.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2933_99x1634_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 . 3 sites are made from completely undetermined states ('X', '-', '?' or 'N')... . Compressing sequences... . 578 patterns found. (out of a total of 1634 sites) . 1151 sites without polymorphism (70.44%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 30Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 3 sec) [ -20890.8475] [GTR parameters ] . ( 3 sec) [ -20494.9418] [Alpha ][ 0.500960] . ( 3 sec) [ -20315.3094] [ 2909] [depth= 9] . ( 4 sec) [ -19957.1275] [ 2898] [depth= 9] . ( 4 sec) [ -19868.9807] [ 2892] [depth= 6] . ( 4 sec) [ -19816.2087] [ 2881] [depth= 1] . ( 4 sec) [ -19598.4338] [ 2873] [depth= 10] . ( 4 sec) [ -19444.9060] [ 2848] [depth= 6] . ( 4 sec) [ -19442.7006] [ 2847] [depth= 1] . ( 4 sec) [ -19412.6258] [ 2818] [depth= 18] . ( 5 sec) [ -19307.7383] [ 2813] [depth= 1] . ( 5 sec) [ -19192.4874] [ 2813] [depth= 6] . ( 5 sec) [ -19044.1949] [ 2798] [depth= 7] . ( 5 sec) [ -19041.4018] [ 2794] [depth= 10] . ( 5 sec) [ -19006.4071] [ 2789] [depth= 4] . ( 6 sec) [ -18968.3966] [ 2788] [depth= 3] . ( 6 sec) [ -18952.1826] [ 2788] [depth= 1] . ( 6 sec) [ -18880.6363] [ 2787] [depth= 1] . ( 6 sec) [ -18858.8004] [ 2785] [depth= 2] . ( 6 sec) [ -18816.1649] [ 2779] [depth= 8] . ( 6 sec) [ -18813.0435] [ 2779] [depth= 2] . ( 6 sec) [ -18794.3693] [ 2780] [depth= 1] . ( 7 sec) [ -18785.8813] [ 2778] [depth= 3] . ( 7 sec) [ -18739.9351] [ 2763] [depth= 17] . ( 7 sec) [ -18727.8814] [ 2760] [depth= 2] . ( 7 sec) [ -18716.4197] [ 2758] [depth= 2] . ( 7 sec) [ -18709.6565] [ 2757] [depth= 1] . ( 7 sec) [ -18635.7759] [ 2758] [depth= 2] . ( 7 sec) [ -18586.2607] [ 2758] [depth= 2] . ( 8 sec) [ -18542.2391] [ 2749] [depth= 3] . ( 8 sec) [ -18427.1202] [ 2710] [depth= 9] . ( 8 sec) [ -18404.1561] [ 2711] [depth= 2] . ( 8 sec) [ -18349.4383] [ 2698] [depth= 17] . ( 8 sec) [ -18346.6860] [ 2700] [depth= 2] . ( 8 sec) [ -18274.8587] [ 2692] [depth= 4] . ( 9 sec) [ -18264.4234] [ 2692] [depth= 2] . ( 9 sec) [ -18171.4122] [ 2684] [depth= 1] . ( 9 sec) [ -18139.3105] [ 2682] [depth= 23] . ( 9 sec) [ -18067.8325] [ 2682] [depth= 1] . ( 9 sec) [ -17806.0763] [ 2672] [depth= 2] . ( 9 sec) [ -17708.7303] [ 2662] [depth= 22] . ( 9 sec) [ -17706.8608] [ 2661] [depth= 16] . ( 9 sec) [ -17703.7449] [ 2661] [depth= 1] . ( 10 sec) [ -17532.1632] [ 2609] [depth= 24] . ( 10 sec) [ -17515.4424] [ 2606] [depth= 19] . ( 10 sec) [ -17509.7595] [ 2605] [depth= 2] . ( 10 sec) [ -17506.0749] [ 2604] [depth= 18] . ( 10 sec) [ -17461.6838] [ 2598] [depth= 17] . ( 10 sec) [ -17328.6835] [ 2582] [depth= 9] . ( 10 sec) [ -17156.0937] [ 2536] [depth= 22] . ( 11 sec) [ -17153.5513] [ 2537] [depth= 1] . ( 11 sec) [ -17065.1822] [ 2532] [depth= 6] . ( 11 sec) [ -17063.2611] [ 2532] [depth= 1] . ( 11 sec) [ -17036.9921] [ 2522] [depth= 11] . ( 11 sec) [ -16942.1764] [ 2522] [depth= 2] . ( 11 sec) [ -16795.1849] [ 2507] [depth= 12] . ( 11 sec) [ -16686.3567] [ 2503] [depth= 4] . ( 12 sec) [ -16596.5978] [ 2499] [depth= 18] . ( 12 sec) [ -16550.8934] [ 2488] [depth= 2] . ( 12 sec) [ -16516.1036] [ 2486] [depth= 5] . ( 12 sec) [ -16403.5477] [ 2484] [depth= 2] . ( 12 sec) [ -16396.9934] [ 2483] [depth= 2] . ( 12 sec) [ -16318.9746] [ 2448] [depth= 30] . ( 12 sec) [ -16312.2980] [ 2454] [depth= 1] . ( 13 sec) [ -16245.2840] [ 2441] [depth= 4] . ( 13 sec) [ -16244.2395] [ 2441] [depth= 12] . ( 13 sec) [ -15974.9477] [ 2440] [depth= 10] . ( 13 sec) [ -15963.8940] [ 2438] [depth= 11] . ( 13 sec) [ -15880.1831] [ 2427] [depth= 7] . ( 13 sec) [ -15762.3271] [ 2392] [depth= 12] . ( 13 sec) [ -15758.3463] [ 2392] [depth= 1] . ( 14 sec) [ -15731.8406] [ 2389] [depth= 2] . ( 14 sec) [ -15697.9257] [ 2384] [depth= 4] . ( 14 sec) [ -15696.3213] [ 2384] [depth= 32] . ( 14 sec) [ -15683.6107] [ 2377] [depth= 1] . ( 14 sec) [ -15614.4726] [ 2357] [depth= 19] . ( 14 sec) [ -15491.6539] [ 2356] [depth= 3] . ( 15 sec) [ -15373.5883] [ 2349] [depth= 3] . ( 15 sec) [ -15222.7290] [ 2342] [depth= 23] . ( 15 sec) [ -15152.5468] [ 2343] [depth= 1] . ( 15 sec) [ -15117.3860] [ 2332] [depth= 6] . ( 15 sec) [ -14636.8975] [ 2294] [depth= 8] . ( 15 sec) [ -14582.0012] [ 2289] [depth= 5] . ( 16 sec) [ -14380.7543] [ 2240] [depth= 1] . ( 16 sec) [ -14340.0025] [ 2238] [depth= 20] . ( 16 sec) [ -14265.8256] [ 2224] [depth= 24] . ( 16 sec) [ -14229.0699] [ 2222] [depth= 10] . ( 16 sec) [ -14226.6560] [ 2223] [depth= 2] . ( 16 sec) [ -14200.4007] [ 2223] [depth= 1] . ( 16 sec) [ -14193.8580] [ 2221] [depth= 1] . ( 17 sec) [ -14016.0263] [ 2172] [depth= 18] . ( 17 sec) [ -14015.4056] [ 2172] [depth= 1] . ( 17 sec) [ -13854.2205] [ 2174] [depth= 1] . ( 17 sec) [ -13835.4465] [ 2173] [depth= 16] . ( 17 sec) [ -13769.1565] [ 2160] [depth= 5] . ( 17 sec) [ -13590.2814] [ 2154] [depth= 14] . ( 18 sec) [ -13574.8844] [ 2133] [depth= 17] . ( 18 sec) [ -13517.7383] [ 2123] [depth= 4] . ( 18 sec) [ -13494.2380] [ 2117] [depth= 7] . ( 18 sec) [ -13445.5260] [ 2110] [depth= 11] . ( 18 sec) [ -13409.6488] [ 2085] [depth= 14] . ( 18 sec) [ -13342.0479] [ 2058] [depth= 9] . ( 19 sec) [ -13269.6307] [ 2049] [depth= 13] . ( 19 sec) [ -13262.8891] [ 2049] [depth= 4] . ( 19 sec) [ -13207.0771] [ 2028] [depth= 5] . ( 19 sec) [ -13205.5685] [ 2033] [depth= 2] . ( 19 sec) [ -13188.6567] [ 2029] [depth= 3] . ( 19 sec) [ -13184.3450] [ 2029] [depth= 1] . ( 19 sec) [ -13080.9733] [ 2030] [depth= 3] . ( 20 sec) [ -13029.8355] [ 2019] [depth= 11] . ( 20 sec) [ -13028.8030] [ 2019] [depth= 2] . ( 20 sec) [ -13002.4591] [ 2009] [depth= 1] . ( 20 sec) [ -12963.4258] [ 2009] [depth= 1] . ( 20 sec) [ -12962.0397] [ 2009] [depth= 19] . ( 20 sec) [ -12962.0160] [ 2009] [depth= 1] . ( 20 sec) [ -12945.7436] [ 2007] [depth= 19] . ( 21 sec) [ -12913.3482] [ 2000] [depth= 12] . ( 21 sec) [ -12911.5235] [ 1996] [depth= 1] . ( 21 sec) [ -12900.1981] [ 1991] [depth= 1] . ( 21 sec) [ -12870.7060] [ 1978] [depth= 10] . ( 21 sec) [ -12856.8102] [ 1981] [depth= 1] . ( 21 sec) [ -12856.0668] [ 1981] [depth= 6] . ( 22 sec) [ -12853.3297] [ 1981] [depth= 1] . ( 22 sec) [ -12850.8746] [ 1981] [depth= 6] . ( 22 sec) [ -12813.8456] [ 1973] [depth= 14] . ( 22 sec) [ -12755.4255] [ 1951] [depth= 13] . ( 22 sec) [ -12653.3575] [ 1948] [depth= 8] . ( 22 sec) [ -12644.5663] [ 1948] [depth= 1] . ( 22 sec) [ -12644.0865] [ 1948] [depth= 1] . ( 23 sec) [ -12642.0101] [ 1949] [depth= 1] . ( 23 sec) [ -12631.0552] [ 1949] [depth= 3] . ( 23 sec) [ -12627.9784] [ 1948] [depth= 3] . ( 23 sec) [ -12592.3816] [ 1944] [depth= 10] . ( 24 sec) [ -12573.6120] [ 1941] [depth= 7] . ( 24 sec) [ -12518.6270] [ 1941] [depth= 3] . ( 24 sec) [ -12511.3104] [ 1941] [depth= 1] . ( 24 sec) [ -12509.1211] [ 1940] [depth= 2] . ( 24 sec) [ -12504.1510] [ 1939] [depth= 2] . ( 24 sec) [ -12504.0770] [ 1939] [depth= 1] . ( 24 sec) [ -12503.4930] [ 1939] [depth= 2] . ( 25 sec) [ -12503.2044] [ 1939] [depth= 2] . ( 25 sec) [ -12502.0507] [ 1939] [depth= 4] . ( 25 sec) [ -12382.7663] [ 1887] [depth= 13] . ( 25 sec) [ -12379.2350] [ 1887] [depth= 1] . ( 25 sec) [ -12322.9067] [ 1860] [depth= 8] . ( 25 sec) [ -12320.5512] [ 1860] [depth= 2] . ( 25 sec) [ -12320.3343] [ 1860] [depth= 12] . ( 26 sec) [ -12285.2213] [ 1856] [depth= 7] . ( 26 sec) [ -12175.7146] [ 1839] [depth= 16] . ( 26 sec) [ -12154.7428] [ 1834] [depth= 14] . ( 26 sec) [ -11678.8345] [ 1834] [depth= 8] . ( 26 sec) [ -11672.5315] [ 1835] [depth= 1] . ( 27 sec) [ -11671.2263] [ 1836] [depth= 1] . ( 27 sec) [ -11668.3490] [ 1836] [depth= 4] . ( 27 sec) [ -11599.2058] [ 1820] [depth= 10] . ( 27 sec) [ -11593.9321] [ 1820] [depth= 1] . ( 27 sec) [ -11591.9090] [ 1818] [depth= 1] . ( 27 sec) [ -11417.6769] [ 1805] [depth= 1] . ( 28 sec) [ -11411.5540] [ 1804] [depth= 2] . ( 28 sec) [ -11295.8235] [ 1701] [depth= 5] . ( 28 sec) [ -11219.2781] [ 1677] [depth= 8] . ( 28 sec) [ -11219.2675] [ 1678] [depth= 1] . ( 28 sec) [ -11199.1837] [ 1674] [depth= 12] . ( 28 sec) [ -11130.4195] [ 1672] [depth= 4] . ( 29 sec) [ -11127.3708] [ 1700] [depth= 11] . ( 29 sec) [ -11119.6469] [ 1692] [depth= 10] . ( 29 sec) [ -10993.1885] [ 1679] [depth= 12] . ( 29 sec) [ -10875.3291] [ 1673] [depth= 7] . ( 29 sec) [ -10808.8990] [ 1673] [depth= 1] . ( 29 sec) [ -10776.8231] [ 1669] [depth= 2] . ( 29 sec) [ -10775.3139] [ 1669] [depth= 1] . ( 30 sec) [ -10717.3031] [ 1662] [depth= 4] . ( 30 sec) [ -10345.4010] [ 1650] [depth= 1] . ( 30 sec) [ -10227.2402] [ 1607] [depth= 7] . ( 30 sec) [ -10225.1554] [ 1607] [depth= 3] . ( 30 sec) [ -10181.8826] [ 1598] [depth= 2] . ( 30 sec) [ -10137.7923] [ 1590] [depth= 3] . ( 31 sec) [ -10134.1231] [ 1588] [depth= 16] . ( 31 sec) [ -10121.8732] [ 1577] [depth= 1] . ( 31 sec) [ -9970.4040] [ 1562] [depth= 5] . ( 31 sec) [ -9949.0829] [ 1558] [depth= 11] . ( 31 sec) [ -9936.4285] [ 1541] [depth= 8] . ( 31 sec) [ -9929.4227] [ 1541] [depth= 13] . ( 31 sec) [ -9773.0263] [ 1532] [depth= 4] . ( 32 sec) [ -9749.5334] [ 1531] [depth= 1] . ( 32 sec) [ -9647.4415] [ 1502] [depth= 17] . ( 32 sec) [ -9636.8548] [ 1500] [depth= 3] . ( 32 sec) [ -9545.6007] [ 1502] [depth= 6] . ( 32 sec) [ -9448.9360] [ 1460] [depth= 11] . ( 32 sec) [ -9383.7823] [ 1456] [depth= 4] . ( 32 sec) [ -9269.6026] [ 1422] [depth= 3] . ( 33 sec) [ -9262.3832] [ 1419] [depth= 5] . ( 33 sec) [ -9255.9671] [ 1418] [depth= 1] . ( 33 sec) [ -9234.0004] [ 1415] [depth= 2] . ( 33 sec) [ -9231.9751] [ 1417] [depth= 3] . ( 33 sec) [ -9231.3442] [ 1414] [depth= 1] . ( 33 sec) [ -9228.1203] [ 1414] [depth= 1] . ( 33 sec) [ -9218.2813] [ 1409] [depth= 1] . ( 34 sec) [ -9198.6800] [ 1407] [depth= 3] . ( 34 sec) [ -9198.4661] [ 1406] [depth= 1] . ( 34 sec) [ -9193.5510] [ 1401] [depth= 3] . ( 34 sec) [ -9119.5128] [ 1395] [depth= 4] . ( 34 sec) [ -9083.3708] [ 1401] [depth= 6] . ( 34 sec) [ -9049.1550] [ 1384] [depth= 9] . ( 35 sec) [ -9042.0538] [ 1384] [depth= 7] . ( 35 sec) [ -8974.8698] [ 1364] [depth= 5] . ( 35 sec) [ -8973.9810] [ 1364] [depth= 1] . ( 35 sec) [ -8966.9424] [ 1362] [depth= 2] . ( 35 sec) [ -8899.4825] [ 1355] [depth= 9] . ( 35 sec) [ -8885.0883] [ 1353] [depth= 6] . ( 35 sec) [ -8868.2935] [ 1341] [depth= 6] . ( 35 sec) [ -8794.3885] [ 1321] [depth= 5] . ( 36 sec) [ -8790.2988] [ 1317] [depth= 6] . ( 36 sec) [ -8784.1684] [ 1316] [depth= 1] . ( 36 sec) [ -8777.0452] [ 1311] [depth= 6] . ( 36 sec) [ -8769.2124] [ 1313] [depth= 5] . ( 36 sec) [ -8759.5308] [ 1313] [depth= 2] . ( 36 sec) [ -8742.5178] [ 1311] [depth= 7] . ( 37 sec) [ -8730.1558] [ 1310] [depth= 1] . ( 37 sec) [ -8718.4420] [ 1309] [depth= 1] . ( 37 sec) [ -8717.5160] [ 1309] [depth= 10] . ( 37 sec) [ -8709.6559] [ 1308] [depth= 2] . ( 37 sec) [ -8689.9357] [ 1307] [depth= 1] . ( 37 sec) [ -8679.2456] [ 1306] [depth= 1] . ( 37 sec) [ -8678.2779] [ 1307] [depth= 1] . ( 38 sec) [ -8676.0551] [ 1307] [depth= 1] . ( 38 sec) [ -8662.4814] [ 1297] [depth= 1] . ( 38 sec) [ -8641.9327] [ 1289] [depth= 4] . ( 38 sec) [ -8629.1013] [ 1286] [depth= 2] . ( 38 sec) [ -8597.6137] [ 1275] [depth= 8] . ( 38 sec) [ -8594.3729] [ 1275] [depth= 10] . ( 38 sec) [ -8564.0589] [ 1264] [depth= 18] . ( 39 sec) [ -8554.8805] [ 1264] [depth= 1] . ( 39 sec) [ -8541.4533] [ 1264] [depth= 1] . ( 39 sec) [ -8538.1068] [ 1264] [depth= 1] . ( 39 sec) [ -8536.9572] [ 1265] [depth= 2] . ( 39 sec) [ -8533.1052] [ 1266] [depth= 2] . ( 40 sec) [ -8530.1565] [ 1267] [depth= 4] . ( 40 sec) [ -8527.1764] [ 1266] [depth= 2] . ( 40 sec) [ -8444.9905] [ 1239] [depth= 3] . ( 40 sec) [ -8367.7200] [ 1221] [depth= 9] . ( 41 sec) [ -8367.0079] [ 1221] [depth= 1] . ( 41 sec) [ -8365.2145] [ 1221] [depth= 1] . ( 41 sec) [ -8364.8239] [ 1221] [depth= 6] . ( 41 sec) [ -8358.6303] [ 1221] [depth= 1] . ( 42 sec) [ -8352.7932] [ 1220] [depth= 1] . ( 42 sec) [ -8345.2675] [ 1219] [depth= 2] . ( 43 sec) [ -7996.2779] [Branch lengths ] . ( 47 sec) [ -7976.9604] [GTR parameters ] . ( 47 sec) [ -7958.3119] [Alpha ][ 0.338878] . ( 47 sec) [ -7955.7788] [ 1216] [depth= 3] . ( 48 sec) [ -7954.6893] [ 1215] [depth= 1] . ( 48 sec) [ -7951.3755] [ 1214] [depth= 1] . ( 48 sec) [ -7947.4279] [ 1212] [depth= 7] . ( 50 sec) [ -7946.6716] [ 1211] [depth= 1] . ( 50 sec) [ -7946.6229] [ 1211] [depth= 2] . ( 50 sec) [ -7857.9971] [ 1174] [depth= 9] . ( 51 sec) [ -7854.9006] [ 1173] [depth= 3] . ( 52 sec) [ -7854.7954] [ 1173] [depth= 1] . ( 54 sec) [ -7854.7556] [ 1173] [depth= 1] . ( 56 sec) [ -7854.3625] [ 1173] [depth= 3] . ( 59 sec) [ -7848.3181] [ 1171] [depth= 1] . ( 59 sec) [ -7848.2567] [ 1171] [depth= 5] . ( 67 sec) [ -7839.3416] [ 1169] [depth= 10] . ( 69 sec) [ -7835.3559] [ 1173] [depth= 1] . ( 70 sec) [ -7834.9408] [ 1173] [depth= 1] . ( 71 sec) [ -7834.5716] [ 1173] [depth= 1] . ( 72 sec) [ -7834.5081] [ 1173] [depth= 1] . ( 75 sec) [ -7830.6386] [ 1172] [depth= 2] . ( 76 sec) [ -7830.6030] [ 1170] [depth= 2] . ( 76 sec) [ -7830.4564] [ 1170] [depth= 1] . ( 77 sec) [ -7830.2470] [ 1169] [depth= 1] . ( 77 sec) [ -7823.9062] [ 1174] [depth= 15] . ( 78 sec) [ -7823.6613] [ 1174] [depth= 6] . ( 80 sec) [ -7823.6449] [ 1174] [depth= 2] . ( 80 sec) [ -7789.1591] [ 1150] [depth= 14] . ( 80 sec) [ -7789.0082] [ 1150] [depth= 1] . ( 81 sec) [ -7787.1789] [ 1149] [depth= 3] . ( 81 sec) [ -7782.6413] [ 1148] [depth= 1] . ( 81 sec) [ -7782.4309] [ 1148] [depth= 1] . ( 81 sec) [ -7781.5953] [ 1147] [depth= 2] . ( 83 sec) [ -7781.0370] [ 1149] [depth= 6] . ( 84 sec) [ -7773.8589] [ 1147] [depth= 7] . ( 84 sec) [ -7773.4498] [ 1147] [depth= 1] . ( 86 sec) [ -7773.3853] [ 1147] [depth= 2] . ( 90 sec) [ -7773.3735] [ 1147] [depth= 6] . ( 90 sec) [ -7768.2773] [ 1144] [depth= 2] . ( 90 sec) [ -7767.8025] [ 1144] [depth= 1] . ( 91 sec) [ -7754.3341] [ 1140] [depth= 1] . ( 91 sec) [ -7745.7126] [ 1135] [depth= 4] . ( 92 sec) [ -7745.6749] [ 1135] [depth= 2] . ( 94 sec) [ -7745.5344] [ 1135] [depth= 1] . ( 94 sec) [ -7745.1529] [ 1135] [depth= 1] . ( 95 sec) [ -7745.0896] [ 1135] [depth= 2] . ( 95 sec) [ -7745.0739] [ 1135] [depth= 1] . ( 95 sec) [ -7745.0584] [ 1135] [depth= 3] . ( 97 sec) [ -7744.9820] [ 1135] [depth= 1] . ( 98 sec) [ -7736.5135] [ 1133] [depth= 7] . ( 98 sec) [ -7736.4400] [ 1133] [depth= 3] . ( 98 sec) [ -7736.4225] [ 1133] [depth= 3] . ( 99 sec) [ -7736.2354] [ 1133] [depth= 3] . ( 100 sec) [ -7736.1370] [ 1133] [depth= 3] . ( 103 sec) [ -7736.0664] [ 1130] [depth= 7] . ( 106 sec) [ -7734.5910] [ 1135] [depth= 7] . ( 106 sec) [ -7734.5012] [ 1135] [depth= 2] . ( 110 sec) [ -7734.2375] [ 1135] [depth= 1] . ( 111 sec) [ -7734.1705] [ 1135] [depth= 1] . ( 114 sec) [ -7731.7434] [ 1124] [depth= 5] . ( 114 sec) [ -7731.6599] [ 1124] [depth= 3] . ( 114 sec) [ -7726.3750] [ 1123] [depth= 7] . ( 115 sec) [ -7726.3041] [ 1123] [depth= 3] . ( 117 sec) [ -7723.4547] [ 1124] [depth= 1] . ( 117 sec) [ -7723.2692] [ 1124] [depth= 1] . ( 118 sec) [ -7722.1358] [ 1124] [depth= 2] . ( 118 sec) [ -7717.3223] [ 1122] [depth= 2] . ( 118 sec) [ -7712.9378] [ 1120] [depth= 2] . ( 119 sec) [ -7712.7163] [ 1122] [depth= 1] . ( 119 sec) [ -7706.3947] [ 1121] [depth= 6] . ( 120 sec) [ -7696.4297] [ 1100] [depth= 8] . ( 123 sec) [ -7696.1974] [ 1101] [depth= 1] . ( 124 sec) [ -7696.1201] [ 1101] [depth= 1] . ( 124 sec) [ -7695.2732] [ 1103] [depth= 1] . ( 124 sec) [ -7693.3813] [ 1104] [depth= 1] . ( 126 sec) [ -7692.4749] [ 1104] [depth= 1] . ( 128 sec) [ -7692.3360] [ 1104] [depth= 1] . ( 128 sec) [ -7690.1296] [ 1106] [depth= 1] . ( 130 sec) [ -7689.0703] [ 1106] [depth= 1] . ( 133 sec) [ -7687.3482] [ 1108] [depth= 3] . ( 135 sec) [ -7651.6132] [Branch lengths ] . ( 137 sec) [ -7650.0774] [GTR parameters ] . ( 138 sec) [ -7649.8456] [Alpha ][ 0.354647] . ( 139 sec) [ -7649.7921] [ 1108] [depth= 3] . ( 141 sec) [ -7649.7440] [ 1108] [depth= 3] . ( 148 sec) [ -7649.7127] [ 1108] [depth= 14] . ( 149 sec) [ -7649.6876] [ 1108] [depth= 1] . ( 159 sec) [ -7649.6617] [ 1108] [depth= 2] . ( 162 sec) [ -7649.4923] [ 1110] [depth= 3] . ( 169 sec) [ -7649.2249] [ 1110] [depth= 2] . ( 171 sec) [ -7645.4176] [ 1109] [depth= 1] . ( 172 sec) [ -7645.3986] [ 1109] [depth= 2] . ( 174 sec) [ -7645.3658] [ 1109] [depth= 1] . ( 177 sec) [ -7645.2212] [ 1109] [depth= 1] . ( 187 sec) [ -7644.2033] [ 1107] [depth= 1] . ( 190 sec) [ -7644.1145] [ 1107] [depth= 1] . ( 193 sec) [ -7644.0676] [ 1107] [depth= 2] . ( 193 sec) [ -7644.0255] [ 1107] [depth= 4] . ( 203 sec) [ -7643.9943] [ 1108] [depth= 5] . ( 207 sec) [ -7641.2405] [ 1107] [depth= 2] . ( 209 sec) [ -7641.2280] [ 1107] [depth= 1] . ( 214 sec) [ -7641.1840] [ 1109] [depth= 1] . ( 219 sec) [ -7641.1651] [ 1109] [depth= 12] . ( 219 sec) [ -7641.0771] [ 1111] [depth= 1] . ( 220 sec) [ -7639.6611] [ 1109] [depth= 1] . ( 229 sec) [ -7638.9604] [ 1109] [depth= 4] . ( 229 sec) [ -7633.8162] [ 1107] [depth= 1] . ( 232 sec) [ -7633.5872] [ 1107] [depth= 1] . ( 241 sec) [ -7628.8758] [Branch lengths ] . ( 243 sec) [ -7628.8227] [GTR parameters ] . ( 243 sec) [ -7628.5032] [Alpha ][ 0.374692] . ( 257 sec) [ -7628.1054] [ 1104] [depth= 2] . ( 287 sec) [ -7627.9872] [ 1104] [depth= 1] . ( 297 sec) [ -7627.9174] [ 1104] [depth= 1] . ( 302 sec) [ -7627.8603] [ 1099] [depth= 3] . ( 308 sec) [ -7626.9569] [ 1099] [depth= 1] . ( 353 sec) [ -7626.8687] [ 1099] [depth= 1] . ( 361 sec) [ -7625.0237] [Branch lengths ] . ( 362 sec) [ -7624.9643] [GTR parameters ] . ( 363 sec) [ -7624.9341] [Alpha ][ 0.381357] . ( 407 sec) [ -7624.7572] [ 1102] [depth= 1] . ( 477 sec) [ -7623.0481] [Branch lengths ] . ( 478 sec) [ -7623.0451] [GTR parameters ] . ( 478 sec) [ -7623.0426] [Alpha ][ 0.383290] . ( 595 sec) [ -7621.8991] [Branch lengths ] . ( 655 sec) [ -7621.8882] [ 1103] [depth= 7] . ( 698 sec) [ -7620.9405] [ 1098] [depth= 1] . ( 723 sec) [ -7620.3228] [Branch lengths ] . ( 724 sec) [ -7620.3146] [GTR parameters ] . ( 725 sec) [ -7620.2166] [Alpha ][ 0.395580] . ( 783 sec) [ -7620.1994] [ 1098] [depth= 1] . ( 852 sec) [ -7620.0089] [Branch lengths ] . ( 853 sec) [ -7620.0074] [GTR parameters ] . ( 853 sec) [ -7619.9994] [Alpha ][ 0.399274] . ( 853 sec) [ -7619.9994] [Topology ] . ( 856 sec) [ -7619.7255] [Topology ] . ( 858 sec) [ -7619.6558] [Topology ] . ( 860 sec) [ -7619.6404] [Topology ] . ( 862 sec) [ -7619.6323] [Topology ] . ( 865 sec) [ -7619.6270] [Topology ] . ( 867 sec) [ -7619.6238] [Topology ] . ( 869 sec) [ -7619.6219] [Topology ] . ( 871 sec) [ -7619.6190] [GTR parameters ] . ( 871 sec) [ -7619.6187] [Alpha ][ 0.399977] . ( 871 sec) [ -7619.6187] [Topology ] . ( 873 sec) [ -7619.6174] [Topology ] . ( 875 sec) [ -7619.6166] [Topology ] . ( 876 sec) [ -7619.6166] [GTR parameters ] . ( 876 sec) [ -7619.6166] [Alpha ][ 0.399977] . ( 876 sec) [ -7619.6166] [Topology ] . ( 878 sec) [ -7619.6162] [Topology ] . ( 879 sec) [ -7619.6162] [GTR parameters ] . ( 879 sec) [ -7619.6162] [Alpha ][ 0.399977] . Checking for NNIs, optimizing five branches... . ( 895 sec) [ -7619.6160] [Topology ] . Checking for NNIs, optimizing five branches... . ( 912 sec) [ -7619.6156] [Topology ] . Checking for NNIs, optimizing five branches... . ( 928 sec) [ -7619.6154] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7619.615450. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 2 sec) [ -22843.0290] [GTR parameters ] . ( 3 sec) [ -22397.2825] [Alpha ][ 0.500960] . ( 3 sec) [ -22170.5501] [ 3133] [depth= 8] . ( 3 sec) [ -22039.1866] [ 3103] [depth= 10] . ( 3 sec) [ -21940.4815] [ 3096] [depth= 14] . ( 3 sec) [ -21890.6990] [ 3063] [depth= 1] . ( 3 sec) [ -21890.0873] [ 3060] [depth= 15] . ( 3 sec) [ -21827.9219] [ 3056] [depth= 2] . ( 4 sec) [ -21694.8508] [ 3056] [depth= 6] . ( 4 sec) [ -21486.9694] [ 3042] [depth= 5] . ( 4 sec) [ -21470.0213] [ 3041] [depth= 5] . ( 4 sec) [ -21438.0538] [ 3037] [depth= 3] . ( 4 sec) [ -21337.6165] [ 3036] [depth= 4] . ( 4 sec) [ -21305.1490] [ 3034] [depth= 1] . ( 4 sec) [ -21300.3918] [ 3034] [depth= 1] . ( 4 sec) [ -21158.7706] [ 3019] [depth= 10] . ( 5 sec) [ -21043.3197] [ 3018] [depth= 4] . ( 5 sec) [ -21015.2035] [ 3016] [depth= 6] . ( 5 sec) [ -20779.8681] [ 3015] [depth= 11] . ( 5 sec) [ -20719.5947] [ 3013] [depth= 2] . ( 5 sec) [ -20627.9204] [ 3012] [depth= 5] . ( 5 sec) [ -20393.5285] [ 3005] [depth= 6] . ( 5 sec) [ -20203.2813] [ 3002] [depth= 5] . ( 5 sec) [ -19572.4212] [ 3002] [depth= 2] . ( 5 sec) [ -19553.6190] [ 3002] [depth= 3] . ( 6 sec) [ -19494.2875] [ 2982] [depth= 3] . ( 6 sec) [ -19486.0353] [ 2980] [depth= 2] . ( 6 sec) [ -19371.3380] [ 2958] [depth= 5] . ( 6 sec) [ -19371.2722] [ 2958] [depth= 1] . ( 6 sec) [ -19300.2247] [ 2957] [depth= 8] . ( 6 sec) [ -19099.6776] [ 2913] [depth= 2] . ( 6 sec) [ -19027.4993] [ 2907] [depth= 1] . ( 7 sec) [ -18855.9037] [ 2892] [depth= 32] . ( 7 sec) [ -18852.1478] [ 2890] [depth= 2] . ( 7 sec) [ -18737.0711] [ 2884] [depth= 11] . ( 7 sec) [ -18699.7827] [ 2883] [depth= 1] . ( 7 sec) [ -18626.0628] [ 2861] [depth= 10] . ( 7 sec) [ -18596.9143] [ 2861] [depth= 6] . ( 7 sec) [ -18582.5734] [ 2854] [depth= 9] . ( 8 sec) [ -18492.2047] [ 2813] [depth= 13] . ( 8 sec) [ -18478.9571] [ 2813] [depth= 1] . ( 8 sec) [ -18230.4362] [ 2776] [depth= 14] . ( 8 sec) [ -18099.5506] [ 2755] [depth= 14] . ( 8 sec) [ -17929.4615] [ 2728] [depth= 24] . ( 8 sec) [ -17468.7816] [ 2721] [depth= 2] . ( 8 sec) [ -17183.3235] [ 2681] [depth= 23] . ( 9 sec) [ -17164.5108] [ 2677] [depth= 11] . ( 9 sec) [ -16915.7516] [ 2625] [depth= 7] . ( 9 sec) [ -16714.4754] [ 2613] [depth= 25] . ( 9 sec) [ -16686.1041] [ 2569] [depth= 4] . ( 9 sec) [ -16644.1360] [ 2568] [depth= 5] . ( 9 sec) [ -16513.6545] [ 2549] [depth= 2] . ( 9 sec) [ -16482.0442] [ 2548] [depth= 4] . ( 10 sec) [ -16453.1309] [ 2538] [depth= 8] . ( 10 sec) [ -16416.4885] [ 2533] [depth= 7] . ( 10 sec) [ -16378.9792] [ 2531] [depth= 17] . ( 10 sec) [ -16271.0225] [ 2505] [depth= 11] . ( 10 sec) [ -15904.3876] [ 2460] [depth= 25] . ( 10 sec) [ -15784.2901] [ 2486] [depth= 2] . ( 10 sec) [ -15737.7334] [ 2457] [depth= 1] . ( 11 sec) [ -15716.2001] [ 2453] [depth= 14] . ( 11 sec) [ -15605.9064] [ 2420] [depth= 2] . ( 11 sec) [ -15598.5620] [ 2418] [depth= 29] . ( 11 sec) [ -15563.4518] [ 2393] [depth= 6] . ( 11 sec) [ -15543.1299] [ 2394] [depth= 1] . ( 11 sec) [ -15403.5833] [ 2355] [depth= 22] . ( 11 sec) [ -15375.4133] [ 2354] [depth= 1] . ( 12 sec) [ -15346.5586] [ 2351] [depth= 9] . ( 12 sec) [ -15159.7697] [ 2327] [depth= 4] . ( 12 sec) [ -15120.8737] [ 2326] [depth= 1] . ( 12 sec) [ -15096.1551] [ 2323] [depth= 3] . ( 12 sec) [ -15076.3087] [ 2322] [depth= 3] . ( 12 sec) [ -14959.0526] [ 2294] [depth= 43] . ( 12 sec) [ -14946.5287] [ 2287] [depth= 20] . ( 13 sec) [ -14928.4583] [ 2279] [depth= 9] . ( 13 sec) [ -14920.5427] [ 2279] [depth= 2] . ( 13 sec) [ -14901.4421] [ 2279] [depth= 1] . ( 13 sec) [ -14828.3726] [ 2264] [depth= 4] . ( 13 sec) [ -14798.3086] [ 2262] [depth= 1] . ( 13 sec) [ -14679.5333] [ 2229] [depth= 15] . ( 13 sec) [ -14591.8809] [ 2226] [depth= 20] . ( 13 sec) [ -14521.6820] [ 2214] [depth= 7] . ( 14 sec) [ -14509.4970] [ 2212] [depth= 1] . ( 14 sec) [ -14490.4326] [ 2211] [depth= 2] . ( 14 sec) [ -14482.3951] [ 2212] [depth= 1] . ( 14 sec) [ -14453.2436] [ 2200] [depth= 1] . ( 14 sec) [ -14397.2362] [ 2197] [depth= 17] . ( 14 sec) [ -14390.8352] [ 2197] [depth= 6] . ( 14 sec) [ -14383.2201] [ 2197] [depth= 2] . ( 15 sec) [ -14349.7926] [ 2197] [depth= 19] . ( 15 sec) [ -14346.4879] [ 2197] [depth= 1] . ( 15 sec) [ -14236.9650] [ 2169] [depth= 4] . ( 15 sec) [ -14219.7744] [ 2165] [depth= 8] . ( 15 sec) [ -14218.3823] [ 2166] [depth= 1] . ( 15 sec) [ -14195.0427] [ 2162] [depth= 6] . ( 16 sec) [ -14194.2008] [ 2162] [depth= 2] . ( 16 sec) [ -14115.1680] [ 2157] [depth= 10] . ( 16 sec) [ -14021.5656] [ 2158] [depth= 1] . ( 16 sec) [ -13445.4181] [ 2123] [depth= 2] . ( 16 sec) [ -13331.8203] [ 2086] [depth= 8] . ( 16 sec) [ -12745.1199] [ 1970] [depth= 11] . ( 16 sec) [ -12733.4710] [ 1969] [depth= 10] . ( 16 sec) [ -12566.8256] [ 1957] [depth= 2] . ( 17 sec) [ -12286.3270] [ 1967] [depth= 1] . ( 17 sec) [ -12154.2343] [ 1922] [depth= 29] . ( 17 sec) [ -12131.4571] [ 1915] [depth= 24] . ( 17 sec) [ -12091.1291] [ 1915] [depth= 8] . ( 17 sec) [ -12039.4993] [ 1907] [depth= 4] . ( 17 sec) [ -12032.6501] [ 1907] [depth= 1] . ( 18 sec) [ -11821.8294] [ 1907] [depth= 7] . ( 18 sec) [ -11753.9030] [ 1894] [depth= 1] . ( 18 sec) [ -11739.4719] [ 1892] [depth= 3] . ( 18 sec) [ -11695.1011] [ 1875] [depth= 19] . ( 18 sec) [ -11672.8195] [ 1873] [depth= 5] . ( 18 sec) [ -11671.7334] [ 1873] [depth= 9] . ( 18 sec) [ -11670.6426] [ 1873] [depth= 1] . ( 19 sec) [ -11670.1005] [ 1873] [depth= 2] . ( 19 sec) [ -11654.1304] [ 1874] [depth= 3] . ( 19 sec) [ -11628.4125] [ 1869] [depth= 3] . ( 19 sec) [ -11526.7732] [ 1841] [depth= 22] . ( 19 sec) [ -11526.5200] [ 1841] [depth= 14] . ( 19 sec) [ -11525.1287] [ 1841] [depth= 3] . ( 19 sec) [ -11427.9780] [ 1831] [depth= 4] . ( 20 sec) [ -11421.7843] [ 1829] [depth= 2] . ( 20 sec) [ -11421.7131] [ 1829] [depth= 1] . ( 20 sec) [ -11372.3316] [ 1798] [depth= 7] . ( 20 sec) [ -11231.2805] [ 1775] [depth= 4] . ( 20 sec) [ -11197.4735] [ 1773] [depth= 4] . ( 20 sec) [ -11187.5014] [ 1772] [depth= 1] . ( 20 sec) [ -11185.0244] [ 1771] [depth= 1] . ( 21 sec) [ -11163.5021] [ 1771] [depth= 2] . ( 21 sec) [ -11135.1601] [ 1767] [depth= 10] . ( 21 sec) [ -11119.9991] [ 1767] [depth= 1] . ( 21 sec) [ -11115.3378] [ 1767] [depth= 1] . ( 22 sec) [ -11099.1507] [ 1768] [depth= 5] . ( 22 sec) [ -11076.6731] [ 1767] [depth= 11] . ( 22 sec) [ -11073.5073] [ 1766] [depth= 2] . ( 22 sec) [ -11044.4532] [ 1733] [depth= 16] . ( 22 sec) [ -10797.4773] [ 1734] [depth= 1] . ( 22 sec) [ -10778.0114] [ 1734] [depth= 1] . ( 24 sec) [ -10777.5878] [ 1733] [depth= 4] . ( 24 sec) [ -10689.8163] [ 1729] [depth= 14] . ( 24 sec) [ -10541.1765] [ 1728] [depth= 1] . ( 24 sec) [ -10513.9016] [ 1704] [depth= 7] . ( 24 sec) [ -10409.2311] [ 1673] [depth= 2] . ( 25 sec) [ -10378.2713] [ 1671] [depth= 14] . ( 25 sec) [ -10376.6803] [ 1671] [depth= 4] . ( 25 sec) [ -10341.9470] [ 1668] [depth= 9] . ( 25 sec) [ -10339.1839] [ 1668] [depth= 1] . ( 25 sec) [ -10334.1416] [ 1668] [depth= 1] . ( 25 sec) [ -10333.8584] [ 1668] [depth= 5] . ( 25 sec) [ -10289.1546] [ 1650] [depth= 16] . ( 26 sec) [ -10287.3979] [ 1650] [depth= 18] . ( 26 sec) [ -10282.7197] [ 1650] [depth= 3] . ( 26 sec) [ -10235.2036] [ 1649] [depth= 12] . ( 26 sec) [ -10227.9783] [ 1648] [depth= 19] . ( 26 sec) [ -10219.8613] [ 1634] [depth= 20] . ( 26 sec) [ -10218.9392] [ 1636] [depth= 1] . ( 27 sec) [ -10101.6510] [ 1607] [depth= 1] . ( 27 sec) [ -10100.6038] [ 1607] [depth= 1] . ( 27 sec) [ -10099.4708] [ 1607] [depth= 1] . ( 27 sec) [ -10092.2594] [ 1605] [depth= 7] . ( 27 sec) [ -9993.2868] [ 1581] [depth= 27] . ( 27 sec) [ -9954.3787] [ 1578] [depth= 6] . ( 27 sec) [ -9936.7505] [ 1578] [depth= 1] . ( 27 sec) [ -9850.3320] [ 1557] [depth= 21] . ( 28 sec) [ -9842.8828] [ 1557] [depth= 4] . ( 28 sec) [ -9812.4222] [ 1556] [depth= 2] . ( 28 sec) [ -9802.6298] [ 1555] [depth= 4] . ( 28 sec) [ -9802.6105] [ 1554] [depth= 2] . ( 28 sec) [ -9726.0163] [ 1534] [depth= 18] . ( 28 sec) [ -9724.4856] [ 1534] [depth= 2] . ( 28 sec) [ -9724.2571] [ 1534] [depth= 1] . ( 29 sec) [ -9709.3278] [ 1539] [depth= 1] . ( 29 sec) [ -9696.6224] [ 1539] [depth= 1] . ( 29 sec) [ -9602.3806] [ 1530] [depth= 10] . ( 29 sec) [ -9590.7716] [ 1528] [depth= 3] . ( 30 sec) [ -9589.9384] [ 1529] [depth= 3] . ( 30 sec) [ -9538.1418] [ 1522] [depth= 12] . ( 30 sec) [ -9535.9279] [ 1522] [depth= 1] . ( 30 sec) [ -9509.1375] [ 1521] [depth= 4] . ( 30 sec) [ -9502.4521] [ 1521] [depth= 1] . ( 30 sec) [ -9501.6713] [ 1521] [depth= 1] . ( 30 sec) [ -9500.7795] [ 1521] [depth= 1] . ( 31 sec) [ -9405.9664] [ 1484] [depth= 3] . ( 31 sec) [ -9398.2319] [ 1483] [depth= 3] . ( 31 sec) [ -9397.2505] [ 1483] [depth= 1] . ( 31 sec) [ -9393.5746] [ 1483] [depth= 2] . ( 31 sec) [ -9391.7413] [ 1483] [depth= 2] . ( 31 sec) [ -9391.1289] [ 1483] [depth= 1] . ( 31 sec) [ -9389.1226] [ 1485] [depth= 1] . ( 32 sec) [ -9388.9803] [ 1485] [depth= 3] . ( 32 sec) [ -9384.2984] [ 1485] [depth= 5] . ( 32 sec) [ -9368.7289] [ 1481] [depth= 5] . ( 32 sec) [ -9348.8734] [ 1476] [depth= 1] . ( 32 sec) [ -9348.1162] [ 1476] [depth= 4] . ( 32 sec) [ -9338.7123] [ 1476] [depth= 8] . ( 33 sec) [ -9337.6499] [ 1476] [depth= 17] . ( 34 sec) [ -9335.0600] [ 1476] [depth= 5] . ( 34 sec) [ -9306.8316] [ 1470] [depth= 12] . ( 34 sec) [ -9298.0904] [ 1468] [depth= 7] . ( 34 sec) [ -9282.6045] [ 1468] [depth= 6] . ( 35 sec) [ -9274.1076] [ 1468] [depth= 7] . ( 35 sec) [ -9272.4699] [ 1468] [depth= 3] . ( 35 sec) [ -9265.8556] [ 1469] [depth= 13] . ( 36 sec) [ -9265.2679] [ 1471] [depth= 2] . ( 36 sec) [ -9165.0857] [ 1431] [depth= 4] . ( 36 sec) [ -9153.1638] [ 1431] [depth= 1] . ( 37 sec) [ -9152.0752] [ 1431] [depth= 4] . ( 37 sec) [ -9115.8084] [ 1423] [depth= 3] . ( 37 sec) [ -9098.9017] [ 1421] [depth= 2] . ( 37 sec) [ -9098.7537] [ 1421] [depth= 4] . ( 37 sec) [ -9052.2658] [ 1395] [depth= 12] . ( 37 sec) [ -9035.1572] [ 1386] [depth= 4] . ( 38 sec) [ -9017.7041] [ 1383] [depth= 3] . ( 38 sec) [ -8957.4589] [ 1379] [depth= 5] . ( 38 sec) [ -8951.2650] [ 1376] [depth= 1] . ( 38 sec) [ -8899.7411] [ 1349] [depth= 16] . ( 38 sec) [ -8867.4361] [ 1344] [depth= 1] . ( 38 sec) [ -8850.7772] [ 1336] [depth= 5] . ( 38 sec) [ -8845.8001] [ 1335] [depth= 2] . ( 38 sec) [ -8838.3012] [ 1333] [depth= 2] . ( 39 sec) [ -8794.5197] [ 1324] [depth= 3] . ( 39 sec) [ -8793.4240] [ 1324] [depth= 5] . ( 39 sec) [ -8791.0760] [ 1323] [depth= 1] . ( 40 sec) [ -8721.8342] [ 1311] [depth= 6] . ( 40 sec) [ -8716.6710] [ 1309] [depth= 2] . ( 40 sec) [ -8713.8332] [ 1308] [depth= 1] . ( 40 sec) [ -8713.7888] [ 1308] [depth= 1] . ( 40 sec) [ -8703.7610] [ 1306] [depth= 1] . ( 40 sec) [ -8645.6869] [ 1295] [depth= 4] . ( 41 sec) [ -8639.4042] [ 1293] [depth= 4] . ( 41 sec) [ -8637.1737] [ 1279] [depth= 3] . ( 41 sec) [ -8585.1226] [ 1265] [depth= 9] . ( 41 sec) [ -8577.1760] [ 1265] [depth= 2] . ( 42 sec) [ -8238.9102] [Branch lengths ] . ( 46 sec) [ -8213.8105] [GTR parameters ] . ( 47 sec) [ -8190.8360] [Alpha ][ 0.328172] . ( 49 sec) [ -8188.7790] [ 1266] [depth= 2] . ( 51 sec) [ -8172.4288] [ 1263] [depth= 6] . ( 51 sec) [ -8170.1597] [ 1259] [depth= 5] . ( 51 sec) [ -8169.6300] [ 1264] [depth= 1] . ( 52 sec) [ -8137.2372] [ 1245] [depth= 9] . ( 52 sec) [ -8123.1680] [ 1240] [depth= 4] . ( 52 sec) [ -8121.7480] [ 1241] [depth= 1] . ( 52 sec) [ -8116.7025] [ 1241] [depth= 1] . ( 54 sec) [ -8111.6096] [ 1238] [depth= 2] . ( 56 sec) [ -8111.2147] [ 1242] [depth= 1] . ( 56 sec) [ -8087.2307] [ 1227] [depth= 6] . ( 60 sec) [ -8085.9525] [ 1226] [depth= 1] . ( 60 sec) [ -8085.8776] [ 1226] [depth= 1] . ( 62 sec) [ -8048.9991] [ 1199] [depth= 2] . ( 63 sec) [ -8048.8211] [ 1199] [depth= 1] . ( 63 sec) [ -8039.9633] [ 1194] [depth= 3] . ( 63 sec) [ -8002.0153] [ 1177] [depth= 7] . ( 63 sec) [ -7997.7598] [ 1177] [depth= 1] . ( 63 sec) [ -7997.7207] [ 1177] [depth= 2] . ( 64 sec) [ -7997.4808] [ 1174] [depth= 1] . ( 65 sec) [ -7987.1347] [ 1175] [depth= 2] . ( 65 sec) [ -7984.0446] [ 1174] [depth= 1] . ( 65 sec) [ -7980.4866] [ 1173] [depth= 4] . ( 67 sec) [ -7951.3054] [ 1166] [depth= 1] . ( 68 sec) [ -7950.8250] [ 1167] [depth= 1] . ( 70 sec) [ -7948.0096] [ 1169] [depth= 1] . ( 71 sec) [ -7947.6754] [ 1170] [depth= 3] . ( 71 sec) [ -7947.2295] [ 1169] [depth= 6] . ( 72 sec) [ -7943.6235] [ 1170] [depth= 1] . ( 72 sec) [ -7942.9700] [ 1170] [depth= 3] . ( 72 sec) [ -7942.1779] [ 1170] [depth= 1] . ( 72 sec) [ -7941.2996] [ 1169] [depth= 2] . ( 73 sec) [ -7939.4087] [ 1169] [depth= 1] . ( 74 sec) [ -7935.2417] [ 1168] [depth= 2] . ( 74 sec) [ -7935.0562] [ 1167] [depth= 16] . ( 74 sec) [ -7934.7856] [ 1167] [depth= 3] . ( 74 sec) [ -7931.1355] [ 1167] [depth= 2] . ( 75 sec) [ -7931.1058] [ 1167] [depth= 3] . ( 75 sec) [ -7928.2859] [ 1166] [depth= 1] . ( 75 sec) [ -7924.2576] [ 1164] [depth= 2] . ( 75 sec) [ -7924.0207] [ 1164] [depth= 2] . ( 76 sec) [ -7923.8863] [ 1164] [depth= 1] . ( 76 sec) [ -7923.3220] [ 1165] [depth= 4] . ( 77 sec) [ -7923.1083] [ 1165] [depth= 3] . ( 77 sec) [ -7918.7305] [ 1165] [depth= 13] . ( 77 sec) [ -7918.2761] [ 1165] [depth= 1] . ( 78 sec) [ -7918.1794] [ 1165] [depth= 7] . ( 78 sec) [ -7917.3116] [ 1165] [depth= 1] . ( 79 sec) [ -7917.1828] [ 1165] [depth= 5] . ( 79 sec) [ -7916.9053] [ 1165] [depth= 3] . ( 80 sec) [ -7916.8770] [ 1165] [depth= 1] . ( 80 sec) [ -7916.7767] [ 1165] [depth= 1] . ( 80 sec) [ -7916.6933] [ 1165] [depth= 2] . ( 81 sec) [ -7916.6333] [ 1165] [depth= 3] . ( 81 sec) [ -7916.6224] [ 1165] [depth= 9] . ( 83 sec) [ -7915.6248] [ 1164] [depth= 3] . ( 83 sec) [ -7809.9506] [ 1127] [depth= 7] . ( 83 sec) [ -7808.4124] [ 1127] [depth= 1] . ( 84 sec) [ -7785.6624] [ 1122] [depth= 2] . ( 84 sec) [ -7781.3866] [ 1124] [depth= 1] . ( 85 sec) [ -7768.6933] [ 1124] [depth= 2] . ( 86 sec) [ -7762.3863] [ 1126] [depth= 6] . ( 86 sec) [ -7762.1059] [ 1126] [depth= 2] . ( 86 sec) [ -7756.2409] [ 1125] [depth= 3] . ( 87 sec) [ -7755.9357] [ 1125] [depth= 3] . ( 87 sec) [ -7755.7342] [ 1125] [depth= 2] . ( 88 sec) [ -7754.2884] [ 1125] [depth= 1] . ( 88 sec) [ -7752.2813] [ 1126] [depth= 1] . ( 89 sec) [ -7752.0056] [ 1127] [depth= 1] . ( 89 sec) [ -7751.9941] [ 1127] [depth= 1] . ( 90 sec) [ -7751.9717] [ 1127] [depth= 5] . ( 90 sec) [ -7751.2006] [ 1123] [depth= 3] . ( 90 sec) [ -7751.0886] [ 1121] [depth= 1] . ( 90 sec) [ -7751.0721] [ 1121] [depth= 4] . ( 91 sec) [ -7750.9307] [ 1121] [depth= 6] . ( 91 sec) [ -7745.2361] [ 1120] [depth= 14] . ( 92 sec) [ -7744.7908] [ 1120] [depth= 2] . ( 92 sec) [ -7741.4504] [ 1109] [depth= 6] . ( 92 sec) [ -7734.6719] [ 1108] [depth= 7] . ( 92 sec) [ -7734.6032] [ 1108] [depth= 1] . ( 93 sec) [ -7734.3722] [ 1108] [depth= 1] . ( 93 sec) [ -7734.0330] [ 1108] [depth= 1] . ( 95 sec) [ -7728.4860] [ 1105] [depth= 7] . ( 97 sec) [ -7728.3981] [ 1105] [depth= 1] . ( 98 sec) [ -7727.4093] [ 1105] [depth= 1] . ( 98 sec) [ -7727.1840] [ 1105] [depth= 1] . ( 98 sec) [ -7727.1585] [ 1105] [depth= 7] . ( 98 sec) [ -7727.0851] [ 1105] [depth= 3] . ( 99 sec) [ -7727.0644] [ 1105] [depth= 2] . ( 99 sec) [ -7727.0207] [ 1105] [depth= 1] . ( 99 sec) [ -7722.4236] [ 1104] [depth= 5] . ( 100 sec) [ -7722.3820] [ 1104] [depth= 1] . ( 100 sec) [ -7722.3057] [ 1104] [depth= 1] . ( 100 sec) [ -7717.5964] [ 1106] [depth= 3] . ( 101 sec) [ -7717.3299] [ 1106] [depth= 2] . ( 101 sec) [ -7716.4262] [ 1106] [depth= 1] . ( 101 sec) [ -7716.4130] [ 1106] [depth= 2] . ( 101 sec) [ -7715.3668] [ 1106] [depth= 2] . ( 101 sec) [ -7710.4916] [ 1104] [depth= 1] . ( 104 sec) [ -7708.4060] [ 1104] [depth= 2] . ( 104 sec) [ -7708.0907] [ 1104] [depth= 1] . ( 104 sec) [ -7708.0769] [ 1104] [depth= 1] . ( 105 sec) [ -7707.9880] [ 1106] [depth= 1] . ( 105 sec) [ -7706.0834] [ 1105] [depth= 1] . ( 106 sec) [ -7705.2041] [ 1105] [depth= 1] . ( 106 sec) [ -7704.5046] [ 1105] [depth= 5] . ( 106 sec) [ -7704.2796] [ 1104] [depth= 5] . ( 106 sec) [ -7703.1666] [ 1103] [depth= 3] . ( 108 sec) [ -7702.9193] [ 1103] [depth= 1] . ( 109 sec) [ -7700.5985] [ 1103] [depth= 1] . ( 109 sec) [ -7700.4057] [ 1103] [depth= 1] . ( 109 sec) [ -7700.3237] [ 1103] [depth= 2] . ( 113 sec) [ -7700.1863] [ 1103] [depth= 1] . ( 114 sec) [ -7691.8241] [ 1104] [depth= 1] . ( 114 sec) [ -7691.4318] [ 1104] [depth= 2] . ( 115 sec) [ -7691.3421] [ 1104] [depth= 1] . ( 115 sec) [ -7689.0894] [ 1102] [depth= 1] . ( 115 sec) [ -7685.5944] [ 1101] [depth= 7] . ( 116 sec) [ -7681.5729] [ 1100] [depth= 1] . ( 116 sec) [ -7681.1672] [ 1100] [depth= 4] . ( 117 sec) [ -7639.6900] [Branch lengths ] . ( 120 sec) [ -7638.5388] [GTR parameters ] . ( 120 sec) [ -7637.1114] [Alpha ][ 0.368028] . ( 124 sec) [ -7636.9811] [ 1100] [depth= 2] . ( 124 sec) [ -7636.9009] [ 1100] [depth= 2] . ( 125 sec) [ -7636.8773] [ 1100] [depth= 1] . ( 129 sec) [ -7634.1136] [ 1099] [depth= 4] . ( 131 sec) [ -7634.0798] [ 1099] [depth= 2] . ( 131 sec) [ -7634.0665] [ 1099] [depth= 3] . ( 132 sec) [ -7634.0456] [ 1099] [depth= 5] . ( 132 sec) [ -7634.0326] [ 1099] [depth= 1] . ( 135 sec) [ -7633.3286] [ 1099] [depth= 18] . ( 135 sec) [ -7633.1519] [ 1099] [depth= 2] . ( 136 sec) [ -7632.8929] [ 1099] [depth= 3] . ( 137 sec) [ -7632.5695] [ 1099] [depth= 2] . ( 141 sec) [ -7632.4771] [ 1099] [depth= 2] . ( 144 sec) [ -7632.2830] [ 1099] [depth= 3] . ( 145 sec) [ -7632.2616] [ 1099] [depth= 2] . ( 145 sec) [ -7631.9032] [ 1099] [depth= 1] . ( 147 sec) [ -7631.8687] [ 1099] [depth= 1] . ( 150 sec) [ -7631.6291] [ 1098] [depth= 1] . ( 150 sec) [ -7631.5800] [ 1098] [depth= 2] . ( 153 sec) [ -7631.4904] [ 1098] [depth= 4] . ( 154 sec) [ -7631.4469] [ 1098] [depth= 4] . ( 156 sec) [ -7631.3568] [ 1098] [depth= 2] . ( 157 sec) [ -7631.3441] [ 1098] [depth= 2] . ( 159 sec) [ -7631.2922] [ 1098] [depth= 4] . ( 159 sec) [ -7631.2686] [ 1098] [depth= 1] . ( 160 sec) [ -7631.2348] [ 1098] [depth= 6] . ( 164 sec) [ -7631.1572] [ 1098] [depth= 1] . ( 165 sec) [ -7631.1409] [ 1098] [depth= 3] . ( 166 sec) [ -7631.1294] [ 1098] [depth= 6] . ( 166 sec) [ -7631.1130] [ 1098] [depth= 1] . ( 167 sec) [ -7631.0942] [ 1098] [depth= 2] . ( 167 sec) [ -7631.0571] [ 1098] [depth= 3] . ( 169 sec) [ -7630.8875] [ 1098] [depth= 1] . ( 169 sec) [ -7630.3932] [ 1103] [depth= 1] . ( 171 sec) [ -7630.3354] [ 1103] [depth= 2] . ( 172 sec) [ -7630.3106] [ 1103] [depth= 7] . ( 172 sec) [ -7630.2715] [ 1103] [depth= 2] . ( 172 sec) [ -7630.1483] [ 1103] [depth= 2] . ( 174 sec) [ -7629.9317] [ 1098] [depth= 1] . ( 183 sec) [ -7629.8965] [ 1098] [depth= 2] . ( 184 sec) [ -7629.8865] [ 1098] [depth= 1] . ( 187 sec) [ -7629.7989] [ 1099] [depth= 1] . ( 187 sec) [ -7629.7689] [ 1099] [depth= 3] . ( 194 sec) [ -7629.7234] [ 1099] [depth= 2] . ( 216 sec) [ -7626.2057] [Branch lengths ] . ( 218 sec) [ -7626.1549] [GTR parameters ] . ( 218 sec) [ -7626.0236] [Alpha ][ 0.381532] . ( 279 sec) [ -7625.9690] [ 1104] [depth= 1] . ( 333 sec) [ -7625.6244] [Branch lengths ] . ( 335 sec) [ -7625.6217] [GTR parameters ] . ( 335 sec) [ -7625.6139] [Alpha ][ 0.384947] . ( 422 sec) [ -7623.8473] [ 1102] [depth= 2] . ( 452 sec) [ -7623.8201] [ 1099] [depth= 2] . ( 454 sec) [ -7621.7660] [Branch lengths ] . ( 456 sec) [ -7621.7270] [GTR parameters ] . ( 457 sec) [ -7621.7196] [Alpha ][ 0.388332] . ( 532 sec) [ -7621.7027] [ 1099] [depth= 8] . ( 580 sec) [ -7621.3826] [Branch lengths ] . ( 582 sec) [ -7621.3814] [GTR parameters ] . ( 582 sec) [ -7621.3631] [Alpha ][ 0.393773] . ( 582 sec) [ -7621.3631] [Topology ] . ( 584 sec) [ -7621.2894] [Topology ] . ( 586 sec) [ -7621.2538] [Topology ] . ( 589 sec) [ -7621.2318] [Topology ] . ( 591 sec) [ -7621.2173] [Topology ] . ( 593 sec) [ -7621.2077] [Topology ] . ( 595 sec) [ -7621.2014] [Topology ] . ( 597 sec) [ -7621.2008] [GTR parameters ] . ( 597 sec) [ -7621.1955] [Alpha ][ 0.396726] . ( 597 sec) [ -7621.1955] [Topology ] . ( 599 sec) [ -7621.1895] [Topology ] . ( 601 sec) [ -7621.1863] [Topology ] . ( 604 sec) [ -7621.1842] [Topology ] . ( 606 sec) [ -7621.1828] [Topology ] . ( 608 sec) [ -7621.1819] [Topology ] . ( 609 sec) [ -7621.1818] [GTR parameters ] . ( 609 sec) [ -7621.1814] [Alpha ][ 0.397605] . ( 609 sec) [ -7621.1814] [Topology ] . ( 611 sec) [ -7621.1805] [Topology ] . ( 612 sec) [ -7621.1805] [GTR parameters ] . ( 612 sec) [ -7621.1805] [Alpha ][ 0.398003] . Checking for NNIs, optimizing five branches... . ( 628 sec) [ -7621.1451] [Topology ] . Checking for NNIs, optimizing five branches... . ( 644 sec) [ -7621.1248] [Topology ] . Checking for NNIs, optimizing five branches... . ( 660 sec) [ -7621.1224] [Topology ] . Checking for NNIs, optimizing five branches... . ( 677 sec) [ -7621.1166] [Topology ] . Checking for NNIs, optimizing five branches... . ( 693 sec) [ -7621.1163] [Topology ] . Checking for NNIs, optimizing five branches... . ( 709 sec) [ -7621.1085] [Topology ] . Checking for NNIs, optimizing five branches... . ( 725 sec) [ -7621.1084] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7621.108419. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 2 sec) [ -22004.5094] [GTR parameters ] . ( 2 sec) [ -21593.4509] [Alpha ][ 0.500960] . ( 2 sec) [ -21456.9341] [ 2910] [depth= 12] . ( 2 sec) [ -21349.9298] [ 2895] [depth= 13] . ( 2 sec) [ -21311.9136] [ 2895] [depth= 1] . ( 3 sec) [ -21236.8476] [ 2884] [depth= 8] . ( 3 sec) [ -21147.6591] [ 2881] [depth= 2] . ( 3 sec) [ -21111.2332] [ 2880] [depth= 4] . ( 3 sec) [ -20835.8838] [ 2862] [depth= 4] . ( 3 sec) [ -20783.5058] [ 2859] [depth= 3] . ( 3 sec) [ -20723.0452] [ 2842] [depth= 3] . ( 3 sec) [ -20670.2594] [ 2843] [depth= 1] . ( 4 sec) [ -20627.4182] [ 2839] [depth= 2] . ( 4 sec) [ -20393.7277] [ 2838] [depth= 3] . ( 4 sec) [ -20200.8238] [ 2827] [depth= 3] . ( 4 sec) [ -20198.5162] [ 2822] [depth= 5] . ( 4 sec) [ -20135.0057] [ 2801] [depth= 18] . ( 4 sec) [ -20113.3266] [ 2801] [depth= 2] . ( 4 sec) [ -20057.6305] [ 2792] [depth= 11] . ( 5 sec) [ -19602.9167] [ 2783] [depth= 20] . ( 5 sec) [ -19126.5636] [ 2784] [depth= 1] . ( 5 sec) [ -18026.8405] [ 2747] [depth= 16] . ( 5 sec) [ -18003.9220] [ 2725] [depth= 1] . ( 5 sec) [ -17634.7680] [ 2701] [depth= 20] . ( 5 sec) [ -17601.4812] [ 2700] [depth= 22] . ( 5 sec) [ -17446.4803] [ 2593] [depth= 15] . ( 6 sec) [ -17337.4776] [ 2591] [depth= 3] . ( 6 sec) [ -17206.8599] [ 2565] [depth= 21] . ( 6 sec) [ -17161.3251] [ 2563] [depth= 7] . ( 6 sec) [ -17076.7961] [ 2538] [depth= 22] . ( 6 sec) [ -16921.3212] [ 2516] [depth= 20] . ( 6 sec) [ -16898.5960] [ 2516] [depth= 1] . ( 6 sec) [ -16886.8511] [ 2514] [depth= 24] . ( 7 sec) [ -16763.5520] [ 2517] [depth= 3] . ( 7 sec) [ -16669.8007] [ 2497] [depth= 1] . ( 7 sec) [ -16650.3607] [ 2491] [depth= 5] . ( 7 sec) [ -16610.3211] [ 2478] [depth= 1] . ( 7 sec) [ -16597.1311] [ 2473] [depth= 22] . ( 7 sec) [ -16587.9254] [ 2473] [depth= 1] . ( 7 sec) [ -16586.9968] [ 2472] [depth= 2] . ( 8 sec) [ -16552.2680] [ 2463] [depth= 21] . ( 8 sec) [ -16490.0960] [ 2440] [depth= 16] . ( 8 sec) [ -16264.3727] [ 2456] [depth= 1] . ( 8 sec) [ -16251.3088] [ 2440] [depth= 1] . ( 8 sec) [ -16248.0749] [ 2435] [depth= 1] . ( 8 sec) [ -16248.0415] [ 2435] [depth= 1] . ( 9 sec) [ -16243.9577] [ 2436] [depth= 3] . ( 9 sec) [ -16176.9277] [ 2412] [depth= 15] . ( 9 sec) [ -16018.0853] [ 2388] [depth= 17] . ( 9 sec) [ -15665.8233] [ 2363] [depth= 11] . ( 9 sec) [ -15556.3635] [ 2343] [depth= 22] . ( 9 sec) [ -15457.8465] [ 2317] [depth= 11] . ( 9 sec) [ -15355.8619] [ 2291] [depth= 4] . ( 10 sec) [ -15260.9902] [ 2265] [depth= 17] . ( 10 sec) [ -15228.0956] [ 2265] [depth= 1] . ( 10 sec) [ -15169.0528] [ 2260] [depth= 1] . ( 10 sec) [ -15069.7480] [ 2260] [depth= 2] . ( 10 sec) [ -15046.6332] [ 2260] [depth= 2] . ( 10 sec) [ -14975.8172] [ 2242] [depth= 3] . ( 11 sec) [ -14851.6597] [ 2198] [depth= 11] . ( 11 sec) [ -14705.4768] [ 2160] [depth= 12] . ( 11 sec) [ -14657.8408] [ 2159] [depth= 2] . ( 11 sec) [ -14591.1572] [ 2141] [depth= 1] . ( 11 sec) [ -14576.2349] [ 2140] [depth= 2] . ( 11 sec) [ -14543.6946] [ 2140] [depth= 1] . ( 11 sec) [ -14419.1633] [ 2120] [depth= 16] . ( 12 sec) [ -14415.7760] [ 2120] [depth= 1] . ( 12 sec) [ -14227.0951] [ 2076] [depth= 11] . ( 12 sec) [ -14084.0339] [ 2063] [depth= 3] . ( 12 sec) [ -14072.9919] [ 2055] [depth= 15] . ( 12 sec) [ -13968.2673] [ 2057] [depth= 1] . ( 12 sec) [ -13826.0976] [ 2037] [depth= 6] . ( 13 sec) [ -13769.2459] [ 2020] [depth= 11] . ( 13 sec) [ -13461.0086] [ 2014] [depth= 16] . ( 13 sec) [ -13373.4453] [ 2018] [depth= 6] . ( 13 sec) [ -13309.0235] [ 2008] [depth= 10] . ( 13 sec) [ -13263.9226] [ 2008] [depth= 7] . ( 13 sec) [ -13227.3538] [ 2003] [depth= 9] . ( 13 sec) [ -13206.5804] [ 2001] [depth= 3] . ( 14 sec) [ -13036.8029] [ 1960] [depth= 24] . ( 14 sec) [ -12983.2772] [ 1964] [depth= 6] . ( 14 sec) [ -12742.7694] [ 1956] [depth= 10] . ( 14 sec) [ -12729.8439] [ 1949] [depth= 2] . ( 14 sec) [ -12719.0555] [ 1948] [depth= 3] . ( 14 sec) [ -12575.9633] [ 1937] [depth= 2] . ( 14 sec) [ -12571.5638] [ 1938] [depth= 1] . ( 15 sec) [ -12457.5821] [ 1907] [depth= 16] . ( 15 sec) [ -12449.3380] [ 1908] [depth= 1] . ( 15 sec) [ -12438.2183] [ 1905] [depth= 4] . ( 15 sec) [ -12411.1847] [ 1899] [depth= 4] . ( 15 sec) [ -12405.9987] [ 1899] [depth= 1] . ( 15 sec) [ -12397.2708] [ 1887] [depth= 1] . ( 16 sec) [ -12265.4660] [ 1883] [depth= 3] . ( 16 sec) [ -12251.5198] [ 1882] [depth= 2] . ( 16 sec) [ -12243.0195] [ 1871] [depth= 7] . ( 16 sec) [ -12227.2652] [ 1867] [depth= 2] . ( 16 sec) [ -12203.8398] [ 1864] [depth= 2] . ( 16 sec) [ -12202.8680] [ 1867] [depth= 2] . ( 17 sec) [ -12178.2758] [ 1864] [depth= 9] . ( 17 sec) [ -12103.6543] [ 1874] [depth= 2] . ( 17 sec) [ -12090.3335] [ 1868] [depth= 1] . ( 17 sec) [ -11954.7078] [ 1840] [depth= 2] . ( 17 sec) [ -11947.1776] [ 1837] [depth= 13] . ( 18 sec) [ -11937.9183] [ 1824] [depth= 10] . ( 18 sec) [ -11926.3750] [ 1824] [depth= 2] . ( 18 sec) [ -11914.6843] [ 1820] [depth= 6] . ( 18 sec) [ -11857.5113] [ 1798] [depth= 15] . ( 18 sec) [ -11751.0196] [ 1758] [depth= 21] . ( 18 sec) [ -11706.9794] [ 1759] [depth= 1] . ( 18 sec) [ -11700.1060] [ 1755] [depth= 21] . ( 19 sec) [ -11699.3373] [ 1755] [depth= 1] . ( 19 sec) [ -11689.2197] [ 1753] [depth= 3] . ( 19 sec) [ -11682.2357] [ 1744] [depth= 2] . ( 19 sec) [ -11609.3533] [ 1712] [depth= 19] . ( 19 sec) [ -11576.4666] [ 1698] [depth= 25] . ( 19 sec) [ -11567.1684] [ 1697] [depth= 2] . ( 20 sec) [ -11356.4032] [ 1680] [depth= 22] . ( 20 sec) [ -11342.0524] [ 1680] [depth= 2] . ( 20 sec) [ -11341.6431] [ 1680] [depth= 1] . ( 21 sec) [ -11249.0448] [ 1678] [depth= 13] . ( 21 sec) [ -11243.6538] [ 1678] [depth= 1] . ( 21 sec) [ -11233.3143] [ 1672] [depth= 3] . ( 21 sec) [ -11128.8523] [ 1643] [depth= 7] . ( 21 sec) [ -11085.2037] [ 1629] [depth= 7] . ( 21 sec) [ -11017.9801] [ 1617] [depth= 8] . ( 21 sec) [ -11016.4584] [ 1621] [depth= 1] . ( 22 sec) [ -10948.9823] [ 1617] [depth= 4] . ( 22 sec) [ -10889.0344] [ 1617] [depth= 1] . ( 22 sec) [ -10867.0573] [ 1616] [depth= 1] . ( 22 sec) [ -10860.0692] [ 1616] [depth= 1] . ( 22 sec) [ -10847.1627] [ 1618] [depth= 3] . ( 22 sec) [ -10682.0908] [ 1581] [depth= 4] . ( 22 sec) [ -10660.3047] [ 1584] [depth= 1] . ( 23 sec) [ -10520.3527] [ 1542] [depth= 9] . ( 23 sec) [ -10492.7427] [ 1537] [depth= 9] . ( 23 sec) [ -10415.5837] [ 1498] [depth= 7] . ( 23 sec) [ -10398.5627] [ 1495] [depth= 9] . ( 23 sec) [ -10398.3876] [ 1493] [depth= 3] . ( 23 sec) [ -10368.4657] [ 1491] [depth= 2] . ( 24 sec) [ -10294.6086] [ 1477] [depth= 4] . ( 24 sec) [ -10293.3416] [ 1477] [depth= 1] . ( 24 sec) [ -10290.9327] [ 1477] [depth= 13] . ( 24 sec) [ -10288.7355] [ 1476] [depth= 7] . ( 24 sec) [ -10276.9732] [ 1471] [depth= 8] . ( 25 sec) [ -10254.0855] [ 1451] [depth= 1] . ( 25 sec) [ -10247.1337] [ 1451] [depth= 1] . ( 25 sec) [ -10244.2560] [ 1451] [depth= 1] . ( 25 sec) [ -10243.1973] [ 1451] [depth= 1] . ( 25 sec) [ -10095.4471] [ 1441] [depth= 9] . ( 25 sec) [ -10045.9167] [ 1434] [depth= 4] . ( 25 sec) [ -10043.1338] [ 1435] [depth= 3] . ( 26 sec) [ -9943.2093] [ 1434] [depth= 4] . ( 26 sec) [ -9917.3446] [ 1431] [depth= 7] . ( 26 sec) [ -9907.2894] [ 1430] [depth= 1] . ( 26 sec) [ -9904.2146] [ 1428] [depth= 5] . ( 26 sec) [ -9894.8149] [ 1428] [depth= 2] . ( 26 sec) [ -9890.8788] [ 1428] [depth= 5] . ( 26 sec) [ -9839.0577] [ 1428] [depth= 2] . ( 26 sec) [ -9662.3577] [ 1428] [depth= 7] . ( 27 sec) [ -9604.8517] [ 1403] [depth= 14] . ( 27 sec) [ -9604.1300] [ 1403] [depth= 7] . ( 27 sec) [ -9602.6748] [ 1403] [depth= 2] . ( 27 sec) [ -9601.7410] [ 1403] [depth= 4] . ( 27 sec) [ -9601.6145] [ 1403] [depth= 1] . ( 27 sec) [ -9591.2092] [ 1399] [depth= 17] . ( 28 sec) [ -9550.5484] [ 1396] [depth= 1] . ( 28 sec) [ -9544.9739] [ 1396] [depth= 2] . ( 28 sec) [ -9544.5829] [ 1396] [depth= 5] . ( 28 sec) [ -9459.1180] [ 1371] [depth= 18] . ( 28 sec) [ -9458.1258] [ 1371] [depth= 1] . ( 28 sec) [ -9452.0168] [ 1371] [depth= 3] . ( 29 sec) [ -9451.6508] [ 1371] [depth= 2] . ( 29 sec) [ -9449.8602] [ 1371] [depth= 1] . ( 29 sec) [ -9377.4953] [ 1346] [depth= 12] . ( 29 sec) [ -9354.1426] [ 1344] [depth= 2] . ( 29 sec) [ -9353.4872] [ 1344] [depth= 2] . ( 30 sec) [ -9352.8066] [ 1345] [depth= 2] . ( 30 sec) [ -9348.5574] [ 1343] [depth= 2] . ( 31 sec) [ -9332.1286] [ 1340] [depth= 18] . ( 31 sec) [ -9319.7013] [ 1340] [depth= 1] . ( 31 sec) [ -9317.5104] [ 1340] [depth= 3] . ( 31 sec) [ -9307.0149] [ 1339] [depth= 7] . ( 31 sec) [ -9288.6968] [ 1336] [depth= 3] . ( 31 sec) [ -9286.9858] [ 1336] [depth= 1] . ( 32 sec) [ -9251.9465] [ 1338] [depth= 2] . ( 32 sec) [ -9245.9370] [ 1336] [depth= 15] . ( 32 sec) [ -9245.3673] [ 1336] [depth= 1] . ( 32 sec) [ -9245.1390] [ 1336] [depth= 5] . ( 32 sec) [ -9241.7124] [ 1336] [depth= 2] . ( 32 sec) [ -9240.5700] [ 1336] [depth= 8] . ( 32 sec) [ -9229.8928] [ 1334] [depth= 3] . ( 33 sec) [ -9227.0096] [ 1334] [depth= 7] . ( 33 sec) [ -8956.0029] [ 1308] [depth= 13] . ( 33 sec) [ -8955.8678] [ 1308] [depth= 8] . ( 33 sec) [ -8954.9625] [ 1308] [depth= 1] . ( 34 sec) [ -8953.3286] [ 1308] [depth= 1] . ( 34 sec) [ -8934.0954] [ 1306] [depth= 5] . ( 34 sec) [ -8929.9635] [ 1306] [depth= 2] . ( 34 sec) [ -8929.8884] [ 1306] [depth= 1] . ( 34 sec) [ -8929.6677] [ 1306] [depth= 10] . ( 35 sec) [ -8928.5904] [ 1306] [depth= 7] . ( 35 sec) [ -8896.4795] [ 1291] [depth= 12] . ( 35 sec) [ -8821.3004] [ 1293] [depth= 1] . ( 35 sec) [ -8805.5493] [ 1295] [depth= 1] . ( 35 sec) [ -8767.6316] [ 1295] [depth= 2] . ( 36 sec) [ -8762.3119] [ 1293] [depth= 1] . ( 36 sec) [ -8762.0672] [ 1293] [depth= 1] . ( 36 sec) [ -8760.8930] [ 1291] [depth= 8] . ( 36 sec) [ -8760.6175] [ 1291] [depth= 1] . ( 36 sec) [ -8741.7645] [ 1280] [depth= 7] . ( 37 sec) [ -8739.5302] [ 1281] [depth= 1] . ( 37 sec) [ -8739.0668] [ 1280] [depth= 6] . ( 37 sec) [ -8735.9695] [ 1282] [depth= 1] . ( 37 sec) [ -8734.7975] [ 1282] [depth= 3] . ( 37 sec) [ -8734.7483] [ 1282] [depth= 1] . ( 38 sec) [ -8734.6991] [ 1282] [depth= 7] . ( 38 sec) [ -8734.5849] [ 1282] [depth= 1] . ( 38 sec) [ -8666.5242] [ 1266] [depth= 1] . ( 38 sec) [ -8656.8278] [ 1265] [depth= 1] . ( 38 sec) [ -8647.0580] [ 1258] [depth= 8] . ( 38 sec) [ -8646.4854] [ 1258] [depth= 5] . ( 39 sec) [ -8639.4475] [ 1260] [depth= 1] . ( 39 sec) [ -8637.6881] [ 1260] [depth= 1] . ( 39 sec) [ -8636.8472] [ 1260] [depth= 1] . ( 39 sec) [ -8633.7407] [ 1258] [depth= 1] . ( 39 sec) [ -8628.4056] [ 1258] [depth= 3] . ( 39 sec) [ -8628.1268] [ 1258] [depth= 2] . ( 40 sec) [ -8628.1085] [ 1258] [depth= 4] . ( 40 sec) [ -8626.4962] [ 1258] [depth= 4] . ( 40 sec) [ -8617.4873] [ 1258] [depth= 1] . ( 40 sec) [ -8604.5831] [ 1260] [depth= 2] . ( 40 sec) [ -8598.4912] [ 1260] [depth= 1] . ( 43 sec) [ -8583.0041] [ 1256] [depth= 4] . ( 44 sec) [ -8578.0242] [ 1256] [depth= 8] . ( 44 sec) [ -8572.0425] [ 1255] [depth= 1] . ( 44 sec) [ -8553.0005] [ 1255] [depth= 1] . ( 44 sec) [ -8552.5684] [ 1257] [depth= 3] . ( 44 sec) [ -8552.4735] [ 1257] [depth= 8] . ( 44 sec) [ -8552.3107] [ 1257] [depth= 4] . ( 44 sec) [ -8547.8990] [ 1257] [depth= 2] . ( 45 sec) [ -8546.9700] [ 1257] [depth= 1] . ( 45 sec) [ -8543.8980] [ 1257] [depth= 1] . ( 46 sec) [ -8264.6564] [Branch lengths ] . ( 53 sec) [ -8164.4776] [GTR parameters ] . ( 53 sec) [ -8137.0628] [Alpha ][ 0.317301] . ( 54 sec) [ -8130.6423] [ 1252] [depth= 1] . ( 54 sec) [ -8105.4793] [ 1229] [depth= 12] . ( 54 sec) [ -8103.2834] [ 1230] [depth= 6] . ( 54 sec) [ -8101.3458] [ 1229] [depth= 1] . ( 54 sec) [ -8098.6846] [ 1214] [depth= 5] . ( 54 sec) [ -8098.0017] [ 1200] [depth= 2] . ( 54 sec) [ -8053.3645] [ 1197] [depth= 5] . ( 55 sec) [ -8013.4033] [ 1194] [depth= 2] . ( 55 sec) [ -8013.3828] [ 1194] [depth= 2] . ( 55 sec) [ -8013.2083] [ 1194] [depth= 6] . ( 55 sec) [ -8011.7617] [ 1194] [depth= 3] . ( 56 sec) [ -8009.0828] [ 1194] [depth= 3] . ( 56 sec) [ -8008.4839] [ 1194] [depth= 1] . ( 57 sec) [ -8008.4176] [ 1194] [depth= 2] . ( 57 sec) [ -7965.9358] [ 1201] [depth= 1] . ( 58 sec) [ -7963.6670] [ 1200] [depth= 5] . ( 59 sec) [ -7963.2479] [ 1200] [depth= 1] . ( 59 sec) [ -7957.2220] [ 1198] [depth= 3] . ( 59 sec) [ -7955.8041] [ 1197] [depth= 4] . ( 59 sec) [ -7955.7715] [ 1197] [depth= 5] . ( 59 sec) [ -7955.7318] [ 1197] [depth= 2] . ( 60 sec) [ -7955.1341] [ 1197] [depth= 1] . ( 60 sec) [ -7953.8022] [ 1190] [depth= 1] . ( 60 sec) [ -7950.3163] [ 1190] [depth= 1] . ( 62 sec) [ -7950.0146] [ 1190] [depth= 2] . ( 62 sec) [ -7947.4008] [ 1177] [depth= 8] . ( 63 sec) [ -7947.3861] [ 1177] [depth= 3] . ( 63 sec) [ -7947.3031] [ 1177] [depth= 1] . ( 64 sec) [ -7945.6281] [ 1177] [depth= 3] . ( 65 sec) [ -7939.7895] [ 1176] [depth= 1] . ( 65 sec) [ -7936.2342] [ 1158] [depth= 3] . ( 67 sec) [ -7935.3413] [ 1158] [depth= 1] . ( 68 sec) [ -7934.0585] [ 1162] [depth= 1] . ( 69 sec) [ -7933.1538] [ 1162] [depth= 1] . ( 69 sec) [ -7931.2344] [ 1162] [depth= 1] . ( 70 sec) [ -7925.7553] [ 1161] [depth= 2] . ( 72 sec) [ -7924.0095] [ 1161] [depth= 1] . ( 73 sec) [ -7917.1657] [ 1158] [depth= 1] . ( 74 sec) [ -7913.9772] [ 1158] [depth= 1] . ( 74 sec) [ -7837.9323] [ 1133] [depth= 9] . ( 74 sec) [ -7804.3732] [ 1126] [depth= 6] . ( 74 sec) [ -7804.2485] [ 1126] [depth= 1] . ( 75 sec) [ -7804.0074] [ 1126] [depth= 4] . ( 77 sec) [ -7803.8020] [ 1126] [depth= 8] . ( 78 sec) [ -7803.4514] [ 1126] [depth= 1] . ( 79 sec) [ -7795.6196] [ 1122] [depth= 2] . ( 79 sec) [ -7778.8822] [ 1120] [depth= 1] . ( 79 sec) [ -7778.8664] [ 1120] [depth= 1] . ( 80 sec) [ -7778.8490] [ 1120] [depth= 3] . ( 80 sec) [ -7778.7532] [ 1120] [depth= 4] . ( 81 sec) [ -7778.4911] [ 1121] [depth= 2] . ( 81 sec) [ -7776.2719] [ 1120] [depth= 1] . ( 82 sec) [ -7773.2456] [ 1118] [depth= 1] . ( 82 sec) [ -7768.8283] [ 1115] [depth= 2] . ( 83 sec) [ -7768.5532] [ 1115] [depth= 4] . ( 84 sec) [ -7761.1587] [ 1112] [depth= 1] . ( 86 sec) [ -7757.7937] [ 1115] [depth= 2] . ( 86 sec) [ -7751.5242] [ 1113] [depth= 3] . ( 87 sec) [ -7751.2951] [ 1113] [depth= 2] . ( 87 sec) [ -7751.1986] [ 1113] [depth= 1] . ( 88 sec) [ -7750.0482] [ 1115] [depth= 1] . ( 89 sec) [ -7747.6559] [ 1114] [depth= 1] . ( 90 sec) [ -7743.8500] [ 1114] [depth= 9] . ( 90 sec) [ -7743.5395] [ 1114] [depth= 1] . ( 92 sec) [ -7742.9877] [ 1114] [depth= 1] . ( 92 sec) [ -7742.4235] [ 1113] [depth= 1] . ( 92 sec) [ -7740.5573] [ 1112] [depth= 4] . ( 92 sec) [ -7739.4721] [ 1112] [depth= 3] . ( 92 sec) [ -7736.0231] [ 1111] [depth= 1] . ( 93 sec) [ -7736.0083] [ 1111] [depth= 8] . ( 96 sec) [ -7731.6785] [ 1110] [depth= 2] . ( 97 sec) [ -7730.2063] [ 1110] [depth= 1] . ( 103 sec) [ -7730.1725] [ 1110] [depth= 1] . ( 105 sec) [ -7730.0486] [ 1110] [depth= 1] . ( 106 sec) [ -7730.0342] [ 1110] [depth= 1] . ( 107 sec) [ -7728.2597] [ 1110] [depth= 12] . ( 110 sec) [ -7723.5786] [ 1109] [depth= 3] . ( 112 sec) [ -7723.2698] [ 1108] [depth= 3] . ( 112 sec) [ -7723.2562] [ 1108] [depth= 3] . ( 113 sec) [ -7723.2402] [ 1108] [depth= 3] . ( 117 sec) [ -7723.0387] [ 1109] [depth= 1] . ( 118 sec) [ -7722.8045] [ 1109] [depth= 15] . ( 119 sec) [ -7718.5901] [ 1109] [depth= 1] . ( 119 sec) [ -7717.6764] [ 1109] [depth= 1] . ( 119 sec) [ -7717.5162] [ 1106] [depth= 1] . ( 120 sec) [ -7713.7495] [ 1106] [depth= 1] . ( 120 sec) [ -7711.8838] [ 1105] [depth= 3] . ( 120 sec) [ -7711.8016] [ 1105] [depth= 4] . ( 121 sec) [ -7711.7896] [ 1105] [depth= 1] . ( 121 sec) [ -7708.3331] [ 1107] [depth= 1] . ( 121 sec) [ -7700.7952] [ 1102] [depth= 2] . ( 123 sec) [ -7700.4950] [ 1102] [depth= 15] . ( 123 sec) [ -7700.3821] [ 1102] [depth= 4] . ( 126 sec) [ -7700.3574] [ 1102] [depth= 1] . ( 127 sec) [ -7693.3697] [ 1101] [depth= 17] . ( 128 sec) [ -7693.1602] [ 1101] [depth= 3] . ( 129 sec) [ -7693.0846] [ 1101] [depth= 1] . ( 129 sec) [ -7691.8371] [ 1101] [depth= 2] . ( 130 sec) [ -7691.1671] [ 1103] [depth= 1] . ( 132 sec) [ -7690.7722] [ 1104] [depth= 1] . ( 132 sec) [ -7690.3958] [ 1104] [depth= 1] . ( 133 sec) [ -7689.9757] [ 1104] [depth= 2] . ( 133 sec) [ -7689.9417] [ 1104] [depth= 13] . ( 133 sec) [ -7689.8145] [ 1104] [depth= 1] . ( 133 sec) [ -7689.7891] [ 1104] [depth= 1] . ( 136 sec) [ -7647.2555] [Branch lengths ] . ( 139 sec) [ -7646.4436] [GTR parameters ] . ( 139 sec) [ -7644.4570] [Alpha ][ 0.362369] . ( 140 sec) [ -7644.4329] [ 1104] [depth= 1] . ( 142 sec) [ -7643.8249] [ 1101] [depth= 1] . ( 142 sec) [ -7643.3718] [ 1097] [depth= 3] . ( 142 sec) [ -7642.6413] [ 1095] [depth= 3] . ( 156 sec) [ -7642.4742] [ 1099] [depth= 3] . ( 160 sec) [ -7642.4239] [ 1099] [depth= 1] . ( 172 sec) [ -7642.3205] [ 1099] [depth= 1] . ( 172 sec) [ -7642.2695] [ 1099] [depth= 5] . ( 176 sec) [ -7641.5213] [ 1097] [depth= 1] . ( 183 sec) [ -7641.4345] [ 1097] [depth= 1] . ( 184 sec) [ -7635.8582] [ 1096] [depth= 6] . ( 191 sec) [ -7634.6977] [ 1096] [depth= 18] . ( 191 sec) [ -7634.5927] [ 1096] [depth= 1] . ( 192 sec) [ -7634.0079] [ 1095] [depth= 2] . ( 211 sec) [ -7633.9878] [ 1096] [depth= 2] . ( 211 sec) [ -7633.7232] [ 1096] [depth= 1] . ( 221 sec) [ -7633.7051] [ 1096] [depth= 2] . ( 222 sec) [ -7633.5743] [ 1096] [depth= 1] . ( 223 sec) [ -7633.3693] [ 1096] [depth= 2] . ( 225 sec) [ -7631.3246] [ 1095] [depth= 1] . ( 225 sec) [ -7631.3006] [ 1095] [depth= 3] . ( 226 sec) [ -7630.7855] [ 1098] [depth= 1] . ( 226 sec) [ -7630.2167] [ 1097] [depth= 1] . ( 226 sec) [ -7629.7195] [ 1099] [depth= 1] . ( 226 sec) [ -7629.5083] [ 1099] [depth= 2] . ( 231 sec) [ -7629.3523] [ 1098] [depth= 5] . ( 238 sec) [ -7629.2035] [ 1098] [depth= 1] . ( 242 sec) [ -7628.9818] [ 1098] [depth= 1] . ( 246 sec) [ -7623.3098] [Branch lengths ] . ( 248 sec) [ -7623.0064] [GTR parameters ] . ( 248 sec) [ -7622.7594] [Alpha ][ 0.380531] . ( 250 sec) [ -7622.7465] [ 1096] [depth= 8] . ( 367 sec) [ -7621.7975] [Branch lengths ] . ( 368 sec) [ -7621.7974] [GTR parameters ] . ( 368 sec) [ -7621.7449] [Alpha ][ 0.389175] . ( 370 sec) [ -7621.7307] [ 1096] [depth= 1] . ( 490 sec) [ -7619.6135] [Branch lengths ] . ( 492 sec) [ -7619.5812] [GTR parameters ] . ( 492 sec) [ -7619.5767] [Alpha ][ 0.391867] . ( 495 sec) [ -7619.5374] [ 1096] [depth= 1] . ( 617 sec) [ -7618.7119] [Branch lengths ] . ( 621 sec) [ -7618.7053] [GTR parameters ] . ( 621 sec) [ -7618.6842] [Alpha ][ 0.397817] . ( 626 sec) [ -7618.6222] [ 1096] [depth= 1] . ( 755 sec) [ -7618.3193] [Branch lengths ] . ( 757 sec) [ -7618.3185] [GTR parameters ] . ( 757 sec) [ -7618.3126] [Alpha ][ 0.400995] . ( 757 sec) [ -7618.3126] [Topology ] . ( 759 sec) [ -7618.2544] [Topology ] . ( 762 sec) [ -7618.2255] [Topology ] . ( 764 sec) [ -7618.2078] [Topology ] . ( 766 sec) [ -7618.1964] [Topology ] . ( 769 sec) [ -7618.1889] [Topology ] . ( 771 sec) [ -7618.1841] [Topology ] . ( 772 sec) [ -7618.1836] [GTR parameters ] . ( 772 sec) [ -7618.1828] [Alpha ][ 0.402136] . ( 773 sec) [ -7618.1828] [Topology ] . ( 775 sec) [ -7618.1794] [Topology ] . ( 777 sec) [ -7618.1773] [Topology ] . ( 779 sec) [ -7618.1759] [Topology ] . ( 782 sec) [ -7618.1751] [Topology ] . ( 786 sec) [ -7618.1748] [GTR parameters ] . ( 787 sec) [ -7618.1748] [Alpha ][ 0.402538] . ( 787 sec) [ -7618.1748] [Topology ] . ( 789 sec) [ -7618.1742] [Topology ] . ( 790 sec) [ -7618.1742] [GTR parameters ] . ( 790 sec) [ -7618.1742] [Alpha ][ 0.402538] . Checking for NNIs, optimizing five branches... . ( 807 sec) [ -7618.1724] [Topology ] . Checking for NNIs, optimizing five branches... . ( 824 sec) [ -7618.1711] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7618.171111. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 4 sec) [ -25729.5498] [GTR parameters ] . ( 4 sec) [ -25262.6886] [Alpha ][ 0.500960] . ( 4 sec) [ -25078.1522] [ 3087] [depth= 4] . ( 4 sec) [ -24494.0966] [ 3069] [depth= 5] . ( 4 sec) [ -24425.7756] [ 3068] [depth= 2] . ( 5 sec) [ -24298.9523] [ 3057] [depth= 5] . ( 5 sec) [ -24226.3678] [ 3029] [depth= 3] . ( 5 sec) [ -24184.6873] [ 3024] [depth= 10] . ( 5 sec) [ -24085.7779] [ 3004] [depth= 2] . ( 5 sec) [ -24075.5803] [ 3004] [depth= 8] . ( 5 sec) [ -24031.3103] [ 2993] [depth= 1] . ( 5 sec) [ -24017.3729] [ 2991] [depth= 7] . ( 5 sec) [ -23758.3786] [ 2988] [depth= 7] . ( 6 sec) [ -23745.6399] [ 2988] [depth= 1] . ( 6 sec) [ -23694.5575] [ 2988] [depth= 7] . ( 6 sec) [ -23688.7448] [ 2988] [depth= 1] . ( 6 sec) [ -23640.1728] [ 2976] [depth= 15] . ( 6 sec) [ -23523.7253] [ 2956] [depth= 9] . ( 6 sec) [ -23236.6039] [ 2933] [depth= 7] . ( 6 sec) [ -23112.3327] [ 2896] [depth= 12] . ( 6 sec) [ -23045.4372] [ 2894] [depth= 10] . ( 7 sec) [ -22971.7998] [ 2876] [depth= 2] . ( 7 sec) [ -22918.9624] [ 2870] [depth= 2] . ( 7 sec) [ -22892.4643] [ 2867] [depth= 13] . ( 7 sec) [ -22875.8970] [ 2881] [depth= 1] . ( 7 sec) [ -22674.2011] [ 2853] [depth= 9] . ( 7 sec) [ -22619.3959] [ 2843] [depth= 2] . ( 7 sec) [ -22410.3348] [ 2838] [depth= 9] . ( 8 sec) [ -22210.9479] [ 2796] [depth= 13] . ( 8 sec) [ -21481.8668] [ 2781] [depth= 20] . ( 8 sec) [ -21382.9105] [ 2757] [depth= 11] . ( 8 sec) [ -21373.8102] [ 2752] [depth= 4] . ( 8 sec) [ -21021.9023] [ 2749] [depth= 8] . ( 8 sec) [ -20884.5385] [ 2722] [depth= 15] . ( 8 sec) [ -20863.9079] [ 2722] [depth= 1] . ( 9 sec) [ -20834.6805] [ 2722] [depth= 5] . ( 9 sec) [ -20816.5511] [ 2722] [depth= 2] . ( 9 sec) [ -20687.5190] [ 2704] [depth= 4] . ( 9 sec) [ -20490.1588] [ 2697] [depth= 12] . ( 9 sec) [ -20433.9933] [ 2697] [depth= 2] . ( 9 sec) [ -20366.8744] [ 2671] [depth= 18] . ( 9 sec) [ -20347.3974] [ 2665] [depth= 17] . ( 10 sec) [ -20294.5505] [ 2656] [depth= 1] . ( 10 sec) [ -20203.8844] [ 2651] [depth= 9] . ( 10 sec) [ -20055.9314] [ 2637] [depth= 22] . ( 10 sec) [ -19727.4933] [ 2630] [depth= 8] . ( 10 sec) [ -19208.8921] [ 2634] [depth= 1] . ( 10 sec) [ -19204.8085] [ 2634] [depth= 1] . ( 10 sec) [ -19203.8692] [ 2634] [depth= 1] . ( 10 sec) [ -19156.6801] [ 2631] [depth= 19] . ( 11 sec) [ -18699.6334] [ 2613] [depth= 17] . ( 11 sec) [ -18670.2462] [ 2613] [depth= 1] . ( 11 sec) [ -18610.2800] [ 2612] [depth= 3] . ( 11 sec) [ -18454.8350] [ 2552] [depth= 7] . ( 11 sec) [ -18375.2051] [ 2527] [depth= 17] . ( 11 sec) [ -18256.2151] [ 2510] [depth= 11] . ( 11 sec) [ -18151.2653] [ 2501] [depth= 23] . ( 12 sec) [ -17851.4283] [ 2478] [depth= 15] . ( 12 sec) [ -17766.1975] [ 2478] [depth= 2] . ( 12 sec) [ -17710.9722] [ 2469] [depth= 12] . ( 12 sec) [ -17675.3435] [ 2465] [depth= 14] . ( 12 sec) [ -17632.4595] [ 2467] [depth= 1] . ( 12 sec) [ -17537.4527] [ 2453] [depth= 10] . ( 12 sec) [ -17435.4900] [ 2437] [depth= 11] . ( 13 sec) [ -17343.1130] [ 2412] [depth= 10] . ( 13 sec) [ -17303.7218] [ 2413] [depth= 15] . ( 13 sec) [ -17159.6353] [ 2395] [depth= 12] . ( 13 sec) [ -16971.8284] [ 2348] [depth= 11] . ( 13 sec) [ -16967.8145] [ 2348] [depth= 2] . ( 13 sec) [ -16945.8516] [ 2346] [depth= 6] . ( 14 sec) [ -16939.1388] [ 2346] [depth= 13] . ( 14 sec) [ -16733.4870] [ 2307] [depth= 8] . ( 14 sec) [ -16641.8186] [ 2304] [depth= 17] . ( 14 sec) [ -16621.9844] [ 2304] [depth= 9] . ( 14 sec) [ -16498.5645] [ 2290] [depth= 7] . ( 14 sec) [ -16475.8443] [ 2287] [depth= 12] . ( 14 sec) [ -16474.4872] [ 2287] [depth= 1] . ( 15 sec) [ -16474.2774] [ 2287] [depth= 4] . ( 15 sec) [ -16406.9292] [ 2286] [depth= 4] . ( 15 sec) [ -16395.7650] [ 2286] [depth= 2] . ( 15 sec) [ -16292.7126] [ 2251] [depth= 12] . ( 15 sec) [ -16272.8330] [ 2254] [depth= 1] . ( 15 sec) [ -16125.0483] [ 2232] [depth= 11] . ( 15 sec) [ -16112.2509] [ 2234] [depth= 10] . ( 15 sec) [ -16034.9052] [ 2232] [depth= 9] . ( 16 sec) [ -15940.7067] [ 2200] [depth= 11] . ( 16 sec) [ -15928.0468] [ 2200] [depth= 1] . ( 16 sec) [ -15927.8985] [ 2200] [depth= 6] . ( 16 sec) [ -15822.4121] [ 2187] [depth= 8] . ( 16 sec) [ -15739.3562] [ 2172] [depth= 4] . ( 16 sec) [ -15489.4533] [ 2171] [depth= 1] . ( 16 sec) [ -15487.4730] [ 2155] [depth= 2] . ( 17 sec) [ -15319.9327] [ 2155] [depth= 1] . ( 17 sec) [ -15210.8538] [ 2128] [depth= 6] . ( 17 sec) [ -15050.2341] [ 2126] [depth= 3] . ( 17 sec) [ -15048.1288] [ 2126] [depth= 1] . ( 17 sec) [ -14378.4831] [ 2126] [depth= 3] . ( 17 sec) [ -13602.8727] [ 2011] [depth= 10] . ( 17 sec) [ -13597.3529] [ 2010] [depth= 4] . ( 17 sec) [ -13449.3443] [ 2009] [depth= 2] . ( 18 sec) [ -13442.8162] [ 2010] [depth= 6] . ( 18 sec) [ -13355.1931] [ 2008] [depth= 6] . ( 18 sec) [ -13282.6441] [ 1962] [depth= 6] . ( 18 sec) [ -13273.4160] [ 1962] [depth= 2] . ( 18 sec) [ -13214.2499] [ 1954] [depth= 16] . ( 18 sec) [ -13210.9660] [ 1954] [depth= 1] . ( 18 sec) [ -13147.5459] [ 1952] [depth= 21] . ( 19 sec) [ -13141.8857] [ 1949] [depth= 13] . ( 19 sec) [ -13139.3725] [ 1948] [depth= 21] . ( 19 sec) [ -13129.2922] [ 1947] [depth= 12] . ( 19 sec) [ -12978.4288] [ 1932] [depth= 3] . ( 19 sec) [ -12974.1864] [ 1929] [depth= 2] . ( 19 sec) [ -12902.9349] [ 1907] [depth= 8] . ( 19 sec) [ -12902.2201] [ 1907] [depth= 2] . ( 20 sec) [ -12849.7256] [ 1900] [depth= 25] . ( 20 sec) [ -12778.7816] [ 1894] [depth= 6] . ( 20 sec) [ -12420.0409] [ 1894] [depth= 1] . ( 20 sec) [ -12390.8902] [ 1889] [depth= 12] . ( 20 sec) [ -12248.7887] [ 1881] [depth= 12] . ( 20 sec) [ -12133.3135] [ 1849] [depth= 4] . ( 21 sec) [ -11951.1493] [ 1814] [depth= 4] . ( 21 sec) [ -11923.3743] [ 1816] [depth= 1] . ( 21 sec) [ -11908.4934] [ 1816] [depth= 9] . ( 21 sec) [ -11839.4447] [ 1803] [depth= 6] . ( 21 sec) [ -11799.1103] [ 1801] [depth= 4] . ( 21 sec) [ -11798.2494] [ 1803] [depth= 1] . ( 21 sec) [ -11777.8339] [ 1803] [depth= 1] . ( 22 sec) [ -11691.6711] [ 1803] [depth= 10] . ( 22 sec) [ -11627.3898] [ 1764] [depth= 9] . ( 22 sec) [ -11609.5703] [ 1759] [depth= 17] . ( 22 sec) [ -11463.3642] [ 1725] [depth= 15] . ( 22 sec) [ -11425.3862] [ 1714] [depth= 1] . ( 22 sec) [ -11402.7182] [ 1709] [depth= 12] . ( 23 sec) [ -11287.2114] [ 1707] [depth= 11] . ( 23 sec) [ -11283.0457] [ 1707] [depth= 3] . ( 23 sec) [ -11228.1783] [ 1691] [depth= 8] . ( 23 sec) [ -11227.9099] [ 1691] [depth= 1] . ( 24 sec) [ -11227.8196] [ 1691] [depth= 2] . ( 24 sec) [ -11170.7199] [ 1665] [depth= 9] . ( 24 sec) [ -11170.6983] [ 1665] [depth= 3] . ( 24 sec) [ -11164.1510] [ 1664] [depth= 7] . ( 24 sec) [ -11160.6277] [ 1664] [depth= 2] . ( 24 sec) [ -11160.1042] [ 1664] [depth= 11] . ( 24 sec) [ -11095.1200] [ 1646] [depth= 11] . ( 25 sec) [ -10943.2165] [ 1618] [depth= 10] . ( 25 sec) [ -10927.0927] [ 1618] [depth= 1] . ( 25 sec) [ -10925.5729] [ 1618] [depth= 1] . ( 25 sec) [ -10924.7411] [ 1618] [depth= 1] . ( 25 sec) [ -10579.7660] [ 1620] [depth= 4] . ( 25 sec) [ -10523.6553] [ 1617] [depth= 3] . ( 25 sec) [ -10516.8832] [ 1616] [depth= 13] . ( 26 sec) [ -10515.6703] [ 1616] [depth= 1] . ( 26 sec) [ -10424.2359] [ 1595] [depth= 15] . ( 26 sec) [ -10423.7252] [ 1594] [depth= 4] . ( 26 sec) [ -10423.7148] [ 1594] [depth= 4] . ( 26 sec) [ -10408.6560] [ 1597] [depth= 1] . ( 26 sec) [ -10387.0667] [ 1597] [depth= 2] . ( 26 sec) [ -10258.2963] [ 1570] [depth= 2] . ( 26 sec) [ -10209.3646] [ 1561] [depth= 4] . ( 27 sec) [ -10126.9392] [ 1552] [depth= 3] . ( 27 sec) [ -10067.6544] [ 1551] [depth= 1] . ( 27 sec) [ -10065.6949] [ 1550] [depth= 1] . ( 27 sec) [ -10065.3093] [ 1550] [depth= 1] . ( 27 sec) [ -10064.1021] [ 1550] [depth= 1] . ( 27 sec) [ -10003.3673] [ 1520] [depth= 2] . ( 27 sec) [ -10001.2535] [ 1526] [depth= 3] . ( 28 sec) [ -9911.2951] [ 1510] [depth= 10] . ( 28 sec) [ -9909.4925] [ 1514] [depth= 1] . ( 28 sec) [ -9889.0353] [ 1511] [depth= 1] . ( 28 sec) [ -9802.1063] [ 1479] [depth= 7] . ( 28 sec) [ -9794.9671] [ 1471] [depth= 5] . ( 28 sec) [ -9742.2921] [ 1471] [depth= 2] . ( 29 sec) [ -9724.2057] [ 1468] [depth= 1] . ( 29 sec) [ -9680.7753] [ 1471] [depth= 6] . ( 29 sec) [ -9668.2239] [ 1471] [depth= 3] . ( 29 sec) [ -9664.5661] [ 1471] [depth= 1] . ( 29 sec) [ -9663.7647] [ 1471] [depth= 1] . ( 29 sec) [ -9631.4012] [ 1465] [depth= 10] . ( 29 sec) [ -9627.9825] [ 1467] [depth= 1] . ( 30 sec) [ -9623.3581] [ 1468] [depth= 2] . ( 30 sec) [ -9530.5823] [ 1455] [depth= 3] . ( 30 sec) [ -9508.8919] [ 1453] [depth= 6] . ( 30 sec) [ -9501.6247] [ 1452] [depth= 1] . ( 30 sec) [ -9480.8800] [ 1451] [depth= 1] . ( 30 sec) [ -9476.3719] [ 1451] [depth= 1] . ( 30 sec) [ -9474.7262] [ 1451] [depth= 3] . ( 31 sec) [ -9367.1302] [ 1411] [depth= 4] . ( 31 sec) [ -9364.6432] [ 1411] [depth= 2] . ( 31 sec) [ -9354.2776] [ 1411] [depth= 1] . ( 31 sec) [ -9339.9779] [ 1400] [depth= 1] . ( 31 sec) [ -9338.2885] [ 1400] [depth= 3] . ( 31 sec) [ -9327.3722] [ 1399] [depth= 5] . ( 31 sec) [ -9305.6777] [ 1391] [depth= 3] . ( 32 sec) [ -9239.2618] [ 1387] [depth= 7] . ( 32 sec) [ -9193.2011] [ 1376] [depth= 12] . ( 32 sec) [ -9161.5842] [ 1369] [depth= 13] . ( 32 sec) [ -9151.9443] [ 1370] [depth= 3] . ( 32 sec) [ -9151.5985] [ 1371] [depth= 5] . ( 32 sec) [ -9129.8234] [ 1372] [depth= 3] . ( 32 sec) [ -9124.8772] [ 1372] [depth= 3] . ( 33 sec) [ -9115.6466] [ 1370] [depth= 5] . ( 33 sec) [ -9115.5403] [ 1370] [depth= 6] . ( 33 sec) [ -9115.2860] [ 1370] [depth= 3] . ( 33 sec) [ -9111.1220] [ 1369] [depth= 8] . ( 34 sec) [ -9098.1880] [ 1367] [depth= 2] . ( 34 sec) [ -9091.1785] [ 1351] [depth= 9] . ( 34 sec) [ -9056.6652] [ 1356] [depth= 1] . ( 34 sec) [ -8979.1644] [ 1334] [depth= 13] . ( 34 sec) [ -8970.1536] [ 1332] [depth= 8] . ( 36 sec) [ -8962.2479] [ 1331] [depth= 1] . ( 36 sec) [ -8930.1032] [ 1327] [depth= 2] . ( 36 sec) [ -8920.4001] [ 1326] [depth= 1] . ( 36 sec) [ -8892.8400] [ 1313] [depth= 8] . ( 36 sec) [ -8847.2786] [ 1300] [depth= 2] . ( 36 sec) [ -8846.3831] [ 1300] [depth= 1] . ( 38 sec) [ -8769.8909] [ 1275] [depth= 1] . ( 38 sec) [ -8754.0058] [ 1275] [depth= 2] . ( 38 sec) [ -8753.9337] [ 1275] [depth= 2] . ( 38 sec) [ -8688.3177] [ 1245] [depth= 21] . ( 38 sec) [ -8678.9961] [ 1244] [depth= 2] . ( 39 sec) [ -8676.9672] [ 1244] [depth= 2] . ( 39 sec) [ -8666.8788] [ 1244] [depth= 1] . ( 39 sec) [ -8622.8504] [ 1237] [depth= 6] . ( 40 sec) [ -8572.1204] [ 1230] [depth= 5] . ( 40 sec) [ -8528.9726] [ 1222] [depth= 1] . ( 40 sec) [ -8528.2201] [ 1222] [depth= 1] . ( 40 sec) [ -8526.5431] [ 1224] [depth= 2] . ( 40 sec) [ -8522.5306] [ 1226] [depth= 1] . ( 41 sec) [ -8515.1125] [ 1226] [depth= 1] . ( 41 sec) [ -8507.4444] [ 1225] [depth= 6] . ( 41 sec) [ -8501.4646] [ 1225] [depth= 1] . ( 41 sec) [ -8499.8708] [ 1225] [depth= 1] . ( 41 sec) [ -8496.6026] [ 1223] [depth= 1] . ( 41 sec) [ -8473.2252] [ 1219] [depth= 6] . ( 42 sec) [ -8472.7261] [ 1219] [depth= 1] . ( 42 sec) [ -8471.5921] [ 1218] [depth= 4] . ( 42 sec) [ -8470.8563] [ 1219] [depth= 1] . ( 42 sec) [ -8470.6472] [ 1219] [depth= 1] . ( 43 sec) [ -8148.5427] [Branch lengths ] . ( 47 sec) [ -7986.8952] [GTR parameters ] . ( 47 sec) [ -7973.3185] [Alpha ][ 0.356268] . ( 48 sec) [ -7970.0946] [ 1218] [depth= 1] . ( 51 sec) [ -7970.0345] [ 1218] [depth= 1] . ( 51 sec) [ -7969.1071] [ 1217] [depth= 4] . ( 53 sec) [ -7969.0652] [ 1217] [depth= 2] . ( 53 sec) [ -7968.7394] [ 1217] [depth= 2] . ( 53 sec) [ -7968.7033] [ 1217] [depth= 5] . ( 55 sec) [ -7953.4995] [ 1210] [depth= 2] . ( 61 sec) [ -7911.0017] [ 1199] [depth= 10] . ( 63 sec) [ -7910.6570] [ 1199] [depth= 8] . ( 63 sec) [ -7910.6437] [ 1199] [depth= 4] . ( 64 sec) [ -7907.9825] [ 1197] [depth= 1] . ( 65 sec) [ -7907.8924] [ 1199] [depth= 1] . ( 66 sec) [ -7907.6425] [ 1200] [depth= 1] . ( 67 sec) [ -7906.7722] [ 1199] [depth= 1] . ( 67 sec) [ -7901.2439] [ 1195] [depth= 7] . ( 67 sec) [ -7888.7340] [ 1186] [depth= 3] . ( 70 sec) [ -7876.6093] [ 1176] [depth= 1] . ( 70 sec) [ -7857.5201] [ 1166] [depth= 2] . ( 70 sec) [ -7857.3929] [ 1167] [depth= 1] . ( 73 sec) [ -7856.0762] [ 1168] [depth= 1] . ( 73 sec) [ -7855.6636] [ 1169] [depth= 2] . ( 73 sec) [ -7855.1445] [ 1171] [depth= 1] . ( 75 sec) [ -7853.5604] [ 1170] [depth= 1] . ( 76 sec) [ -7853.3557] [ 1170] [depth= 1] . ( 79 sec) [ -7853.2910] [ 1171] [depth= 1] . ( 80 sec) [ -7851.7373] [ 1171] [depth= 1] . ( 80 sec) [ -7851.3279] [ 1169] [depth= 1] . ( 80 sec) [ -7850.5545] [ 1169] [depth= 1] . ( 82 sec) [ -7849.7273] [ 1169] [depth= 1] . ( 82 sec) [ -7822.1618] [ 1162] [depth= 3] . ( 82 sec) [ -7806.7552] [ 1164] [depth= 1] . ( 84 sec) [ -7779.6539] [ 1152] [depth= 9] . ( 84 sec) [ -7765.9625] [ 1136] [depth= 5] . ( 84 sec) [ -7765.9516] [ 1136] [depth= 4] . ( 85 sec) [ -7764.7930] [ 1136] [depth= 2] . ( 90 sec) [ -7761.3660] [ 1136] [depth= 1] . ( 90 sec) [ -7758.2030] [ 1135] [depth= 1] . ( 91 sec) [ -7757.3562] [ 1135] [depth= 1] . ( 92 sec) [ -7757.3396] [ 1135] [depth= 3] . ( 96 sec) [ -7755.1025] [ 1134] [depth= 1] . ( 97 sec) [ -7753.6172] [ 1133] [depth= 11] . ( 97 sec) [ -7751.7361] [ 1132] [depth= 1] . ( 97 sec) [ -7750.4262] [ 1132] [depth= 2] . ( 97 sec) [ -7750.1419] [ 1132] [depth= 1] . ( 98 sec) [ -7748.8317] [ 1132] [depth= 1] . ( 98 sec) [ -7748.8139] [ 1132] [depth= 2] . ( 99 sec) [ -7745.0814] [ 1134] [depth= 1] . ( 99 sec) [ -7744.7731] [ 1134] [depth= 1] . ( 99 sec) [ -7741.0214] [ 1132] [depth= 5] . ( 99 sec) [ -7738.0331] [ 1133] [depth= 2] . ( 101 sec) [ -7737.5536] [ 1133] [depth= 1] . ( 101 sec) [ -7736.5420] [ 1136] [depth= 1] . ( 103 sec) [ -7716.2177] [ 1116] [depth= 10] . ( 105 sec) [ -7715.8278] [ 1116] [depth= 2] . ( 105 sec) [ -7715.6347] [ 1116] [depth= 1] . ( 105 sec) [ -7715.5861] [ 1116] [depth= 5] . ( 106 sec) [ -7715.5702] [ 1116] [depth= 1] . ( 106 sec) [ -7703.6264] [ 1118] [depth= 2] . ( 108 sec) [ -7702.9623] [ 1118] [depth= 4] . ( 108 sec) [ -7702.5100] [ 1115] [depth= 1] . ( 111 sec) [ -7701.8768] [ 1118] [depth= 1] . ( 111 sec) [ -7701.7869] [ 1118] [depth= 1] . ( 111 sec) [ -7698.8642] [ 1109] [depth= 2] . ( 111 sec) [ -7693.6666] [ 1112] [depth= 1] . ( 112 sec) [ -7693.3056] [ 1112] [depth= 1] . ( 112 sec) [ -7693.0994] [ 1112] [depth= 1] . ( 115 sec) [ -7686.4113] [ 1110] [depth= 1] . ( 116 sec) [ -7686.2274] [ 1110] [depth= 3] . ( 116 sec) [ -7685.0693] [ 1108] [depth= 1] . ( 117 sec) [ -7684.9136] [ 1108] [depth= 1] . ( 117 sec) [ -7683.7605] [ 1107] [depth= 9] . ( 118 sec) [ -7683.0751] [ 1107] [depth= 2] . ( 119 sec) [ -7682.8029] [ 1107] [depth= 1] . ( 119 sec) [ -7682.7811] [ 1107] [depth= 4] . ( 119 sec) [ -7679.7407] [ 1105] [depth= 1] . ( 119 sec) [ -7679.7263] [ 1105] [depth= 1] . ( 120 sec) [ -7679.6285] [ 1103] [depth= 1] . ( 121 sec) [ -7678.6622] [ 1103] [depth= 2] . ( 124 sec) [ -7677.8700] [ 1102] [depth= 1] . ( 124 sec) [ -7677.8327] [ 1102] [depth= 1] . ( 126 sec) [ -7677.6107] [ 1102] [depth= 1] . ( 126 sec) [ -7676.1438] [ 1102] [depth= 2] . ( 126 sec) [ -7673.0721] [ 1102] [depth= 14] . ( 126 sec) [ -7672.4585] [ 1103] [depth= 9] . ( 126 sec) [ -7672.1856] [ 1103] [depth= 6] . ( 127 sec) [ -7671.0464] [ 1103] [depth= 1] . ( 127 sec) [ -7669.9002] [ 1106] [depth= 3] . ( 128 sec) [ -7669.1329] [ 1108] [depth= 1] . ( 128 sec) [ -7669.1135] [ 1108] [depth= 1] . ( 129 sec) [ -7669.0872] [ 1108] [depth= 3] . ( 129 sec) [ -7668.1693] [ 1109] [depth= 1] . ( 129 sec) [ -7662.8297] [ 1108] [depth= 2] . ( 129 sec) [ -7662.2604] [ 1108] [depth= 3] . ( 130 sec) [ -7662.1693] [ 1108] [depth= 3] . ( 131 sec) [ -7659.3601] [ 1105] [depth= 1] . ( 133 sec) [ -7659.3458] [ 1105] [depth= 1] . ( 135 sec) [ -7659.2604] [ 1105] [depth= 2] . ( 137 sec) [ -7659.0458] [ 1105] [depth= 1] . ( 138 sec) [ -7638.2409] [Branch lengths ] . ( 141 sec) [ -7637.2649] [GTR parameters ] . ( 141 sec) [ -7636.8880] [Alpha ][ 0.378379] . ( 147 sec) [ -7636.8723] [ 1105] [depth= 3] . ( 176 sec) [ -7636.7780] [ 1105] [depth= 5] . ( 179 sec) [ -7636.7640] [ 1105] [depth= 10] . ( 181 sec) [ -7636.2597] [ 1106] [depth= 1] . ( 183 sec) [ -7636.1196] [ 1107] [depth= 1] . ( 184 sec) [ -7635.8295] [ 1106] [depth= 3] . ( 191 sec) [ -7635.7523] [ 1106] [depth= 1] . ( 192 sec) [ -7631.6478] [ 1105] [depth= 5] . ( 196 sec) [ -7631.5045] [ 1097] [depth= 1] . ( 210 sec) [ -7631.4024] [ 1097] [depth= 3] . ( 221 sec) [ -7631.2856] [ 1097] [depth= 1] . ( 224 sec) [ -7629.2383] [ 1095] [depth= 3] . ( 226 sec) [ -7629.2281] [ 1095] [depth= 3] . ( 230 sec) [ -7628.4909] [ 1095] [depth= 1] . ( 234 sec) [ -7627.5332] [ 1094] [depth= 1] . ( 234 sec) [ -7627.3557] [ 1094] [depth= 3] . ( 235 sec) [ -7627.3408] [ 1094] [depth= 1] . ( 237 sec) [ -7627.1127] [ 1097] [depth= 6] . ( 242 sec) [ -7626.7678] [ 1097] [depth= 1] . ( 255 sec) [ -7622.0103] [Branch lengths ] . ( 256 sec) [ -7621.9705] [GTR parameters ] . ( 256 sec) [ -7621.8193] [Alpha ][ 0.393437] . ( 288 sec) [ -7621.7158] [ 1096] [depth= 4] . ( 298 sec) [ -7621.5825] [ 1095] [depth= 3] . ( 305 sec) [ -7621.5362] [ 1095] [depth= 2] . ( 313 sec) [ -7621.4660] [ 1095] [depth= 1] . ( 322 sec) [ -7621.3888] [ 1095] [depth= 4] . ( 329 sec) [ -7621.2832] [ 1095] [depth= 2] . ( 329 sec) [ -7621.0489] [ 1095] [depth= 1] . ( 354 sec) [ -7620.9980] [ 1096] [depth= 1] . ( 374 sec) [ -7618.6425] [Branch lengths ] . ( 375 sec) [ -7618.5948] [GTR parameters ] . ( 375 sec) [ -7618.5791] [Alpha ][ 0.398566] . ( 402 sec) [ -7618.4619] [ 1096] [depth= 2] . ( 497 sec) [ -7618.3136] [Branch lengths ] . ( 497 sec) [ -7618.3129] [GTR parameters ] . ( 498 sec) [ -7618.3102] [Alpha ][ 0.400689] . ( 628 sec) [ -7618.2973] [Branch lengths ] . ( 628 sec) [ -7618.2973] [Topology ] . ( 630 sec) [ -7618.2965] [Topology ] . ( 631 sec) [ -7618.2964] [GTR parameters ] . ( 631 sec) [ -7618.2959] [Alpha ][ 0.401593] . ( 631 sec) [ -7618.2959] [Topology ] . ( 634 sec) [ -7618.2954] [Topology ] . ( 634 sec) [ -7618.2954] [GTR parameters ] . ( 634 sec) [ -7618.2954] [Alpha ][ 0.401994] . Checking for NNIs, optimizing five branches... . ( 651 sec) [ -7618.1290] [Topology ] . Checking for NNIs, optimizing five branches... . ( 668 sec) [ -7618.1289] [Topology ] . Checking for NNIs, optimizing five branches... . ( 684 sec) [ -7618.1287] [Topology ] . Checking for NNIs, optimizing five branches... . ( 701 sec) [ -7618.1286] [Topology ] . Checking for NNIs, optimizing five branches... . ( 718 sec) [ -7618.1280] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7618.128049. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 2 sec) [ -22177.5165] [GTR parameters ] . ( 2 sec) [ -21758.4242] [Alpha ][ 0.500960] . ( 2 sec) [ -21620.3395] [ 2983] [depth= 16] . ( 2 sec) [ -21036.2892] [ 2963] [depth= 14] . ( 3 sec) [ -20424.6765] [ 2952] [depth= 13] . ( 3 sec) [ -20389.3931] [ 2937] [depth= 1] . ( 3 sec) [ -20254.1250] [ 2920] [depth= 14] . ( 3 sec) [ -20245.0721] [ 2922] [depth= 1] . ( 3 sec) [ -20190.1834] [ 2900] [depth= 8] . ( 3 sec) [ -20129.7972] [ 2898] [depth= 2] . ( 3 sec) [ -20076.6134] [ 2895] [depth= 11] . ( 4 sec) [ -19894.9415] [ 2862] [depth= 2] . ( 4 sec) [ -19871.5357] [ 2855] [depth= 1] . ( 4 sec) [ -19753.0130] [ 2828] [depth= 19] . ( 4 sec) [ -19588.9301] [ 2826] [depth= 4] . ( 4 sec) [ -19399.5534] [ 2825] [depth= 2] . ( 4 sec) [ -19318.6612] [ 2799] [depth= 5] . ( 4 sec) [ -19305.0048] [ 2798] [depth= 9] . ( 4 sec) [ -19242.1046] [ 2796] [depth= 2] . ( 5 sec) [ -19077.1429] [ 2796] [depth= 6] . ( 5 sec) [ -18869.7451] [ 2779] [depth= 4] . ( 5 sec) [ -18786.9601] [ 2779] [depth= 1] . ( 5 sec) [ -18706.0189] [ 2763] [depth= 8] . ( 5 sec) [ -18677.5942] [ 2763] [depth= 1] . ( 5 sec) [ -18623.8972] [ 2753] [depth= 5] . ( 6 sec) [ -18386.2218] [ 2740] [depth= 9] . ( 6 sec) [ -18342.0039] [ 2745] [depth= 1] . ( 6 sec) [ -18151.4754] [ 2691] [depth= 2] . ( 6 sec) [ -17843.1940] [ 2675] [depth= 2] . ( 6 sec) [ -17835.4386] [ 2658] [depth= 21] . ( 6 sec) [ -17199.2818] [ 2658] [depth= 1] . ( 6 sec) [ -16996.5080] [ 2650] [depth= 13] . ( 7 sec) [ -16731.0416] [ 2605] [depth= 11] . ( 7 sec) [ -16713.1124] [ 2604] [depth= 14] . ( 7 sec) [ -16690.8005] [ 2602] [depth= 10] . ( 7 sec) [ -16681.7780] [ 2605] [depth= 1] . ( 7 sec) [ -16559.0691] [ 2598] [depth= 14] . ( 7 sec) [ -16533.3724] [ 2595] [depth= 1] . ( 8 sec) [ -16241.5220] [ 2583] [depth= 9] . ( 8 sec) [ -16087.5283] [ 2473] [depth= 14] . ( 8 sec) [ -16014.7667] [ 2436] [depth= 6] . ( 8 sec) [ -16007.8196] [ 2436] [depth= 3] . ( 8 sec) [ -15759.5240] [ 2376] [depth= 10] . ( 8 sec) [ -15742.4027] [ 2375] [depth= 10] . ( 9 sec) [ -15702.7307] [ 2361] [depth= 1] . ( 9 sec) [ -15677.6061] [ 2355] [depth= 8] . ( 9 sec) [ -15619.9939] [ 2345] [depth= 5] . ( 9 sec) [ -15605.2369] [ 2345] [depth= 2] . ( 9 sec) [ -15560.6419] [ 2339] [depth= 5] . ( 9 sec) [ -15424.3819] [ 2308] [depth= 1] . ( 10 sec) [ -15344.1345] [ 2297] [depth= 9] . ( 10 sec) [ -15143.5228] [ 2269] [depth= 9] . ( 10 sec) [ -15129.1694] [ 2269] [depth= 1] . ( 10 sec) [ -15077.4093] [ 2245] [depth= 3] . ( 10 sec) [ -14968.3867] [ 2202] [depth= 17] . ( 10 sec) [ -14966.1309] [ 2205] [depth= 1] . ( 11 sec) [ -14768.8276] [ 2188] [depth= 4] . ( 11 sec) [ -14762.2884] [ 2187] [depth= 1] . ( 11 sec) [ -14751.4275] [ 2185] [depth= 12] . ( 11 sec) [ -14431.3346] [ 2180] [depth= 12] . ( 11 sec) [ -14415.5662] [ 2180] [depth= 9] . ( 11 sec) [ -14409.0179] [ 2179] [depth= 4] . ( 11 sec) [ -14408.4496] [ 2179] [depth= 1] . ( 12 sec) [ -14393.4393] [ 2176] [depth= 9] . ( 12 sec) [ -14391.7436] [ 2176] [depth= 1] . ( 12 sec) [ -14359.8962] [ 2165] [depth= 11] . ( 12 sec) [ -14332.9872] [ 2163] [depth= 2] . ( 12 sec) [ -14268.4930] [ 2145] [depth= 9] . ( 12 sec) [ -14164.5067] [ 2148] [depth= 1] . ( 13 sec) [ -14099.4243] [ 2117] [depth= 9] . ( 13 sec) [ -14073.8657] [ 2117] [depth= 1] . ( 13 sec) [ -14068.4888] [ 2116] [depth= 3] . ( 13 sec) [ -14046.7082] [ 2113] [depth= 8] . ( 13 sec) [ -14003.1207] [ 2112] [depth= 4] . ( 13 sec) [ -13962.5730] [ 2105] [depth= 18] . ( 14 sec) [ -13961.6099] [ 2108] [depth= 2] . ( 14 sec) [ -13895.5269] [ 2102] [depth= 8] . ( 14 sec) [ -13865.5791] [ 2104] [depth= 1] . ( 14 sec) [ -13772.7789] [ 2059] [depth= 11] . ( 14 sec) [ -13719.0429] [ 2057] [depth= 5] . ( 15 sec) [ -13715.9429] [ 2058] [depth= 1] . ( 15 sec) [ -13713.7599] [ 2057] [depth= 5] . ( 15 sec) [ -13713.1313] [ 2058] [depth= 1] . ( 15 sec) [ -13688.3359] [ 2054] [depth= 8] . ( 15 sec) [ -13686.0389] [ 2054] [depth= 11] . ( 15 sec) [ -13628.6720] [ 2050] [depth= 4] . ( 15 sec) [ -13626.9990] [ 2049] [depth= 3] . ( 16 sec) [ -13623.7962] [ 2047] [depth= 1] . ( 16 sec) [ -13620.7995] [ 2007] [depth= 7] . ( 16 sec) [ -13615.5326] [ 2007] [depth= 1] . ( 16 sec) [ -13608.2493] [ 2007] [depth= 1] . ( 16 sec) [ -13596.2274] [ 2003] [depth= 8] . ( 17 sec) [ -13434.5909] [ 1992] [depth= 8] . ( 17 sec) [ -13384.7179] [ 1957] [depth= 4] . ( 17 sec) [ -13145.4015] [ 1914] [depth= 18] . ( 17 sec) [ -13114.7978] [ 1915] [depth= 2] . ( 17 sec) [ -12959.8874] [ 1906] [depth= 13] . ( 17 sec) [ -12953.4800] [ 1905] [depth= 3] . ( 18 sec) [ -12942.0637] [ 1903] [depth= 3] . ( 18 sec) [ -12939.2397] [ 1903] [depth= 10] . ( 18 sec) [ -12937.6119] [ 1901] [depth= 3] . ( 18 sec) [ -12930.7767] [ 1900] [depth= 8] . ( 18 sec) [ -12930.6744] [ 1900] [depth= 1] . ( 18 sec) [ -12883.3581] [ 1889] [depth= 10] . ( 19 sec) [ -12838.1491] [ 1879] [depth= 5] . ( 19 sec) [ -12821.2133] [ 1879] [depth= 1] . ( 19 sec) [ -12818.7061] [ 1879] [depth= 1] . ( 19 sec) [ -12812.8552] [ 1879] [depth= 2] . ( 19 sec) [ -12787.0206] [ 1878] [depth= 12] . ( 19 sec) [ -12758.2719] [ 1877] [depth= 11] . ( 20 sec) [ -12666.6943] [ 1850] [depth= 9] . ( 20 sec) [ -12556.5192] [ 1851] [depth= 1] . ( 20 sec) [ -12372.1430] [ 1836] [depth= 10] . ( 20 sec) [ -12366.3285] [ 1836] [depth= 1] . ( 21 sec) [ -12344.1733] [ 1834] [depth= 1] . ( 21 sec) [ -12328.7728] [ 1832] [depth= 3] . ( 21 sec) [ -12326.3357] [ 1832] [depth= 4] . ( 21 sec) [ -12321.1532] [ 1832] [depth= 2] . ( 21 sec) [ -12309.4423] [ 1830] [depth= 6] . ( 21 sec) [ -12279.1790] [ 1798] [depth= 9] . ( 21 sec) [ -12276.2319] [ 1798] [depth= 3] . ( 22 sec) [ -12273.9072] [ 1798] [depth= 1] . ( 22 sec) [ -12273.6011] [ 1798] [depth= 1] . ( 22 sec) [ -12272.7408] [ 1798] [depth= 1] . ( 22 sec) [ -12272.1203] [ 1798] [depth= 1] . ( 22 sec) [ -12212.3794] [ 1782] [depth= 15] . ( 23 sec) [ -12092.7888] [ 1780] [depth= 4] . ( 23 sec) [ -12087.1207] [ 1779] [depth= 4] . ( 23 sec) [ -12079.0357] [ 1775] [depth= 3] . ( 23 sec) [ -12073.7774] [ 1775] [depth= 6] . ( 23 sec) [ -12071.3778] [ 1775] [depth= 4] . ( 23 sec) [ -12068.9360] [ 1776] [depth= 1] . ( 24 sec) [ -12068.8804] [ 1776] [depth= 2] . ( 24 sec) [ -12046.4122] [ 1765] [depth= 1] . ( 25 sec) [ -11979.5539] [ 1762] [depth= 4] . ( 25 sec) [ -11904.6884] [ 1753] [depth= 1] . ( 25 sec) [ -11844.5838] [ 1752] [depth= 2] . ( 25 sec) [ -11842.5473] [ 1752] [depth= 2] . ( 25 sec) [ -11722.6501] [ 1713] [depth= 16] . ( 25 sec) [ -11615.8037] [ 1693] [depth= 3] . ( 26 sec) [ -11310.1773] [ 1657] [depth= 13] . ( 26 sec) [ -11306.9489] [ 1657] [depth= 1] . ( 26 sec) [ -11306.6554] [ 1657] [depth= 6] . ( 27 sec) [ -11286.8515] [ 1656] [depth= 13] . ( 27 sec) [ -11280.6139] [ 1656] [depth= 13] . ( 27 sec) [ -11239.7897] [ 1653] [depth= 14] . ( 27 sec) [ -11233.6897] [ 1653] [depth= 6] . ( 27 sec) [ -11084.4807] [ 1607] [depth= 19] . ( 27 sec) [ -11078.4955] [ 1608] [depth= 1] . ( 28 sec) [ -11061.7500] [ 1605] [depth= 1] . ( 28 sec) [ -11056.8413] [ 1604] [depth= 1] . ( 28 sec) [ -10862.3574] [ 1586] [depth= 12] . ( 28 sec) [ -10859.9298] [ 1586] [depth= 13] . ( 28 sec) [ -10859.4653] [ 1586] [depth= 1] . ( 28 sec) [ -10654.3029] [ 1561] [depth= 11] . ( 28 sec) [ -10462.0666] [ 1537] [depth= 5] . ( 29 sec) [ -10434.0405] [ 1525] [depth= 2] . ( 29 sec) [ -10428.2673] [ 1525] [depth= 4] . ( 29 sec) [ -10423.2800] [ 1546] [depth= 1] . ( 29 sec) [ -10343.4504] [ 1542] [depth= 9] . ( 30 sec) [ -10338.2890] [ 1542] [depth= 5] . ( 30 sec) [ -10335.8608] [ 1542] [depth= 2] . ( 30 sec) [ -10294.4803] [ 1518] [depth= 20] . ( 30 sec) [ -10005.0174] [ 1516] [depth= 2] . ( 31 sec) [ -9964.8290] [ 1506] [depth= 25] . ( 31 sec) [ -9940.3042] [ 1503] [depth= 10] . ( 31 sec) [ -9933.6449] [ 1504] [depth= 1] . ( 31 sec) [ -9869.9860] [ 1499] [depth= 22] . ( 31 sec) [ -9857.6727] [ 1499] [depth= 1] . ( 32 sec) [ -9839.8269] [ 1499] [depth= 1] . ( 32 sec) [ -9772.9443] [ 1487] [depth= 13] . ( 32 sec) [ -9534.2568] [ 1449] [depth= 10] . ( 32 sec) [ -9465.7733] [ 1440] [depth= 6] . ( 32 sec) [ -9460.9692] [ 1440] [depth= 2] . ( 33 sec) [ -9445.5033] [ 1440] [depth= 1] . ( 33 sec) [ -9442.0751] [ 1440] [depth= 5] . ( 33 sec) [ -9441.6342] [ 1440] [depth= 2] . ( 33 sec) [ -9420.2959] [ 1436] [depth= 12] . ( 33 sec) [ -9413.3266] [ 1436] [depth= 2] . ( 33 sec) [ -9410.8091] [ 1437] [depth= 1] . ( 33 sec) [ -9407.2264] [ 1436] [depth= 1] . ( 34 sec) [ -9368.3661] [ 1431] [depth= 13] . ( 34 sec) [ -9366.1112] [ 1431] [depth= 9] . ( 34 sec) [ -9364.6246] [ 1431] [depth= 1] . ( 34 sec) [ -9338.5117] [ 1430] [depth= 7] . ( 34 sec) [ -9307.7982] [ 1421] [depth= 9] . ( 34 sec) [ -9305.7266] [ 1422] [depth= 1] . ( 34 sec) [ -9305.1895] [ 1422] [depth= 1] . ( 35 sec) [ -9302.0641] [ 1427] [depth= 1] . ( 35 sec) [ -9231.5822] [ 1413] [depth= 17] . ( 35 sec) [ -9230.8608] [ 1413] [depth= 6] . ( 35 sec) [ -9223.2683] [ 1412] [depth= 6] . ( 35 sec) [ -9221.8505] [ 1412] [depth= 8] . ( 35 sec) [ -9208.5850] [ 1410] [depth= 9] . ( 35 sec) [ -9180.1946] [ 1399] [depth= 12] . ( 36 sec) [ -9107.6374] [ 1388] [depth= 18] . ( 36 sec) [ -9107.3485] [ 1388] [depth= 2] . ( 36 sec) [ -9102.9379] [ 1388] [depth= 1] . ( 36 sec) [ -9039.2680] [ 1365] [depth= 18] . ( 36 sec) [ -9036.7592] [ 1363] [depth= 12] . ( 37 sec) [ -9016.5091] [ 1361] [depth= 1] . ( 37 sec) [ -8979.2241] [ 1345] [depth= 18] . ( 37 sec) [ -8963.4985] [ 1344] [depth= 1] . ( 37 sec) [ -8962.4366] [ 1344] [depth= 3] . ( 37 sec) [ -8937.1449] [ 1336] [depth= 20] . ( 37 sec) [ -8860.9263] [ 1319] [depth= 13] . ( 38 sec) [ -8859.3132] [ 1321] [depth= 1] . ( 38 sec) [ -8824.3087] [ 1301] [depth= 6] . ( 38 sec) [ -8818.2356] [ 1301] [depth= 1] . ( 38 sec) [ -8801.4617] [ 1303] [depth= 5] . ( 38 sec) [ -8793.9227] [ 1303] [depth= 2] . ( 39 sec) [ -8793.6061] [ 1303] [depth= 2] . ( 39 sec) [ -8791.5984] [ 1303] [depth= 1] . ( 39 sec) [ -8786.1303] [ 1303] [depth= 9] . ( 39 sec) [ -8783.7205] [ 1303] [depth= 1] . ( 39 sec) [ -8783.5525] [ 1303] [depth= 6] . ( 39 sec) [ -8782.0350] [ 1295] [depth= 7] . ( 39 sec) [ -8768.6110] [ 1293] [depth= 4] . ( 40 sec) [ -8644.6031] [ 1283] [depth= 5] . ( 40 sec) [ -8642.0723] [ 1283] [depth= 2] . ( 40 sec) [ -8622.1488] [ 1275] [depth= 1] . ( 40 sec) [ -8594.0147] [ 1267] [depth= 3] . ( 40 sec) [ -8593.5135] [ 1267] [depth= 1] . ( 41 sec) [ -8588.1640] [ 1266] [depth= 1] . ( 41 sec) [ -8557.9392] [ 1255] [depth= 6] . ( 41 sec) [ -8557.5327] [ 1257] [depth= 2] . ( 41 sec) [ -8556.7838] [ 1257] [depth= 1] . ( 41 sec) [ -8552.6390] [ 1256] [depth= 4] . ( 42 sec) [ -8551.3921] [ 1256] [depth= 1] . ( 42 sec) [ -8545.8289] [ 1255] [depth= 1] . ( 42 sec) [ -8538.1367] [ 1254] [depth= 1] . ( 42 sec) [ -8535.2017] [ 1254] [depth= 1] . ( 42 sec) [ -8534.8118] [ 1254] [depth= 8] . ( 42 sec) [ -8521.0734] [ 1254] [depth= 4] . ( 43 sec) [ -8518.7825] [ 1254] [depth= 9] . ( 43 sec) [ -8518.1343] [ 1254] [depth= 1] . ( 43 sec) [ -8517.1694] [ 1256] [depth= 5] . ( 44 sec) [ -8516.3775] [ 1255] [depth= 2] . ( 44 sec) [ -8508.1231] [ 1254] [depth= 1] . ( 44 sec) [ -8499.3458] [ 1254] [depth= 2] . ( 44 sec) [ -8459.7888] [ 1247] [depth= 18] . ( 44 sec) [ -8431.2527] [ 1235] [depth= 6] . ( 44 sec) [ -8394.5823] [ 1224] [depth= 8] . ( 44 sec) [ -8387.7200] [ 1223] [depth= 5] . ( 45 sec) [ -8358.1144] [ 1220] [depth= 7] . ( 45 sec) [ -8344.0059] [ 1214] [depth= 5] . ( 46 sec) [ -7996.0368] [Branch lengths ] . ( 55 sec) [ -7943.1107] [GTR parameters ] . ( 56 sec) [ -7931.9866] [Alpha ][ 0.363793] . ( 57 sec) [ -7931.7562] [ 1213] [depth= 3] . ( 57 sec) [ -7930.0352] [ 1213] [depth= 2] . ( 57 sec) [ -7929.8427] [ 1213] [depth= 1] . ( 60 sec) [ -7899.3708] [ 1191] [depth= 1] . ( 60 sec) [ -7898.8058] [ 1190] [depth= 3] . ( 64 sec) [ -7897.6347] [ 1193] [depth= 1] . ( 65 sec) [ -7896.3376] [ 1192] [depth= 4] . ( 67 sec) [ -7882.8035] [ 1187] [depth= 3] . ( 67 sec) [ -7866.0404] [ 1181] [depth= 6] . ( 68 sec) [ -7865.9846] [ 1181] [depth= 1] . ( 68 sec) [ -7855.7951] [ 1179] [depth= 3] . ( 69 sec) [ -7855.7820] [ 1179] [depth= 2] . ( 69 sec) [ -7826.8692] [ 1167] [depth= 4] . ( 69 sec) [ -7823.2298] [ 1165] [depth= 1] . ( 70 sec) [ -7823.0517] [ 1165] [depth= 1] . ( 70 sec) [ -7822.5452] [ 1164] [depth= 2] . ( 70 sec) [ -7797.6297] [ 1150] [depth= 2] . ( 70 sec) [ -7797.4369] [ 1152] [depth= 2] . ( 70 sec) [ -7786.7895] [ 1148] [depth= 5] . ( 71 sec) [ -7784.1124] [ 1148] [depth= 1] . ( 71 sec) [ -7784.0061] [ 1148] [depth= 1] . ( 73 sec) [ -7783.9919] [ 1148] [depth= 1] . ( 75 sec) [ -7783.7141] [ 1148] [depth= 2] . ( 75 sec) [ -7783.3127] [ 1148] [depth= 3] . ( 76 sec) [ -7777.2263] [ 1147] [depth= 1] . ( 76 sec) [ -7772.0028] [ 1146] [depth= 1] . ( 76 sec) [ -7771.3264] [ 1146] [depth= 1] . ( 78 sec) [ -7770.1273] [ 1146] [depth= 4] . ( 78 sec) [ -7769.9496] [ 1149] [depth= 1] . ( 78 sec) [ -7741.9523] [ 1126] [depth= 6] . ( 78 sec) [ -7737.8406] [ 1125] [depth= 3] . ( 79 sec) [ -7737.7446] [ 1125] [depth= 1] . ( 80 sec) [ -7736.5108] [ 1126] [depth= 2] . ( 80 sec) [ -7736.3992] [ 1126] [depth= 5] . ( 83 sec) [ -7736.1342] [ 1126] [depth= 1] . ( 84 sec) [ -7728.4233] [ 1124] [depth= 1] . ( 84 sec) [ -7726.1763] [ 1120] [depth= 1] . ( 86 sec) [ -7723.2609] [ 1119] [depth= 9] . ( 87 sec) [ -7721.4924] [ 1118] [depth= 1] . ( 88 sec) [ -7721.2562] [ 1118] [depth= 3] . ( 91 sec) [ -7720.8608] [ 1118] [depth= 1] . ( 93 sec) [ -7720.4766] [ 1118] [depth= 3] . ( 93 sec) [ -7719.5058] [ 1118] [depth= 4] . ( 93 sec) [ -7719.4757] [ 1118] [depth= 1] . ( 94 sec) [ -7719.4053] [ 1118] [depth= 5] . ( 94 sec) [ -7713.6182] [ 1119] [depth= 1] . ( 96 sec) [ -7712.9548] [ 1119] [depth= 2] . ( 97 sec) [ -7712.9270] [ 1119] [depth= 2] . ( 99 sec) [ -7705.8783] [ 1117] [depth= 2] . ( 100 sec) [ -7705.8637] [ 1117] [depth= 1] . ( 101 sec) [ -7705.8517] [ 1117] [depth= 1] . ( 101 sec) [ -7704.9763] [ 1117] [depth= 1] . ( 102 sec) [ -7704.3270] [ 1117] [depth= 2] . ( 102 sec) [ -7704.1683] [ 1114] [depth= 3] . ( 102 sec) [ -7695.9286] [ 1107] [depth= 1] . ( 103 sec) [ -7695.5791] [ 1109] [depth= 1] . ( 103 sec) [ -7695.5621] [ 1109] [depth= 6] . ( 104 sec) [ -7695.4313] [ 1109] [depth= 2] . ( 104 sec) [ -7695.0841] [ 1109] [depth= 4] . ( 104 sec) [ -7695.0236] [ 1109] [depth= 6] . ( 105 sec) [ -7694.9058] [ 1109] [depth= 1] . ( 105 sec) [ -7694.8163] [ 1109] [depth= 8] . ( 105 sec) [ -7694.6577] [ 1109] [depth= 1] . ( 105 sec) [ -7694.5001] [ 1109] [depth= 1] . ( 105 sec) [ -7686.9884] [ 1106] [depth= 1] . ( 105 sec) [ -7686.9737] [ 1106] [depth= 1] . ( 106 sec) [ -7685.8079] [ 1104] [depth= 2] . ( 106 sec) [ -7685.5140] [ 1104] [depth= 3] . ( 106 sec) [ -7685.4130] [ 1104] [depth= 1] . ( 107 sec) [ -7681.7811] [ 1098] [depth= 3] . ( 107 sec) [ -7681.5195] [ 1098] [depth= 2] . ( 107 sec) [ -7681.5065] [ 1098] [depth= 3] . ( 107 sec) [ -7681.4155] [ 1098] [depth= 2] . ( 109 sec) [ -7680.7911] [ 1098] [depth= 1] . ( 109 sec) [ -7680.7751] [ 1098] [depth= 3] . ( 110 sec) [ -7680.4246] [ 1098] [depth= 1] . ( 110 sec) [ -7680.3897] [ 1098] [depth= 2] . ( 112 sec) [ -7680.3300] [ 1098] [depth= 3] . ( 112 sec) [ -7680.2841] [ 1098] [depth= 6] . ( 112 sec) [ -7679.7467] [ 1098] [depth= 1] . ( 113 sec) [ -7679.5457] [ 1098] [depth= 1] . ( 115 sec) [ -7679.4780] [ 1098] [depth= 4] . ( 115 sec) [ -7679.4487] [ 1098] [depth= 2] . ( 115 sec) [ -7679.4170] [ 1098] [depth= 9] . ( 115 sec) [ -7679.1818] [ 1098] [depth= 3] . ( 115 sec) [ -7679.1515] [ 1098] [depth= 6] . ( 115 sec) [ -7677.6101] [ 1098] [depth= 1] . ( 116 sec) [ -7677.0461] [ 1096] [depth= 1] . ( 116 sec) [ -7677.0246] [ 1096] [depth= 4] . ( 117 sec) [ -7676.7783] [ 1097] [depth= 3] . ( 118 sec) [ -7676.7667] [ 1097] [depth= 1] . ( 119 sec) [ -7676.5482] [ 1097] [depth= 1] . ( 119 sec) [ -7675.7282] [ 1097] [depth= 1] . ( 121 sec) [ -7675.4630] [ 1097] [depth= 1] . ( 128 sec) [ -7675.4443] [ 1097] [depth= 1] . ( 131 sec) [ -7675.3243] [ 1097] [depth= 1] . ( 131 sec) [ -7675.3080] [ 1097] [depth= 6] . ( 133 sec) [ -7675.2715] [ 1097] [depth= 4] . ( 135 sec) [ -7675.2447] [ 1097] [depth= 2] . ( 135 sec) [ -7675.1719] [ 1097] [depth= 1] . ( 137 sec) [ -7673.9191] [ 1099] [depth= 1] . ( 138 sec) [ -7641.8252] [Branch lengths ] . ( 142 sec) [ -7640.3664] [GTR parameters ] . ( 142 sec) [ -7640.1898] [Alpha ][ 0.379117] . ( 143 sec) [ -7633.9041] [ 1094] [depth= 5] . ( 145 sec) [ -7633.6974] [ 1094] [depth= 2] . ( 146 sec) [ -7633.6610] [ 1094] [depth= 2] . ( 146 sec) [ -7631.0694] [ 1094] [depth= 6] . ( 167 sec) [ -7631.0576] [ 1094] [depth= 2] . ( 171 sec) [ -7626.3189] [ 1093] [depth= 1] . ( 177 sec) [ -7626.3012] [ 1093] [depth= 1] . ( 179 sec) [ -7626.0998] [ 1093] [depth= 4] . ( 182 sec) [ -7626.0777] [ 1093] [depth= 3] . ( 186 sec) [ -7626.0508] [ 1093] [depth= 2] . ( 189 sec) [ -7626.0364] [ 1093] [depth= 1] . ( 189 sec) [ -7626.0100] [ 1093] [depth= 2] . ( 206 sec) [ -7625.8002] [ 1097] [depth= 5] . ( 206 sec) [ -7625.7789] [ 1097] [depth= 2] . ( 208 sec) [ -7625.7497] [ 1097] [depth= 2] . ( 231 sec) [ -7625.6760] [ 1098] [depth= 1] . ( 233 sec) [ -7625.6054] [ 1098] [depth= 1] . ( 237 sec) [ -7625.2030] [ 1098] [depth= 18] . ( 245 sec) [ -7625.1394] [ 1098] [depth= 1] . ( 248 sec) [ -7621.6496] [Branch lengths ] . ( 252 sec) [ -7621.5870] [GTR parameters ] . ( 253 sec) [ -7621.4960] [Alpha ][ 0.390666] . ( 281 sec) [ -7621.3862] [ 1099] [depth= 1] . ( 291 sec) [ -7621.3755] [ 1099] [depth= 1] . ( 325 sec) [ -7621.2626] [ 1099] [depth= 2] . ( 375 sec) [ -7620.7012] [Branch lengths ] . ( 376 sec) [ -7620.7011] [GTR parameters ] . ( 376 sec) [ -7620.6967] [Alpha ][ 0.393334] . ( 515 sec) [ -7620.0071] [Branch lengths ] . ( 515 sec) [ -7620.0071] [Topology ] . ( 518 sec) [ -7619.8231] [Topology ] . ( 520 sec) [ -7619.7221] [Topology ] . ( 523 sec) [ -7619.6589] [Topology ] . ( 525 sec) [ -7619.6164] [Topology ] . ( 528 sec) [ -7619.5880] [Topology ] . ( 530 sec) [ -7619.5690] [Topology ] . ( 531 sec) [ -7619.5690] [GTR parameters ] . ( 532 sec) [ -7619.5579] [Alpha ][ 0.397653] . ( 532 sec) [ -7619.5579] [Topology ] . ( 534 sec) [ -7619.5417] [Topology ] . ( 537 sec) [ -7619.5326] [Topology ] . ( 539 sec) [ -7619.5267] [Topology ] . ( 541 sec) [ -7619.5227] [Topology ] . ( 544 sec) [ -7619.5201] [Topology ] . ( 546 sec) [ -7619.5184] [Topology ] . ( 549 sec) [ -7619.5092] [GTR parameters ] . ( 550 sec) [ -7619.5076] [Alpha ][ 0.399265] . ( 550 sec) [ -7619.5076] [Topology ] . ( 552 sec) [ -7619.5060] [Topology ] . ( 555 sec) [ -7619.5052] [Topology ] . ( 555 sec) [ -7619.5052] [GTR parameters ] . ( 556 sec) [ -7619.5051] [Alpha ][ 0.399665] . ( 556 sec) [ -7619.5051] [Topology ] . ( 558 sec) [ -7619.5045] [Topology ] . ( 562 sec) [ -7619.5033] [GTR parameters ] . ( 563 sec) [ -7619.5033] [Alpha ][ 0.399665] . ( 563 sec) [ -7619.5033] [Topology ] . ( 565 sec) [ -7619.5029] [Topology ] . ( 566 sec) [ -7619.5028] [GTR parameters ] . ( 566 sec) [ -7619.5027] [Alpha ][ 0.400064] . Checking for NNIs, optimizing five branches... . ( 583 sec) [ -7619.5007] [Topology ] . Checking for NNIs, optimizing five branches... . ( 599 sec) [ -7619.4992] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7619.499217. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . ( 5 sec) [ -7976.1365] [GTR parameters ] . ( 5 sec) [ -7938.7269] [Alpha ][ 0.500960] . ( 5 sec) [ -7938.7269] [Topology ] . ( 8 sec) [ -7771.5480] [Topology ] . ( 11 sec) [ -7728.7608] [Topology ] . ( 13 sec) [ -7700.1450] [Topology ] . ( 16 sec) [ -7680.7802] [Topology ] . ( 18 sec) [ -7678.2991] [Topology ] . ( 21 sec) [ -7676.5846] [Topology ] . ( 23 sec) [ -7674.6303] [Topology ] . ( 26 sec) [ -7667.7629] [Topology ] . ( 28 sec) [ -7667.4228] [Topology ] . ( 34 sec) [ -7664.6970] [GTR parameters ] . ( 35 sec) [ -7661.5225] [Alpha ][ 0.415125] . ( 35 sec) [ -7661.5225] [Topology ] . ( 37 sec) [ -7661.1540] [Topology ] . ( 40 sec) [ -7660.4607] [Topology ] . ( 43 sec) [ -7661.0734] [Topology ] . Moving backward . ( 43 sec) [ -7660.1118] [Topology ] . ( 45 sec) [ -7660.4785] [Topology ] . Moving backward . ( 45 sec) [ -7659.9803] [Topology ] . ( 48 sec) [ -7659.9438] [Topology ] . ( 50 sec) [ -7660.2313] [Topology ] . Moving backward . ( 50 sec) [ -7659.9080] [Topology ] . Checking for NNIs, optimizing five branches... . ( 70 sec) [ -7659.7717] [Topology ] . ( 72 sec) [ -7659.7392] [GTR parameters ] . ( 73 sec) [ -7659.5438] [Alpha ][ 0.396820] . ( 73 sec) [ -7659.5438] [Topology ] . ( 75 sec) [ -7659.7614] [Topology ] . Moving backward . ( 75 sec) [ -7659.4154] [Topology ] . ( 78 sec) [ -7659.3894] [Topology ] . ( 80 sec) [ -7659.7340] [Topology ] . Moving backward . ( 80 sec) [ -7659.3474] [Topology ] . ( 82 sec) [ -7659.3732] [Topology ] . Moving backward . ( 82 sec) [ -7659.3316] [Topology ] . ( 85 sec) [ -7659.3403] [Topology ] . Moving backward . ( 85 sec) [ -7659.3246] [Topology ] . Checking for NNIs, optimizing five branches... . ( 104 sec) [ -7659.2657] [Topology ] . ( 105 sec) [ -7659.2579] [GTR parameters ] . ( 105 sec) [ -7659.2400] [Alpha ][ 0.391325] . ( 106 sec) [ -7659.2400] [Topology ] . ( 108 sec) [ -7659.2530] [Topology ] . Moving backward . ( 108 sec) [ -7659.2325] [Topology ] . ( 110 sec) [ -7659.2332] [Topology ] . Checking for NNIs, optimizing five branches... . ( 128 sec) [ -7657.6420] [Topology ] . ( 129 sec) [ -7657.6412] [GTR parameters ] . ( 129 sec) [ -7657.6385] [Alpha ][ 0.393389] . ( 129 sec) [ -7657.6385] [Topology ] . ( 131 sec) [ -7657.6576] [Topology ] . Moving backward . ( 132 sec) [ -7657.6330] [Topology ] . ( 134 sec) [ -7657.6358] [Topology ] . Moving backward . ( 134 sec) [ -7657.6308] [Topology ] . ( 136 sec) [ -7657.6310] [Topology ] . Checking for NNIs, optimizing five branches... . ( 153 sec) [ -7657.6300] [Topology ] . ( 155 sec) [ -7657.6295] [GTR parameters ] . ( 155 sec) [ -7657.6294] [Alpha ][ 0.393782] . ( 155 sec) [ -7657.6294] [Topology ] . ( 157 sec) [ -7657.6331] [Topology ] . Moving backward . ( 158 sec) [ -7657.6281] [Topology ] . ( 160 sec) [ -7657.6289] [Topology ] . Checking for NNIs, optimizing five branches... . ( 176 sec) [ -7655.6257] [Topology ] . ( 178 sec) [ -7655.6247] [GTR parameters ] . ( 178 sec) [ -7655.6246] [Alpha ][ 0.394176] . ( 178 sec) [ -7655.6246] [Topology ] . ( 181 sec) [ -7655.6246] [Topology ] . Checking for NNIs, optimizing five branches... . ( 198 sec) [ -7655.6241] [Topology ] . ( 198 sec) [ -7655.6240] [GTR parameters ] . ( 198 sec) [ -7655.6240] [Alpha ][ 0.394176] . ( 198 sec) [ -7655.6240] [Topology ] . ( 201 sec) [ -7655.6365] [Topology ] . Moving backward . ( 201 sec) [ -7655.6196] [Topology ] . ( 203 sec) [ -7655.6137] [Topology ] . ( 205 sec) [ -7655.6234] [Topology ] . Moving backward . ( 206 sec) [ -7655.6064] [Topology ] . ( 208 sec) [ -7655.6022] [Topology ] . ( 210 sec) [ -7655.6164] [Topology ] . Moving backward . ( 211 sec) [ -7655.5950] [Topology ] . ( 213 sec) [ -7655.5924] [Topology ] . Checking for NNIs, optimizing five branches... . ( 230 sec) [ -7655.5921] [Topology ] . ( 230 sec) [ -7655.5921] [GTR parameters ] . ( 230 sec) [ -7655.5921] [Alpha ][ 0.394176] . ( 230 sec) [ -7655.5921] [Topology ] . ( 233 sec) [ -7655.6091] [Topology ] . Moving backward . ( 233 sec) [ -7655.5843] [Topology ] . ( 235 sec) [ -7655.5781] [Topology ] . ( 237 sec) [ -7655.6019] [Topology ] . Moving backward . ( 238 sec) [ -7655.5687] [Topology ] . ( 240 sec) [ -7655.5646] [Topology ] . ( 242 sec) [ -7655.0309] [Topology ] . ( 244 sec) [ -7653.2849] [Topology ] . ( 247 sec) [ -7652.7476] [Topology ] . Checking for NNIs, optimizing five branches... . ( 266 sec) [ -7652.7052] [Topology ] . ( 269 sec) [ -7652.6955] [GTR parameters ] . ( 269 sec) [ -7652.6930] [Alpha ][ 0.396188] . ( 269 sec) [ -7652.6930] [Topology ] . ( 272 sec) [ -7652.1134] [Topology ] . ( 274 sec) [ -7652.3556] [Topology ] . Moving backward . ( 274 sec) [ -7652.0414] [Topology ] . ( 277 sec) [ -7652.3909] [Topology ] . Moving backward . ( 277 sec) [ -7651.9902] [Topology ] . ( 279 sec) [ -7652.0309] [Topology ] . Moving backward . ( 279 sec) [ -7651.9729] [Topology ] . ( 282 sec) [ -7652.0462] [Topology ] . Moving backward . ( 282 sec) [ -7651.9610] [Topology ] . Checking for NNIs, optimizing five branches... . ( 301 sec) [ -7651.9756] [Topology ] . ( 301 sec) [ -7651.9756] [GTR parameters ] . ( 301 sec) [ -7651.9756] [Alpha ][ 0.396584] . ( 302 sec) [ -7651.9756] [Topology ] . ( 304 sec) [ -7652.3305] [Topology ] . Moving backward . ( 304 sec) [ -7651.9232] [Topology ] . ( 306 sec) [ -7651.9725] [Topology ] . Moving backward . ( 307 sec) [ -7651.9121] [Topology ] . ( 309 sec) [ -7651.9917] [Topology ] . Moving backward . ( 309 sec) [ -7651.9069] [Topology ] . ( 311 sec) [ -7651.9446] [Topology ] . Moving backward . ( 312 sec) [ -7651.9018] [Topology ] . ( 314 sec) [ -7651.9575] [Topology ] . Moving backward . Checking for NNIs, optimizing five branches... . ( 331 sec) [ -7651.8985] [Topology ] . ( 331 sec) [ -7651.8984] [GTR parameters ] . ( 332 sec) [ -7651.8984] [Alpha ][ 0.396584] . ( 332 sec) [ -7651.8984] [Topology ] . ( 334 sec) [ -7651.9250] [Topology ] . Moving backward . ( 334 sec) [ -7651.8946] [Topology ] . ( 337 sec) [ -7651.9260] [Topology ] . Moving backward . ( 337 sec) [ -7651.8920] [Topology ] . ( 339 sec) [ -7651.9111] [Topology ] . Moving backward . ( 339 sec) [ -7651.8902] [Topology ] . ( 342 sec) [ -7651.9102] [Topology ] . Moving backward . ( 342 sec) [ -7651.8880] [Topology ] . ( 345 sec) [ -7651.8988] [Topology ] . Moving backward . Checking for NNIs, optimizing five branches... . ( 361 sec) [ -7651.8863] [Topology ] . ( 362 sec) [ -7651.8863] [GTR parameters ] . ( 362 sec) [ -7651.8863] [Alpha ][ 0.396584] . ( 362 sec) [ -7651.8863] [Topology ] . ( 365 sec) [ -7651.8959] [Topology ] . Moving backward . ( 365 sec) [ -7651.8848] [Topology ] . ( 367 sec) [ -7651.8900] [Topology ] . Moving backward . ( 367 sec) [ -7651.8836] [Topology ] . ( 370 sec) [ -7651.8880] [Topology ] . Moving backward . ( 370 sec) [ -7651.8825] [Topology ] . ( 372 sec) [ -7651.8849] [Topology ] . Moving backward . ( 372 sec) [ -7651.8816] [Topology ] . Checking for NNIs, optimizing five branches... . ( 389 sec) [ -7650.2293] [Topology ] . ( 390 sec) [ -7650.2177] [GTR parameters ] . ( 390 sec) [ -7650.2175] [Alpha ][ 0.397081] . ( 390 sec) [ -7650.2175] [Topology ] . ( 393 sec) [ -7649.5030] [Topology ] . ( 395 sec) [ -7649.4525] [Topology ] . ( 397 sec) [ -7649.3903] [Topology ] . ( 400 sec) [ -7649.5926] [Topology ] . Moving backward . ( 400 sec) [ -7649.3115] [Topology ] . ( 402 sec) [ -7649.2912] [Topology ] . ( 405 sec) [ -7649.4242] [Topology ] . Checking for NNIs, optimizing five branches... . ( 421 sec) [ -7649.0423] [Topology ] . ( 424 sec) [ -7649.0379] [GTR parameters ] . ( 424 sec) [ -7649.0379] [Alpha ][ 0.397081] . ( 424 sec) [ -7649.0379] [Topology ] . ( 427 sec) [ -7648.9056] [Topology ] . ( 429 sec) [ -7648.8291] [Topology ] . ( 431 sec) [ -7648.7451] [Topology ] . ( 434 sec) [ -7648.6669] [Topology ] . ( 436 sec) [ -7648.6457] [Topology ] . ( 438 sec) [ -7648.6412] [Topology ] . Checking for NNIs, optimizing five branches... . ( 455 sec) [ -7648.6407] [Topology ] . ( 456 sec) [ -7648.6407] [GTR parameters ] . ( 456 sec) [ -7648.6407] [Alpha ][ 0.397081] . ( 456 sec) [ -7648.6407] [Topology ] . ( 458 sec) [ -7648.6396] [Topology ] . ( 461 sec) [ -7648.6389] [Topology ] . Checking for NNIs, optimizing five branches... . ( 477 sec) [ -7648.6296] [Topology ] . ( 478 sec) [ -7648.6295] [GTR parameters ] . ( 479 sec) [ -7648.6295] [Alpha ][ 0.397081] . ( 479 sec) [ -7648.6295] [Topology ] . ( 481 sec) [ -7648.6290] [Topology ] . Checking for NNIs, optimizing five branches... . ( 497 sec) [ -7648.6239] [Topology ] . ( 498 sec) [ -7648.6239] [GTR parameters ] . ( 498 sec) [ -7648.6239] [Alpha ][ 0.397081] . ( 498 sec) [ -7648.6239] [Topology ] . ( 500 sec) [ -7648.6235] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 538 sec) [ -7976.1365] [GTR parameters ] . ( 539 sec) [ -7938.7269] [Alpha ][ 0.500960] . ( 539 sec) [ -7919.7111] [ 1130] [depth= 1] . ( 539 sec) [ -7892.1045] [ 1125] [depth= 1] . ( 539 sec) [ -7886.8255] [ 1122] [depth= 3] . ( 540 sec) [ -7877.2862] [ 1120] [depth= 2] . ( 540 sec) [ -7877.1208] [ 1120] [depth= 1] . ( 541 sec) [ -7877.0627] [ 1125] [depth= 1] . ( 541 sec) [ -7876.7699] [ 1125] [depth= 1] . ( 541 sec) [ -7876.5142] [ 1125] [depth= 1] . ( 542 sec) [ -7876.4680] [ 1125] [depth= 1] . ( 542 sec) [ -7876.4563] [ 1125] [depth= 2] . ( 544 sec) [ -7868.1623] [ 1124] [depth= 1] . ( 544 sec) [ -7864.8399] [ 1124] [depth= 1] . ( 545 sec) [ -7862.7022] [ 1124] [depth= 1] . ( 546 sec) [ -7843.2854] [ 1125] [depth= 2] . ( 546 sec) [ -7842.2243] [ 1124] [depth= 2] . ( 546 sec) [ -7841.6203] [ 1124] [depth= 1] . ( 546 sec) [ -7839.4831] [ 1126] [depth= 1] . ( 547 sec) [ -7839.1417] [ 1126] [depth= 2] . ( 547 sec) [ -7831.6930] [ 1124] [depth= 1] . ( 548 sec) [ -7831.6502] [ 1124] [depth= 1] . ( 549 sec) [ -7831.3547] [ 1124] [depth= 1] . ( 551 sec) [ -7801.4069] [ 1118] [depth= 9] . ( 551 sec) [ -7799.2532] [ 1118] [depth= 1] . ( 552 sec) [ -7798.0461] [ 1116] [depth= 1] . ( 553 sec) [ -7797.4228] [ 1116] [depth= 2] . ( 553 sec) [ -7796.2635] [ 1111] [depth= 1] . ( 553 sec) [ -7796.1892] [ 1111] [depth= 1] . ( 553 sec) [ -7795.6908] [ 1111] [depth= 2] . ( 554 sec) [ -7792.7022] [ 1110] [depth= 1] . ( 554 sec) [ -7790.1238] [ 1106] [depth= 2] . ( 555 sec) [ -7787.0310] [ 1108] [depth= 1] . ( 555 sec) [ -7785.8661] [ 1113] [depth= 2] . ( 555 sec) [ -7782.1952] [ 1111] [depth= 1] . ( 555 sec) [ -7782.0443] [ 1111] [depth= 1] . ( 555 sec) [ -7781.9054] [ 1111] [depth= 1] . ( 555 sec) [ -7779.6357] [ 1110] [depth= 4] . ( 556 sec) [ -7770.4001] [ 1108] [depth= 4] . ( 556 sec) [ -7770.0085] [ 1108] [depth= 3] . ( 556 sec) [ -7769.9503] [ 1108] [depth= 2] . ( 556 sec) [ -7769.8554] [ 1108] [depth= 1] . ( 556 sec) [ -7769.2906] [ 1108] [depth= 3] . ( 559 sec) [ -7764.6244] [ 1107] [depth= 2] . ( 560 sec) [ -7764.4946] [ 1107] [depth= 1] . ( 560 sec) [ -7764.3170] [ 1107] [depth= 1] . ( 561 sec) [ -7763.2778] [ 1107] [depth= 1] . ( 561 sec) [ -7762.1474] [ 1107] [depth= 2] . ( 561 sec) [ -7759.0507] [ 1106] [depth= 2] . ( 561 sec) [ -7745.5066] [ 1104] [depth= 6] . ( 561 sec) [ -7744.8654] [ 1104] [depth= 1] . ( 561 sec) [ -7744.0654] [ 1104] [depth= 1] . ( 562 sec) [ -7743.3889] [ 1104] [depth= 4] . ( 562 sec) [ -7743.2834] [ 1104] [depth= 2] . ( 562 sec) [ -7743.1033] [ 1104] [depth= 5] . ( 562 sec) [ -7742.9132] [ 1104] [depth= 2] . ( 562 sec) [ -7742.4479] [ 1104] [depth= 1] . ( 562 sec) [ -7741.9899] [ 1104] [depth= 2] . ( 563 sec) [ -7740.4884] [ 1104] [depth= 1] . ( 563 sec) [ -7740.0423] [ 1104] [depth= 1] . ( 563 sec) [ -7738.9481] [ 1104] [depth= 5] . ( 563 sec) [ -7738.9046] [ 1104] [depth= 2] . ( 565 sec) [ -7738.4793] [ 1104] [depth= 2] . ( 565 sec) [ -7738.4070] [ 1104] [depth= 2] . ( 565 sec) [ -7735.8995] [ 1103] [depth= 2] . ( 566 sec) [ -7734.5471] [ 1103] [depth= 1] . ( 567 sec) [ -7730.0867] [ 1103] [depth= 1] . ( 567 sec) [ -7725.6454] [ 1102] [depth= 1] . ( 568 sec) [ -7724.4190] [ 1101] [depth= 1] . ( 569 sec) [ -7723.8519] [ 1102] [depth= 1] . ( 569 sec) [ -7722.0237] [ 1103] [depth= 1] . ( 569 sec) [ -7721.5486] [ 1101] [depth= 2] . ( 572 sec) [ -7709.8143] [ 1097] [depth= 5] . ( 575 sec) [ -7708.0280] [ 1097] [depth= 1] . ( 575 sec) [ -7703.9997] [ 1096] [depth= 3] . ( 578 sec) [ -7703.7456] [ 1096] [depth= 3] . ( 578 sec) [ -7702.7360] [ 1096] [depth= 1] . ( 580 sec) [ -7702.5681] [ 1096] [depth= 1] . ( 581 sec) [ -7696.1772] [ 1095] [depth= 5] . ( 581 sec) [ -7695.9060] [ 1095] [depth= 1] . ( 581 sec) [ -7695.8919] [ 1095] [depth= 1] . ( 581 sec) [ -7695.5341] [ 1095] [depth= 1] . ( 581 sec) [ -7695.2087] [ 1095] [depth= 1] . ( 581 sec) [ -7695.0278] [ 1095] [depth= 2] . ( 581 sec) [ -7695.0169] [ 1095] [depth= 1] . ( 583 sec) [ -7694.9789] [ 1095] [depth= 2] . ( 583 sec) [ -7693.2273] [ 1095] [depth= 2] . ( 583 sec) [ -7693.2111] [ 1095] [depth= 1] . ( 583 sec) [ -7691.3352] [ 1095] [depth= 1] . ( 585 sec) [ -7691.2447] [ 1095] [depth= 1] . ( 585 sec) [ -7690.9288] [ 1095] [depth= 2] . ( 586 sec) [ -7690.7531] [ 1096] [depth= 1] . ( 587 sec) [ -7687.7345] [ 1095] [depth= 2] . ( 589 sec) [ -7687.1711] [ 1095] [depth= 1] . ( 589 sec) [ -7686.9963] [ 1095] [depth= 2] . ( 589 sec) [ -7686.2968] [ 1095] [depth= 1] . ( 590 sec) [ -7686.1829] [ 1095] [depth= 1] . ( 590 sec) [ -7686.1314] [ 1095] [depth= 1] . ( 591 sec) [ -7685.9541] [ 1095] [depth= 2] . ( 591 sec) [ -7685.9147] [ 1095] [depth= 1] . ( 592 sec) [ -7685.8379] [ 1095] [depth= 1] . ( 595 sec) [ -7685.8214] [ 1095] [depth= 2] . ( 598 sec) [ -7685.8069] [ 1095] [depth= 1] . ( 610 sec) [ -7649.0667] [Branch lengths ] . ( 614 sec) [ -7647.0248] [GTR parameters ] . ( 614 sec) [ -7644.2475] [Alpha ][ 0.419560] . ( 615 sec) [ -7643.8323] [ 1095] [depth= 2] . ( 615 sec) [ -7641.6625] [ 1091] [depth= 3] . ( 623 sec) [ -7641.5885] [ 1091] [depth= 2] . ( 634 sec) [ -7641.3998] [ 1091] [depth= 1] . ( 647 sec) [ -7641.3198] [ 1090] [depth= 4] . ( 660 sec) [ -7638.4145] [ 1090] [depth= 1] . ( 666 sec) [ -7638.3536] [ 1090] [depth= 1] . ( 667 sec) [ -7635.5466] [ 1090] [depth= 3] . ( 668 sec) [ -7635.4326] [ 1090] [depth= 1] . ( 670 sec) [ -7635.2003] [ 1090] [depth= 1] . ( 673 sec) [ -7635.1537] [ 1090] [depth= 2] . ( 690 sec) [ -7635.1233] [ 1090] [depth= 1] . ( 690 sec) [ -7635.0810] [ 1090] [depth= 1] . ( 707 sec) [ -7634.0090] [ 1091] [depth= 8] . ( 722 sec) [ -7626.2741] [Branch lengths ] . ( 724 sec) [ -7626.0033] [GTR parameters ] . ( 724 sec) [ -7625.8639] [Alpha ][ 0.403674] . ( 725 sec) [ -7625.5301] [ 1090] [depth= 2] . ( 793 sec) [ -7621.7836] [ 1089] [depth= 10] . ( 794 sec) [ -7621.6503] [ 1089] [depth= 2] . ( 795 sec) [ -7621.6189] [ 1089] [depth= 2] . ( 796 sec) [ -7621.3850] [ 1089] [depth= 2] . ( 796 sec) [ -7621.3606] [ 1089] [depth= 1] . ( 812 sec) [ -7620.8571] [ 1089] [depth= 2] . ( 814 sec) [ -7620.7856] [ 1089] [depth= 1] . ( 814 sec) [ -7620.6165] [ 1089] [depth= 2] . ( 815 sec) [ -7620.5806] [ 1089] [depth= 3] . ( 817 sec) [ -7620.5668] [ 1089] [depth= 1] . ( 834 sec) [ -7619.8380] [Branch lengths ] . ( 836 sec) [ -7619.8292] [GTR parameters ] . ( 836 sec) [ -7619.8117] [Alpha ][ 0.398061] . ( 837 sec) [ -7619.0202] [ 1092] [depth= 6] . ( 899 sec) [ -7618.9786] [ 1092] [depth= 4] . ( 902 sec) [ -7618.9589] [ 1092] [depth= 2] . ( 905 sec) [ -7618.9330] [ 1092] [depth= 4] . ( 946 sec) [ -7618.7644] [Branch lengths ] . ( 947 sec) [ -7618.7566] [GTR parameters ] . ( 948 sec) [ -7618.7484] [Alpha ][ 0.401814] . ( 948 sec) [ -7618.6018] [ 1093] [depth= 4] . ( 1067 sec) [ -7618.5534] [Branch lengths ] . ( 1067 sec) [ -7618.5532] [GTR parameters ] . ( 1068 sec) [ -7618.5519] [Alpha ][ 0.403310] . ( 1200 sec) [ -7618.5395] [Branch lengths ] . ( 1200 sec) [ -7618.5395] [Topology ] . ( 1202 sec) [ -7618.5374] [Topology ] . ( 1204 sec) [ -7618.5363] [Topology ] . ( 1207 sec) [ -7618.5356] [Topology ] . ( 1208 sec) [ -7618.5356] [GTR parameters ] . ( 1208 sec) [ -7618.5356] [Alpha ][ 0.403713] . ( 1208 sec) [ -7618.5356] [Topology ] . ( 1210 sec) [ -7618.5351] [Topology ] . ( 1212 sec) [ -7618.5350] [GTR parameters ] . ( 1212 sec) [ -7618.5350] [Alpha ][ 0.403713] . Checking for NNIs, optimizing five branches... . ( 1229 sec) [ -7618.5338] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1246 sec) [ -7618.5337] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1262 sec) [ -7618.5285] [Topology ] . Checking for NNIs, optimizing five branches... . ( 1279 sec) [ -7618.5257] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -7648.623540 . Log likelihood obtained after SPR moves : -7618.525716 . Log likelihood of the current tree: -7618.525716. . Printing the most likely tree in file 'nucleic_M2933_99x1634_2006.phy_phyml_tree.txt'... . Best log likelihood : -7618.128049 . Time used 0h21m37s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 5128.97user 0.00system 1:26:25elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps