.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2600_69x814_2006.phy . Data type : dna . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : GTR . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Nucleotide equilibrium frequencies : empirical . Optimise tree topology : yes . Tree topology search : Best of NNIs and SPRs . Starting tree : BioNJ . Add random input tree : yes . Number of random starting trees : 5 . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . 5 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . 78 patterns found. (out of a total of 814 sites) . 733 sites without polymorphism (90.05%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 3Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -6086.0806] [GTR parameters ] . ( 0 sec) [ -6018.8361] [Alpha ][ 0.500960] . ( 0 sec) [ -5933.6219] [ 340] [depth= 10] . ( 0 sec) [ -5588.4761] [ 339] [depth= 6] . ( 0 sec) [ -5471.1934] [ 335] [depth= 3] . ( 0 sec) [ -5453.0378] [ 335] [depth= 1] . ( 0 sec) [ -5353.6792] [ 331] [depth= 5] . ( 0 sec) [ -5300.3833] [ 329] [depth= 4] . ( 0 sec) [ -5212.6679] [ 329] [depth= 2] . ( 0 sec) [ -5192.6182] [ 327] [depth= 2] . ( 0 sec) [ -5060.8026] [ 327] [depth= 1] . ( 0 sec) [ -4900.5394] [ 324] [depth= 10] . ( 0 sec) [ -4812.0346] [ 321] [depth= 4] . ( 0 sec) [ -4762.5142] [ 321] [depth= 2] . ( 0 sec) [ -4760.5547] [ 321] [depth= 1] . ( 0 sec) [ -4733.7005] [ 321] [depth= 1] . ( 0 sec) [ -4726.1121] [ 321] [depth= 1] . ( 0 sec) [ -4648.2929] [ 314] [depth= 7] . ( 0 sec) [ -4637.6600] [ 313] [depth= 6] . ( 1 sec) [ -4572.4311] [ 312] [depth= 5] . ( 1 sec) [ -4534.8219] [ 308] [depth= 5] . ( 1 sec) [ -4523.5108] [ 306] [depth= 4] . ( 1 sec) [ -4474.6145] [ 301] [depth= 16] . ( 1 sec) [ -4437.6541] [ 300] [depth= 19] . ( 1 sec) [ -4433.1949] [ 296] [depth= 4] . ( 1 sec) [ -4425.3721] [ 296] [depth= 1] . ( 1 sec) [ -4396.2740] [ 296] [depth= 5] . ( 1 sec) [ -4314.0720] [ 296] [depth= 3] . ( 1 sec) [ -4305.1951] [ 294] [depth= 1] . ( 1 sec) [ -4295.3327] [ 295] [depth= 15] . ( 1 sec) [ -4292.0896] [ 294] [depth= 10] . ( 1 sec) [ -4266.0104] [ 289] [depth= 13] . ( 1 sec) [ -4265.9880] [ 289] [depth= 1] . ( 1 sec) [ -4257.9206] [ 288] [depth= 9] . ( 1 sec) [ -4257.3626] [ 288] [depth= 11] . ( 1 sec) [ -4234.1061] [ 284] [depth= 1] . ( 1 sec) [ -4225.7810] [ 285] [depth= 6] . ( 1 sec) [ -4199.4533] [ 282] [depth= 11] . ( 1 sec) [ -4195.7504] [ 282] [depth= 13] . ( 1 sec) [ -4185.3119] [ 287] [depth= 7] . ( 1 sec) [ -4175.1895] [ 287] [depth= 5] . ( 1 sec) [ -4133.7322] [ 281] [depth= 14] . ( 1 sec) [ -4133.7220] [ 281] [depth= 12] . ( 1 sec) [ -4102.4698] [ 279] [depth= 7] . ( 1 sec) [ -4048.4819] [ 264] [depth= 13] . ( 1 sec) [ -4037.9567] [ 265] [depth= 1] . ( 1 sec) [ -3993.6295] [ 260] [depth= 10] . ( 1 sec) [ -3963.6852] [ 253] [depth= 11] . ( 1 sec) [ -3935.0441] [ 250] [depth= 8] . ( 1 sec) [ -3899.4045] [ 246] [depth= 2] . ( 1 sec) [ -3853.3268] [ 246] [depth= 4] . ( 1 sec) [ -3764.2497] [ 239] [depth= 11] . ( 1 sec) [ -3764.2332] [ 239] [depth= 8] . ( 1 sec) [ -3762.1434] [ 239] [depth= 1] . ( 1 sec) [ -3757.1483] [ 239] [depth= 3] . ( 1 sec) [ -3656.2846] [ 235] [depth= 11] . ( 1 sec) [ -3626.1804] [ 230] [depth= 11] . ( 1 sec) [ -3620.6289] [ 232] [depth= 7] . ( 1 sec) [ -3619.0266] [ 232] [depth= 4] . ( 1 sec) [ -3133.4295] [ 232] [depth= 2] . ( 1 sec) [ -3025.6115] [ 208] [depth= 13] . ( 1 sec) [ -3006.5316] [ 208] [depth= 3] . ( 1 sec) [ -2940.4051] [ 212] [depth= 1] . ( 1 sec) [ -2904.5047] [ 205] [depth= 5] . ( 1 sec) [ -2904.4764] [ 205] [depth= 7] . ( 1 sec) [ -2888.3962] [ 204] [depth= 9] . ( 1 sec) [ -2864.3390] [ 199] [depth= 9] . ( 1 sec) [ -2864.3089] [ 199] [depth= 2] . ( 1 sec) [ -2863.5733] [ 199] [depth= 5] . ( 1 sec) [ -2772.2902] [ 196] [depth= 4] . ( 1 sec) [ -2771.8970] [ 196] [depth= 2] . ( 1 sec) [ -2765.3091] [ 195] [depth= 2] . ( 1 sec) [ -2763.6408] [ 195] [depth= 2] . ( 1 sec) [ -2721.5779] [ 193] [depth= 5] . ( 1 sec) [ -2717.9929] [ 193] [depth= 1] . ( 1 sec) [ -2716.3893] [ 193] [depth= 9] . ( 1 sec) [ -2539.9106] [ 189] [depth= 13] . ( 1 sec) [ -2517.3011] [ 185] [depth= 10] . ( 1 sec) [ -2510.0407] [ 184] [depth= 7] . ( 1 sec) [ -2506.5493] [ 184] [depth= 11] . ( 1 sec) [ -2461.0694] [ 180] [depth= 12] . ( 2 sec) [ -2423.3021] [ 173] [depth= 8] . ( 2 sec) [ -2392.0058] [ 173] [depth= 2] . ( 2 sec) [ -2386.3816] [ 172] [depth= 1] . ( 2 sec) [ -2377.1819] [ 170] [depth= 3] . ( 2 sec) [ -2377.1133] [ 170] [depth= 10] . ( 2 sec) [ -2373.1029] [ 170] [depth= 4] . ( 2 sec) [ -2353.3296] [ 170] [depth= 16] . ( 2 sec) [ -2341.8190] [ 168] [depth= 21] . ( 2 sec) [ -2340.6536] [ 168] [depth= 18] . ( 2 sec) [ -2337.7465] [ 168] [depth= 2] . ( 2 sec) [ -2337.7246] [ 168] [depth= 1] . ( 2 sec) [ -2306.3459] [ 168] [depth= 20] . ( 2 sec) [ -2302.8116] [ 168] [depth= 2] . ( 2 sec) [ -2300.2011] [ 167] [depth= 15] . ( 2 sec) [ -2296.1177] [ 167] [depth= 7] . ( 2 sec) [ -2295.7591] [ 167] [depth= 1] . ( 2 sec) [ -2295.1055] [ 166] [depth= 3] . ( 2 sec) [ -2291.1640] [ 166] [depth= 5] . ( 2 sec) [ -2291.1467] [ 166] [depth= 6] . ( 2 sec) [ -2270.6247] [ 163] [depth= 4] . ( 2 sec) [ -2251.4039] [ 163] [depth= 1] . ( 2 sec) [ -2243.5480] [ 163] [depth= 1] . ( 2 sec) [ -2241.4285] [ 163] [depth= 14] . ( 2 sec) [ -2241.2595] [ 163] [depth= 1] . ( 2 sec) [ -2234.4006] [ 163] [depth= 2] . ( 2 sec) [ -2230.2776] [ 163] [depth= 6] . ( 2 sec) [ -2214.7465] [ 160] [depth= 6] . ( 2 sec) [ -2186.1977] [ 156] [depth= 9] . ( 2 sec) [ -2184.7820] [ 156] [depth= 11] . ( 2 sec) [ -2184.7581] [ 156] [depth= 13] . ( 2 sec) [ -2177.3019] [ 156] [depth= 4] . ( 2 sec) [ -2169.2887] [ 156] [depth= 8] . ( 2 sec) [ -2169.2130] [ 156] [depth= 1] . ( 2 sec) [ -2166.0323] [ 156] [depth= 10] . ( 2 sec) [ -2166.0021] [ 156] [depth= 5] . ( 2 sec) [ -2165.9507] [ 156] [depth= 2] . ( 2 sec) [ -2163.5274] [ 156] [depth= 6] . ( 2 sec) [ -2161.0984] [ 156] [depth= 1] . ( 2 sec) [ -2157.1239] [ 156] [depth= 2] . ( 2 sec) [ -2136.8415] [ 152] [depth= 2] . ( 2 sec) [ -2136.2950] [ 152] [depth= 2] . ( 2 sec) [ -2134.3065] [ 152] [depth= 4] . ( 2 sec) [ -2131.6758] [ 152] [depth= 6] . ( 2 sec) [ -2131.6115] [ 152] [depth= 5] . ( 3 sec) [ -2125.0749] [ 151] [depth= 17] . ( 3 sec) [ -2124.5076] [ 151] [depth= 3] . ( 3 sec) [ -2110.5459] [ 149] [depth= 10] . ( 3 sec) [ -2109.4141] [ 149] [depth= 2] . ( 3 sec) [ -2104.2322] [ 148] [depth= 15] . ( 3 sec) [ -2064.3329] [ 140] [depth= 7] . ( 3 sec) [ -2064.3214] [ 140] [depth= 15] . ( 3 sec) [ -2064.3103] [ 140] [depth= 10] . ( 3 sec) [ -2039.2224] [ 136] [depth= 1] . ( 4 sec) [ -2039.2029] [ 136] [depth= 3] . ( 4 sec) [ -2018.3851] [ 133] [depth= 11] . ( 4 sec) [ -2018.3605] [ 133] [depth= 6] . ( 4 sec) [ -2013.1449] [ 132] [depth= 4] . ( 4 sec) [ -2005.5896] [ 129] [depth= 11] . ( 4 sec) [ -2001.6945] [ 129] [depth= 17] . ( 5 sec) [ -1994.7409] [ 128] [depth= 3] . ( 5 sec) [ -1979.3169] [ 126] [depth= 19] . ( 5 sec) [ -1979.2863] [ 127] [depth= 1] . ( 5 sec) [ -1979.2181] [ 127] [depth= 16] . ( 5 sec) [ -1968.6211] [ 126] [depth= 2] . ( 5 sec) [ -1967.1849] [ 126] [depth= 1] . ( 5 sec) [ -1957.1169] [ 124] [depth= 3] . ( 5 sec) [ -1949.5204] [ 123] [depth= 4] . ( 5 sec) [ -1949.4976] [ 123] [depth= 2] . ( 5 sec) [ -1932.5148] [ 119] [depth= 6] . ( 5 sec) [ -1932.4575] [ 119] [depth= 6] . ( 5 sec) [ -1932.4396] [ 119] [depth= 6] . ( 5 sec) [ -1932.4150] [ 119] [depth= 16] . ( 5 sec) [ -1930.7403] [Branch lengths ] . ( 6 sec) [ -1924.7623] [GTR parameters ] . ( 6 sec) [ -1916.5638] [Alpha ][ 0.250961] . ( 6 sec) [ -1892.8632] [ 114] [depth= 22] . ( 6 sec) [ -1889.1583] [ 114] [depth= 6] . ( 6 sec) [ -1887.2480] [ 114] [depth= 12] . ( 7 sec) [ -1887.2284] [ 114] [depth= 3] . ( 7 sec) [ -1879.5497] [ 113] [depth= 13] . ( 7 sec) [ -1852.7333] [ 108] [depth= 11] . ( 7 sec) [ -1849.3067] [ 108] [depth= 2] . ( 8 sec) [ -1844.0272] [ 107] [depth= 9] . ( 9 sec) [ -1839.0481] [ 106] [depth= 2] . ( 9 sec) [ -1834.3193] [ 105] [depth= 14] . ( 10 sec) [ -1831.0383] [ 103] [depth= 11] . ( 10 sec) [ -1831.0239] [ 100] [depth= 1] . ( 10 sec) [ -1830.8559] [ 100] [depth= 2] . ( 12 sec) [ -1830.8410] [ 99] [depth= 5] . ( 12 sec) [ -1827.1793] [ 99] [depth= 2] . ( 12 sec) [ -1825.6345] [ 99] [depth= 11] . ( 12 sec) [ -1821.8071] [ 99] [depth= 10] . ( 12 sec) [ -1820.8310] [ 99] [depth= 1] . ( 12 sec) [ -1820.6290] [ 99] [depth= 3] . ( 13 sec) [ -1820.6167] [ 99] [depth= 7] . ( 13 sec) [ -1819.3537] [ 99] [depth= 7] . ( 13 sec) [ -1819.2073] [ 99] [depth= 3] . ( 13 sec) [ -1819.1575] [ 99] [depth= 10] . ( 13 sec) [ -1799.8574] [ 96] [depth= 12] . ( 14 sec) [ -1796.5440] [ 95] [depth= 4] . ( 14 sec) [ -1796.5330] [ 95] [depth= 7] . ( 14 sec) [ -1793.5506] [ 94] [depth= 8] . ( 15 sec) [ -1784.7723] [ 92] [depth= 2] . ( 16 sec) [ -1784.2244] [ 92] [depth= 1] . ( 16 sec) [ -1784.2133] [ 92] [depth= 2] . ( 16 sec) [ -1784.0324] [ 92] [depth= 2] . ( 16 sec) [ -1783.6551] [ 92] [depth= 1] . ( 17 sec) [ -1783.4282] [ 92] [depth= 2] . ( 17 sec) [ -1781.3609] [ 92] [depth= 3] . ( 18 sec) [ -1781.0677] [ 92] [depth= 1] . ( 18 sec) [ -1779.9936] [ 92] [depth= 1] . ( 18 sec) [ -1779.9643] [ 92] [depth= 12] . ( 18 sec) [ -1773.5219] [ 91] [depth= 5] . ( 18 sec) [ -1773.5093] [ 91] [depth= 1] . ( 21 sec) [ -1771.6058] [ 91] [depth= 4] . ( 23 sec) [ -1771.5513] [ 91] [depth= 1] . ( 23 sec) [ -1771.5411] [ 91] [depth= 2] . ( 23 sec) [ -1765.5623] [ 90] [depth= 2] . ( 23 sec) [ -1765.5484] [ 90] [depth= 1] . ( 24 sec) [ -1765.0145] [ 90] [depth= 6] . ( 24 sec) [ -1760.6449] [ 88] [depth= 2] . ( 24 sec) [ -1760.2387] [ 88] [depth= 2] . ( 24 sec) [ -1759.4697] [ 88] [depth= 6] . ( 24 sec) [ -1757.7318] [Branch lengths ] . ( 25 sec) [ -1755.6890] [GTR parameters ] . ( 25 sec) [ -1755.6879] [Alpha ][ 0.242815] . ( 35 sec) [ -1755.6758] [ 88] [depth= 2] . ( 48 sec) [ -1755.5304] [ 88] [depth= 6] . ( 50 sec) [ -1754.4494] [ 88] [depth= 1] . ( 51 sec) [ -1753.2788] [Branch lengths ] . ( 51 sec) [ -1753.2777] [GTR parameters ] . ( 51 sec) [ -1753.2726] [Alpha ][ 0.260207] . ( 52 sec) [ -1753.1225] [ 88] [depth= 5] . ( 78 sec) [ -1753.0427] [Branch lengths ] . ( 79 sec) [ -1752.9418] [GTR parameters ] . ( 79 sec) [ -1752.9417] [Alpha ][ 0.262705] . ( 90 sec) [ -1752.9415] [Branch lengths ] . ( 90 sec) [ -1752.9415] [Topology ] . ( 90 sec) [ -1752.9415] [Topology ] . ( 91 sec) [ -1752.9399] [GTR parameters ] . ( 91 sec) [ -1752.9399] [Alpha ][ 0.263024] . ( 91 sec) [ -1752.9399] [Topology ] . ( 91 sec) [ -1752.9399] [Topology ] . ( 91 sec) [ -1752.9396] [GTR parameters ] . ( 91 sec) [ -1752.9396] [Alpha ][ 0.263024] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -1752.939621. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -5536.7438] [GTR parameters ] . ( 0 sec) [ -5475.4529] [Alpha ][ 0.500960] . ( 0 sec) [ -5334.7268] [ 315] [depth= 6] . ( 0 sec) [ -5330.6160] [ 316] [depth= 1] . ( 0 sec) [ -5277.0156] [ 309] [depth= 3] . ( 0 sec) [ -5190.1953] [ 308] [depth= 6] . ( 0 sec) [ -5092.0289] [ 305] [depth= 9] . ( 0 sec) [ -5087.6312] [ 305] [depth= 2] . ( 0 sec) [ -5080.3976] [ 305] [depth= 4] . ( 0 sec) [ -5065.6498] [ 305] [depth= 1] . ( 1 sec) [ -5064.8998] [ 305] [depth= 7] . ( 1 sec) [ -4924.7288] [ 301] [depth= 10] . ( 1 sec) [ -4886.9983] [ 301] [depth= 2] . ( 1 sec) [ -4874.5381] [ 300] [depth= 9] . ( 1 sec) [ -4782.8375] [ 296] [depth= 8] . ( 1 sec) [ -4755.1650] [ 296] [depth= 1] . ( 1 sec) [ -4732.6466] [ 292] [depth= 1] . ( 1 sec) [ -4695.9250] [ 292] [depth= 3] . ( 1 sec) [ -4692.9157] [ 295] [depth= 1] . ( 1 sec) [ -4609.9083] [ 287] [depth= 5] . ( 1 sec) [ -4570.7484] [ 286] [depth= 16] . ( 1 sec) [ -4542.8586] [ 285] [depth= 3] . ( 1 sec) [ -4489.1443] [ 278] [depth= 14] . ( 1 sec) [ -4450.4621] [ 277] [depth= 6] . ( 1 sec) [ -4439.1567] [ 276] [depth= 13] . ( 1 sec) [ -4402.4810] [ 269] [depth= 10] . ( 1 sec) [ -4365.1593] [ 269] [depth= 10] . ( 1 sec) [ -4364.9761] [ 269] [depth= 1] . ( 1 sec) [ -4213.6991] [ 268] [depth= 12] . ( 1 sec) [ -4148.7030] [ 260] [depth= 7] . ( 1 sec) [ -4134.0152] [ 256] [depth= 8] . ( 1 sec) [ -4133.9954] [ 256] [depth= 1] . ( 1 sec) [ -4126.2037] [ 255] [depth= 5] . ( 1 sec) [ -4124.1219] [ 254] [depth= 12] . ( 1 sec) [ -4090.1054] [ 254] [depth= 15] . ( 1 sec) [ -4083.5943] [ 254] [depth= 4] . ( 1 sec) [ -4030.4744] [ 251] [depth= 11] . ( 1 sec) [ -3999.7206] [ 246] [depth= 11] . ( 1 sec) [ -3964.1426] [ 244] [depth= 13] . ( 1 sec) [ -3923.1190] [ 239] [depth= 9] . ( 1 sec) [ -3914.4071] [ 239] [depth= 3] . ( 1 sec) [ -3799.3730] [ 239] [depth= 1] . ( 1 sec) [ -3704.3767] [ 239] [depth= 10] . ( 1 sec) [ -3638.7587] [ 235] [depth= 3] . ( 1 sec) [ -3622.9303] [ 231] [depth= 11] . ( 1 sec) [ -3619.4131] [ 228] [depth= 3] . ( 1 sec) [ -3550.5438] [ 225] [depth= 16] . ( 1 sec) [ -3513.4013] [ 218] [depth= 6] . ( 1 sec) [ -3487.2077] [ 218] [depth= 3] . ( 1 sec) [ -3481.6843] [ 218] [depth= 4] . ( 1 sec) [ -3434.8495] [ 214] [depth= 14] . ( 1 sec) [ -3431.9462] [ 214] [depth= 1] . ( 1 sec) [ -3424.6154] [ 213] [depth= 17] . ( 1 sec) [ -3418.7587] [ 212] [depth= 18] . ( 1 sec) [ -3418.5338] [ 212] [depth= 1] . ( 1 sec) [ -3399.7591] [ 212] [depth= 11] . ( 1 sec) [ -3192.1510] [ 203] [depth= 10] . ( 1 sec) [ -3192.1408] [ 203] [depth= 13] . ( 1 sec) [ -3173.8483] [ 203] [depth= 13] . ( 1 sec) [ -3173.7286] [ 203] [depth= 1] . ( 1 sec) [ -3173.6714] [ 203] [depth= 10] . ( 1 sec) [ -3123.2689] [ 201] [depth= 2] . ( 1 sec) [ -3095.2982] [ 195] [depth= 9] . ( 1 sec) [ -3092.1494] [ 196] [depth= 7] . ( 1 sec) [ -3047.3950] [ 198] [depth= 13] . ( 1 sec) [ -3042.6266] [ 198] [depth= 1] . ( 1 sec) [ -3039.8869] [ 198] [depth= 2] . ( 1 sec) [ -3030.6297] [ 198] [depth= 1] . ( 1 sec) [ -3029.0372] [ 198] [depth= 3] . ( 2 sec) [ -3017.8081] [ 198] [depth= 2] . ( 2 sec) [ -2983.9814] [ 191] [depth= 4] . ( 2 sec) [ -2925.0674] [ 187] [depth= 11] . ( 2 sec) [ -2909.3527] [ 185] [depth= 11] . ( 2 sec) [ -2880.3610] [ 185] [depth= 12] . ( 2 sec) [ -2756.6919] [ 185] [depth= 1] . ( 2 sec) [ -2751.5525] [ 183] [depth= 2] . ( 2 sec) [ -2506.3838] [ 183] [depth= 1] . ( 2 sec) [ -2423.8026] [ 164] [depth= 9] . ( 2 sec) [ -2389.1008] [ 162] [depth= 11] . ( 2 sec) [ -2379.1462] [ 162] [depth= 1] . ( 2 sec) [ -2377.2754] [ 162] [depth= 16] . ( 2 sec) [ -2376.1795] [ 162] [depth= 2] . ( 2 sec) [ -2376.1113] [ 162] [depth= 13] . ( 2 sec) [ -2360.2675] [ 162] [depth= 13] . ( 2 sec) [ -2348.7891] [ 161] [depth= 13] . ( 2 sec) [ -2340.9477] [ 160] [depth= 6] . ( 2 sec) [ -2340.5503] [ 160] [depth= 15] . ( 2 sec) [ -2223.6880] [ 160] [depth= 12] . ( 2 sec) [ -2213.6186] [ 160] [depth= 11] . ( 2 sec) [ -2213.5494] [ 160] [depth= 2] . ( 2 sec) [ -2213.0475] [ 160] [depth= 12] . ( 2 sec) [ -2198.0682] [ 158] [depth= 10] . ( 2 sec) [ -2198.0330] [ 158] [depth= 1] . ( 2 sec) [ -2182.6523] [ 158] [depth= 3] . ( 2 sec) [ -2167.3488] [ 155] [depth= 3] . ( 2 sec) [ -2162.1783] [ 155] [depth= 3] . ( 2 sec) [ -2141.6916] [ 155] [depth= 16] . ( 2 sec) [ -2121.2216] [ 152] [depth= 18] . ( 2 sec) [ -2120.1886] [ 152] [depth= 3] . ( 2 sec) [ -2120.1629] [ 152] [depth= 11] . ( 2 sec) [ -2120.1415] [ 152] [depth= 4] . ( 3 sec) [ -2120.1011] [ 152] [depth= 1] . ( 3 sec) [ -2120.0418] [ 152] [depth= 13] . ( 3 sec) [ -2081.8865] [ 145] [depth= 8] . ( 3 sec) [ -2081.8359] [ 145] [depth= 15] . ( 3 sec) [ -2081.8241] [ 145] [depth= 2] . ( 3 sec) [ -2080.8326] [ 145] [depth= 21] . ( 3 sec) [ -2080.8060] [ 145] [depth= 1] . ( 3 sec) [ -2080.3422] [ 145] [depth= 1] . ( 3 sec) [ -2080.3218] [ 145] [depth= 1] . ( 3 sec) [ -2076.9295] [ 145] [depth= 13] . ( 3 sec) [ -2038.6562] [ 138] [depth= 10] . ( 3 sec) [ -2038.5765] [ 138] [depth= 4] . ( 3 sec) [ -2034.7888] [ 138] [depth= 10] . ( 3 sec) [ -2024.7894] [ 137] [depth= 3] . ( 3 sec) [ -2024.4281] [ 137] [depth= 2] . ( 3 sec) [ -2023.8589] [ 137] [depth= 2] . ( 3 sec) [ -2023.8477] [ 137] [depth= 10] . ( 3 sec) [ -2023.7526] [ 137] [depth= 1] . ( 3 sec) [ -2019.7433] [ 137] [depth= 2] . ( 3 sec) [ -2019.7326] [ 137] [depth= 7] . ( 4 sec) [ -2019.1223] [ 137] [depth= 13] . ( 4 sec) [ -2018.8780] [ 137] [depth= 2] . ( 4 sec) [ -1991.9114] [ 131] [depth= 8] . ( 4 sec) [ -1987.3524] [ 131] [depth= 12] . ( 4 sec) [ -1987.3212] [ 131] [depth= 3] . ( 4 sec) [ -1981.1957] [ 131] [depth= 1] . ( 4 sec) [ -1975.3647] [ 129] [depth= 7] . ( 4 sec) [ -1931.3439] [ 116] [depth= 4] . ( 4 sec) [ -1904.3963] [ 111] [depth= 12] . ( 4 sec) [ -1903.0531] [ 111] [depth= 7] . ( 4 sec) [ -1903.0253] [ 111] [depth= 6] . ( 5 sec) [ -1901.9967] [ 111] [depth= 3] . ( 5 sec) [ -1901.9657] [ 111] [depth= 5] . ( 5 sec) [ -1892.1288] [ 109] [depth= 6] . ( 5 sec) [ -1891.6532] [ 109] [depth= 1] . ( 5 sec) [ -1891.3594] [ 109] [depth= 2] . ( 6 sec) [ -1891.3398] [ 109] [depth= 5] . ( 7 sec) [ -1890.7175] [ 109] [depth= 9] . ( 8 sec) [ -1882.9776] [Branch lengths ] . ( 9 sec) [ -1875.5089] [GTR parameters ] . ( 9 sec) [ -1869.5627] [Alpha ][ 0.250961] . ( 9 sec) [ -1866.1983] [ 108] [depth= 8] . ( 10 sec) [ -1827.2000] [ 101] [depth= 15] . ( 10 sec) [ -1821.7821] [ 99] [depth= 7] . ( 10 sec) [ -1805.8434] [ 96] [depth= 4] . ( 11 sec) [ -1798.5789] [ 95] [depth= 5] . ( 12 sec) [ -1798.4679] [ 95] [depth= 2] . ( 12 sec) [ -1789.8587] [ 93] [depth= 1] . ( 12 sec) [ -1789.8344] [ 93] [depth= 2] . ( 13 sec) [ -1784.7717] [ 92] [depth= 10] . ( 14 sec) [ -1784.7092] [ 92] [depth= 7] . ( 14 sec) [ -1784.6938] [ 92] [depth= 4] . ( 15 sec) [ -1779.2741] [ 91] [depth= 5] . ( 16 sec) [ -1773.5359] [ 90] [depth= 4] . ( 18 sec) [ -1764.7751] [ 89] [depth= 2] . ( 19 sec) [ -1764.7620] [ 89] [depth= 1] . ( 19 sec) [ -1762.2698] [ 88] [depth= 5] . ( 19 sec) [ -1762.1035] [ 88] [depth= 6] . ( 23 sec) [ -1759.4960] [ 88] [depth= 1] . ( 27 sec) [ -1759.4826] [ 88] [depth= 1] . ( 28 sec) [ -1758.8470] [ 88] [depth= 8] . ( 32 sec) [ -1758.7944] [ 88] [depth= 1] . ( 32 sec) [ -1758.6176] [ 88] [depth= 1] . ( 32 sec) [ -1756.7167] [ 88] [depth= 9] . ( 36 sec) [ -1756.6949] [ 88] [depth= 1] . ( 37 sec) [ -1756.0957] [Branch lengths ] . ( 37 sec) [ -1755.3980] [GTR parameters ] . ( 37 sec) [ -1755.3954] [Alpha ][ 0.263651] . ( 38 sec) [ -1755.2511] [ 88] [depth= 6] . ( 41 sec) [ -1754.9540] [ 88] [depth= 5] . ( 64 sec) [ -1753.1246] [Branch lengths ] . ( 64 sec) [ -1753.1246] [GTR parameters ] . ( 64 sec) [ -1753.1246] [Alpha ][ 0.262776] . ( 65 sec) [ -1753.0306] [ 88] [depth= 3] . ( 94 sec) [ -1752.9397] [Branch lengths ] . ( 94 sec) [ -1752.9397] [GTR parameters ] . ( 94 sec) [ -1752.9397] [Alpha ][ 0.263038] . ( 106 sec) [ -1752.9396] [Branch lengths ] . ( 106 sec) [ -1752.9396] [Topology ] . ( 106 sec) [ -1752.9396] [Topology ] . ( 106 sec) [ -1752.9396] [GTR parameters ] . ( 106 sec) [ -1752.9396] [Alpha ][ 0.263038] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -1752.939565. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -5711.8182] [GTR parameters ] . ( 0 sec) [ -5639.8031] [Alpha ][ 0.500960] . ( 0 sec) [ -5601.5515] [ 342] [depth= 4] . ( 0 sec) [ -5598.7762] [ 341] [depth= 2] . ( 0 sec) [ -5586.9575] [ 336] [depth= 3] . ( 0 sec) [ -5176.6147] [ 336] [depth= 5] . ( 0 sec) [ -5153.2966] [ 336] [depth= 3] . ( 0 sec) [ -5135.7857] [ 336] [depth= 1] . ( 0 sec) [ -5131.6725] [ 333] [depth= 2] . ( 0 sec) [ -5105.4511] [ 331] [depth= 1] . ( 0 sec) [ -5081.0402] [ 326] [depth= 7] . ( 0 sec) [ -5068.4591] [ 323] [depth= 6] . ( 0 sec) [ -5047.5997] [ 323] [depth= 1] . ( 1 sec) [ -5012.4685] [ 322] [depth= 4] . ( 1 sec) [ -5011.5781] [ 322] [depth= 8] . ( 1 sec) [ -4986.7097] [ 316] [depth= 12] . ( 1 sec) [ -4958.8963] [ 314] [depth= 17] . ( 1 sec) [ -4881.2068] [ 314] [depth= 8] . ( 1 sec) [ -4838.3542] [ 314] [depth= 5] . ( 1 sec) [ -4812.4035] [ 308] [depth= 17] . ( 1 sec) [ -4793.1435] [ 307] [depth= 6] . ( 1 sec) [ -4760.1360] [ 307] [depth= 1] . ( 1 sec) [ -4536.8278] [ 307] [depth= 4] . ( 1 sec) [ -4498.5198] [ 307] [depth= 1] . ( 1 sec) [ -4478.1082] [ 307] [depth= 5] . ( 1 sec) [ -4181.6047] [ 300] [depth= 21] . ( 1 sec) [ -4156.4419] [ 297] [depth= 20] . ( 1 sec) [ -4124.4286] [ 296] [depth= 10] . ( 1 sec) [ -4029.8529] [ 289] [depth= 7] . ( 1 sec) [ -4022.2526] [ 288] [depth= 6] . ( 1 sec) [ -4005.2373] [ 287] [depth= 16] . ( 1 sec) [ -3968.9150] [ 282] [depth= 6] . ( 1 sec) [ -3955.0557] [ 278] [depth= 4] . ( 1 sec) [ -3926.4126] [ 275] [depth= 7] . ( 1 sec) [ -3925.4652] [ 275] [depth= 1] . ( 1 sec) [ -3925.3676] [ 275] [depth= 1] . ( 1 sec) [ -3894.9001] [ 275] [depth= 3] . ( 1 sec) [ -3888.7904] [ 274] [depth= 4] . ( 1 sec) [ -3888.7794] [ 274] [depth= 5] . ( 1 sec) [ -3883.7282] [ 274] [depth= 23] . ( 1 sec) [ -3871.4814] [ 273] [depth= 21] . ( 1 sec) [ -3869.2791] [ 273] [depth= 1] . ( 1 sec) [ -3849.0936] [ 272] [depth= 6] . ( 1 sec) [ -3822.7398] [ 272] [depth= 2] . ( 1 sec) [ -3743.2361] [ 272] [depth= 1] . ( 1 sec) [ -3735.1634] [ 268] [depth= 5] . ( 1 sec) [ -3684.4061] [ 268] [depth= 1] . ( 1 sec) [ -3666.3848] [ 266] [depth= 11] . ( 1 sec) [ -3662.5415] [ 264] [depth= 4] . ( 1 sec) [ -3417.2668] [ 256] [depth= 2] . ( 1 sec) [ -3329.4142] [ 237] [depth= 23] . ( 1 sec) [ -3309.1918] [ 240] [depth= 1] . ( 1 sec) [ -3226.5058] [ 237] [depth= 2] . ( 1 sec) [ -3222.1431] [ 236] [depth= 10] . ( 1 sec) [ -3193.8694] [ 235] [depth= 3] . ( 1 sec) [ -3112.4397] [ 228] [depth= 21] . ( 1 sec) [ -3106.5004] [ 232] [depth= 23] . ( 1 sec) [ -3076.3612] [ 228] [depth= 6] . ( 1 sec) [ -3070.7119] [ 228] [depth= 6] . ( 1 sec) [ -2972.8886] [ 227] [depth= 8] . ( 1 sec) [ -2947.3936] [ 226] [depth= 9] . ( 1 sec) [ -2784.1461] [ 224] [depth= 9] . ( 1 sec) [ -2778.8862] [ 223] [depth= 11] . ( 1 sec) [ -2761.0371] [ 223] [depth= 1] . ( 1 sec) [ -2699.5867] [ 223] [depth= 1] . ( 1 sec) [ -2695.3912] [ 223] [depth= 2] . ( 1 sec) [ -2689.8232] [ 223] [depth= 4] . ( 1 sec) [ -2687.6532] [ 222] [depth= 1] . ( 1 sec) [ -2686.9987] [ 222] [depth= 9] . ( 1 sec) [ -2638.0605] [ 209] [depth= 18] . ( 1 sec) [ -2631.4055] [ 209] [depth= 11] . ( 1 sec) [ -2603.6429] [ 204] [depth= 6] . ( 1 sec) [ -2563.2389] [ 199] [depth= 3] . ( 1 sec) [ -2560.2021] [ 199] [depth= 3] . ( 1 sec) [ -2519.0384] [ 194] [depth= 15] . ( 1 sec) [ -2515.4447] [ 191] [depth= 2] . ( 1 sec) [ -2511.3141] [ 191] [depth= 2] . ( 1 sec) [ -2493.1946] [ 189] [depth= 8] . ( 1 sec) [ -2492.9907] [ 189] [depth= 1] . ( 2 sec) [ -2492.9681] [ 189] [depth= 2] . ( 2 sec) [ -2485.6287] [ 188] [depth= 6] . ( 2 sec) [ -2455.4924] [ 182] [depth= 3] . ( 2 sec) [ -2443.7812] [ 182] [depth= 11] . ( 2 sec) [ -2410.7114] [ 178] [depth= 2] . ( 2 sec) [ -2410.6805] [ 178] [depth= 1] . ( 2 sec) [ -2408.0284] [ 178] [depth= 8] . ( 2 sec) [ -2407.8577] [ 180] [depth= 1] . ( 2 sec) [ -2402.6840] [ 180] [depth= 1] . ( 2 sec) [ -2391.9672] [ 176] [depth= 4] . ( 2 sec) [ -2391.6371] [ 176] [depth= 1] . ( 2 sec) [ -2371.8514] [ 172] [depth= 6] . ( 2 sec) [ -2368.9213] [ 172] [depth= 2] . ( 2 sec) [ -2334.4949] [ 170] [depth= 12] . ( 2 sec) [ -2326.3030] [ 169] [depth= 10] . ( 2 sec) [ -2311.9939] [ 167] [depth= 11] . ( 2 sec) [ -2311.9657] [ 167] [depth= 12] . ( 2 sec) [ -2307.8725] [ 165] [depth= 1] . ( 2 sec) [ -2299.5239] [ 163] [depth= 12] . ( 2 sec) [ -2291.7045] [ 159] [depth= 12] . ( 2 sec) [ -2288.0244] [ 159] [depth= 1] . ( 2 sec) [ -2254.3705] [ 154] [depth= 4] . ( 2 sec) [ -2229.3087] [ 149] [depth= 10] . ( 2 sec) [ -2209.7390] [ 146] [depth= 1] . ( 2 sec) [ -2209.6332] [ 146] [depth= 1] . ( 2 sec) [ -2197.3857] [ 144] [depth= 5] . ( 2 sec) [ -2170.5513] [ 137] [depth= 11] . ( 2 sec) [ -2170.4923] [ 137] [depth= 2] . ( 2 sec) [ -2169.1152] [ 137] [depth= 2] . ( 2 sec) [ -2163.3300] [ 137] [depth= 6] . ( 2 sec) [ -2162.8940] [ 137] [depth= 9] . ( 2 sec) [ -2142.8290] [ 137] [depth= 4] . ( 2 sec) [ -2140.7387] [ 137] [depth= 6] . ( 2 sec) [ -2140.7246] [ 137] [depth= 12] . ( 2 sec) [ -2140.7073] [ 137] [depth= 10] . ( 2 sec) [ -2132.7426] [ 137] [depth= 6] . ( 2 sec) [ -2132.6332] [ 137] [depth= 5] . ( 2 sec) [ -2106.3898] [ 134] [depth= 5] . ( 2 sec) [ -2106.3513] [ 134] [depth= 1] . ( 2 sec) [ -2106.2748] [ 134] [depth= 4] . ( 2 sec) [ -2106.2580] [ 134] [depth= 6] . ( 2 sec) [ -2106.1453] [ 134] [depth= 1] . ( 2 sec) [ -2102.5570] [ 134] [depth= 1] . ( 2 sec) [ -2071.0801] [ 131] [depth= 14] . ( 2 sec) [ -2035.8888] [ 124] [depth= 14] . ( 2 sec) [ -2035.8766] [ 124] [depth= 1] . ( 2 sec) [ -1996.7749] [ 119] [depth= 10] . ( 2 sec) [ -1988.7906] [ 117] [depth= 9] . ( 2 sec) [ -1988.7621] [ 117] [depth= 1] . ( 3 sec) [ -1986.2030] [ 117] [depth= 2] . ( 3 sec) [ -1986.1913] [ 118] [depth= 1] . ( 3 sec) [ -1976.4654] [ 119] [depth= 5] . ( 3 sec) [ -1976.3897] [ 119] [depth= 1] . ( 3 sec) [ -1974.9461] [ 119] [depth= 10] . ( 3 sec) [ -1974.0420] [ 119] [depth= 3] . ( 3 sec) [ -1973.9327] [ 119] [depth= 1] . ( 3 sec) [ -1973.3062] [ 119] [depth= 3] . ( 3 sec) [ -1973.2222] [ 119] [depth= 3] . ( 3 sec) [ -1967.9492] [ 118] [depth= 13] . ( 3 sec) [ -1967.2713] [ 118] [depth= 4] . ( 3 sec) [ -1967.2540] [ 118] [depth= 1] . ( 3 sec) [ -1961.5410] [ 116] [depth= 8] . ( 3 sec) [ -1933.7558] [ 114] [depth= 2] . ( 3 sec) [ -1923.5539] [ 112] [depth= 1] . ( 4 sec) [ -1917.6012] [ 112] [depth= 4] . ( 4 sec) [ -1917.5580] [ 112] [depth= 2] . ( 4 sec) [ -1917.3241] [ 112] [depth= 3] . ( 4 sec) [ -1917.2692] [ 112] [depth= 5] . ( 4 sec) [ -1913.2343] [ 112] [depth= 4] . ( 4 sec) [ -1913.2141] [ 112] [depth= 2] . ( 5 sec) [ -1913.2025] [ 112] [depth= 5] . ( 5 sec) [ -1906.6870] [ 111] [depth= 6] . ( 5 sec) [ -1902.5166] [ 110] [depth= 2] . ( 5 sec) [ -1902.5041] [ 110] [depth= 5] . ( 5 sec) [ -1895.2062] [ 109] [depth= 7] . ( 5 sec) [ -1879.2554] [ 106] [depth= 14] . ( 5 sec) [ -1878.8583] [ 106] [depth= 3] . ( 5 sec) [ -1877.7273] [ 106] [depth= 2] . ( 5 sec) [ -1876.5512] [ 106] [depth= 5] . ( 5 sec) [ -1873.4577] [ 106] [depth= 1] . ( 5 sec) [ -1873.3392] [ 106] [depth= 5] . ( 5 sec) [ -1873.2906] [ 106] [depth= 4] . ( 5 sec) [ -1869.7219] [ 105] [depth= 19] . ( 5 sec) [ -1869.7111] [ 105] [depth= 1] . ( 5 sec) [ -1867.7591] [ 105] [depth= 1] . ( 5 sec) [ -1857.6093] [Branch lengths ] . ( 6 sec) [ -1856.0945] [GTR parameters ] . ( 6 sec) [ -1851.3221] [Alpha ][ 0.250961] . ( 6 sec) [ -1825.2633] [ 101] [depth= 15] . ( 6 sec) [ -1803.5333] [ 97] [depth= 12] . ( 6 sec) [ -1803.5210] [ 97] [depth= 1] . ( 7 sec) [ -1796.3736] [ 96] [depth= 3] . ( 7 sec) [ -1791.8658] [ 95] [depth= 1] . ( 7 sec) [ -1786.5620] [ 94] [depth= 2] . ( 8 sec) [ -1786.4740] [ 94] [depth= 6] . ( 8 sec) [ -1783.6238] [ 93] [depth= 4] . ( 8 sec) [ -1780.1435] [ 92] [depth= 10] . ( 8 sec) [ -1780.1303] [ 92] [depth= 3] . ( 8 sec) [ -1780.1047] [ 92] [depth= 6] . ( 8 sec) [ -1779.8616] [ 92] [depth= 5] . ( 10 sec) [ -1779.8512] [ 92] [depth= 3] . ( 11 sec) [ -1777.7795] [ 92] [depth= 3] . ( 11 sec) [ -1777.6701] [ 92] [depth= 3] . ( 12 sec) [ -1777.6437] [ 92] [depth= 1] . ( 12 sec) [ -1756.5187] [ 88] [depth= 12] . ( 13 sec) [ -1756.4815] [ 88] [depth= 5] . ( 15 sec) [ -1755.4478] [ 88] [depth= 1] . ( 15 sec) [ -1755.4307] [ 88] [depth= 1] . ( 15 sec) [ -1755.3304] [ 88] [depth= 1] . ( 16 sec) [ -1755.3168] [ 88] [depth= 6] . ( 16 sec) [ -1755.3038] [ 88] [depth= 1] . ( 20 sec) [ -1755.2929] [ 88] [depth= 5] . ( 20 sec) [ -1755.2604] [ 88] [depth= 1] . ( 27 sec) [ -1755.0151] [Branch lengths ] . ( 28 sec) [ -1753.9549] [GTR parameters ] . ( 28 sec) [ -1753.9526] [Alpha ][ 0.263131] . ( 28 sec) [ -1753.8083] [ 88] [depth= 4] . ( 55 sec) [ -1753.1254] [Branch lengths ] . ( 55 sec) [ -1753.1254] [GTR parameters ] . ( 55 sec) [ -1753.1254] [Alpha ][ 0.262780] . ( 55 sec) [ -1753.0314] [ 88] [depth= 2] . ( 67 sec) [ -1752.9405] [Branch lengths ] . ( 67 sec) [ -1752.9405] [GTR parameters ] . ( 67 sec) [ -1752.9405] [Alpha ][ 0.263043] . ( 67 sec) [ -1752.9405] [Topology ] . ( 67 sec) [ -1752.9405] [Topology ] . ( 67 sec) [ -1752.9405] [GTR parameters ] . ( 67 sec) [ -1752.9405] [Alpha ][ 0.263043] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -1752.940471. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -5725.0190] [GTR parameters ] . ( 0 sec) [ -5663.0994] [Alpha ][ 0.500960] . ( 0 sec) [ -5549.6307] [ 314] [depth= 2] . ( 0 sec) [ -5393.4833] [ 308] [depth= 9] . ( 0 sec) [ -5379.1486] [ 308] [depth= 3] . ( 0 sec) [ -5376.5036] [ 307] [depth= 1] . ( 0 sec) [ -5346.6207] [ 307] [depth= 3] . ( 0 sec) [ -5341.9521] [ 307] [depth= 6] . ( 0 sec) [ -5239.6188] [ 307] [depth= 2] . ( 0 sec) [ -5237.2574] [ 306] [depth= 4] . ( 0 sec) [ -5172.3073] [ 306] [depth= 2] . ( 0 sec) [ -5169.7598] [ 306] [depth= 7] . ( 0 sec) [ -5160.5943] [ 306] [depth= 3] . ( 0 sec) [ -5159.4687] [ 306] [depth= 1] . ( 0 sec) [ -5131.1784] [ 306] [depth= 4] . ( 0 sec) [ -5001.2150] [ 298] [depth= 5] . ( 0 sec) [ -4974.8617] [ 298] [depth= 1] . ( 0 sec) [ -4914.1263] [ 294] [depth= 19] . ( 0 sec) [ -4762.7344] [ 294] [depth= 2] . ( 0 sec) [ -4535.6227] [ 293] [depth= 15] . ( 0 sec) [ -4417.5315] [ 284] [depth= 13] . ( 0 sec) [ -4106.6470] [ 259] [depth= 18] . ( 0 sec) [ -3921.1467] [ 258] [depth= 21] . ( 1 sec) [ -3633.3057] [ 243] [depth= 11] . ( 1 sec) [ -3555.4871] [ 239] [depth= 4] . ( 1 sec) [ -3480.1894] [ 239] [depth= 15] . ( 1 sec) [ -3456.1362] [ 239] [depth= 1] . ( 1 sec) [ -3415.2590] [ 239] [depth= 3] . ( 1 sec) [ -3311.6559] [ 238] [depth= 4] . ( 1 sec) [ -3296.2575] [ 238] [depth= 2] . ( 1 sec) [ -3288.9010] [ 234] [depth= 10] . ( 1 sec) [ -3256.5524] [ 234] [depth= 1] . ( 1 sec) [ -3159.9653] [ 232] [depth= 3] . ( 1 sec) [ -3155.9743] [ 238] [depth= 1] . ( 1 sec) [ -3141.0123] [ 238] [depth= 3] . ( 1 sec) [ -3117.3837] [ 237] [depth= 26] . ( 1 sec) [ -3098.7814] [ 237] [depth= 1] . ( 1 sec) [ -3097.1703] [ 237] [depth= 2] . ( 1 sec) [ -3096.2117] [ 237] [depth= 1] . ( 1 sec) [ -3077.4663] [ 233] [depth= 6] . ( 1 sec) [ -3043.3739] [ 228] [depth= 3] . ( 1 sec) [ -3040.8611] [ 228] [depth= 2] . ( 1 sec) [ -3029.4359] [ 225] [depth= 12] . ( 1 sec) [ -3011.6360] [ 219] [depth= 1] . ( 1 sec) [ -3010.5932] [ 219] [depth= 1] . ( 1 sec) [ -2979.2799] [ 212] [depth= 3] . ( 1 sec) [ -2969.1203] [ 212] [depth= 10] . ( 1 sec) [ -2934.2033] [ 212] [depth= 10] . ( 1 sec) [ -2930.7579] [ 211] [depth= 1] . ( 1 sec) [ -2905.2558] [ 210] [depth= 7] . ( 1 sec) [ -2888.9368] [ 210] [depth= 9] . ( 1 sec) [ -2880.7888] [ 210] [depth= 15] . ( 1 sec) [ -2880.3306] [ 209] [depth= 14] . ( 1 sec) [ -2878.0814] [ 209] [depth= 1] . ( 1 sec) [ -2878.0661] [ 209] [depth= 4] . ( 1 sec) [ -2876.2341] [ 209] [depth= 13] . ( 1 sec) [ -2872.9875] [ 209] [depth= 5] . ( 1 sec) [ -2848.9852] [ 207] [depth= 17] . ( 1 sec) [ -2845.0190] [ 207] [depth= 1] . ( 1 sec) [ -2838.5991] [ 207] [depth= 8] . ( 1 sec) [ -2830.5736] [ 207] [depth= 1] . ( 1 sec) [ -2808.6474] [ 206] [depth= 6] . ( 1 sec) [ -2808.3304] [ 206] [depth= 1] . ( 1 sec) [ -2804.5500] [ 206] [depth= 5] . ( 1 sec) [ -2798.7338] [ 204] [depth= 10] . ( 1 sec) [ -2770.9677] [ 199] [depth= 5] . ( 1 sec) [ -2754.9478] [ 197] [depth= 11] . ( 1 sec) [ -2752.8600] [ 196] [depth= 5] . ( 1 sec) [ -2752.2625] [ 196] [depth= 1] . ( 1 sec) [ -2721.8590] [ 191] [depth= 5] . ( 1 sec) [ -2720.2792] [ 191] [depth= 3] . ( 1 sec) [ -2716.8292] [ 193] [depth= 19] . ( 1 sec) [ -2716.0407] [ 193] [depth= 21] . ( 1 sec) [ -2700.1235] [ 192] [depth= 18] . ( 1 sec) [ -2700.0922] [ 192] [depth= 2] . ( 1 sec) [ -2698.8440] [ 193] [depth= 1] . ( 1 sec) [ -2687.2413] [ 192] [depth= 4] . ( 1 sec) [ -2679.8799] [ 192] [depth= 4] . ( 1 sec) [ -2633.5822] [ 189] [depth= 14] . ( 1 sec) [ -2615.8745] [ 187] [depth= 16] . ( 1 sec) [ -2612.3192] [ 187] [depth= 8] . ( 1 sec) [ -2612.2694] [ 187] [depth= 2] . ( 1 sec) [ -2602.1811] [ 186] [depth= 17] . ( 1 sec) [ -2602.1455] [ 186] [depth= 1] . ( 1 sec) [ -2594.0966] [ 185] [depth= 6] . ( 1 sec) [ -2570.2023] [ 182] [depth= 7] . ( 1 sec) [ -2567.5755] [ 182] [depth= 11] . ( 1 sec) [ -2559.7721] [ 182] [depth= 1] . ( 2 sec) [ -2483.8694] [ 180] [depth= 2] . ( 2 sec) [ -2458.4205] [ 178] [depth= 17] . ( 2 sec) [ -2453.7036] [ 178] [depth= 16] . ( 2 sec) [ -2442.4665] [ 177] [depth= 6] . ( 2 sec) [ -2412.7193] [ 171] [depth= 1] . ( 2 sec) [ -2401.6603] [ 169] [depth= 2] . ( 2 sec) [ -2396.9716] [ 169] [depth= 22] . ( 2 sec) [ -2394.6280] [ 169] [depth= 2] . ( 2 sec) [ -2392.1683] [ 169] [depth= 15] . ( 2 sec) [ -2392.1031] [ 169] [depth= 1] . ( 2 sec) [ -2390.2788] [ 169] [depth= 18] . ( 2 sec) [ -2390.2605] [ 169] [depth= 3] . ( 2 sec) [ -2381.0388] [ 172] [depth= 9] . ( 2 sec) [ -2380.9717] [ 172] [depth= 16] . ( 2 sec) [ -2342.3848] [ 165] [depth= 5] . ( 2 sec) [ -2332.5572] [ 165] [depth= 8] . ( 2 sec) [ -2321.1825] [ 164] [depth= 10] . ( 2 sec) [ -2320.9020] [ 164] [depth= 13] . ( 2 sec) [ -2300.5518] [ 161] [depth= 12] . ( 2 sec) [ -2298.6229] [ 161] [depth= 7] . ( 2 sec) [ -2297.1876] [ 161] [depth= 1] . ( 2 sec) [ -2297.1303] [ 161] [depth= 1] . ( 2 sec) [ -2296.2813] [ 161] [depth= 10] . ( 2 sec) [ -2245.2203] [ 151] [depth= 14] . ( 2 sec) [ -2239.9851] [ 150] [depth= 1] . ( 2 sec) [ -2227.4991] [ 146] [depth= 4] . ( 2 sec) [ -2214.3216] [ 150] [depth= 9] . ( 2 sec) [ -2199.2189] [ 150] [depth= 13] . ( 2 sec) [ -2199.1472] [ 150] [depth= 2] . ( 2 sec) [ -2193.9233] [ 149] [depth= 17] . ( 2 sec) [ -2193.8496] [ 149] [depth= 6] . ( 2 sec) [ -2193.8301] [ 149] [depth= 1] . ( 2 sec) [ -2190.1624] [ 150] [depth= 4] . ( 2 sec) [ -2186.6062] [ 150] [depth= 2] . ( 2 sec) [ -2181.7843] [ 150] [depth= 5] . ( 3 sec) [ -2181.7627] [ 150] [depth= 23] . ( 3 sec) [ -2178.9214] [ 149] [depth= 10] . ( 3 sec) [ -2178.5043] [ 149] [depth= 3] . ( 3 sec) [ -2146.5328] [ 144] [depth= 10] . ( 3 sec) [ -2146.4918] [ 144] [depth= 3] . ( 3 sec) [ -2137.1765] [ 144] [depth= 7] . ( 3 sec) [ -2131.8372] [ 144] [depth= 2] . ( 3 sec) [ -2128.7861] [ 144] [depth= 5] . ( 3 sec) [ -2127.9301] [ 144] [depth= 8] . ( 3 sec) [ -2110.9579] [ 143] [depth= 5] . ( 3 sec) [ -2106.1430] [ 142] [depth= 3] . ( 3 sec) [ -2106.0326] [ 142] [depth= 1] . ( 3 sec) [ -2104.2663] [ 142] [depth= 1] . ( 3 sec) [ -2104.2456] [ 142] [depth= 1] . ( 3 sec) [ -2104.2067] [ 141] [depth= 4] . ( 3 sec) [ -2104.1921] [ 141] [depth= 2] . ( 3 sec) [ -2104.1758] [ 141] [depth= 3] . ( 4 sec) [ -2098.8804] [ 141] [depth= 9] . ( 4 sec) [ -2050.1381] [ 132] [depth= 7] . ( 4 sec) [ -2049.0698] [ 132] [depth= 3] . ( 4 sec) [ -2049.0525] [ 132] [depth= 3] . ( 4 sec) [ -2046.1997] [ 132] [depth= 1] . ( 4 sec) [ -2046.1812] [ 132] [depth= 1] . ( 4 sec) [ -2045.1970] [ 132] [depth= 3] . ( 4 sec) [ -2041.2107] [ 132] [depth= 2] . ( 4 sec) [ -2041.0741] [ 132] [depth= 2] . ( 4 sec) [ -2017.5096] [ 127] [depth= 3] . ( 4 sec) [ -2010.1164] [ 127] [depth= 1] . ( 4 sec) [ -2009.8307] [ 127] [depth= 1] . ( 4 sec) [ -2000.0676] [ 125] [depth= 3] . ( 4 sec) [ -1999.1501] [ 125] [depth= 13] . ( 4 sec) [ -1996.7935] [ 125] [depth= 15] . ( 4 sec) [ -1996.7748] [ 125] [depth= 3] . ( 4 sec) [ -1996.7499] [ 125] [depth= 7] . ( 5 sec) [ -1996.7259] [ 125] [depth= 19] . ( 5 sec) [ -1985.6579] [ 124] [depth= 3] . ( 5 sec) [ -1941.7137] [ 116] [depth= 17] . ( 5 sec) [ -1941.6442] [ 116] [depth= 1] . ( 5 sec) [ -1929.5614] [Branch lengths ] . ( 6 sec) [ -1917.9309] [GTR parameters ] . ( 6 sec) [ -1909.6667] [Alpha ][ 0.250961] . ( 6 sec) [ -1906.2067] [ 115] [depth= 5] . ( 6 sec) [ -1905.6647] [ 115] [depth= 4] . ( 6 sec) [ -1902.3601] [ 113] [depth= 4] . ( 6 sec) [ -1886.1070] [ 110] [depth= 13] . ( 6 sec) [ -1871.1773] [ 109] [depth= 3] . ( 6 sec) [ -1861.8492] [ 107] [depth= 1] . ( 6 sec) [ -1859.9310] [ 107] [depth= 7] . ( 6 sec) [ -1859.9104] [ 107] [depth= 4] . ( 7 sec) [ -1855.1656] [ 106] [depth= 3] . ( 7 sec) [ -1849.5799] [ 105] [depth= 3] . ( 7 sec) [ -1830.0033] [ 101] [depth= 11] . ( 7 sec) [ -1829.9889] [ 101] [depth= 1] . ( 7 sec) [ -1815.8965] [ 99] [depth= 4] . ( 7 sec) [ -1809.2294] [ 98] [depth= 2] . ( 8 sec) [ -1803.8119] [ 97] [depth= 2] . ( 9 sec) [ -1803.2815] [ 96] [depth= 6] . ( 9 sec) [ -1802.1905] [ 96] [depth= 4] . ( 9 sec) [ -1802.1772] [ 96] [depth= 3] . ( 9 sec) [ -1801.4010] [ 96] [depth= 1] . ( 10 sec) [ -1801.3290] [ 96] [depth= 5] . ( 11 sec) [ -1794.9438] [ 95] [depth= 3] . ( 11 sec) [ -1794.1633] [ 94] [depth= 9] . ( 11 sec) [ -1794.1374] [ 94] [depth= 1] . ( 12 sec) [ -1794.1213] [ 94] [depth= 1] . ( 13 sec) [ -1790.9408] [ 94] [depth= 1] . ( 13 sec) [ -1790.9280] [ 94] [depth= 1] . ( 14 sec) [ -1784.3213] [ 93] [depth= 1] . ( 14 sec) [ -1778.5255] [ 92] [depth= 3] . ( 14 sec) [ -1777.8567] [ 92] [depth= 5] . ( 14 sec) [ -1772.9493] [ 91] [depth= 5] . ( 14 sec) [ -1772.6587] [ 91] [depth= 4] . ( 14 sec) [ -1772.6462] [ 91] [depth= 2] . ( 15 sec) [ -1767.5281] [ 90] [depth= 3] . ( 15 sec) [ -1763.4365] [ 89] [depth= 3] . ( 15 sec) [ -1761.0936] [ 89] [depth= 1] . ( 17 sec) [ -1761.0789] [ 89] [depth= 1] . ( 18 sec) [ -1756.6532] [ 88] [depth= 2] . ( 28 sec) [ -1753.8710] [Branch lengths ] . ( 28 sec) [ -1752.9471] [GTR parameters ] . ( 28 sec) [ -1752.9447] [Alpha ][ 0.263152] . ( 55 sec) [ -1752.9398] [Branch lengths ] . ( 67 sec) [ -1752.9398] [Branch lengths ] . ( 67 sec) [ -1752.9398] [Topology ] . ( 67 sec) [ -1752.9398] [Topology ] . ( 67 sec) [ -1752.9398] [GTR parameters ] . ( 67 sec) [ -1752.9398] [Alpha ][ 0.262889] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -1752.939789. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -5454.3133] [GTR parameters ] . ( 0 sec) [ -5387.7240] [Alpha ][ 0.500960] . ( 0 sec) [ -5301.6550] [ 350] [depth= 1] . ( 0 sec) [ -5261.8275] [ 346] [depth= 3] . ( 0 sec) [ -5258.5944] [ 345] [depth= 1] . ( 0 sec) [ -5165.3338] [ 341] [depth= 4] . ( 0 sec) [ -5157.5927] [ 341] [depth= 1] . ( 0 sec) [ -5091.6006] [ 341] [depth= 1] . ( 0 sec) [ -5035.2230] [ 341] [depth= 4] . ( 1 sec) [ -4981.3007] [ 341] [depth= 3] . ( 1 sec) [ -4942.2163] [ 334] [depth= 7] . ( 1 sec) [ -4934.4428] [ 334] [depth= 5] . ( 1 sec) [ -4934.3369] [ 334] [depth= 4] . ( 1 sec) [ -4919.0033] [ 334] [depth= 2] . ( 1 sec) [ -4916.6181] [ 334] [depth= 7] . ( 1 sec) [ -4916.1681] [ 330] [depth= 9] . ( 1 sec) [ -4909.4332] [ 330] [depth= 3] . ( 1 sec) [ -4858.1775] [ 325] [depth= 13] . ( 1 sec) [ -4698.9596] [ 321] [depth= 4] . ( 1 sec) [ -4640.3168] [ 321] [depth= 5] . ( 1 sec) [ -4628.5124] [ 321] [depth= 18] . ( 1 sec) [ -4596.7936] [ 321] [depth= 2] . ( 1 sec) [ -4552.0087] [ 314] [depth= 5] . ( 1 sec) [ -4546.2504] [ 314] [depth= 3] . ( 1 sec) [ -4510.3102] [ 311] [depth= 3] . ( 1 sec) [ -4461.1542] [ 306] [depth= 9] . ( 1 sec) [ -4446.6854] [ 304] [depth= 13] . ( 1 sec) [ -4418.9377] [ 299] [depth= 6] . ( 1 sec) [ -4384.1231] [ 294] [depth= 12] . ( 1 sec) [ -4209.4087] [ 287] [depth= 9] . ( 1 sec) [ -4202.2889] [ 287] [depth= 14] . ( 1 sec) [ -4201.8094] [ 287] [depth= 2] . ( 1 sec) [ -4160.4504] [ 280] [depth= 14] . ( 1 sec) [ -4079.0103] [ 271] [depth= 14] . ( 1 sec) [ -4078.0620] [ 271] [depth= 2] . ( 1 sec) [ -4023.4335] [ 267] [depth= 6] . ( 1 sec) [ -3864.3660] [ 267] [depth= 2] . ( 1 sec) [ -3822.0601] [ 263] [depth= 8] . ( 1 sec) [ -3727.2772] [ 263] [depth= 7] . ( 1 sec) [ -3727.2669] [ 263] [depth= 1] . ( 1 sec) [ -3687.6471] [ 261] [depth= 14] . ( 1 sec) [ -3678.1247] [ 259] [depth= 9] . ( 1 sec) [ -3678.0893] [ 259] [depth= 8] . ( 1 sec) [ -3637.4169] [ 257] [depth= 5] . ( 1 sec) [ -3598.3236] [ 256] [depth= 20] . ( 1 sec) [ -3577.0944] [ 253] [depth= 14] . ( 1 sec) [ -3494.3919] [ 253] [depth= 6] . ( 1 sec) [ -3477.9568] [ 253] [depth= 7] . ( 1 sec) [ -3397.3557] [ 253] [depth= 2] . ( 1 sec) [ -3390.4436] [ 252] [depth= 8] . ( 1 sec) [ -3351.3366] [ 244] [depth= 6] . ( 1 sec) [ -3349.4723] [ 244] [depth= 1] . ( 1 sec) [ -3341.5393] [ 244] [depth= 12] . ( 1 sec) [ -3313.9438] [ 244] [depth= 20] . ( 1 sec) [ -3278.5550] [ 237] [depth= 7] . ( 1 sec) [ -3278.3490] [ 237] [depth= 4] . ( 1 sec) [ -3244.4304] [ 231] [depth= 6] . ( 1 sec) [ -3244.3985] [ 231] [depth= 13] . ( 1 sec) [ -3236.4656] [ 229] [depth= 9] . ( 1 sec) [ -3230.0613] [ 229] [depth= 20] . ( 1 sec) [ -3229.6588] [ 229] [depth= 8] . ( 1 sec) [ -3213.4583] [ 230] [depth= 1] . ( 1 sec) [ -3205.7382] [ 229] [depth= 7] . ( 1 sec) [ -3193.9216] [ 227] [depth= 14] . ( 1 sec) [ -3140.7540] [ 227] [depth= 1] . ( 1 sec) [ -3113.8303] [ 228] [depth= 1] . ( 1 sec) [ -3024.1922] [ 227] [depth= 5] . ( 2 sec) [ -3023.6450] [ 227] [depth= 1] . ( 2 sec) [ -2963.3327] [ 227] [depth= 4] . ( 2 sec) [ -2928.5672] [ 227] [depth= 3] . ( 2 sec) [ -2900.3482] [ 227] [depth= 6] . ( 2 sec) [ -2829.4214] [ 216] [depth= 11] . ( 2 sec) [ -2816.4853] [ 215] [depth= 5] . ( 2 sec) [ -2752.2552] [ 215] [depth= 5] . ( 2 sec) [ -2648.3896] [ 214] [depth= 3] . ( 2 sec) [ -2605.4546] [ 209] [depth= 22] . ( 2 sec) [ -2604.4652] [ 209] [depth= 14] . ( 2 sec) [ -2586.1487] [ 205] [depth= 3] . ( 2 sec) [ -2573.4580] [ 206] [depth= 14] . ( 2 sec) [ -2531.4286] [ 204] [depth= 15] . ( 2 sec) [ -2505.3474] [ 206] [depth= 10] . ( 2 sec) [ -2479.3503] [ 204] [depth= 12] . ( 2 sec) [ -2479.3194] [ 204] [depth= 1] . ( 2 sec) [ -2461.2339] [ 201] [depth= 14] . ( 2 sec) [ -2456.7694] [ 200] [depth= 2] . ( 2 sec) [ -2443.0060] [ 198] [depth= 6] . ( 2 sec) [ -2437.5190] [ 198] [depth= 4] . ( 2 sec) [ -2414.1507] [ 198] [depth= 4] . ( 2 sec) [ -2368.7023] [ 194] [depth= 8] . ( 2 sec) [ -2346.9004] [ 189] [depth= 8] . ( 2 sec) [ -2338.8627] [ 189] [depth= 5] . ( 2 sec) [ -2325.6793] [ 190] [depth= 3] . ( 2 sec) [ -2325.5627] [ 190] [depth= 22] . ( 2 sec) [ -2323.7308] [ 190] [depth= 2] . ( 2 sec) [ -2323.5721] [ 190] [depth= 1] . ( 2 sec) [ -2316.6695] [ 189] [depth= 26] . ( 2 sec) [ -2309.0104] [ 188] [depth= 24] . ( 3 sec) [ -2287.6198] [ 184] [depth= 1] . ( 3 sec) [ -2277.4861] [ 183] [depth= 27] . ( 3 sec) [ -2277.4453] [ 183] [depth= 7] . ( 3 sec) [ -2262.2443] [ 179] [depth= 14] . ( 3 sec) [ -2261.7576] [ 179] [depth= 1] . ( 3 sec) [ -2257.1055] [ 178] [depth= 14] . ( 3 sec) [ -2239.8051] [ 175] [depth= 7] . ( 3 sec) [ -2207.4674] [ 163] [depth= 1] . ( 3 sec) [ -2198.8620] [ 162] [depth= 14] . ( 3 sec) [ -2198.0784] [ 162] [depth= 15] . ( 3 sec) [ -2192.8114] [ 162] [depth= 5] . ( 3 sec) [ -2192.7950] [ 162] [depth= 1] . ( 3 sec) [ -2192.1076] [ 160] [depth= 11] . ( 3 sec) [ -2177.3413] [ 160] [depth= 9] . ( 3 sec) [ -2162.6440] [ 158] [depth= 15] . ( 3 sec) [ -2150.9556] [ 156] [depth= 21] . ( 3 sec) [ -2141.7840] [ 155] [depth= 1] . ( 4 sec) [ -2029.2735] [ 130] [depth= 12] . ( 4 sec) [ -2017.6285] [ 128] [depth= 3] . ( 4 sec) [ -2008.5496] [ 125] [depth= 4] . ( 4 sec) [ -2008.5206] [ 125] [depth= 13] . ( 4 sec) [ -2008.4640] [ 125] [depth= 1] . ( 4 sec) [ -2007.2576] [ 125] [depth= 15] . ( 4 sec) [ -2007.2423] [ 125] [depth= 2] . ( 4 sec) [ -2007.2157] [ 125] [depth= 2] . ( 4 sec) [ -2005.3969] [ 125] [depth= 3] . ( 4 sec) [ -2005.3786] [ 125] [depth= 1] . ( 4 sec) [ -1997.6433] [ 124] [depth= 10] . ( 4 sec) [ -1996.9219] [ 124] [depth= 4] . ( 4 sec) [ -1995.8264] [ 124] [depth= 2] . ( 4 sec) [ -1994.6727] [ 124] [depth= 12] . ( 4 sec) [ -1993.7187] [ 124] [depth= 2] . ( 4 sec) [ -1993.6572] [ 124] [depth= 2] . ( 4 sec) [ -1987.8200] [ 123] [depth= 9] . ( 4 sec) [ -1987.7544] [ 123] [depth= 2] . ( 4 sec) [ -1987.7332] [ 123] [depth= 11] . ( 5 sec) [ -1981.4442] [ 122] [depth= 9] . ( 5 sec) [ -1942.5974] [ 115] [depth= 5] . ( 5 sec) [ -1942.2740] [ 115] [depth= 11] . ( 5 sec) [ -1940.7463] [ 115] [depth= 14] . ( 5 sec) [ -1940.7305] [ 115] [depth= 14] . ( 5 sec) [ -1940.7184] [ 115] [depth= 1] . ( 5 sec) [ -1939.7196] [ 115] [depth= 2] . ( 5 sec) [ -1939.5312] [ 115] [depth= 6] . ( 5 sec) [ -1939.3106] [ 115] [depth= 1] . ( 5 sec) [ -1939.2966] [ 115] [depth= 6] . ( 5 sec) [ -1939.2811] [ 115] [depth= 2] . ( 6 sec) [ -1939.2686] [ 115] [depth= 4] . ( 6 sec) [ -1939.2361] [ 114] [depth= 5] . ( 6 sec) [ -1934.4946] [ 114] [depth= 8] . ( 6 sec) [ -1933.3614] [ 114] [depth= 1] . ( 6 sec) [ -1933.3165] [ 114] [depth= 1] . ( 6 sec) [ -1925.8525] [ 113] [depth= 6] . ( 6 sec) [ -1925.3754] [ 113] [depth= 3] . ( 6 sec) [ -1925.2431] [ 113] [depth= 4] . ( 6 sec) [ -1924.2366] [ 113] [depth= 1] . ( 6 sec) [ -1886.0748] [ 106] [depth= 8] . ( 7 sec) [ -1885.9863] [ 106] [depth= 2] . ( 7 sec) [ -1885.6767] [ 106] [depth= 1] . ( 7 sec) [ -1885.6616] [ 106] [depth= 10] . ( 7 sec) [ -1866.0189] [Branch lengths ] . ( 7 sec) [ -1856.4035] [GTR parameters ] . ( 7 sec) [ -1851.2378] [Alpha ][ 0.250961] . ( 7 sec) [ -1846.1752] [ 105] [depth= 9] . ( 7 sec) [ -1843.9571] [ 105] [depth= 5] . ( 7 sec) [ -1836.9155] [ 103] [depth= 8] . ( 8 sec) [ -1824.2452] [ 101] [depth= 18] . ( 10 sec) [ -1787.7584] [ 94] [depth= 21] . ( 10 sec) [ -1781.8968] [ 93] [depth= 2] . ( 11 sec) [ -1781.8629] [ 93] [depth= 1] . ( 11 sec) [ -1781.8516] [ 93] [depth= 6] . ( 11 sec) [ -1774.6074] [ 92] [depth= 4] . ( 12 sec) [ -1769.3368] [ 91] [depth= 7] . ( 12 sec) [ -1762.1274] [ 90] [depth= 7] . ( 14 sec) [ -1759.9166] [ 89] [depth= 4] . ( 14 sec) [ -1753.8188] [ 88] [depth= 3] . ( 21 sec) [ -1753.7467] [ 88] [depth= 1] . ( 30 sec) [ -1753.7319] [ 88] [depth= 1] . ( 30 sec) [ -1753.6427] [Branch lengths ] . ( 30 sec) [ -1752.9428] [GTR parameters ] . ( 30 sec) [ -1752.9404] [Alpha ][ 0.263174] . ( 57 sec) [ -1752.9394] [Branch lengths ] . ( 69 sec) [ -1752.9394] [Branch lengths ] . ( 69 sec) [ -1752.9394] [Topology ] . ( 69 sec) [ -1752.9394] [Topology ] . ( 69 sec) [ -1752.9394] [GTR parameters ] . ( 69 sec) [ -1752.9394] [Alpha ][ 0.262911] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -1752.939426. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -1760.0324] [GTR parameters ] . ( 1 sec) [ -1758.8364] [Alpha ][ 0.500960] . ( 1 sec) [ -1758.8364] [Topology ] . ( 1 sec) [ -1757.9994] [Topology ] . ( 1 sec) [ -1757.7988] [Topology ] . ( 1 sec) [ -1757.6159] [Topology ] . ( 2 sec) [ -1757.1661] [Topology ] . ( 2 sec) [ -1756.5983] [Topology ] . ( 2 sec) [ -1756.4486] [Topology ] . Checking for NNIs, optimizing five branches... . ( 3 sec) [ -1756.4477] [GTR parameters ] . ( 3 sec) [ -1756.0064] [Alpha ][ 0.263992] . ( 3 sec) [ -1756.0064] [Topology ] . ( 4 sec) [ -1755.9699] [Topology ] . ( 4 sec) [ -1755.9612] [Topology ] . ( 4 sec) [ -1755.9590] [Topology ] . ( 4 sec) [ -1755.9585] [Topology ] . Checking for NNIs, optimizing five branches... . ( 6 sec) [ -1755.9574] [GTR parameters ] . ( 6 sec) [ -1755.9574] [Alpha ][ 0.263266] . ( 6 sec) [ -1755.9574] [Topology ] . ( 6 sec) [ -1755.9572] [Topology ] . Checking for NNIs, optimizing five branches... . ( 7 sec) [ -1755.9572] [GTR parameters ] . ( 7 sec) [ -1755.9572] [Alpha ][ 0.263266] . ( 7 sec) [ -1755.9572] [Topology ] . ( 7 sec) [ -1755.9572] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 10 sec) [ -1760.0324] [GTR parameters ] . ( 10 sec) [ -1758.8364] [Alpha ][ 0.500960] . ( 12 sec) [ -1758.7889] [ 88] [depth= 2] . ( 12 sec) [ -1758.5381] [ 88] [depth= 1] . ( 18 sec) [ -1758.5276] [ 88] [depth= 3] . ( 21 sec) [ -1758.5154] [ 88] [depth= 1] . ( 23 sec) [ -1755.8668] [ 88] [depth= 3] . ( 24 sec) [ -1755.8502] [ 88] [depth= 1] . ( 26 sec) [ -1755.8342] [ 88] [depth= 5] . ( 30 sec) [ -1755.8239] [ 88] [depth= 2] . ( 30 sec) [ -1755.6700] [ 88] [depth= 2] . ( 30 sec) [ -1755.6352] [ 88] [depth= 2] . ( 34 sec) [ -1753.7134] [Branch lengths ] . ( 34 sec) [ -1753.6296] [GTR parameters ] . ( 34 sec) [ -1753.1857] [Alpha ][ 0.263760] . ( 55 sec) [ -1753.0375] [ 88] [depth= 9] . ( 55 sec) [ -1753.0205] [ 88] [depth= 8] . ( 60 sec) [ -1752.9378] [Branch lengths ] . ( 60 sec) [ -1752.9365] [GTR parameters ] . ( 60 sec) [ -1752.9365] [Alpha ][ 0.262989] . ( 72 sec) [ -1752.9364] [Branch lengths ] . ( 72 sec) [ -1752.9364] [Topology ] . ( 72 sec) [ -1752.9364] [Topology ] . ( 72 sec) [ -1752.9364] [GTR parameters ] . ( 72 sec) [ -1752.9364] [Alpha ][ 0.262989] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -1755.957162 . Log likelihood obtained after SPR moves : -1752.936430 . Log likelihood of the current tree: -1752.936430. . Printing the most likely tree in file 'nucleic_M2600_69x814_2006.phy_phyml_tree.txt'... . Best log likelihood : -1752.936430 . Time used 0h1m14s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 479.13user 0.00system 8:04.44elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps