16136.2619] [Topology ] . ( 594 sec) [ -16136.2589] [Topology ] . ( 600 sec) [ -16136.2569] [Topology ] . ( 607 sec) [ -16136.2556] [Topology ] . ( 614 sec) [ -16136.2546] [Topology ] . Checking for NNIs, optimizing five branches... . ( 663 sec) [ -16136.2545] [GTR parameters ] . ( 664 sec) [ -16136.2538] [Alpha ][ 0.365592] . ( 664 sec) [ -16136.2538] [Topology ] . ( 671 sec) [ -16136.2527] [Topology ] . ( 677 sec) [ -16136.2519] [Topology ] . Checking for NNIs, optimizing five branches... . ( 726 sec) [ -16136.2519] [GTR parameters ] . ( 727 sec) [ -16136.2518] [Alpha ][ 0.365227] . ( 727 sec) [ -16136.2518] [Topology ] . ( 733 sec) [ -16136.2510] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 837 sec) [ -17118.5858] [GTR parameters ] . ( 837 sec) [ -17061.9139] [Alpha ][ 0.510962] . ( 840 sec) [ -17061.8486] [ 2501] [depth= 1] . ( 841 sec) [ -17061.5245] [ 2503] [depth= 1] . ( 844 sec) [ -17061.3940] [ 2503] [depth= 1] . ( 844 sec) [ -17055.7601] [ 2503] [depth= 1] . ( 845 sec) [ -17054.4582] [ 2504] [depth= 1] . ( 845 sec) [ -17048.2848] [ 2503] [depth= 1] . ( 846 sec) [ -17048.1573] [ 2503] [depth= 1] . ( 846 sec) [ -17012.1744] [ 2499] [depth= 2] . ( 847 sec) [ -17011.1295] [ 2500] [depth= 1] . ( 848 sec) [ -17008.9932] [ 2499] [depth= 1] . ( 849 sec) [ -17007.7526] [ 2498] [depth= 2] . ( 851 sec) [ -16997.0382] [ 2497] [depth= 1] . ( 853 sec) [ -16988.9504] [ 2496] [depth= 1] . ( 853 sec) [ -16986.8155] [ 2494] [depth= 1] . ( 854 sec) [ -16986.6340] [ 2495] [depth= 1] . ( 855 sec) [ -16984.9873] [ 2498] [depth= 1] . ( 855 sec) [ -16981.1079] [ 2498] [depth= 1] . ( 856 sec) [ -16978.1535] [ 2498] [depth= 3] . ( 856 sec) [ -16977.9780] [ 2499] [depth= 1] . ( 856 sec) [ -16975.2247] [ 2498] [depth= 1] . ( 857 sec) [ -16969.3938] [ 2497] [depth= 1] . ( 858 sec) [ -16968.6801] [ 2499] [depth= 1] . ( 858 sec) [ -16941.9979] [ 2490] [depth= 3] . ( 859 sec) [ -16940.4873] [ 2489] [depth= 1] . ( 859 sec) [ -16939.8321] [ 2488] [depth= 2] . ( 860 sec) [ -16939.6579] [ 2488] [depth= 1] . ( 861 sec) [ -16938.7979] [ 2490] [depth= 3] . ( 862 sec) [ -16938.4292] [ 2491] [depth= 1] . ( 862 sec) [ -16938.3078] [ 2490] [depth= 2] . ( 862 sec) [ -16937.3245] [ 2490] [depth= 1] . ( 863 sec) [ -16937.0116] [ 2490] [depth= 1] . ( 864 sec) [ -16936.7720] [ 2490] [depth= 1] . ( 865 sec) [ -16929.7948] [ 2492] [depth= 1] . ( 865 sec) [ -16924.2174] [ 2491] [depth= 2] . ( 867 sec) [ -16911.7561] [ 2488] [depth= 1] . ( 868 sec) [ -16907.5293] [ 2488] [depth= 1] . ( 869 sec) [ -16905.3548] [ 2488] [depth= 1] . ( 869 sec) [ -16877.3714] [ 2486] [depth= 2] . ( 869 sec) [ -16848.2452] [ 2479] [depth= 2] . ( 872 sec) [ -16847.5262] [ 2480] [depth= 2] . ( 873 sec) [ -16845.7151] [ 2478] [depth= 1] . ( 873 sec) [ -16833.2815] [ 2479] [depth= 5] . ( 873 sec) [ -16815.1570] [ 2477] [depth= 5] . ( 876 sec) [ -16814.0064] [ 2477] [depth= 1] . ( 877 sec) [ -16807.4038] [ 2478] [depth= 6] . ( 878 sec) [ -16804.1323] [ 2478] [depth= 2] . ( 878 sec) [ -16802.1090] [ 2478] [depth= 4] . ( 878 sec) [ -16793.5405] [ 2478] [depth= 1] . ( 879 sec) [ -16768.5916] [ 2483] [depth= 3] . ( 879 sec) [ -16720.6904] [ 2468] [depth= 3] . ( 879 sec) [ -16710.6190] [ 2468] [depth= 4] . ( 880 sec) [ -16664.5551] [ 2460] [depth= 10] . ( 880 sec) [ -16656.6646] [ 2460] [depth= 1] . ( 880 sec) [ -16653.7134] [ 2459] [depth= 1] . ( 881 sec) [ -16634.4284] [ 2458] [depth= 2] . ( 881 sec) [ -16633.8186] [ 2457] [depth= 1] . ( 881 sec) [ -16629.0993] [ 2457] [depth= 1] . ( 882 sec) [ -16612.3678] [ 2454] [depth= 1] . ( 882 sec) [ -16588.9138] [ 2453] [depth= 1] . ( 882 sec) [ -16587.1099] [ 2453] [depth= 1] . ( 883 sec) [ -16585.3977] [ 2451] [depth= 1] . ( 883 sec) [ -16570.3859] [ 2450] [depth= 2] . ( 883 sec) [ -16558.7194] [ 2447] [depth= 2] . ( 884 sec) [ -16551.4450] [ 2447] [depth= 1] . ( 885 sec) [ -16550.6123] [ 2448] [depth= 1] . ( 887 sec) [ -16537.2948] [ 2447] [depth= 1] . ( 887 sec) [ -16537.1023] [ 2447] [depth= 1] . ( 889 sec) [ -16536.6356] [ 2448] [depth= 5] . ( 890 sec) [ -16536.5111] [ 2445] [depth= 6] . ( 891 sec) [ -16533.1132] [ 2445] [depth= 1] . ( 891 sec) [ -16530.7956] [ 2446] [depth= 1] . ( 892 sec) [ -16527.7890] [ 2446] [depth= 1] . ( 892 sec) [ -16518.3524] [ 2444] [depth= 1] . ( 893 sec) [ -16477.2808] [ 2443] [depth= 2] . ( 893 sec) [ -16475.6929] [ 2442] [depth= 2] . ( 893 sec) [ -16444.7209] [ 2438] [depth= 3] . ( 894 sec) [ -16433.8394] [ 2438] [depth= 2] . ( 895 sec) [ -16420.0941] [ 2436] [depth= 1] . ( 895 sec) [ -16414.7122] [ 2435] [depth= 1] . ( 896 sec) [ -16414.4033] [ 2436] [depth= 1] . ( 897 sec) [ -16412.3239] [ 2435] [depth= 1] . ( 897 sec) [ -16411.8317] [ 2440] [depth= 2] . ( 900 sec) [ -16411.6088] [ 2440] [depth= 1] . ( 900 sec) [ -16386.9789] [ 2432] [depth= 11] . ( 901 sec) [ -16375.2206] [ 2430] [depth= 1] . ( 901 sec) [ -16340.5658] [ 2420] [depth= 11] . ( 901 sec) [ -16337.9436] [ 2423] [depth= 1] . ( 902 sec) [ -16336.0694] [ 2420] [depth= 1] . ( 902 sec) [ -16332.6989] [ 2420] [depth= 2] . ( 903 sec) [ -16317.8764] [ 2417] [depth= 1] . ( 903 sec) [ -16315.7141] [ 2420] [depth= 1] . ( 904 sec) [ -16311.1329] [ 2420] [depth= 1] . ( 905 sec) [ -16308.4740] [ 2419] [depth= 5] . ( 905 sec) [ -16302.2313] [ 2415] [depth= 2] . ( 910 sec) [ -16300.8847] [ 2414] [depth= 1] . ( 915 sec) [ -16300.3938] [ 2414] [depth= 5] . ( 915 sec) [ -16299.8693] [ 2415] [depth= 1] . ( 918 sec) [ -16299.8225] [ 2415] [depth= 1] . ( 918 sec) [ -16299.5804] [ 2415] [depth= 1] . ( 918 sec) [ -16299.5675] [ 2415] [depth= 1] . ( 919 sec) [ -16299.1221] [ 2415] [depth= 1] . ( 922 sec) [ -16299.1110] [ 2415] [depth= 1] . ( 922 sec) [ -16298.9413] [ 2415] [depth= 1] . ( 925 sec) [ -16298.7875] [ 2415] [depth= 1] . ( 934 sec) [ -16298.4173] [ 2414] [depth= 2] . ( 935 sec) [ -16297.4455] [ 2415] [depth= 3] . ( 937 sec) [ -16295.6015] [ 2414] [depth= 1] . ( 940 sec) [ -16293.9554] [ 2415] [depth= 1] . ( 940 sec) [ -16293.8110] [ 2413] [depth= 3] . ( 941 sec) [ -16293.3504] [ 2413] [depth= 1] . ( 941 sec) [ -16293.1993] [ 2413] [depth= 1] . ( 942 sec) [ -16292.1502] [ 2413] [depth= 2] . ( 943 sec) [ -16291.6914] [ 2411] [depth= 1] . ( 943 sec) [ -16291.4998] [ 2411] [depth= 3] . ( 943 sec) [ -16286.5956] [ 2410] [depth= 1] . ( 944 sec) [ -16285.2249] [ 2410] [depth= 1] . ( 945 sec) [ -16284.7493] [ 2411] [depth= 1] . ( 945 sec) [ -16284.2564] [ 2411] [depth= 8] . ( 948 sec) [ -16283.9869] [ 2411] [depth= 1] . ( 948 sec) [ -16283.6030] [ 2411] [depth= 3] . ( 948 sec) [ -16283.5534] [ 2411] [depth= 2] . ( 951 sec) [ -16282.9945] [ 2413] [depth= 1] . ( 954 sec) [ -16282.7010] [ 2413] [depth= 1] . ( 955 sec) [ -16282.5971] [ 2412] [depth= 2] . ( 955 sec) [ -16282.0522] [ 2412] [depth= 1] . ( 956 sec) [ -16281.8022] [ 2412] [depth= 1] . ( 957 sec) [ -16281.7418] [ 2412] [depth= 2] . ( 958 sec) [ -16281.4656] [ 2413] [depth= 1] . ( 966 sec) [ -16281.3579] [ 2413] [depth= 1] . ( 968 sec) [ -16120.0277] [Branch lengths ] . ( 974 sec) [ -16117.5178] [GTR parameters ] . ( 974 sec) [ -16117.3171] [Alpha ][ 0.528134] . ( 977 sec) [ -16116.7830] [ 2412] [depth= 1] . ( 983 sec) [ -16116.6175] [ 2411] [depth= 1] . ( 992 sec) [ -16116.5757] [ 2408] [depth= 1] . ( 995 sec) [ -16115.5897] [ 2411] [depth= 1] . ( 996 sec) [ -16115.4180] [ 2411] [depth= 2] . ( 1001 sec) [ -16115.1206] [ 2411] [depth= 1] . ( 1001 sec) [ -16114.8013] [ 2410] [depth= 2] . ( 1001 sec) [ -16114.6590] [ 2410] [depth= 1] . ( 1002 sec) [ -16114.6324] [ 2412] [depth= 2] . ( 1003 sec) [ -16113.4557] [ 2413] [depth= 1] . ( 1012 sec) [ -16113.1497] [ 2413] [depth= 1] . ( 1016 sec) [ -16112.8715] [ 2414] [depth= 1] . ( 1027 sec) [ -16112.7857] [ 2414] [depth= 1] . ( 1029 sec) [ -16112.6531] [ 2414] [depth= 1] . ( 1039 sec) [ -16112.5534] [ 2414] [depth= 1] . ( 1039 sec) [ -16110.8717] [ 2413] [depth= 9] . ( 1042 sec) [ -16100.3139] [ 2414] [depth= 13] . ( 1050 sec) [ -16097.6759] [ 2412] [depth= 1] . ( 1054 sec) [ -16095.1643] [ 2409] [depth= 1] . ( 1073 sec) [ -16093.4681] [ 2408] [depth= 2] . ( 1083 sec) [ -16093.4250] [ 2408] [depth= 1] . ( 1086 sec) [ -16093.3742] [ 2408] [depth= 1] . ( 1101 sec) [ -16093.0488] [ 2408] [depth= 1] . ( 1101 sec) [ -16092.8752] [ 2407] [depth= 1] . ( 1110 sec) [ -16091.5530] [ 2407] [depth= 5] . ( 1111 sec) [ -16091.5119] [ 2407] [depth= 2] . ( 1119 sec) [ -16091.4425] [ 2406] [depth= 1] . ( 1119 sec) [ -16091.0760] [ 2406] [depth= 1] . ( 1127 sec) [ -16091.0628] [ 2406] [depth= 2] . ( 1137 sec) [ -16091.0346] [ 2406] [depth= 3] . ( 1138 sec) [ -16090.8085] [ 2406] [depth= 1] . ( 1141 sec) [ -16090.6981] [ 2406] [depth= 1] . ( 1143 sec) [ -16090.2993] [ 2406] [depth= 2] . ( 1146 sec) [ -16090.2692] [ 2406] [depth= 2] . ( 1153 sec) [ -16090.2045] [ 2406] [depth= 2] . ( 1156 sec) [ -16090.1847] [ 2406] [depth= 1] . ( 1159 sec) [ -16040.0961] [Branch lengths ] . ( 1163 sec) [ -16039.9837] [GTR parameters ] . ( 1164 sec) [ -16036.8921] [Alpha ][ 0.467227] . ( 1167 sec) [ -16036.7681] [ 2407] [depth= 1] . ( 1183 sec) [ -16031.8905] [ 2404] [depth= 1] . ( 1184 sec) [ -16031.4071] [ 2403] [depth= 2] . ( 1184 sec) [ -16031.3782] [ 2403] [depth= 1] . ( 1189 sec) [ -16031.1151] [ 2403] [depth= 2] . ( 1190 sec) [ -16031.0280] [ 2403] [depth= 1] . ( 1191 sec) [ -16031.0166] [ 2403] [depth= 2] . ( 1191 sec) [ -16031.0056] [ 2403] [depth= 1] . ( 1194 sec) [ -16030.2336] [ 2403] [depth= 3] . ( 1194 sec) [ -16029.6962] [ 2400] [depth= 1] . ( 1196 sec) [ -16029.4872] [ 2405] [depth= 2] . ( 1216 sec) [ -16029.4538] [ 2405] [depth= 1] . ( 1221 sec) [ -16029.2589] [ 2407] [depth= 1] . ( 1221 sec) [ -16029.1713] [ 2407] [depth= 1] . ( 1228 sec) [ -16029.0985] [ 2407] [depth= 1] . ( 1240 sec) [ -16028.8793] [ 2407] [depth= 1] . ( 1245 sec) [ -16028.8346] [ 2407] [depth= 1] . ( 1272 sec) [ -16028.8198] [ 2407] [depth= 2] . ( 1276 sec) [ -16028.8032] [ 2407] [depth= 1] . ( 1286 sec) [ -16028.7826] [ 2408] [depth= 1] . ( 1287 sec) [ -16028.5403] [ 2408] [depth= 1] . ( 1287 sec) [ -16027.8104] [ 2408] [depth= 3] . ( 1290 sec) [ -16027.6439] [ 2408] [depth= 2] . ( 1295 sec) [ -16027.6317] [ 2408] [depth= 1] . ( 1305 sec) [ -16027.6212] [ 2408] [depth= 2] . ( 1322 sec) [ -16027.4481] [ 2408] [depth= 1] . ( 1323 sec) [ -16027.2664] [ 2408] [depth= 3] . ( 1329 sec) [ -16027.2541] [ 2408] [depth= 2] . ( 1330 sec) [ -16027.2126] [ 2408] [depth= 1] . ( 1334 sec) [ -16002.9456] [Branch lengths ] . ( 1339 sec) [ -16002.7906] [GTR parameters ] . ( 1339 sec) [ -16000.4331] [Alpha ][ 0.422057] . ( 1342 sec) [ -16000.3959] [ 2407] [depth= 1] . ( 1363 sec) [ -16000.3540] [ 2407] [depth= 1] . ( 1365 sec) [ -16000.3002] [ 2407] [depth= 3] . ( 1366 sec) [ -16000.0417] [ 2408] [depth= 1] . ( 1453 sec) [ -16000.0259] [ 2408] [depth= 2] . ( 1455 sec) [ -16000.0130] [ 2408] [depth= 1] . ( 1467 sec) [ -15999.9830] [ 2408] [depth= 1] . ( 1468 sec) [ -15999.8588] [ 2408] [depth= 1] . ( 1475 sec) [ -15999.8418] [ 2408] [depth= 2] . ( 1475 sec) [ -15999.8207] [ 2408] [depth= 3] . ( 1489 sec) [ -15999.7982] [ 2409] [depth= 2] . ( 1489 sec) [ -15999.7368] [ 2408] [depth= 2] . ( 1500 sec) [ -15999.6409] [ 2408] [depth= 2] . ( 1507 sec) [ -15999.6013] [ 2408] [depth= 2] . ( 1512 sec) [ -15999.5604] [ 2408] [depth= 1] . ( 1519 sec) [ -15989.0826] [Branch lengths ] . ( 1524 sec) [ -15989.0499] [GTR parameters ] . ( 1524 sec) [ -15987.9969] [Alpha ][ 0.395290] . ( 1545 sec) [ -15987.9328] [ 2408] [depth= 2] . ( 1546 sec) [ -15987.8818] [ 2408] [depth= 1] . ( 1551 sec) [ -15987.8153] [ 2408] [depth= 2] . ( 1552 sec) [ -15987.5197] [ 2407] [depth= 2] . ( 1678 sec) [ -15987.4816] [ 2407] [depth= 2] . ( 1696 sec) [ -15987.4657] [ 2408] [depth= 6] . ( 1737 sec) [ -15981.5061] [Branch lengths ] . ( 1742 sec) [ -15981.4902] [GTR parameters ] . ( 1742 sec) [ -15980.8927] [Alpha ][ 0.376640] . ( 1763 sec) [ -15980.8238] [ 2408] [depth= 1] . ( 1769 sec) [ -15980.7971] [ 2408] [depth= 3] . ( 1825 sec) [ -15980.7581] [ 2409] [depth= 1] . ( 1883 sec) [ -15980.7039] [ 2409] [depth= 3] . ( 1891 sec) [ -15980.6883] [ 2409] [depth= 2] . ( 1932 sec) [ -15980.6701] [ 2409] [depth= 2] . ( 1953 sec) [ -15977.3202] [Branch lengths ] . ( 1955 sec) [ -15977.3140] [GTR parameters ] . ( 1956 sec) [ -15977.0609] [Alpha ][ 0.365243] . ( 1981 sec) [ -15977.0475] [ 2409] [depth= 3] . ( 2165 sec) [ -15975.2870] [Branch lengths ] . ( 2168 sec) [ -15975.2842] [GTR parameters ] . ( 2169 sec) [ -15975.1797] [Alpha ][ 0.358283] . ( 2390 sec) [ -15972.6765] [Branch lengths ] . ( 2407 sec) [ -15972.5604] [ 2408] [depth= 1] . ( 2478 sec) [ -15972.3747] [ 2407] [depth= 1] . ( 2670 sec) [ -15972.0369] [ 2407] [depth= 4] . ( 2681 sec) [ -15972.0154] [ 2407] [depth= 1] . ( 2722 sec) [ -15970.2284] [Branch lengths ] . ( 2726 sec) [ -15970.2234] [GTR parameters ] . ( 2727 sec) [ -15970.0689] [Alpha ][ 0.350001] . ( 2980 sec) [ -15970.0552] [ 2407] [depth= 1] . ( 3025 sec) [ -15969.8029] [Branch lengths ] . ( 3029 sec) [ -15969.8020] [GTR parameters ] . ( 3029 sec) [ -15969.7841] [Alpha ][ 0.347103] . ( 3030 sec) [ -15969.7841] [Topology ] . ( 3036 sec) [ -15969.7074] [Topology ] . ( 3043 sec) [ -15969.6648] [Topology ] . ( 3049 sec) [ -15969.6366] [Topology ] . ( 3055 sec) [ -15969.6176] [Topology ] . ( 3062 sec) [ -15969.6046] [Topology ] . ( 3068 sec) [ -15969.5957] [Topology ] . ( 3070 sec) [ -15969.5950] [GTR parameters ] . ( 3071 sec) [ -15969.5740] [Alpha ][ 0.344014] . ( 3071 sec) [ -15969.5740] [Topology ] . ( 3078 sec) [ -15969.5590] [Topology ] . ( 3084 sec) [ -15969.5490] [Topology ] . ( 3091 sec) [ -15969.5422] [Topology ] . ( 3097 sec) [ -15969.5374] [Topology ] . ( 3104 sec) [ -15969.5341] [Topology ] . ( 3110 sec) [ -15969.5318] [Topology ] . ( 3113 sec) [ -15969.5314] [GTR parameters ] . ( 3113 sec) [ -15969.5264] [Alpha ][ 0.342506] . ( 3113 sec) [ -15969.5264] [Topology ] . ( 3120 sec) [ -15969.5226] [Topology ] . ( 3126 sec) [ -15969.5200] [Topology ] . ( 3133 sec) [ -15969.5182] [Topology ] . ( 3139 sec) [ -15969.5169] [Topology ] . ( 3146 sec) [ -15969.5160] [Topology ] . ( 3147 sec) [ -15969.5159] [GTR parameters ] . ( 3148 sec) [ -15969.5150] [Alpha ][ 0.341829] . ( 3148 sec) [ -15969.5150] [Topology ] . ( 3154 sec) [ -15969.5138] [Topology ] . ( 3161 sec) [ -15969.5129] [Topology ] . ( 3162 sec) [ -15969.5129] [GTR parameters ] . ( 3162 sec) [ -15969.5129] [Alpha ][ 0.341487] . ( 3163 sec) [ -15969.5129] [Topology ] . ( 3169 sec) [ -15969.5121] [Topology ] . ( 3170 sec) [ -15969.5121] [GTR parameters ] . ( 3171 sec) [ -15969.5121] [Alpha ][ 0.341487] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -16136.251048 . Log likelihood obtained after SPR moves : -15969.512094 . Log likelihood of the current tree: -15969.512094. . Printing the most likely tree in file 'nucleic_M2587_117x1910_2006.phy_phyml_tree.txt'... . Time used 0h53m39s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 3208.28user 0.00system 53:42.40elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps