.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1376_36x484_2003.phy . Data type : aa . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : WAG . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Amino acid equilibrium frequencies : model . 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... . 392 patterns found. (out of a total of 484 sites) . 132 sites without polymorphism (27.27%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 34Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -16596.1582] [Alpha ][ 0.500960] . ( 2 sec) [ -16244.2529] [ 2923] [depth= 9] . ( 2 sec) [ -16145.4986] [ 2923] [depth= 6] . ( 2 sec) [ -16128.6796] [ 2922] [depth= 1] . ( 3 sec) [ -16090.1186] [ 2915] [depth= 1] . ( 3 sec) [ -16027.9967] [ 2899] [depth= 1] . ( 4 sec) [ -15953.3105] [ 2891] [depth= 1] . ( 4 sec) [ -15822.9738] [ 2888] [depth= 2] . ( 4 sec) [ -15775.0831] [ 2883] [depth= 7] . ( 5 sec) [ -15650.7639] [ 2780] [depth= 4] . ( 5 sec) [ -15628.5097] [ 2780] [depth= 8] . ( 6 sec) [ -15602.2496] [ 2732] [depth= 3] . ( 6 sec) [ -15538.3972] [ 2724] [depth= 1] . ( 6 sec) [ -15364.3531] [ 2718] [depth= 1] . ( 7 sec) [ -15327.6470] [ 2713] [depth= 2] . ( 7 sec) [ -15145.8867] [ 2627] [depth= 5] . ( 8 sec) [ -15130.9609] [ 2621] [depth= 1] . ( 8 sec) [ -15086.1298] [ 2617] [depth= 7] . ( 9 sec) [ -15076.2810] [ 2611] [depth= 1] . ( 9 sec) [ -14742.1806] [ 2544] [depth= 1] . ( 9 sec) [ -14717.3843] [ 2542] [depth= 1] . ( 11 sec) [ -14677.0831] [ 2528] [depth= 7] . ( 11 sec) [ -14659.0572] [ 2529] [depth= 1] . ( 12 sec) [ -14573.5309] [ 2516] [depth= 5] . ( 12 sec) [ -14532.4763] [ 2521] [depth= 1] . ( 13 sec) [ -14521.4951] [ 2516] [depth= 1] . ( 13 sec) [ -14517.8266] [ 2517] [depth= 1] . ( 14 sec) [ -14213.0734] [ 2512] [depth= 1] . ( 14 sec) [ -14178.5176] [ 2507] [depth= 3] . ( 14 sec) [ -14074.2451] [ 2401] [depth= 3] . ( 15 sec) [ -13965.3564] [ 2384] [depth= 5] . ( 15 sec) [ -13932.9757] [ 2374] [depth= 10] . ( 16 sec) [ -13865.7709] [ 2355] [depth= 3] . ( 16 sec) [ -13729.3652] [ 2346] [depth= 3] . ( 17 sec) [ -13719.1015] [ 2342] [depth= 1] . ( 17 sec) [ -13458.9223] [ 2334] [depth= 1] . ( 18 sec) [ -13360.9225] [ 2333] [depth= 1] . ( 18 sec) [ -13321.1346] [ 2326] [depth= 13] . ( 19 sec) [ -12990.0584] [ 2318] [depth= 11] . ( 19 sec) [ -12881.4036] [ 2291] [depth= 2] . ( 20 sec) [ -12877.1436] [ 2288] [depth= 2] . ( 20 sec) [ -12858.3596] [ 2278] [depth= 4] . ( 21 sec) [ -12656.9853] [ 2261] [depth= 8] . ( 21 sec) [ -12630.9779] [ 2257] [depth= 1] . ( 22 sec) [ -12620.7499] [ 2255] [depth= 1] . ( 23 sec) [ -12613.9593] [ 2254] [depth= 1] . ( 23 sec) [ -12603.7273] [ 2254] [depth= 2] . ( 24 sec) [ -12463.6651] [ 2221] [depth= 7] . ( 25 sec) [ -12462.9579] [ 2223] [depth= 1] . ( 26 sec) [ -12461.3468] [ 2227] [depth= 2] . ( 26 sec) [ -12460.2882] [ 2226] [depth= 2] . ( 27 sec) [ -12450.8802] [ 2230] [depth= 1] . ( 27 sec) [ -12325.6326] [ 2194] [depth= 1] . ( 28 sec) [ -12315.8712] [ 2191] [depth= 2] . ( 30 sec) [ -12297.6884] [ 2188] [depth= 2] . ( 30 sec) [ -12293.2915] [ 2186] [depth= 2] . ( 31 sec) [ -12193.3920] [ 2187] [depth= 1] . ( 31 sec) [ -12192.2463] [ 2186] [depth= 1] . ( 32 sec) [ -12186.5461] [ 2179] [depth= 4] . ( 32 sec) [ -11877.1953] [ 2069] [depth= 9] . ( 33 sec) [ -11824.0109] [ 2062] [depth= 3] . ( 34 sec) [ -11823.2200] [ 2064] [depth= 1] . ( 34 sec) [ -11818.4373] [ 2061] [depth= 1] . ( 35 sec) [ -11777.3874] [ 2055] [depth= 2] . ( 35 sec) [ -11747.2315] [ 2056] [depth= 1] . ( 36 sec) [ -11734.9773] [ 2054] [depth= 1] . ( 36 sec) [ -11731.7454] [ 2054] [depth= 1] . ( 37 sec) [ -11722.5504] [ 2053] [depth= 1] . ( 37 sec) [ -11718.0109] [ 2046] [depth= 3] . ( 38 sec) [ -11713.1405] [ 2044] [depth= 1] . ( 41 sec) [ -11712.1458] [ 2046] [depth= 1] . ( 41 sec) [ -11692.6615] [ 2042] [depth= 2] . ( 42 sec) [ -11690.2796] [ 2040] [depth= 5] . ( 43 sec) [ -11629.3305] [Branch lengths ] . ( 44 sec) [ -11627.5275] [Alpha ][ 0.567446] . ( 45 sec) [ -11625.6144] [ 2034] [depth= 2] . ( 46 sec) [ -11619.2162] [ 2032] [depth= 1] . ( 52 sec) [ -11617.4495] [ 2033] [depth= 1] . ( 52 sec) [ -11616.8396] [ 2031] [depth= 1] . ( 64 sec) [ -11613.9487] [ 2031] [depth= 1] . ( 66 sec) [ -11612.9511] [ 2031] [depth= 1] . ( 66 sec) [ -11611.3508] [ 2029] [depth= 3] . ( 70 sec) [ -11610.9086] [ 2027] [depth= 1] . ( 78 sec) [ -11608.5350] [ 2025] [depth= 2] . ( 80 sec) [ -11607.9239] [ 2023] [depth= 1] . ( 81 sec) [ -11607.8833] [ 2026] [depth= 1] . ( 82 sec) [ -11607.3793] [ 2026] [depth= 2] . ( 83 sec) [ -11574.6661] [ 1997] [depth= 2] . ( 87 sec) [ -11574.2283] [ 2000] [depth= 1] . ( 90 sec) [ -11571.9399] [ 1997] [depth= 2] . ( 106 sec) [ -11571.1927] [ 1997] [depth= 1] . ( 116 sec) [ -11557.1082] [Branch lengths ] . ( 117 sec) [ -11556.3529] [Alpha ][ 0.615904] . ( 124 sec) [ -11541.5134] [ 1986] [depth= 5] . ( 145 sec) [ -11539.1284] [ 1983] [depth= 1] . ( 146 sec) [ -11536.8151] [ 1983] [depth= 1] . ( 173 sec) [ -11536.5946] [ 1982] [depth= 1] . ( 188 sec) [ -11530.3371] [Branch lengths ] . ( 188 sec) [ -11530.3010] [Alpha ][ 0.627323] . ( 258 sec) [ -11529.8734] [Branch lengths ] . ( 258 sec) [ -11529.8734] [Topology ] . ( 262 sec) [ -11529.8220] [Topology ] . ( 265 sec) [ -11529.8048] [Topology ] . ( 268 sec) [ -11529.7961] [Topology ] . ( 271 sec) [ -11529.7914] [Topology ] . ( 274 sec) [ -11529.7889] [Topology ] . ( 277 sec) [ -11529.7875] [Topology ] . ( 278 sec) [ -11529.7586] [Alpha ][ 0.637636] . ( 278 sec) [ -11529.7586] [Topology ] . ( 281 sec) [ -11529.7539] [Topology ] . ( 284 sec) [ -11529.7515] [Topology ] . ( 287 sec) [ -11529.7503] [Topology ] . ( 290 sec) [ -11529.7496] [Topology ] . ( 291 sec) [ -11529.7492] [Alpha ][ 0.638883] . ( 291 sec) [ -11529.7492] [Topology ] . ( 294 sec) [ -11529.7486] [Topology ] . ( 295 sec) [ -11529.7486] [Alpha ][ 0.638883] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11529.748581. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -17547.8039] [Alpha ][ 0.500960] . ( 2 sec) [ -17344.0446] [ 3080] [depth= 8] . ( 2 sec) [ -17010.0156] [ 3001] [depth= 7] . ( 3 sec) [ -16920.1087] [ 2997] [depth= 1] . ( 3 sec) [ -16632.2618] [ 2986] [depth= 5] . ( 4 sec) [ -16445.9439] [ 2925] [depth= 2] . ( 4 sec) [ -16395.2152] [ 2922] [depth= 1] . ( 4 sec) [ -16359.7195] [ 2918] [depth= 1] . ( 5 sec) [ -16333.9433] [ 2914] [depth= 2] . ( 5 sec) [ -16200.2965] [ 2892] [depth= 10] . ( 6 sec) [ -16025.2495] [ 2883] [depth= 3] . ( 6 sec) [ -15749.2835] [ 2867] [depth= 13] . ( 7 sec) [ -15645.9732] [ 2824] [depth= 7] . ( 7 sec) [ -15571.3489] [ 2820] [depth= 1] . ( 7 sec) [ -15392.0091] [ 2736] [depth= 8] . ( 8 sec) [ -15306.8018] [ 2724] [depth= 6] . ( 8 sec) [ -15285.7594] [ 2726] [depth= 1] . ( 9 sec) [ -15200.3331] [ 2706] [depth= 1] . ( 9 sec) [ -15181.7272] [ 2702] [depth= 1] . ( 9 sec) [ -15138.5148] [ 2692] [depth= 1] . ( 10 sec) [ -15133.9383] [ 2693] [depth= 5] . ( 10 sec) [ -15123.1466] [ 2706] [depth= 1] . ( 11 sec) [ -15084.1972] [ 2686] [depth= 5] . ( 11 sec) [ -14910.2505] [ 2628] [depth= 12] . ( 12 sec) [ -14772.4198] [ 2620] [depth= 1] . ( 12 sec) [ -14735.8375] [ 2608] [depth= 1] . ( 13 sec) [ -14546.8478] [ 2592] [depth= 1] . ( 13 sec) [ -14474.2128] [ 2584] [depth= 5] . ( 13 sec) [ -14451.1791] [ 2584] [depth= 1] . ( 14 sec) [ -14448.5876] [ 2581] [depth= 2] . ( 14 sec) [ -14440.0325] [ 2582] [depth= 9] . ( 15 sec) [ -14396.8461] [ 2570] [depth= 2] . ( 15 sec) [ -14396.5016] [ 2569] [depth= 1] . ( 16 sec) [ -13947.0957] [ 2462] [depth= 8] . ( 16 sec) [ -13924.8182] [ 2461] [depth= 6] . ( 16 sec) [ -13719.4702] [ 2461] [depth= 1] . ( 17 sec) [ -13693.3969] [ 2461] [depth= 2] . ( 18 sec) [ -13429.8575] [ 2359] [depth= 7] . ( 19 sec) [ -13412.3324] [ 2355] [depth= 1] . ( 19 sec) [ -13226.8803] [ 2330] [depth= 4] . ( 20 sec) [ -13222.2379] [ 2330] [depth= 5] . ( 21 sec) [ -12964.8034] [ 2245] [depth= 1] . ( 21 sec) [ -12709.9742] [ 2213] [depth= 1] . ( 21 sec) [ -12697.0113] [ 2210] [depth= 1] . ( 22 sec) [ -12212.6467] [ 2109] [depth= 5] . ( 23 sec) [ -12201.5526] [ 2109] [depth= 1] . ( 23 sec) [ -12195.7415] [ 2107] [depth= 1] . ( 23 sec) [ -12184.8884] [ 2108] [depth= 2] . ( 24 sec) [ -12184.3650] [ 2110] [depth= 1] . ( 25 sec) [ -12162.0844] [ 2110] [depth= 3] . ( 25 sec) [ -12161.1192] [ 2109] [depth= 1] . ( 26 sec) [ -12151.5085] [ 2114] [depth= 7] . ( 27 sec) [ -12131.6205] [ 2110] [depth= 3] . ( 27 sec) [ -12096.9685] [ 2112] [depth= 8] . ( 28 sec) [ -12074.6466] [ 2107] [depth= 1] . ( 28 sec) [ -12069.4859] [ 2104] [depth= 1] . ( 29 sec) [ -12063.8566] [ 2103] [depth= 3] . ( 31 sec) [ -12054.4083] [ 2103] [depth= 3] . ( 31 sec) [ -12045.6266] [ 2101] [depth= 2] . ( 32 sec) [ -12017.5036] [ 2073] [depth= 6] . ( 32 sec) [ -12006.8615] [ 2073] [depth= 1] . ( 33 sec) [ -11990.1625] [ 2067] [depth= 5] . ( 33 sec) [ -11976.4960] [ 2064] [depth= 1] . ( 34 sec) [ -11973.5850] [ 2061] [depth= 1] . ( 35 sec) [ -11962.3901] [ 2054] [depth= 3] . ( 35 sec) [ -11921.3227] [ 2054] [depth= 1] . ( 35 sec) [ -11776.6148] [ 2010] [depth= 3] . ( 36 sec) [ -11756.5145] [ 2011] [depth= 1] . ( 36 sec) [ -11752.6573] [ 2011] [depth= 1] . ( 43 sec) [ -11748.1439] [ 2016] [depth= 3] . ( 45 sec) [ -11656.9253] [Branch lengths ] . ( 45 sec) [ -11654.4944] [Alpha ][ 0.579521] . ( 48 sec) [ -11652.1202] [ 2014] [depth= 1] . ( 48 sec) [ -11640.1394] [ 2011] [depth= 2] . ( 49 sec) [ -11634.5627] [ 2005] [depth= 4] . ( 50 sec) [ -11633.1284] [ 2008] [depth= 1] . ( 51 sec) [ -11632.7460] [ 2010] [depth= 1] . ( 51 sec) [ -11614.1803] [ 2001] [depth= 2] . ( 52 sec) [ -11612.1002] [ 2000] [depth= 2] . ( 56 sec) [ -11605.0315] [ 1999] [depth= 6] . ( 58 sec) [ -11597.6887] [ 1995] [depth= 4] . ( 60 sec) [ -11582.0177] [ 1988] [depth= 1] . ( 63 sec) [ -11562.6134] [ 1981] [depth= 5] . ( 64 sec) [ -11558.4514] [ 1986] [depth= 3] . ( 68 sec) [ -11558.2411] [ 1985] [depth= 1] . ( 70 sec) [ -11558.1770] [ 1986] [depth= 1] . ( 79 sec) [ -11551.8462] [ 1984] [depth= 1] . ( 80 sec) [ -11551.0213] [ 1983] [depth= 1] . ( 84 sec) [ -11549.3370] [ 1986] [depth= 2] . ( 93 sec) [ -11545.3199] [ 1983] [depth= 1] . ( 94 sec) [ -11544.0830] [ 1983] [depth= 1] . ( 103 sec) [ -11532.3848] [Branch lengths ] . ( 103 sec) [ -11532.0338] [Alpha ][ 0.613056] . ( 104 sec) [ -11531.7716] [ 1985] [depth= 2] . ( 176 sec) [ -11530.3377] [Branch lengths ] . ( 176 sec) [ -11530.2951] [Alpha ][ 0.625408] . ( 250 sec) [ -11529.9802] [Branch lengths ] . ( 250 sec) [ -11529.9802] [Topology ] . ( 253 sec) [ -11529.9369] [Topology ] . ( 256 sec) [ -11529.9203] [Topology ] . ( 259 sec) [ -11529.9115] [Topology ] . ( 263 sec) [ -11529.9068] [Topology ] . ( 266 sec) [ -11529.9042] [Topology ] . ( 269 sec) [ -11529.9028] [Topology ] . ( 270 sec) [ -11529.8720] [Alpha ][ 0.635998] . ( 270 sec) [ -11529.8720] [Topology ] . ( 273 sec) [ -11529.8669] [Topology ] . ( 276 sec) [ -11529.8644] [Topology ] . ( 279 sec) [ -11529.8630] [Topology ] . ( 282 sec) [ -11529.8622] [Topology ] . ( 283 sec) [ -11529.8617] [Alpha ][ 0.637336] . ( 283 sec) [ -11529.8617] [Topology ] . ( 286 sec) [ -11529.8610] [Topology ] . ( 287 sec) [ -11529.8610] [Alpha ][ 0.637336] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11529.861023. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -19430.0054] [Alpha ][ 0.500960] . ( 1 sec) [ -19002.8193] [ 3183] [depth= 8] . ( 2 sec) [ -18721.9054] [ 3149] [depth= 5] . ( 2 sec) [ -18291.4154] [ 3082] [depth= 1] . ( 3 sec) [ -18075.9237] [ 3062] [depth= 5] . ( 3 sec) [ -17872.9479] [ 2993] [depth= 4] . ( 3 sec) [ -17454.1805] [ 2975] [depth= 9] . ( 4 sec) [ -17401.7442] [ 2965] [depth= 1] . ( 4 sec) [ -17224.7092] [ 2963] [depth= 2] . ( 4 sec) [ -17147.7056] [ 2941] [depth= 1] . ( 5 sec) [ -17011.0615] [ 2933] [depth= 9] . ( 5 sec) [ -16987.0805] [ 2925] [depth= 1] . ( 6 sec) [ -16984.6911] [ 2920] [depth= 3] . ( 6 sec) [ -16744.8383] [ 2839] [depth= 1] . ( 7 sec) [ -16327.8772] [ 2812] [depth= 4] . ( 7 sec) [ -16152.8842] [ 2809] [depth= 4] . ( 8 sec) [ -16043.3515] [ 2787] [depth= 7] . ( 8 sec) [ -15917.4501] [ 2757] [depth= 6] . ( 9 sec) [ -15876.0365] [ 2747] [depth= 4] . ( 9 sec) [ -15683.2704] [ 2736] [depth= 3] . ( 9 sec) [ -15615.9597] [ 2726] [depth= 3] . ( 10 sec) [ -15299.8380] [ 2737] [depth= 1] . ( 10 sec) [ -15253.4724] [ 2733] [depth= 7] . ( 11 sec) [ -15140.7517] [ 2671] [depth= 2] . ( 11 sec) [ -15009.8010] [ 2662] [depth= 9] . ( 11 sec) [ -14991.2270] [ 2657] [depth= 6] . ( 12 sec) [ -14983.3005] [ 2659] [depth= 2] . ( 12 sec) [ -14968.6251] [ 2653] [depth= 1] . ( 13 sec) [ -14932.4305] [ 2647] [depth= 8] . ( 13 sec) [ -14845.8881] [ 2641] [depth= 1] . ( 14 sec) [ -14828.6035] [ 2636] [depth= 7] . ( 14 sec) [ -14786.1173] [ 2584] [depth= 3] . ( 14 sec) [ -14527.0610] [ 2580] [depth= 2] . ( 15 sec) [ -14524.6421] [ 2578] [depth= 8] . ( 16 sec) [ -14510.8421] [ 2576] [depth= 6] . ( 16 sec) [ -14498.6586] [ 2571] [depth= 1] . ( 17 sec) [ -14440.5397] [ 2561] [depth= 8] . ( 17 sec) [ -14382.1117] [ 2555] [depth= 9] . ( 18 sec) [ -14376.8859] [ 2557] [depth= 1] . ( 18 sec) [ -14331.2583] [ 2547] [depth= 10] . ( 19 sec) [ -14320.6531] [ 2547] [depth= 1] . ( 19 sec) [ -14308.6538] [ 2549] [depth= 5] . ( 20 sec) [ -14298.5800] [ 2547] [depth= 2] . ( 20 sec) [ -13995.0316] [ 2547] [depth= 4] . ( 21 sec) [ -13973.2385] [ 2542] [depth= 7] . ( 22 sec) [ -13847.3203] [ 2488] [depth= 1] . ( 22 sec) [ -13804.8294] [ 2481] [depth= 4] . ( 23 sec) [ -13594.2892] [ 2406] [depth= 5] . ( 23 sec) [ -13593.3573] [ 2406] [depth= 1] . ( 23 sec) [ -13592.7155] [ 2407] [depth= 1] . ( 24 sec) [ -13481.4328] [ 2367] [depth= 3] . ( 24 sec) [ -13462.7221] [ 2367] [depth= 1] . ( 25 sec) [ -13168.8403] [ 2323] [depth= 5] . ( 25 sec) [ -12990.2701] [ 2277] [depth= 3] . ( 26 sec) [ -12983.5184] [ 2277] [depth= 2] . ( 26 sec) [ -12933.3930] [ 2265] [depth= 5] . ( 27 sec) [ -12505.1039] [ 2164] [depth= 2] . ( 27 sec) [ -12494.3611] [ 2158] [depth= 1] . ( 28 sec) [ -12482.3335] [ 2156] [depth= 1] . ( 28 sec) [ -12477.8807] [ 2154] [depth= 2] . ( 29 sec) [ -12449.0665] [ 2153] [depth= 1] . ( 29 sec) [ -12445.5334] [ 2151] [depth= 1] . ( 30 sec) [ -12306.0519] [ 2142] [depth= 3] . ( 31 sec) [ -12304.2164] [ 2141] [depth= 1] . ( 32 sec) [ -12304.1788] [ 2143] [depth= 1] . ( 33 sec) [ -12270.9475] [ 2141] [depth= 1] . ( 33 sec) [ -12250.1598] [ 2136] [depth= 3] . ( 34 sec) [ -12246.1231] [ 2139] [depth= 1] . ( 36 sec) [ -12245.4264] [ 2139] [depth= 1] . ( 36 sec) [ -12162.8079] [ 2123] [depth= 2] . ( 37 sec) [ -12157.1444] [ 2122] [depth= 1] . ( 37 sec) [ -11736.1515] [ 2009] [depth= 9] . ( 38 sec) [ -11696.5284] [ 2014] [depth= 2] . ( 39 sec) [ -11678.0539] [ 2011] [depth= 5] . ( 39 sec) [ -11663.4216] [ 2010] [depth= 3] . ( 42 sec) [ -11599.0391] [Branch lengths ] . ( 42 sec) [ -11596.5803] [Alpha ][ 0.580559] . ( 43 sec) [ -11596.3582] [ 2012] [depth= 1] . ( 44 sec) [ -11595.7408] [ 2012] [depth= 1] . ( 50 sec) [ -11586.7919] [ 2010] [depth= 5] . ( 51 sec) [ -11586.2298] [ 2012] [depth= 1] . ( 54 sec) [ -11580.4181] [ 1993] [depth= 5] . ( 54 sec) [ -11578.5919] [ 1989] [depth= 1] . ( 63 sec) [ -11574.0417] [ 1992] [depth= 1] . ( 65 sec) [ -11573.8853] [ 1995] [depth= 1] . ( 74 sec) [ -11572.2863] [ 1994] [depth= 1] . ( 75 sec) [ -11569.7800] [ 1991] [depth= 1] . ( 76 sec) [ -11568.6655] [ 1992] [depth= 1] . ( 78 sec) [ -11566.2459] [ 1994] [depth= 1] . ( 80 sec) [ -11561.2508] [ 1990] [depth= 1] . ( 88 sec) [ -11560.6528] [ 1993] [depth= 1] . ( 90 sec) [ -11559.2144] [ 1990] [depth= 2] . ( 96 sec) [ -11559.1912] [ 1991] [depth= 1] . ( 96 sec) [ -11546.4231] [ 1987] [depth= 1] . ( 101 sec) [ -11546.4130] [ 1986] [depth= 1] . ( 106 sec) [ -11534.7246] [Branch lengths ] . ( 106 sec) [ -11534.2942] [Alpha ][ 0.617679] . ( 115 sec) [ -11533.1337] [ 1986] [depth= 2] . ( 127 sec) [ -11532.1649] [ 1985] [depth= 1] . ( 175 sec) [ -11530.1519] [Branch lengths ] . ( 176 sec) [ -11530.1167] [Alpha ][ 0.628942] . ( 249 sec) [ -11529.9257] [Branch lengths ] . ( 249 sec) [ -11529.9257] [Topology ] . ( 252 sec) [ -11529.9013] [Topology ] . ( 255 sec) [ -11529.8921] [Topology ] . ( 259 sec) [ -11529.8873] [Topology ] . ( 262 sec) [ -11529.8847] [Topology ] . ( 265 sec) [ -11529.8832] [Topology ] . ( 268 sec) [ -11529.8824] [Topology ] . ( 269 sec) [ -11529.8664] [Alpha ][ 0.636583] . ( 269 sec) [ -11529.8664] [Topology ] . ( 272 sec) [ -11529.8637] [Topology ] . ( 275 sec) [ -11529.8624] [Topology ] . ( 278 sec) [ -11529.8616] [Topology ] . ( 279 sec) [ -11529.8614] [Alpha ][ 0.637403] . ( 279 sec) [ -11529.8614] [Topology ] . ( 282 sec) [ -11529.8609] [Topology ] . ( 283 sec) [ -11529.8609] [Alpha ][ 0.637403] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11529.860859. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -17760.7220] [Alpha ][ 0.500960] . ( 2 sec) [ -17485.7561] [ 3086] [depth= 8] . ( 2 sec) [ -17069.1197] [ 3000] [depth= 4] . ( 3 sec) [ -16971.8415] [ 2994] [depth= 3] . ( 3 sec) [ -16968.1483] [ 2989] [depth= 4] . ( 3 sec) [ -16879.1975] [ 2918] [depth= 2] . ( 4 sec) [ -16806.0931] [ 2912] [depth= 2] . ( 4 sec) [ -16661.5691] [ 2903] [depth= 3] . ( 5 sec) [ -16661.1456] [ 2902] [depth= 1] . ( 5 sec) [ -16612.5876] [ 2894] [depth= 1] . ( 5 sec) [ -16592.7580] [ 2891] [depth= 2] . ( 6 sec) [ -16572.7230] [ 2877] [depth= 1] . ( 6 sec) [ -16303.9436] [ 2868] [depth= 6] . ( 7 sec) [ -16217.6463] [ 2847] [depth= 4] . ( 7 sec) [ -16210.5561] [ 2851] [depth= 1] . ( 8 sec) [ -16182.1288] [ 2826] [depth= 1] . ( 8 sec) [ -15656.8836] [ 2819] [depth= 3] . ( 8 sec) [ -15308.6345] [ 2738] [depth= 4] . ( 9 sec) [ -15142.9894] [ 2720] [depth= 1] . ( 9 sec) [ -15052.2794] [ 2704] [depth= 6] . ( 10 sec) [ -15015.7157] [ 2700] [depth= 4] . ( 10 sec) [ -15000.5989] [ 2697] [depth= 4] . ( 11 sec) [ -14986.4369] [ 2689] [depth= 4] . ( 11 sec) [ -14910.9970] [ 2691] [depth= 3] . ( 12 sec) [ -14794.0348] [ 2665] [depth= 6] . ( 12 sec) [ -14716.2648] [ 2663] [depth= 2] . ( 12 sec) [ -14670.8864] [ 2662] [depth= 1] . ( 13 sec) [ -14670.4109] [ 2663] [depth= 1] . ( 13 sec) [ -14660.4162] [ 2655] [depth= 5] . ( 14 sec) [ -14655.2785] [ 2657] [depth= 1] . ( 14 sec) [ -14602.2542] [ 2656] [depth= 1] . ( 15 sec) [ -14567.0759] [ 2646] [depth= 5] . ( 15 sec) [ -14530.0875] [ 2645] [depth= 1] . ( 16 sec) [ -14237.7939] [ 2636] [depth= 9] . ( 17 sec) [ -14158.3529] [ 2625] [depth= 5] . ( 17 sec) [ -14155.0351] [ 2625] [depth= 3] . ( 18 sec) [ -14152.6845] [ 2621] [depth= 6] . ( 18 sec) [ -14139.7435] [ 2611] [depth= 5] . ( 19 sec) [ -14134.8357] [ 2608] [depth= 1] . ( 20 sec) [ -14129.2950] [ 2606] [depth= 1] . ( 20 sec) [ -14095.1251] [ 2602] [depth= 4] . ( 21 sec) [ -14093.1914] [ 2603] [depth= 1] . ( 21 sec) [ -14070.1108] [ 2604] [depth= 6] . ( 22 sec) [ -13842.2837] [ 2535] [depth= 10] . ( 22 sec) [ -13825.5998] [ 2529] [depth= 1] . ( 23 sec) [ -13648.2272] [ 2511] [depth= 4] . ( 23 sec) [ -13618.5638] [ 2497] [depth= 2] . ( 23 sec) [ -13551.1512] [ 2503] [depth= 7] . ( 24 sec) [ -13522.4009] [ 2495] [depth= 1] . ( 25 sec) [ -13042.0860] [ 2399] [depth= 11] . ( 25 sec) [ -13038.2858] [ 2398] [depth= 1] . ( 27 sec) [ -13037.3973] [ 2397] [depth= 1] . ( 29 sec) [ -13011.7876] [ 2387] [depth= 6] . ( 30 sec) [ -12778.7760] [ 2338] [depth= 3] . ( 30 sec) [ -12777.1973] [ 2334] [depth= 1] . ( 31 sec) [ -12759.9334] [ 2329] [depth= 1] . ( 31 sec) [ -12749.3803] [ 2326] [depth= 3] . ( 32 sec) [ -12746.4005] [ 2327] [depth= 1] . ( 33 sec) [ -12712.1618] [ 2317] [depth= 9] . ( 34 sec) [ -12363.3089] [ 2197] [depth= 10] . ( 35 sec) [ -12352.2791] [ 2196] [depth= 1] . ( 35 sec) [ -12348.5650] [ 2196] [depth= 1] . ( 36 sec) [ -12319.7318] [ 2207] [depth= 10] . ( 36 sec) [ -12319.4710] [ 2209] [depth= 1] . ( 37 sec) [ -12316.4003] [ 2212] [depth= 1] . ( 37 sec) [ -12300.6540] [ 2198] [depth= 2] . ( 38 sec) [ -12297.9259] [ 2201] [depth= 1] . ( 39 sec) [ -12240.7279] [ 2091] [depth= 6] . ( 39 sec) [ -12236.6321] [ 2088] [depth= 2] . ( 40 sec) [ -12224.7899] [ 2086] [depth= 4] . ( 40 sec) [ -12224.4459] [ 2085] [depth= 1] . ( 41 sec) [ -11881.1260] [ 2085] [depth= 2] . ( 41 sec) [ -11854.3039] [ 2088] [depth= 1] . ( 43 sec) [ -11796.9790] [Branch lengths ] . ( 43 sec) [ -11794.8737] [Alpha ][ 0.572498] . ( 45 sec) [ -11792.1005] [ 2083] [depth= 3] . ( 46 sec) [ -11789.3864] [ 2082] [depth= 2] . ( 47 sec) [ -11784.1695] [ 2080] [depth= 1] . ( 48 sec) [ -11775.1782] [ 2077] [depth= 2] . ( 48 sec) [ -11660.5379] [ 2027] [depth= 9] . ( 49 sec) [ -11660.1527] [ 2030] [depth= 1] . ( 50 sec) [ -11656.2929] [ 2032] [depth= 3] . ( 53 sec) [ -11651.1677] [ 2029] [depth= 1] . ( 53 sec) [ -11651.1321] [ 2028] [depth= 1] . ( 55 sec) [ -11649.8233] [ 2029] [depth= 1] . ( 58 sec) [ -11646.3662] [ 2027] [depth= 1] . ( 58 sec) [ -11645.2210] [ 2028] [depth= 1] . ( 59 sec) [ -11636.2138] [ 2029] [depth= 1] . ( 59 sec) [ -11632.6611] [ 2032] [depth= 1] . ( 60 sec) [ -11628.5211] [ 2027] [depth= 1] . ( 73 sec) [ -11596.5117] [ 1993] [depth= 6] . ( 73 sec) [ -11567.7534] [ 1983] [depth= 1] . ( 74 sec) [ -11564.5532] [ 1977] [depth= 2] . ( 75 sec) [ -11564.0235] [ 1979] [depth= 1] . ( 75 sec) [ -11563.4194] [ 1973] [depth= 2] . ( 86 sec) [ -11562.6276] [ 1973] [depth= 1] . ( 92 sec) [ -11562.0535] [ 1977] [depth= 2] . ( 93 sec) [ -11561.2329] [ 1977] [depth= 1] . ( 93 sec) [ -11559.5871] [ 1976] [depth= 1] . ( 99 sec) [ -11539.2757] [Branch lengths ] . ( 100 sec) [ -11538.5745] [Alpha ][ 0.619771] . ( 167 sec) [ -11536.8925] [Branch lengths ] . ( 167 sec) [ -11536.8925] [Topology ] . ( 170 sec) [ -11536.6887] [Topology ] . ( 173 sec) [ -11536.6098] [Topology ] . ( 176 sec) [ -11536.5686] [Topology ] . ( 179 sec) [ -11536.5460] [Topology ] . ( 183 sec) [ -11536.5336] [Topology ] . ( 186 sec) [ -11536.5266] [Topology ] . ( 186 sec) [ -11536.3983] [Alpha ][ 0.641266] . ( 186 sec) [ -11536.3983] [Topology ] . ( 189 sec) [ -11536.3777] [Topology ] . ( 193 sec) [ -11536.3673] [Topology ] . ( 196 sec) [ -11536.3615] [Topology ] . ( 199 sec) [ -11536.3583] [Topology ] . ( 202 sec) [ -11536.3565] [Topology ] . ( 205 sec) [ -11536.3554] [Topology ] . ( 205 sec) [ -11536.3528] [Alpha ][ 0.644374] . ( 206 sec) [ -11536.3528] [Topology ] . ( 209 sec) [ -11536.3516] [Topology ] . ( 212 sec) [ -11536.3509] [Topology ] . ( 212 sec) [ -11536.3509] [Alpha ][ 0.645018] . ( 213 sec) [ -11536.3509] [Topology ] . ( 216 sec) [ -11536.3504] [Topology ] . ( 216 sec) [ -11536.3504] [Alpha ][ 0.645018] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11536.350450. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -19989.1213] [Alpha ][ 0.500960] . ( 2 sec) [ -19595.6911] [ 3185] [depth= 10] . ( 2 sec) [ -19314.1049] [ 3113] [depth= 5] . ( 2 sec) [ -19173.7628] [ 3102] [depth= 6] . ( 3 sec) [ -18822.4331] [ 3043] [depth= 1] . ( 3 sec) [ -18787.7569] [ 3033] [depth= 6] . ( 4 sec) [ -18481.7787] [ 3032] [depth= 1] . ( 4 sec) [ -17644.2807] [ 3030] [depth= 1] . ( 5 sec) [ -17407.1501] [ 3018] [depth= 9] . ( 5 sec) [ -17285.8799] [ 3023] [depth= 1] . ( 5 sec) [ -17073.6788] [ 3019] [depth= 4] . ( 6 sec) [ -17062.1389] [ 3020] [depth= 1] . ( 6 sec) [ -16901.5513] [ 3036] [depth= 3] . ( 6 sec) [ -16708.8392] [ 3017] [depth= 7] . ( 7 sec) [ -16704.2340] [ 3013] [depth= 5] . ( 7 sec) [ -16663.3123] [ 3003] [depth= 7] . ( 8 sec) [ -16417.6358] [ 2929] [depth= 4] . ( 8 sec) [ -16344.6358] [ 2919] [depth= 6] . ( 9 sec) [ -16295.4780] [ 2906] [depth= 1] . ( 9 sec) [ -16207.6502] [ 2894] [depth= 2] . ( 10 sec) [ -16091.0241] [ 2879] [depth= 2] . ( 10 sec) [ -15508.4624] [ 2767] [depth= 8] . ( 10 sec) [ -15133.2361] [ 2670] [depth= 7] . ( 11 sec) [ -15066.3729] [ 2672] [depth= 1] . ( 11 sec) [ -14924.1500] [ 2648] [depth= 2] . ( 12 sec) [ -14874.0878] [ 2630] [depth= 3] . ( 12 sec) [ -14493.7153] [ 2615] [depth= 8] . ( 12 sec) [ -14465.0877] [ 2611] [depth= 1] . ( 13 sec) [ -14262.7585] [ 2566] [depth= 2] . ( 13 sec) [ -13878.3684] [ 2522] [depth= 9] . ( 14 sec) [ -13801.7731] [ 2515] [depth= 2] . ( 14 sec) [ -13725.2212] [ 2494] [depth= 9] . ( 15 sec) [ -13611.4190] [ 2439] [depth= 1] . ( 15 sec) [ -13505.1185] [ 2432] [depth= 8] . ( 16 sec) [ -13502.0851] [ 2431] [depth= 1] . ( 16 sec) [ -13494.2408] [ 2427] [depth= 1] . ( 16 sec) [ -13432.4310] [ 2420] [depth= 4] . ( 17 sec) [ -13345.9663] [ 2416] [depth= 2] . ( 17 sec) [ -13329.4433] [ 2409] [depth= 3] . ( 18 sec) [ -13299.4640] [ 2408] [depth= 5] . ( 18 sec) [ -13269.8411] [ 2405] [depth= 1] . ( 18 sec) [ -13204.3245] [ 2401] [depth= 2] . ( 19 sec) [ -13174.9940] [ 2397] [depth= 1] . ( 19 sec) [ -13128.9930] [ 2393] [depth= 1] . ( 20 sec) [ -13126.2775] [ 2392] [depth= 2] . ( 20 sec) [ -12975.3406] [ 2395] [depth= 1] . ( 21 sec) [ -12968.3642] [ 2394] [depth= 2] . ( 21 sec) [ -12964.9445] [ 2397] [depth= 1] . ( 22 sec) [ -12959.9913] [ 2391] [depth= 3] . ( 22 sec) [ -12944.8443] [ 2389] [depth= 2] . ( 22 sec) [ -12910.3325] [ 2376] [depth= 7] . ( 23 sec) [ -12900.5788] [ 2374] [depth= 1] . ( 23 sec) [ -12846.7215] [ 2365] [depth= 3] . ( 24 sec) [ -12832.6657] [ 2363] [depth= 2] . ( 24 sec) [ -12796.1293] [ 2357] [depth= 3] . ( 25 sec) [ -12795.9480] [ 2354] [depth= 1] . ( 25 sec) [ -12517.2736] [ 2250] [depth= 7] . ( 25 sec) [ -12504.6271] [ 2253] [depth= 2] . ( 26 sec) [ -12498.7664] [ 2250] [depth= 2] . ( 26 sec) [ -12442.2827] [ 2230] [depth= 5] . ( 27 sec) [ -12441.5136] [ 2228] [depth= 1] . ( 30 sec) [ -12440.3563] [ 2226] [depth= 2] . ( 30 sec) [ -12431.0965] [ 2222] [depth= 5] . ( 31 sec) [ -12429.0349] [ 2221] [depth= 2] . ( 31 sec) [ -12222.2768] [ 2158] [depth= 4] . ( 33 sec) [ -12221.7918] [ 2160] [depth= 1] . ( 36 sec) [ -12155.6189] [ 2154] [depth= 3] . ( 36 sec) [ -12151.9857] [ 2151] [depth= 1] . ( 37 sec) [ -12145.8570] [ 2152] [depth= 9] . ( 40 sec) [ -12143.6872] [ 2151] [depth= 1] . ( 41 sec) [ -12134.8414] [ 2151] [depth= 1] . ( 42 sec) [ -12133.4696] [ 2154] [depth= 5] . ( 43 sec) [ -12133.2573] [ 2159] [depth= 9] . ( 44 sec) [ -12130.6933] [ 2160] [depth= 2] . ( 44 sec) [ -12120.9664] [ 2156] [depth= 4] . ( 46 sec) [ -12074.8667] [Branch lengths ] . ( 46 sec) [ -12071.4456] [Alpha ][ 0.590629] . ( 47 sec) [ -12070.6147] [ 2153] [depth= 2] . ( 47 sec) [ -12068.5271] [ 2154] [depth= 2] . ( 48 sec) [ -11806.2031] [ 2065] [depth= 3] . ( 48 sec) [ -11801.6473] [ 2062] [depth= 1] . ( 49 sec) [ -11679.4434] [ 2013] [depth= 4] . ( 49 sec) [ -11679.3754] [ 2007] [depth= 3] . ( 51 sec) [ -11679.2425] [ 2010] [depth= 1] . ( 51 sec) [ -11637.6805] [ 2004] [depth= 3] . ( 52 sec) [ -11621.0735] [ 1995] [depth= 3] . ( 53 sec) [ -11617.5392] [ 1989] [depth= 3] . ( 53 sec) [ -11616.5207] [ 1994] [depth= 1] . ( 54 sec) [ -11612.9022] [ 1990] [depth= 2] . ( 55 sec) [ -11610.1310] [ 1986] [depth= 1] . ( 57 sec) [ -11600.7562] [ 1983] [depth= 1] . ( 59 sec) [ -11600.2767] [ 1980] [depth= 1] . ( 60 sec) [ -11597.9041] [ 1983] [depth= 4] . ( 61 sec) [ -11597.8117] [ 1986] [depth= 1] . ( 64 sec) [ -11596.2309] [ 1990] [depth= 1] . ( 65 sec) [ -11594.6794] [ 1992] [depth= 2] . ( 67 sec) [ -11574.8937] [ 1982] [depth= 5] . ( 71 sec) [ -11574.6711] [ 1983] [depth= 1] . ( 73 sec) [ -11569.3268] [ 1982] [depth= 1] . ( 92 sec) [ -11561.4819] [ 1977] [depth= 6] . ( 101 sec) [ -11545.9193] [Branch lengths ] . ( 102 sec) [ -11545.5558] [Alpha ][ 0.625561] . ( 103 sec) [ -11545.4536] [ 1980] [depth= 2] . ( 108 sec) [ -11544.2697] [ 1978] [depth= 2] . ( 109 sec) [ -11543.6057] [ 1978] [depth= 1] . ( 110 sec) [ -11543.5821] [ 1983] [depth= 4] . ( 113 sec) [ -11541.5426] [ 1985] [depth= 2] . ( 137 sec) [ -11540.8480] [ 1985] [depth= 1] . ( 178 sec) [ -11535.7517] [Branch lengths ] . ( 179 sec) [ -11535.7296] [Alpha ][ 0.634607] . ( 263 sec) [ -11535.4612] [Branch lengths ] . ( 263 sec) [ -11535.4612] [Topology ] . ( 266 sec) [ -11535.4313] [Topology ] . ( 269 sec) [ -11535.4199] [Topology ] . ( 272 sec) [ -11535.4140] [Topology ] . ( 275 sec) [ -11535.4109] [Topology ] . ( 278 sec) [ -11535.4092] [Topology ] . ( 282 sec) [ -11535.4083] [Topology ] . ( 282 sec) [ -11535.3839] [Alpha ][ 0.644162] . ( 282 sec) [ -11535.3839] [Topology ] . ( 285 sec) [ -11535.3800] [Topology ] . ( 289 sec) [ -11535.3781] [Topology ] . ( 292 sec) [ -11535.3770] [Topology ] . ( 295 sec) [ -11535.3764] [Topology ] . ( 295 sec) [ -11535.3760] [Alpha ][ 0.645371] . ( 296 sec) [ -11535.3760] [Topology ] . ( 299 sec) [ -11535.3755] [Topology ] . ( 299 sec) [ -11535.3755] [Alpha ][ 0.645371] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -11535.375517. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -11637.9226] [Alpha ][ 0.518665] . ( 1 sec) [ -11637.9226] [Topology ] . ( 4 sec) [ -11554.1149] [Topology ] . ( 7 sec) [ -11539.4579] [Topology ] . ( 10 sec) [ -11537.1299] [Topology ] . ( 13 sec) [ -11536.3324] [Topology ] . ( 16 sec) [ -11536.0538] [Topology ] . ( 19 sec) [ -11535.9271] [Topology ] . ( 23 sec) [ -11535.8649] [Topology ] . ( 26 sec) [ -11535.8332] [Topology ] . ( 29 sec) [ -11535.8168] [Topology ] . Checking for NNIs, optimizing five branches... . ( 53 sec) [ -11532.2276] [Alpha ][ 0.620126] . ( 53 sec) [ -11532.2276] [Topology ] . ( 57 sec) [ -11531.7825] [Topology ] . ( 60 sec) [ -11531.5866] [Topology ] . ( 63 sec) [ -11531.4867] [Topology ] . ( 66 sec) [ -11531.4342] [Topology ] . ( 69 sec) [ -11531.4061] [Topology ] . ( 72 sec) [ -11531.3908] [Topology ] . Checking for NNIs, optimizing five branches... . ( 97 sec) [ -11531.2968] [Alpha ][ 0.638052] . ( 97 sec) [ -11531.2968] [Topology ] . ( 100 sec) [ -11531.2694] [Topology ] . ( 103 sec) [ -11531.2552] [Topology ] . ( 106 sec) [ -11531.2476] [Topology ] . ( 109 sec) [ -11531.2433] [Topology ] . ( 113 sec) [ -11531.2410] [Topology ] . ( 116 sec) [ -11531.2397] [Topology ] . Checking for NNIs, optimizing five branches... . ( 140 sec) [ -11531.2341] [Alpha ][ 0.642636] . ( 140 sec) [ -11531.2341] [Topology ] . ( 143 sec) [ -11531.2321] [Topology ] . ( 147 sec) [ -11531.2310] [Topology ] . ( 150 sec) [ -11531.2305] [Topology ] . Checking for NNIs, optimizing five branches... . ( 174 sec) [ -11531.2303] [Alpha ][ 0.643358] . ( 174 sec) [ -11531.2303] [Topology ] . ( 177 sec) [ -11531.2299] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 226 sec) [ -11637.9226] [Alpha ][ 0.518665] . ( 227 sec) [ -11631.6742] [ 1985] [depth= 2] . ( 228 sec) [ -11621.6295] [ 1984] [depth= 1] . ( 228 sec) [ -11620.5240] [ 1985] [depth= 1] . ( 231 sec) [ -11619.8317] [ 1982] [depth= 1] . ( 233 sec) [ -11609.7200] [ 1988] [depth= 2] . ( 234 sec) [ -11608.6178] [ 1989] [depth= 1] . ( 234 sec) [ -11607.0074] [ 1990] [depth= 2] . ( 235 sec) [ -11599.9160] [ 1984] [depth= 2] . ( 237 sec) [ -11597.2386] [ 1984] [depth= 1] . ( 238 sec) [ -11596.8186] [ 1987] [depth= 1] . ( 253 sec) [ -11595.2558] [ 1989] [depth= 1] . ( 254 sec) [ -11593.4193] [ 1987] [depth= 1] . ( 261 sec) [ -11592.3146] [ 1989] [depth= 1] . ( 264 sec) [ -11588.2502] [ 1988] [depth= 1] . ( 264 sec) [ -11583.5716] [ 1989] [depth= 1] . ( 267 sec) [ -11582.8126] [ 1993] [depth= 1] . ( 268 sec) [ -11582.5599] [ 1991] [depth= 1] . ( 268 sec) [ -11579.7474] [ 1987] [depth= 1] . ( 269 sec) [ -11578.3774] [ 1986] [depth= 1] . ( 270 sec) [ -11576.9045] [ 1987] [depth= 1] . ( 279 sec) [ -11575.7663] [ 1986] [depth= 1] . ( 285 sec) [ -11538.2300] [Branch lengths ] . ( 286 sec) [ -11535.8415] [Alpha ][ 0.600355] . ( 289 sec) [ -11535.3104] [ 1985] [depth= 1] . ( 319 sec) [ -11534.6567] [ 1985] [depth= 1] . ( 330 sec) [ -11534.4673] [ 1985] [depth= 1] . ( 355 sec) [ -11530.7399] [Branch lengths ] . ( 356 sec) [ -11530.6210] [Alpha ][ 0.620040] . ( 429 sec) [ -11530.0763] [Branch lengths ] . ( 429 sec) [ -11530.0763] [Topology ] . ( 432 sec) [ -11530.0026] [Topology ] . ( 435 sec) [ -11529.9748] [Topology ] . ( 439 sec) [ -11529.9604] [Topology ] . ( 442 sec) [ -11529.9526] [Topology ] . ( 445 sec) [ -11529.9483] [Topology ] . ( 448 sec) [ -11529.9460] [Topology ] . ( 449 sec) [ -11529.8830] [Alpha ][ 0.635152] . ( 449 sec) [ -11529.8830] [Topology ] . ( 452 sec) [ -11529.8730] [Topology ] . ( 455 sec) [ -11529.8682] [Topology ] . ( 459 sec) [ -11529.8656] [Topology ] . ( 462 sec) [ -11529.8641] [Topology ] . ( 465 sec) [ -11529.8633] [Topology ] . ( 466 sec) [ -11529.8621] [Alpha ][ 0.637238] . ( 466 sec) [ -11529.8621] [Topology ] . ( 469 sec) [ -11529.8613] [Topology ] . ( 469 sec) [ -11529.8613] [Alpha ][ 0.637238] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -11531.229874 . Log likelihood obtained after SPR moves : -11529.861279 . Log likelihood of the current tree: -11529.861279. . Printing the most likely tree in file 'proteic_M1376_36x484_2003.phy_phyml_tree.txt'... . Best log likelihood : -11529.748581 . Time used 0h8m14s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 1994.56user 0.00system 33:20.58elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps