.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data77.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... . 366 patterns found. (out of a total of 500 sites) . 115 sites without polymorphism (23.00%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 8Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -18357.4277] [GTR parameters ] . ( 1 sec) [ -17928.6393] [Alpha ][ 0.500960] . ( 1 sec) [ -17467.2663] [ 3632] [depth= 7] . ( 1 sec) [ -16813.1646] [ 3487] [depth= 5] . ( 1 sec) [ -16689.7657] [ 3474] [depth= 1] . ( 1 sec) [ -16380.2789] [ 3464] [depth= 7] . ( 1 sec) [ -15629.6846] [ 3387] [depth= 5] . ( 1 sec) [ -15487.6199] [ 3390] [depth= 1] . ( 1 sec) [ -15143.8592] [ 3372] [depth= 4] . ( 1 sec) [ -15045.9128] [ 3376] [depth= 1] . ( 1 sec) [ -14918.6341] [ 3361] [depth= 2] . ( 1 sec) [ -14546.5565] [ 3214] [depth= 8] . ( 1 sec) [ -14390.2068] [ 3162] [depth= 7] . ( 1 sec) [ -14114.4787] [ 3143] [depth= 11] . ( 1 sec) [ -13458.2795] [ 3081] [depth= 14] . ( 1 sec) [ -13337.6361] [ 3079] [depth= 1] . ( 1 sec) [ -13315.1017] [ 3079] [depth= 1] . ( 1 sec) [ -12812.2311] [ 3039] [depth= 4] . ( 1 sec) [ -12805.1541] [ 3035] [depth= 1] . ( 1 sec) [ -12581.5154] [ 2983] [depth= 2] . ( 1 sec) [ -12270.4083] [ 2981] [depth= 4] . ( 2 sec) [ -12212.2796] [ 2959] [depth= 5] . ( 2 sec) [ -12196.4336] [ 2844] [depth= 13] . ( 2 sec) [ -12031.3965] [ 2843] [depth= 1] . ( 2 sec) [ -11611.6313] [ 2677] [depth= 3] . ( 2 sec) [ -11419.8510] [ 2645] [depth= 1] . ( 2 sec) [ -11088.2297] [ 2573] [depth= 19] . ( 2 sec) [ -11063.6008] [ 2580] [depth= 1] . ( 2 sec) [ -10889.1853] [ 2546] [depth= 4] . ( 2 sec) [ -10750.0997] [ 2596] [depth= 17] . ( 2 sec) [ -10737.2072] [ 2605] [depth= 1] . ( 2 sec) [ -10730.7226] [ 2604] [depth= 1] . ( 2 sec) [ -10702.4076] [ 2600] [depth= 1] . ( 2 sec) [ -10490.2635] [ 2529] [depth= 7] . ( 2 sec) [ -10455.3488] [ 2509] [depth= 13] . ( 2 sec) [ -10292.6747] [ 2502] [depth= 1] . ( 2 sec) [ -10263.1496] [ 2498] [depth= 14] . ( 2 sec) [ -9929.3708] [ 2370] [depth= 8] . ( 2 sec) [ -9929.1405] [ 2372] [depth= 12] . ( 2 sec) [ -9925.9571] [ 2371] [depth= 1] . ( 2 sec) [ -9907.2031] [ 2238] [depth= 1] . ( 2 sec) [ -9895.2222] [ 2229] [depth= 1] . ( 2 sec) [ -9839.4579] [ 2213] [depth= 3] . ( 2 sec) [ -9698.2133] [ 2083] [depth= 1] . ( 2 sec) [ -9652.9112] [ 2070] [depth= 11] . ( 2 sec) [ -9637.6324] [ 2070] [depth= 1] . ( 2 sec) [ -9591.9952] [ 2053] [depth= 2] . ( 2 sec) [ -9552.2549] [ 2014] [depth= 11] . ( 3 sec) [ -9534.0333] [ 2011] [depth= 1] . ( 3 sec) [ -9345.6078] [ 1976] [depth= 12] . ( 3 sec) [ -9312.6115] [ 1961] [depth= 1] . ( 3 sec) [ -9041.5045] [ 1955] [depth= 1] . ( 3 sec) [ -8940.2019] [ 1929] [depth= 1] . ( 3 sec) [ -8939.6878] [ 1930] [depth= 1] . ( 3 sec) [ -8849.3227] [ 1897] [depth= 2] . ( 3 sec) [ -8802.0324] [ 1873] [depth= 11] . ( 3 sec) [ -8737.3344] [ 1828] [depth= 5] . ( 3 sec) [ -8716.2293] [ 1802] [depth= 10] . ( 3 sec) [ -8613.8652] [ 1797] [depth= 1] . ( 3 sec) [ -8610.2015] [ 1795] [depth= 1] . ( 3 sec) [ -8250.9334] [ 1793] [depth= 2] . ( 3 sec) [ -8250.6491] [ 1798] [depth= 1] . ( 3 sec) [ -8097.8867] [ 1737] [depth= 7] . ( 3 sec) [ -8095.6658] [ 1740] [depth= 2] . ( 3 sec) [ -7903.0387] [ 1651] [depth= 1] . ( 3 sec) [ -7884.9844] [ 1651] [depth= 1] . ( 3 sec) [ -7579.3960] [ 1562] [depth= 14] . ( 3 sec) [ -7574.1313] [ 1560] [depth= 1] . ( 3 sec) [ -7548.0479] [ 1552] [depth= 1] . ( 3 sec) [ -7397.9534] [ 1509] [depth= 5] . ( 4 sec) [ -7385.1264] [ 1507] [depth= 2] . ( 4 sec) [ -7350.0258] [ 1496] [depth= 2] . ( 4 sec) [ -7343.5344] [ 1489] [depth= 1] . ( 4 sec) [ -7334.2604] [ 1490] [depth= 1] . ( 4 sec) [ -7243.6884] [ 1498] [depth= 1] . ( 4 sec) [ -7235.7528] [ 1490] [depth= 1] . ( 4 sec) [ -7081.5749] [ 1358] [depth= 4] . ( 4 sec) [ -7049.5893] [ 1348] [depth= 1] . ( 4 sec) [ -7035.3651] [ 1356] [depth= 1] . ( 4 sec) [ -7028.4011] [ 1357] [depth= 1] . ( 4 sec) [ -7027.8023] [ 1370] [depth= 1] . ( 4 sec) [ -7019.9346] [ 1367] [depth= 1] . ( 5 sec) [ -6874.2733] [Branch lengths ] . ( 5 sec) [ -6871.8612] [GTR parameters ] . ( 5 sec) [ -6851.9146] [Alpha ][ 0.816269] . ( 5 sec) [ -6846.9070] [ 1364] [depth= 2] . ( 5 sec) [ -6846.8832] [ 1365] [depth= 1] . ( 5 sec) [ -6843.0570] [ 1327] [depth= 3] . ( 5 sec) [ -6813.8231] [ 1314] [depth= 1] . ( 6 sec) [ -6808.9941] [ 1306] [depth= 1] . ( 6 sec) [ -6808.0003] [ 1308] [depth= 2] . ( 6 sec) [ -6807.9447] [ 1307] [depth= 2] . ( 6 sec) [ -6806.8518] [ 1307] [depth= 1] . ( 6 sec) [ -6806.2742] [ 1308] [depth= 1] . ( 6 sec) [ -6806.2153] [ 1310] [depth= 1] . ( 7 sec) [ -6805.0817] [ 1307] [depth= 1] . ( 7 sec) [ -6802.5123] [ 1316] [depth= 1] . ( 7 sec) [ -6802.4995] [ 1315] [depth= 1] . ( 8 sec) [ -6784.7209] [Branch lengths ] . ( 8 sec) [ -6784.5154] [GTR parameters ] . ( 8 sec) [ -6783.5483] [Alpha ][ 0.918558] . ( 9 sec) [ -6781.8488] [ 1316] [depth= 1] . ( 9 sec) [ -6781.8051] [ 1315] [depth= 1] . ( 10 sec) [ -6781.0683] [ 1306] [depth= 1] . ( 10 sec) [ -6780.8968] [ 1307] [depth= 1] . ( 11 sec) [ -6776.6421] [Branch lengths ] . ( 12 sec) [ -6776.6324] [GTR parameters ] . ( 12 sec) [ -6776.5282] [Alpha ][ 0.956693] . ( 12 sec) [ -6776.1516] [ 1307] [depth= 1] . ( 13 sec) [ -6776.1267] [ 1307] [depth= 1] . ( 15 sec) [ -6775.3983] [Branch lengths ] . ( 15 sec) [ -6775.3966] [GTR parameters ] . ( 15 sec) [ -6775.3933] [Alpha ][ 0.963740] . ( 15 sec) [ -6775.3509] [ 1307] [depth= 1] . ( 16 sec) [ -6775.3245] [ 1307] [depth= 1] . ( 18 sec) [ -6775.1388] [Branch lengths ] . ( 18 sec) [ -6775.1384] [GTR parameters ] . ( 18 sec) [ -6775.1384] [Alpha ][ 0.964704] . ( 36 sec) [ -6775.0755] [Branch lengths ] . ( 36 sec) [ -6775.0755] [Topology ] . ( 37 sec) [ -6775.0647] [Topology ] . ( 37 sec) [ -6775.0592] [Topology ] . ( 38 sec) [ -6775.0557] [Topology ] . ( 39 sec) [ -6775.0534] [Topology ] . ( 39 sec) [ -6775.0518] [Topology ] . ( 40 sec) [ -6775.0507] [Topology ] . ( 40 sec) [ -6775.0502] [GTR parameters ] . ( 41 sec) [ -6775.0501] [Alpha ][ 0.963247] . ( 41 sec) [ -6775.0501] [Topology ] . ( 41 sec) [ -6775.0493] [Topology ] . ( 41 sec) [ -6775.0493] [GTR parameters ] . ( 41 sec) [ -6775.0493] [Alpha ][ 0.963247] . Checking for NNIs, optimizing five branches... . ( 47 sec) [ -6774.9886] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6774.988622. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -17549.8059] [GTR parameters ] . ( 1 sec) [ -17089.8873] [Alpha ][ 0.500960] . ( 1 sec) [ -16678.0429] [ 3767] [depth= 4] . ( 1 sec) [ -16081.5431] [ 3636] [depth= 3] . ( 1 sec) [ -16044.1344] [ 3611] [depth= 1] . ( 1 sec) [ -15966.7404] [ 3600] [depth= 7] . ( 1 sec) [ -15895.0680] [ 3574] [depth= 1] . ( 1 sec) [ -15696.1003] [ 3547] [depth= 10] . ( 1 sec) [ -15624.0263] [ 3534] [depth= 1] . ( 1 sec) [ -15585.1542] [ 3526] [depth= 4] . ( 1 sec) [ -15324.7134] [ 3448] [depth= 1] . ( 1 sec) [ -15167.0673] [ 3443] [depth= 2] . ( 1 sec) [ -14544.6100] [ 3345] [depth= 3] . ( 1 sec) [ -14382.5018] [ 3339] [depth= 5] . ( 1 sec) [ -13942.7094] [ 3199] [depth= 3] . ( 1 sec) [ -13836.8408] [ 3197] [depth= 9] . ( 2 sec) [ -13395.7647] [ 3059] [depth= 16] . ( 2 sec) [ -13340.0009] [ 3026] [depth= 5] . ( 2 sec) [ -13257.1161] [ 3015] [depth= 16] . ( 2 sec) [ -13082.9209] [ 2985] [depth= 10] . ( 2 sec) [ -12643.0358] [ 2987] [depth= 1] . ( 2 sec) [ -12440.2492] [ 2842] [depth= 11] . ( 2 sec) [ -12424.2268] [ 2821] [depth= 1] . ( 2 sec) [ -12185.2864] [ 2807] [depth= 12] . ( 2 sec) [ -12063.4535] [ 2766] [depth= 10] . ( 2 sec) [ -11779.7845] [ 2637] [depth= 4] . ( 2 sec) [ -11608.3142] [ 2627] [depth= 4] . ( 2 sec) [ -11470.9150] [ 2634] [depth= 1] . ( 2 sec) [ -11112.0324] [ 2477] [depth= 2] . ( 2 sec) [ -10968.1837] [ 2456] [depth= 12] . ( 2 sec) [ -10908.1789] [ 2436] [depth= 1] . ( 2 sec) [ -10779.2409] [ 2364] [depth= 6] . ( 2 sec) [ -10737.6043] [ 2359] [depth= 4] . ( 2 sec) [ -10679.1548] [ 2341] [depth= 1] . ( 2 sec) [ -10627.6922] [ 2345] [depth= 1] . ( 2 sec) [ -10529.5312] [ 2336] [depth= 4] . ( 2 sec) [ -10398.6774] [ 2194] [depth= 10] . ( 2 sec) [ -10342.3068] [ 2180] [depth= 2] . ( 2 sec) [ -10108.6690] [ 2153] [depth= 2] . ( 2 sec) [ -10034.2457] [ 2166] [depth= 3] . ( 2 sec) [ -9686.3473] [ 2087] [depth= 4] . ( 2 sec) [ -9616.5701] [ 2067] [depth= 4] . ( 3 sec) [ -9394.8235] [ 2001] [depth= 2] . ( 3 sec) [ -9272.1835] [ 1962] [depth= 7] . ( 3 sec) [ -9143.5282] [ 1943] [depth= 3] . ( 3 sec) [ -9141.9038] [ 1944] [depth= 1] . ( 3 sec) [ -9083.5378] [ 1921] [depth= 1] . ( 3 sec) [ -9045.0779] [ 1893] [depth= 13] . ( 3 sec) [ -9010.2300] [ 1884] [depth= 14] . ( 3 sec) [ -8998.5201] [ 1883] [depth= 1] . ( 3 sec) [ -8998.3539] [ 1885] [depth= 1] . ( 3 sec) [ -8856.6964] [ 1840] [depth= 5] . ( 3 sec) [ -8841.9036] [ 1824] [depth= 2] . ( 3 sec) [ -8751.7037] [ 1816] [depth= 1] . ( 3 sec) [ -8192.9246] [ 1804] [depth= 5] . ( 3 sec) [ -8178.6191] [ 1800] [depth= 3] . ( 3 sec) [ -7872.2097] [ 1731] [depth= 2] . ( 3 sec) [ -7868.8883] [ 1733] [depth= 1] . ( 3 sec) [ -7864.8174] [ 1731] [depth= 1] . ( 3 sec) [ -7857.5235] [ 1733] [depth= 1] . ( 3 sec) [ -7851.4134] [ 1725] [depth= 3] . ( 3 sec) [ -7843.3275] [ 1714] [depth= 1] . ( 3 sec) [ -7757.1980] [ 1668] [depth= 4] . ( 3 sec) [ -7691.3748] [ 1658] [depth= 3] . ( 3 sec) [ -7683.7731] [ 1654] [depth= 1] . ( 3 sec) [ -7674.5863] [ 1664] [depth= 1] . ( 3 sec) [ -7663.8349] [ 1663] [depth= 4] . ( 4 sec) [ -7632.3597] [ 1648] [depth= 1] . ( 4 sec) [ -7600.5586] [ 1640] [depth= 1] . ( 4 sec) [ -7530.8375] [ 1622] [depth= 3] . ( 4 sec) [ -7489.6368] [ 1617] [depth= 1] . ( 4 sec) [ -7454.0377] [ 1590] [depth= 3] . ( 4 sec) [ -7453.0019] [ 1583] [depth= 1] . ( 4 sec) [ -7433.1376] [ 1579] [depth= 1] . ( 4 sec) [ -7413.0823] [ 1564] [depth= 1] . ( 4 sec) [ -7412.1948] [ 1562] [depth= 1] . ( 4 sec) [ -7356.6666] [ 1543] [depth= 1] . ( 4 sec) [ -7311.2243] [ 1469] [depth= 2] . ( 4 sec) [ -7259.6768] [ 1457] [depth= 4] . ( 4 sec) [ -7245.9124] [ 1455] [depth= 1] . ( 5 sec) [ -7149.9704] [Branch lengths ] . ( 5 sec) [ -7147.0456] [GTR parameters ] . ( 5 sec) [ -7130.6274] [Alpha ][ 0.769730] . ( 5 sec) [ -7094.3884] [ 1447] [depth= 1] . ( 6 sec) [ -7087.8456] [ 1442] [depth= 1] . ( 6 sec) [ -6899.4108] [ 1389] [depth= 5] . ( 6 sec) [ -6825.5752] [ 1306] [depth= 4] . ( 6 sec) [ -6797.9038] [ 1304] [depth= 2] . ( 6 sec) [ -6794.8053] [ 1305] [depth= 1] . ( 6 sec) [ -6791.8759] [ 1314] [depth= 1] . ( 6 sec) [ -6790.1423] [ 1317] [depth= 2] . ( 7 sec) [ -6789.4477] [ 1308] [depth= 1] . ( 7 sec) [ -6785.5286] [ 1307] [depth= 1] . ( 8 sec) [ -6784.9089] [ 1309] [depth= 2] . ( 8 sec) [ -6779.6688] [Branch lengths ] . ( 8 sec) [ -6779.4642] [GTR parameters ] . ( 8 sec) [ -6776.8050] [Alpha ][ 0.938760] . ( 10 sec) [ -6776.1592] [ 1305] [depth= 2] . ( 11 sec) [ -6775.2463] [Branch lengths ] . ( 12 sec) [ -6775.2337] [GTR parameters ] . ( 12 sec) [ -6775.2086] [Alpha ][ 0.957980] . ( 14 sec) [ -6775.0639] [Branch lengths ] . ( 32 sec) [ -6775.0128] [Branch lengths ] . ( 32 sec) [ -6775.0128] [Topology ] . ( 33 sec) [ -6775.0033] [Topology ] . ( 33 sec) [ -6774.9983] [Topology ] . ( 34 sec) [ -6774.9951] [Topology ] . ( 35 sec) [ -6774.9929] [Topology ] . ( 35 sec) [ -6774.9913] [Topology ] . ( 36 sec) [ -6774.9903] [Topology ] . ( 36 sec) [ -6774.9897] [GTR parameters ] . ( 36 sec) [ -6774.9882] [Alpha ][ 0.962800] . ( 36 sec) [ -6774.9882] [Topology ] . ( 37 sec) [ -6774.9872] [Topology ] . ( 37 sec) [ -6774.9872] [GTR parameters ] . ( 37 sec) [ -6774.9872] [Alpha ][ 0.962800] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6774.987204. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -18974.3683] [GTR parameters ] . ( 1 sec) [ -18485.2379] [Alpha ][ 0.500960] . ( 1 sec) [ -18050.8156] [ 3927] [depth= 8] . ( 1 sec) [ -17444.0134] [ 3779] [depth= 8] . ( 1 sec) [ -17309.6395] [ 3766] [depth= 4] . ( 1 sec) [ -17263.8630] [ 3766] [depth= 2] . ( 1 sec) [ -17081.5524] [ 3735] [depth= 9] . ( 1 sec) [ -17080.1990] [ 3735] [depth= 6] . ( 1 sec) [ -16811.4159] [ 3682] [depth= 15] . ( 1 sec) [ -16629.0052] [ 3597] [depth= 11] . ( 1 sec) [ -16470.6931] [ 3557] [depth= 7] . ( 1 sec) [ -16103.6534] [ 3465] [depth= 15] . ( 1 sec) [ -15727.1676] [ 3423] [depth= 15] . ( 1 sec) [ -15389.4724] [ 3425] [depth= 20] . ( 1 sec) [ -14620.6636] [ 3405] [depth= 1] . ( 1 sec) [ -14362.8941] [ 3397] [depth= 1] . ( 1 sec) [ -14059.1810] [ 3281] [depth= 1] . ( 1 sec) [ -13972.6398] [ 3252] [depth= 4] . ( 2 sec) [ -13514.0806] [ 3098] [depth= 3] . ( 2 sec) [ -13308.4773] [ 3073] [depth= 14] . ( 2 sec) [ -13187.4472] [ 3037] [depth= 1] . ( 2 sec) [ -13176.9191] [ 3033] [depth= 1] . ( 2 sec) [ -13035.1799] [ 2925] [depth= 1] . ( 2 sec) [ -12793.5450] [ 2887] [depth= 3] . ( 2 sec) [ -12637.5750] [ 2855] [depth= 3] . ( 2 sec) [ -12572.3866] [ 2857] [depth= 1] . ( 2 sec) [ -12529.6362] [ 2851] [depth= 17] . ( 2 sec) [ -12527.0857] [ 2849] [depth= 1] . ( 2 sec) [ -12209.6064] [ 2775] [depth= 17] . ( 2 sec) [ -12207.6817] [ 2773] [depth= 1] . ( 2 sec) [ -12029.4878] [ 2725] [depth= 6] . ( 2 sec) [ -11867.1887] [ 2672] [depth= 8] . ( 2 sec) [ -11743.5479] [ 2627] [depth= 12] . ( 2 sec) [ -11508.3976] [ 2580] [depth= 6] . ( 2 sec) [ -10802.3173] [ 2458] [depth= 4] . ( 2 sec) [ -10712.3016] [ 2450] [depth= 1] . ( 2 sec) [ -10435.4820] [ 2433] [depth= 1] . ( 2 sec) [ -9791.9751] [ 2277] [depth= 3] . ( 2 sec) [ -9740.5249] [ 2282] [depth= 1] . ( 3 sec) [ -9541.4225] [ 2263] [depth= 10] . ( 3 sec) [ -9257.1735] [ 2147] [depth= 5] . ( 3 sec) [ -9170.6213] [ 2122] [depth= 3] . ( 3 sec) [ -8931.6225] [ 2079] [depth= 2] . ( 3 sec) [ -8826.4966] [ 2059] [depth= 5] . ( 3 sec) [ -8652.4943] [ 2056] [depth= 2] . ( 3 sec) [ -8621.8799] [ 2053] [depth= 1] . ( 3 sec) [ -8574.5213] [ 2037] [depth= 4] . ( 3 sec) [ -8552.1963] [ 2035] [depth= 1] . ( 3 sec) [ -8480.9308] [ 2000] [depth= 2] . ( 3 sec) [ -8450.6945] [ 2004] [depth= 3] . ( 3 sec) [ -8447.9183] [ 2012] [depth= 1] . ( 3 sec) [ -8436.1031] [ 2010] [depth= 2] . ( 3 sec) [ -8272.1090] [ 1993] [depth= 3] . ( 3 sec) [ -8181.9281] [ 1959] [depth= 4] . ( 3 sec) [ -8026.3459] [ 1900] [depth= 4] . ( 3 sec) [ -8019.7446] [ 1897] [depth= 1] . ( 3 sec) [ -7959.2407] [ 1885] [depth= 1] . ( 3 sec) [ -7939.6988] [ 1867] [depth= 1] . ( 4 sec) [ -7925.3831] [ 1861] [depth= 1] . ( 4 sec) [ -7901.4312] [ 1858] [depth= 2] . ( 4 sec) [ -7860.1227] [ 1823] [depth= 1] . ( 4 sec) [ -7562.1445] [ 1656] [depth= 6] . ( 4 sec) [ -7535.4812] [ 1645] [depth= 2] . ( 4 sec) [ -7527.8184] [ 1641] [depth= 1] . ( 4 sec) [ -7518.3922] [ 1639] [depth= 1] . ( 4 sec) [ -7507.0899] [ 1642] [depth= 1] . ( 4 sec) [ -7450.7382] [ 1627] [depth= 1] . ( 4 sec) [ -7446.0211] [ 1627] [depth= 2] . ( 4 sec) [ -7442.2461] [ 1629] [depth= 1] . ( 4 sec) [ -7441.8443] [ 1629] [depth= 3] . ( 4 sec) [ -7438.9571] [ 1629] [depth= 1] . ( 4 sec) [ -7286.2429] [ 1588] [depth= 6] . ( 4 sec) [ -7281.5265] [ 1588] [depth= 1] . ( 4 sec) [ -7280.7333] [ 1590] [depth= 1] . ( 5 sec) [ -7277.7765] [ 1598] [depth= 1] . ( 5 sec) [ -7200.4471] [Branch lengths ] . ( 5 sec) [ -7199.3914] [GTR parameters ] . ( 5 sec) [ -7191.5614] [Alpha ][ 0.672056] . ( 6 sec) [ -7188.7094] [ 1594] [depth= 3] . ( 6 sec) [ -7188.4298] [ 1593] [depth= 1] . ( 6 sec) [ -7185.8412] [ 1588] [depth= 1] . ( 6 sec) [ -6928.8340] [ 1441] [depth= 2] . ( 6 sec) [ -6923.4276] [ 1438] [depth= 1] . ( 6 sec) [ -6900.2944] [ 1430] [depth= 1] . ( 6 sec) [ -6899.8408] [ 1428] [depth= 1] . ( 6 sec) [ -6898.9560] [ 1402] [depth= 3] . ( 7 sec) [ -6838.1887] [ 1326] [depth= 1] . ( 7 sec) [ -6836.4037] [ 1326] [depth= 2] . ( 7 sec) [ -6833.2583] [ 1325] [depth= 1] . ( 7 sec) [ -6822.8909] [ 1358] [depth= 1] . ( 7 sec) [ -6808.3271] [ 1343] [depth= 4] . ( 7 sec) [ -6807.2486] [ 1345] [depth= 1] . ( 7 sec) [ -6807.0805] [ 1349] [depth= 1] . ( 8 sec) [ -6806.1711] [ 1345] [depth= 2] . ( 8 sec) [ -6805.9148] [ 1348] [depth= 1] . ( 9 sec) [ -6790.0830] [Branch lengths ] . ( 9 sec) [ -6789.5573] [GTR parameters ] . ( 9 sec) [ -6783.3407] [Alpha ][ 0.907829] . ( 10 sec) [ -6783.2564] [ 1347] [depth= 1] . ( 11 sec) [ -6779.1782] [ 1306] [depth= 2] . ( 11 sec) [ -6778.9722] [ 1315] [depth= 1] . ( 11 sec) [ -6778.4023] [ 1314] [depth= 1] . ( 12 sec) [ -6778.2769] [ 1315] [depth= 1] . ( 12 sec) [ -6775.9193] [Branch lengths ] . ( 12 sec) [ -6775.8838] [GTR parameters ] . ( 13 sec) [ -6775.7387] [Alpha ][ 0.951946] . ( 14 sec) [ -6775.6176] [ 1315] [depth= 1] . ( 14 sec) [ -6775.6021] [ 1315] [depth= 1] . ( 15 sec) [ -6775.5563] [ 1315] [depth= 1] . ( 16 sec) [ -6775.2987] [Branch lengths ] . ( 16 sec) [ -6775.2985] [GTR parameters ] . ( 16 sec) [ -6775.2962] [Alpha ][ 0.957787] . ( 34 sec) [ -6775.2713] [Branch lengths ] . ( 34 sec) [ -6775.2713] [Topology ] . ( 34 sec) [ -6775.2682] [Topology ] . ( 35 sec) [ -6775.2671] [Topology ] . ( 36 sec) [ -6775.2666] [Topology ] . ( 36 sec) [ -6775.2666] [GTR parameters ] . ( 36 sec) [ -6775.2666] [Alpha ][ 0.957787] . ( 36 sec) [ -6775.2666] [Topology ] . ( 37 sec) [ -6775.2663] [Topology ] . ( 37 sec) [ -6775.2663] [GTR parameters ] . ( 37 sec) [ -6775.2663] [Alpha ][ 0.957787] . Checking for NNIs, optimizing five branches... . ( 42 sec) [ -6774.9998] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6774.999770. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -17415.5284] [GTR parameters ] . ( 1 sec) [ -17028.6855] [Alpha ][ 0.500960] . ( 1 sec) [ -16744.7348] [ 3613] [depth= 11] . ( 1 sec) [ -16217.7063] [ 3471] [depth= 9] . ( 1 sec) [ -15797.9370] [ 3354] [depth= 7] . ( 1 sec) [ -15784.4554] [ 3298] [depth= 1] . ( 1 sec) [ -15036.2654] [ 3204] [depth= 8] . ( 1 sec) [ -14919.7325] [ 3192] [depth= 3] . ( 1 sec) [ -14669.9319] [ 3192] [depth= 4] . ( 1 sec) [ -14131.4732] [ 3149] [depth= 6] . ( 1 sec) [ -13947.5911] [ 3142] [depth= 3] . ( 1 sec) [ -13864.8354] [ 3134] [depth= 5] . ( 1 sec) [ -13828.1400] [ 3131] [depth= 3] . ( 1 sec) [ -13577.5857] [ 3061] [depth= 6] . ( 1 sec) [ -13438.7217] [ 2980] [depth= 8] . ( 1 sec) [ -13143.2813] [ 2973] [depth= 2] . ( 1 sec) [ -13088.0115] [ 2967] [depth= 12] . ( 2 sec) [ -13021.9115] [ 2835] [depth= 4] . ( 2 sec) [ -12986.9337] [ 2833] [depth= 2] . ( 2 sec) [ -12681.0488] [ 2695] [depth= 1] . ( 2 sec) [ -12638.2932] [ 2693] [depth= 1] . ( 2 sec) [ -12627.2523] [ 2694] [depth= 1] . ( 2 sec) [ -12441.5196] [ 2650] [depth= 7] . ( 2 sec) [ -12367.6868] [ 2649] [depth= 2] . ( 2 sec) [ -12329.8154] [ 2633] [depth= 5] . ( 2 sec) [ -12300.3820] [ 2613] [depth= 10] . ( 2 sec) [ -11427.0747] [ 2431] [depth= 3] . ( 2 sec) [ -11318.6608] [ 2365] [depth= 5] . ( 2 sec) [ -11176.8530] [ 2320] [depth= 2] . ( 2 sec) [ -10838.1376] [ 2232] [depth= 3] . ( 2 sec) [ -10762.6973] [ 2220] [depth= 10] . ( 2 sec) [ -10571.8479] [ 2134] [depth= 7] . ( 2 sec) [ -10540.6267] [ 2121] [depth= 1] . ( 2 sec) [ -10133.4377] [ 2114] [depth= 1] . ( 2 sec) [ -10116.0109] [ 2119] [depth= 1] . ( 2 sec) [ -9768.1816] [ 1951] [depth= 10] . ( 2 sec) [ -9711.2446] [ 1963] [depth= 3] . ( 2 sec) [ -9630.6610] [ 1939] [depth= 4] . ( 2 sec) [ -9623.7854] [ 1934] [depth= 1] . ( 2 sec) [ -9621.1676] [ 1935] [depth= 3] . ( 2 sec) [ -9579.2153] [ 1925] [depth= 1] . ( 3 sec) [ -9519.0571] [ 1921] [depth= 3] . ( 3 sec) [ -9483.4968] [ 1927] [depth= 5] . ( 3 sec) [ -9421.2078] [ 1915] [depth= 1] . ( 3 sec) [ -9174.5933] [ 1875] [depth= 1] . ( 3 sec) [ -8826.1136] [ 1773] [depth= 3] . ( 3 sec) [ -8635.4179] [ 1808] [depth= 1] . ( 3 sec) [ -8630.9431] [ 1813] [depth= 1] . ( 3 sec) [ -8483.1676] [ 1747] [depth= 1] . ( 3 sec) [ -8385.9938] [ 1742] [depth= 2] . ( 3 sec) [ -8132.9111] [ 1673] [depth= 3] . ( 3 sec) [ -8123.0395] [ 1672] [depth= 5] . ( 3 sec) [ -8061.8064] [ 1666] [depth= 7] . ( 3 sec) [ -7952.5054] [ 1626] [depth= 2] . ( 3 sec) [ -7916.1839] [ 1625] [depth= 6] . ( 3 sec) [ -7906.5483] [ 1624] [depth= 1] . ( 3 sec) [ -7899.2281] [ 1620] [depth= 7] . ( 3 sec) [ -7895.0478] [ 1618] [depth= 1] . ( 3 sec) [ -7665.6259] [ 1552] [depth= 9] . ( 3 sec) [ -7653.3791] [ 1553] [depth= 1] . ( 3 sec) [ -7502.1984] [ 1518] [depth= 2] . ( 3 sec) [ -7493.2806] [ 1521] [depth= 7] . ( 3 sec) [ -7449.4584] [ 1504] [depth= 2] . ( 3 sec) [ -7382.0109] [ 1500] [depth= 1] . ( 4 sec) [ -7358.3378] [ 1488] [depth= 1] . ( 4 sec) [ -7355.5182] [ 1488] [depth= 1] . ( 4 sec) [ -7344.2897] [ 1481] [depth= 4] . ( 4 sec) [ -7204.1020] [ 1440] [depth= 6] . ( 4 sec) [ -7179.5637] [ 1440] [depth= 1] . ( 4 sec) [ -7174.6547] [ 1437] [depth= 1] . ( 4 sec) [ -7167.9306] [ 1430] [depth= 1] . ( 4 sec) [ -7142.0858] [ 1426] [depth= 3] . ( 4 sec) [ -7128.1970] [ 1420] [depth= 1] . ( 4 sec) [ -7119.0278] [ 1419] [depth= 1] . ( 4 sec) [ -7116.1173] [ 1418] [depth= 2] . ( 5 sec) [ -6965.6899] [Branch lengths ] . ( 5 sec) [ -6963.3597] [GTR parameters ] . ( 5 sec) [ -6942.5721] [Alpha ][ 0.825442] . ( 5 sec) [ -6937.1792] [ 1412] [depth= 1] . ( 5 sec) [ -6875.6594] [ 1384] [depth= 2] . ( 6 sec) [ -6875.3787] [ 1384] [depth= 1] . ( 6 sec) [ -6871.3740] [ 1380] [depth= 1] . ( 6 sec) [ -6854.1466] [ 1363] [depth= 5] . ( 6 sec) [ -6847.2060] [ 1325] [depth= 3] . ( 6 sec) [ -6846.7498] [ 1324] [depth= 1] . ( 6 sec) [ -6846.5343] [ 1307] [depth= 2] . ( 6 sec) [ -6845.9514] [ 1310] [depth= 1] . ( 6 sec) [ -6843.7088] [ 1308] [depth= 1] . ( 6 sec) [ -6841.4987] [ 1323] [depth= 1] . ( 6 sec) [ -6784.2751] [ 1306] [depth= 2] . ( 7 sec) [ -6783.4210] [ 1315] [depth= 1] . ( 7 sec) [ -6783.3167] [ 1317] [depth= 1] . ( 8 sec) [ -6777.6556] [Branch lengths ] . ( 9 sec) [ -6777.3105] [GTR parameters ] . ( 9 sec) [ -6776.1060] [Alpha ][ 0.944261] . ( 9 sec) [ -6776.0444] [ 1318] [depth= 1] . ( 9 sec) [ -6776.0111] [ 1316] [depth= 2] . ( 12 sec) [ -6775.3753] [Branch lengths ] . ( 12 sec) [ -6775.3553] [GTR parameters ] . ( 12 sec) [ -6775.3437] [Alpha ][ 0.957305] . ( 30 sec) [ -6775.3284] [Branch lengths ] . ( 30 sec) [ -6775.3284] [Topology ] . ( 31 sec) [ -6775.3277] [Topology ] . ( 31 sec) [ -6775.3276] [GTR parameters ] . ( 31 sec) [ -6775.3276] [Alpha ][ 0.957305] . Checking for NNIs, optimizing five branches... . ( 35 sec) [ -6775.2682] [Topology ] . Checking for NNIs, optimizing five branches... . ( 40 sec) [ -6775.2677] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6775.267674. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -18581.9922] [GTR parameters ] . ( 1 sec) [ -18122.8392] [Alpha ][ 0.500960] . ( 1 sec) [ -17756.1772] [ 3764] [depth= 7] . ( 1 sec) [ -17262.5206] [ 3625] [depth= 11] . ( 1 sec) [ -17236.2018] [ 3610] [depth= 4] . ( 1 sec) [ -17115.9386] [ 3608] [depth= 1] . ( 1 sec) [ -16713.5927] [ 3540] [depth= 5] . ( 1 sec) [ -16226.6391] [ 3538] [depth= 7] . ( 1 sec) [ -15996.0069] [ 3525] [depth= 13] . ( 1 sec) [ -15516.3403] [ 3526] [depth= 1] . ( 1 sec) [ -15164.6687] [ 3358] [depth= 10] . ( 1 sec) [ -14980.2902] [ 3319] [depth= 6] . ( 1 sec) [ -14940.0187] [ 3305] [depth= 3] . ( 1 sec) [ -14622.6238] [ 3295] [depth= 10] . ( 1 sec) [ -14323.3104] [ 3154] [depth= 12] . ( 1 sec) [ -14222.2252] [ 3144] [depth= 1] . ( 1 sec) [ -14144.9820] [ 3139] [depth= 2] . ( 1 sec) [ -13928.2709] [ 3140] [depth= 1] . ( 2 sec) [ -13826.0202] [ 3136] [depth= 3] . ( 2 sec) [ -13725.4005] [ 3105] [depth= 1] . ( 2 sec) [ -13715.3494] [ 3096] [depth= 10] . ( 2 sec) [ -13548.6967] [ 3060] [depth= 9] . ( 2 sec) [ -13252.3036] [ 3002] [depth= 3] . ( 2 sec) [ -13230.2813] [ 2998] [depth= 1] . ( 2 sec) [ -13028.2419] [ 2848] [depth= 4] . ( 2 sec) [ -12915.3543] [ 2846] [depth= 1] . ( 2 sec) [ -12791.5241] [ 2843] [depth= 2] . ( 2 sec) [ -12776.3679] [ 2839] [depth= 2] . ( 2 sec) [ -12619.2889] [ 2839] [depth= 1] . ( 2 sec) [ -12348.3766] [ 2797] [depth= 4] . ( 2 sec) [ -12153.2290] [ 2735] [depth= 9] . ( 2 sec) [ -11767.8683] [ 2572] [depth= 3] . ( 2 sec) [ -11638.5438] [ 2585] [depth= 3] . ( 2 sec) [ -11559.3437] [ 2543] [depth= 1] . ( 2 sec) [ -11132.4182] [ 2528] [depth= 2] . ( 2 sec) [ -11083.5956] [ 2504] [depth= 9] . ( 2 sec) [ -10594.3994] [ 2343] [depth= 4] . ( 2 sec) [ -10565.1140] [ 2321] [depth= 8] . ( 2 sec) [ -10474.3373] [ 2301] [depth= 3] . ( 2 sec) [ -10404.1563] [ 2296] [depth= 1] . ( 2 sec) [ -10087.5414] [ 2208] [depth= 3] . ( 3 sec) [ -9969.8167] [ 2136] [depth= 2] . ( 3 sec) [ -9748.5564] [ 2073] [depth= 8] . ( 3 sec) [ -9603.0947] [ 2038] [depth= 2] . ( 3 sec) [ -9503.0322] [ 1990] [depth= 1] . ( 3 sec) [ -9300.3253] [ 1967] [depth= 4] . ( 3 sec) [ -9266.2584] [ 1956] [depth= 2] . ( 3 sec) [ -9243.2315] [ 1958] [depth= 1] . ( 3 sec) [ -9239.6092] [ 1954] [depth= 1] . ( 3 sec) [ -9236.8298] [ 1952] [depth= 1] . ( 3 sec) [ -9124.0656] [ 1939] [depth= 2] . ( 3 sec) [ -9082.9305] [ 1933] [depth= 2] . ( 3 sec) [ -8902.0181] [ 1897] [depth= 1] . ( 3 sec) [ -8885.0435] [ 1893] [depth= 1] . ( 3 sec) [ -8820.0746] [ 1884] [depth= 4] . ( 3 sec) [ -8755.5173] [ 1861] [depth= 4] . ( 3 sec) [ -8685.6798] [ 1817] [depth= 2] . ( 3 sec) [ -8534.7732] [ 1790] [depth= 3] . ( 3 sec) [ -8533.1121] [ 1788] [depth= 1] . ( 3 sec) [ -8530.9991] [ 1785] [depth= 1] . ( 3 sec) [ -8524.8622] [ 1782] [depth= 1] . ( 3 sec) [ -8438.2164] [ 1754] [depth= 2] . ( 3 sec) [ -8428.1050] [ 1744] [depth= 2] . ( 3 sec) [ -8397.5517] [ 1745] [depth= 3] . ( 4 sec) [ -8379.8897] [ 1740] [depth= 2] . ( 4 sec) [ -8303.9446] [ 1713] [depth= 5] . ( 4 sec) [ -8210.7069] [ 1646] [depth= 6] . ( 4 sec) [ -7939.7625] [ 1635] [depth= 1] . ( 4 sec) [ -7935.5334] [ 1637] [depth= 1] . ( 4 sec) [ -7673.2061] [ 1584] [depth= 3] . ( 4 sec) [ -7668.7876] [ 1583] [depth= 1] . ( 4 sec) [ -7579.1520] [ 1520] [depth= 1] . ( 4 sec) [ -7562.2837] [ 1507] [depth= 5] . ( 4 sec) [ -7524.8730] [ 1500] [depth= 1] . ( 4 sec) [ -7506.7388] [ 1496] [depth= 1] . ( 4 sec) [ -7442.4292] [ 1474] [depth= 6] . ( 4 sec) [ -7441.9926] [ 1476] [depth= 1] . ( 4 sec) [ -7413.5758] [ 1494] [depth= 1] . ( 4 sec) [ -7412.7016] [ 1500] [depth= 1] . ( 5 sec) [ -7156.6208] [Branch lengths ] . ( 5 sec) [ -7155.1714] [GTR parameters ] . ( 5 sec) [ -7143.0926] [Alpha ][ 0.726963] . ( 5 sec) [ -7135.6837] [ 1528] [depth= 3] . ( 5 sec) [ -6906.3370] [ 1419] [depth= 3] . ( 5 sec) [ -6902.9101] [ 1420] [depth= 3] . ( 6 sec) [ -6899.1823] [ 1412] [depth= 1] . ( 6 sec) [ -6861.8655] [ 1406] [depth= 1] . ( 6 sec) [ -6857.2768] [ 1399] [depth= 1] . ( 6 sec) [ -6854.1341] [ 1393] [depth= 1] . ( 6 sec) [ -6854.0164] [ 1392] [depth= 1] . ( 6 sec) [ -6841.6736] [ 1370] [depth= 6] . ( 6 sec) [ -6817.5324] [ 1313] [depth= 5] . ( 6 sec) [ -6816.8329] [ 1314] [depth= 1] . ( 6 sec) [ -6815.5344] [ 1323] [depth= 1] . ( 7 sec) [ -6814.8198] [ 1321] [depth= 1] . ( 7 sec) [ -6813.6226] [ 1322] [depth= 1] . ( 7 sec) [ -6813.5160] [ 1322] [depth= 1] . ( 7 sec) [ -6813.4360] [ 1324] [depth= 1] . ( 8 sec) [ -6805.2331] [ 1315] [depth= 1] . ( 8 sec) [ -6804.8637] [ 1318] [depth= 1] . ( 8 sec) [ -6797.9403] [ 1315] [depth= 1] . ( 8 sec) [ -6796.0468] [ 1307] [depth= 1] . ( 8 sec) [ -6788.3602] [Branch lengths ] . ( 9 sec) [ -6788.0919] [GTR parameters ] . ( 9 sec) [ -6783.9445] [Alpha ][ 0.932531] . ( 9 sec) [ -6780.2093] [ 1308] [depth= 1] . ( 9 sec) [ -6778.5159] [ 1308] [depth= 1] . ( 9 sec) [ -6778.1173] [ 1310] [depth= 1] . ( 9 sec) [ -6777.1725] [ 1308] [depth= 1] . ( 11 sec) [ -6776.9877] [ 1308] [depth= 1] . ( 11 sec) [ -6776.8883] [ 1309] [depth= 1] . ( 11 sec) [ -6776.4469] [ 1307] [depth= 1] . ( 12 sec) [ -6775.2627] [Branch lengths ] . ( 12 sec) [ -6775.1928] [GTR parameters ] . ( 12 sec) [ -6775.1473] [Alpha ][ 0.957560] . ( 15 sec) [ -6775.0639] [Branch lengths ] . ( 33 sec) [ -6775.0525] [Branch lengths ] . ( 33 sec) [ -6775.0525] [Topology ] . ( 34 sec) [ -6775.0512] [Topology ] . ( 34 sec) [ -6775.0505] [Topology ] . ( 34 sec) [ -6775.0505] [GTR parameters ] . ( 34 sec) [ -6775.0489] [Alpha ][ 0.962337] . ( 34 sec) [ -6775.0489] [Topology ] . ( 35 sec) [ -6775.0483] [Topology ] . ( 35 sec) [ -6775.0483] [GTR parameters ] . ( 35 sec) [ -6775.0483] [Alpha ][ 0.962337] . Checking for NNIs, optimizing five branches... . ( 40 sec) [ -6775.0474] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6775.047379. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-6837.014629 . ( 1 sec) [ -6833.8334] [GTR parameters ] . ( 1 sec) [ -6833.8144] [Alpha ][ 0.982107] . ( 1 sec) [ -6833.8144] [Topology ] . ( 2 sec) [ -6783.5166] [Topology ] . ( 3 sec) [ -6777.4126] [Topology ] . ( 3 sec) [ -6775.8797] [Topology ] . ( 4 sec) [ -6775.4011] [Topology ] . ( 5 sec) [ -6775.2451] [Topology ] . ( 5 sec) [ -6775.1839] [Topology ] . ( 6 sec) [ -6775.1560] [Topology ] . ( 7 sec) [ -6775.1420] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-6775.141959 . ( 12 sec) [ -6775.0278] [GTR parameters ] . ( 12 sec) [ -6775.0088] [Alpha ][ 0.965434] . ( 12 sec) [ -6775.0088] [Topology ] . ( 13 sec) [ -6774.9993] [Topology ] . ( 14 sec) [ -6774.9942] [Topology ] . ( 14 sec) [ -6774.9913] [Topology ] . ( 15 sec) [ -6774.9894] [Topology ] . ( 16 sec) [ -6774.9882] [Topology ] . ( 17 sec) [ -6774.9874] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-6774.987441 . ( 22 sec) [ -6774.9873] [GTR parameters ] . ( 22 sec) [ -6774.9871] [Alpha ][ 0.963721] . ( 22 sec) [ -6774.9871] [Topology ] . ( 22 sec) [ -6774.9866] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 33 sec) [ -6833.8334] [GTR parameters ] . ( 33 sec) [ -6833.8144] [Alpha ][ 0.982107] . ( 33 sec) [ -6830.9359] [ 1313] [depth= 1] . ( 33 sec) [ -6830.0693] [ 1314] [depth= 1] . ( 33 sec) [ -6829.7740] [ 1314] [depth= 1] . ( 33 sec) [ -6829.6858] [ 1314] [depth= 1] . ( 33 sec) [ -6814.8557] [ 1306] [depth= 2] . ( 33 sec) [ -6810.4107] [ 1305] [depth= 1] . ( 34 sec) [ -6809.3828] [ 1308] [depth= 2] . ( 34 sec) [ -6806.3070] [ 1306] [depth= 2] . ( 34 sec) [ -6802.4797] [ 1306] [depth= 1] . ( 34 sec) [ -6792.7187] [ 1313] [depth= 1] . ( 34 sec) [ -6792.0049] [ 1316] [depth= 1] . ( 34 sec) [ -6791.6811] [ 1306] [depth= 1] . ( 35 sec) [ -6790.5318] [ 1307] [depth= 1] . ( 35 sec) [ -6788.5633] [ 1306] [depth= 1] . ( 35 sec) [ -6786.7439] [ 1307] [depth= 1] . ( 35 sec) [ -6786.5418] [ 1306] [depth= 1] . ( 36 sec) [ -6777.0457] [Branch lengths ] . ( 36 sec) [ -6776.9573] [GTR parameters ] . ( 36 sec) [ -6776.9457] [Alpha ][ 0.969161] . ( 37 sec) [ -6776.9073] [ 1306] [depth= 1] . ( 37 sec) [ -6776.8669] [ 1306] [depth= 1] . ( 38 sec) [ -6776.2575] [ 1307] [depth= 1] . ( 39 sec) [ -6775.1132] [Branch lengths ] . ( 39 sec) [ -6775.1096] [GTR parameters ] . ( 40 sec) [ -6775.1065] [Alpha ][ 0.961965] . ( 42 sec) [ -6775.0538] [Branch lengths ] . ( 60 sec) [ -6775.0487] [Branch lengths ] . ( 60 sec) [ -6775.0487] [Topology ] . ( 61 sec) [ -6775.0482] [Topology ] . ( 61 sec) [ -6775.0481] [GTR parameters ] . ( 61 sec) [ -6775.0480] [Alpha ][ 0.962927] . Checking for NNIs, optimizing five branches... . ( 66 sec) [ -6774.9873] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -6774.986552 . Log likelihood obtained after SPR moves : -6774.987290 . Log likelihood of the current tree: -6774.986552. . Printing the most likely tree in file 'data77.phy_phyml_tree.txt'... . Best log likelihood : -6774.986552 . Time used 0h1m11s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo