.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : data67.phy . Data type : dna . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : GTR . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Nucleotide equilibrium frequencies : empirical . Optimise tree topology : yes . Tree topology search : Best of NNIs and SPRs . Starting tree : BioNJ . Add random input tree : yes . Number of random starting trees : 5 . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 385 patterns found. (out of a total of 500 sites) . 104 sites without polymorphism (20.80%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 8Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -18923.0949] [GTR parameters ] . ( 0 sec) [ -18463.5101] [Alpha ][ 0.500960] . ( 0 sec) [ -17999.4638] [ 3899] [depth= 8] . ( 1 sec) [ -17737.5363] [ 3902] [depth= 6] . ( 1 sec) [ -17634.9492] [ 3877] [depth= 1] . ( 1 sec) [ -17492.1978] [ 3875] [depth= 7] . ( 1 sec) [ -17180.5779] [ 3800] [depth= 5] . ( 1 sec) [ -17063.2521] [ 3787] [depth= 5] . ( 1 sec) [ -16997.0917] [ 3768] [depth= 4] . ( 1 sec) [ -16915.1984] [ 3744] [depth= 3] . ( 1 sec) [ -16743.4162] [ 3691] [depth= 9] . ( 1 sec) [ -16390.5959] [ 3555] [depth= 11] . ( 1 sec) [ -16214.1959] [ 3555] [depth= 12] . ( 1 sec) [ -16208.9274] [ 3545] [depth= 5] . ( 1 sec) [ -15878.0572] [ 3550] [depth= 3] . ( 1 sec) [ -15842.0695] [ 3540] [depth= 4] . ( 1 sec) [ -15556.2368] [ 3451] [depth= 7] . ( 1 sec) [ -15392.0098] [ 3452] [depth= 10] . ( 1 sec) [ -15105.7790] [ 3375] [depth= 3] . ( 1 sec) [ -15074.4039] [ 3353] [depth= 1] . ( 1 sec) [ -15057.3649] [ 3327] [depth= 9] . ( 1 sec) [ -15023.0824] [ 3267] [depth= 9] . ( 1 sec) [ -14923.8932] [ 3236] [depth= 6] . ( 1 sec) [ -14767.2864] [ 3204] [depth= 17] . ( 1 sec) [ -14547.2357] [ 3226] [depth= 10] . ( 1 sec) [ -14330.0412] [ 3103] [depth= 5] . ( 1 sec) [ -14102.3418] [ 3092] [depth= 5] . ( 2 sec) [ -13981.1581] [ 3026] [depth= 16] . ( 2 sec) [ -13615.3042] [ 3008] [depth= 9] . ( 2 sec) [ -13503.8769] [ 2979] [depth= 2] . ( 2 sec) [ -13493.4044] [ 2982] [depth= 1] . ( 2 sec) [ -13474.8187] [ 2977] [depth= 2] . ( 2 sec) [ -13444.8962] [ 2977] [depth= 1] . ( 2 sec) [ -13000.1801] [ 2850] [depth= 6] . ( 2 sec) [ -12968.1032] [ 2847] [depth= 2] . ( 2 sec) [ -12900.1339] [ 2825] [depth= 1] . ( 2 sec) [ -12875.2929] [ 2816] [depth= 1] . ( 2 sec) [ -12834.0578] [ 2877] [depth= 15] . ( 2 sec) [ -12609.6661] [ 2783] [depth= 6] . ( 2 sec) [ -12490.9508] [ 2789] [depth= 4] . ( 2 sec) [ -12375.7285] [ 2749] [depth= 3] . ( 2 sec) [ -11819.5025] [ 2755] [depth= 5] . ( 2 sec) [ -11777.9246] [ 2696] [depth= 4] . ( 2 sec) [ -11549.8601] [ 2628] [depth= 7] . ( 2 sec) [ -11442.1967] [ 2639] [depth= 1] . ( 2 sec) [ -11154.1623] [ 2521] [depth= 5] . ( 2 sec) [ -11130.3801] [ 2519] [depth= 1] . ( 2 sec) [ -10969.4334] [ 2486] [depth= 11] . ( 2 sec) [ -10948.4787] [ 2487] [depth= 1] . ( 2 sec) [ -10657.8662] [ 2431] [depth= 10] . ( 2 sec) [ -10597.7208] [ 2415] [depth= 1] . ( 2 sec) [ -10533.0450] [ 2390] [depth= 4] . ( 3 sec) [ -10451.3288] [ 2402] [depth= 4] . ( 3 sec) [ -10434.3861] [ 2387] [depth= 10] . ( 3 sec) [ -10411.6224] [ 2380] [depth= 5] . ( 3 sec) [ -10314.2107] [ 2361] [depth= 4] . ( 3 sec) [ -10274.1925] [ 2345] [depth= 3] . ( 3 sec) [ -10261.6464] [ 2354] [depth= 1] . ( 3 sec) [ -10080.1798] [ 2340] [depth= 4] . ( 3 sec) [ -10023.8349] [ 2304] [depth= 1] . ( 3 sec) [ -10017.6997] [ 2294] [depth= 1] . ( 3 sec) [ -10011.0021] [ 2288] [depth= 5] . ( 3 sec) [ -10001.0481] [ 2203] [depth= 1] . ( 3 sec) [ -9989.4980] [ 2196] [depth= 1] . ( 3 sec) [ -9976.7685] [ 2197] [depth= 1] . ( 3 sec) [ -9859.4945] [ 2143] [depth= 6] . ( 3 sec) [ -9852.1614] [ 2141] [depth= 1] . ( 3 sec) [ -9850.8918] [ 2141] [depth= 1] . ( 3 sec) [ -9728.5257] [ 2096] [depth= 1] . ( 3 sec) [ -9689.5887] [ 2087] [depth= 1] . ( 3 sec) [ -9534.5617] [ 2068] [depth= 5] . ( 4 sec) [ -9422.8402] [ 2029] [depth= 3] . ( 4 sec) [ -9411.9200] [ 2025] [depth= 1] . ( 4 sec) [ -9399.3037] [ 2009] [depth= 1] . ( 4 sec) [ -9323.2659] [ 1921] [depth= 6] . ( 4 sec) [ -9257.8873] [ 1925] [depth= 2] . ( 4 sec) [ -9008.2773] [ 1881] [depth= 1] . ( 4 sec) [ -8986.1878] [ 1888] [depth= 1] . ( 4 sec) [ -8967.0209] [ 1925] [depth= 1] . ( 4 sec) [ -8808.8178] [ 1890] [depth= 1] . ( 4 sec) [ -8704.6085] [ 1832] [depth= 4] . ( 4 sec) [ -8678.8030] [ 1795] [depth= 1] . ( 4 sec) [ -8624.9913] [ 1768] [depth= 3] . ( 4 sec) [ -8303.9939] [Branch lengths ] . ( 5 sec) [ -8303.5418] [GTR parameters ] . ( 5 sec) [ -8285.6185] [Alpha ][ 0.756215] . ( 5 sec) [ -8283.7956] [ 1769] [depth= 1] . ( 5 sec) [ -8241.4699] [ 1722] [depth= 2] . ( 5 sec) [ -8197.6350] [ 1729] [depth= 1] . ( 5 sec) [ -8110.7024] [ 1694] [depth= 1] . ( 5 sec) [ -8105.5508] [ 1696] [depth= 1] . ( 6 sec) [ -8104.1849] [ 1690] [depth= 2] . ( 6 sec) [ -8094.6437] [ 1684] [depth= 1] . ( 6 sec) [ -8081.3625] [ 1687] [depth= 1] . ( 6 sec) [ -8080.9115] [ 1687] [depth= 1] . ( 6 sec) [ -8077.7299] [ 1682] [depth= 2] . ( 6 sec) [ -8048.0840] [ 1658] [depth= 3] . ( 7 sec) [ -8034.5406] [ 1642] [depth= 3] . ( 7 sec) [ -8030.7417] [ 1661] [depth= 1] . ( 7 sec) [ -8022.3860] [ 1667] [depth= 1] . ( 7 sec) [ -7905.0590] [ 1621] [depth= 3] . ( 7 sec) [ -7904.7127] [ 1627] [depth= 1] . ( 7 sec) [ -7898.0006] [ 1607] [depth= 1] . ( 8 sec) [ -7870.9369] [ 1585] [depth= 1] . ( 8 sec) [ -7861.3422] [ 1587] [depth= 1] . ( 8 sec) [ -7852.5752] [ 1583] [depth= 1] . ( 8 sec) [ -7851.4809] [ 1582] [depth= 1] . ( 8 sec) [ -7810.5087] [Branch lengths ] . ( 9 sec) [ -7809.8966] [GTR parameters ] . ( 9 sec) [ -7807.1001] [Alpha ][ 0.910499] . ( 9 sec) [ -7805.8391] [ 1578] [depth= 1] . ( 10 sec) [ -7805.5868] [ 1581] [depth= 1] . ( 12 sec) [ -7800.2877] [Branch lengths ] . ( 12 sec) [ -7800.2776] [GTR parameters ] . ( 12 sec) [ -7800.2742] [Alpha ][ 0.916560] . ( 15 sec) [ -7799.9539] [Branch lengths ] . ( 34 sec) [ -7799.9239] [Branch lengths ] . ( 34 sec) [ -7799.9239] [Topology ] . ( 35 sec) [ -7799.9210] [Topology ] . ( 35 sec) [ -7799.9200] [Topology ] . ( 35 sec) [ -7799.9197] [GTR parameters ] . ( 35 sec) [ -7799.9192] [Alpha ][ 0.913963] . ( 35 sec) [ -7799.9192] [Topology ] . ( 36 sec) [ -7799.9187] [Topology ] . ( 36 sec) [ -7799.9186] [GTR parameters ] . ( 36 sec) [ -7799.9186] [Alpha ][ 0.913963] . Checking for NNIs, optimizing five branches... . ( 42 sec) [ -7799.9181] [Topology ] . Checking for NNIs, optimizing five branches... . ( 47 sec) [ -7799.9179] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7799.917934. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -17832.2226] [GTR parameters ] . ( 1 sec) [ -17407.7659] [Alpha ][ 0.500960] . ( 1 sec) [ -17210.0653] [ 4050] [depth= 3] . ( 1 sec) [ -17062.2252] [ 3972] [depth= 10] . ( 1 sec) [ -16936.6671] [ 3941] [depth= 3] . ( 1 sec) [ -16608.8097] [ 3928] [depth= 7] . ( 1 sec) [ -16285.5703] [ 3863] [depth= 5] . ( 1 sec) [ -15935.3227] [ 3845] [depth= 4] . ( 1 sec) [ -15780.6497] [ 3841] [depth= 1] . ( 1 sec) [ -15747.6436] [ 3837] [depth= 4] . ( 1 sec) [ -15594.7538] [ 3769] [depth= 1] . ( 1 sec) [ -15441.4930] [ 3751] [depth= 4] . ( 1 sec) [ -15145.3670] [ 3682] [depth= 3] . ( 1 sec) [ -15099.5100] [ 3676] [depth= 1] . ( 1 sec) [ -14915.5542] [ 3587] [depth= 8] . ( 1 sec) [ -14809.7053] [ 3595] [depth= 9] . ( 1 sec) [ -14460.8296] [ 3437] [depth= 10] . ( 1 sec) [ -14359.7457] [ 3406] [depth= 5] . ( 1 sec) [ -14323.1563] [ 3408] [depth= 1] . ( 1 sec) [ -13814.5600] [ 3261] [depth= 4] . ( 1 sec) [ -13807.3829] [ 3250] [depth= 4] . ( 1 sec) [ -13729.3292] [ 3224] [depth= 1] . ( 2 sec) [ -13489.5859] [ 3202] [depth= 1] . ( 2 sec) [ -13345.0562] [ 3181] [depth= 2] . ( 2 sec) [ -13344.0532] [ 3181] [depth= 7] . ( 2 sec) [ -13188.8717] [ 3156] [depth= 5] . ( 2 sec) [ -13056.7280] [ 3058] [depth= 4] . ( 2 sec) [ -12653.6591] [ 3045] [depth= 5] . ( 2 sec) [ -12638.7858] [ 3053] [depth= 1] . ( 2 sec) [ -12585.7585] [ 3026] [depth= 4] . ( 2 sec) [ -12488.1169] [ 2946] [depth= 5] . ( 2 sec) [ -12486.1980] [ 2948] [depth= 1] . ( 2 sec) [ -12169.3952] [ 2831] [depth= 8] . ( 2 sec) [ -11787.9438] [ 2776] [depth= 3] . ( 2 sec) [ -11663.2259] [ 2724] [depth= 1] . ( 2 sec) [ -11598.3463] [ 2710] [depth= 7] . ( 2 sec) [ -11493.9894] [ 2706] [depth= 1] . ( 2 sec) [ -11326.3206] [ 2613] [depth= 12] . ( 2 sec) [ -11112.1716] [ 2597] [depth= 11] . ( 2 sec) [ -10640.3638] [ 2470] [depth= 12] . ( 2 sec) [ -10581.9609] [ 2442] [depth= 1] . ( 2 sec) [ -10492.5414] [ 2401] [depth= 5] . ( 2 sec) [ -10400.0362] [ 2410] [depth= 2] . ( 2 sec) [ -10143.9745] [ 2294] [depth= 6] . ( 3 sec) [ -10119.4939] [ 2297] [depth= 1] . ( 3 sec) [ -9918.5202] [ 2251] [depth= 3] . ( 3 sec) [ -9873.1910] [ 2226] [depth= 1] . ( 3 sec) [ -9745.2978] [ 2203] [depth= 5] . ( 3 sec) [ -9661.7718] [ 2189] [depth= 1] . ( 3 sec) [ -9626.0471] [ 2195] [depth= 1] . ( 3 sec) [ -9559.8254] [ 2184] [depth= 4] . ( 3 sec) [ -9558.9595] [ 2197] [depth= 1] . ( 3 sec) [ -9403.7756] [ 2104] [depth= 2] . ( 3 sec) [ -9394.3768] [ 2102] [depth= 1] . ( 3 sec) [ -9262.5859] [ 2038] [depth= 2] . ( 3 sec) [ -9247.6875] [ 2027] [depth= 4] . ( 3 sec) [ -9246.2974] [ 2027] [depth= 1] . ( 3 sec) [ -9131.1801] [ 2000] [depth= 6] . ( 3 sec) [ -8867.8005] [ 1899] [depth= 3] . ( 3 sec) [ -8865.4471] [ 1900] [depth= 1] . ( 3 sec) [ -8802.4141] [ 1902] [depth= 3] . ( 3 sec) [ -8753.9320] [ 1868] [depth= 5] . ( 3 sec) [ -8599.8572] [ 1815] [depth= 3] . ( 3 sec) [ -8573.3687] [ 1809] [depth= 3] . ( 3 sec) [ -8526.5079] [ 1812] [depth= 2] . ( 3 sec) [ -8483.5659] [ 1797] [depth= 2] . ( 3 sec) [ -8481.7052] [ 1798] [depth= 1] . ( 4 sec) [ -8480.8476] [ 1791] [depth= 4] . ( 4 sec) [ -8476.2728] [ 1788] [depth= 1] . ( 4 sec) [ -8476.0609] [ 1790] [depth= 1] . ( 4 sec) [ -8410.3544] [ 1780] [depth= 3] . ( 4 sec) [ -8408.2753] [ 1781] [depth= 1] . ( 4 sec) [ -8398.8477] [ 1784] [depth= 2] . ( 4 sec) [ -8395.0656] [ 1790] [depth= 1] . ( 4 sec) [ -8391.6439] [ 1783] [depth= 1] . ( 4 sec) [ -8386.8006] [ 1785] [depth= 1] . ( 4 sec) [ -8385.1333] [ 1783] [depth= 1] . ( 4 sec) [ -8276.8479] [Branch lengths ] . ( 5 sec) [ -8275.3186] [GTR parameters ] . ( 5 sec) [ -8256.4831] [Alpha ][ 0.784175] . ( 5 sec) [ -8193.4539] [ 1735] [depth= 2] . ( 5 sec) [ -8106.2118] [ 1722] [depth= 5] . ( 5 sec) [ -8105.7392] [ 1722] [depth= 1] . ( 5 sec) [ -8017.0078] [ 1647] [depth= 2] . ( 5 sec) [ -7960.1041] [ 1631] [depth= 1] . ( 5 sec) [ -7890.5075] [ 1594] [depth= 1] . ( 6 sec) [ -7888.3788] [ 1594] [depth= 1] . ( 6 sec) [ -7888.2187] [ 1591] [depth= 2] . ( 6 sec) [ -7887.6848] [ 1595] [depth= 1] . ( 6 sec) [ -7886.0442] [ 1596] [depth= 1] . ( 6 sec) [ -7885.6851] [ 1591] [depth= 2] . ( 6 sec) [ -7882.6784] [ 1599] [depth= 1] . ( 6 sec) [ -7863.6942] [ 1600] [depth= 2] . ( 6 sec) [ -7846.5291] [ 1595] [depth= 1] . ( 6 sec) [ -7845.9124] [ 1601] [depth= 2] . ( 6 sec) [ -7839.6089] [ 1595] [depth= 1] . ( 7 sec) [ -7839.2462] [ 1596] [depth= 1] . ( 7 sec) [ -7837.6335] [ 1590] [depth= 2] . ( 7 sec) [ -7836.3392] [ 1593] [depth= 1] . ( 7 sec) [ -7831.7410] [ 1591] [depth= 1] . ( 7 sec) [ -7831.5085] [ 1591] [depth= 1] . ( 8 sec) [ -7829.6262] [ 1594] [depth= 1] . ( 8 sec) [ -7828.4370] [ 1592] [depth= 2] . ( 8 sec) [ -7825.7789] [ 1588] [depth= 1] . ( 8 sec) [ -7809.6884] [Branch lengths ] . ( 9 sec) [ -7809.6325] [GTR parameters ] . ( 9 sec) [ -7808.0834] [Alpha ][ 0.902688] . ( 9 sec) [ -7804.1619] [ 1580] [depth= 1] . ( 12 sec) [ -7801.2211] [Branch lengths ] . ( 12 sec) [ -7801.2115] [GTR parameters ] . ( 12 sec) [ -7801.2053] [Alpha ][ 0.910996] . ( 15 sec) [ -7799.8382] [Branch lengths ] . ( 34 sec) [ -7799.7865] [Branch lengths ] . ( 34 sec) [ -7799.7865] [Topology ] . ( 34 sec) [ -7799.7853] [Topology ] . ( 35 sec) [ -7799.7850] [Topology ] . ( 35 sec) [ -7799.7842] [GTR parameters ] . ( 35 sec) [ -7799.7824] [Alpha ][ 0.915401] . ( 35 sec) [ -7799.7824] [Topology ] . ( 36 sec) [ -7799.7822] [Topology ] . ( 36 sec) [ -7799.7822] [GTR parameters ] . ( 36 sec) [ -7799.7822] [Alpha ][ 0.915401] . Checking for NNIs, optimizing five branches... . ( 41 sec) [ -7799.7821] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7799.782062. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -19351.2862] [GTR parameters ] . ( 1 sec) [ -18870.1489] [Alpha ][ 0.500960] . ( 1 sec) [ -18582.7271] [ 4144] [depth= 8] . ( 1 sec) [ -18241.8767] [ 4109] [depth= 8] . ( 1 sec) [ -18179.0601] [ 4092] [depth= 4] . ( 1 sec) [ -18170.4514] [ 4093] [depth= 3] . ( 1 sec) [ -17993.0985] [ 4042] [depth= 4] . ( 1 sec) [ -17843.9708] [ 4046] [depth= 3] . ( 1 sec) [ -17660.0555] [ 3989] [depth= 14] . ( 1 sec) [ -17476.2307] [ 3959] [depth= 13] . ( 1 sec) [ -17008.0089] [ 3870] [depth= 1] . ( 1 sec) [ -16691.9096] [ 3805] [depth= 14] . ( 1 sec) [ -15438.8131] [ 3713] [depth= 8] . ( 1 sec) [ -15047.9458] [ 3608] [depth= 6] . ( 1 sec) [ -14938.5028] [ 3572] [depth= 1] . ( 1 sec) [ -14702.3968] [ 3561] [depth= 1] . ( 1 sec) [ -14365.8473] [ 3476] [depth= 1] . ( 1 sec) [ -14220.9964] [ 3456] [depth= 3] . ( 1 sec) [ -14139.2089] [ 3430] [depth= 11] . ( 1 sec) [ -14066.7044] [ 3424] [depth= 1] . ( 2 sec) [ -13990.1299] [ 3417] [depth= 1] . ( 2 sec) [ -13704.4745] [ 3362] [depth= 1] . ( 2 sec) [ -13523.5254] [ 3311] [depth= 13] . ( 2 sec) [ -13509.9203] [ 3315] [depth= 2] . ( 2 sec) [ -13248.2109] [ 3165] [depth= 8] . ( 2 sec) [ -13091.1228] [ 3084] [depth= 2] . ( 2 sec) [ -12823.7043] [ 3069] [depth= 7] . ( 2 sec) [ -12781.0336] [ 3073] [depth= 1] . ( 2 sec) [ -12612.9893] [ 2971] [depth= 9] . ( 2 sec) [ -12612.0619] [ 2975] [depth= 1] . ( 2 sec) [ -12300.8548] [ 2844] [depth= 8] . ( 2 sec) [ -12224.2479] [ 2804] [depth= 1] . ( 2 sec) [ -12186.4333] [ 2797] [depth= 8] . ( 2 sec) [ -12005.6054] [ 2677] [depth= 9] . ( 2 sec) [ -11936.1638] [ 2681] [depth= 2] . ( 2 sec) [ -11623.4322] [ 2592] [depth= 6] . ( 2 sec) [ -11428.8145] [ 2551] [depth= 1] . ( 2 sec) [ -11420.5679] [ 2548] [depth= 3] . ( 2 sec) [ -11237.1907] [ 2509] [depth= 8] . ( 2 sec) [ -11213.8820] [ 2497] [depth= 2] . ( 2 sec) [ -11185.4109] [ 2478] [depth= 2] . ( 2 sec) [ -10845.0752] [ 2425] [depth= 3] . ( 3 sec) [ -10476.9565] [ 2319] [depth= 7] . ( 3 sec) [ -10434.7335] [ 2325] [depth= 1] . ( 3 sec) [ -10274.4454] [ 2289] [depth= 2] . ( 3 sec) [ -10190.7257] [ 2276] [depth= 2] . ( 3 sec) [ -10168.2380] [ 2276] [depth= 1] . ( 3 sec) [ -10070.7524] [ 2249] [depth= 2] . ( 3 sec) [ -10056.9348] [ 2245] [depth= 1] . ( 3 sec) [ -9970.0990] [ 2214] [depth= 1] . ( 3 sec) [ -9966.6874] [ 2216] [depth= 3] . ( 3 sec) [ -9956.0363] [ 2213] [depth= 1] . ( 3 sec) [ -9585.5645] [ 2112] [depth= 3] . ( 3 sec) [ -9418.5843] [ 2031] [depth= 8] . ( 3 sec) [ -9413.5910] [ 2023] [depth= 2] . ( 3 sec) [ -9354.0126] [ 2009] [depth= 6] . ( 3 sec) [ -9022.0286] [ 1934] [depth= 6] . ( 3 sec) [ -8979.6580] [ 1886] [depth= 5] . ( 3 sec) [ -8883.8854] [ 1880] [depth= 1] . ( 3 sec) [ -8873.0892] [ 1873] [depth= 3] . ( 3 sec) [ -8672.0233] [ 1790] [depth= 7] . ( 3 sec) [ -8668.2916] [ 1790] [depth= 1] . ( 3 sec) [ -8621.6386] [ 1772] [depth= 1] . ( 3 sec) [ -8620.0428] [ 1777] [depth= 1] . ( 3 sec) [ -8606.4200] [ 1777] [depth= 1] . ( 4 sec) [ -8565.5459] [ 1770] [depth= 2] . ( 4 sec) [ -8552.1962] [ 1755] [depth= 3] . ( 4 sec) [ -8507.4979] [ 1716] [depth= 1] . ( 4 sec) [ -8366.5158] [ 1675] [depth= 1] . ( 4 sec) [ -8311.9612] [ 1655] [depth= 1] . ( 4 sec) [ -8259.8524] [ 1653] [depth= 1] . ( 4 sec) [ -8127.4547] [ 1613] [depth= 1] . ( 4 sec) [ -8125.1326] [ 1616] [depth= 1] . ( 4 sec) [ -8033.7891] [ 1596] [depth= 1] . ( 4 sec) [ -8033.5079] [ 1601] [depth= 1] . ( 4 sec) [ -8021.8168] [ 1602] [depth= 1] . ( 4 sec) [ -8008.3833] [ 1600] [depth= 1] . ( 5 sec) [ -7863.9761] [Branch lengths ] . ( 5 sec) [ -7861.7525] [GTR parameters ] . ( 5 sec) [ -7831.8169] [Alpha ][ 0.897497] . ( 5 sec) [ -7823.8108] [ 1594] [depth= 1] . ( 6 sec) [ -7821.9471] [ 1593] [depth= 1] . ( 6 sec) [ -7819.9582] [ 1588] [depth= 1] . ( 6 sec) [ -7819.7133] [ 1588] [depth= 1] . ( 6 sec) [ -7818.9815] [ 1585] [depth= 2] . ( 6 sec) [ -7818.3969] [ 1586] [depth= 1] . ( 6 sec) [ -7818.3797] [ 1589] [depth= 1] . ( 6 sec) [ -7812.7443] [ 1581] [depth= 1] . ( 7 sec) [ -7812.5157] [ 1584] [depth= 1] . ( 7 sec) [ -7812.2916] [ 1584] [depth= 1] . ( 7 sec) [ -7810.6400] [ 1582] [depth= 1] . ( 7 sec) [ -7810.5790] [ 1579] [depth= 1] . ( 7 sec) [ -7809.5568] [ 1582] [depth= 1] . ( 8 sec) [ -7800.7335] [Branch lengths ] . ( 8 sec) [ -7800.6874] [GTR parameters ] . ( 8 sec) [ -7800.6445] [Alpha ][ 0.918259] . ( 12 sec) [ -7800.0012] [Branch lengths ] . ( 30 sec) [ -7799.9315] [Branch lengths ] . ( 30 sec) [ -7799.9315] [Topology ] . ( 31 sec) [ -7799.9246] [Topology ] . ( 32 sec) [ -7799.9222] [Topology ] . ( 32 sec) [ -7799.9211] [Topology ] . ( 33 sec) [ -7799.9206] [Topology ] . ( 33 sec) [ -7799.9203] [GTR parameters ] . ( 33 sec) [ -7799.9187] [Alpha ][ 0.913890] . ( 33 sec) [ -7799.9187] [Topology ] . ( 34 sec) [ -7799.9183] [Topology ] . ( 34 sec) [ -7799.9183] [GTR parameters ] . ( 34 sec) [ -7799.9183] [Alpha ][ 0.913890] . Checking for NNIs, optimizing five branches... . ( 39 sec) [ -7799.9178] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7799.917755. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -18387.3000] [GTR parameters ] . ( 1 sec) [ -17952.5678] [Alpha ][ 0.500960] . ( 1 sec) [ -17745.2855] [ 4054] [depth= 8] . ( 1 sec) [ -17457.4868] [ 3946] [depth= 8] . ( 1 sec) [ -17085.5352] [ 3842] [depth= 8] . ( 1 sec) [ -17041.6700] [ 3818] [depth= 1] . ( 1 sec) [ -16831.0340] [ 3790] [depth= 6] . ( 1 sec) [ -16771.0817] [ 3770] [depth= 2] . ( 1 sec) [ -16657.3796] [ 3766] [depth= 2] . ( 1 sec) [ -16657.3335] [ 3751] [depth= 1] . ( 1 sec) [ -16616.5018] [ 3747] [depth= 2] . ( 1 sec) [ -16531.2786] [ 3691] [depth= 3] . ( 2 sec) [ -16373.0021] [ 3616] [depth= 1] . ( 2 sec) [ -16120.6841] [ 3598] [depth= 10] . ( 2 sec) [ -16041.7735] [ 3592] [depth= 1] . ( 2 sec) [ -15986.3045] [ 3535] [depth= 11] . ( 2 sec) [ -15903.6888] [ 3525] [depth= 2] . ( 2 sec) [ -15674.3148] [ 3512] [depth= 2] . ( 2 sec) [ -15563.0135] [ 3487] [depth= 11] . ( 2 sec) [ -15405.4785] [ 3408] [depth= 2] . ( 2 sec) [ -15263.3050] [ 3386] [depth= 9] . ( 2 sec) [ -15050.9352] [ 3343] [depth= 13] . ( 2 sec) [ -14743.0183] [ 3332] [depth= 11] . ( 2 sec) [ -14500.8413] [ 3257] [depth= 8] . ( 2 sec) [ -14419.5493] [ 3238] [depth= 1] . ( 2 sec) [ -14032.1127] [ 3216] [depth= 10] . ( 2 sec) [ -13942.4862] [ 3192] [depth= 1] . ( 2 sec) [ -13914.2587] [ 3125] [depth= 1] . ( 2 sec) [ -13708.3330] [ 3091] [depth= 1] . ( 2 sec) [ -13505.2307] [ 3089] [depth= 4] . ( 2 sec) [ -13297.1324] [ 2976] [depth= 12] . ( 2 sec) [ -12842.4228] [ 2962] [depth= 1] . ( 2 sec) [ -12754.4725] [ 2907] [depth= 1] . ( 2 sec) [ -12678.5435] [ 2888] [depth= 1] . ( 2 sec) [ -12653.6239] [ 2901] [depth= 1] . ( 2 sec) [ -12560.0347] [ 2850] [depth= 13] . ( 3 sec) [ -12476.0852] [ 2889] [depth= 1] . ( 3 sec) [ -12270.9185] [ 2782] [depth= 5] . ( 3 sec) [ -12204.1156] [ 2772] [depth= 1] . ( 3 sec) [ -12063.8541] [ 2749] [depth= 4] . ( 3 sec) [ -11916.0848] [ 2739] [depth= 3] . ( 3 sec) [ -11729.5178] [ 2627] [depth= 5] . ( 3 sec) [ -11001.8339] [ 2553] [depth= 2] . ( 3 sec) [ -10813.2414] [ 2552] [depth= 3] . ( 3 sec) [ -10752.0728] [ 2540] [depth= 2] . ( 3 sec) [ -10751.8439] [ 2559] [depth= 1] . ( 3 sec) [ -10474.4119] [ 2508] [depth= 3] . ( 3 sec) [ -10372.0434] [ 2497] [depth= 12] . ( 3 sec) [ -10309.9192] [ 2472] [depth= 1] . ( 3 sec) [ -10086.9529] [ 2401] [depth= 10] . ( 3 sec) [ -9956.7352] [ 2348] [depth= 6] . ( 3 sec) [ -9954.5210] [ 2349] [depth= 1] . ( 3 sec) [ -9920.0549] [ 2345] [depth= 1] . ( 3 sec) [ -9739.2679] [ 2235] [depth= 7] . ( 3 sec) [ -9702.4595] [ 2223] [depth= 1] . ( 3 sec) [ -9665.6953] [ 2226] [depth= 2] . ( 3 sec) [ -9623.3916] [ 2202] [depth= 6] . ( 3 sec) [ -9605.5712] [ 2209] [depth= 7] . ( 4 sec) [ -9567.7827] [ 2208] [depth= 1] . ( 4 sec) [ -9553.1021] [ 2209] [depth= 1] . ( 4 sec) [ -9377.4263] [ 2123] [depth= 8] . ( 4 sec) [ -9284.7400] [ 2071] [depth= 3] . ( 4 sec) [ -9227.2277] [ 2008] [depth= 3] . ( 4 sec) [ -9115.3923] [ 1976] [depth= 5] . ( 4 sec) [ -9070.8386] [ 1963] [depth= 2] . ( 4 sec) [ -9035.4775] [ 1959] [depth= 3] . ( 4 sec) [ -8947.8207] [ 1945] [depth= 5] . ( 4 sec) [ -8874.9280] [ 1922] [depth= 4] . ( 4 sec) [ -8850.4221] [ 1919] [depth= 1] . ( 4 sec) [ -8830.9138] [ 1916] [depth= 1] . ( 4 sec) [ -8806.6163] [ 1886] [depth= 2] . ( 4 sec) [ -8785.4218] [ 1870] [depth= 2] . ( 4 sec) [ -8591.7027] [ 1804] [depth= 3] . ( 4 sec) [ -8588.9885] [ 1807] [depth= 2] . ( 4 sec) [ -8581.2668] [ 1805] [depth= 1] . ( 4 sec) [ -8533.2232] [ 1785] [depth= 1] . ( 4 sec) [ -8505.7342] [ 1779] [depth= 1] . ( 5 sec) [ -8501.8635] [ 1781] [depth= 1] . ( 5 sec) [ -8494.5053] [ 1782] [depth= 1] . ( 5 sec) [ -8467.4357] [ 1789] [depth= 1] . ( 5 sec) [ -8417.3835] [ 1775] [depth= 1] . ( 5 sec) [ -8257.2041] [Branch lengths ] . ( 6 sec) [ -8255.9756] [GTR parameters ] . ( 6 sec) [ -8236.1876] [Alpha ][ 0.796860] . ( 6 sec) [ -7986.1400] [ 1661] [depth= 10] . ( 6 sec) [ -7980.2100] [ 1661] [depth= 1] . ( 6 sec) [ -7920.6507] [ 1621] [depth= 1] . ( 6 sec) [ -7901.3281] [ 1613] [depth= 1] . ( 6 sec) [ -7900.9138] [ 1616] [depth= 1] . ( 6 sec) [ -7898.2357] [ 1609] [depth= 2] . ( 6 sec) [ -7897.7065] [ 1608] [depth= 1] . ( 6 sec) [ -7862.9883] [ 1604] [depth= 1] . ( 6 sec) [ -7853.9873] [ 1596] [depth= 1] . ( 6 sec) [ -7851.9185] [ 1592] [depth= 1] . ( 7 sec) [ -7837.4718] [ 1588] [depth= 1] . ( 7 sec) [ -7830.7122] [ 1581] [depth= 1] . ( 7 sec) [ -7828.2193] [ 1583] [depth= 1] . ( 7 sec) [ -7827.1596] [ 1587] [depth= 1] . ( 7 sec) [ -7826.3250] [ 1585] [depth= 1] . ( 7 sec) [ -7824.3834] [ 1587] [depth= 1] . ( 8 sec) [ -7820.4592] [ 1585] [depth= 1] . ( 8 sec) [ -7820.0085] [ 1585] [depth= 1] . ( 8 sec) [ -7819.7152] [ 1585] [depth= 1] . ( 8 sec) [ -7819.6590] [ 1587] [depth= 1] . ( 8 sec) [ -7816.9625] [ 1583] [depth= 1] . ( 8 sec) [ -7814.8642] [ 1587] [depth= 1] . ( 8 sec) [ -7813.2777] [ 1585] [depth= 1] . ( 8 sec) [ -7813.2656] [ 1582] [depth= 1] . ( 9 sec) [ -7802.2939] [Branch lengths ] . ( 9 sec) [ -7801.7225] [GTR parameters ] . ( 9 sec) [ -7800.2630] [Alpha ][ 0.912893] . ( 10 sec) [ -7800.2286] [ 1585] [depth= 1] . ( 12 sec) [ -7799.9239] [Branch lengths ] . ( 13 sec) [ -7799.9234] [GTR parameters ] . ( 13 sec) [ -7799.9234] [Alpha ][ 0.913806] . ( 31 sec) [ -7799.9188] [Branch lengths ] . ( 31 sec) [ -7799.9188] [Topology ] . ( 32 sec) [ -7799.9184] [Topology ] . ( 32 sec) [ -7799.9184] [GTR parameters ] . ( 32 sec) [ -7799.9184] [Alpha ][ 0.913806] . Checking for NNIs, optimizing five branches... . ( 37 sec) [ -7799.9173] [Topology ] . Checking for NNIs, optimizing five branches... . ( 43 sec) [ -7799.9171] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7799.917138. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -19675.8423] [GTR parameters ] . ( 0 sec) [ -19193.9655] [Alpha ][ 0.500960] . ( 1 sec) [ -18612.0772] [ 4129] [depth= 6] . ( 1 sec) [ -18215.9814] [ 4039] [depth= 11] . ( 1 sec) [ -18088.8724] [ 4019] [depth= 4] . ( 1 sec) [ -17982.8803] [ 4019] [depth= 6] . ( 1 sec) [ -17472.6149] [ 3983] [depth= 7] . ( 1 sec) [ -17198.0720] [ 3967] [depth= 5] . ( 1 sec) [ -17026.0926] [ 3948] [depth= 6] . ( 1 sec) [ -16702.9338] [ 3879] [depth= 4] . ( 1 sec) [ -16296.9386] [ 3794] [depth= 11] . ( 1 sec) [ -16034.3098] [ 3718] [depth= 17] . ( 1 sec) [ -15724.9255] [ 3599] [depth= 14] . ( 1 sec) [ -15367.4380] [ 3588] [depth= 1] . ( 1 sec) [ -15255.0362] [ 3572] [depth= 10] . ( 1 sec) [ -15053.1011] [ 3557] [depth= 5] . ( 1 sec) [ -14876.4462] [ 3459] [depth= 2] . ( 1 sec) [ -14794.6999] [ 3432] [depth= 1] . ( 1 sec) [ -14584.6612] [ 3406] [depth= 11] . ( 1 sec) [ -14275.3374] [ 3292] [depth= 8] . ( 1 sec) [ -14113.6519] [ 3281] [depth= 10] . ( 1 sec) [ -13935.1091] [ 3252] [depth= 14] . ( 1 sec) [ -13787.6042] [ 3227] [depth= 1] . ( 1 sec) [ -13663.1833] [ 3228] [depth= 1] . ( 1 sec) [ -13660.5004] [ 3227] [depth= 1] . ( 2 sec) [ -13267.7241] [ 3097] [depth= 11] . ( 2 sec) [ -13190.5533] [ 3088] [depth= 1] . ( 2 sec) [ -13064.4786] [ 3053] [depth= 7] . ( 2 sec) [ -12981.3630] [ 3035] [depth= 6] . ( 2 sec) [ -12859.3022] [ 2974] [depth= 1] . ( 2 sec) [ -12854.4153] [ 2953] [depth= 2] . ( 2 sec) [ -12672.1177] [ 2892] [depth= 3] . ( 2 sec) [ -12456.0373] [ 2800] [depth= 9] . ( 2 sec) [ -12145.4715] [ 2754] [depth= 1] . ( 2 sec) [ -12024.5991] [ 2742] [depth= 4] . ( 2 sec) [ -11753.6861] [ 2642] [depth= 5] . ( 2 sec) [ -11731.3802] [ 2639] [depth= 1] . ( 2 sec) [ -11727.3511] [ 2637] [depth= 2] . ( 2 sec) [ -11602.1797] [ 2635] [depth= 4] . ( 2 sec) [ -11470.9481] [ 2591] [depth= 10] . ( 2 sec) [ -11371.4041] [ 2557] [depth= 6] . ( 2 sec) [ -11166.5839] [ 2496] [depth= 8] . ( 2 sec) [ -11131.5537] [ 2468] [depth= 1] . ( 2 sec) [ -10491.9094] [ 2298] [depth= 8] . ( 2 sec) [ -10329.8505] [ 2259] [depth= 5] . ( 2 sec) [ -10203.9468] [ 2228] [depth= 7] . ( 3 sec) [ -10188.6206] [ 2191] [depth= 4] . ( 3 sec) [ -10010.3782] [ 2190] [depth= 2] . ( 3 sec) [ -9883.1784] [ 2151] [depth= 5] . ( 3 sec) [ -9874.9365] [ 2124] [depth= 1] . ( 3 sec) [ -9698.6216] [ 2007] [depth= 11] . ( 3 sec) [ -9689.0983] [ 2006] [depth= 1] . ( 3 sec) [ -9279.7247] [ 1910] [depth= 4] . ( 3 sec) [ -9271.0353] [ 1910] [depth= 1] . ( 3 sec) [ -8984.1743] [ 1854] [depth= 2] . ( 3 sec) [ -8961.6445] [ 1847] [depth= 2] . ( 3 sec) [ -8942.4324] [ 1846] [depth= 1] . ( 3 sec) [ -8933.3866] [ 1848] [depth= 1] . ( 3 sec) [ -8802.3872] [ 1797] [depth= 4] . ( 3 sec) [ -8761.6887] [ 1790] [depth= 2] . ( 3 sec) [ -8754.8921] [ 1785] [depth= 3] . ( 3 sec) [ -8703.9160] [ 1768] [depth= 1] . ( 3 sec) [ -8628.0761] [ 1750] [depth= 3] . ( 3 sec) [ -8534.4839] [ 1740] [depth= 5] . ( 3 sec) [ -8500.7041] [ 1731] [depth= 2] . ( 3 sec) [ -8496.0358] [ 1740] [depth= 1] . ( 4 sec) [ -8492.2126] [ 1738] [depth= 1] . ( 4 sec) [ -8486.1358] [ 1727] [depth= 1] . ( 4 sec) [ -8476.0556] [ 1699] [depth= 1] . ( 4 sec) [ -8474.8619] [ 1700] [depth= 1] . ( 4 sec) [ -8466.9041] [ 1691] [depth= 1] . ( 4 sec) [ -8344.5950] [ 1655] [depth= 2] . ( 4 sec) [ -8341.5834] [ 1655] [depth= 1] . ( 4 sec) [ -8341.2135] [ 1657] [depth= 1] . ( 4 sec) [ -8030.0800] [Branch lengths ] . ( 5 sec) [ -8028.4904] [GTR parameters ] . ( 5 sec) [ -7999.6224] [Alpha ][ 0.889228] . ( 5 sec) [ -7983.0373] [ 1657] [depth= 1] . ( 5 sec) [ -7938.5006] [ 1637] [depth= 1] . ( 5 sec) [ -7937.3754] [ 1640] [depth= 1] . ( 5 sec) [ -7879.3492] [ 1593] [depth= 1] . ( 5 sec) [ -7877.7256] [ 1588] [depth= 1] . ( 5 sec) [ -7857.5187] [ 1585] [depth= 1] . ( 5 sec) [ -7844.0923] [ 1579] [depth= 1] . ( 6 sec) [ -7843.7749] [ 1579] [depth= 1] . ( 6 sec) [ -7842.8597] [ 1580] [depth= 1] . ( 6 sec) [ -7842.0779] [ 1578] [depth= 1] . ( 6 sec) [ -7841.0382] [ 1579] [depth= 1] . ( 7 sec) [ -7841.0183] [ 1584] [depth= 1] . ( 7 sec) [ -7838.9224] [ 1583] [depth= 1] . ( 7 sec) [ -7837.8098] [ 1581] [depth= 1] . ( 7 sec) [ -7836.7065] [ 1582] [depth= 1] . ( 7 sec) [ -7836.6500] [ 1581] [depth= 1] . ( 8 sec) [ -7834.8623] [ 1585] [depth= 1] . ( 8 sec) [ -7826.0144] [Branch lengths ] . ( 9 sec) [ -7825.6712] [GTR parameters ] . ( 9 sec) [ -7825.6517] [Alpha ][ 0.903608] . ( 12 sec) [ -7824.6222] [Branch lengths ] . ( 30 sec) [ -7821.4126] [Branch lengths ] . ( 30 sec) [ -7821.4126] [Topology ] . ( 31 sec) [ -7810.9510] [Topology ] . ( 32 sec) [ -7802.3796] [Topology ] . ( 32 sec) [ -7800.3931] [Topology ] . ( 33 sec) [ -7800.0392] [Topology ] . ( 34 sec) [ -7799.9794] [Topology ] . ( 34 sec) [ -7799.9680] [Topology ] . ( 35 sec) [ -7799.9321] [GTR parameters ] . ( 35 sec) [ -7799.9221] [Alpha ][ 0.914127] . ( 35 sec) [ -7799.9221] [Topology ] . ( 36 sec) [ -7799.9192] [Topology ] . ( 36 sec) [ -7799.9186] [Topology ] . ( 36 sec) [ -7799.9186] [GTR parameters ] . ( 37 sec) [ -7799.9186] [Alpha ][ 0.914127] . ( 37 sec) [ -7799.9186] [Topology ] . ( 37 sec) [ -7799.9184] [Topology ] . ( 37 sec) [ -7799.9184] [GTR parameters ] . ( 37 sec) [ -7799.9184] [Alpha ][ 0.914127] . Checking for NNIs, optimizing five branches... . ( 43 sec) [ -7799.7828] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -7799.782751. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . Before opt ts/t=1.000000 LK=-7871.915246 . ( 1 sec) [ -7869.8054] [GTR parameters ] . ( 1 sec) [ -7868.6494] [Alpha ][ 0.879732] . ( 1 sec) [ -7868.6494] [Topology ] . ( 2 sec) [ -7813.0785] [Topology ] . ( 2 sec) [ -7802.9008] [Topology ] . ( 3 sec) [ -7800.8748] [Topology ] . ( 4 sec) [ -7800.3566] [Topology ] . ( 4 sec) [ -7800.1461] [Topology ] . ( 5 sec) [ -7800.0490] [Topology ] . ( 6 sec) [ -7800.0020] [Topology ] . ( 7 sec) [ -7799.9787] [Topology ] . ( 7 sec) [ -7799.9671] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-7799.967122 . ( 13 sec) [ -7799.9151] [GTR parameters ] . ( 13 sec) [ -7799.8043] [Alpha ][ 0.914129] . ( 13 sec) [ -7799.8043] [Topology ] . ( 14 sec) [ -7799.7919] [Topology ] . ( 15 sec) [ -7799.7868] [Topology ] . ( 16 sec) [ -7799.7844] [Topology ] . ( 16 sec) [ -7799.7831] [Topology ] . ( 17 sec) [ -7799.7825] [Topology ] . Checking for NNIs, optimizing five branches... . Before opt ts/t=1.000000 LK=-7799.782542 . ( 22 sec) [ -7799.7825] [GTR parameters ] . ( 23 sec) [ -7799.7824] [Alpha ][ 0.915335] . ( 23 sec) [ -7799.7824] [Topology ] . ( 23 sec) [ -7799.7820] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 34 sec) [ -7869.8054] [GTR parameters ] . ( 34 sec) [ -7868.6494] [Alpha ][ 0.879732] . ( 35 sec) [ -7868.1752] [ 1588] [depth= 1] . ( 35 sec) [ -7862.1036] [ 1585] [depth= 1] . ( 35 sec) [ -7860.9390] [ 1588] [depth= 1] . ( 35 sec) [ -7860.0576] [ 1586] [depth= 2] . ( 35 sec) [ -7858.7404] [ 1585] [depth= 1] . ( 35 sec) [ -7856.9567] [ 1587] [depth= 1] . ( 35 sec) [ -7856.7800] [ 1584] [depth= 1] . ( 35 sec) [ -7853.3532] [ 1583] [depth= 1] . ( 35 sec) [ -7850.2592] [ 1586] [depth= 1] . ( 36 sec) [ -7844.3395] [ 1583] [depth= 1] . ( 36 sec) [ -7841.3384] [ 1579] [depth= 1] . ( 36 sec) [ -7841.2790] [ 1583] [depth= 1] . ( 36 sec) [ -7840.0540] [ 1587] [depth= 1] . ( 36 sec) [ -7833.6748] [ 1585] [depth= 1] . ( 36 sec) [ -7831.8112] [ 1585] [depth= 1] . ( 37 sec) [ -7827.2882] [ 1587] [depth= 1] . ( 37 sec) [ -7827.2389] [ 1585] [depth= 1] . ( 37 sec) [ -7825.3832] [ 1589] [depth= 1] . ( 37 sec) [ -7821.8024] [ 1588] [depth= 2] . ( 37 sec) [ -7821.7395] [ 1588] [depth= 1] . ( 37 sec) [ -7821.0773] [ 1588] [depth= 1] . ( 37 sec) [ -7808.1051] [Branch lengths ] . ( 38 sec) [ -7808.0487] [GTR parameters ] . ( 38 sec) [ -7807.9444] [Alpha ][ 0.912418] . ( 39 sec) [ -7807.8354] [ 1593] [depth= 1] . ( 39 sec) [ -7806.4962] [ 1589] [depth= 1] . ( 39 sec) [ -7802.0047] [ 1585] [depth= 1] . ( 40 sec) [ -7801.9614] [ 1582] [depth= 1] . ( 41 sec) [ -7800.0112] [Branch lengths ] . ( 41 sec) [ -7800.0028] [GTR parameters ] . ( 41 sec) [ -7800.0028] [Alpha ][ 0.912418] . ( 44 sec) [ -7799.9230] [Branch lengths ] . ( 63 sec) [ -7799.9186] [Branch lengths ] . ( 63 sec) [ -7799.9186] [Topology ] . ( 64 sec) [ -7799.9183] [Topology ] . ( 64 sec) [ -7799.9183] [GTR parameters ] . ( 64 sec) [ -7799.9182] [Alpha ][ 0.913629] . Checking for NNIs, optimizing five branches... . ( 69 sec) [ -7799.7826] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -7799.782037 . Log likelihood obtained after SPR moves : -7799.782625 . Log likelihood of the current tree: -7799.782037. . Printing the most likely tree in file 'data67.phy_phyml_tree.txt'... . Best log likelihood : -7799.782037 . Time used 0h1m15s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo