.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data3.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 : yes . Number of random starting trees : 5 . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 435 patterns found. (out of a total of 500 sites) . 61 sites without polymorphism (12.20%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 9Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -21821.7356] [GTR parameters ] . ( 1 sec) [ -21306.6134] [Alpha ][ 0.500960] . ( 1 sec) [ -20794.2150] [ 5330] [depth= 8] . ( 1 sec) [ -20448.6275] [ 5269] [depth= 6] . ( 1 sec) [ -20299.2394] [ 5226] [depth= 1] . ( 1 sec) [ -20192.9794] [ 5197] [depth= 7] . ( 1 sec) [ -19814.1704] [ 5054] [depth= 5] . ( 1 sec) [ -19733.7672] [ 5042] [depth= 5] . ( 1 sec) [ -19399.4063] [ 5004] [depth= 10] . ( 1 sec) [ -19348.1553] [ 4990] [depth= 1] . ( 1 sec) [ -19308.2395] [ 4996] [depth= 1] . ( 1 sec) [ -19017.9935] [ 4894] [depth= 12] . ( 1 sec) [ -18840.1167] [ 4828] [depth= 1] . ( 1 sec) [ -18779.4100] [ 4843] [depth= 4] . ( 1 sec) [ -18763.3041] [ 4842] [depth= 4] . ( 1 sec) [ -18560.9296] [ 4835] [depth= 1] . ( 1 sec) [ -18441.3230] [ 4833] [depth= 5] . ( 1 sec) [ -18369.3385] [ 4808] [depth= 5] . ( 1 sec) [ -18164.3715] [ 4716] [depth= 1] . ( 1 sec) [ -18069.6013] [ 4686] [depth= 6] . ( 1 sec) [ -17877.6407] [ 4631] [depth= 3] . ( 1 sec) [ -17740.5503] [ 4580] [depth= 1] . ( 2 sec) [ -17653.0077] [ 4503] [depth= 6] . ( 2 sec) [ -17625.2673] [ 4518] [depth= 1] . ( 2 sec) [ -17603.6980] [ 4503] [depth= 11] . ( 2 sec) [ -17594.7204] [ 4492] [depth= 1] . ( 2 sec) [ -17076.6169] [ 4343] [depth= 11] . ( 2 sec) [ -16832.8329] [ 4206] [depth= 3] . ( 2 sec) [ -16698.4133] [ 4207] [depth= 1] . ( 2 sec) [ -16679.3282] [ 4207] [depth= 9] . ( 2 sec) [ -16236.0225] [ 4031] [depth= 6] . ( 2 sec) [ -15769.4208] [ 3895] [depth= 8] . ( 2 sec) [ -15607.1570] [ 3883] [depth= 1] . ( 2 sec) [ -15370.2965] [ 3830] [depth= 1] . ( 2 sec) [ -15241.6226] [ 3788] [depth= 1] . ( 2 sec) [ -14844.3901] [ 3755] [depth= 11] . ( 2 sec) [ -14746.5646] [ 3713] [depth= 5] . ( 2 sec) [ -14715.7275] [ 3706] [depth= 1] . ( 2 sec) [ -14517.7456] [ 3691] [depth= 7] . ( 2 sec) [ -14348.8765] [ 3678] [depth= 5] . ( 2 sec) [ -14286.1420] [ 3678] [depth= 1] . ( 2 sec) [ -14213.0161] [ 3631] [depth= 2] . ( 2 sec) [ -13947.0580] [ 3548] [depth= 3] . ( 3 sec) [ -13824.3019] [ 3516] [depth= 15] . ( 3 sec) [ -13785.5502] [ 3438] [depth= 1] . ( 3 sec) [ -13783.0615] [ 3409] [depth= 12] . ( 3 sec) [ -13471.0275] [ 3309] [depth= 11] . ( 3 sec) [ -13353.1169] [ 3289] [depth= 6] . ( 3 sec) [ -13330.4279] [ 3272] [depth= 2] . ( 3 sec) [ -13200.1323] [ 3246] [depth= 3] . ( 3 sec) [ -12924.4149] [ 3222] [depth= 2] . ( 3 sec) [ -12863.7527] [ 3123] [depth= 1] . ( 3 sec) [ -12863.6525] [ 3129] [depth= 1] . ( 3 sec) [ -12774.2902] [ 3151] [depth= 2] . ( 3 sec) [ -12680.9607] [ 3114] [depth= 2] . ( 3 sec) [ -12661.6864] [ 3067] [depth= 3] . ( 3 sec) [ -12623.9684] [ 3054] [depth= 5] . ( 3 sec) [ -12557.9706] [ 3029] [depth= 2] . ( 3 sec) [ -12543.2144] [ 3033] [depth= 1] . ( 3 sec) [ -12512.6024] [ 3031] [depth= 1] . ( 3 sec) [ -12483.3380] [ 3017] [depth= 1] . ( 4 sec) [ -12467.3015] [ 2983] [depth= 4] . ( 4 sec) [ -12459.1743] [ 2978] [depth= 1] . ( 4 sec) [ -12457.1000] [ 2987] [depth= 3] . ( 4 sec) [ -12317.1545] [ 2903] [depth= 1] . ( 4 sec) [ -12281.8864] [ 2899] [depth= 2] . ( 4 sec) [ -12265.4420] [ 2898] [depth= 4] . ( 4 sec) [ -12202.9250] [ 2852] [depth= 4] . ( 4 sec) [ -12193.5621] [ 2844] [depth= 2] . ( 4 sec) [ -11922.0123] [ 2779] [depth= 3] . ( 4 sec) [ -11771.8623] [ 2769] [depth= 5] . ( 4 sec) [ -11743.5439] [ 2766] [depth= 3] . ( 4 sec) [ -11743.3267] [ 2768] [depth= 1] . ( 4 sec) [ -11706.0688] [ 2678] [depth= 3] . ( 4 sec) [ -11372.4223] [ 2595] [depth= 9] . ( 4 sec) [ -11324.8330] [ 2590] [depth= 1] . ( 4 sec) [ -11318.9998] [ 2591] [depth= 1] . ( 5 sec) [ -11313.4815] [ 2592] [depth= 1] . ( 5 sec) [ -11277.5507] [ 2582] [depth= 1] . ( 5 sec) [ -11013.7954] [Branch lengths ] . ( 5 sec) [ -11007.7564] [GTR parameters ] . ( 6 sec) [ -10977.8890] [Alpha ][ 0.829921] . ( 6 sec) [ -10977.4758] [ 2578] [depth= 1] . ( 6 sec) [ -10879.1278] [ 2524] [depth= 4] . ( 6 sec) [ -10858.3618] [ 2508] [depth= 1] . ( 6 sec) [ -10856.0176] [ 2506] [depth= 1] . ( 6 sec) [ -10855.8152] [ 2509] [depth= 1] . ( 6 sec) [ -10828.9520] [ 2486] [depth= 2] . ( 6 sec) [ -10828.6724] [ 2486] [depth= 1] . ( 7 sec) [ -10814.4677] [ 2452] [depth= 2] . ( 7 sec) [ -10808.9114] [ 2448] [depth= 1] . ( 7 sec) [ -10762.3220] [ 2446] [depth= 1] . ( 7 sec) [ -10758.2228] [ 2441] [depth= 1] . ( 7 sec) [ -10757.4496] [ 2441] [depth= 1] . ( 7 sec) [ -10729.3306] [ 2421] [depth= 1] . ( 8 sec) [ -10726.8551] [ 2418] [depth= 1] . ( 8 sec) [ -10726.5005] [ 2422] [depth= 1] . ( 8 sec) [ -10711.2106] [Branch lengths ] . ( 9 sec) [ -10711.0548] [GTR parameters ] . ( 9 sec) [ -10709.8858] [Alpha ][ 0.918911] . ( 10 sec) [ -10709.6926] [ 2419] [depth= 1] . ( 12 sec) [ -10708.9224] [Branch lengths ] . ( 12 sec) [ -10708.9195] [GTR parameters ] . ( 12 sec) [ -10708.9169] [Alpha ][ 0.923396] . ( 32 sec) [ -10708.7907] [Branch lengths ] . ( 32 sec) [ -10708.7907] [Topology ] . ( 33 sec) [ -10708.3462] [Topology ] . ( 34 sec) [ -10707.9396] [Topology ] . ( 35 sec) [ -10707.7435] [Topology ] . ( 36 sec) [ -10707.6525] [Topology ] . ( 37 sec) [ -10707.6101] [Topology ] . ( 37 sec) [ -10707.5905] [Topology ] . ( 38 sec) [ -10707.5875] [GTR parameters ] . ( 38 sec) [ -10707.5875] [Alpha ][ 0.923396] . ( 38 sec) [ -10707.5875] [Topology ] . ( 39 sec) [ -10707.5783] [Topology ] . ( 39 sec) [ -10707.5741] [Topology ] . ( 40 sec) [ -10707.5722] [Topology ] . ( 41 sec) [ -10707.5714] [Topology ] . ( 41 sec) [ -10707.5713] [GTR parameters ] . ( 41 sec) [ -10707.5713] [Alpha ][ 0.923396] . ( 41 sec) [ -10707.5713] [Topology ] . ( 42 sec) [ -10707.5709] [Topology ] . ( 42 sec) [ -10707.5709] [GTR parameters ] . ( 42 sec) [ -10707.5709] [Alpha ][ 0.923396] . Checking for NNIs, optimizing five branches... . ( 49 sec) [ -10707.5708] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10707.570751. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -21911.3812] [GTR parameters ] . ( 1 sec) [ -21452.9255] [Alpha ][ 0.500960] . ( 1 sec) [ -20861.0276] [ 5302] [depth= 3] . ( 1 sec) [ -20350.7231] [ 5199] [depth= 3] . ( 1 sec) [ -20182.8480] [ 5132] [depth= 4] . ( 1 sec) [ -20010.7329] [ 5097] [depth= 6] . ( 1 sec) [ -19884.5803] [ 5051] [depth= 1] . ( 1 sec) [ -19793.2703] [ 5033] [depth= 6] . ( 1 sec) [ -19718.5173] [ 5025] [depth= 3] . ( 1 sec) [ -19637.1080] [ 4964] [depth= 5] . ( 1 sec) [ -19623.7582] [ 4955] [depth= 4] . ( 1 sec) [ -19410.9718] [ 4838] [depth= 3] . ( 1 sec) [ -19227.0917] [ 4819] [depth= 1] . ( 1 sec) [ -18982.5195] [ 4745] [depth= 9] . ( 1 sec) [ -18779.7668] [ 4751] [depth= 3] . ( 2 sec) [ -18383.4222] [ 4605] [depth= 4] . ( 2 sec) [ -18286.4447] [ 4625] [depth= 15] . ( 2 sec) [ -17861.8368] [ 4479] [depth= 9] . ( 2 sec) [ -17600.7040] [ 4465] [depth= 4] . ( 2 sec) [ -17587.4594] [ 4459] [depth= 1] . ( 2 sec) [ -17417.6690] [ 4457] [depth= 1] . ( 2 sec) [ -16874.9144] [ 4405] [depth= 18] . ( 2 sec) [ -16818.1186] [ 4332] [depth= 1] . ( 2 sec) [ -16680.3419] [ 4240] [depth= 6] . ( 2 sec) [ -16567.3583] [ 4229] [depth= 8] . ( 2 sec) [ -16497.9833] [ 4228] [depth= 4] . ( 2 sec) [ -16220.4147] [ 4103] [depth= 12] . ( 2 sec) [ -16203.8580] [ 4103] [depth= 3] . ( 2 sec) [ -15433.9436] [ 3901] [depth= 7] . ( 2 sec) [ -15401.5134] [ 3882] [depth= 1] . ( 2 sec) [ -15289.0096] [ 3821] [depth= 10] . ( 2 sec) [ -15279.0800] [ 3821] [depth= 17] . ( 2 sec) [ -15147.0554] [ 3753] [depth= 10] . ( 2 sec) [ -15072.1747] [ 3754] [depth= 1] . ( 2 sec) [ -15047.7726] [ 3749] [depth= 2] . ( 3 sec) [ -15014.2187] [ 3796] [depth= 10] . ( 3 sec) [ -14879.7788] [ 3771] [depth= 2] . ( 3 sec) [ -14878.6415] [ 3785] [depth= 1] . ( 3 sec) [ -14756.2912] [ 3748] [depth= 12] . ( 3 sec) [ -14601.9809] [ 3713] [depth= 11] . ( 3 sec) [ -13952.3583] [ 3516] [depth= 11] . ( 3 sec) [ -13706.5339] [ 3462] [depth= 16] . ( 3 sec) [ -13701.5973] [ 3486] [depth= 1] . ( 3 sec) [ -13550.0387] [ 3412] [depth= 2] . ( 3 sec) [ -13499.2902] [ 3399] [depth= 3] . ( 3 sec) [ -13303.9722] [ 3368] [depth= 5] . ( 3 sec) [ -13269.7845] [ 3350] [depth= 7] . ( 3 sec) [ -13229.2681] [ 3358] [depth= 9] . ( 3 sec) [ -13074.9510] [ 3321] [depth= 7] . ( 3 sec) [ -13021.5454] [ 3285] [depth= 1] . ( 3 sec) [ -12824.9416] [ 3227] [depth= 5] . ( 3 sec) [ -12733.4679] [ 3184] [depth= 6] . ( 3 sec) [ -12666.4092] [ 3181] [depth= 1] . ( 3 sec) [ -12477.6387] [ 3063] [depth= 8] . ( 3 sec) [ -12401.0261] [ 3040] [depth= 3] . ( 3 sec) [ -12385.7460] [ 3046] [depth= 1] . ( 3 sec) [ -12309.6677] [ 3012] [depth= 2] . ( 4 sec) [ -12278.9830] [ 2984] [depth= 1] . ( 4 sec) [ -12198.4033] [ 2980] [depth= 3] . ( 4 sec) [ -11801.8147] [ 2818] [depth= 3] . ( 4 sec) [ -11726.4701] [ 2793] [depth= 4] . ( 4 sec) [ -11708.8219] [ 2794] [depth= 1] . ( 4 sec) [ -11705.3468] [ 2793] [depth= 1] . ( 4 sec) [ -11644.1105] [ 2776] [depth= 1] . ( 4 sec) [ -11592.4431] [ 2766] [depth= 1] . ( 4 sec) [ -11585.1902] [ 2773] [depth= 1] . ( 4 sec) [ -11577.8832] [ 2778] [depth= 1] . ( 4 sec) [ -11570.6551] [ 2785] [depth= 2] . ( 4 sec) [ -11499.1647] [ 2749] [depth= 2] . ( 4 sec) [ -11417.5049] [ 2659] [depth= 5] . ( 4 sec) [ -11399.0517] [ 2667] [depth= 1] . ( 4 sec) [ -11393.2569] [ 2669] [depth= 1] . ( 4 sec) [ -11263.2213] [ 2623] [depth= 2] . ( 4 sec) [ -11153.0134] [ 2535] [depth= 10] . ( 4 sec) [ -11147.8299] [ 2541] [depth= 1] . ( 5 sec) [ -11146.7550] [ 2545] [depth= 1] . ( 5 sec) [ -11145.2854] [ 2547] [depth= 1] . ( 5 sec) [ -11117.0250] [ 2544] [depth= 2] . ( 5 sec) [ -10889.7409] [Branch lengths ] . ( 6 sec) [ -10885.3760] [GTR parameters ] . ( 6 sec) [ -10854.4188] [Alpha ][ 0.840932] . ( 6 sec) [ -10814.0241] [ 2494] [depth= 6] . ( 6 sec) [ -10800.0150] [ 2471] [depth= 4] . ( 6 sec) [ -10797.8828] [ 2474] [depth= 1] . ( 6 sec) [ -10795.3213] [ 2473] [depth= 1] . ( 6 sec) [ -10794.5238] [ 2478] [depth= 2] . ( 6 sec) [ -10789.3872] [ 2473] [depth= 1] . ( 6 sec) [ -10782.1041] [ 2474] [depth= 1] . ( 7 sec) [ -10778.3989] [ 2469] [depth= 1] . ( 7 sec) [ -10776.5899] [ 2468] [depth= 1] . ( 7 sec) [ -10772.4298] [ 2459] [depth= 1] . ( 8 sec) [ -10767.4295] [ 2435] [depth= 2] . ( 8 sec) [ -10761.4040] [ 2434] [depth= 1] . ( 8 sec) [ -10761.1969] [ 2426] [depth= 2] . ( 8 sec) [ -10758.8291] [ 2428] [depth= 1] . ( 8 sec) [ -10754.5519] [ 2429] [depth= 1] . ( 8 sec) [ -10754.4239] [ 2428] [depth= 1] . ( 9 sec) [ -10714.9263] [Branch lengths ] . ( 9 sec) [ -10714.8402] [GTR parameters ] . ( 9 sec) [ -10713.9517] [Alpha ][ 0.919222] . ( 9 sec) [ -10713.0916] [ 2426] [depth= 1] . ( 11 sec) [ -10713.0770] [ 2423] [depth= 1] . ( 11 sec) [ -10712.0744] [ 2414] [depth= 1] . ( 12 sec) [ -10707.7987] [Branch lengths ] . ( 12 sec) [ -10707.7840] [GTR parameters ] . ( 12 sec) [ -10707.7814] [Alpha ][ 0.923728] . ( 15 sec) [ -10707.5793] [Branch lengths ] . ( 35 sec) [ -10707.5717] [Branch lengths ] . ( 35 sec) [ -10707.5717] [Topology ] . ( 36 sec) [ -10707.5711] [Topology ] . ( 36 sec) [ -10707.5709] [GTR parameters ] . ( 36 sec) [ -10707.5709] [Alpha ][ 0.923728] . Checking for NNIs, optimizing five branches... . ( 42 sec) [ -10707.5705] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10707.570469. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -21971.2971] [GTR parameters ] . ( 0 sec) [ -21448.2344] [Alpha ][ 0.500960] . ( 1 sec) [ -20981.7500] [ 5512] [depth= 8] . ( 1 sec) [ -20624.1942] [ 5423] [depth= 8] . ( 1 sec) [ -20597.3969] [ 5400] [depth= 3] . ( 1 sec) [ -20521.6257] [ 5398] [depth= 4] . ( 1 sec) [ -20086.6414] [ 5344] [depth= 8] . ( 1 sec) [ -19739.7422] [ 5204] [depth= 14] . ( 1 sec) [ -19613.2636] [ 5148] [depth= 11] . ( 1 sec) [ -19355.6112] [ 5102] [depth= 1] . ( 1 sec) [ -19284.2737] [ 5029] [depth= 14] . ( 1 sec) [ -19025.9606] [ 4958] [depth= 8] . ( 1 sec) [ -18615.5934] [ 4878] [depth= 11] . ( 1 sec) [ -18492.9092] [ 4845] [depth= 1] . ( 1 sec) [ -18074.5914] [ 4828] [depth= 1] . ( 1 sec) [ -17940.3820] [ 4740] [depth= 1] . ( 1 sec) [ -17934.7413] [ 4712] [depth= 12] . ( 1 sec) [ -17892.0014] [ 4693] [depth= 2] . ( 1 sec) [ -17790.2915] [ 4686] [depth= 1] . ( 1 sec) [ -17684.4966] [ 4676] [depth= 1] . ( 1 sec) [ -17509.0077] [ 4645] [depth= 4] . ( 1 sec) [ -17449.6323] [ 4577] [depth= 1] . ( 1 sec) [ -17026.8912] [ 4415] [depth= 7] . ( 1 sec) [ -16922.5995] [ 4285] [depth= 7] . ( 1 sec) [ -16747.7574] [ 4279] [depth= 1] . ( 2 sec) [ -16453.6616] [ 4204] [depth= 15] . ( 2 sec) [ -15989.3995] [ 4064] [depth= 15] . ( 2 sec) [ -15920.3652] [ 4062] [depth= 1] . ( 2 sec) [ -15694.8297] [ 4007] [depth= 13] . ( 2 sec) [ -15664.3643] [ 3999] [depth= 1] . ( 2 sec) [ -15643.3379] [ 4007] [depth= 1] . ( 2 sec) [ -15357.8490] [ 4008] [depth= 9] . ( 2 sec) [ -15171.6648] [ 3948] [depth= 13] . ( 2 sec) [ -15169.7177] [ 3952] [depth= 1] . ( 2 sec) [ -14885.1570] [ 3910] [depth= 7] . ( 2 sec) [ -14825.8982] [ 3903] [depth= 2] . ( 2 sec) [ -14264.0678] [ 3760] [depth= 3] . ( 2 sec) [ -14173.9295] [ 3747] [depth= 1] . ( 2 sec) [ -14159.4123] [ 3736] [depth= 1] . ( 2 sec) [ -14156.5214] [ 3747] [depth= 1] . ( 2 sec) [ -14120.9067] [ 3755] [depth= 1] . ( 2 sec) [ -14009.2069] [ 3652] [depth= 5] . ( 2 sec) [ -13990.4830] [ 3642] [depth= 1] . ( 2 sec) [ -13628.3548] [ 3477] [depth= 10] . ( 2 sec) [ -13625.1048] [ 3479] [depth= 2] . ( 2 sec) [ -13610.6342] [ 3445] [depth= 2] . ( 2 sec) [ -13348.7937] [ 3385] [depth= 6] . ( 3 sec) [ -13210.5559] [ 3329] [depth= 6] . ( 3 sec) [ -13161.7586] [ 3316] [depth= 7] . ( 3 sec) [ -13036.3939] [ 3336] [depth= 1] . ( 3 sec) [ -13012.2516] [ 3335] [depth= 1] . ( 3 sec) [ -12989.3856] [ 3334] [depth= 1] . ( 3 sec) [ -12847.6679] [ 3271] [depth= 4] . ( 3 sec) [ -12782.2924] [ 3268] [depth= 2] . ( 3 sec) [ -12689.1115] [ 3221] [depth= 2] . ( 3 sec) [ -12672.5511] [ 3211] [depth= 5] . ( 3 sec) [ -12575.4118] [ 3157] [depth= 4] . ( 3 sec) [ -12433.1613] [ 3134] [depth= 3] . ( 3 sec) [ -12349.8375] [ 3063] [depth= 4] . ( 3 sec) [ -12254.1573] [ 3014] [depth= 5] . ( 3 sec) [ -11876.0324] [ 2916] [depth= 8] . ( 3 sec) [ -11865.9325] [ 2914] [depth= 1] . ( 3 sec) [ -11863.7563] [ 2917] [depth= 1] . ( 3 sec) [ -11853.1545] [ 2908] [depth= 1] . ( 3 sec) [ -11835.0462] [ 2913] [depth= 1] . ( 3 sec) [ -11763.8956] [ 2884] [depth= 2] . ( 3 sec) [ -11692.9582] [ 2821] [depth= 5] . ( 4 sec) [ -11617.0317] [ 2822] [depth= 2] . ( 4 sec) [ -11596.7744] [ 2815] [depth= 1] . ( 4 sec) [ -11585.0315] [ 2809] [depth= 1] . ( 4 sec) [ -11538.7319] [ 2780] [depth= 2] . ( 4 sec) [ -11472.9608] [ 2785] [depth= 2] . ( 4 sec) [ -11435.4829] [ 2770] [depth= 2] . ( 4 sec) [ -11379.1137] [ 2733] [depth= 7] . ( 4 sec) [ -11372.0796] [ 2703] [depth= 1] . ( 4 sec) [ -11364.9679] [ 2692] [depth= 2] . ( 4 sec) [ -11363.6645] [ 2695] [depth= 1] . ( 4 sec) [ -11357.9510] [ 2679] [depth= 1] . ( 5 sec) [ -11357.7100] [ 2671] [depth= 1] . ( 5 sec) [ -11345.1086] [ 2672] [depth= 1] . ( 5 sec) [ -11339.3622] [ 2658] [depth= 1] . ( 5 sec) [ -11204.6050] [Branch lengths ] . ( 6 sec) [ -11200.1831] [GTR parameters ] . ( 6 sec) [ -11172.8552] [Alpha ][ 0.786752] . ( 6 sec) [ -11160.8189] [ 2654] [depth= 3] . ( 6 sec) [ -11150.8491] [ 2639] [depth= 2] . ( 6 sec) [ -11145.1946] [ 2644] [depth= 1] . ( 6 sec) [ -11121.9022] [ 2600] [depth= 2] . ( 6 sec) [ -10952.5670] [ 2502] [depth= 5] . ( 6 sec) [ -10845.0535] [ 2501] [depth= 1] . ( 6 sec) [ -10800.0939] [ 2450] [depth= 4] . ( 6 sec) [ -10777.6305] [ 2430] [depth= 2] . ( 6 sec) [ -10777.4269] [ 2433] [depth= 1] . ( 7 sec) [ -10755.5141] [ 2430] [depth= 1] . ( 7 sec) [ -10750.7439] [ 2424] [depth= 1] . ( 7 sec) [ -10748.8609] [ 2426] [depth= 1] . ( 8 sec) [ -10748.7510] [ 2423] [depth= 1] . ( 8 sec) [ -10739.8633] [ 2427] [depth= 1] . ( 8 sec) [ -10739.6616] [ 2429] [depth= 1] . ( 8 sec) [ -10739.6346] [ 2428] [depth= 1] . ( 9 sec) [ -10713.5326] [Branch lengths ] . ( 9 sec) [ -10713.2079] [GTR parameters ] . ( 9 sec) [ -10710.4093] [Alpha ][ 0.919825] . ( 10 sec) [ -10709.5237] [ 2422] [depth= 1] . ( 11 sec) [ -10709.3590] [ 2419] [depth= 1] . ( 12 sec) [ -10707.7299] [Branch lengths ] . ( 12 sec) [ -10707.7173] [GTR parameters ] . ( 12 sec) [ -10707.7144] [Alpha ][ 0.924597] . ( 15 sec) [ -10707.5824] [Branch lengths ] . ( 35 sec) [ -10707.5725] [Branch lengths ] . ( 35 sec) [ -10707.5725] [Topology ] . ( 36 sec) [ -10707.5715] [Topology ] . ( 36 sec) [ -10707.5713] [GTR parameters ] . ( 36 sec) [ -10707.5712] [Alpha ][ 0.923672] . ( 36 sec) [ -10707.5712] [Topology ] . ( 37 sec) [ -10707.5708] [Topology ] . ( 37 sec) [ -10707.5708] [GTR parameters ] . ( 37 sec) [ -10707.5708] [Alpha ][ 0.923672] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10707.570838. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -21872.0305] [GTR parameters ] . ( 1 sec) [ -21361.9991] [Alpha ][ 0.500960] . ( 1 sec) [ -20726.8196] [ 5317] [depth= 8] . ( 1 sec) [ -20281.2450] [ 5201] [depth= 9] . ( 1 sec) [ -20021.8347] [ 5149] [depth= 2] . ( 1 sec) [ -19976.5241] [ 5093] [depth= 1] . ( 1 sec) [ -19835.9456] [ 5019] [depth= 4] . ( 1 sec) [ -19777.6078] [ 4989] [depth= 2] . ( 1 sec) [ -19773.8213] [ 4976] [depth= 1] . ( 1 sec) [ -19604.1284] [ 4923] [depth= 1] . ( 1 sec) [ -19346.7064] [ 4842] [depth= 6] . ( 1 sec) [ -19192.8062] [ 4786] [depth= 2] . ( 1 sec) [ -18985.7262] [ 4765] [depth= 6] . ( 1 sec) [ -18711.8635] [ 4711] [depth= 2] . ( 1 sec) [ -18651.5527] [ 4702] [depth= 1] . ( 1 sec) [ -18612.1461] [ 4700] [depth= 2] . ( 1 sec) [ -18538.8158] [ 4638] [depth= 11] . ( 1 sec) [ -18503.1647] [ 4637] [depth= 1] . ( 2 sec) [ -18412.0172] [ 4624] [depth= 14] . ( 2 sec) [ -18371.4210] [ 4630] [depth= 2] . ( 2 sec) [ -18242.8845] [ 4613] [depth= 9] . ( 2 sec) [ -18097.8626] [ 4553] [depth= 5] . ( 2 sec) [ -17980.2270] [ 4543] [depth= 2] . ( 2 sec) [ -17930.0232] [ 4540] [depth= 5] . ( 2 sec) [ -17848.8301] [ 4438] [depth= 14] . ( 2 sec) [ -17828.5183] [ 4425] [depth= 3] . ( 2 sec) [ -17515.5125] [ 4422] [depth= 1] . ( 2 sec) [ -17420.7535] [ 4385] [depth= 5] . ( 2 sec) [ -17296.3922] [ 4346] [depth= 13] . ( 2 sec) [ -17165.5945] [ 4269] [depth= 3] . ( 2 sec) [ -16832.4966] [ 4191] [depth= 9] . ( 2 sec) [ -16770.2787] [ 4165] [depth= 2] . ( 2 sec) [ -16626.1610] [ 4143] [depth= 2] . ( 2 sec) [ -16320.4829] [ 4119] [depth= 13] . ( 2 sec) [ -16176.2469] [ 4070] [depth= 7] . ( 2 sec) [ -16087.0008] [ 4055] [depth= 1] . ( 2 sec) [ -15875.8326] [ 4008] [depth= 6] . ( 2 sec) [ -15726.9913] [ 3899] [depth= 8] . ( 2 sec) [ -15380.3480] [ 3825] [depth= 8] . ( 2 sec) [ -15057.8119] [ 3731] [depth= 5] . ( 3 sec) [ -14966.9953] [ 3730] [depth= 7] . ( 3 sec) [ -14818.9400] [ 3681] [depth= 13] . ( 3 sec) [ -14523.7223] [ 3586] [depth= 2] . ( 3 sec) [ -14303.6489] [ 3558] [depth= 1] . ( 3 sec) [ -14302.4281] [ 3545] [depth= 1] . ( 3 sec) [ -14265.4547] [ 3470] [depth= 12] . ( 3 sec) [ -14252.5503] [ 3463] [depth= 1] . ( 3 sec) [ -13967.0631] [ 3370] [depth= 3] . ( 3 sec) [ -13808.6751] [ 3355] [depth= 1] . ( 3 sec) [ -13737.0499] [ 3346] [depth= 3] . ( 3 sec) [ -13604.5618] [ 3348] [depth= 1] . ( 3 sec) [ -13602.6799] [ 3346] [depth= 1] . ( 3 sec) [ -13591.3163] [ 3320] [depth= 1] . ( 3 sec) [ -13383.6706] [ 3293] [depth= 2] . ( 3 sec) [ -13377.4205] [ 3288] [depth= 1] . ( 3 sec) [ -13356.6559] [ 3244] [depth= 1] . ( 3 sec) [ -13026.9611] [ 3166] [depth= 2] . ( 3 sec) [ -13024.8889] [ 3168] [depth= 1] . ( 3 sec) [ -12972.5129] [ 3172] [depth= 1] . ( 3 sec) [ -12827.1316] [ 3148] [depth= 6] . ( 3 sec) [ -12428.2439] [ 2971] [depth= 4] . ( 3 sec) [ -12367.0258] [ 2928] [depth= 2] . ( 4 sec) [ -12358.6167] [ 2938] [depth= 9] . ( 4 sec) [ -12329.9004] [ 2920] [depth= 8] . ( 4 sec) [ -12149.7871] [ 2849] [depth= 6] . ( 4 sec) [ -12026.8233] [ 2765] [depth= 3] . ( 4 sec) [ -11873.7563] [ 2707] [depth= 1] . ( 4 sec) [ -11872.6801] [ 2702] [depth= 1] . ( 4 sec) [ -11866.7083] [ 2694] [depth= 1] . ( 4 sec) [ -11742.7691] [ 2650] [depth= 4] . ( 4 sec) [ -11641.5884] [ 2636] [depth= 1] . ( 4 sec) [ -11593.9759] [ 2626] [depth= 1] . ( 4 sec) [ -11424.1658] [ 2590] [depth= 3] . ( 4 sec) [ -11380.9641] [ 2580] [depth= 1] . ( 4 sec) [ -11247.7965] [ 2575] [depth= 1] . ( 4 sec) [ -11232.5171] [ 2578] [depth= 2] . ( 4 sec) [ -11232.0433] [ 2579] [depth= 1] . ( 4 sec) [ -11218.4786] [ 2568] [depth= 1] . ( 5 sec) [ -11062.7377] [ 2519] [depth= 4] . ( 5 sec) [ -11049.0079] [ 2543] [depth= 1] . ( 5 sec) [ -11007.8882] [ 2510] [depth= 2] . ( 5 sec) [ -11006.7142] [ 2527] [depth= 1] . ( 5 sec) [ -10993.0535] [ 2536] [depth= 2] . ( 5 sec) [ -10859.7243] [Branch lengths ] . ( 6 sec) [ -10857.3245] [GTR parameters ] . ( 6 sec) [ -10825.7059] [Alpha ][ 0.849197] . ( 6 sec) [ -10817.6373] [ 2519] [depth= 1] . ( 6 sec) [ -10796.1380] [ 2505] [depth= 1] . ( 6 sec) [ -10785.2985] [ 2496] [depth= 2] . ( 6 sec) [ -10782.4688] [ 2490] [depth= 1] . ( 6 sec) [ -10758.4028] [ 2449] [depth= 5] . ( 6 sec) [ -10757.9851] [ 2444] [depth= 1] . ( 7 sec) [ -10757.5804] [ 2448] [depth= 1] . ( 7 sec) [ -10734.6085] [ 2420] [depth= 2] . ( 7 sec) [ -10733.3851] [ 2419] [depth= 1] . ( 8 sec) [ -10733.2902] [ 2422] [depth= 1] . ( 8 sec) [ -10730.3070] [ 2419] [depth= 1] . ( 9 sec) [ -10710.5368] [Branch lengths ] . ( 9 sec) [ -10710.1081] [GTR parameters ] . ( 9 sec) [ -10709.4603] [Alpha ][ 0.916587] . ( 12 sec) [ -10707.9820] [Branch lengths ] . ( 32 sec) [ -10707.8662] [Branch lengths ] . ( 32 sec) [ -10707.8662] [Topology ] . ( 33 sec) [ -10707.8575] [Topology ] . ( 34 sec) [ -10707.8550] [Topology ] . ( 35 sec) [ -10707.8540] [Topology ] . ( 35 sec) [ -10707.8535] [Topology ] . ( 36 sec) [ -10707.8519] [GTR parameters ] . ( 36 sec) [ -10707.8465] [Alpha ][ 0.923061] . ( 36 sec) [ -10707.8465] [Topology ] . ( 37 sec) [ -10707.8458] [Topology ] . ( 37 sec) [ -10707.8458] [GTR parameters ] . ( 37 sec) [ -10707.8458] [Alpha ][ 0.923061] . Checking for NNIs, optimizing five branches... . ( 43 sec) [ -10707.5729] [Topology ] . Checking for NNIs, optimizing five branches... . ( 49 sec) [ -10707.5727] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10707.572696. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -22665.9330] [GTR parameters ] . ( 1 sec) [ -22123.9757] [Alpha ][ 0.500960] . ( 1 sec) [ -21455.4098] [ 5474] [depth= 6] . ( 1 sec) [ -20927.2570] [ 5332] [depth= 11] . ( 1 sec) [ -20856.3414] [ 5310] [depth= 5] . ( 1 sec) [ -20675.1988] [ 5297] [depth= 5] . ( 1 sec) [ -20598.1714] [ 5272] [depth= 3] . ( 1 sec) [ -20484.3698] [ 5272] [depth= 4] . ( 1 sec) [ -20015.2605] [ 5240] [depth= 5] . ( 1 sec) [ -19966.5674] [ 5140] [depth= 1] . ( 2 sec) [ -19693.3022] [ 5059] [depth= 6] . ( 2 sec) [ -19329.9422] [ 4963] [depth= 7] . ( 2 sec) [ -19066.7842] [ 4968] [depth= 15] . ( 2 sec) [ -18709.1819] [ 4870] [depth= 14] . ( 2 sec) [ -18653.6749] [ 4837] [depth= 1] . ( 2 sec) [ -18494.3468] [ 4805] [depth= 13] . ( 2 sec) [ -18408.0419] [ 4786] [depth= 11] . ( 2 sec) [ -18390.9102] [ 4783] [depth= 1] . ( 2 sec) [ -18246.4996] [ 4751] [depth= 7] . ( 2 sec) [ -18161.4082] [ 4731] [depth= 1] . ( 2 sec) [ -17965.5856] [ 4632] [depth= 13] . ( 2 sec) [ -17876.7725] [ 4638] [depth= 16] . ( 2 sec) [ -17630.6155] [ 4577] [depth= 4] . ( 2 sec) [ -17602.0980] [ 4582] [depth= 1] . ( 2 sec) [ -17203.7883] [ 4475] [depth= 8] . ( 2 sec) [ -17047.9393] [ 4375] [depth= 2] . ( 2 sec) [ -17008.9841] [ 4356] [depth= 1] . ( 2 sec) [ -16942.9551] [ 4312] [depth= 13] . ( 2 sec) [ -16615.9773] [ 4221] [depth= 11] . ( 2 sec) [ -16455.6846] [ 4154] [depth= 5] . ( 2 sec) [ -16261.4789] [ 4082] [depth= 8] . ( 3 sec) [ -16053.7688] [ 4076] [depth= 1] . ( 3 sec) [ -15981.8350] [ 4060] [depth= 1] . ( 3 sec) [ -15837.5036] [ 3970] [depth= 1] . ( 3 sec) [ -15585.1353] [ 3857] [depth= 10] . ( 3 sec) [ -15539.6688] [ 3881] [depth= 1] . ( 3 sec) [ -15478.9368] [ 3880] [depth= 9] . ( 3 sec) [ -15366.6183] [ 3877] [depth= 9] . ( 3 sec) [ -14861.0009] [ 3740] [depth= 3] . ( 3 sec) [ -14645.3121] [ 3730] [depth= 6] . ( 3 sec) [ -13835.7994] [ 3514] [depth= 6] . ( 3 sec) [ -13798.6463] [ 3506] [depth= 1] . ( 3 sec) [ -13797.2369] [ 3501] [depth= 1] . ( 3 sec) [ -13648.5180] [ 3420] [depth= 5] . ( 3 sec) [ -13581.0058] [ 3381] [depth= 4] . ( 3 sec) [ -13503.1688] [ 3374] [depth= 2] . ( 3 sec) [ -13346.8302] [ 3336] [depth= 6] . ( 3 sec) [ -13213.5334] [ 3318] [depth= 2] . ( 3 sec) [ -12985.4242] [ 3229] [depth= 7] . ( 3 sec) [ -12882.7935] [ 3192] [depth= 11] . ( 4 sec) [ -12849.7911] [ 3194] [depth= 1] . ( 4 sec) [ -12791.6706] [ 3187] [depth= 1] . ( 4 sec) [ -12752.4555] [ 3203] [depth= 2] . ( 4 sec) [ -12666.7671] [ 3215] [depth= 5] . ( 4 sec) [ -12416.4585] [ 3061] [depth= 9] . ( 4 sec) [ -12407.1260] [ 3062] [depth= 1] . ( 4 sec) [ -12362.4714] [ 3058] [depth= 1] . ( 4 sec) [ -12361.8145] [ 3055] [depth= 1] . ( 4 sec) [ -12200.1194] [ 2931] [depth= 8] . ( 4 sec) [ -12111.7347] [ 2899] [depth= 3] . ( 4 sec) [ -11972.6603] [ 2895] [depth= 1] . ( 4 sec) [ -11963.9995] [ 2898] [depth= 1] . ( 4 sec) [ -11945.7490] [ 2886] [depth= 1] . ( 4 sec) [ -11906.3296] [ 2901] [depth= 1] . ( 4 sec) [ -11866.1190] [ 2883] [depth= 2] . ( 4 sec) [ -11836.1510] [ 2777] [depth= 2] . ( 4 sec) [ -11834.9441] [ 2781] [depth= 4] . ( 5 sec) [ -11833.3927] [ 2777] [depth= 1] . ( 5 sec) [ -11703.5468] [ 2759] [depth= 4] . ( 5 sec) [ -11695.6972] [ 2750] [depth= 2] . ( 5 sec) [ -11622.8913] [ 2680] [depth= 5] . ( 5 sec) [ -11493.5580] [ 2644] [depth= 3] . ( 5 sec) [ -11109.7933] [Branch lengths ] . ( 6 sec) [ -11106.6005] [GTR parameters ] . ( 6 sec) [ -11081.4579] [Alpha ][ 0.806476] . ( 6 sec) [ -11080.5219] [ 2639] [depth= 1] . ( 6 sec) [ -11073.1912] [ 2624] [depth= 1] . ( 6 sec) [ -11064.6824] [ 2624] [depth= 10] . ( 6 sec) [ -11054.1706] [ 2617] [depth= 1] . ( 6 sec) [ -10983.7432] [ 2600] [depth= 10] . ( 6 sec) [ -10982.2248] [ 2600] [depth= 1] . ( 7 sec) [ -10958.9738] [ 2596] [depth= 2] . ( 7 sec) [ -10958.8738] [ 2582] [depth= 1] . ( 7 sec) [ -10953.7631] [ 2598] [depth= 1] . ( 7 sec) [ -10931.9292] [ 2588] [depth= 2] . ( 7 sec) [ -10919.1148] [ 2574] [depth= 1] . ( 7 sec) [ -10918.2641] [ 2577] [depth= 1] . ( 7 sec) [ -10916.0349] [ 2578] [depth= 1] . ( 7 sec) [ -10904.5857] [ 2569] [depth= 1] . ( 7 sec) [ -10903.4204] [ 2571] [depth= 1] . ( 7 sec) [ -10902.7283] [ 2566] [depth= 1] . ( 7 sec) [ -10876.7171] [ 2524] [depth= 1] . ( 8 sec) [ -10829.5704] [ 2472] [depth= 4] . ( 8 sec) [ -10826.0264] [ 2476] [depth= 1] . ( 8 sec) [ -10774.5305] [ 2463] [depth= 1] . ( 8 sec) [ -10772.4600] [ 2460] [depth= 1] . ( 8 sec) [ -10769.5373] [ 2451] [depth= 1] . ( 8 sec) [ -10769.1969] [ 2454] [depth= 1] . ( 8 sec) [ -10758.5325] [ 2432] [depth= 1] . ( 8 sec) [ -10757.8543] [ 2435] [depth= 1] . ( 8 sec) [ -10756.3560] [ 2441] [depth= 1] . ( 9 sec) [ -10748.2313] [ 2431] [depth= 1] . ( 9 sec) [ -10716.8146] [Branch lengths ] . ( 9 sec) [ -10716.4318] [GTR parameters ] . ( 9 sec) [ -10715.0654] [Alpha ][ 0.901590] . ( 10 sec) [ -10713.3944] [ 2428] [depth= 1] . ( 11 sec) [ -10713.1841] [ 2425] [depth= 1] . ( 11 sec) [ -10711.6768] [ 2419] [depth= 1] . ( 12 sec) [ -10708.0279] [Branch lengths ] . ( 12 sec) [ -10708.0164] [GTR parameters ] . ( 13 sec) [ -10707.9750] [Alpha ][ 0.919580] . ( 15 sec) [ -10707.6224] [Branch lengths ] . ( 36 sec) [ -10707.5786] [Branch lengths ] . ( 36 sec) [ -10707.5786] [Topology ] . ( 36 sec) [ -10707.5749] [Topology ] . ( 37 sec) [ -10707.5738] [Topology ] . ( 38 sec) [ -10707.5733] [Topology ] . ( 38 sec) [ -10707.5731] [GTR parameters ] . ( 38 sec) [ -10707.5713] [Alpha ][ 0.923286] . ( 38 sec) [ -10707.5713] [Topology ] . ( 39 sec) [ -10707.5709] [Topology ] . ( 39 sec) [ -10707.5709] [GTR parameters ] . ( 39 sec) [ -10707.5709] [Alpha ][ 0.923286] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -10707.570860. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-10782.348128 . ( 0 sec) [ -10779.9742] [GTR parameters ] . ( 0 sec) [ -10778.6951] [Alpha ][ 0.893591] . ( 0 sec) [ -10778.6951] [Topology ] . ( 1 sec) [ -10715.7781] [Topology ] . ( 2 sec) [ -10710.3692] [Topology ] . ( 3 sec) [ -10708.8686] [Topology ] . ( 4 sec) [ -10708.2461] [Topology ] . ( 5 sec) [ -10707.9632] [Topology ] . ( 5 sec) [ -10707.8291] [Topology ] . ( 6 sec) [ -10707.7641] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10707.764134 . ( 13 sec) [ -10707.7502] [GTR parameters ] . ( 13 sec) [ -10707.6553] [Alpha ][ 0.919690] . ( 13 sec) [ -10707.6553] [Topology ] . ( 14 sec) [ -10707.6108] [Topology ] . ( 14 sec) [ -10707.5907] [Topology ] . ( 15 sec) [ -10707.5809] [Topology ] . ( 16 sec) [ -10707.5761] [Topology ] . ( 17 sec) [ -10707.5737] [Topology ] . ( 18 sec) [ -10707.5725] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10707.572490 . ( 24 sec) [ -10707.5725] [GTR parameters ] . ( 24 sec) [ -10707.5708] [Alpha ][ 0.923263] . ( 24 sec) [ -10707.5708] [Topology ] . ( 25 sec) [ -10707.5700] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-10707.569983 . ( 31 sec) [ -10707.5700] [GTR parameters ] . ( 31 sec) [ -10707.5700] [Alpha ][ 0.923263] . ( 31 sec) [ -10707.5700] [Topology ] . ( 32 sec) [ -10707.5696] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 45 sec) [ -10779.9742] [GTR parameters ] . ( 45 sec) [ -10778.6951] [Alpha ][ 0.893591] . ( 46 sec) [ -10772.4227] [ 2421] [depth= 1] . ( 46 sec) [ -10769.9177] [ 2426] [depth= 1] . ( 46 sec) [ -10767.6827] [ 2421] [depth= 1] . ( 46 sec) [ -10765.7948] [ 2426] [depth= 1] . ( 46 sec) [ -10762.8481] [ 2421] [depth= 1] . ( 47 sec) [ -10761.5984] [ 2422] [depth= 1] . ( 47 sec) [ -10760.6752] [ 2421] [depth= 1] . ( 47 sec) [ -10759.0631] [ 2424] [depth= 1] . ( 47 sec) [ -10753.5595] [ 2426] [depth= 1] . ( 48 sec) [ -10715.6016] [Branch lengths ] . ( 48 sec) [ -10715.5903] [GTR parameters ] . ( 48 sec) [ -10715.5727] [Alpha ][ 0.905204] . ( 49 sec) [ -10715.1162] [ 2426] [depth= 1] . ( 49 sec) [ -10714.3473] [ 2421] [depth= 1] . ( 50 sec) [ -10714.1892] [ 2421] [depth= 1] . ( 50 sec) [ -10713.4284] [ 2414] [depth= 1] . ( 51 sec) [ -10707.9345] [Branch lengths ] . ( 51 sec) [ -10707.9294] [GTR parameters ] . ( 51 sec) [ -10707.8909] [Alpha ][ 0.922526] . ( 54 sec) [ -10707.5847] [Branch lengths ] . ( 74 sec) [ -10707.5720] [Branch lengths ] . ( 74 sec) [ -10707.5720] [Topology ] . ( 75 sec) [ -10707.5713] [Topology ] . ( 75 sec) [ -10707.5711] [GTR parameters ] . ( 75 sec) [ -10707.5710] [Alpha ][ 0.923448] . ( 75 sec) [ -10707.5710] [Topology ] . ( 76 sec) [ -10707.5708] [Topology ] . ( 76 sec) [ -10707.5708] [GTR parameters ] . ( 76 sec) [ -10707.5708] [Alpha ][ 0.923448] . Checking for NNIs, optimizing five branches... . ( 83 sec) [ -10707.5702] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -10707.569617 . Log likelihood obtained after SPR moves : -10707.570219 . Log likelihood of the current tree: -10707.569617. . Printing the most likely tree in file 'data3.phy_phyml_tree.txt'... . Best log likelihood : -10707.569617 . Time used 0h1m29s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo