.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data75.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... . 452 patterns found. (out of a total of 500 sites) . 45 sites without polymorphism (9.00%). . [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) [ -23038.0414] [GTR parameters ] . ( 2 sec) [ -22602.3720] [Alpha ][ 0.500960] . ( 2 sec) [ -22554.5977] [ 5668] [depth= 8] . ( 2 sec) [ -22404.3628] [ 5637] [depth= 6] . ( 2 sec) [ -21823.3910] [ 5579] [depth= 6] . ( 2 sec) [ -21546.0788] [ 5554] [depth= 6] . ( 2 sec) [ -21212.6370] [ 5513] [depth= 4] . ( 2 sec) [ -21150.8295] [ 5484] [depth= 7] . ( 2 sec) [ -21137.2330] [ 5447] [depth= 5] . ( 2 sec) [ -20859.3428] [ 5443] [depth= 1] . ( 2 sec) [ -20581.0781] [ 5262] [depth= 10] . ( 2 sec) [ -20177.9587] [ 5187] [depth= 1] . ( 2 sec) [ -19805.4657] [ 5098] [depth= 13] . ( 2 sec) [ -19679.5873] [ 5129] [depth= 4] . ( 2 sec) [ -19612.7377] [ 5119] [depth= 2] . ( 3 sec) [ -19604.2612] [ 5122] [depth= 2] . ( 3 sec) [ -19533.5942] [ 5062] [depth= 2] . ( 3 sec) [ -19530.5547] [ 5067] [depth= 1] . ( 3 sec) [ -19322.5933] [ 5011] [depth= 3] . ( 3 sec) [ -19019.3498] [ 4930] [depth= 1] . ( 3 sec) [ -18953.9875] [ 4906] [depth= 8] . ( 3 sec) [ -18738.5981] [ 4895] [depth= 1] . ( 3 sec) [ -18319.6989] [ 4824] [depth= 9] . ( 3 sec) [ -18239.6187] [ 4769] [depth= 4] . ( 3 sec) [ -18161.1141] [ 4803] [depth= 1] . ( 3 sec) [ -17953.4720] [ 4713] [depth= 11] . ( 3 sec) [ -17826.1588] [ 4626] [depth= 2] . ( 3 sec) [ -17762.7527] [ 4609] [depth= 3] . ( 3 sec) [ -17409.6206] [ 4472] [depth= 11] . ( 3 sec) [ -16956.0638] [ 4302] [depth= 7] . ( 3 sec) [ -16926.8483] [ 4324] [depth= 1] . ( 3 sec) [ -16823.4102] [ 4305] [depth= 4] . ( 3 sec) [ -16360.5590] [ 4284] [depth= 13] . ( 3 sec) [ -16301.7295] [ 4257] [depth= 1] . ( 4 sec) [ -16180.5660] [ 4225] [depth= 5] . ( 4 sec) [ -16117.1723] [ 4216] [depth= 2] . ( 4 sec) [ -15771.1000] [ 4176] [depth= 11] . ( 4 sec) [ -15453.8770] [ 4077] [depth= 5] . ( 4 sec) [ -15205.6178] [ 4049] [depth= 1] . ( 4 sec) [ -14896.2741] [ 3935] [depth= 5] . ( 4 sec) [ -14686.4443] [ 3910] [depth= 4] . ( 4 sec) [ -14636.7531] [ 3895] [depth= 1] . ( 4 sec) [ -14627.3548] [ 3911] [depth= 1] . ( 4 sec) [ -14243.6908] [ 3906] [depth= 7] . ( 4 sec) [ -14228.2189] [ 3892] [depth= 1] . ( 4 sec) [ -14118.0555] [ 3808] [depth= 4] . ( 4 sec) [ -14103.1527] [ 3810] [depth= 1] . ( 4 sec) [ -14031.5086] [ 3751] [depth= 1] . ( 4 sec) [ -13792.1898] [ 3690] [depth= 3] . ( 4 sec) [ -13764.1152] [ 3699] [depth= 4] . ( 5 sec) [ -13751.6746] [ 3703] [depth= 3] . ( 5 sec) [ -13737.2454] [ 3640] [depth= 7] . ( 5 sec) [ -13735.9610] [ 3654] [depth= 1] . ( 5 sec) [ -13709.6754] [ 3610] [depth= 1] . ( 5 sec) [ -13504.5601] [ 3603] [depth= 1] . ( 5 sec) [ -13449.2944] [ 3546] [depth= 4] . ( 5 sec) [ -13428.1597] [ 3523] [depth= 2] . ( 5 sec) [ -13328.9403] [ 3529] [depth= 1] . ( 5 sec) [ -13293.8568] [ 3538] [depth= 1] . ( 5 sec) [ -13259.8267] [ 3514] [depth= 1] . ( 5 sec) [ -13258.4357] [ 3516] [depth= 1] . ( 5 sec) [ -13255.7810] [ 3513] [depth= 2] . ( 5 sec) [ -13203.5948] [ 3551] [depth= 2] . ( 5 sec) [ -13104.6172] [ 3496] [depth= 4] . ( 5 sec) [ -13085.9514] [ 3491] [depth= 1] . ( 5 sec) [ -13077.5203] [ 3485] [depth= 1] . ( 5 sec) [ -12984.7330] [ 3388] [depth= 12] . ( 5 sec) [ -12956.8161] [ 3381] [depth= 2] . ( 5 sec) [ -12858.2872] [ 3334] [depth= 9] . ( 6 sec) [ -12827.1321] [ 3326] [depth= 2] . ( 6 sec) [ -12775.9218] [ 3302] [depth= 1] . ( 6 sec) [ -12741.9988] [ 3316] [depth= 1] . ( 6 sec) [ -12703.6874] [ 3257] [depth= 7] . ( 6 sec) [ -12681.9975] [ 3267] [depth= 1] . ( 6 sec) [ -12656.1471] [ 3232] [depth= 2] . ( 6 sec) [ -12548.8713] [ 3125] [depth= 9] . ( 6 sec) [ -12516.1343] [ 3123] [depth= 1] . ( 6 sec) [ -12454.7261] [ 3094] [depth= 3] . ( 6 sec) [ -12388.6613] [ 3046] [depth= 2] . ( 6 sec) [ -12382.4642] [ 3055] [depth= 1] . ( 6 sec) [ -12310.3095] [ 3059] [depth= 1] . ( 6 sec) [ -12301.5974] [ 3051] [depth= 1] . ( 7 sec) [ -12141.7840] [Branch lengths ] . ( 7 sec) [ -12140.4931] [GTR parameters ] . ( 8 sec) [ -12103.7951] [Alpha ][ 0.861785] . ( 8 sec) [ -12103.2982] [ 3049] [depth= 1] . ( 8 sec) [ -12102.2950] [ 3049] [depth= 1] . ( 8 sec) [ -12101.9759] [ 3052] [depth= 1] . ( 8 sec) [ -12099.9600] [ 3044] [depth= 2] . ( 8 sec) [ -12084.3286] [ 3032] [depth= 1] . ( 9 sec) [ -12083.0205] [ 3014] [depth= 2] . ( 9 sec) [ -11935.7261] [ 2930] [depth= 5] . ( 9 sec) [ -11935.6541] [ 2929] [depth= 2] . ( 9 sec) [ -11934.4257] [ 2933] [depth= 1] . ( 9 sec) [ -11907.6425] [ 2929] [depth= 1] . ( 9 sec) [ -11874.2823] [ 2886] [depth= 3] . ( 9 sec) [ -11859.2235] [ 2873] [depth= 1] . ( 9 sec) [ -11853.6117] [ 2871] [depth= 2] . ( 9 sec) [ -11853.2963] [ 2869] [depth= 1] . ( 10 sec) [ -11848.4567] [ 2869] [depth= 1] . ( 10 sec) [ -11848.0561] [ 2868] [depth= 1] . ( 11 sec) [ -11846.8934] [ 2869] [depth= 1] . ( 11 sec) [ -11846.8611] [ 2871] [depth= 1] . ( 12 sec) [ -11821.3589] [Branch lengths ] . ( 12 sec) [ -11821.2702] [GTR parameters ] . ( 12 sec) [ -11819.9863] [Alpha ][ 0.955032] . ( 13 sec) [ -11819.6819] [ 2874] [depth= 1] . ( 13 sec) [ -11819.4184] [ 2873] [depth= 1] . ( 15 sec) [ -11819.3982] [ 2866] [depth= 1] . ( 16 sec) [ -11818.7487] [ 2863] [depth= 1] . ( 17 sec) [ -11814.6903] [Branch lengths ] . ( 18 sec) [ -11814.6848] [GTR parameters ] . ( 18 sec) [ -11814.6779] [Alpha ][ 0.962353] . ( 22 sec) [ -11814.1712] [Branch lengths ] . ( 58 sec) [ -11814.1046] [Branch lengths ] . ( 58 sec) [ -11814.1046] [Topology ] . ( 59 sec) [ -11814.0972] [Topology ] . ( 61 sec) [ -11814.0942] [Topology ] . ( 62 sec) [ -11814.0926] [Topology ] . ( 64 sec) [ -11814.0918] [Topology ] . ( 64 sec) [ -11814.0915] [GTR parameters ] . ( 64 sec) [ -11814.0909] [Alpha ][ 0.964376] . ( 64 sec) [ -11814.0909] [Topology ] . ( 66 sec) [ -11814.0904] [Topology ] . ( 67 sec) [ -11814.0904] [GTR parameters ] . ( 67 sec) [ -11814.0904] [Alpha ][ 0.964376] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11814.090401. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -23898.5373] [GTR parameters ] . ( 2 sec) [ -23474.1485] [Alpha ][ 0.500960] . ( 2 sec) [ -23294.9365] [ 5669] [depth= 1] . ( 2 sec) [ -22883.9125] [ 5610] [depth= 9] . ( 2 sec) [ -22770.5206] [ 5600] [depth= 3] . ( 2 sec) [ -22568.8121] [ 5566] [depth= 2] . ( 2 sec) [ -22297.5874] [ 5482] [depth= 2] . ( 2 sec) [ -22216.9152] [ 5462] [depth= 6] . ( 2 sec) [ -22139.2884] [ 5441] [depth= 3] . ( 3 sec) [ -22102.5478] [ 5359] [depth= 1] . ( 3 sec) [ -22001.1083] [ 5338] [depth= 2] . ( 3 sec) [ -21854.1064] [ 5256] [depth= 11] . ( 3 sec) [ -21660.5570] [ 5239] [depth= 3] . ( 3 sec) [ -21588.6044] [ 5202] [depth= 1] . ( 3 sec) [ -21475.2191] [ 5194] [depth= 4] . ( 3 sec) [ -20736.6884] [ 5031] [depth= 16] . ( 3 sec) [ -20705.6193] [ 5004] [depth= 17] . ( 3 sec) [ -20436.4546] [ 4918] [depth= 16] . ( 3 sec) [ -20335.1164] [ 4888] [depth= 1] . ( 4 sec) [ -20104.1778] [ 4854] [depth= 2] . ( 4 sec) [ -20028.3638] [ 4825] [depth= 1] . ( 4 sec) [ -19936.2946] [ 4817] [depth= 1] . ( 4 sec) [ -19648.7007] [ 4714] [depth= 4] . ( 4 sec) [ -19615.4314] [ 4719] [depth= 4] . ( 4 sec) [ -19606.2646] [ 4697] [depth= 12] . ( 4 sec) [ -19424.5097] [ 4631] [depth= 5] . ( 4 sec) [ -18908.2153] [ 4612] [depth= 13] . ( 4 sec) [ -18808.7013] [ 4582] [depth= 1] . ( 4 sec) [ -18396.2219] [ 4462] [depth= 7] . ( 5 sec) [ -18378.0766] [ 4457] [depth= 2] . ( 5 sec) [ -18011.9660] [ 4386] [depth= 1] . ( 5 sec) [ -17812.3269] [ 4299] [depth= 13] . ( 5 sec) [ -17706.6226] [ 4188] [depth= 14] . ( 5 sec) [ -17596.3635] [ 4108] [depth= 3] . ( 5 sec) [ -17425.7138] [ 4107] [depth= 1] . ( 5 sec) [ -17381.6980] [ 4105] [depth= 2] . ( 5 sec) [ -17345.2234] [ 4103] [depth= 1] . ( 5 sec) [ -17158.6670] [ 4017] [depth= 14] . ( 5 sec) [ -16111.9248] [ 4041] [depth= 1] . ( 6 sec) [ -15952.7003] [ 4020] [depth= 1] . ( 6 sec) [ -15753.8950] [ 3928] [depth= 13] . ( 6 sec) [ -15712.2657] [ 3870] [depth= 11] . ( 6 sec) [ -15679.8491] [ 3873] [depth= 6] . ( 6 sec) [ -15660.5056] [ 3879] [depth= 1] . ( 6 sec) [ -15471.9739] [ 3836] [depth= 11] . ( 6 sec) [ -15366.9639] [ 3801] [depth= 4] . ( 6 sec) [ -14934.4262] [ 3689] [depth= 4] . ( 6 sec) [ -14903.8664] [ 3689] [depth= 1] . ( 6 sec) [ -14744.9287] [ 3640] [depth= 3] . ( 6 sec) [ -14667.1877] [ 3633] [depth= 1] . ( 7 sec) [ -14344.5910] [ 3628] [depth= 1] . ( 7 sec) [ -14140.2931] [ 3471] [depth= 4] . ( 7 sec) [ -14096.1289] [ 3455] [depth= 2] . ( 7 sec) [ -14092.1006] [ 3449] [depth= 1] . ( 7 sec) [ -13977.9501] [ 3426] [depth= 1] . ( 7 sec) [ -13719.0306] [ 3421] [depth= 1] . ( 7 sec) [ -13718.0791] [ 3423] [depth= 2] . ( 7 sec) [ -13693.9541] [ 3376] [depth= 4] . ( 7 sec) [ -13573.2062] [ 3278] [depth= 4] . ( 8 sec) [ -13477.4768] [ 3264] [depth= 1] . ( 8 sec) [ -13457.9260] [ 3260] [depth= 1] . ( 8 sec) [ -13360.8107] [ 3301] [depth= 1] . ( 8 sec) [ -13331.3545] [ 3296] [depth= 1] . ( 8 sec) [ -13326.8795] [ 3302] [depth= 1] . ( 8 sec) [ -13323.8109] [ 3307] [depth= 1] . ( 8 sec) [ -13164.5388] [ 3266] [depth= 1] . ( 8 sec) [ -12950.6359] [ 3185] [depth= 3] . ( 8 sec) [ -12806.4940] [ 3174] [depth= 1] . ( 8 sec) [ -12720.2394] [ 3171] [depth= 1] . ( 9 sec) [ -12716.7882] [ 3172] [depth= 1] . ( 9 sec) [ -12710.2354] [ 3175] [depth= 1] . ( 9 sec) [ -12655.4770] [ 3166] [depth= 4] . ( 9 sec) [ -12653.6983] [ 3160] [depth= 1] . ( 9 sec) [ -12648.9616] [ 3159] [depth= 1] . ( 9 sec) [ -12538.9429] [ 3125] [depth= 4] . ( 9 sec) [ -12385.9680] [ 2997] [depth= 9] . ( 9 sec) [ -12371.5115] [ 2992] [depth= 1] . ( 9 sec) [ -12358.9807] [ 3012] [depth= 1] . ( 10 sec) [ -12108.4595] [Branch lengths ] . ( 11 sec) [ -12107.2169] [GTR parameters ] . ( 11 sec) [ -12073.8240] [Alpha ][ 0.860388] . ( 11 sec) [ -12056.1703] [ 2994] [depth= 1] . ( 11 sec) [ -12052.8425] [ 2999] [depth= 1] . ( 11 sec) [ -12049.3207] [ 2988] [depth= 1] . ( 11 sec) [ -12045.2872] [ 2980] [depth= 1] . ( 11 sec) [ -11919.3792] [ 2898] [depth= 3] . ( 12 sec) [ -11919.3437] [ 2899] [depth= 1] . ( 12 sec) [ -11893.8619] [ 2877] [depth= 1] . ( 12 sec) [ -11882.5800] [ 2894] [depth= 1] . ( 12 sec) [ -11882.4786] [ 2895] [depth= 1] . ( 13 sec) [ -11881.9234] [ 2887] [depth= 1] . ( 13 sec) [ -11881.8157] [ 2892] [depth= 1] . ( 13 sec) [ -11873.7369] [ 2881] [depth= 1] . ( 13 sec) [ -11865.8474] [ 2872] [depth= 4] . ( 13 sec) [ -11864.8325] [ 2873] [depth= 1] . ( 13 sec) [ -11863.3656] [ 2874] [depth= 1] . ( 14 sec) [ -11859.9096] [ 2862] [depth= 1] . ( 14 sec) [ -11853.0664] [ 2856] [depth= 1] . ( 14 sec) [ -11852.6865] [ 2861] [depth= 1] . ( 15 sec) [ -11851.4213] [ 2856] [depth= 1] . ( 15 sec) [ -11847.9845] [ 2856] [depth= 1] . ( 16 sec) [ -11821.6673] [Branch lengths ] . ( 17 sec) [ -11821.5862] [GTR parameters ] . ( 17 sec) [ -11820.2974] [Alpha ][ 0.954378] . ( 17 sec) [ -11819.0013] [ 2859] [depth= 1] . ( 18 sec) [ -11818.5213] [ 2861] [depth= 1] . ( 19 sec) [ -11817.4459] [ 2857] [depth= 1] . ( 20 sec) [ -11817.2270] [ 2861] [depth= 1] . ( 21 sec) [ -11815.0205] [Branch lengths ] . ( 21 sec) [ -11815.0160] [GTR parameters ] . ( 22 sec) [ -11815.0105] [Alpha ][ 0.960848] . ( 25 sec) [ -11814.7536] [Branch lengths ] . ( 58 sec) [ -11814.7174] [Branch lengths ] . ( 58 sec) [ -11814.7174] [Topology ] . ( 59 sec) [ -11814.7140] [Topology ] . ( 61 sec) [ -11814.7129] [Topology ] . ( 62 sec) [ -11814.7124] [Topology ] . ( 62 sec) [ -11814.7124] [GTR parameters ] . ( 63 sec) [ -11814.7112] [Alpha ][ 0.963802] . ( 63 sec) [ -11814.7112] [Topology ] . ( 64 sec) [ -11814.7109] [Topology ] . ( 64 sec) [ -11814.7108] [GTR parameters ] . ( 64 sec) [ -11814.7108] [Alpha ][ 0.963802] . Checking for NNIs, optimizing five branches... . ( 76 sec) [ -11814.1027] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11814.102701. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -24789.3340] [GTR parameters ] . ( 2 sec) [ -24292.4968] [Alpha ][ 0.500960] . ( 2 sec) [ -24144.7534] [ 5926] [depth= 5] . ( 2 sec) [ -23855.7722] [ 5891] [depth= 5] . ( 2 sec) [ -23798.8269] [ 5855] [depth= 5] . ( 2 sec) [ -23463.3105] [ 5831] [depth= 2] . ( 2 sec) [ -23045.2124] [ 5718] [depth= 2] . ( 2 sec) [ -23035.0634] [ 5716] [depth= 3] . ( 2 sec) [ -22427.1246] [ 5541] [depth= 8] . ( 2 sec) [ -21820.3795] [ 5528] [depth= 6] . ( 2 sec) [ -21428.1261] [ 5530] [depth= 11] . ( 3 sec) [ -21381.8011] [ 5476] [depth= 5] . ( 3 sec) [ -20878.9928] [ 5299] [depth= 10] . ( 3 sec) [ -20415.0305] [ 5147] [depth= 5] . ( 3 sec) [ -20229.0935] [ 5062] [depth= 6] . ( 3 sec) [ -19973.3470] [ 5038] [depth= 9] . ( 3 sec) [ -19857.2630] [ 4979] [depth= 13] . ( 3 sec) [ -19705.8845] [ 4973] [depth= 1] . ( 3 sec) [ -19621.0241] [ 4906] [depth= 10] . ( 3 sec) [ -19590.2226] [ 4904] [depth= 1] . ( 3 sec) [ -19232.1100] [ 4820] [depth= 12] . ( 3 sec) [ -18818.4197] [ 4812] [depth= 1] . ( 3 sec) [ -18110.9927] [ 4758] [depth= 3] . ( 4 sec) [ -17677.0820] [ 4530] [depth= 9] . ( 4 sec) [ -17437.7096] [ 4525] [depth= 1] . ( 4 sec) [ -17316.4491] [ 4488] [depth= 1] . ( 4 sec) [ -17229.3902] [ 4462] [depth= 4] . ( 4 sec) [ -17188.4677] [ 4479] [depth= 1] . ( 4 sec) [ -16990.1080] [ 4460] [depth= 6] . ( 4 sec) [ -16988.5046] [ 4458] [depth= 1] . ( 4 sec) [ -16784.6897] [ 4287] [depth= 12] . ( 4 sec) [ -16583.1420] [ 4291] [depth= 1] . ( 4 sec) [ -16556.8921] [ 4292] [depth= 1] . ( 5 sec) [ -16526.2877] [ 4289] [depth= 9] . ( 5 sec) [ -16524.5188] [ 4305] [depth= 1] . ( 5 sec) [ -16218.6342] [ 4193] [depth= 8] . ( 5 sec) [ -15619.3171] [ 4120] [depth= 14] . ( 5 sec) [ -15517.5870] [ 4059] [depth= 8] . ( 5 sec) [ -15391.0446] [ 4004] [depth= 1] . ( 5 sec) [ -15196.8556] [ 3960] [depth= 10] . ( 5 sec) [ -15149.0319] [ 3962] [depth= 6] . ( 5 sec) [ -15054.2742] [ 3857] [depth= 10] . ( 6 sec) [ -15051.6515] [ 3890] [depth= 1] . ( 6 sec) [ -15003.4663] [ 3846] [depth= 3] . ( 6 sec) [ -14747.9814] [ 3642] [depth= 11] . ( 6 sec) [ -14585.8161] [ 3642] [depth= 1] . ( 6 sec) [ -14451.0152] [ 3603] [depth= 2] . ( 6 sec) [ -14441.9147] [ 3607] [depth= 2] . ( 6 sec) [ -14354.5284] [ 3556] [depth= 6] . ( 6 sec) [ -14246.6406] [ 3539] [depth= 2] . ( 6 sec) [ -14172.3567] [ 3520] [depth= 1] . ( 7 sec) [ -14102.9592] [ 3509] [depth= 9] . ( 7 sec) [ -14090.2329] [ 3527] [depth= 1] . ( 7 sec) [ -14089.2112] [ 3526] [depth= 1] . ( 7 sec) [ -14024.9778] [ 3451] [depth= 8] . ( 7 sec) [ -14004.6426] [ 3448] [depth= 1] . ( 7 sec) [ -13969.2411] [ 3449] [depth= 1] . ( 7 sec) [ -13956.0791] [ 3433] [depth= 1] . ( 7 sec) [ -13944.9315] [ 3430] [depth= 7] . ( 7 sec) [ -13904.9670] [ 3378] [depth= 6] . ( 8 sec) [ -13891.9025] [ 3396] [depth= 2] . ( 8 sec) [ -13873.8671] [ 3376] [depth= 2] . ( 8 sec) [ -13839.7628] [ 3369] [depth= 1] . ( 8 sec) [ -13598.5553] [ 3308] [depth= 5] . ( 8 sec) [ -13475.2649] [ 3313] [depth= 5] . ( 8 sec) [ -13433.3903] [ 3261] [depth= 3] . ( 8 sec) [ -13363.3635] [ 3264] [depth= 2] . ( 8 sec) [ -13190.1488] [ 3265] [depth= 1] . ( 8 sec) [ -13093.5751] [ 3262] [depth= 1] . ( 9 sec) [ -12994.4198] [ 3200] [depth= 8] . ( 9 sec) [ -12953.5034] [ 3220] [depth= 4] . ( 9 sec) [ -12899.1925] [ 3205] [depth= 2] . ( 9 sec) [ -12793.4939] [ 3193] [depth= 6] . ( 9 sec) [ -12767.5449] [ 3193] [depth= 6] . ( 9 sec) [ -12731.8601] [ 3178] [depth= 1] . ( 9 sec) [ -12699.3623] [ 3163] [depth= 1] . ( 9 sec) [ -12681.8999] [ 3138] [depth= 1] . ( 9 sec) [ -12618.4366] [ 3145] [depth= 10] . ( 9 sec) [ -12516.6682] [ 3076] [depth= 2] . ( 10 sec) [ -12427.4448] [ 3034] [depth= 1] . ( 10 sec) [ -12415.4388] [ 3018] [depth= 4] . ( 10 sec) [ -12410.8305] [ 3012] [depth= 1] . ( 10 sec) [ -12409.3232] [ 3013] [depth= 1] . ( 11 sec) [ -12084.6079] [Branch lengths ] . ( 11 sec) [ -12083.0441] [GTR parameters ] . ( 11 sec) [ -12046.6131] [Alpha ][ 0.872055] . ( 12 sec) [ -12038.9702] [ 3024] [depth= 4] . ( 12 sec) [ -12028.3112] [ 3019] [depth= 1] . ( 12 sec) [ -12022.2787] [ 3020] [depth= 1] . ( 12 sec) [ -12016.0792] [ 2994] [depth= 3] . ( 12 sec) [ -12008.4481] [ 2996] [depth= 2] . ( 13 sec) [ -11993.5800] [ 2987] [depth= 1] . ( 13 sec) [ -11985.5370] [ 2975] [depth= 2] . ( 13 sec) [ -11979.4131] [ 2979] [depth= 4] . ( 13 sec) [ -11968.1631] [ 2969] [depth= 2] . ( 13 sec) [ -11962.6075] [ 2961] [depth= 1] . ( 13 sec) [ -11962.5372] [ 2955] [depth= 1] . ( 13 sec) [ -11960.6503] [ 2942] [depth= 1] . ( 13 sec) [ -11956.5024] [ 2947] [depth= 1] . ( 14 sec) [ -11955.9873] [ 2948] [depth= 1] . ( 14 sec) [ -11955.7652] [ 2949] [depth= 1] . ( 14 sec) [ -11946.2228] [ 2939] [depth= 1] . ( 14 sec) [ -11945.6213] [ 2936] [depth= 1] . ( 14 sec) [ -11904.4372] [ 2896] [depth= 2] . ( 14 sec) [ -11899.4985] [ 2898] [depth= 1] . ( 15 sec) [ -11897.3189] [ 2892] [depth= 1] . ( 15 sec) [ -11892.5253] [ 2893] [depth= 1] . ( 15 sec) [ -11885.3420] [ 2892] [depth= 1] . ( 15 sec) [ -11853.3189] [ 2877] [depth= 2] . ( 15 sec) [ -11852.6447] [ 2880] [depth= 1] . ( 15 sec) [ -11851.9664] [ 2881] [depth= 1] . ( 16 sec) [ -11851.5641] [ 2861] [depth= 2] . ( 16 sec) [ -11851.0509] [ 2863] [depth= 1] . ( 17 sec) [ -11826.9990] [Branch lengths ] . ( 18 sec) [ -11826.7922] [GTR parameters ] . ( 18 sec) [ -11825.9265] [Alpha ][ 0.948697] . ( 19 sec) [ -11825.5039] [ 2865] [depth= 1] . ( 19 sec) [ -11825.0207] [ 2863] [depth= 1] . ( 20 sec) [ -11824.3222] [ 2866] [depth= 1] . ( 20 sec) [ -11823.8657] [ 2863] [depth= 1] . ( 23 sec) [ -11817.7234] [Branch lengths ] . ( 23 sec) [ -11817.7123] [GTR parameters ] . ( 23 sec) [ -11817.6928] [Alpha ][ 0.960962] . ( 28 sec) [ -11814.1630] [Branch lengths ] . ( 57 sec) [ -11814.0993] [Branch lengths ] . ( 57 sec) [ -11814.0993] [Topology ] . ( 58 sec) [ -11814.0950] [Topology ] . ( 60 sec) [ -11814.0939] [Topology ] . ( 61 sec) [ -11814.0933] [Topology ] . ( 62 sec) [ -11814.0919] [GTR parameters ] . ( 62 sec) [ -11814.0904] [Alpha ][ 0.964347] . ( 62 sec) [ -11814.0904] [Topology ] . ( 63 sec) [ -11814.0900] [Topology ] . ( 63 sec) [ -11814.0900] [GTR parameters ] . ( 63 sec) [ -11814.0900] [Alpha ][ 0.964347] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11814.090022. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -23672.5637] [GTR parameters ] . ( 1 sec) [ -23230.9061] [Alpha ][ 0.500960] . ( 1 sec) [ -22923.8244] [ 5820] [depth= 4] . ( 1 sec) [ -22349.1205] [ 5792] [depth= 10] . ( 1 sec) [ -22148.1306] [ 5736] [depth= 2] . ( 1 sec) [ -21980.1308] [ 5659] [depth= 1] . ( 1 sec) [ -21561.2727] [ 5586] [depth= 5] . ( 1 sec) [ -21542.9657] [ 5580] [depth= 3] . ( 1 sec) [ -21518.7823] [ 5548] [depth= 4] . ( 1 sec) [ -21242.9414] [ 5492] [depth= 1] . ( 1 sec) [ -20922.6744] [ 5435] [depth= 8] . ( 1 sec) [ -20835.9227] [ 5347] [depth= 2] . ( 1 sec) [ -20568.6078] [ 5304] [depth= 5] . ( 2 sec) [ -20354.9494] [ 5212] [depth= 3] . ( 2 sec) [ -20253.7320] [ 5189] [depth= 2] . ( 2 sec) [ -19908.3943] [ 5178] [depth= 4] . ( 2 sec) [ -19501.9577] [ 5041] [depth= 8] . ( 2 sec) [ -19373.1200] [ 5066] [depth= 1] . ( 2 sec) [ -19293.2361] [ 5042] [depth= 11] . ( 2 sec) [ -19153.3594] [ 4965] [depth= 1] . ( 2 sec) [ -18880.3276] [ 4911] [depth= 6] . ( 2 sec) [ -18727.2636] [ 4860] [depth= 3] . ( 2 sec) [ -18528.5216] [ 4783] [depth= 2] . ( 2 sec) [ -18346.0437] [ 4756] [depth= 2] . ( 2 sec) [ -18033.2217] [ 4736] [depth= 9] . ( 3 sec) [ -17808.9074] [ 4710] [depth= 9] . ( 3 sec) [ -17479.5180] [ 4575] [depth= 5] . ( 3 sec) [ -17376.0484] [ 4589] [depth= 9] . ( 3 sec) [ -17119.8820] [ 4539] [depth= 12] . ( 3 sec) [ -16692.2214] [ 4468] [depth= 2] . ( 3 sec) [ -16582.3213] [ 4431] [depth= 1] . ( 3 sec) [ -16463.6685] [ 4361] [depth= 6] . ( 3 sec) [ -16394.2574] [ 4331] [depth= 12] . ( 3 sec) [ -16233.6028] [ 4275] [depth= 8] . ( 3 sec) [ -16203.7107] [ 4270] [depth= 1] . ( 3 sec) [ -16048.2058] [ 4205] [depth= 7] . ( 3 sec) [ -16007.1334] [ 4195] [depth= 2] . ( 4 sec) [ -15886.6549] [ 4151] [depth= 3] . ( 4 sec) [ -15883.3038] [ 4148] [depth= 1] . ( 4 sec) [ -15662.8705] [ 4039] [depth= 9] . ( 4 sec) [ -15588.2939] [ 4016] [depth= 5] . ( 4 sec) [ -15546.0210] [ 3982] [depth= 1] . ( 4 sec) [ -15475.7249] [ 3964] [depth= 4] . ( 4 sec) [ -15419.4613] [ 3932] [depth= 4] . ( 4 sec) [ -15334.2857] [ 3889] [depth= 3] . ( 4 sec) [ -15305.1124] [ 3868] [depth= 1] . ( 4 sec) [ -15128.1264] [ 3800] [depth= 2] . ( 4 sec) [ -14972.7884] [ 3745] [depth= 3] . ( 4 sec) [ -14919.1221] [ 3742] [depth= 1] . ( 4 sec) [ -14911.7673] [ 3740] [depth= 1] . ( 5 sec) [ -14893.9840] [ 3733] [depth= 1] . ( 5 sec) [ -14745.3208] [ 3685] [depth= 2] . ( 5 sec) [ -14579.9598] [ 3604] [depth= 4] . ( 5 sec) [ -14468.4267] [ 3570] [depth= 4] . ( 5 sec) [ -14462.3612] [ 3537] [depth= 1] . ( 5 sec) [ -14366.9248] [ 3519] [depth= 9] . ( 5 sec) [ -13975.7622] [ 3484] [depth= 6] . ( 5 sec) [ -13346.6285] [ 3378] [depth= 6] . ( 5 sec) [ -13269.2525] [ 3343] [depth= 2] . ( 5 sec) [ -13245.9258] [ 3360] [depth= 1] . ( 6 sec) [ -13229.5047] [ 3353] [depth= 1] . ( 6 sec) [ -13159.1108] [ 3286] [depth= 2] . ( 6 sec) [ -13150.7013] [ 3268] [depth= 1] . ( 6 sec) [ -13070.9986] [ 3232] [depth= 3] . ( 6 sec) [ -12838.5015] [ 3141] [depth= 5] . ( 6 sec) [ -12824.5195] [ 3128] [depth= 1] . ( 6 sec) [ -12823.5505] [ 3133] [depth= 1] . ( 6 sec) [ -12604.3171] [ 3096] [depth= 7] . ( 6 sec) [ -12596.2106] [ 3096] [depth= 1] . ( 6 sec) [ -12485.0758] [ 3014] [depth= 15] . ( 6 sec) [ -12473.1366] [ 3013] [depth= 1] . ( 6 sec) [ -12407.4596] [ 2979] [depth= 1] . ( 7 sec) [ -12372.8410] [ 2948] [depth= 1] . ( 7 sec) [ -12366.5371] [ 2942] [depth= 3] . ( 7 sec) [ -12255.0499] [ 2906] [depth= 2] . ( 7 sec) [ -12215.3525] [ 2885] [depth= 1] . ( 7 sec) [ -12201.2243] [ 2879] [depth= 1] . ( 7 sec) [ -12159.9708] [ 2878] [depth= 1] . ( 8 sec) [ -11892.9541] [Branch lengths ] . ( 9 sec) [ -11892.1250] [GTR parameters ] . ( 9 sec) [ -11849.9824] [Alpha ][ 0.920448] . ( 9 sec) [ -11841.7632] [ 2865] [depth= 3] . ( 10 sec) [ -11841.5939] [ 2868] [depth= 1] . ( 10 sec) [ -11839.0397] [ 2869] [depth= 2] . ( 10 sec) [ -11838.3402] [ 2867] [depth= 1] . ( 11 sec) [ -11837.5668] [ 2869] [depth= 1] . ( 11 sec) [ -11836.2210] [ 2874] [depth= 1] . ( 12 sec) [ -11835.6771] [ 2872] [depth= 1] . ( 13 sec) [ -11822.2253] [Branch lengths ] . ( 13 sec) [ -11822.1880] [GTR parameters ] . ( 13 sec) [ -11822.0300] [Alpha ][ 0.954429] . ( 17 sec) [ -11820.2961] [Branch lengths ] . ( 58 sec) [ -11818.8340] [Branch lengths ] . ( 58 sec) [ -11818.8340] [Topology ] . ( 59 sec) [ -11816.4883] [Topology ] . ( 61 sec) [ -11815.7356] [Topology ] . ( 62 sec) [ -11815.5429] [Topology ] . ( 64 sec) [ -11815.4960] [Topology ] . ( 65 sec) [ -11815.4858] [Topology ] . ( 66 sec) [ -11815.4837] [Topology ] . ( 66 sec) [ -11815.4834] [GTR parameters ] . ( 66 sec) [ -11815.4725] [Alpha ][ 0.963573] . ( 66 sec) [ -11815.4725] [Topology ] . ( 68 sec) [ -11815.4715] [Topology ] . ( 69 sec) [ -11815.4713] [Topology ] . ( 69 sec) [ -11815.4713] [GTR parameters ] . ( 69 sec) [ -11815.4713] [Alpha ][ 0.963573] . ( 69 sec) [ -11815.4713] [Topology ] . ( 71 sec) [ -11815.4712] [Topology ] . ( 71 sec) [ -11815.4712] [GTR parameters ] . ( 71 sec) [ -11815.4712] [Alpha ][ 0.963573] . Checking for NNIs, optimizing five branches... . ( 81 sec) [ -11814.0966] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11814.096610. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -23580.7707] [GTR parameters ] . ( 2 sec) [ -23107.4426] [Alpha ][ 0.500960] . ( 2 sec) [ -22892.4035] [ 5983] [depth= 7] . ( 2 sec) [ -22561.1981] [ 5956] [depth= 10] . ( 2 sec) [ -22464.2436] [ 5925] [depth= 5] . ( 2 sec) [ -22444.5029] [ 5917] [depth= 4] . ( 2 sec) [ -22099.3576] [ 5874] [depth= 3] . ( 2 sec) [ -22084.1430] [ 5864] [depth= 1] . ( 2 sec) [ -21956.8172] [ 5830] [depth= 6] . ( 2 sec) [ -21726.1815] [ 5744] [depth= 1] . ( 2 sec) [ -21358.3835] [ 5631] [depth= 12] . ( 2 sec) [ -21275.9059] [ 5588] [depth= 1] . ( 2 sec) [ -21145.3630] [ 5552] [depth= 9] . ( 3 sec) [ -20916.7550] [ 5491] [depth= 2] . ( 3 sec) [ -20855.1266] [ 5474] [depth= 1] . ( 3 sec) [ -20533.9841] [ 5416] [depth= 5] . ( 3 sec) [ -20415.5359] [ 5374] [depth= 4] . ( 3 sec) [ -20386.9274] [ 5369] [depth= 1] . ( 3 sec) [ -20325.8198] [ 5341] [depth= 1] . ( 3 sec) [ -19850.0900] [ 5327] [depth= 2] . ( 3 sec) [ -19743.5723] [ 5253] [depth= 1] . ( 4 sec) [ -19129.4057] [ 5253] [depth= 1] . ( 4 sec) [ -18922.8236] [ 5195] [depth= 7] . ( 4 sec) [ -18900.1304] [ 5193] [depth= 1] . ( 4 sec) [ -18808.0006] [ 5146] [depth= 10] . ( 4 sec) [ -18794.2530] [ 5172] [depth= 1] . ( 4 sec) [ -18472.5488] [ 4997] [depth= 14] . ( 4 sec) [ -18107.2067] [ 4903] [depth= 12] . ( 4 sec) [ -17970.2202] [ 4860] [depth= 3] . ( 4 sec) [ -17909.5179] [ 4872] [depth= 4] . ( 4 sec) [ -17536.3447] [ 4817] [depth= 8] . ( 4 sec) [ -17528.5443] [ 4816] [depth= 4] . ( 5 sec) [ -17394.1092] [ 4788] [depth= 2] . ( 5 sec) [ -17069.0182] [ 4731] [depth= 13] . ( 5 sec) [ -16676.3293] [ 4587] [depth= 7] . ( 5 sec) [ -16254.9308] [ 4535] [depth= 3] . ( 5 sec) [ -16070.4759] [ 4449] [depth= 6] . ( 5 sec) [ -16068.1546] [ 4453] [depth= 1] . ( 5 sec) [ -15877.5503] [ 4399] [depth= 1] . ( 5 sec) [ -15814.3381] [ 4339] [depth= 3] . ( 5 sec) [ -15778.3771] [ 4330] [depth= 1] . ( 6 sec) [ -15474.1128] [ 4117] [depth= 10] . ( 6 sec) [ -15391.5432] [ 4094] [depth= 11] . ( 6 sec) [ -15369.8253] [ 4180] [depth= 1] . ( 6 sec) [ -15234.0287] [ 4049] [depth= 2] . ( 6 sec) [ -15017.8758] [ 4004] [depth= 8] . ( 6 sec) [ -14853.3677] [ 3926] [depth= 9] . ( 6 sec) [ -14828.8449] [ 3922] [depth= 3] . ( 6 sec) [ -14792.4016] [ 3913] [depth= 1] . ( 6 sec) [ -14727.8414] [ 3867] [depth= 8] . ( 6 sec) [ -14718.1576] [ 3865] [depth= 4] . ( 6 sec) [ -14702.4691] [ 3852] [depth= 1] . ( 7 sec) [ -14683.4118] [ 3816] [depth= 1] . ( 7 sec) [ -14645.5418] [ 3760] [depth= 2] . ( 7 sec) [ -14613.6828] [ 3757] [depth= 2] . ( 7 sec) [ -14561.1984] [ 3765] [depth= 1] . ( 7 sec) [ -14546.7275] [ 3753] [depth= 7] . ( 7 sec) [ -14433.7529] [ 3717] [depth= 2] . ( 7 sec) [ -14425.6848] [ 3716] [depth= 1] . ( 7 sec) [ -14416.2051] [ 3710] [depth= 1] . ( 7 sec) [ -14243.6481] [ 3682] [depth= 2] . ( 8 sec) [ -14133.6539] [ 3640] [depth= 7] . ( 8 sec) [ -13974.3749] [ 3583] [depth= 4] . ( 8 sec) [ -13971.7240] [ 3589] [depth= 1] . ( 8 sec) [ -13931.4824] [ 3580] [depth= 2] . ( 8 sec) [ -13883.7392] [ 3596] [depth= 1] . ( 8 sec) [ -13798.6659] [ 3567] [depth= 1] . ( 8 sec) [ -13791.5114] [ 3561] [depth= 1] . ( 8 sec) [ -13660.4879] [ 3513] [depth= 6] . ( 8 sec) [ -13515.3725] [ 3510] [depth= 1] . ( 8 sec) [ -13491.4619] [ 3503] [depth= 1] . ( 8 sec) [ -13287.4031] [ 3408] [depth= 2] . ( 9 sec) [ -13237.3163] [ 3401] [depth= 1] . ( 9 sec) [ -13143.3615] [ 3386] [depth= 2] . ( 9 sec) [ -13106.8562] [ 3332] [depth= 2] . ( 9 sec) [ -13039.9468] [ 3325] [depth= 4] . ( 9 sec) [ -12937.5880] [ 3275] [depth= 6] . ( 9 sec) [ -12905.6024] [ 3270] [depth= 1] . ( 9 sec) [ -12847.5281] [ 3239] [depth= 1] . ( 9 sec) [ -12841.9017] [ 3242] [depth= 1] . ( 10 sec) [ -12830.9483] [ 3242] [depth= 1] . ( 10 sec) [ -12723.3587] [ 3190] [depth= 13] . ( 10 sec) [ -12709.6889] [ 3181] [depth= 2] . ( 10 sec) [ -12694.7072] [ 3169] [depth= 1] . ( 10 sec) [ -12690.4482] [ 3169] [depth= 2] . ( 10 sec) [ -12682.2596] [ 3157] [depth= 1] . ( 10 sec) [ -12681.5363] [ 3156] [depth= 1] . ( 10 sec) [ -12442.2503] [ 3085] [depth= 2] . ( 11 sec) [ -12277.3491] [Branch lengths ] . ( 11 sec) [ -12277.1795] [GTR parameters ] . ( 11 sec) [ -12241.5894] [Alpha ][ 0.858924] . ( 12 sec) [ -12133.2851] [ 3032] [depth= 9] . ( 12 sec) [ -12124.3320] [ 3022] [depth= 1] . ( 12 sec) [ -12108.5966] [ 3015] [depth= 1] . ( 13 sec) [ -12107.3015] [ 3014] [depth= 1] . ( 13 sec) [ -12106.2099] [ 3017] [depth= 1] . ( 13 sec) [ -12105.6883] [ 3010] [depth= 1] . ( 13 sec) [ -11963.6773] [ 2925] [depth= 8] . ( 14 sec) [ -11962.7476] [ 2924] [depth= 1] . ( 14 sec) [ -11922.9688] [ 2916] [depth= 2] . ( 14 sec) [ -11918.3414] [ 2939] [depth= 1] . ( 14 sec) [ -11906.2294] [ 2937] [depth= 1] . ( 14 sec) [ -11887.2440] [ 2935] [depth= 4] . ( 15 sec) [ -11881.9486] [ 2937] [depth= 1] . ( 15 sec) [ -11845.7868] [ 2867] [depth= 6] . ( 15 sec) [ -11844.4851] [ 2872] [depth= 1] . ( 15 sec) [ -11844.3069] [ 2857] [depth= 1] . ( 17 sec) [ -11818.9221] [Branch lengths ] . ( 17 sec) [ -11818.4422] [GTR parameters ] . ( 17 sec) [ -11817.0929] [Alpha ][ 0.955148] . ( 19 sec) [ -11816.8782] [ 2861] [depth= 1] . ( 22 sec) [ -11815.0853] [Branch lengths ] . ( 22 sec) [ -11815.0827] [GTR parameters ] . ( 22 sec) [ -11815.0757] [Alpha ][ 0.962555] . ( 27 sec) [ -11814.7743] [Branch lengths ] . ( 57 sec) [ -11814.7222] [Branch lengths ] . ( 57 sec) [ -11814.7222] [Topology ] . ( 59 sec) [ -11814.7159] [Topology ] . ( 60 sec) [ -11814.7137] [Topology ] . ( 61 sec) [ -11814.7125] [Topology ] . ( 62 sec) [ -11814.7119] [Topology ] . ( 62 sec) [ -11814.7115] [GTR parameters ] . ( 62 sec) [ -11814.7113] [Alpha ][ 0.963781] . ( 62 sec) [ -11814.7113] [Topology ] . ( 63 sec) [ -11814.7109] [Topology ] . ( 64 sec) [ -11814.7109] [GTR parameters ] . ( 64 sec) [ -11814.7109] [Alpha ][ 0.963781] . Checking for NNIs, optimizing five branches... . ( 75 sec) [ -11814.1014] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11814.101362. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-11926.345408 . ( 1 sec) [ -11920.9976] [GTR parameters ] . ( 1 sec) [ -11920.2947] [Alpha ][ 0.921942] . ( 1 sec) [ -11920.2947] [Topology ] . ( 2 sec) [ -11833.5228] [Topology ] . ( 3 sec) [ -11820.3464] [Topology ] . ( 4 sec) [ -11817.2226] [Topology ] . ( 6 sec) [ -11815.9974] [Topology ] . ( 6 sec) [ -11815.4346] [Topology ] . ( 8 sec) [ -11815.1196] [Topology ] . ( 9 sec) [ -11814.7511] [Topology ] . ( 10 sec) [ -11814.6249] [Topology ] . ( 11 sec) [ -11814.5406] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11814.427333 . ( 22 sec) [ -11814.3787] [GTR parameters ] . ( 22 sec) [ -11814.1596] [Alpha ][ 0.962056] . ( 22 sec) [ -11814.1596] [Topology ] . ( 23 sec) [ -11814.1196] [Topology ] . ( 24 sec) [ -11814.1055] [Topology ] . ( 25 sec) [ -11814.0985] [Topology ] . ( 26 sec) [ -11814.0949] [Topology ] . ( 28 sec) [ -11814.0930] [Topology ] . ( 29 sec) [ -11814.0919] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11814.091919 . ( 39 sec) [ -11814.0918] [GTR parameters ] . ( 39 sec) [ -11814.0911] [Alpha ][ 0.964293] . ( 39 sec) [ -11814.0911] [Topology ] . ( 41 sec) [ -11814.0905] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-11814.090495 . ( 51 sec) [ -11814.0905] [GTR parameters ] . ( 51 sec) [ -11814.0905] [Alpha ][ 0.964293] . ( 51 sec) [ -11814.0905] [Topology ] . ( 52 sec) [ -11814.0902] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 70 sec) [ -11920.9976] [GTR parameters ] . ( 70 sec) [ -11920.2947] [Alpha ][ 0.921942] . ( 71 sec) [ -11914.3240] [ 2871] [depth= 1] . ( 71 sec) [ -11914.2976] [ 2869] [depth= 1] . ( 71 sec) [ -11908.1470] [ 2884] [depth= 1] . ( 71 sec) [ -11906.9168] [ 2869] [depth= 1] . ( 71 sec) [ -11896.3047] [ 2887] [depth= 1] . ( 72 sec) [ -11895.6716] [ 2879] [depth= 1] . ( 72 sec) [ -11892.5120] [ 2884] [depth= 1] . ( 72 sec) [ -11891.3093] [ 2885] [depth= 1] . ( 72 sec) [ -11884.4806] [ 2884] [depth= 1] . ( 72 sec) [ -11883.8250] [ 2877] [depth= 2] . ( 73 sec) [ -11883.3826] [ 2879] [depth= 1] . ( 73 sec) [ -11879.9963] [ 2877] [depth= 1] . ( 73 sec) [ -11876.7966] [ 2876] [depth= 1] . ( 73 sec) [ -11863.8751] [ 2855] [depth= 1] . ( 73 sec) [ -11862.8002] [ 2857] [depth= 1] . ( 74 sec) [ -11861.6249] [ 2855] [depth= 1] . ( 74 sec) [ -11861.3189] [ 2862] [depth= 1] . ( 74 sec) [ -11861.0463] [ 2855] [depth= 1] . ( 75 sec) [ -11819.9309] [Branch lengths ] . ( 75 sec) [ -11819.9001] [GTR parameters ] . ( 75 sec) [ -11819.7776] [Alpha ][ 0.952221] . ( 75 sec) [ -11819.3410] [ 2857] [depth= 1] . ( 76 sec) [ -11818.2117] [ 2861] [depth= 1] . ( 77 sec) [ -11818.1267] [ 2866] [depth= 1] . ( 78 sec) [ -11815.0661] [Branch lengths ] . ( 78 sec) [ -11815.0633] [GTR parameters ] . ( 78 sec) [ -11815.0514] [Alpha ][ 0.961827] . ( 82 sec) [ -11814.7572] [Branch lengths ] . ( 109 sec) [ -11814.7187] [Branch lengths ] . ( 109 sec) [ -11814.7187] [Topology ] . ( 111 sec) [ -11814.6991] [Topology ] . ( 112 sec) [ -11814.6023] [Topology ] . ( 113 sec) [ -11814.2848] [Topology ] . ( 114 sec) [ -11814.1693] [Topology ] . ( 115 sec) [ -11814.1245] [Topology ] . ( 116 sec) [ -11814.1059] [Topology ] . ( 118 sec) [ -11814.0982] [Topology ] . ( 118 sec) [ -11814.0969] [GTR parameters ] . ( 118 sec) [ -11814.0959] [Alpha ][ 0.964479] . ( 118 sec) [ -11814.0959] [Topology ] . ( 119 sec) [ -11814.0925] [Topology ] . ( 120 sec) [ -11814.0911] [Topology ] . ( 121 sec) [ -11814.0904] [Topology ] . ( 122 sec) [ -11814.0904] [GTR parameters ] . ( 122 sec) [ -11814.0904] [Alpha ][ 0.964479] . ( 122 sec) [ -11814.0904] [Topology ] . ( 123 sec) [ -11814.0901] [Topology ] . ( 123 sec) [ -11814.0901] [GTR parameters ] . ( 123 sec) [ -11814.0901] [Alpha ][ 0.964479] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -11814.090161 . Log likelihood obtained after SPR moves : -11814.090054 . Log likelihood of the current tree: -11814.090054. . Printing the most likely tree in file 'data75.phy_phyml_tree.txt'... . Best log likelihood : -11814.090022 . Time used 0h2m13s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo