.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data5.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... . 450 patterns found. (out of a total of 500 sites) . 48 sites without polymorphism (9.60%). . [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)... . ( 1 sec) [ -26086.4378] [GTR parameters ] . ( 1 sec) [ -25634.3222] [Alpha ][ 0.500960] . ( 1 sec) [ -24313.8817] [ 5142] [depth= 8] . ( 1 sec) [ -24118.0942] [ 5138] [depth= 8] . ( 1 sec) [ -23783.4736] [ 5098] [depth= 6] . ( 1 sec) [ -23666.2700] [ 5074] [depth= 6] . ( 1 sec) [ -23479.6585] [ 5001] [depth= 1] . ( 2 sec) [ -23325.2671] [ 4962] [depth= 7] . ( 2 sec) [ -23319.3761] [ 4932] [depth= 3] . ( 2 sec) [ -23129.7689] [ 4850] [depth= 2] . ( 2 sec) [ -22952.2132] [ 4796] [depth= 8] . ( 2 sec) [ -22934.1444] [ 4775] [depth= 1] . ( 2 sec) [ -22925.5801] [ 4772] [depth= 6] . ( 2 sec) [ -22906.1937] [ 4771] [depth= 15] . ( 2 sec) [ -22702.0008] [ 4743] [depth= 1] . ( 2 sec) [ -22673.5370] [ 4742] [depth= 1] . ( 2 sec) [ -22595.0084] [ 4739] [depth= 1] . ( 2 sec) [ -22501.9985] [ 4704] [depth= 4] . ( 2 sec) [ -22331.6270] [ 4691] [depth= 1] . ( 2 sec) [ -22200.1000] [ 4656] [depth= 2] . ( 2 sec) [ -22037.8453] [ 4595] [depth= 1] . ( 2 sec) [ -21907.6259] [ 4544] [depth= 6] . ( 2 sec) [ -21760.0470] [ 4513] [depth= 1] . ( 2 sec) [ -21403.4895] [ 4509] [depth= 16] . ( 2 sec) [ -21280.3932] [ 4482] [depth= 11] . ( 2 sec) [ -21180.6166] [ 4446] [depth= 14] . ( 2 sec) [ -21166.1914] [ 4442] [depth= 8] . ( 2 sec) [ -21026.3622] [ 4371] [depth= 1] . ( 3 sec) [ -20978.5783] [ 4303] [depth= 10] . ( 3 sec) [ -20615.0334] [ 4227] [depth= 4] . ( 3 sec) [ -17487.9737] [ 4165] [depth= 3] . ( 3 sec) [ -17439.4024] [ 4174] [depth= 1] . ( 3 sec) [ -17197.3202] [ 4157] [depth= 1] . ( 3 sec) [ -16987.6265] [ 4144] [depth= 7] . ( 3 sec) [ -16866.2856] [ 4157] [depth= 1] . ( 3 sec) [ -16740.8980] [ 4098] [depth= 1] . ( 3 sec) [ -16703.5084] [ 4082] [depth= 3] . ( 3 sec) [ -16515.4258] [ 4001] [depth= 12] . ( 3 sec) [ -16052.7563] [ 3953] [depth= 7] . ( 3 sec) [ -15857.0165] [ 3931] [depth= 4] . ( 3 sec) [ -15849.1950] [ 3933] [depth= 2] . ( 3 sec) [ -15735.4663] [ 3887] [depth= 4] . ( 3 sec) [ -15724.5612] [ 3824] [depth= 13] . ( 3 sec) [ -15645.2517] [ 3797] [depth= 8] . ( 3 sec) [ -15567.9158] [ 3785] [depth= 3] . ( 3 sec) [ -15538.7618] [ 3797] [depth= 1] . ( 3 sec) [ -15161.5535] [ 3754] [depth= 5] . ( 3 sec) [ -15078.5050] [ 3755] [depth= 9] . ( 4 sec) [ -14925.4120] [ 3740] [depth= 3] . ( 4 sec) [ -14796.2704] [ 3709] [depth= 11] . ( 4 sec) [ -14794.8328] [ 3697] [depth= 1] . ( 4 sec) [ -14638.3909] [ 3649] [depth= 3] . ( 4 sec) [ -14563.7045] [ 3646] [depth= 1] . ( 4 sec) [ -14306.5272] [ 3495] [depth= 6] . ( 4 sec) [ -14298.1767] [ 3491] [depth= 1] . ( 4 sec) [ -14274.7335] [ 3463] [depth= 6] . ( 4 sec) [ -14243.4743] [ 3451] [depth= 6] . ( 4 sec) [ -13743.7668] [ 3326] [depth= 4] . ( 4 sec) [ -13621.3657] [ 3280] [depth= 1] . ( 4 sec) [ -13567.3513] [ 3274] [depth= 1] . ( 4 sec) [ -13546.8433] [ 3282] [depth= 1] . ( 4 sec) [ -13435.4086] [ 3259] [depth= 4] . ( 4 sec) [ -13411.7413] [ 3255] [depth= 1] . ( 4 sec) [ -13367.6416] [ 3222] [depth= 3] . ( 4 sec) [ -13251.7492] [ 3087] [depth= 1] . ( 5 sec) [ -13249.3704] [ 3097] [depth= 1] . ( 5 sec) [ -13173.1351] [ 3087] [depth= 1] . ( 5 sec) [ -13171.7566] [ 3085] [depth= 1] . ( 5 sec) [ -13168.9871] [ 3092] [depth= 1] . ( 5 sec) [ -13167.9712] [ 3095] [depth= 1] . ( 5 sec) [ -13163.2945] [ 3105] [depth= 1] . ( 5 sec) [ -12581.8510] [ 2996] [depth= 4] . ( 5 sec) [ -12568.2480] [ 3001] [depth= 2] . ( 5 sec) [ -12337.3662] [ 2986] [depth= 1] . ( 5 sec) [ -12250.5177] [ 2946] [depth= 1] . ( 5 sec) [ -12085.7497] [ 2923] [depth= 2] . ( 5 sec) [ -11995.7483] [ 2925] [depth= 1] . ( 5 sec) [ -11979.2768] [ 2914] [depth= 1] . ( 5 sec) [ -11767.9720] [ 2811] [depth= 1] . ( 5 sec) [ -11729.5028] [ 2796] [depth= 2] . ( 5 sec) [ -11717.3974] [ 2791] [depth= 2] . ( 5 sec) [ -11672.3138] [ 2780] [depth= 1] . ( 5 sec) [ -11611.9905] [ 2751] [depth= 1] . ( 5 sec) [ -11591.1031] [ 2740] [depth= 3] . ( 6 sec) [ -11587.5704] [ 2736] [depth= 1] . ( 6 sec) [ -11428.5051] [Branch lengths ] . ( 6 sec) [ -11427.8609] [GTR parameters ] . ( 6 sec) [ -11397.0815] [Alpha ][ 0.841612] . ( 7 sec) [ -11384.8952] [ 2726] [depth= 1] . ( 7 sec) [ -11343.6644] [ 2674] [depth= 6] . ( 7 sec) [ -11329.6792] [ 2667] [depth= 1] . ( 7 sec) [ -11326.4441] [ 2663] [depth= 1] . ( 7 sec) [ -11276.2707] [ 2621] [depth= 4] . ( 7 sec) [ -11257.5086] [ 2652] [depth= 1] . ( 7 sec) [ -11112.2362] [ 2605] [depth= 3] . ( 7 sec) [ -11095.7228] [ 2600] [depth= 1] . ( 7 sec) [ -11095.1578] [ 2598] [depth= 1] . ( 7 sec) [ -11090.9710] [ 2589] [depth= 1] . ( 7 sec) [ -11090.2505] [ 2585] [depth= 1] . ( 7 sec) [ -11089.8083] [ 2584] [depth= 1] . ( 8 sec) [ -11089.2228] [ 2588] [depth= 1] . ( 8 sec) [ -11088.7326] [ 2587] [depth= 1] . ( 9 sec) [ -11088.3785] [ 2587] [depth= 1] . ( 10 sec) [ -11052.9676] [Branch lengths ] . ( 10 sec) [ -11052.8748] [GTR parameters ] . ( 10 sec) [ -11049.9948] [Alpha ][ 0.993899] . ( 11 sec) [ -11049.9368] [ 2590] [depth= 1] . ( 12 sec) [ -11049.5706] [ 2587] [depth= 1] . ( 13 sec) [ -11041.7726] [Branch lengths ] . ( 13 sec) [ -11041.7714] [GTR parameters ] . ( 13 sec) [ -11041.7146] [Alpha ][ 1.017681] . ( 16 sec) [ -11039.7782] [Branch lengths ] . ( 37 sec) [ -11038.5509] [Branch lengths ] . ( 37 sec) [ -11038.5509] [Topology ] . ( 38 sec) [ -11038.2769] [Topology ] . ( 39 sec) [ -11038.1207] [Topology ] . ( 39 sec) [ -11038.0274] [Topology ] . ( 40 sec) [ -11037.9648] [Topology ] . ( 41 sec) [ -11037.9321] [Topology ] . ( 42 sec) [ -11037.9223] [Topology ] . ( 42 sec) [ -11037.9170] [GTR parameters ] . ( 42 sec) [ -11037.9132] [Alpha ][ 1.023835] . ( 42 sec) [ -11037.9132] [Topology ] . ( 43 sec) [ -11037.9106] [Topology ] . ( 44 sec) [ -11037.9099] [Topology ] . ( 44 sec) [ -11037.9099] [GTR parameters ] . ( 44 sec) [ -11037.9099] [Alpha ][ 1.023835] . ( 44 sec) [ -11037.9099] [Topology ] . ( 45 sec) [ -11037.9096] [Topology ] . ( 45 sec) [ -11037.9096] [GTR parameters ] . ( 45 sec) [ -11037.9096] [Alpha ][ 1.023835] . Checking for NNIs, optimizing five branches... . ( 52 sec) [ -11036.5187] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11036.518722. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -28107.6370] [GTR parameters ] . ( 1 sec) [ -27622.4861] [Alpha ][ 0.500960] . ( 1 sec) [ -26727.0333] [ 5210] [depth= 3] . ( 1 sec) [ -26266.8596] [ 5166] [depth= 10] . ( 1 sec) [ -26071.2962] [ 5124] [depth= 4] . ( 1 sec) [ -26002.3086] [ 5102] [depth= 6] . ( 1 sec) [ -25894.4819] [ 5042] [depth= 2] . ( 1 sec) [ -25594.8990] [ 5008] [depth= 8] . ( 1 sec) [ -25399.4520] [ 4962] [depth= 7] . ( 1 sec) [ -25202.4870] [ 4935] [depth= 1] . ( 1 sec) [ -25041.2991] [ 4889] [depth= 8] . ( 1 sec) [ -24952.0983] [ 4880] [depth= 3] . ( 1 sec) [ -24810.4355] [ 4835] [depth= 1] . ( 1 sec) [ -24720.6775] [ 4836] [depth= 2] . ( 1 sec) [ -24249.9876] [ 4692] [depth= 19] . ( 1 sec) [ -24009.5801] [ 4619] [depth= 10] . ( 1 sec) [ -23716.0944] [ 4548] [depth= 15] . ( 1 sec) [ -23667.6327] [ 4550] [depth= 1] . ( 1 sec) [ -23654.5294] [ 4552] [depth= 1] . ( 1 sec) [ -23629.8259] [ 4539] [depth= 1] . ( 1 sec) [ -23607.7931] [ 4530] [depth= 1] . ( 1 sec) [ -22431.7322] [ 4370] [depth= 18] . ( 2 sec) [ -22413.6034] [ 4366] [depth= 1] . ( 2 sec) [ -22280.0687] [ 4279] [depth= 2] . ( 2 sec) [ -22197.8808] [ 4218] [depth= 1] . ( 2 sec) [ -22188.4871] [ 4215] [depth= 1] . ( 2 sec) [ -22177.5506] [ 4210] [depth= 1] . ( 2 sec) [ -22150.7763] [ 4169] [depth= 11] . ( 2 sec) [ -17650.6420] [ 4181] [depth= 1] . ( 2 sec) [ -17345.4384] [ 4116] [depth= 7] . ( 2 sec) [ -17158.4767] [ 4110] [depth= 5] . ( 2 sec) [ -16822.2352] [ 4020] [depth= 12] . ( 2 sec) [ -16744.3320] [ 3992] [depth= 9] . ( 2 sec) [ -16708.7010] [ 3978] [depth= 1] . ( 2 sec) [ -16675.1877] [ 3974] [depth= 5] . ( 2 sec) [ -16671.0629] [ 3975] [depth= 1] . ( 2 sec) [ -16493.7474] [ 3936] [depth= 3] . ( 2 sec) [ -16063.4581] [ 3837] [depth= 1] . ( 2 sec) [ -15978.6517] [ 3804] [depth= 3] . ( 2 sec) [ -15959.5119] [ 3790] [depth= 3] . ( 2 sec) [ -15648.7220] [ 3706] [depth= 4] . ( 2 sec) [ -15543.0875] [ 3684] [depth= 1] . ( 2 sec) [ -15121.8254] [ 3674] [depth= 4] . ( 3 sec) [ -14397.1047] [ 3513] [depth= 5] . ( 3 sec) [ -14379.4593] [ 3505] [depth= 3] . ( 3 sec) [ -14368.9857] [ 3489] [depth= 1] . ( 3 sec) [ -14030.4512] [ 3362] [depth= 3] . ( 3 sec) [ -14014.2952] [ 3362] [depth= 1] . ( 3 sec) [ -13342.2422] [ 3230] [depth= 4] . ( 3 sec) [ -13207.9201] [ 3189] [depth= 7] . ( 3 sec) [ -12994.5891] [ 3122] [depth= 1] . ( 3 sec) [ -12992.9482] [ 3104] [depth= 4] . ( 3 sec) [ -12903.1784] [ 3064] [depth= 9] . ( 3 sec) [ -12854.2556] [ 3069] [depth= 1] . ( 3 sec) [ -12853.0069] [ 3064] [depth= 1] . ( 3 sec) [ -12779.2225] [ 3032] [depth= 1] . ( 3 sec) [ -12738.9710] [ 3027] [depth= 5] . ( 3 sec) [ -12719.4138] [ 2998] [depth= 2] . ( 3 sec) [ -12690.9945] [ 3011] [depth= 1] . ( 3 sec) [ -12640.9459] [ 2977] [depth= 2] . ( 4 sec) [ -12604.2817] [ 2996] [depth= 2] . ( 4 sec) [ -12203.7464] [ 2943] [depth= 4] . ( 4 sec) [ -12020.1981] [ 2819] [depth= 2] . ( 4 sec) [ -12011.3559] [ 2821] [depth= 2] . ( 4 sec) [ -11896.4413] [ 2822] [depth= 1] . ( 4 sec) [ -11819.0144] [ 2816] [depth= 1] . ( 4 sec) [ -11770.5347] [ 2789] [depth= 3] . ( 4 sec) [ -11725.3453] [ 2801] [depth= 2] . ( 4 sec) [ -11694.1990] [ 2783] [depth= 5] . ( 4 sec) [ -11650.8232] [ 2772] [depth= 1] . ( 4 sec) [ -11594.0360] [ 2773] [depth= 1] . ( 4 sec) [ -11569.9273] [ 2765] [depth= 2] . ( 4 sec) [ -11535.9669] [ 2735] [depth= 1] . ( 4 sec) [ -11532.2566] [ 2736] [depth= 1] . ( 5 sec) [ -11345.4031] [Branch lengths ] . ( 5 sec) [ -11343.7664] [GTR parameters ] . ( 6 sec) [ -11305.8234] [Alpha ][ 0.900042] . ( 6 sec) [ -11293.9148] [ 2708] [depth= 1] . ( 6 sec) [ -11292.5522] [ 2714] [depth= 1] . ( 6 sec) [ -11259.7205] [ 2687] [depth= 1] . ( 6 sec) [ -11258.5699] [ 2689] [depth= 1] . ( 6 sec) [ -11254.7288] [ 2681] [depth= 1] . ( 6 sec) [ -11254.3907] [ 2679] [depth= 1] . ( 6 sec) [ -11253.8492] [ 2687] [depth= 1] . ( 6 sec) [ -11210.9618] [ 2669] [depth= 5] . ( 7 sec) [ -11203.3278] [ 2668] [depth= 1] . ( 7 sec) [ -11196.6985] [ 2665] [depth= 1] . ( 7 sec) [ -11188.7848] [ 2649] [depth= 2] . ( 7 sec) [ -11142.4605] [ 2641] [depth= 3] . ( 7 sec) [ -11133.9726] [ 2641] [depth= 1] . ( 7 sec) [ -11099.8465] [ 2607] [depth= 2] . ( 7 sec) [ -11076.5978] [ 2597] [depth= 1] . ( 7 sec) [ -11073.1633] [ 2589] [depth= 1] . ( 8 sec) [ -11066.6159] [ 2582] [depth= 1] . ( 9 sec) [ -11042.5158] [Branch lengths ] . ( 9 sec) [ -11042.0319] [GTR parameters ] . ( 9 sec) [ -11040.6570] [Alpha ][ 1.009195] . ( 12 sec) [ -11038.3183] [Branch lengths ] . ( 33 sec) [ -11037.9909] [Branch lengths ] . ( 33 sec) [ -11037.9909] [Topology ] . ( 34 sec) [ -11036.7178] [Topology ] . ( 35 sec) [ -11036.5761] [Topology ] . ( 36 sec) [ -11036.5511] [Topology ] . ( 37 sec) [ -11036.5446] [Topology ] . ( 38 sec) [ -11036.5427] [Topology ] . ( 39 sec) [ -11036.5419] [Topology ] . ( 39 sec) [ -11036.5381] [GTR parameters ] . ( 39 sec) [ -11036.5155] [Alpha ][ 1.024235] . ( 39 sec) [ -11036.5155] [Topology ] . ( 40 sec) [ -11036.5140] [Topology ] . ( 41 sec) [ -11036.5136] [Topology ] . ( 41 sec) [ -11036.5135] [GTR parameters ] . ( 41 sec) [ -11036.5135] [Alpha ][ 1.024235] . ( 41 sec) [ -11036.5135] [Topology ] . ( 42 sec) [ -11036.5133] [Topology ] . ( 42 sec) [ -11036.5133] [GTR parameters ] . ( 42 sec) [ -11036.5133] [Alpha ][ 1.024235] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11036.513340. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -28353.6848] [GTR parameters ] . ( 1 sec) [ -27871.4102] [Alpha ][ 0.500960] . ( 1 sec) [ -27099.4403] [ 5252] [depth= 8] . ( 1 sec) [ -26741.5326] [ 5243] [depth= 10] . ( 1 sec) [ -26643.6926] [ 5234] [depth= 4] . ( 1 sec) [ -26510.7922] [ 5219] [depth= 1] . ( 1 sec) [ -25572.3079] [ 5097] [depth= 4] . ( 1 sec) [ -25562.5411] [ 5088] [depth= 1] . ( 1 sec) [ -25449.3126] [ 5073] [depth= 1] . ( 1 sec) [ -25197.5776] [ 5040] [depth= 11] . ( 1 sec) [ -25014.6553] [ 4905] [depth= 9] . ( 1 sec) [ -24793.9628] [ 5027] [depth= 3] . ( 1 sec) [ -24534.1003] [ 4965] [depth= 1] . ( 1 sec) [ -24451.2778] [ 4954] [depth= 3] . ( 1 sec) [ -24151.2602] [ 4845] [depth= 8] . ( 1 sec) [ -20319.8976] [ 4844] [depth= 3] . ( 1 sec) [ -20276.7189] [ 4845] [depth= 1] . ( 1 sec) [ -19958.0617] [ 4809] [depth= 12] . ( 1 sec) [ -19624.0002] [ 4714] [depth= 2] . ( 1 sec) [ -19508.4569] [ 4682] [depth= 3] . ( 2 sec) [ -19123.6087] [ 4648] [depth= 12] . ( 2 sec) [ -19042.6269] [ 4632] [depth= 1] . ( 2 sec) [ -18802.1206] [ 4613] [depth= 9] . ( 2 sec) [ -18435.8205] [ 4532] [depth= 6] . ( 2 sec) [ -18352.8264] [ 4538] [depth= 8] . ( 2 sec) [ -18139.9278] [ 4475] [depth= 1] . ( 2 sec) [ -17799.2047] [ 4411] [depth= 6] . ( 2 sec) [ -17046.4867] [ 4289] [depth= 7] . ( 2 sec) [ -16765.5407] [ 4294] [depth= 5] . ( 2 sec) [ -16568.5246] [ 4233] [depth= 10] . ( 2 sec) [ -16390.4586] [ 4166] [depth= 10] . ( 2 sec) [ -15890.6966] [ 4146] [depth= 12] . ( 2 sec) [ -15818.0820] [ 4131] [depth= 6] . ( 2 sec) [ -15620.7546] [ 4062] [depth= 2] . ( 2 sec) [ -15488.9467] [ 4015] [depth= 11] . ( 2 sec) [ -15405.7229] [ 3946] [depth= 1] . ( 2 sec) [ -14997.1172] [ 3795] [depth= 9] . ( 2 sec) [ -14962.5345] [ 3806] [depth= 1] . ( 2 sec) [ -14940.2657] [ 3795] [depth= 1] . ( 2 sec) [ -14810.2482] [ 3764] [depth= 1] . ( 2 sec) [ -14621.0231] [ 3729] [depth= 3] . ( 3 sec) [ -14615.7836] [ 3728] [depth= 1] . ( 3 sec) [ -14538.3277] [ 3742] [depth= 9] . ( 3 sec) [ -14513.6435] [ 3735] [depth= 1] . ( 3 sec) [ -14381.2264] [ 3649] [depth= 7] . ( 3 sec) [ -14299.6913] [ 3651] [depth= 1] . ( 3 sec) [ -14265.7778] [ 3645] [depth= 1] . ( 3 sec) [ -14188.7738] [ 3597] [depth= 1] . ( 3 sec) [ -14118.2175] [ 3592] [depth= 2] . ( 3 sec) [ -14116.6421] [ 3571] [depth= 2] . ( 3 sec) [ -14050.8295] [ 3563] [depth= 1] . ( 3 sec) [ -13701.8537] [ 3470] [depth= 2] . ( 3 sec) [ -13650.3107] [ 3454] [depth= 9] . ( 3 sec) [ -13621.7397] [ 3427] [depth= 1] . ( 3 sec) [ -13349.0137] [ 3328] [depth= 7] . ( 3 sec) [ -13106.1494] [ 3255] [depth= 6] . ( 3 sec) [ -13094.0093] [ 3249] [depth= 1] . ( 3 sec) [ -12955.8344] [ 3207] [depth= 2] . ( 3 sec) [ -12756.5468] [ 3146] [depth= 7] . ( 4 sec) [ -12750.3447] [ 3146] [depth= 1] . ( 4 sec) [ -12702.0544] [ 3122] [depth= 3] . ( 4 sec) [ -12668.0606] [ 3097] [depth= 2] . ( 4 sec) [ -12620.3366] [ 3084] [depth= 8] . ( 4 sec) [ -12595.0726] [ 3080] [depth= 1] . ( 4 sec) [ -12544.6816] [ 3044] [depth= 4] . ( 4 sec) [ -12508.9120] [ 3016] [depth= 4] . ( 4 sec) [ -12496.7999] [ 3000] [depth= 1] . ( 4 sec) [ -12491.8773] [ 2998] [depth= 1] . ( 4 sec) [ -12480.2881] [ 2976] [depth= 1] . ( 4 sec) [ -12465.0110] [ 2984] [depth= 2] . ( 4 sec) [ -12447.6902] [ 2957] [depth= 1] . ( 4 sec) [ -12376.9794] [ 2961] [depth= 1] . ( 4 sec) [ -12348.6611] [ 2901] [depth= 4] . ( 4 sec) [ -12322.1981] [ 2899] [depth= 1] . ( 4 sec) [ -12312.7069] [ 2901] [depth= 12] . ( 4 sec) [ -12175.8856] [ 2859] [depth= 11] . ( 5 sec) [ -12168.4149] [ 2860] [depth= 1] . ( 5 sec) [ -11830.0325] [ 2733] [depth= 8] . ( 5 sec) [ -11803.5232] [ 2727] [depth= 1] . ( 5 sec) [ -11799.1293] [ 2717] [depth= 2] . ( 5 sec) [ -11334.3047] [Branch lengths ] . ( 6 sec) [ -11331.7649] [GTR parameters ] . ( 6 sec) [ -11287.2101] [Alpha ][ 0.947902] . ( 6 sec) [ -11280.8024] [ 2718] [depth= 3] . ( 6 sec) [ -11263.2236] [ 2702] [depth= 1] . ( 6 sec) [ -11219.3006] [ 2667] [depth= 1] . ( 6 sec) [ -11196.0041] [ 2672] [depth= 2] . ( 6 sec) [ -11188.9542] [ 2650] [depth= 3] . ( 6 sec) [ -11154.1492] [ 2630] [depth= 3] . ( 6 sec) [ -11129.6158] [ 2619] [depth= 1] . ( 6 sec) [ -11098.0612] [ 2600] [depth= 3] . ( 7 sec) [ -11098.0287] [ 2603] [depth= 1] . ( 7 sec) [ -11097.8412] [ 2607] [depth= 1] . ( 7 sec) [ -11096.3314] [ 2604] [depth= 1] . ( 7 sec) [ -11092.6462] [ 2607] [depth= 1] . ( 8 sec) [ -11090.1006] [ 2609] [depth= 1] . ( 8 sec) [ -11089.7048] [ 2606] [depth= 2] . ( 8 sec) [ -11087.9481] [ 2599] [depth= 1] . ( 8 sec) [ -11079.7435] [ 2599] [depth= 1] . ( 8 sec) [ -11073.6133] [ 2592] [depth= 1] . ( 8 sec) [ -11073.3981] [ 2596] [depth= 1] . ( 8 sec) [ -11072.7656] [ 2599] [depth= 1] . ( 9 sec) [ -11045.6215] [Branch lengths ] . ( 9 sec) [ -11045.1262] [GTR parameters ] . ( 9 sec) [ -11044.4988] [Alpha ][ 1.022883] . ( 9 sec) [ -11041.7832] [ 2594] [depth= 1] . ( 10 sec) [ -11040.6587] [ 2590] [depth= 1] . ( 12 sec) [ -11040.5955] [ 2587] [depth= 1] . ( 12 sec) [ -11038.0346] [Branch lengths ] . ( 12 sec) [ -11038.0254] [GTR parameters ] . ( 13 sec) [ -11038.0248] [Alpha ][ 1.025279] . ( 15 sec) [ -11037.9184] [Branch lengths ] . ( 36 sec) [ -11037.9105] [Branch lengths ] . ( 36 sec) [ -11037.9105] [Topology ] . ( 37 sec) [ -11037.9100] [Topology ] . ( 37 sec) [ -11037.9100] [GTR parameters ] . ( 37 sec) [ -11037.9099] [Alpha ][ 1.024253] . Checking for NNIs, optimizing five branches... . ( 44 sec) [ -11036.5182] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11036.518183. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -25013.3697] [GTR parameters ] . ( 0 sec) [ -24602.3627] [Alpha ][ 0.500960] . ( 0 sec) [ -23834.9844] [ 5076] [depth= 8] . ( 0 sec) [ -23734.3311] [ 5023] [depth= 7] . ( 0 sec) [ -23702.2012] [ 5033] [depth= 1] . ( 0 sec) [ -23454.6558] [ 4964] [depth= 8] . ( 1 sec) [ -23431.1305] [ 4927] [depth= 2] . ( 1 sec) [ -23289.9887] [ 4915] [depth= 6] . ( 1 sec) [ -23199.7843] [ 4901] [depth= 2] . ( 1 sec) [ -20718.5533] [ 4895] [depth= 7] . ( 1 sec) [ -20306.5108] [ 4844] [depth= 2] . ( 1 sec) [ -20212.9112] [ 4844] [depth= 1] . ( 1 sec) [ -19264.0647] [ 4815] [depth= 4] . ( 1 sec) [ -18975.4521] [ 4702] [depth= 1] . ( 1 sec) [ -18834.4375] [ 4687] [depth= 2] . ( 1 sec) [ -18772.2638] [ 4669] [depth= 2] . ( 1 sec) [ -18643.5742] [ 4561] [depth= 3] . ( 1 sec) [ -18630.5502] [ 4548] [depth= 2] . ( 1 sec) [ -18571.9388] [ 4525] [depth= 8] . ( 1 sec) [ -18446.1866] [ 4515] [depth= 1] . ( 1 sec) [ -17950.2058] [ 4439] [depth= 11] . ( 1 sec) [ -17643.3923] [ 4341] [depth= 20] . ( 1 sec) [ -17564.9971] [ 4293] [depth= 2] . ( 1 sec) [ -17542.0852] [ 4288] [depth= 3] . ( 1 sec) [ -17135.8519] [ 4233] [depth= 16] . ( 1 sec) [ -16709.5190] [ 4083] [depth= 18] . ( 1 sec) [ -16464.9504] [ 4065] [depth= 1] . ( 2 sec) [ -16304.5551] [ 3977] [depth= 1] . ( 2 sec) [ -16266.4195] [ 3963] [depth= 2] . ( 2 sec) [ -16229.0590] [ 3976] [depth= 9] . ( 2 sec) [ -16002.5265] [ 3964] [depth= 1] . ( 2 sec) [ -15930.7747] [ 3918] [depth= 10] . ( 2 sec) [ -15415.1991] [ 3911] [depth= 1] . ( 2 sec) [ -15242.9947] [ 3815] [depth= 3] . ( 2 sec) [ -15204.1102] [ 3782] [depth= 1] . ( 2 sec) [ -15144.7005] [ 3757] [depth= 8] . ( 2 sec) [ -15104.2710] [ 3764] [depth= 1] . ( 2 sec) [ -14706.2648] [ 3645] [depth= 17] . ( 2 sec) [ -14368.2984] [ 3607] [depth= 1] . ( 2 sec) [ -14358.2310] [ 3600] [depth= 1] . ( 2 sec) [ -14104.3836] [ 3501] [depth= 7] . ( 2 sec) [ -14024.1023] [ 3486] [depth= 4] . ( 2 sec) [ -13971.0145] [ 3490] [depth= 1] . ( 2 sec) [ -13762.7683] [ 3409] [depth= 6] . ( 2 sec) [ -13665.1622] [ 3392] [depth= 5] . ( 2 sec) [ -13500.1891] [ 3360] [depth= 4] . ( 2 sec) [ -13499.1199] [ 3372] [depth= 1] . ( 3 sec) [ -13466.6012] [ 3358] [depth= 6] . ( 3 sec) [ -13402.3470] [ 3339] [depth= 3] . ( 3 sec) [ -13271.8606] [ 3344] [depth= 2] . ( 3 sec) [ -13210.6197] [ 3301] [depth= 4] . ( 3 sec) [ -13016.6338] [ 3221] [depth= 10] . ( 3 sec) [ -12776.8143] [ 3203] [depth= 2] . ( 3 sec) [ -12586.7321] [ 3146] [depth= 5] . ( 3 sec) [ -12574.6555] [ 3121] [depth= 1] . ( 3 sec) [ -12547.5190] [ 3110] [depth= 1] . ( 3 sec) [ -12545.8634] [ 3114] [depth= 1] . ( 3 sec) [ -12528.7353] [ 3115] [depth= 1] . ( 3 sec) [ -12438.3558] [ 3064] [depth= 1] . ( 3 sec) [ -12286.1875] [ 2993] [depth= 8] . ( 3 sec) [ -12072.5661] [ 2936] [depth= 3] . ( 3 sec) [ -12065.0333] [ 2939] [depth= 1] . ( 3 sec) [ -11996.6489] [ 2910] [depth= 2] . ( 3 sec) [ -11861.2504] [ 2828] [depth= 4] . ( 3 sec) [ -11797.7249] [ 2807] [depth= 4] . ( 3 sec) [ -11775.3632] [ 2811] [depth= 1] . ( 4 sec) [ -11773.7037] [ 2811] [depth= 1] . ( 4 sec) [ -11740.8826] [ 2823] [depth= 1] . ( 4 sec) [ -11740.7976] [ 2823] [depth= 1] . ( 4 sec) [ -11689.1323] [ 2794] [depth= 3] . ( 4 sec) [ -11667.5076] [ 2780] [depth= 2] . ( 4 sec) [ -11648.6416] [ 2770] [depth= 1] . ( 4 sec) [ -11643.9588] [ 2777] [depth= 1] . ( 4 sec) [ -11636.4754] [ 2770] [depth= 1] . ( 4 sec) [ -11605.4153] [ 2762] [depth= 2] . ( 4 sec) [ -11601.7636] [ 2757] [depth= 1] . ( 4 sec) [ -11585.8806] [ 2743] [depth= 2] . ( 4 sec) [ -11552.9273] [ 2731] [depth= 1] . ( 4 sec) [ -11552.1397] [ 2734] [depth= 1] . ( 5 sec) [ -11282.4888] [Branch lengths ] . ( 5 sec) [ -11281.3724] [GTR parameters ] . ( 5 sec) [ -11238.9364] [Alpha ][ 0.923950] . ( 5 sec) [ -11222.4764] [ 2721] [depth= 1] . ( 5 sec) [ -11222.3969] [ 2724] [depth= 1] . ( 5 sec) [ -11213.9454] [ 2714] [depth= 1] . ( 6 sec) [ -11210.5813] [ 2715] [depth= 2] . ( 6 sec) [ -11205.4064] [ 2708] [depth= 1] . ( 6 sec) [ -11202.1104] [ 2699] [depth= 2] . ( 6 sec) [ -11201.8969] [ 2697] [depth= 1] . ( 6 sec) [ -11183.9496] [ 2672] [depth= 1] . ( 6 sec) [ -11183.7242] [ 2677] [depth= 1] . ( 6 sec) [ -11179.8134] [ 2667] [depth= 1] . ( 6 sec) [ -11176.9674] [ 2662] [depth= 1] . ( 6 sec) [ -11173.4633] [ 2663] [depth= 2] . ( 6 sec) [ -11171.1052] [ 2658] [depth= 1] . ( 6 sec) [ -11146.2904] [ 2648] [depth= 2] . ( 6 sec) [ -11132.9470] [ 2639] [depth= 1] . ( 7 sec) [ -11130.1723] [ 2636] [depth= 1] . ( 7 sec) [ -11110.0259] [ 2609] [depth= 4] . ( 7 sec) [ -11108.1445] [ 2613] [depth= 2] . ( 7 sec) [ -11094.6814] [ 2603] [depth= 2] . ( 7 sec) [ -11093.5090] [ 2602] [depth= 2] . ( 8 sec) [ -11067.1653] [ 2592] [depth= 1] . ( 8 sec) [ -11064.5592] [ 2595] [depth= 1] . ( 8 sec) [ -11064.3276] [ 2600] [depth= 1] . ( 9 sec) [ -11047.4794] [Branch lengths ] . ( 9 sec) [ -11047.0550] [GTR parameters ] . ( 9 sec) [ -11046.0378] [Alpha ][ 1.018131] . ( 9 sec) [ -11043.5195] [ 2596] [depth= 1] . ( 11 sec) [ -11043.0889] [ 2594] [depth= 1] . ( 12 sec) [ -11041.7360] [ 2582] [depth= 1] . ( 12 sec) [ -11038.1154] [Branch lengths ] . ( 12 sec) [ -11038.0967] [GTR parameters ] . ( 13 sec) [ -11038.0905] [Alpha ][ 1.026000] . ( 15 sec) [ -11037.9162] [Branch lengths ] . ( 36 sec) [ -11037.9051] [Branch lengths ] . ( 36 sec) [ -11037.9051] [Topology ] . ( 37 sec) [ -11036.7203] [Topology ] . ( 38 sec) [ -11036.5549] [Topology ] . ( 39 sec) [ -11036.5232] [Topology ] . ( 40 sec) [ -11036.5166] [Topology ] . ( 41 sec) [ -11036.5152] [Topology ] . ( 42 sec) [ -11036.5148] [Topology ] . ( 42 sec) [ -11036.5135] [GTR parameters ] . ( 42 sec) [ -11036.5134] [Alpha ][ 1.024840] . ( 42 sec) [ -11036.5134] [Topology ] . ( 43 sec) [ -11036.5132] [Topology ] . ( 43 sec) [ -11036.5132] [GTR parameters ] . ( 43 sec) [ -11036.5132] [Alpha ][ 1.024840] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11036.513195. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -24371.5535] [GTR parameters ] . ( 1 sec) [ -23885.7965] [Alpha ][ 0.500960] . ( 1 sec) [ -22735.6946] [ 5291] [depth= 6] . ( 1 sec) [ -22570.3328] [ 5199] [depth= 9] . ( 1 sec) [ -22269.1261] [ 5178] [depth= 5] . ( 1 sec) [ -22220.5125] [ 5174] [depth= 1] . ( 1 sec) [ -22024.2459] [ 5087] [depth= 3] . ( 1 sec) [ -21672.8438] [ 5087] [depth= 6] . ( 1 sec) [ -21566.7400] [ 5056] [depth= 6] . ( 1 sec) [ -21373.0263] [ 4978] [depth= 1] . ( 1 sec) [ -21021.5462] [ 4902] [depth= 19] . ( 1 sec) [ -20775.0932] [ 4844] [depth= 21] . ( 1 sec) [ -20565.3552] [ 4790] [depth= 1] . ( 1 sec) [ -20135.3831] [ 4692] [depth= 18] . ( 1 sec) [ -20113.3426] [ 4681] [depth= 1] . ( 2 sec) [ -19765.7802] [ 4634] [depth= 14] . ( 2 sec) [ -19615.1670] [ 4621] [depth= 16] . ( 2 sec) [ -19486.5227] [ 4593] [depth= 1] . ( 2 sec) [ -19375.4770] [ 4574] [depth= 12] . ( 2 sec) [ -19145.0083] [ 4503] [depth= 7] . ( 2 sec) [ -18679.2328] [ 4452] [depth= 12] . ( 2 sec) [ -18611.3746] [ 4458] [depth= 1] . ( 2 sec) [ -18460.9831] [ 4447] [depth= 8] . ( 2 sec) [ -18317.3602] [ 4420] [depth= 12] . ( 2 sec) [ -18174.1449] [ 4361] [depth= 12] . ( 2 sec) [ -17940.2442] [ 4333] [depth= 6] . ( 2 sec) [ -17663.2235] [ 4297] [depth= 14] . ( 2 sec) [ -16808.1119] [ 4151] [depth= 6] . ( 2 sec) [ -16801.1791] [ 4161] [depth= 1] . ( 2 sec) [ -16772.2845] [ 4136] [depth= 1] . ( 2 sec) [ -16747.1713] [ 4126] [depth= 1] . ( 2 sec) [ -15486.7249] [ 3979] [depth= 7] . ( 2 sec) [ -15277.9523] [ 3931] [depth= 9] . ( 2 sec) [ -15018.2716] [ 3812] [depth= 2] . ( 2 sec) [ -14975.2789] [ 3790] [depth= 6] . ( 2 sec) [ -14767.9914] [ 3726] [depth= 1] . ( 3 sec) [ -14728.9495] [ 3705] [depth= 10] . ( 3 sec) [ -14626.0412] [ 3710] [depth= 1] . ( 3 sec) [ -14599.8513] [ 3658] [depth= 1] . ( 3 sec) [ -14465.4299] [ 3608] [depth= 9] . ( 3 sec) [ -14413.3415] [ 3599] [depth= 1] . ( 3 sec) [ -14341.1510] [ 3565] [depth= 1] . ( 3 sec) [ -14222.3464] [ 3493] [depth= 11] . ( 3 sec) [ -14219.3550] [ 3513] [depth= 1] . ( 3 sec) [ -13989.9097] [ 3480] [depth= 7] . ( 3 sec) [ -13304.8178] [ 3322] [depth= 3] . ( 3 sec) [ -13185.5615] [ 3281] [depth= 8] . ( 3 sec) [ -13081.2296] [ 3262] [depth= 1] . ( 3 sec) [ -13045.6989] [ 3219] [depth= 6] . ( 3 sec) [ -12994.8170] [ 3221] [depth= 2] . ( 3 sec) [ -12928.1803] [ 3217] [depth= 1] . ( 3 sec) [ -12829.0987] [ 3175] [depth= 2] . ( 3 sec) [ -12814.2201] [ 3184] [depth= 1] . ( 3 sec) [ -12716.7249] [ 3136] [depth= 3] . ( 3 sec) [ -12702.7206] [ 3139] [depth= 1] . ( 4 sec) [ -12632.5305] [ 3100] [depth= 2] . ( 4 sec) [ -12631.8498] [ 3099] [depth= 5] . ( 4 sec) [ -12614.2101] [ 3104] [depth= 1] . ( 4 sec) [ -12610.9674] [ 3110] [depth= 1] . ( 4 sec) [ -12488.5496] [ 3052] [depth= 8] . ( 4 sec) [ -12479.3032] [ 3054] [depth= 1] . ( 4 sec) [ -12470.2385] [ 3051] [depth= 1] . ( 4 sec) [ -12455.7016] [ 3041] [depth= 1] . ( 4 sec) [ -12448.2945] [ 3040] [depth= 1] . ( 4 sec) [ -12440.4987] [ 3032] [depth= 5] . ( 4 sec) [ -12416.3154] [ 3010] [depth= 2] . ( 4 sec) [ -12414.1307] [ 3009] [depth= 1] . ( 4 sec) [ -12340.1618] [ 2977] [depth= 4] . ( 4 sec) [ -12292.9462] [ 2963] [depth= 1] . ( 4 sec) [ -12174.8839] [ 2937] [depth= 9] . ( 4 sec) [ -12063.5834] [ 2899] [depth= 8] . ( 4 sec) [ -11878.4544] [ 2820] [depth= 6] . ( 4 sec) [ -11864.8803] [ 2813] [depth= 1] . ( 5 sec) [ -11808.2041] [ 2824] [depth= 1] . ( 5 sec) [ -11669.5734] [ 2766] [depth= 6] . ( 5 sec) [ -11653.1016] [ 2751] [depth= 1] . ( 5 sec) [ -11646.9030] [ 2742] [depth= 3] . ( 5 sec) [ -11488.0389] [ 2661] [depth= 4] . ( 5 sec) [ -11481.2759] [ 2663] [depth= 1] . ( 5 sec) [ -11256.7695] [Branch lengths ] . ( 6 sec) [ -11254.3930] [GTR parameters ] . ( 6 sec) [ -11213.4467] [Alpha ][ 0.927848] . ( 6 sec) [ -11180.4347] [ 2662] [depth= 2] . ( 6 sec) [ -11159.9607] [ 2639] [depth= 2] . ( 6 sec) [ -11157.9026] [ 2631] [depth= 1] . ( 6 sec) [ -11156.6950] [ 2633] [depth= 3] . ( 6 sec) [ -11138.5102] [ 2621] [depth= 1] . ( 7 sec) [ -11136.0051] [ 2620] [depth= 1] . ( 7 sec) [ -11118.6483] [ 2611] [depth= 1] . ( 7 sec) [ -11102.4062] [ 2619] [depth= 1] . ( 7 sec) [ -11087.8212] [ 2612] [depth= 2] . ( 7 sec) [ -11072.6077] [ 2602] [depth= 1] . ( 7 sec) [ -11066.1828] [ 2589] [depth= 1] . ( 8 sec) [ -11064.4781] [ 2585] [depth= 1] . ( 8 sec) [ -11063.9855] [ 2588] [depth= 1] . ( 9 sec) [ -11041.4193] [Branch lengths ] . ( 10 sec) [ -11040.9593] [GTR parameters ] . ( 10 sec) [ -11040.0868] [Alpha ][ 1.015784] . ( 13 sec) [ -11037.6357] [Branch lengths ] . ( 28 sec) [ -11037.3567] [ 2585] [depth= 1] . ( 33 sec) [ -11036.6906] [Branch lengths ] . ( 34 sec) [ -11036.6876] [GTR parameters ] . ( 34 sec) [ -11036.6797] [Alpha ][ 1.024673] . ( 34 sec) [ -11036.6797] [Topology ] . ( 35 sec) [ -11036.5761] [Topology ] . ( 35 sec) [ -11036.5313] [Topology ] . ( 36 sec) [ -11036.5184] [Topology ] . ( 37 sec) [ -11036.5150] [Topology ] . ( 38 sec) [ -11036.5140] [Topology ] . ( 39 sec) [ -11036.5136] [Topology ] . ( 39 sec) [ -11036.5134] [GTR parameters ] . ( 39 sec) [ -11036.5134] [Alpha ][ 1.024673] . ( 39 sec) [ -11036.5134] [Topology ] . ( 40 sec) [ -11036.5132] [Topology ] . ( 40 sec) [ -11036.5132] [GTR parameters ] . ( 40 sec) [ -11036.5132] [Alpha ][ 1.024673] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11036.513173. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-11105.297722 . ( 0 sec) [ -11104.8654] [GTR parameters ] . ( 0 sec) [ -11104.6291] [Alpha ][ 0.951977] . ( 0 sec) [ -11104.6291] [Topology ] . ( 1 sec) [ -11049.9254] [Topology ] . ( 2 sec) [ -11041.5184] [Topology ] . ( 3 sec) [ -11039.1384] [Topology ] . ( 4 sec) [ -11038.1125] [Topology ] . ( 5 sec) [ -11037.6114] [Topology ] . ( 6 sec) [ -11037.3609] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11037.360898 . ( 12 sec) [ -11037.3427] [GTR parameters ] . ( 13 sec) [ -11036.8934] [Alpha ][ 1.016031] . ( 13 sec) [ -11036.8934] [Topology ] . ( 13 sec) [ -11036.7055] [Topology ] . ( 14 sec) [ -11036.6169] [Topology ] . ( 15 sec) [ -11036.5714] [Topology ] . ( 16 sec) [ -11036.5476] [Topology ] . ( 17 sec) [ -11036.5352] [Topology ] . ( 18 sec) [ -11036.5287] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11036.528697 . ( 24 sec) [ -11036.5280] [GTR parameters ] . ( 25 sec) [ -11036.5218] [Alpha ][ 1.023867] . ( 25 sec) [ -11036.5218] [Topology ] . ( 25 sec) [ -11036.5176] [Topology ] . ( 26 sec) [ -11036.5155] [Topology ] . ( 27 sec) [ -11036.5143] [Topology ] . ( 28 sec) [ -11036.5137] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11036.513745 . ( 35 sec) [ -11036.5137] [GTR parameters ] . ( 35 sec) [ -11036.5136] [Alpha ][ 1.024891] . ( 35 sec) [ -11036.5136] [Topology ] . ( 36 sec) [ -11036.5133] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 49 sec) [ -11104.8654] [GTR parameters ] . ( 49 sec) [ -11104.6291] [Alpha ][ 0.951977] . ( 51 sec) [ -11101.4271] [ 2589] [depth= 1] . ( 51 sec) [ -11099.2828] [ 2585] [depth= 1] . ( 51 sec) [ -11098.9761] [ 2589] [depth= 1] . ( 51 sec) [ -11098.8135] [ 2587] [depth= 1] . ( 51 sec) [ -11098.0090] [ 2589] [depth= 1] . ( 52 sec) [ -11090.5475] [ 2592] [depth= 1] . ( 52 sec) [ -11090.2370] [ 2589] [depth= 1] . ( 52 sec) [ -11087.8232] [ 2593] [depth= 1] . ( 52 sec) [ -11086.9649] [ 2589] [depth= 1] . ( 52 sec) [ -11043.9560] [Branch lengths ] . ( 53 sec) [ -11043.9256] [GTR parameters ] . ( 53 sec) [ -11043.5907] [Alpha ][ 1.007662] . ( 54 sec) [ -11042.7494] [ 2587] [depth= 1] . ( 55 sec) [ -11038.4482] [Branch lengths ] . ( 56 sec) [ -11038.4449] [GTR parameters ] . ( 56 sec) [ -11038.4308] [Alpha ][ 1.019575] . ( 58 sec) [ -11037.9830] [Branch lengths ] . ( 79 sec) [ -11037.9229] [Branch lengths ] . ( 79 sec) [ -11037.9229] [Topology ] . ( 80 sec) [ -11037.9166] [Topology ] . ( 81 sec) [ -11037.9142] [Topology ] . ( 82 sec) [ -11037.9130] [Topology ] . ( 83 sec) [ -11037.9124] [Topology ] . ( 83 sec) [ -11037.9121] [GTR parameters ] . ( 83 sec) [ -11037.9102] [Alpha ][ 1.023923] . ( 83 sec) [ -11037.9102] [Topology ] . ( 84 sec) [ -11037.9097] [Topology ] . ( 84 sec) [ -11037.9097] [GTR parameters ] . ( 84 sec) [ -11037.9097] [Alpha ][ 1.023923] . Checking for NNIs, optimizing five branches... . ( 91 sec) [ -11036.5192] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -11036.513298 . Log likelihood obtained after SPR moves : -11036.519205 . Log likelihood of the current tree: -11036.513298. . Printing the most likely tree in file 'data5.phy_phyml_tree.txt'... . Best log likelihood : -11036.513173 . Time used 0h1m38s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo