.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2879_70x800_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 . Compressing sequences... . 466 patterns found. (out of a total of 800 sites) . 405 sites without polymorphism (50.62%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 17Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -10355.0292] [GTR parameters ] . ( 1 sec) [ -10231.0685] [Alpha ][ 0.500960] . ( 1 sec) [ -10211.5209] [ 1375] [depth= 7] . ( 1 sec) [ -10162.5554] [ 1372] [depth= 8] . ( 2 sec) [ -10161.1145] [ 1373] [depth= 1] . ( 2 sec) [ -10149.8047] [ 1372] [depth= 3] . ( 2 sec) [ -10144.2623] [ 1372] [depth= 2] . ( 2 sec) [ -10134.0461] [ 1371] [depth= 2] . ( 2 sec) [ -10133.6451] [ 1371] [depth= 1] . ( 2 sec) [ -10111.2072] [ 1376] [depth= 1] . ( 2 sec) [ -10097.0753] [ 1376] [depth= 4] . ( 2 sec) [ -10066.5091] [ 1368] [depth= 8] . ( 2 sec) [ -10023.1867] [ 1360] [depth= 11] . ( 3 sec) [ -9942.6983] [ 1348] [depth= 14] . ( 3 sec) [ -9703.2956] [ 1344] [depth= 13] . ( 3 sec) [ -9701.6208] [ 1343] [depth= 2] . ( 3 sec) [ -9685.4496] [ 1339] [depth= 3] . ( 3 sec) [ -9642.6480] [ 1335] [depth= 11] . ( 3 sec) [ -9584.4084] [ 1326] [depth= 16] . ( 3 sec) [ -9580.2763] [ 1326] [depth= 1] . ( 3 sec) [ -9578.5921] [ 1326] [depth= 2] . ( 3 sec) [ -9546.7132] [ 1325] [depth= 2] . ( 3 sec) [ -9471.3428] [ 1322] [depth= 1] . ( 4 sec) [ -9457.4953] [ 1319] [depth= 13] . ( 4 sec) [ -9442.8830] [ 1313] [depth= 8] . ( 4 sec) [ -9417.0862] [ 1313] [depth= 1] . ( 4 sec) [ -9417.0469] [ 1313] [depth= 1] . ( 4 sec) [ -9411.7251] [ 1310] [depth= 8] . ( 4 sec) [ -8827.2918] [ 1304] [depth= 5] . ( 4 sec) [ -8734.1055] [ 1301] [depth= 12] . ( 4 sec) [ -8711.1150] [ 1296] [depth= 1] . ( 4 sec) [ -8650.0761] [ 1283] [depth= 10] . ( 5 sec) [ -8644.2237] [ 1282] [depth= 1] . ( 5 sec) [ -8640.3281] [ 1282] [depth= 1] . ( 5 sec) [ -8628.4731] [ 1278] [depth= 4] . ( 5 sec) [ -8624.6931] [ 1278] [depth= 3] . ( 5 sec) [ -8609.7611] [ 1275] [depth= 10] . ( 5 sec) [ -8609.1871] [ 1275] [depth= 1] . ( 5 sec) [ -8388.0246] [ 1275] [depth= 6] . ( 5 sec) [ -8362.4240] [ 1276] [depth= 1] . ( 5 sec) [ -8312.1379] [ 1265] [depth= 10] . ( 5 sec) [ -8304.7430] [ 1264] [depth= 4] . ( 5 sec) [ -8215.7945] [ 1260] [depth= 9] . ( 6 sec) [ -8176.6659] [ 1249] [depth= 12] . ( 6 sec) [ -7993.7597] [ 1241] [depth= 11] . ( 6 sec) [ -7965.1628] [ 1237] [depth= 8] . ( 6 sec) [ -7933.9717] [ 1230] [depth= 7] . ( 6 sec) [ -7837.4631] [ 1218] [depth= 8] . ( 6 sec) [ -7827.6598] [ 1217] [depth= 5] . ( 6 sec) [ -7762.8535] [ 1204] [depth= 10] . ( 6 sec) [ -7467.6655] [ 1174] [depth= 11] . ( 6 sec) [ -7422.0003] [ 1165] [depth= 8] . ( 7 sec) [ -7420.3523] [ 1165] [depth= 1] . ( 7 sec) [ -7413.8250] [ 1165] [depth= 10] . ( 7 sec) [ -7393.7454] [ 1162] [depth= 11] . ( 7 sec) [ -7391.8293] [ 1162] [depth= 2] . ( 8 sec) [ -7390.8820] [ 1162] [depth= 1] . ( 8 sec) [ -7376.0063] [ 1159] [depth= 10] . ( 8 sec) [ -7357.1853] [ 1153] [depth= 8] . ( 8 sec) [ -7339.7714] [ 1152] [depth= 1] . ( 8 sec) [ -7312.8317] [ 1146] [depth= 5] . ( 8 sec) [ -7263.8987] [ 1136] [depth= 3] . ( 8 sec) [ -7226.1854] [ 1128] [depth= 2] . ( 8 sec) [ -7197.2228] [ 1119] [depth= 8] . ( 9 sec) [ -7177.6951] [ 1115] [depth= 1] . ( 9 sec) [ -7130.8199] [ 1112] [depth= 8] . ( 9 sec) [ -7126.2664] [ 1113] [depth= 1] . ( 9 sec) [ -7067.8461] [ 1107] [depth= 7] . ( 9 sec) [ -7006.4080] [ 1091] [depth= 11] . ( 9 sec) [ -6996.0669] [ 1088] [depth= 1] . ( 10 sec) [ -6993.4076] [ 1088] [depth= 1] . ( 10 sec) [ -6899.7824] [ 1088] [depth= 3] . ( 10 sec) [ -6812.0409] [ 1081] [depth= 14] . ( 10 sec) [ -6805.2845] [ 1081] [depth= 3] . ( 10 sec) [ -6803.7462] [ 1081] [depth= 2] . ( 10 sec) [ -6802.3570] [ 1081] [depth= 1] . ( 10 sec) [ -6770.3946] [ 1074] [depth= 9] . ( 10 sec) [ -6760.2082] [ 1068] [depth= 9] . ( 10 sec) [ -6725.7125] [ 1062] [depth= 1] . ( 10 sec) [ -6714.5676] [ 1060] [depth= 3] . ( 10 sec) [ -6706.6252] [ 1059] [depth= 3] . ( 10 sec) [ -6698.5847] [ 1058] [depth= 2] . ( 10 sec) [ -6687.6426] [ 1056] [depth= 3] . ( 11 sec) [ -6586.7255] [ 1048] [depth= 6] . ( 11 sec) [ -6585.6804] [ 1053] [depth= 1] . ( 11 sec) [ -6571.1841] [ 1047] [depth= 10] . ( 11 sec) [ -6537.0357] [ 1028] [depth= 9] . ( 11 sec) [ -6523.2585] [ 1027] [depth= 1] . ( 11 sec) [ -6511.0442] [ 1020] [depth= 1] . ( 11 sec) [ -6504.7623] [ 1018] [depth= 3] . ( 11 sec) [ -6484.2538] [ 1008] [depth= 4] . ( 11 sec) [ -6482.1562] [ 1007] [depth= 4] . ( 11 sec) [ -6399.8691] [ 991] [depth= 11] . ( 12 sec) [ -6392.5305] [ 986] [depth= 1] . ( 12 sec) [ -6391.2449] [ 991] [depth= 1] . ( 12 sec) [ -6384.2326] [ 991] [depth= 2] . ( 12 sec) [ -6374.8342] [ 991] [depth= 1] . ( 12 sec) [ -6368.1597] [ 988] [depth= 5] . ( 13 sec) [ -6360.8968] [ 991] [depth= 6] . ( 13 sec) [ -6357.6645] [ 991] [depth= 4] . ( 13 sec) [ -6357.4488] [ 989] [depth= 2] . ( 13 sec) [ -6340.0152] [ 984] [depth= 8] . ( 13 sec) [ -6331.0758] [ 985] [depth= 2] . ( 13 sec) [ -6330.6366] [ 985] [depth= 4] . ( 13 sec) [ -6330.6209] [ 985] [depth= 2] . ( 13 sec) [ -6330.3607] [ 985] [depth= 1] . ( 14 sec) [ -6327.8005] [ 977] [depth= 6] . ( 14 sec) [ -6324.7105] [ 978] [depth= 1] . ( 14 sec) [ -6293.4206] [ 969] [depth= 8] . ( 14 sec) [ -6292.3844] [ 969] [depth= 2] . ( 14 sec) [ -6289.5843] [ 969] [depth= 1] . ( 14 sec) [ -6287.9369] [ 969] [depth= 2] . ( 14 sec) [ -6287.8412] [ 969] [depth= 1] . ( 14 sec) [ -6287.5520] [ 969] [depth= 3] . ( 14 sec) [ -6283.0589] [ 969] [depth= 6] . ( 15 sec) [ -6263.2829] [ 964] [depth= 6] . ( 15 sec) [ -6250.4498] [ 960] [depth= 2] . ( 15 sec) [ -6222.9046] [ 952] [depth= 5] . ( 15 sec) [ -6213.0476] [ 950] [depth= 6] . ( 16 sec) [ -6208.5650] [ 950] [depth= 2] . ( 16 sec) [ -6208.3192] [ 950] [depth= 2] . ( 16 sec) [ -6205.0208] [ 949] [depth= 1] . ( 16 sec) [ -6202.2102] [ 948] [depth= 4] . ( 16 sec) [ -6185.8416] [ 948] [depth= 3] . ( 17 sec) [ -6184.6224] [ 947] [depth= 2] . ( 17 sec) [ -6184.3069] [ 947] [depth= 1] . ( 17 sec) [ -6181.6961] [ 947] [depth= 3] . ( 17 sec) [ -6173.4533] [ 944] [depth= 7] . ( 17 sec) [ -6161.9252] [ 941] [depth= 3] . ( 17 sec) [ -6139.1135] [ 937] [depth= 5] . ( 17 sec) [ -6139.0807] [ 940] [depth= 1] . ( 17 sec) [ -6110.0991] [ 932] [depth= 6] . ( 18 sec) [ -6109.5387] [ 932] [depth= 2] . ( 18 sec) [ -6108.2896] [ 931] [depth= 2] . ( 19 sec) [ -6106.0688] [ 931] [depth= 3] . ( 19 sec) [ -6078.3802] [ 924] [depth= 1] . ( 19 sec) [ -6070.1210] [ 924] [depth= 1] . ( 19 sec) [ -6063.9364] [ 924] [depth= 1] . ( 19 sec) [ -6063.9007] [ 924] [depth= 1] . ( 19 sec) [ -6062.4350] [ 924] [depth= 2] . ( 19 sec) [ -6061.9186] [ 925] [depth= 1] . ( 19 sec) [ -6038.7642] [ 916] [depth= 7] . ( 19 sec) [ -6029.1420] [ 914] [depth= 5] . ( 19 sec) [ -6027.5683] [ 914] [depth= 1] . ( 19 sec) [ -6020.5911] [ 914] [depth= 5] . ( 20 sec) [ -6020.0215] [ 914] [depth= 2] . ( 20 sec) [ -6007.8579] [ 911] [depth= 2] . ( 20 sec) [ -6007.8203] [ 911] [depth= 3] . ( 20 sec) [ -5998.3262] [ 909] [depth= 4] . ( 21 sec) [ -5992.0584] [ 907] [depth= 3] . ( 21 sec) [ -5986.3942] [ 907] [depth= 3] . ( 22 sec) [ -5985.0250] [ 907] [depth= 6] . ( 22 sec) [ -5984.9984] [ 907] [depth= 1] . ( 23 sec) [ -5944.6877] [Branch lengths ] . ( 24 sec) [ -5866.9318] [GTR parameters ] . ( 24 sec) [ -5866.5516] [Alpha ][ 0.541328] . ( 27 sec) [ -5865.9089] [ 907] [depth= 4] . ( 28 sec) [ -5862.2372] [ 905] [depth= 2] . ( 29 sec) [ -5862.1564] [ 905] [depth= 1] . ( 29 sec) [ -5859.3810] [ 904] [depth= 3] . ( 31 sec) [ -5858.5461] [ 904] [depth= 4] . ( 31 sec) [ -5858.4642] [ 904] [depth= 2] . ( 31 sec) [ -5857.0929] [ 904] [depth= 1] . ( 31 sec) [ -5856.8335] [ 904] [depth= 2] . ( 32 sec) [ -5847.8794] [ 898] [depth= 8] . ( 34 sec) [ -5847.6165] [ 897] [depth= 2] . ( 34 sec) [ -5847.4537] [ 897] [depth= 1] . ( 34 sec) [ -5847.0095] [ 898] [depth= 3] . ( 36 sec) [ -5830.4796] [ 893] [depth= 6] . ( 37 sec) [ -5830.1333] [ 893] [depth= 4] . ( 37 sec) [ -5830.0066] [ 893] [depth= 1] . ( 38 sec) [ -5829.2297] [ 893] [depth= 2] . ( 38 sec) [ -5825.6411] [ 892] [depth= 1] . ( 38 sec) [ -5824.2635] [ 891] [depth= 1] . ( 39 sec) [ -5821.7353] [ 890] [depth= 2] . ( 39 sec) [ -5821.7189] [ 890] [depth= 1] . ( 39 sec) [ -5820.0930] [ 889] [depth= 2] . ( 42 sec) [ -5819.7762] [ 889] [depth= 1] . ( 44 sec) [ -5817.7155] [ 890] [depth= 4] . ( 44 sec) [ -5817.1112] [ 890] [depth= 1] . ( 44 sec) [ -5817.0961] [ 891] [depth= 1] . ( 44 sec) [ -5816.1452] [ 887] [depth= 1] . ( 45 sec) [ -5814.7777] [ 885] [depth= 1] . ( 46 sec) [ -5814.3060] [ 885] [depth= 1] . ( 46 sec) [ -5813.4961] [ 887] [depth= 1] . ( 47 sec) [ -5813.2593] [ 887] [depth= 3] . ( 48 sec) [ -5808.6628] [ 886] [depth= 1] . ( 49 sec) [ -5808.5520] [ 886] [depth= 1] . ( 49 sec) [ -5808.5335] [ 886] [depth= 3] . ( 50 sec) [ -5808.0486] [ 890] [depth= 10] . ( 50 sec) [ -5806.7423] [ 887] [depth= 4] . ( 51 sec) [ -5806.7062] [ 887] [depth= 4] . ( 51 sec) [ -5806.3318] [ 888] [depth= 1] . ( 51 sec) [ -5805.0810] [ 888] [depth= 1] . ( 51 sec) [ -5804.2222] [ 887] [depth= 1] . ( 54 sec) [ -5804.0658] [ 887] [depth= 2] . ( 54 sec) [ -5803.5708] [ 886] [depth= 3] . ( 56 sec) [ -5803.4107] [ 888] [depth= 1] . ( 58 sec) [ -5801.8721] [ 889] [depth= 3] . ( 58 sec) [ -5797.9452] [ 887] [depth= 1] . ( 58 sec) [ -5797.6671] [ 887] [depth= 2] . ( 59 sec) [ -5797.6444] [ 887] [depth= 1] . ( 60 sec) [ -5796.3394] [ 887] [depth= 2] . ( 60 sec) [ -5796.2645] [ 886] [depth= 1] . ( 65 sec) [ -5796.0836] [ 886] [depth= 4] . ( 66 sec) [ -5790.9949] [Branch lengths ] . ( 67 sec) [ -5790.6877] [GTR parameters ] . ( 67 sec) [ -5790.6479] [Alpha ][ 0.555282] . ( 68 sec) [ -5788.9143] [ 885] [depth= 2] . ( 72 sec) [ -5785.4208] [ 884] [depth= 2] . ( 84 sec) [ -5785.2993] [ 885] [depth= 1] . ( 87 sec) [ -5785.2863] [ 885] [depth= 1] . ( 92 sec) [ -5784.9280] [ 885] [depth= 1] . ( 111 sec) [ -5784.8881] [ 884] [depth= 2] . ( 112 sec) [ -5784.8604] [ 884] [depth= 2] . ( 117 sec) [ -5784.8260] [ 884] [depth= 1] . ( 120 sec) [ -5783.8228] [Branch lengths ] . ( 121 sec) [ -5783.8115] [GTR parameters ] . ( 121 sec) [ -5783.8079] [Alpha ][ 0.559680] . ( 179 sec) [ -5782.1627] [Branch lengths ] . ( 238 sec) [ -5782.1434] [ 883] [depth= 1] . ( 240 sec) [ -5782.1212] [ 884] [depth= 3] . ( 251 sec) [ -5781.0782] [Branch lengths ] . ( 251 sec) [ -5781.0776] [GTR parameters ] . ( 251 sec) [ -5781.0775] [Alpha ][ 0.560499] . ( 319 sec) [ -5781.0608] [Branch lengths ] . ( 319 sec) [ -5781.0608] [Topology ] . ( 321 sec) [ -5781.0605] [Topology ] . ( 321 sec) [ -5781.0604] [GTR parameters ] . ( 321 sec) [ -5781.0604] [Alpha ][ 0.560499] . Checking for NNIs, optimizing five branches... . ( 331 sec) [ -5781.0603] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5781.060304. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 3 sec) [ -9797.8987] [GTR parameters ] . ( 3 sec) [ -9676.7411] [Alpha ][ 0.500960] . ( 4 sec) [ -9628.6179] [ 1342] [depth= 6] . ( 4 sec) [ -9607.6934] [ 1340] [depth= 9] . ( 4 sec) [ -9594.1329] [ 1339] [depth= 4] . ( 4 sec) [ -9585.0202] [ 1337] [depth= 2] . ( 4 sec) [ -9571.4373] [ 1336] [depth= 10] . ( 4 sec) [ -9547.2402] [ 1335] [depth= 5] . ( 4 sec) [ -9546.7328] [ 1335] [depth= 3] . ( 4 sec) [ -9529.0397] [ 1335] [depth= 1] . ( 4 sec) [ -9510.5727] [ 1333] [depth= 5] . ( 4 sec) [ -9493.2371] [ 1328] [depth= 17] . ( 4 sec) [ -9458.8149] [ 1320] [depth= 17] . ( 4 sec) [ -9418.2511] [ 1314] [depth= 19] . ( 5 sec) [ -9343.5611] [ 1312] [depth= 16] . ( 5 sec) [ -9253.6594] [ 1310] [depth= 2] . ( 5 sec) [ -9042.5069] [ 1307] [depth= 3] . ( 5 sec) [ -8863.6922] [ 1309] [depth= 1] . ( 5 sec) [ -8768.3547] [ 1297] [depth= 19] . ( 5 sec) [ -8721.3575] [ 1282] [depth= 17] . ( 5 sec) [ -8685.9064] [ 1283] [depth= 16] . ( 5 sec) [ -8626.8944] [ 1275] [depth= 7] . ( 5 sec) [ -8593.6139] [ 1268] [depth= 10] . ( 5 sec) [ -8580.9120] [ 1267] [depth= 1] . ( 5 sec) [ -8574.3396] [ 1263] [depth= 1] . ( 5 sec) [ -8530.3639] [ 1253] [depth= 13] . ( 6 sec) [ -8211.9788] [ 1244] [depth= 8] . ( 6 sec) [ -8207.5991] [ 1244] [depth= 1] . ( 6 sec) [ -8193.6568] [ 1238] [depth= 1] . ( 6 sec) [ -8023.1109] [ 1221] [depth= 7] . ( 6 sec) [ -8010.9020] [ 1218] [depth= 1] . ( 6 sec) [ -7968.9141] [ 1215] [depth= 4] . ( 6 sec) [ -7927.6019] [ 1204] [depth= 1] . ( 6 sec) [ -7834.8863] [ 1198] [depth= 11] . ( 6 sec) [ -7825.7754] [ 1205] [depth= 13] . ( 6 sec) [ -7807.9930] [ 1203] [depth= 5] . ( 6 sec) [ -7785.7043] [ 1195] [depth= 15] . ( 6 sec) [ -7731.8594] [ 1187] [depth= 21] . ( 7 sec) [ -7595.4519] [ 1186] [depth= 6] . ( 7 sec) [ -7593.6162] [ 1186] [depth= 1] . ( 7 sec) [ -7553.6964] [ 1181] [depth= 10] . ( 7 sec) [ -7542.2857] [ 1181] [depth= 1] . ( 7 sec) [ -7521.5838] [ 1177] [depth= 12] . ( 7 sec) [ -7521.2053] [ 1177] [depth= 1] . ( 7 sec) [ -7512.4044] [ 1175] [depth= 12] . ( 7 sec) [ -7506.8293] [ 1175] [depth= 1] . ( 7 sec) [ -7490.7298] [ 1170] [depth= 11] . ( 7 sec) [ -7376.6469] [ 1152] [depth= 12] . ( 7 sec) [ -7342.7631] [ 1147] [depth= 13] . ( 7 sec) [ -7328.8493] [ 1146] [depth= 8] . ( 8 sec) [ -7316.5563] [ 1146] [depth= 18] . ( 8 sec) [ -7275.4779] [ 1139] [depth= 17] . ( 8 sec) [ -7265.3884] [ 1137] [depth= 18] . ( 8 sec) [ -7259.2205] [ 1138] [depth= 8] . ( 8 sec) [ -7245.7920] [ 1137] [depth= 7] . ( 8 sec) [ -7243.2215] [ 1137] [depth= 2] . ( 8 sec) [ -7242.9030] [ 1136] [depth= 7] . ( 8 sec) [ -7237.0426] [ 1135] [depth= 1] . ( 8 sec) [ -7191.8114] [ 1128] [depth= 17] . ( 8 sec) [ -7182.2062] [ 1126] [depth= 15] . ( 8 sec) [ -7179.4993] [ 1124] [depth= 6] . ( 8 sec) [ -7132.4657] [ 1117] [depth= 9] . ( 9 sec) [ -7126.1433] [ 1115] [depth= 9] . ( 9 sec) [ -7120.5560] [ 1112] [depth= 7] . ( 9 sec) [ -7088.1638] [ 1095] [depth= 1] . ( 9 sec) [ -7063.6345] [ 1091] [depth= 2] . ( 9 sec) [ -7032.9860] [ 1086] [depth= 6] . ( 9 sec) [ -6994.2171] [ 1073] [depth= 6] . ( 9 sec) [ -6967.3665] [ 1067] [depth= 11] . ( 9 sec) [ -6941.1594] [ 1063] [depth= 3] . ( 9 sec) [ -6938.5518] [ 1063] [depth= 1] . ( 9 sec) [ -6937.7843] [ 1062] [depth= 2] . ( 9 sec) [ -6929.8752] [ 1062] [depth= 1] . ( 9 sec) [ -6921.3081] [ 1060] [depth= 1] . ( 10 sec) [ -6899.0259] [ 1054] [depth= 3] . ( 10 sec) [ -6896.3141] [ 1052] [depth= 10] . ( 10 sec) [ -6893.5859] [ 1052] [depth= 1] . ( 10 sec) [ -6888.6341] [ 1051] [depth= 4] . ( 11 sec) [ -6880.9289] [ 1050] [depth= 1] . ( 11 sec) [ -6880.8063] [ 1050] [depth= 1] . ( 11 sec) [ -6868.7823] [ 1046] [depth= 2] . ( 11 sec) [ -6827.0595] [ 1038] [depth= 10] . ( 11 sec) [ -6820.3750] [ 1038] [depth= 3] . ( 11 sec) [ -6819.5269] [ 1038] [depth= 2] . ( 11 sec) [ -6817.2635] [ 1038] [depth= 2] . ( 11 sec) [ -6816.7304] [ 1038] [depth= 3] . ( 11 sec) [ -6746.7954] [ 1024] [depth= 12] . ( 11 sec) [ -6745.9266] [ 1025] [depth= 1] . ( 12 sec) [ -6738.9119] [ 1025] [depth= 3] . ( 12 sec) [ -6738.7113] [ 1025] [depth= 1] . ( 12 sec) [ -6737.9728] [ 1025] [depth= 3] . ( 12 sec) [ -6736.0330] [ 1024] [depth= 7] . ( 13 sec) [ -6735.9632] [ 1024] [depth= 4] . ( 13 sec) [ -6735.9429] [ 1024] [depth= 3] . ( 13 sec) [ -6735.9324] [ 1024] [depth= 5] . ( 13 sec) [ -6725.7184] [ 1021] [depth= 1] . ( 13 sec) [ -6718.5319] [ 1019] [depth= 3] . ( 13 sec) [ -6705.4153] [ 1015] [depth= 8] . ( 13 sec) [ -6700.8402] [ 1016] [depth= 3] . ( 13 sec) [ -6697.7711] [ 1015] [depth= 2] . ( 13 sec) [ -6696.7332] [ 1015] [depth= 1] . ( 13 sec) [ -6680.8105] [ 1008] [depth= 6] . ( 14 sec) [ -6673.2956] [ 1007] [depth= 6] . ( 14 sec) [ -6668.3543] [ 1005] [depth= 2] . ( 14 sec) [ -6664.4899] [ 1005] [depth= 2] . ( 14 sec) [ -6642.7428] [ 997] [depth= 7] . ( 14 sec) [ -6613.8964] [ 994] [depth= 1] . ( 14 sec) [ -6610.9234] [ 994] [depth= 1] . ( 14 sec) [ -6574.6426] [ 985] [depth= 1] . ( 14 sec) [ -6571.1912] [ 984] [depth= 1] . ( 14 sec) [ -6567.2092] [ 983] [depth= 1] . ( 15 sec) [ -6563.2658] [ 982] [depth= 1] . ( 15 sec) [ -6562.7213] [ 975] [depth= 12] . ( 15 sec) [ -6403.4537] [ 964] [depth= 10] . ( 15 sec) [ -6365.9575] [ 955] [depth= 2] . ( 15 sec) [ -6365.0539] [ 956] [depth= 2] . ( 15 sec) [ -6354.0589] [ 955] [depth= 1] . ( 16 sec) [ -6274.8046] [ 947] [depth= 5] . ( 16 sec) [ -6273.2898] [ 947] [depth= 1] . ( 16 sec) [ -6273.0148] [ 947] [depth= 4] . ( 16 sec) [ -6258.3030] [ 942] [depth= 1] . ( 16 sec) [ -6240.3813] [ 936] [depth= 1] . ( 17 sec) [ -6232.6865] [ 932] [depth= 1] . ( 17 sec) [ -6232.3601] [ 932] [depth= 1] . ( 17 sec) [ -6217.6683] [ 931] [depth= 1] . ( 17 sec) [ -6205.8450] [ 930] [depth= 5] . ( 18 sec) [ -6199.0613] [ 929] [depth= 2] . ( 19 sec) [ -6196.2653] [ 928] [depth= 3] . ( 19 sec) [ -6195.7290] [ 928] [depth= 1] . ( 19 sec) [ -6195.5738] [ 929] [depth= 1] . ( 19 sec) [ -6194.7853] [ 929] [depth= 1] . ( 19 sec) [ -6185.4126] [ 927] [depth= 3] . ( 19 sec) [ -6148.2971] [ 921] [depth= 6] . ( 19 sec) [ -6123.6674] [ 917] [depth= 4] . ( 19 sec) [ -6120.5533] [ 918] [depth= 1] . ( 20 sec) [ -6111.5859] [ 917] [depth= 2] . ( 20 sec) [ -6092.3665] [ 921] [depth= 1] . ( 20 sec) [ -6020.3980] [ 930] [depth= 1] . ( 20 sec) [ -6000.8526] [ 923] [depth= 2] . ( 20 sec) [ -5991.9367] [ 927] [depth= 3] . ( 21 sec) [ -5990.8264] [ 928] [depth= 6] . ( 21 sec) [ -5987.7608] [ 927] [depth= 5] . ( 21 sec) [ -5987.3720] [ 927] [depth= 1] . ( 21 sec) [ -5987.0626] [ 927] [depth= 2] . ( 21 sec) [ -5958.1764] [ 921] [depth= 1] . ( 22 sec) [ -5956.5537] [ 920] [depth= 2] . ( 22 sec) [ -5952.9961] [ 917] [depth= 2] . ( 22 sec) [ -5948.2274] [ 915] [depth= 13] . ( 22 sec) [ -5930.2219] [ 912] [depth= 4] . ( 22 sec) [ -5924.6746] [ 911] [depth= 1] . ( 22 sec) [ -5923.5165] [ 911] [depth= 1] . ( 22 sec) [ -5923.4001] [ 911] [depth= 1] . ( 23 sec) [ -5918.1024] [ 909] [depth= 4] . ( 24 sec) [ -5877.1260] [Branch lengths ] . ( 26 sec) [ -5857.4444] [GTR parameters ] . ( 26 sec) [ -5857.2365] [Alpha ][ 0.530209] . ( 27 sec) [ -5849.3049] [ 907] [depth= 7] . ( 27 sec) [ -5848.9757] [ 907] [depth= 3] . ( 28 sec) [ -5847.4812] [ 906] [depth= 1] . ( 28 sec) [ -5847.4648] [ 906] [depth= 1] . ( 29 sec) [ -5847.4337] [ 905] [depth= 1] . ( 29 sec) [ -5847.4145] [ 903] [depth= 2] . ( 30 sec) [ -5845.7424] [ 902] [depth= 1] . ( 30 sec) [ -5844.2374] [ 903] [depth= 1] . ( 30 sec) [ -5843.9943] [ 905] [depth= 1] . ( 30 sec) [ -5840.1895] [ 904] [depth= 5] . ( 31 sec) [ -5840.1509] [ 904] [depth= 2] . ( 32 sec) [ -5824.5567] [ 898] [depth= 5] . ( 32 sec) [ -5824.4217] [ 898] [depth= 1] . ( 33 sec) [ -5816.2371] [ 895] [depth= 1] . ( 34 sec) [ -5816.1705] [ 895] [depth= 1] . ( 35 sec) [ -5816.1279] [ 895] [depth= 1] . ( 37 sec) [ -5815.2801] [ 894] [depth= 1] . ( 37 sec) [ -5810.7134] [ 893] [depth= 3] . ( 38 sec) [ -5810.5245] [ 893] [depth= 1] . ( 39 sec) [ -5810.3081] [ 893] [depth= 1] . ( 40 sec) [ -5809.9192] [ 893] [depth= 2] . ( 40 sec) [ -5808.6409] [ 893] [depth= 1] . ( 41 sec) [ -5808.0358] [ 893] [depth= 2] . ( 43 sec) [ -5807.8609] [ 893] [depth= 2] . ( 49 sec) [ -5804.8731] [ 892] [depth= 1] . ( 50 sec) [ -5804.7185] [ 892] [depth= 1] . ( 50 sec) [ -5801.8705] [ 889] [depth= 4] . ( 50 sec) [ -5801.7750] [ 889] [depth= 2] . ( 52 sec) [ -5801.2428] [ 889] [depth= 1] . ( 52 sec) [ -5801.1546] [ 888] [depth= 1] . ( 52 sec) [ -5799.4426] [ 881] [depth= 5] . ( 57 sec) [ -5799.3669] [ 881] [depth= 1] . ( 57 sec) [ -5799.2528] [ 881] [depth= 1] . ( 59 sec) [ -5799.0326] [ 881] [depth= 1] . ( 60 sec) [ -5798.6559] [ 878] [depth= 1] . ( 60 sec) [ -5795.3661] [ 877] [depth= 1] . ( 60 sec) [ -5794.7871] [ 876] [depth= 1] . ( 61 sec) [ -5794.1125] [ 876] [depth= 1] . ( 64 sec) [ -5792.4069] [ 875] [depth= 1] . ( 64 sec) [ -5791.7860] [ 876] [depth= 1] . ( 65 sec) [ -5791.7368] [ 876] [depth= 1] . ( 67 sec) [ -5785.1042] [Branch lengths ] . ( 68 sec) [ -5784.9970] [GTR parameters ] . ( 69 sec) [ -5784.6805] [Alpha ][ 0.570198] . ( 76 sec) [ -5784.6654] [ 876] [depth= 2] . ( 82 sec) [ -5783.6094] [ 875] [depth= 1] . ( 100 sec) [ -5783.5165] [ 875] [depth= 2] . ( 112 sec) [ -5783.4988] [ 875] [depth= 1] . ( 118 sec) [ -5782.2603] [Branch lengths ] . ( 119 sec) [ -5782.2485] [GTR parameters ] . ( 119 sec) [ -5782.2482] [Alpha ][ 0.568798] . ( 142 sec) [ -5782.2331] [ 875] [depth= 1] . ( 155 sec) [ -5782.2231] [ 875] [depth= 1] . ( 173 sec) [ -5782.1778] [Branch lengths ] . ( 174 sec) [ -5782.1776] [GTR parameters ] . ( 174 sec) [ -5782.1776] [Alpha ][ 0.568798] . ( 250 sec) [ -5782.1604] [Branch lengths ] . ( 250 sec) [ -5782.1604] [Topology ] . ( 251 sec) [ -5782.1556] [Topology ] . ( 253 sec) [ -5782.1544] [Topology ] . ( 254 sec) [ -5782.1536] [Topology ] . ( 255 sec) [ -5782.1534] [GTR parameters ] . ( 255 sec) [ -5782.1534] [Alpha ][ 0.568798] . ( 255 sec) [ -5782.1534] [Topology ] . ( 256 sec) [ -5782.1528] [Topology ] . ( 257 sec) [ -5782.1528] [GTR parameters ] . ( 257 sec) [ -5782.1528] [Alpha ][ 0.568798] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5782.152798. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -10166.0795] [GTR parameters ] . ( 2 sec) [ -10034.6319] [Alpha ][ 0.500960] . ( 2 sec) [ -10007.1925] [ 1345] [depth= 14] . ( 2 sec) [ -9983.3417] [ 1345] [depth= 5] . ( 2 sec) [ -9860.2265] [ 1339] [depth= 12] . ( 2 sec) [ -9858.9729] [ 1339] [depth= 1] . ( 2 sec) [ -9853.8931] [ 1338] [depth= 1] . ( 2 sec) [ -9715.6954] [ 1339] [depth= 1] . ( 2 sec) [ -9695.2024] [ 1336] [depth= 2] . ( 2 sec) [ -9693.0227] [ 1336] [depth= 2] . ( 2 sec) [ -9654.3504] [ 1332] [depth= 10] . ( 2 sec) [ -9625.4397] [ 1325] [depth= 2] . ( 3 sec) [ -9423.0017] [ 1324] [depth= 3] . ( 3 sec) [ -9418.4997] [ 1324] [depth= 1] . ( 3 sec) [ -9405.1549] [ 1321] [depth= 7] . ( 3 sec) [ -9403.9640] [ 1320] [depth= 1] . ( 3 sec) [ -9386.4226] [ 1319] [depth= 7] . ( 3 sec) [ -9363.0295] [ 1316] [depth= 5] . ( 3 sec) [ -9263.0124] [ 1313] [depth= 8] . ( 3 sec) [ -9260.8062] [ 1312] [depth= 3] . ( 3 sec) [ -9259.5376] [ 1312] [depth= 1] . ( 3 sec) [ -9221.2919] [ 1312] [depth= 4] . ( 3 sec) [ -9217.5278] [ 1312] [depth= 1] . ( 3 sec) [ -9190.2379] [ 1312] [depth= 3] . ( 3 sec) [ -9162.6774] [ 1311] [depth= 10] . ( 3 sec) [ -9120.2718] [ 1305] [depth= 24] . ( 4 sec) [ -9041.5878] [ 1301] [depth= 1] . ( 4 sec) [ -8956.2307] [ 1294] [depth= 20] . ( 4 sec) [ -8891.6882] [ 1283] [depth= 9] . ( 4 sec) [ -8858.2852] [ 1271] [depth= 14] . ( 4 sec) [ -8822.4417] [ 1268] [depth= 13] . ( 4 sec) [ -8328.5613] [ 1263] [depth= 15] . ( 4 sec) [ -8156.1278] [ 1257] [depth= 9] . ( 4 sec) [ -8130.9195] [ 1254] [depth= 6] . ( 4 sec) [ -8111.7609] [ 1254] [depth= 6] . ( 4 sec) [ -8072.4220] [ 1247] [depth= 6] . ( 4 sec) [ -8023.3118] [ 1238] [depth= 8] . ( 4 sec) [ -7963.1567] [ 1236] [depth= 21] . ( 4 sec) [ -7961.0763] [ 1236] [depth= 4] . ( 5 sec) [ -7946.6962] [ 1234] [depth= 4] . ( 5 sec) [ -7908.0675] [ 1222] [depth= 15] . ( 5 sec) [ -7887.4404] [ 1221] [depth= 3] . ( 5 sec) [ -7871.8448] [ 1214] [depth= 5] . ( 5 sec) [ -7868.3142] [ 1213] [depth= 5] . ( 5 sec) [ -7805.5920] [ 1202] [depth= 8] . ( 5 sec) [ -7794.2756] [ 1198] [depth= 1] . ( 5 sec) [ -7783.0758] [ 1194] [depth= 4] . ( 5 sec) [ -7770.3323] [ 1193] [depth= 14] . ( 5 sec) [ -7734.6475] [ 1190] [depth= 22] . ( 5 sec) [ -7670.9450] [ 1184] [depth= 14] . ( 6 sec) [ -7662.9201] [ 1183] [depth= 4] . ( 6 sec) [ -7631.0737] [ 1163] [depth= 13] . ( 6 sec) [ -7625.5354] [ 1168] [depth= 1] . ( 6 sec) [ -7573.0400] [ 1151] [depth= 12] . ( 6 sec) [ -7515.7771] [ 1156] [depth= 5] . ( 6 sec) [ -7507.2064] [ 1155] [depth= 5] . ( 6 sec) [ -7493.2158] [ 1156] [depth= 1] . ( 6 sec) [ -7475.4011] [ 1147] [depth= 11] . ( 7 sec) [ -7440.3108] [ 1139] [depth= 9] . ( 7 sec) [ -7409.1360] [ 1133] [depth= 12] . ( 7 sec) [ -7347.4771] [ 1116] [depth= 15] . ( 7 sec) [ -7339.1029] [ 1116] [depth= 1] . ( 7 sec) [ -7335.7670] [ 1114] [depth= 2] . ( 7 sec) [ -7333.3070] [ 1117] [depth= 1] . ( 7 sec) [ -7328.4295] [ 1120] [depth= 1] . ( 7 sec) [ -7306.6728] [ 1116] [depth= 11] . ( 7 sec) [ -7296.0733] [ 1116] [depth= 2] . ( 7 sec) [ -7292.5290] [ 1116] [depth= 2] . ( 7 sec) [ -7273.6631] [ 1116] [depth= 1] . ( 7 sec) [ -7272.3893] [ 1116] [depth= 3] . ( 7 sec) [ -7269.6864] [ 1116] [depth= 3] . ( 7 sec) [ -7219.9000] [ 1103] [depth= 12] . ( 8 sec) [ -7196.8909] [ 1099] [depth= 4] . ( 8 sec) [ -7159.5320] [ 1092] [depth= 2] . ( 8 sec) [ -7073.0793] [ 1075] [depth= 3] . ( 8 sec) [ -7063.7477] [ 1072] [depth= 7] . ( 8 sec) [ -7055.3826] [ 1072] [depth= 4] . ( 8 sec) [ -7049.2230] [ 1072] [depth= 1] . ( 8 sec) [ -7020.5055] [ 1068] [depth= 13] . ( 8 sec) [ -6979.8149] [ 1057] [depth= 19] . ( 8 sec) [ -6953.2898] [ 1052] [depth= 9] . ( 9 sec) [ -6940.0909] [ 1050] [depth= 9] . ( 9 sec) [ -6926.0015] [ 1048] [depth= 17] . ( 9 sec) [ -6918.6490] [ 1045] [depth= 2] . ( 9 sec) [ -6902.6920] [ 1043] [depth= 4] . ( 9 sec) [ -6893.6537] [ 1042] [depth= 1] . ( 9 sec) [ -6866.1125] [ 1049] [depth= 2] . ( 9 sec) [ -6851.6831] [ 1045] [depth= 1] . ( 9 sec) [ -6833.2707] [ 1038] [depth= 7] . ( 9 sec) [ -6821.6294] [ 1036] [depth= 4] . ( 9 sec) [ -6818.4956] [ 1034] [depth= 2] . ( 9 sec) [ -6815.5823] [ 1035] [depth= 1] . ( 9 sec) [ -6791.3109] [ 1031] [depth= 1] . ( 10 sec) [ -6780.8302] [ 1022] [depth= 2] . ( 10 sec) [ -6777.4330] [ 1021] [depth= 1] . ( 10 sec) [ -6755.7516] [ 1023] [depth= 2] . ( 10 sec) [ -6755.1342] [ 1023] [depth= 4] . ( 10 sec) [ -6748.0022] [ 1022] [depth= 1] . ( 10 sec) [ -6715.2967] [ 1018] [depth= 16] . ( 10 sec) [ -6707.7339] [ 1017] [depth= 1] . ( 10 sec) [ -6699.2662] [ 1015] [depth= 1] . ( 10 sec) [ -6692.7456] [ 1013] [depth= 7] . ( 10 sec) [ -6685.1515] [ 1012] [depth= 6] . ( 11 sec) [ -6684.2113] [ 1012] [depth= 1] . ( 11 sec) [ -6684.0893] [ 1012] [depth= 1] . ( 11 sec) [ -6682.8637] [ 1011] [depth= 5] . ( 11 sec) [ -6680.3323] [ 1012] [depth= 3] . ( 11 sec) [ -6651.7862] [ 1006] [depth= 21] . ( 11 sec) [ -6643.6142] [ 1005] [depth= 6] . ( 12 sec) [ -6641.9834] [ 1005] [depth= 5] . ( 12 sec) [ -6636.2254] [ 1004] [depth= 3] . ( 12 sec) [ -6630.6995] [ 1003] [depth= 1] . ( 12 sec) [ -6630.4008] [ 1003] [depth= 4] . ( 12 sec) [ -6630.1892] [ 1003] [depth= 3] . ( 12 sec) [ -6585.2621] [ 993] [depth= 9] . ( 12 sec) [ -6554.6148] [ 986] [depth= 1] . ( 12 sec) [ -6546.1740] [ 985] [depth= 1] . ( 12 sec) [ -6529.2789] [ 980] [depth= 6] . ( 12 sec) [ -6499.5650] [ 970] [depth= 10] . ( 14 sec) [ -6495.5246] [ 970] [depth= 2] . ( 14 sec) [ -6492.1459] [ 969] [depth= 2] . ( 14 sec) [ -6491.0797] [ 969] [depth= 1] . ( 14 sec) [ -6467.8502] [ 964] [depth= 3] . ( 14 sec) [ -6466.3542] [ 965] [depth= 3] . ( 14 sec) [ -6462.6134] [ 964] [depth= 4] . ( 14 sec) [ -6461.5837] [ 964] [depth= 1] . ( 14 sec) [ -6461.3851] [ 964] [depth= 5] . ( 14 sec) [ -6449.6288] [ 964] [depth= 6] . ( 14 sec) [ -6437.6723] [ 963] [depth= 3] . ( 14 sec) [ -6426.1193] [ 956] [depth= 12] . ( 15 sec) [ -6421.4008] [ 956] [depth= 4] . ( 15 sec) [ -6415.5662] [ 953] [depth= 7] . ( 15 sec) [ -6368.5757] [ 948] [depth= 3] . ( 15 sec) [ -6311.0238] [ 947] [depth= 2] . ( 15 sec) [ -6304.6932] [ 946] [depth= 1] . ( 15 sec) [ -6301.9463] [ 946] [depth= 1] . ( 15 sec) [ -6294.4144] [ 944] [depth= 5] . ( 15 sec) [ -6290.4342] [ 943] [depth= 1] . ( 15 sec) [ -6270.5945] [ 943] [depth= 3] . ( 16 sec) [ -6259.1515] [ 940] [depth= 1] . ( 16 sec) [ -6255.8533] [ 939] [depth= 8] . ( 16 sec) [ -6249.1200] [ 937] [depth= 7] . ( 17 sec) [ -6231.1331] [ 932] [depth= 1] . ( 17 sec) [ -6231.0127] [ 932] [depth= 2] . ( 17 sec) [ -6228.2156] [ 931] [depth= 1] . ( 18 sec) [ -6227.6071] [ 931] [depth= 4] . ( 18 sec) [ -6227.5939] [ 931] [depth= 1] . ( 18 sec) [ -6227.5222] [ 931] [depth= 4] . ( 19 sec) [ -6227.3667] [ 931] [depth= 4] . ( 19 sec) [ -6227.3173] [ 931] [depth= 6] . ( 19 sec) [ -6062.4575] [ 931] [depth= 1] . ( 19 sec) [ -6058.6811] [ 931] [depth= 1] . ( 19 sec) [ -6058.5729] [ 931] [depth= 1] . ( 20 sec) [ -6007.5178] [ 908] [depth= 17] . ( 20 sec) [ -6002.8333] [ 907] [depth= 1] . ( 20 sec) [ -5984.7633] [ 902] [depth= 2] . ( 20 sec) [ -5977.9811] [ 900] [depth= 1] . ( 20 sec) [ -5929.2811] [Branch lengths ] . ( 24 sec) [ -5870.3109] [GTR parameters ] . ( 24 sec) [ -5869.9109] [Alpha ][ 0.542066] . ( 26 sec) [ -5869.7735] [ 900] [depth= 4] . ( 27 sec) [ -5869.2386] [ 901] [depth= 4] . ( 27 sec) [ -5867.4408] [ 901] [depth= 2] . ( 28 sec) [ -5864.8340] [ 900] [depth= 3] . ( 28 sec) [ -5862.7584] [ 899] [depth= 1] . ( 28 sec) [ -5861.0278] [ 898] [depth= 1] . ( 28 sec) [ -5860.3971] [ 897] [depth= 1] . ( 29 sec) [ -5860.3758] [ 897] [depth= 1] . ( 30 sec) [ -5858.0329] [ 898] [depth= 7] . ( 30 sec) [ -5857.8727] [ 899] [depth= 1] . ( 30 sec) [ -5856.0062] [ 899] [depth= 3] . ( 30 sec) [ -5853.9902] [ 898] [depth= 1] . ( 30 sec) [ -5853.9594] [ 898] [depth= 6] . ( 31 sec) [ -5853.9340] [ 898] [depth= 2] . ( 31 sec) [ -5833.0300] [ 894] [depth= 4] . ( 34 sec) [ -5828.7511] [ 891] [depth= 2] . ( 35 sec) [ -5828.7277] [ 891] [depth= 1] . ( 40 sec) [ -5828.6540] [ 891] [depth= 1] . ( 40 sec) [ -5821.7016] [ 889] [depth= 6] . ( 42 sec) [ -5821.6773] [ 889] [depth= 1] . ( 43 sec) [ -5815.7838] [ 888] [depth= 6] . ( 44 sec) [ -5812.7638] [ 888] [depth= 5] . ( 50 sec) [ -5812.7535] [ 888] [depth= 4] . ( 51 sec) [ -5812.7034] [ 889] [depth= 1] . ( 51 sec) [ -5812.0834] [ 889] [depth= 1] . ( 52 sec) [ -5807.3915] [ 888] [depth= 9] . ( 53 sec) [ -5802.2706] [ 887] [depth= 4] . ( 55 sec) [ -5802.1341] [ 887] [depth= 2] . ( 55 sec) [ -5802.0627] [ 887] [depth= 3] . ( 56 sec) [ -5802.0149] [ 887] [depth= 1] . ( 57 sec) [ -5801.8820] [ 887] [depth= 1] . ( 59 sec) [ -5801.6430] [ 887] [depth= 3] . ( 60 sec) [ -5801.2942] [ 887] [depth= 1] . ( 61 sec) [ -5801.1080] [ 887] [depth= 1] . ( 62 sec) [ -5801.0938] [ 887] [depth= 2] . ( 63 sec) [ -5801.0714] [ 887] [depth= 5] . ( 66 sec) [ -5792.8796] [Branch lengths ] . ( 68 sec) [ -5792.6810] [GTR parameters ] . ( 69 sec) [ -5792.6421] [Alpha ][ 0.555834] . ( 69 sec) [ -5790.3969] [ 887] [depth= 1] . ( 71 sec) [ -5790.3617] [ 887] [depth= 1] . ( 72 sec) [ -5789.1369] [ 886] [depth= 4] . ( 72 sec) [ -5788.9061] [ 886] [depth= 2] . ( 75 sec) [ -5788.7652] [ 886] [depth= 1] . ( 78 sec) [ -5787.7059] [ 885] [depth= 1] . ( 78 sec) [ -5787.6872] [ 885] [depth= 4] . ( 78 sec) [ -5785.2316] [ 884] [depth= 2] . ( 78 sec) [ -5785.2027] [ 884] [depth= 1] . ( 83 sec) [ -5784.9196] [ 883] [depth= 1] . ( 84 sec) [ -5784.8597] [ 883] [depth= 5] . ( 87 sec) [ -5784.7016] [ 884] [depth= 2] . ( 91 sec) [ -5784.6868] [ 884] [depth= 1] . ( 97 sec) [ -5784.6679] [ 885] [depth= 1] . ( 99 sec) [ -5784.4957] [ 884] [depth= 1] . ( 107 sec) [ -5784.3984] [ 884] [depth= 1] . ( 107 sec) [ -5784.3571] [ 884] [depth= 1] . ( 115 sec) [ -5783.3249] [Branch lengths ] . ( 118 sec) [ -5783.2940] [GTR parameters ] . ( 118 sec) [ -5783.2902] [Alpha ][ 0.560348] . ( 166 sec) [ -5783.2081] [ 884] [depth= 3] . ( 175 sec) [ -5783.0220] [Branch lengths ] . ( 175 sec) [ -5783.0220] [GTR parameters ] . ( 175 sec) [ -5783.0220] [Alpha ][ 0.560348] . ( 198 sec) [ -5783.0041] [ 883] [depth= 1] . ( 248 sec) [ -5782.8538] [Branch lengths ] . ( 250 sec) [ -5782.8520] [GTR parameters ] . ( 250 sec) [ -5782.8520] [Alpha ][ 0.560348] . ( 250 sec) [ -5782.8520] [Topology ] . ( 252 sec) [ -5782.8353] [Topology ] . ( 253 sec) [ -5782.8297] [Topology ] . ( 255 sec) [ -5782.8259] [Topology ] . ( 256 sec) [ -5782.8227] [Topology ] . ( 258 sec) [ -5782.8198] [Topology ] . ( 259 sec) [ -5782.8174] [Topology ] . ( 260 sec) [ -5782.8169] [GTR parameters ] . ( 260 sec) [ -5782.8169] [Alpha ][ 0.560348] . ( 260 sec) [ -5782.8169] [Topology ] . ( 261 sec) [ -5782.8155] [Topology ] . ( 263 sec) [ -5782.8150] [Topology ] . ( 263 sec) [ -5782.8150] [GTR parameters ] . ( 263 sec) [ -5782.8150] [Alpha ][ 0.560908] . ( 263 sec) [ -5782.8150] [Topology ] . ( 265 sec) [ -5782.8149] [Topology ] . ( 265 sec) [ -5782.8149] [GTR parameters ] . ( 266 sec) [ -5782.8149] [Alpha ][ 0.560908] . Checking for NNIs, optimizing five branches... . ( 275 sec) [ -5782.8148] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5782.814778. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 2 sec) [ -10063.6437] [GTR parameters ] . ( 2 sec) [ -9934.7319] [Alpha ][ 0.500960] . ( 2 sec) [ -9890.3504] [ 1340] [depth= 6] . ( 2 sec) [ -9669.2830] [ 1334] [depth= 9] . ( 2 sec) [ -9663.1523] [ 1331] [depth= 3] . ( 2 sec) [ -9616.9390] [ 1330] [depth= 2] . ( 2 sec) [ -9606.2781] [ 1329] [depth= 6] . ( 2 sec) [ -9586.1906] [ 1329] [depth= 3] . ( 2 sec) [ -9555.5309] [ 1326] [depth= 6] . ( 2 sec) [ -9532.7681] [ 1322] [depth= 2] . ( 2 sec) [ -9524.5188] [ 1319] [depth= 5] . ( 3 sec) [ -9507.6739] [ 1316] [depth= 2] . ( 3 sec) [ -9450.4444] [ 1305] [depth= 21] . ( 3 sec) [ -9441.3242] [ 1303] [depth= 1] . ( 3 sec) [ -9437.1058] [ 1303] [depth= 17] . ( 3 sec) [ -9198.3066] [ 1301] [depth= 6] . ( 3 sec) [ -8654.6465] [ 1301] [depth= 10] . ( 3 sec) [ -8648.3846] [ 1301] [depth= 2] . ( 3 sec) [ -8642.7069] [ 1299] [depth= 10] . ( 3 sec) [ -8568.8088] [ 1282] [depth= 5] . ( 3 sec) [ -8514.2835] [ 1283] [depth= 15] . ( 3 sec) [ -8510.2180] [ 1282] [depth= 1] . ( 3 sec) [ -8506.4989] [ 1282] [depth= 3] . ( 4 sec) [ -8466.2669] [ 1272] [depth= 20] . ( 4 sec) [ -8420.2873] [ 1272] [depth= 9] . ( 4 sec) [ -8416.5442] [ 1273] [depth= 1] . ( 4 sec) [ -8404.0704] [ 1270] [depth= 5] . ( 4 sec) [ -8377.2902] [ 1271] [depth= 3] . ( 4 sec) [ -8337.7706] [ 1268] [depth= 6] . ( 4 sec) [ -8317.6796] [ 1268] [depth= 1] . ( 4 sec) [ -8206.7137] [ 1255] [depth= 13] . ( 4 sec) [ -8059.1601] [ 1245] [depth= 5] . ( 4 sec) [ -8017.5216] [ 1237] [depth= 17] . ( 4 sec) [ -8015.8548] [ 1238] [depth= 6] . ( 4 sec) [ -7987.6351] [ 1232] [depth= 7] . ( 4 sec) [ -7957.7386] [ 1220] [depth= 9] . ( 5 sec) [ -7953.6933] [ 1220] [depth= 1] . ( 5 sec) [ -7940.8079] [ 1220] [depth= 2] . ( 5 sec) [ -7867.7974] [ 1212] [depth= 2] . ( 5 sec) [ -7862.6794] [ 1212] [depth= 2] . ( 5 sec) [ -7780.1706] [ 1208] [depth= 6] . ( 5 sec) [ -7775.2365] [ 1208] [depth= 2] . ( 5 sec) [ -7771.8525] [ 1208] [depth= 1] . ( 5 sec) [ -7767.9468] [ 1208] [depth= 2] . ( 5 sec) [ -7747.6541] [ 1205] [depth= 2] . ( 5 sec) [ -7741.6898] [ 1203] [depth= 2] . ( 5 sec) [ -7725.1007] [ 1202] [depth= 5] . ( 5 sec) [ -7550.0350] [ 1194] [depth= 12] . ( 5 sec) [ -7532.3744] [ 1190] [depth= 6] . ( 6 sec) [ -7523.8281] [ 1189] [depth= 4] . ( 6 sec) [ -7502.1369] [ 1187] [depth= 14] . ( 6 sec) [ -7501.5899] [ 1187] [depth= 7] . ( 6 sec) [ -7478.4674] [ 1184] [depth= 13] . ( 6 sec) [ -7397.6622] [ 1176] [depth= 14] . ( 6 sec) [ -7321.0307] [ 1181] [depth= 8] . ( 6 sec) [ -7307.1101] [ 1179] [depth= 4] . ( 6 sec) [ -7306.8373] [ 1179] [depth= 1] . ( 6 sec) [ -7304.1163] [ 1178] [depth= 2] . ( 6 sec) [ -7300.2209] [ 1176] [depth= 3] . ( 6 sec) [ -7293.0425] [ 1174] [depth= 5] . ( 7 sec) [ -7254.4430] [ 1165] [depth= 16] . ( 7 sec) [ -7223.7014] [ 1162] [depth= 16] . ( 7 sec) [ -7206.1867] [ 1159] [depth= 15] . ( 7 sec) [ -7201.4368] [ 1153] [depth= 3] . ( 7 sec) [ -7152.6243] [ 1147] [depth= 19] . ( 7 sec) [ -7140.5388] [ 1145] [depth= 1] . ( 7 sec) [ -7127.3484] [ 1145] [depth= 2] . ( 7 sec) [ -7122.5887] [ 1142] [depth= 1] . ( 7 sec) [ -7109.0204] [ 1139] [depth= 13] . ( 7 sec) [ -7095.8226] [ 1128] [depth= 13] . ( 8 sec) [ -7092.8569] [ 1127] [depth= 2] . ( 8 sec) [ -7090.1102] [ 1126] [depth= 9] . ( 8 sec) [ -7073.3782] [ 1126] [depth= 1] . ( 8 sec) [ -7073.0058] [ 1126] [depth= 2] . ( 8 sec) [ -7034.7480] [ 1126] [depth= 3] . ( 8 sec) [ -7007.0160] [ 1119] [depth= 19] . ( 8 sec) [ -6952.0260] [ 1118] [depth= 15] . ( 8 sec) [ -6950.9214] [ 1118] [depth= 7] . ( 8 sec) [ -6947.4991] [ 1123] [depth= 20] . ( 8 sec) [ -6946.9488] [ 1123] [depth= 3] . ( 8 sec) [ -6946.7930] [ 1123] [depth= 1] . ( 8 sec) [ -6938.8604] [ 1122] [depth= 1] . ( 9 sec) [ -6899.8793] [ 1121] [depth= 2] . ( 9 sec) [ -6888.1379] [ 1119] [depth= 7] . ( 9 sec) [ -6873.7944] [ 1119] [depth= 1] . ( 9 sec) [ -6786.0063] [ 1107] [depth= 13] . ( 9 sec) [ -6784.4777] [ 1106] [depth= 4] . ( 9 sec) [ -6780.1543] [ 1105] [depth= 11] . ( 9 sec) [ -6777.5446] [ 1104] [depth= 13] . ( 9 sec) [ -6744.7907] [ 1097] [depth= 10] . ( 9 sec) [ -6736.4632] [ 1098] [depth= 3] . ( 10 sec) [ -6715.6446] [ 1096] [depth= 15] . ( 10 sec) [ -6695.6995] [ 1098] [depth= 1] . ( 10 sec) [ -6695.0012] [ 1098] [depth= 3] . ( 10 sec) [ -6693.6176] [ 1101] [depth= 1] . ( 10 sec) [ -6674.5530] [ 1095] [depth= 16] . ( 10 sec) [ -6673.4555] [ 1095] [depth= 1] . ( 10 sec) [ -6672.2457] [ 1095] [depth= 2] . ( 10 sec) [ -6617.9134] [ 1087] [depth= 7] . ( 10 sec) [ -6613.3210] [ 1085] [depth= 14] . ( 10 sec) [ -6588.0189] [ 1076] [depth= 9] . ( 11 sec) [ -6584.2657] [ 1078] [depth= 1] . ( 11 sec) [ -6551.4978] [ 1071] [depth= 7] . ( 11 sec) [ -6541.6262] [ 1069] [depth= 12] . ( 11 sec) [ -6541.2642] [ 1073] [depth= 1] . ( 11 sec) [ -6522.1144] [ 1056] [depth= 16] . ( 12 sec) [ -6521.9405] [ 1060] [depth= 1] . ( 12 sec) [ -6500.9248] [ 1049] [depth= 16] . ( 12 sec) [ -6482.8627] [ 1043] [depth= 13] . ( 12 sec) [ -6460.8216] [ 1037] [depth= 8] . ( 12 sec) [ -6449.3573] [ 1037] [depth= 1] . ( 12 sec) [ -6440.2632] [ 1035] [depth= 5] . ( 12 sec) [ -6439.8664] [ 1036] [depth= 1] . ( 12 sec) [ -6422.3400] [ 1032] [depth= 6] . ( 12 sec) [ -6420.9173] [ 1032] [depth= 3] . ( 12 sec) [ -6419.9399] [ 1031] [depth= 5] . ( 12 sec) [ -6419.1264] [ 1032] [depth= 1] . ( 13 sec) [ -6380.9960] [ 1019] [depth= 9] . ( 13 sec) [ -6380.7132] [ 1019] [depth= 7] . ( 13 sec) [ -6372.4529] [ 1017] [depth= 5] . ( 13 sec) [ -6369.5036] [ 1016] [depth= 7] . ( 13 sec) [ -6360.1050] [ 1012] [depth= 8] . ( 13 sec) [ -6358.9718] [ 1011] [depth= 2] . ( 14 sec) [ -6358.8756] [ 1011] [depth= 1] . ( 14 sec) [ -6355.0204] [ 1010] [depth= 3] . ( 14 sec) [ -6292.8279] [ 996] [depth= 7] . ( 14 sec) [ -6291.9072] [ 996] [depth= 1] . ( 14 sec) [ -6263.8295] [ 990] [depth= 8] . ( 15 sec) [ -6262.5475] [ 991] [depth= 10] . ( 15 sec) [ -6254.8809] [ 989] [depth= 1] . ( 15 sec) [ -6248.0745] [ 988] [depth= 11] . ( 15 sec) [ -6246.5717] [ 987] [depth= 1] . ( 15 sec) [ -6245.0241] [ 987] [depth= 2] . ( 15 sec) [ -6227.9482] [ 984] [depth= 7] . ( 15 sec) [ -6221.4906] [ 971] [depth= 7] . ( 15 sec) [ -6221.2714] [ 971] [depth= 2] . ( 16 sec) [ -6218.9518] [ 970] [depth= 1] . ( 16 sec) [ -6218.8666] [ 970] [depth= 1] . ( 16 sec) [ -6213.3720] [ 967] [depth= 1] . ( 16 sec) [ -6211.6198] [ 966] [depth= 9] . ( 16 sec) [ -6199.7965] [ 963] [depth= 2] . ( 16 sec) [ -6182.9796] [ 960] [depth= 3] . ( 16 sec) [ -6182.2914] [ 960] [depth= 1] . ( 16 sec) [ -6161.7714] [ 953] [depth= 5] . ( 16 sec) [ -6157.9316] [ 953] [depth= 2] . ( 17 sec) [ -6157.8012] [ 953] [depth= 3] . ( 17 sec) [ -6142.3336] [ 952] [depth= 3] . ( 17 sec) [ -6142.1513] [ 952] [depth= 1] . ( 17 sec) [ -6141.7652] [ 952] [depth= 1] . ( 17 sec) [ -6140.8672] [ 952] [depth= 1] . ( 18 sec) [ -6139.9068] [ 952] [depth= 1] . ( 18 sec) [ -6128.5889] [ 949] [depth= 5] . ( 19 sec) [ -6128.2365] [ 951] [depth= 1] . ( 19 sec) [ -6125.4843] [ 949] [depth= 7] . ( 19 sec) [ -6124.9526] [ 949] [depth= 1] . ( 19 sec) [ -6124.8996] [ 949] [depth= 1] . ( 19 sec) [ -6104.4101] [ 944] [depth= 3] . ( 20 sec) [ -6054.6796] [Branch lengths ] . ( 21 sec) [ -6032.9544] [GTR parameters ] . ( 21 sec) [ -6032.9482] [Alpha ][ 0.496085] . ( 22 sec) [ -6026.9182] [ 943] [depth= 8] . ( 24 sec) [ -6015.2952] [ 940] [depth= 2] . ( 24 sec) [ -5988.1822] [ 925] [depth= 7] . ( 24 sec) [ -5985.7968] [ 927] [depth= 6] . ( 25 sec) [ -5982.7935] [ 927] [depth= 6] . ( 25 sec) [ -5980.7730] [ 924] [depth= 4] . ( 26 sec) [ -5979.9140] [ 928] [depth= 1] . ( 26 sec) [ -5972.7914] [ 927] [depth= 3] . ( 27 sec) [ -5972.6122] [ 928] [depth= 1] . ( 27 sec) [ -5959.0716] [ 923] [depth= 4] . ( 27 sec) [ -5940.8492] [ 918] [depth= 1] . ( 29 sec) [ -5907.7709] [ 909] [depth= 7] . ( 30 sec) [ -5906.7524] [ 908] [depth= 2] . ( 30 sec) [ -5905.9568] [ 907] [depth= 1] . ( 30 sec) [ -5904.5063] [ 906] [depth= 2] . ( 30 sec) [ -5904.4107] [ 907] [depth= 1] . ( 30 sec) [ -5903.1690] [ 907] [depth= 1] . ( 30 sec) [ -5889.1972] [ 903] [depth= 3] . ( 31 sec) [ -5888.8490] [ 904] [depth= 1] . ( 31 sec) [ -5888.2942] [ 902] [depth= 3] . ( 31 sec) [ -5888.2422] [ 902] [depth= 3] . ( 31 sec) [ -5882.0670] [ 901] [depth= 2] . ( 32 sec) [ -5880.7021] [ 898] [depth= 1] . ( 33 sec) [ -5879.0367] [ 897] [depth= 3] . ( 33 sec) [ -5877.3164] [ 896] [depth= 1] . ( 33 sec) [ -5862.2174] [ 891] [depth= 8] . ( 34 sec) [ -5849.5477] [ 886] [depth= 1] . ( 34 sec) [ -5849.3257] [ 886] [depth= 1] . ( 34 sec) [ -5846.9036] [ 885] [depth= 1] . ( 34 sec) [ -5846.8811] [ 885] [depth= 3] . ( 35 sec) [ -5846.5751] [ 885] [depth= 5] . ( 35 sec) [ -5846.2304] [ 886] [depth= 2] . ( 35 sec) [ -5835.0093] [ 883] [depth= 12] . ( 37 sec) [ -5834.8971] [ 883] [depth= 3] . ( 37 sec) [ -5834.8586] [ 883] [depth= 1] . ( 37 sec) [ -5832.7989] [ 882] [depth= 1] . ( 37 sec) [ -5830.4056] [ 881] [depth= 1] . ( 37 sec) [ -5830.0870] [ 881] [depth= 2] . ( 38 sec) [ -5827.3496] [ 880] [depth= 1] . ( 39 sec) [ -5823.9756] [ 880] [depth= 1] . ( 39 sec) [ -5822.7760] [ 879] [depth= 2] . ( 39 sec) [ -5821.2849] [ 879] [depth= 2] . ( 39 sec) [ -5821.2468] [ 879] [depth= 2] . ( 39 sec) [ -5818.4263] [ 878] [depth= 2] . ( 40 sec) [ -5817.9743] [ 878] [depth= 1] . ( 41 sec) [ -5817.3511] [ 877] [depth= 1] . ( 41 sec) [ -5816.0429] [ 878] [depth= 1] . ( 41 sec) [ -5816.0271] [ 878] [depth= 2] . ( 41 sec) [ -5815.7497] [ 880] [depth= 1] . ( 42 sec) [ -5815.0688] [ 880] [depth= 1] . ( 42 sec) [ -5814.9510] [ 880] [depth= 2] . ( 43 sec) [ -5814.6583] [ 880] [depth= 5] . ( 45 sec) [ -5814.6445] [ 880] [depth= 3] . ( 46 sec) [ -5814.6217] [ 880] [depth= 1] . ( 48 sec) [ -5814.5983] [ 880] [depth= 3] . ( 48 sec) [ -5813.8285] [ 877] [depth= 1] . ( 49 sec) [ -5807.3070] [ 876] [depth= 6] . ( 50 sec) [ -5807.0297] [ 876] [depth= 1] . ( 51 sec) [ -5806.9933] [ 876] [depth= 1] . ( 51 sec) [ -5806.9822] [ 876] [depth= 1] . ( 51 sec) [ -5806.9527] [ 876] [depth= 3] . ( 51 sec) [ -5806.8147] [ 876] [depth= 2] . ( 52 sec) [ -5804.2472] [ 875] [depth= 3] . ( 56 sec) [ -5793.9331] [Branch lengths ] . ( 57 sec) [ -5793.3659] [GTR parameters ] . ( 57 sec) [ -5792.2617] [Alpha ][ 0.567231] . ( 58 sec) [ -5790.6327] [ 876] [depth= 4] . ( 70 sec) [ -5790.5463] [ 876] [depth= 1] . ( 71 sec) [ -5786.6473] [ 875] [depth= 3] . ( 75 sec) [ -5786.2387] [ 876] [depth= 2] . ( 93 sec) [ -5786.1606] [ 876] [depth= 6] . ( 106 sec) [ -5786.1445] [ 876] [depth= 1] . ( 110 sec) [ -5785.0585] [Branch lengths ] . ( 111 sec) [ -5785.0191] [GTR parameters ] . ( 112 sec) [ -5785.0191] [Alpha ][ 0.567231] . ( 130 sec) [ -5784.9105] [ 876] [depth= 2] . ( 138 sec) [ -5784.8600] [ 876] [depth= 1] . ( 164 sec) [ -5783.4476] [Branch lengths ] . ( 165 sec) [ -5783.4394] [GTR parameters ] . ( 165 sec) [ -5783.4393] [Alpha ][ 0.567961] . ( 222 sec) [ -5782.1723] [Branch lengths ] . ( 298 sec) [ -5782.1571] [Branch lengths ] . ( 298 sec) [ -5782.1571] [Topology ] . ( 299 sec) [ -5782.1527] [Topology ] . ( 301 sec) [ -5782.1518] [Topology ] . ( 301 sec) [ -5782.1509] [GTR parameters ] . ( 301 sec) [ -5782.1509] [Alpha ][ 0.567961] . ( 301 sec) [ -5782.1509] [Topology ] . ( 303 sec) [ -5782.1506] [Topology ] . ( 303 sec) [ -5782.1506] [GTR parameters ] . ( 303 sec) [ -5782.1506] [Alpha ][ 0.567961] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5782.150618. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -9858.7407] [GTR parameters ] . ( 1 sec) [ -9726.1409] [Alpha ][ 0.500960] . ( 1 sec) [ -9687.3689] [ 1384] [depth= 10] . ( 2 sec) [ -9658.6753] [ 1382] [depth= 10] . ( 2 sec) [ -9624.1445] [ 1382] [depth= 1] . ( 2 sec) [ -9613.3758] [ 1378] [depth= 6] . ( 2 sec) [ -9603.6940] [ 1378] [depth= 3] . ( 2 sec) [ -9566.6592] [ 1378] [depth= 1] . ( 2 sec) [ -9538.9675] [ 1373] [depth= 6] . ( 2 sec) [ -9512.9341] [ 1372] [depth= 2] . ( 2 sec) [ -9507.1806] [ 1370] [depth= 1] . ( 2 sec) [ -9500.6260] [ 1370] [depth= 3] . ( 2 sec) [ -9496.2665] [ 1367] [depth= 3] . ( 2 sec) [ -9494.7998] [ 1367] [depth= 1] . ( 2 sec) [ -9461.3482] [ 1366] [depth= 2] . ( 2 sec) [ -9402.9199] [ 1366] [depth= 1] . ( 2 sec) [ -9402.7217] [ 1366] [depth= 2] . ( 3 sec) [ -9398.9439] [ 1366] [depth= 1] . ( 3 sec) [ -9385.7088] [ 1359] [depth= 5] . ( 3 sec) [ -9284.7123] [ 1358] [depth= 7] . ( 3 sec) [ -9063.1885] [ 1355] [depth= 8] . ( 3 sec) [ -8999.6170] [ 1349] [depth= 18] . ( 3 sec) [ -8912.8413] [ 1331] [depth= 11] . ( 3 sec) [ -8905.7497] [ 1328] [depth= 2] . ( 3 sec) [ -8902.3829] [ 1328] [depth= 4] . ( 3 sec) [ -8899.1262] [ 1326] [depth= 9] . ( 3 sec) [ -8804.6833] [ 1305] [depth= 11] . ( 3 sec) [ -8786.3130] [ 1304] [depth= 5] . ( 4 sec) [ -8754.4347] [ 1304] [depth= 16] . ( 4 sec) [ -8723.0772] [ 1298] [depth= 18] . ( 4 sec) [ -8711.2971] [ 1296] [depth= 3] . ( 4 sec) [ -8646.0297] [ 1287] [depth= 8] . ( 4 sec) [ -8623.9927] [ 1284] [depth= 17] . ( 4 sec) [ -8604.6465] [ 1279] [depth= 1] . ( 4 sec) [ -8602.4137] [ 1278] [depth= 1] . ( 4 sec) [ -8572.0622] [ 1273] [depth= 11] . ( 4 sec) [ -8372.3682] [ 1273] [depth= 4] . ( 4 sec) [ -8360.4245] [ 1273] [depth= 7] . ( 5 sec) [ -8354.9656] [ 1273] [depth= 15] . ( 5 sec) [ -8352.3123] [ 1273] [depth= 1] . ( 5 sec) [ -8325.9493] [ 1272] [depth= 19] . ( 5 sec) [ -8305.4800] [ 1267] [depth= 5] . ( 5 sec) [ -8275.6939] [ 1257] [depth= 16] . ( 5 sec) [ -8243.4552] [ 1251] [depth= 6] . ( 5 sec) [ -8242.1367] [ 1251] [depth= 20] . ( 5 sec) [ -8212.6566] [ 1248] [depth= 6] . ( 5 sec) [ -8191.7113] [ 1241] [depth= 9] . ( 5 sec) [ -8121.3345] [ 1233] [depth= 1] . ( 5 sec) [ -8107.8497] [ 1230] [depth= 15] . ( 5 sec) [ -8059.1235] [ 1223] [depth= 12] . ( 6 sec) [ -8058.6462] [ 1222] [depth= 4] . ( 6 sec) [ -8044.9897] [ 1221] [depth= 4] . ( 6 sec) [ -8032.6957] [ 1221] [depth= 1] . ( 6 sec) [ -8009.5149] [ 1214] [depth= 3] . ( 6 sec) [ -7951.9957] [ 1207] [depth= 8] . ( 6 sec) [ -7905.8915] [ 1200] [depth= 8] . ( 6 sec) [ -7877.0832] [ 1193] [depth= 4] . ( 6 sec) [ -7867.5240] [ 1190] [depth= 5] . ( 6 sec) [ -7743.0964] [ 1186] [depth= 7] . ( 6 sec) [ -7575.7958] [ 1162] [depth= 11] . ( 6 sec) [ -7551.5650] [ 1155] [depth= 7] . ( 7 sec) [ -7282.0075] [ 1140] [depth= 6] . ( 7 sec) [ -7280.1706] [ 1139] [depth= 1] . ( 7 sec) [ -7278.8984] [ 1138] [depth= 6] . ( 7 sec) [ -7262.6448] [ 1134] [depth= 7] . ( 7 sec) [ -7224.9708] [ 1131] [depth= 17] . ( 7 sec) [ -7218.1121] [ 1128] [depth= 1] . ( 7 sec) [ -7193.7153] [ 1124] [depth= 9] . ( 7 sec) [ -7171.2222] [ 1121] [depth= 16] . ( 7 sec) [ -7117.1263] [ 1116] [depth= 1] . ( 8 sec) [ -7107.5586] [ 1115] [depth= 1] . ( 8 sec) [ -7103.3877] [ 1112] [depth= 16] . ( 8 sec) [ -7101.2023] [ 1112] [depth= 2] . ( 8 sec) [ -7098.2075] [ 1112] [depth= 2] . ( 8 sec) [ -7087.2108] [ 1107] [depth= 1] . ( 8 sec) [ -7084.3388] [ 1106] [depth= 2] . ( 8 sec) [ -7072.4482] [ 1105] [depth= 11] . ( 8 sec) [ -7037.5381] [ 1097] [depth= 15] . ( 8 sec) [ -7036.5267] [ 1097] [depth= 1] . ( 8 sec) [ -7001.8315] [ 1103] [depth= 3] . ( 8 sec) [ -6987.9752] [ 1096] [depth= 9] . ( 8 sec) [ -6946.2172] [ 1088] [depth= 11] . ( 9 sec) [ -6914.4062] [ 1086] [depth= 7] . ( 9 sec) [ -6907.2234] [ 1085] [depth= 7] . ( 9 sec) [ -6875.9401] [ 1079] [depth= 8] . ( 9 sec) [ -6864.4576] [ 1077] [depth= 3] . ( 9 sec) [ -6825.3985] [ 1075] [depth= 7] . ( 9 sec) [ -6821.5799] [ 1074] [depth= 1] . ( 9 sec) [ -6690.8912] [ 1057] [depth= 9] . ( 9 sec) [ -6686.8348] [ 1056] [depth= 3] . ( 9 sec) [ -6656.4587] [ 1052] [depth= 5] . ( 9 sec) [ -6650.1313] [ 1052] [depth= 1] . ( 9 sec) [ -6645.5370] [ 1051] [depth= 2] . ( 10 sec) [ -6632.7821] [ 1054] [depth= 4] . ( 10 sec) [ -6630.2461] [ 1053] [depth= 5] . ( 10 sec) [ -6608.8567] [ 1052] [depth= 1] . ( 10 sec) [ -6567.1922] [ 1041] [depth= 16] . ( 10 sec) [ -6564.0045] [ 1042] [depth= 7] . ( 10 sec) [ -6562.3652] [ 1041] [depth= 1] . ( 10 sec) [ -6543.1427] [ 1036] [depth= 13] . ( 10 sec) [ -6535.3562] [ 1034] [depth= 18] . ( 10 sec) [ -6532.8113] [ 1034] [depth= 1] . ( 11 sec) [ -6524.8248] [ 1033] [depth= 1] . ( 11 sec) [ -6524.0062] [ 1032] [depth= 5] . ( 11 sec) [ -6483.4609] [ 1016] [depth= 6] . ( 11 sec) [ -6477.4996] [ 1015] [depth= 7] . ( 11 sec) [ -6421.6901] [ 1005] [depth= 10] . ( 11 sec) [ -6420.0199] [ 1005] [depth= 2] . ( 11 sec) [ -6389.7177] [ 1014] [depth= 1] . ( 11 sec) [ -6327.0571] [ 993] [depth= 7] . ( 12 sec) [ -6314.6270] [ 991] [depth= 1] . ( 12 sec) [ -6306.3414] [ 991] [depth= 1] . ( 12 sec) [ -6302.2702] [ 990] [depth= 2] . ( 12 sec) [ -6300.7927] [ 990] [depth= 1] . ( 12 sec) [ -6286.0897] [ 990] [depth= 1] . ( 12 sec) [ -6284.3423] [ 990] [depth= 1] . ( 12 sec) [ -6284.0193] [ 991] [depth= 5] . ( 12 sec) [ -6282.9247] [ 991] [depth= 8] . ( 12 sec) [ -6268.5977] [ 986] [depth= 10] . ( 13 sec) [ -6265.6092] [ 985] [depth= 2] . ( 13 sec) [ -6264.2121] [ 984] [depth= 4] . ( 13 sec) [ -6264.1250] [ 984] [depth= 2] . ( 14 sec) [ -6250.8435] [ 981] [depth= 2] . ( 14 sec) [ -6246.2729] [ 980] [depth= 6] . ( 14 sec) [ -6234.8513] [ 979] [depth= 2] . ( 14 sec) [ -6233.2917] [ 979] [depth= 1] . ( 14 sec) [ -6232.4764] [ 979] [depth= 1] . ( 14 sec) [ -6231.9298] [ 979] [depth= 1] . ( 14 sec) [ -6208.4967] [ 970] [depth= 15] . ( 14 sec) [ -6208.4822] [ 970] [depth= 3] . ( 15 sec) [ -6207.8903] [ 970] [depth= 1] . ( 15 sec) [ -6207.7739] [ 970] [depth= 5] . ( 15 sec) [ -6205.9135] [ 974] [depth= 5] . ( 15 sec) [ -6202.3453] [ 973] [depth= 2] . ( 15 sec) [ -6199.8360] [ 973] [depth= 4] . ( 16 sec) [ -6199.5181] [ 973] [depth= 1] . ( 16 sec) [ -6168.3274] [ 959] [depth= 12] . ( 16 sec) [ -6158.2999] [ 958] [depth= 7] . ( 16 sec) [ -6157.4958] [ 958] [depth= 1] . ( 16 sec) [ -6152.1225] [ 958] [depth= 2] . ( 16 sec) [ -6150.3738] [ 957] [depth= 2] . ( 16 sec) [ -6120.2286] [ 946] [depth= 9] . ( 16 sec) [ -6117.3348] [ 946] [depth= 1] . ( 16 sec) [ -6107.0646] [ 945] [depth= 5] . ( 16 sec) [ -6083.5575] [ 939] [depth= 2] . ( 17 sec) [ -6047.7304] [ 932] [depth= 7] . ( 17 sec) [ -6046.7638] [ 925] [depth= 13] . ( 17 sec) [ -6044.4407] [ 925] [depth= 1] . ( 17 sec) [ -6044.0214] [ 925] [depth= 1] . ( 17 sec) [ -6042.8803] [ 926] [depth= 1] . ( 17 sec) [ -6042.8300] [ 926] [depth= 4] . ( 17 sec) [ -6042.8129] [ 926] [depth= 3] . ( 18 sec) [ -6036.7395] [ 924] [depth= 3] . ( 18 sec) [ -6034.6127] [ 923] [depth= 1] . ( 18 sec) [ -6018.5951] [ 924] [depth= 1] . ( 18 sec) [ -6012.8760] [ 922] [depth= 1] . ( 18 sec) [ -6007.0576] [ 920] [depth= 1] . ( 19 sec) [ -6005.1251] [ 923] [depth= 1] . ( 19 sec) [ -5995.1213] [ 920] [depth= 6] . ( 20 sec) [ -5951.1551] [Branch lengths ] . ( 23 sec) [ -5937.2723] [GTR parameters ] . ( 23 sec) [ -5937.1152] [Alpha ][ 0.525884] . ( 23 sec) [ -5936.9148] [ 921] [depth= 2] . ( 23 sec) [ -5936.5223] [ 920] [depth= 1] . ( 24 sec) [ -5935.8917] [ 919] [depth= 1] . ( 24 sec) [ -5935.8705] [ 919] [depth= 3] . ( 25 sec) [ -5935.5328] [ 918] [depth= 1] . ( 25 sec) [ -5934.8012] [ 917] [depth= 8] . ( 25 sec) [ -5921.5903] [ 914] [depth= 2] . ( 25 sec) [ -5920.5835] [ 914] [depth= 6] . ( 26 sec) [ -5916.4769] [ 911] [depth= 7] . ( 26 sec) [ -5914.9127] [ 910] [depth= 2] . ( 26 sec) [ -5911.3759] [ 908] [depth= 2] . ( 26 sec) [ -5903.9562] [ 905] [depth= 5] . ( 26 sec) [ -5898.8230] [ 901] [depth= 1] . ( 26 sec) [ -5894.9568] [ 900] [depth= 2] . ( 26 sec) [ -5894.0063] [ 901] [depth= 6] . ( 26 sec) [ -5893.9932] [ 901] [depth= 4] . ( 27 sec) [ -5892.2160] [ 900] [depth= 1] . ( 27 sec) [ -5891.0492] [ 900] [depth= 1] . ( 27 sec) [ -5872.1341] [ 896] [depth= 5] . ( 27 sec) [ -5864.5138] [ 895] [depth= 5] . ( 28 sec) [ -5863.6577] [ 895] [depth= 6] . ( 29 sec) [ -5863.2297] [ 893] [depth= 1] . ( 29 sec) [ -5857.3796] [ 891] [depth= 1] . ( 29 sec) [ -5833.4216] [ 887] [depth= 3] . ( 29 sec) [ -5830.4599] [ 886] [depth= 3] . ( 30 sec) [ -5829.8402] [ 886] [depth= 3] . ( 30 sec) [ -5829.6113] [ 886] [depth= 1] . ( 31 sec) [ -5826.6436] [ 885] [depth= 1] . ( 31 sec) [ -5823.1918] [ 886] [depth= 3] . ( 31 sec) [ -5822.2896] [ 885] [depth= 2] . ( 34 sec) [ -5822.1913] [ 885] [depth= 1] . ( 35 sec) [ -5821.4500] [ 884] [depth= 5] . ( 36 sec) [ -5820.0698] [ 884] [depth= 2] . ( 36 sec) [ -5805.0024] [ 882] [depth= 10] . ( 37 sec) [ -5804.9886] [ 881] [depth= 1] . ( 37 sec) [ -5804.9675] [ 881] [depth= 2] . ( 38 sec) [ -5804.5507] [ 882] [depth= 1] . ( 39 sec) [ -5804.0874] [ 882] [depth= 1] . ( 39 sec) [ -5803.0871] [ 881] [depth= 1] . ( 40 sec) [ -5802.2552] [ 879] [depth= 1] . ( 40 sec) [ -5801.9306] [ 879] [depth= 1] . ( 40 sec) [ -5801.9016] [ 879] [depth= 4] . ( 46 sec) [ -5801.7809] [ 879] [depth= 2] . ( 50 sec) [ -5799.1611] [ 876] [depth= 4] . ( 51 sec) [ -5799.1269] [ 876] [depth= 1] . ( 53 sec) [ -5797.2748] [ 877] [depth= 2] . ( 54 sec) [ -5796.9273] [ 877] [depth= 2] . ( 55 sec) [ -5794.5527] [ 876] [depth= 1] . ( 55 sec) [ -5794.4501] [ 876] [depth= 3] . ( 56 sec) [ -5794.3930] [ 876] [depth= 3] . ( 56 sec) [ -5794.0104] [ 879] [depth= 1] . ( 57 sec) [ -5793.1472] [ 876] [depth= 1] . ( 57 sec) [ -5792.8113] [ 876] [depth= 1] . ( 58 sec) [ -5785.3991] [Branch lengths ] . ( 59 sec) [ -5785.1810] [GTR parameters ] . ( 59 sec) [ -5784.8562] [Alpha ][ 0.565911] . ( 69 sec) [ -5784.8358] [ 876] [depth= 2] . ( 77 sec) [ -5784.7765] [ 876] [depth= 1] . ( 114 sec) [ -5783.9385] [Branch lengths ] . ( 114 sec) [ -5783.9297] [GTR parameters ] . ( 115 sec) [ -5783.9289] [Alpha ][ 0.567912] . ( 184 sec) [ -5783.8495] [Branch lengths ] . ( 184 sec) [ -5783.8495] [Topology ] . ( 185 sec) [ -5783.6640] [Topology ] . ( 187 sec) [ -5782.6947] [Topology ] . ( 188 sec) [ -5782.3846] [Topology ] . ( 190 sec) [ -5782.3415] [Topology ] . ( 191 sec) [ -5782.3319] [Topology ] . ( 192 sec) [ -5782.3293] [Topology ] . ( 194 sec) [ -5782.3285] [Topology ] . ( 195 sec) [ -5782.3244] [GTR parameters ] . ( 195 sec) [ -5782.3244] [Alpha ][ 0.568480] . ( 195 sec) [ -5782.3244] [Topology ] . ( 196 sec) [ -5782.3239] [Topology ] . ( 197 sec) [ -5782.3239] [GTR parameters ] . ( 197 sec) [ -5782.3239] [Alpha ][ 0.568480] . Checking for NNIs, optimizing five branches... . ( 206 sec) [ -5782.3238] [Topology ] . Checking for NNIs, optimizing five branches... . ( 216 sec) [ -5782.3234] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5782.323449. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . ( 3 sec) [ -5870.6391] [GTR parameters ] . ( 3 sec) [ -5850.1279] [Alpha ][ 0.500960] . ( 3 sec) [ -5850.1279] [Topology ] . ( 5 sec) [ -5802.4192] [Topology ] . ( 6 sec) [ -5794.8150] [Topology ] . ( 8 sec) [ -5792.6224] [Topology ] . ( 9 sec) [ -5791.9272] [Topology ] . ( 11 sec) [ -5791.6644] [Topology ] . ( 12 sec) [ -5791.5565] [Topology ] . ( 14 sec) [ -5791.5112] [Topology ] . ( 15 sec) [ -5791.4918] [Topology ] . Checking for NNIs, optimizing five branches... . ( 25 sec) [ -5791.4140] [Topology ] . ( 26 sec) [ -5790.8079] [GTR parameters ] . ( 26 sec) [ -5789.8818] [Alpha ][ 0.567522] . ( 26 sec) [ -5789.8818] [Topology ] . ( 28 sec) [ -5789.8160] [Topology ] . ( 29 sec) [ -5789.7926] [Topology ] . ( 31 sec) [ -5789.7832] [Topology ] . ( 32 sec) [ -5789.7793] [Topology ] . ( 34 sec) [ -5789.7776] [Topology ] . ( 35 sec) [ -5789.7768] [Topology ] . Checking for NNIs, optimizing five branches... . ( 45 sec) [ -5789.7143] [Topology ] . ( 46 sec) [ -5789.7090] [GTR parameters ] . ( 46 sec) [ -5789.7079] [Alpha ][ 0.569973] . ( 46 sec) [ -5789.7079] [Topology ] . ( 47 sec) [ -5789.7000] [Topology ] . ( 49 sec) [ -5789.6938] [Topology ] . ( 50 sec) [ -5789.6880] [Topology ] . ( 52 sec) [ -5789.6824] [Topology ] . ( 53 sec) [ -5789.6770] [Topology ] . ( 55 sec) [ -5789.6720] [Topology ] . Checking for NNIs, optimizing five branches... . ( 64 sec) [ -5789.6719] [Topology ] . ( 65 sec) [ -5789.6709] [GTR parameters ] . ( 65 sec) [ -5789.6709] [Alpha ][ 0.569973] . ( 65 sec) [ -5789.6709] [Topology ] . ( 66 sec) [ -5789.6655] [Topology ] . ( 68 sec) [ -5789.6605] [Topology ] . ( 69 sec) [ -5789.6554] [Topology ] . ( 71 sec) [ -5789.6504] [Topology ] . ( 72 sec) [ -5789.6457] [Topology ] . ( 73 sec) [ -5789.6430] [Topology ] . Checking for NNIs, optimizing five branches... . ( 83 sec) [ -5789.6157] [Topology ] . ( 83 sec) [ -5789.6150] [GTR parameters ] . ( 84 sec) [ -5789.6150] [Alpha ][ 0.569973] . ( 84 sec) [ -5789.6150] [Topology ] . ( 85 sec) [ -5789.6140] [Topology ] . Checking for NNIs, optimizing five branches... . ( 95 sec) [ -5789.6140] [GTR parameters ] . ( 95 sec) [ -5789.6140] [Alpha ][ 0.569973] . ( 95 sec) [ -5789.6140] [Topology ] . ( 96 sec) [ -5789.6138] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 118 sec) [ -5870.6391] [GTR parameters ] . ( 119 sec) [ -5850.1279] [Alpha ][ 0.500960] . ( 119 sec) [ -5849.9737] [ 882] [depth= 1] . ( 119 sec) [ -5848.7541] [ 879] [depth= 1] . ( 119 sec) [ -5847.5939] [ 882] [depth= 1] . ( 119 sec) [ -5843.6899] [ 889] [depth= 1] . ( 119 sec) [ -5840.6196] [ 882] [depth= 1] . ( 120 sec) [ -5839.1947] [ 879] [depth= 1] . ( 120 sec) [ -5838.7428] [ 879] [depth= 1] . ( 122 sec) [ -5830.8751] [ 876] [depth= 1] . ( 123 sec) [ -5830.8528] [ 877] [depth= 1] . ( 123 sec) [ -5829.5369] [ 877] [depth= 1] . ( 124 sec) [ -5826.3186] [ 876] [depth= 1] . ( 124 sec) [ -5825.9962] [ 876] [depth= 1] . ( 124 sec) [ -5825.3306] [ 876] [depth= 1] . ( 125 sec) [ -5824.9277] [ 877] [depth= 2] . ( 126 sec) [ -5824.8726] [ 877] [depth= 2] . ( 126 sec) [ -5824.8092] [ 877] [depth= 2] . ( 126 sec) [ -5824.6090] [ 877] [depth= 1] . ( 126 sec) [ -5824.4482] [ 877] [depth= 2] . ( 126 sec) [ -5824.4342] [ 877] [depth= 1] . ( 127 sec) [ -5824.4228] [ 877] [depth= 1] . ( 129 sec) [ -5821.0821] [ 878] [depth= 2] . ( 129 sec) [ -5820.1690] [ 878] [depth= 1] . ( 129 sec) [ -5819.9979] [ 878] [depth= 1] . ( 132 sec) [ -5819.8394] [ 878] [depth= 1] . ( 133 sec) [ -5819.7150] [ 878] [depth= 1] . ( 133 sec) [ -5819.3486] [ 878] [depth= 1] . ( 133 sec) [ -5818.9385] [ 878] [depth= 1] . ( 133 sec) [ -5818.9002] [ 878] [depth= 1] . ( 133 sec) [ -5817.8489] [ 878] [depth= 1] . ( 133 sec) [ -5817.8106] [ 878] [depth= 1] . ( 135 sec) [ -5816.4499] [ 877] [depth= 4] . ( 135 sec) [ -5814.0862] [ 877] [depth= 2] . ( 136 sec) [ -5813.4570] [ 877] [depth= 2] . ( 137 sec) [ -5810.4352] [ 876] [depth= 1] . ( 138 sec) [ -5810.2274] [ 876] [depth= 1] . ( 140 sec) [ -5810.1652] [ 876] [depth= 1] . ( 149 sec) [ -5809.1649] [ 876] [depth= 1] . ( 149 sec) [ -5808.5688] [ 876] [depth= 1] . ( 151 sec) [ -5806.3912] [ 876] [depth= 5] . ( 151 sec) [ -5806.3190] [ 876] [depth= 2] . ( 152 sec) [ -5805.9813] [ 876] [depth= 2] . ( 152 sec) [ -5805.0200] [ 876] [depth= 1] . ( 152 sec) [ -5805.0041] [ 876] [depth= 1] . ( 153 sec) [ -5804.9365] [ 876] [depth= 1] . ( 154 sec) [ -5804.7963] [ 876] [depth= 1] . ( 154 sec) [ -5804.7134] [ 876] [depth= 2] . ( 154 sec) [ -5804.6206] [ 876] [depth= 2] . ( 155 sec) [ -5804.1794] [ 876] [depth= 1] . ( 155 sec) [ -5803.9694] [ 876] [depth= 2] . ( 155 sec) [ -5803.7284] [ 876] [depth= 2] . ( 155 sec) [ -5803.6712] [ 876] [depth= 4] . ( 155 sec) [ -5803.5317] [ 876] [depth= 3] . ( 156 sec) [ -5803.5098] [ 876] [depth= 3] . ( 158 sec) [ -5803.4980] [ 876] [depth= 1] . ( 159 sec) [ -5785.6478] [Branch lengths ] . ( 160 sec) [ -5785.2072] [GTR parameters ] . ( 160 sec) [ -5784.4723] [Alpha ][ 0.560934] . ( 172 sec) [ -5784.4375] [ 876] [depth= 1] . ( 178 sec) [ -5784.4207] [ 876] [depth= 2] . ( 181 sec) [ -5784.3984] [ 876] [depth= 1] . ( 182 sec) [ -5784.3704] [ 876] [depth= 1] . ( 187 sec) [ -5784.3479] [ 876] [depth= 1] . ( 195 sec) [ -5784.2428] [ 876] [depth= 4] . ( 197 sec) [ -5784.1539] [ 876] [depth= 3] . ( 197 sec) [ -5784.1301] [ 876] [depth= 2] . ( 198 sec) [ -5784.1064] [ 876] [depth= 3] . ( 200 sec) [ -5784.0752] [ 876] [depth= 2] . ( 208 sec) [ -5782.4376] [Branch lengths ] . ( 209 sec) [ -5782.4125] [GTR parameters ] . ( 209 sec) [ -5782.4065] [Alpha ][ 0.566844] . ( 255 sec) [ -5782.3794] [ 876] [depth= 1] . ( 267 sec) [ -5782.1995] [Branch lengths ] . ( 268 sec) [ -5782.1985] [GTR parameters ] . ( 268 sec) [ -5782.1984] [Alpha ][ 0.567795] . ( 339 sec) [ -5782.1747] [Branch lengths ] . ( 339 sec) [ -5782.1747] [Topology ] . ( 341 sec) [ -5782.1719] [Topology ] . ( 342 sec) [ -5782.1707] [Topology ] . ( 343 sec) [ -5782.1699] [Topology ] . ( 344 sec) [ -5782.1695] [GTR parameters ] . ( 344 sec) [ -5782.1695] [Alpha ][ 0.568363] . ( 344 sec) [ -5782.1695] [Topology ] . ( 346 sec) [ -5782.1688] [Topology ] . ( 346 sec) [ -5782.1688] [GTR parameters ] . ( 346 sec) [ -5782.1688] [Alpha ][ 0.568363] . Checking for NNIs, optimizing five branches... . ( 355 sec) [ -5782.1686] [Topology ] . Checking for NNIs, optimizing five branches... . ( 365 sec) [ -5782.1678] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -5789.613810 . Log likelihood obtained after SPR moves : -5782.167774 . Log likelihood of the current tree: -5782.167774. . Printing the most likely tree in file 'nucleic_M2879_70x800_2006.phy_phyml_tree.txt'... . Best log likelihood : -5781.060304 . Time used 0h6m15s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 1794.61user 0.00system 30:10.32elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps