.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M1601_36x340_2003.phy . Data type : aa . Sequence format : interleaved . Number of data sets : 1 . Nb of bootstrapped data sets : 0 . Model name : WAG . Proportion of invariable sites : 0.000000 . Number of subst. rate categs : 4 . Gamma distribution parameter : estimated . 'Middle' of each rate class : mean . Amino acid equilibrium frequencies : model . Optimise tree topology : yes . Tree topology search : Best of NNIs and SPRs . Starting tree : BioNJ . Add random input tree : yes . Number of random starting trees : 5 . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 322 patterns found. (out of a total of 340 sites) . 79 sites without polymorphism (23.24%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 28Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -10010.9045] [Alpha ][ 0.515669] . ( 2 sec) [ -9952.0657] [ 1588] [depth= 9] . ( 2 sec) [ -9807.1258] [ 1578] [depth= 12] . ( 2 sec) [ -9800.4617] [ 1577] [depth= 3] . ( 3 sec) [ -9662.6604] [ 1577] [depth= 5] . ( 3 sec) [ -9582.6323] [ 1556] [depth= 4] . ( 4 sec) [ -9516.0972] [ 1550] [depth= 4] . ( 4 sec) [ -9404.4507] [ 1540] [depth= 5] . ( 4 sec) [ -9341.9191] [ 1538] [depth= 5] . ( 5 sec) [ -9129.3142] [ 1517] [depth= 10] . ( 5 sec) [ -9121.3265] [ 1516] [depth= 2] . ( 5 sec) [ -9080.1469] [ 1519] [depth= 13] . ( 6 sec) [ -9052.6304] [ 1518] [depth= 2] . ( 6 sec) [ -8967.8605] [ 1507] [depth= 16] . ( 7 sec) [ -8867.4379] [ 1472] [depth= 14] . ( 7 sec) [ -8795.2975] [ 1456] [depth= 13] . ( 7 sec) [ -8789.3410] [ 1454] [depth= 1] . ( 8 sec) [ -8691.1761] [ 1450] [depth= 2] . ( 8 sec) [ -8684.1119] [ 1451] [depth= 1] . ( 9 sec) [ -8667.0865] [ 1450] [depth= 1] . ( 9 sec) [ -8650.3456] [ 1450] [depth= 1] . ( 10 sec) [ -8554.5584] [ 1424] [depth= 5] . ( 10 sec) [ -8544.3654] [ 1424] [depth= 1] . ( 10 sec) [ -8540.8767] [ 1424] [depth= 1] . ( 11 sec) [ -8520.0768] [ 1420] [depth= 4] . ( 11 sec) [ -8479.5790] [ 1410] [depth= 6] . ( 12 sec) [ -8459.3137] [ 1405] [depth= 2] . ( 12 sec) [ -8445.9032] [ 1402] [depth= 1] . ( 13 sec) [ -8444.2477] [ 1402] [depth= 1] . ( 13 sec) [ -8416.9601] [ 1403] [depth= 9] . ( 14 sec) [ -8388.6854] [ 1397] [depth= 5] . ( 14 sec) [ -8335.7380] [ 1386] [depth= 4] . ( 15 sec) [ -8318.5259] [ 1384] [depth= 9] . ( 15 sec) [ -8289.9711] [ 1369] [depth= 7] . ( 16 sec) [ -8232.3107] [ 1362] [depth= 1] . ( 16 sec) [ -8202.6652] [ 1365] [depth= 2] . ( 17 sec) [ -8165.5668] [ 1362] [depth= 2] . ( 17 sec) [ -8127.8927] [ 1347] [depth= 2] . ( 18 sec) [ -8055.1412] [ 1333] [depth= 6] . ( 18 sec) [ -8053.1343] [ 1334] [depth= 1] . ( 19 sec) [ -8020.4159] [ 1322] [depth= 3] . ( 19 sec) [ -7963.1227] [ 1318] [depth= 6] . ( 19 sec) [ -7931.5477] [ 1308] [depth= 2] . ( 20 sec) [ -7869.5889] [ 1304] [depth= 1] . ( 20 sec) [ -7855.8470] [ 1304] [depth= 4] . ( 21 sec) [ -7828.6673] [ 1281] [depth= 4] . ( 21 sec) [ -7804.3336] [ 1286] [depth= 1] . ( 22 sec) [ -7781.7080] [ 1280] [depth= 3] . ( 22 sec) [ -7741.1877] [ 1262] [depth= 2] . ( 23 sec) [ -7728.7249] [ 1262] [depth= 3] . ( 23 sec) [ -7648.8218] [ 1238] [depth= 4] . ( 23 sec) [ -7604.3307] [ 1235] [depth= 3] . ( 24 sec) [ -7600.3288] [ 1232] [depth= 4] . ( 24 sec) [ -7599.7100] [ 1232] [depth= 1] . ( 25 sec) [ -7590.4777] [ 1232] [depth= 3] . ( 26 sec) [ -7433.9395] [ 1229] [depth= 4] . ( 27 sec) [ -7375.5014] [ 1227] [depth= 4] . ( 28 sec) [ -7348.6949] [ 1215] [depth= 9] . ( 28 sec) [ -7309.1777] [ 1201] [depth= 1] . ( 29 sec) [ -7306.1005] [ 1199] [depth= 2] . ( 29 sec) [ -7302.9159] [ 1200] [depth= 1] . ( 29 sec) [ -7286.7577] [ 1201] [depth= 1] . ( 30 sec) [ -7276.6789] [ 1200] [depth= 1] . ( 31 sec) [ -7271.2122] [ 1199] [depth= 2] . ( 31 sec) [ -7260.2172] [ 1199] [depth= 4] . ( 32 sec) [ -7225.5400] [ 1186] [depth= 4] . ( 32 sec) [ -7222.7638] [ 1188] [depth= 1] . ( 33 sec) [ -7222.5357] [ 1188] [depth= 1] . ( 33 sec) [ -7218.6563] [ 1192] [depth= 1] . ( 34 sec) [ -7214.0735] [ 1191] [depth= 1] . ( 34 sec) [ -7201.1213] [ 1188] [depth= 1] . ( 35 sec) [ -7194.6879] [ 1188] [depth= 1] . ( 35 sec) [ -7190.0061] [ 1185] [depth= 2] . ( 36 sec) [ -7188.8431] [ 1183] [depth= 3] . ( 36 sec) [ -7188.0625] [ 1183] [depth= 1] . ( 36 sec) [ -7180.4667] [ 1183] [depth= 2] . ( 37 sec) [ -7114.5273] [ 1170] [depth= 8] . ( 37 sec) [ -7106.7951] [ 1168] [depth= 1] . ( 40 sec) [ -7105.3784] [ 1169] [depth= 1] . ( 42 sec) [ -7002.8295] [Branch lengths ] . ( 43 sec) [ -6975.5744] [Alpha ][ 1.029516] . ( 44 sec) [ -6975.4503] [ 1170] [depth= 1] . ( 45 sec) [ -6973.5758] [ 1170] [depth= 2] . ( 47 sec) [ -6972.9892] [ 1169] [depth= 3] . ( 51 sec) [ -6972.2738] [ 1168] [depth= 1] . ( 52 sec) [ -6971.8599] [ 1167] [depth= 1] . ( 53 sec) [ -6967.7679] [ 1166] [depth= 1] . ( 54 sec) [ -6961.7197] [ 1164] [depth= 3] . ( 56 sec) [ -6961.6082] [ 1165] [depth= 1] . ( 60 sec) [ -6960.3125] [ 1161] [depth= 2] . ( 65 sec) [ -6951.2087] [ 1159] [depth= 2] . ( 66 sec) [ -6948.9691] [ 1153] [depth= 7] . ( 70 sec) [ -6948.7756] [ 1154] [depth= 1] . ( 72 sec) [ -6946.7837] [ 1152] [depth= 1] . ( 72 sec) [ -6945.5269] [ 1152] [depth= 1] . ( 73 sec) [ -6944.5135] [ 1151] [depth= 1] . ( 74 sec) [ -6940.7691] [ 1149] [depth= 1] . ( 74 sec) [ -6932.9750] [ 1150] [depth= 3] . ( 83 sec) [ -6932.6048] [ 1152] [depth= 1] . ( 84 sec) [ -6932.0398] [ 1150] [depth= 1] . ( 84 sec) [ -6929.2178] [ 1152] [depth= 1] . ( 86 sec) [ -6929.2007] [ 1152] [depth= 2] . ( 90 sec) [ -6928.8163] [ 1152] [depth= 1] . ( 97 sec) [ -6926.4508] [ 1154] [depth= 1] . ( 106 sec) [ -6917.7839] [Branch lengths ] . ( 107 sec) [ -6917.5702] [Alpha ][ 1.099506] . ( 132 sec) [ -6917.0843] [ 1152] [depth= 1] . ( 155 sec) [ -6917.0585] [ 1151] [depth= 1] . ( 183 sec) [ -6916.2932] [Branch lengths ] . ( 183 sec) [ -6916.2907] [Alpha ][ 1.107579] . ( 210 sec) [ -6912.8632] [ 1155] [depth= 3] . ( 263 sec) [ -6912.4484] [Branch lengths ] . ( 264 sec) [ -6912.4481] [Alpha ][ 1.104844] . ( 349 sec) [ -6912.4121] [Branch lengths ] . ( 349 sec) [ -6912.4121] [Topology ] . ( 352 sec) [ -6912.4096] [Topology ] . ( 355 sec) [ -6912.4086] [Topology ] . ( 358 sec) [ -6912.4081] [Topology ] . ( 359 sec) [ -6912.4077] [Alpha ][ 1.101699] . ( 359 sec) [ -6912.4077] [Topology ] . ( 362 sec) [ -6912.4073] [Topology ] . ( 363 sec) [ -6912.4073] [Alpha ][ 1.101699] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6912.407295. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -9817.1822] [Alpha ][ 0.563777] . ( 2 sec) [ -9718.7671] [ 1561] [depth= 6] . ( 2 sec) [ -9651.4330] [ 1537] [depth= 6] . ( 2 sec) [ -9614.9357] [ 1536] [depth= 5] . ( 3 sec) [ -9541.6256] [ 1531] [depth= 1] . ( 3 sec) [ -9518.5518] [ 1530] [depth= 3] . ( 4 sec) [ -9501.5907] [ 1533] [depth= 2] . ( 4 sec) [ -9399.8760] [ 1529] [depth= 3] . ( 5 sec) [ -9381.9527] [ 1527] [depth= 3] . ( 5 sec) [ -9379.5445] [ 1527] [depth= 1] . ( 6 sec) [ -9296.3324] [ 1525] [depth= 1] . ( 6 sec) [ -9287.9312] [ 1523] [depth= 1] . ( 6 sec) [ -9210.5327] [ 1511] [depth= 6] . ( 7 sec) [ -9184.5493] [ 1503] [depth= 1] . ( 7 sec) [ -9091.5480] [ 1503] [depth= 7] . ( 8 sec) [ -9077.6319] [ 1502] [depth= 5] . ( 8 sec) [ -9035.9281] [ 1490] [depth= 1] . ( 9 sec) [ -8992.1996] [ 1477] [depth= 2] . ( 9 sec) [ -8912.9641] [ 1465] [depth= 1] . ( 9 sec) [ -8732.1836] [ 1429] [depth= 12] . ( 10 sec) [ -8686.9842] [ 1426] [depth= 1] . ( 10 sec) [ -8658.5768] [ 1429] [depth= 8] . ( 10 sec) [ -8646.7147] [ 1430] [depth= 2] . ( 11 sec) [ -8564.1275] [ 1420] [depth= 2] . ( 11 sec) [ -8522.3841] [ 1414] [depth= 11] . ( 12 sec) [ -8495.8006] [ 1415] [depth= 1] . ( 12 sec) [ -8493.4969] [ 1413] [depth= 1] . ( 12 sec) [ -8491.7612] [ 1413] [depth= 1] . ( 13 sec) [ -8477.2091] [ 1407] [depth= 1] . ( 13 sec) [ -8477.1957] [ 1407] [depth= 1] . ( 14 sec) [ -8475.2272] [ 1405] [depth= 2] . ( 14 sec) [ -8459.4631] [ 1405] [depth= 1] . ( 15 sec) [ -8456.9282] [ 1412] [depth= 8] . ( 15 sec) [ -8430.1661] [ 1408] [depth= 7] . ( 15 sec) [ -8321.9549] [ 1386] [depth= 6] . ( 16 sec) [ -8278.5018] [ 1372] [depth= 1] . ( 16 sec) [ -8192.5915] [ 1347] [depth= 4] . ( 17 sec) [ -8191.4150] [ 1348] [depth= 6] . ( 17 sec) [ -8174.0671] [ 1342] [depth= 2] . ( 17 sec) [ -8147.3160] [ 1341] [depth= 1] . ( 18 sec) [ -8128.2186] [ 1339] [depth= 4] . ( 18 sec) [ -8123.1441] [ 1339] [depth= 2] . ( 18 sec) [ -8118.0662] [ 1341] [depth= 1] . ( 19 sec) [ -8038.2417] [ 1318] [depth= 5] . ( 19 sec) [ -8007.1180] [ 1308] [depth= 3] . ( 20 sec) [ -7952.9674] [ 1298] [depth= 1] . ( 21 sec) [ -7935.5229] [ 1297] [depth= 1] . ( 21 sec) [ -7921.3769] [ 1297] [depth= 4] . ( 22 sec) [ -7770.0010] [ 1291] [depth= 12] . ( 22 sec) [ -7750.7389] [ 1291] [depth= 3] . ( 22 sec) [ -7721.7709] [ 1285] [depth= 2] . ( 23 sec) [ -7720.1180] [ 1285] [depth= 1] . ( 23 sec) [ -7703.3488] [ 1287] [depth= 1] . ( 24 sec) [ -7689.0124] [ 1287] [depth= 2] . ( 24 sec) [ -7606.1370] [ 1281] [depth= 3] . ( 25 sec) [ -7604.3976] [ 1279] [depth= 1] . ( 25 sec) [ -7599.8820] [ 1278] [depth= 1] . ( 26 sec) [ -7579.1880] [ 1271] [depth= 2] . ( 26 sec) [ -7575.0936] [ 1271] [depth= 2] . ( 27 sec) [ -7515.0110] [ 1262] [depth= 8] . ( 27 sec) [ -7514.0340] [ 1261] [depth= 9] . ( 27 sec) [ -7510.6163] [ 1260] [depth= 1] . ( 28 sec) [ -7509.9330] [ 1260] [depth= 2] . ( 29 sec) [ -7500.3678] [ 1262] [depth= 1] . ( 29 sec) [ -7452.4687] [ 1245] [depth= 3] . ( 29 sec) [ -7415.6775] [ 1234] [depth= 1] . ( 30 sec) [ -7390.7797] [ 1218] [depth= 5] . ( 30 sec) [ -7390.1267] [ 1218] [depth= 1] . ( 31 sec) [ -7383.1088] [ 1218] [depth= 2] . ( 31 sec) [ -7372.4683] [ 1216] [depth= 1] . ( 32 sec) [ -7340.3977] [ 1214] [depth= 3] . ( 32 sec) [ -7322.4513] [ 1212] [depth= 4] . ( 33 sec) [ -7232.2192] [ 1187] [depth= 7] . ( 33 sec) [ -7167.4323] [ 1176] [depth= 7] . ( 34 sec) [ -7139.5788] [ 1168] [depth= 4] . ( 34 sec) [ -7129.3861] [ 1164] [depth= 1] . ( 35 sec) [ -7121.9410] [ 1168] [depth= 1] . ( 35 sec) [ -7121.1439] [ 1164] [depth= 2] . ( 36 sec) [ -7116.0914] [ 1168] [depth= 1] . ( 38 sec) [ -7059.8922] [ 1157] [depth= 5] . ( 38 sec) [ -7051.2094] [ 1155] [depth= 4] . ( 40 sec) [ -7049.7979] [ 1154] [depth= 2] . ( 41 sec) [ -6976.3587] [Branch lengths ] . ( 42 sec) [ -6953.6793] [Alpha ][ 1.098326] . ( 42 sec) [ -6953.2736] [ 1156] [depth= 1] . ( 46 sec) [ -6952.1716] [ 1157] [depth= 1] . ( 46 sec) [ -6951.5626] [ 1153] [depth= 1] . ( 49 sec) [ -6951.4233] [ 1153] [depth= 1] . ( 50 sec) [ -6945.7443] [ 1152] [depth= 3] . ( 52 sec) [ -6944.7848] [ 1154] [depth= 1] . ( 55 sec) [ -6944.6271] [ 1159] [depth= 1] . ( 55 sec) [ -6942.1313] [ 1162] [depth= 2] . ( 57 sec) [ -6942.0017] [ 1162] [depth= 1] . ( 57 sec) [ -6941.2576] [ 1161] [depth= 2] . ( 59 sec) [ -6940.9731] [ 1161] [depth= 1] . ( 67 sec) [ -6939.5021] [ 1160] [depth= 2] . ( 73 sec) [ -6934.1871] [ 1155] [depth= 2] . ( 78 sec) [ -6932.4363] [ 1155] [depth= 1] . ( 91 sec) [ -6930.8033] [ 1154] [depth= 1] . ( 96 sec) [ -6929.9032] [ 1157] [depth= 1] . ( 97 sec) [ -6928.4876] [ 1155] [depth= 1] . ( 102 sec) [ -6928.3809] [ 1155] [depth= 1] . ( 107 sec) [ -6919.2583] [Branch lengths ] . ( 108 sec) [ -6919.2303] [Alpha ][ 1.124901] . ( 116 sec) [ -6919.0924] [ 1156] [depth= 1] . ( 175 sec) [ -6919.0489] [ 1155] [depth= 1] . ( 189 sec) [ -6917.4329] [Branch lengths ] . ( 189 sec) [ -6917.4315] [Alpha ][ 1.118594] . ( 274 sec) [ -6917.1587] [Branch lengths ] . ( 275 sec) [ -6917.1587] [Topology ] . ( 278 sec) [ -6917.1275] [Topology ] . ( 281 sec) [ -6917.1147] [Topology ] . ( 284 sec) [ -6917.1078] [Topology ] . ( 287 sec) [ -6917.1038] [Topology ] . ( 290 sec) [ -6917.1015] [Topology ] . ( 293 sec) [ -6917.1002] [Topology ] . ( 294 sec) [ -6917.0972] [Alpha ][ 1.109563] . ( 294 sec) [ -6917.0972] [Topology ] . ( 297 sec) [ -6917.0958] [Topology ] . ( 300 sec) [ -6917.0951] [Topology ] . ( 301 sec) [ -6917.0951] [Alpha ][ 1.108453] . ( 301 sec) [ -6917.0951] [Topology ] . ( 304 sec) [ -6917.0946] [Topology ] . ( 305 sec) [ -6917.0946] [Alpha ][ 1.108453] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6917.094632. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -9913.2192] [Alpha ][ 0.663327] . ( 1 sec) [ -9835.0166] [ 1566] [depth= 5] . ( 2 sec) [ -9790.2498] [ 1549] [depth= 8] . ( 2 sec) [ -9775.7105] [ 1545] [depth= 1] . ( 3 sec) [ -9752.4473] [ 1540] [depth= 2] . ( 3 sec) [ -9706.2206] [ 1531] [depth= 2] . ( 3 sec) [ -9574.5242] [ 1521] [depth= 7] . ( 4 sec) [ -9544.0800] [ 1517] [depth= 2] . ( 4 sec) [ -9534.1822] [ 1516] [depth= 1] . ( 4 sec) [ -9471.4816] [ 1497] [depth= 1] . ( 5 sec) [ -9451.0756] [ 1494] [depth= 5] . ( 5 sec) [ -9418.5806] [ 1492] [depth= 7] . ( 6 sec) [ -9411.8496] [ 1493] [depth= 1] . ( 6 sec) [ -9361.1261] [ 1491] [depth= 9] . ( 6 sec) [ -9350.6970] [ 1493] [depth= 1] . ( 7 sec) [ -9295.5970] [ 1479] [depth= 5] . ( 7 sec) [ -9223.5215] [ 1462] [depth= 10] . ( 8 sec) [ -9139.6933] [ 1440] [depth= 8] . ( 8 sec) [ -9108.9703] [ 1433] [depth= 4] . ( 9 sec) [ -9059.5802] [ 1416] [depth= 10] . ( 9 sec) [ -9058.2228] [ 1418] [depth= 1] . ( 9 sec) [ -8983.0433] [ 1400] [depth= 1] . ( 10 sec) [ -8751.3713] [ 1379] [depth= 8] . ( 10 sec) [ -8424.0538] [ 1351] [depth= 5] . ( 11 sec) [ -8422.0850] [ 1354] [depth= 1] . ( 11 sec) [ -8350.4181] [ 1349] [depth= 5] . ( 11 sec) [ -8302.1231] [ 1335] [depth= 1] . ( 12 sec) [ -8227.8583] [ 1323] [depth= 6] . ( 12 sec) [ -8186.3346] [ 1315] [depth= 3] . ( 13 sec) [ -8184.1062] [ 1315] [depth= 2] . ( 13 sec) [ -8162.5832] [ 1314] [depth= 1] . ( 14 sec) [ -8133.2869] [ 1306] [depth= 2] . ( 14 sec) [ -8106.7301] [ 1298] [depth= 4] . ( 14 sec) [ -8049.1436] [ 1296] [depth= 1] . ( 15 sec) [ -8003.2752] [ 1285] [depth= 8] . ( 15 sec) [ -7998.8698] [ 1285] [depth= 1] . ( 16 sec) [ -7963.3770] [ 1277] [depth= 5] . ( 17 sec) [ -7961.3005] [ 1275] [depth= 1] . ( 17 sec) [ -7916.8196] [ 1264] [depth= 6] . ( 17 sec) [ -7862.9641] [ 1250] [depth= 1] . ( 18 sec) [ -7853.0571] [ 1251] [depth= 1] . ( 18 sec) [ -7838.3409] [ 1249] [depth= 7] . ( 19 sec) [ -7831.5204] [ 1249] [depth= 1] . ( 20 sec) [ -7728.7817] [ 1232] [depth= 4] . ( 20 sec) [ -7727.4309] [ 1232] [depth= 1] . ( 21 sec) [ -7701.0514] [ 1225] [depth= 6] . ( 21 sec) [ -7693.5315] [ 1224] [depth= 2] . ( 22 sec) [ -7683.6193] [ 1222] [depth= 1] . ( 22 sec) [ -7672.2602] [ 1222] [depth= 1] . ( 22 sec) [ -7619.4416] [ 1224] [depth= 1] . ( 23 sec) [ -7463.4614] [ 1211] [depth= 6] . ( 24 sec) [ -7462.4459] [ 1214] [depth= 1] . ( 24 sec) [ -7421.0576] [ 1205] [depth= 4] . ( 25 sec) [ -7407.3616] [ 1208] [depth= 2] . ( 25 sec) [ -7400.6877] [ 1204] [depth= 1] . ( 26 sec) [ -7379.8626] [ 1197] [depth= 2] . ( 26 sec) [ -7352.9566] [ 1201] [depth= 3] . ( 27 sec) [ -7334.9422] [ 1198] [depth= 5] . ( 27 sec) [ -7290.1591] [ 1192] [depth= 1] . ( 28 sec) [ -7270.7906] [ 1189] [depth= 1] . ( 29 sec) [ -7252.1294] [ 1185] [depth= 3] . ( 29 sec) [ -7226.6720] [ 1183] [depth= 5] . ( 30 sec) [ -7215.9590] [ 1179] [depth= 1] . ( 30 sec) [ -7213.1200] [ 1179] [depth= 1] . ( 31 sec) [ -7161.5064] [ 1165] [depth= 7] . ( 34 sec) [ -7154.0667] [ 1170] [depth= 4] . ( 34 sec) [ -7105.0517] [ 1168] [depth= 1] . ( 34 sec) [ -7103.5631] [ 1168] [depth= 1] . ( 35 sec) [ -7063.4605] [ 1165] [depth= 1] . ( 35 sec) [ -7062.3818] [ 1165] [depth= 1] . ( 36 sec) [ -7052.3322] [ 1170] [depth= 2] . ( 36 sec) [ -7046.8329] [ 1169] [depth= 1] . ( 37 sec) [ -7043.6351] [ 1166] [depth= 6] . ( 37 sec) [ -7041.2830] [ 1167] [depth= 2] . ( 38 sec) [ -7038.1680] [ 1166] [depth= 1] . ( 40 sec) [ -7035.7641] [ 1166] [depth= 1] . ( 41 sec) [ -7032.8960] [ 1169] [depth= 3] . ( 44 sec) [ -6982.1599] [Branch lengths ] . ( 44 sec) [ -6969.5888] [Alpha ][ 1.103336] . ( 58 sec) [ -6969.1181] [ 1168] [depth= 1] . ( 59 sec) [ -6959.8499] [ 1164] [depth= 3] . ( 64 sec) [ -6959.8277] [ 1164] [depth= 1] . ( 65 sec) [ -6952.9666] [ 1166] [depth= 2] . ( 66 sec) [ -6952.4026] [ 1168] [depth= 1] . ( 67 sec) [ -6952.3088] [ 1169] [depth= 2] . ( 68 sec) [ -6951.1246] [ 1167] [depth= 4] . ( 69 sec) [ -6950.8922] [ 1165] [depth= 1] . ( 69 sec) [ -6950.8581] [ 1167] [depth= 1] . ( 72 sec) [ -6948.5145] [ 1163] [depth= 2] . ( 76 sec) [ -6948.0032] [ 1161] [depth= 1] . ( 77 sec) [ -6946.0205] [ 1163] [depth= 1] . ( 83 sec) [ -6945.7035] [ 1159] [depth= 1] . ( 83 sec) [ -6943.5069] [ 1157] [depth= 6] . ( 89 sec) [ -6943.3240] [ 1161] [depth= 1] . ( 93 sec) [ -6940.5220] [ 1159] [depth= 1] . ( 101 sec) [ -6938.5398] [ 1157] [depth= 1] . ( 102 sec) [ -6937.1722] [ 1156] [depth= 2] . ( 107 sec) [ -6935.7615] [ 1152] [depth= 1] . ( 118 sec) [ -6921.7862] [Branch lengths ] . ( 119 sec) [ -6921.7796] [Alpha ][ 1.116808] . ( 133 sec) [ -6921.7402] [ 1150] [depth= 1] . ( 140 sec) [ -6920.5182] [ 1150] [depth= 1] . ( 142 sec) [ -6919.6423] [ 1150] [depth= 3] . ( 157 sec) [ -6919.4980] [ 1155] [depth= 3] . ( 171 sec) [ -6919.4234] [ 1155] [depth= 1] . ( 196 sec) [ -6915.6842] [Branch lengths ] . ( 196 sec) [ -6915.6552] [Alpha ][ 1.090259] . ( 237 sec) [ -6914.2000] [ 1156] [depth= 4] . ( 275 sec) [ -6912.8128] [Branch lengths ] . ( 276 sec) [ -6912.8076] [Alpha ][ 1.101690] . ( 310 sec) [ -6912.6944] [ 1156] [depth= 1] . ( 360 sec) [ -6912.5022] [Branch lengths ] . ( 360 sec) [ -6912.5021] [Alpha ][ 1.103046] . ( 361 sec) [ -6912.5021] [Topology ] . ( 364 sec) [ -6912.4932] [Topology ] . ( 367 sec) [ -6912.4899] [Topology ] . ( 370 sec) [ -6912.4882] [Topology ] . ( 373 sec) [ -6912.4873] [Topology ] . ( 374 sec) [ -6912.4873] [Alpha ][ 1.101943] . ( 374 sec) [ -6912.4873] [Topology ] . ( 377 sec) [ -6912.4867] [Topology ] . ( 378 sec) [ -6912.4867] [Alpha ][ 1.101943] . Checking for NNIs, optimizing five branches... . ( 400 sec) [ -6912.4856] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6912.485589. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -9633.7885] [Alpha ][ 0.591084] . ( 1 sec) [ -9555.1281] [ 1542] [depth= 6] . ( 2 sec) [ -9504.9628] [ 1529] [depth= 4] . ( 2 sec) [ -9434.5600] [ 1524] [depth= 3] . ( 2 sec) [ -9366.3561] [ 1516] [depth= 1] . ( 3 sec) [ -9278.7463] [ 1512] [depth= 9] . ( 3 sec) [ -9241.5892] [ 1513] [depth= 1] . ( 4 sec) [ -9120.3789] [ 1509] [depth= 5] . ( 4 sec) [ -9095.7174] [ 1500] [depth= 1] . ( 4 sec) [ -9095.4049] [ 1499] [depth= 1] . ( 5 sec) [ -9071.9205] [ 1495] [depth= 1] . ( 5 sec) [ -9034.9869] [ 1483] [depth= 6] . ( 6 sec) [ -9031.5884] [ 1480] [depth= 1] . ( 6 sec) [ -8953.4290] [ 1471] [depth= 9] . ( 6 sec) [ -8942.3285] [ 1470] [depth= 1] . ( 7 sec) [ -8843.6799] [ 1463] [depth= 13] . ( 7 sec) [ -8831.9438] [ 1457] [depth= 5] . ( 7 sec) [ -8807.1645] [ 1457] [depth= 1] . ( 8 sec) [ -8746.4927] [ 1443] [depth= 8] . ( 8 sec) [ -8652.2582] [ 1416] [depth= 7] . ( 9 sec) [ -8628.1838] [ 1418] [depth= 3] . ( 9 sec) [ -8623.2278] [ 1418] [depth= 4] . ( 10 sec) [ -8520.2463] [ 1395] [depth= 9] . ( 10 sec) [ -8507.8358] [ 1395] [depth= 2] . ( 11 sec) [ -8420.8164] [ 1385] [depth= 2] . ( 11 sec) [ -8418.8949] [ 1385] [depth= 1] . ( 12 sec) [ -8408.3630] [ 1381] [depth= 5] . ( 12 sec) [ -8390.3840] [ 1376] [depth= 3] . ( 13 sec) [ -8359.8018] [ 1368] [depth= 2] . ( 13 sec) [ -8355.9410] [ 1364] [depth= 2] . ( 14 sec) [ -8308.8312] [ 1358] [depth= 8] . ( 14 sec) [ -8304.7005] [ 1361] [depth= 4] . ( 15 sec) [ -8277.1509] [ 1347] [depth= 3] . ( 15 sec) [ -8178.9011] [ 1323] [depth= 13] . ( 16 sec) [ -8171.6006] [ 1327] [depth= 1] . ( 16 sec) [ -7794.2085] [ 1320] [depth= 2] . ( 17 sec) [ -7748.4086] [ 1313] [depth= 1] . ( 17 sec) [ -7732.4252] [ 1313] [depth= 1] . ( 17 sec) [ -7722.1558] [ 1313] [depth= 1] . ( 18 sec) [ -7624.3793] [ 1283] [depth= 3] . ( 18 sec) [ -7610.5167] [ 1275] [depth= 3] . ( 19 sec) [ -7574.5370] [ 1263] [depth= 9] . ( 19 sec) [ -7556.5010] [ 1260] [depth= 2] . ( 20 sec) [ -7478.0911] [ 1247] [depth= 3] . ( 20 sec) [ -7464.7436] [ 1244] [depth= 3] . ( 20 sec) [ -7456.6680] [ 1246] [depth= 1] . ( 22 sec) [ -7438.9968] [ 1244] [depth= 1] . ( 22 sec) [ -7409.0340] [ 1244] [depth= 1] . ( 22 sec) [ -7406.3715] [ 1244] [depth= 1] . ( 23 sec) [ -7392.0913] [ 1244] [depth= 1] . ( 23 sec) [ -7391.0097] [ 1242] [depth= 1] . ( 23 sec) [ -7378.1306] [ 1243] [depth= 1] . ( 24 sec) [ -7375.4946] [ 1242] [depth= 1] . ( 25 sec) [ -7368.5417] [ 1246] [depth= 3] . ( 25 sec) [ -7272.0926] [ 1221] [depth= 2] . ( 26 sec) [ -7270.7005] [ 1221] [depth= 1] . ( 27 sec) [ -7263.6902] [ 1220] [depth= 2] . ( 29 sec) [ -7258.1883] [ 1220] [depth= 2] . ( 30 sec) [ -7221.0354] [ 1197] [depth= 5] . ( 30 sec) [ -7207.3635] [ 1194] [depth= 1] . ( 30 sec) [ -7201.5248] [ 1195] [depth= 1] . ( 31 sec) [ -7196.1768] [ 1194] [depth= 1] . ( 33 sec) [ -7195.4523] [ 1194] [depth= 1] . ( 33 sec) [ -7194.4622] [ 1194] [depth= 3] . ( 33 sec) [ -7187.7758] [ 1193] [depth= 1] . ( 34 sec) [ -7185.5724] [ 1194] [depth= 3] . ( 35 sec) [ -7178.3097] [ 1191] [depth= 5] . ( 35 sec) [ -7153.9668] [ 1196] [depth= 2] . ( 36 sec) [ -7133.3895] [ 1193] [depth= 2] . ( 36 sec) [ -7079.3045] [ 1182] [depth= 2] . ( 37 sec) [ -7078.7316] [ 1183] [depth= 1] . ( 38 sec) [ -7072.6289] [ 1180] [depth= 7] . ( 39 sec) [ -7072.1365] [ 1179] [depth= 2] . ( 41 sec) [ -7063.0929] [ 1179] [depth= 2] . ( 42 sec) [ -7050.0176] [ 1177] [depth= 1] . ( 43 sec) [ -6992.7172] [Branch lengths ] . ( 44 sec) [ -6974.7653] [Alpha ][ 1.070761] . ( 45 sec) [ -6974.3931] [ 1179] [depth= 1] . ( 46 sec) [ -6970.5370] [ 1170] [depth= 7] . ( 54 sec) [ -6970.5009] [ 1168] [depth= 1] . ( 56 sec) [ -6970.3923] [ 1165] [depth= 1] . ( 58 sec) [ -6955.7439] [ 1158] [depth= 2] . ( 62 sec) [ -6953.3208] [ 1157] [depth= 1] . ( 63 sec) [ -6950.3180] [ 1157] [depth= 2] . ( 64 sec) [ -6950.2420] [ 1156] [depth= 1] . ( 66 sec) [ -6948.4979] [ 1156] [depth= 1] . ( 67 sec) [ -6945.3102] [ 1156] [depth= 1] . ( 68 sec) [ -6945.1548] [ 1156] [depth= 1] . ( 68 sec) [ -6944.8724] [ 1155] [depth= 1] . ( 71 sec) [ -6943.5584] [ 1150] [depth= 2] . ( 77 sec) [ -6943.5223] [ 1150] [depth= 1] . ( 82 sec) [ -6942.9604] [ 1149] [depth= 1] . ( 83 sec) [ -6939.0962] [ 1148] [depth= 1] . ( 88 sec) [ -6936.8503] [ 1150] [depth= 1] . ( 94 sec) [ -6936.7090] [ 1152] [depth= 1] . ( 98 sec) [ -6936.0488] [ 1152] [depth= 1] . ( 99 sec) [ -6932.6221] [ 1152] [depth= 1] . ( 101 sec) [ -6932.3886] [ 1153] [depth= 1] . ( 103 sec) [ -6929.4037] [ 1158] [depth= 4] . ( 107 sec) [ -6928.6663] [ 1159] [depth= 1] . ( 113 sec) [ -6919.1855] [Branch lengths ] . ( 114 sec) [ -6919.0625] [Alpha ][ 1.126629] . ( 160 sec) [ -6918.7054] [ 1156] [depth= 1] . ( 203 sec) [ -6917.5156] [Branch lengths ] . ( 203 sec) [ -6917.5133] [Alpha ][ 1.118615] . ( 289 sec) [ -6917.2610] [Branch lengths ] . ( 289 sec) [ -6917.2610] [Topology ] . ( 292 sec) [ -6917.2193] [Topology ] . ( 295 sec) [ -6917.2014] [Topology ] . ( 298 sec) [ -6917.1915] [Topology ] . ( 301 sec) [ -6917.1857] [Topology ] . ( 304 sec) [ -6917.1824] [Topology ] . ( 308 sec) [ -6917.1804] [Topology ] . ( 308 sec) [ -6917.1778] [Alpha ][ 1.110048] . ( 308 sec) [ -6917.1778] [Topology ] . ( 311 sec) [ -6917.1760] [Topology ] . ( 315 sec) [ -6917.1751] [Topology ] . ( 315 sec) [ -6917.1750] [Alpha ][ 1.108938] . ( 315 sec) [ -6917.1750] [Topology ] . ( 318 sec) [ -6917.1744] [Topology ] . ( 319 sec) [ -6917.1744] [Alpha ][ 1.108938] . Checking for NNIs, optimizing five branches... . ( 340 sec) [ -6917.1013] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6917.101301. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -9598.2728] [Alpha ][ 0.628389] . ( 1 sec) [ -9531.0331] [ 1554] [depth= 6] . ( 2 sec) [ -9455.7055] [ 1539] [depth= 7] . ( 2 sec) [ -9401.4400] [ 1535] [depth= 2] . ( 2 sec) [ -9385.3175] [ 1531] [depth= 1] . ( 3 sec) [ -9336.2479] [ 1516] [depth= 1] . ( 3 sec) [ -9303.8842] [ 1514] [depth= 5] . ( 3 sec) [ -9288.3088] [ 1509] [depth= 8] . ( 4 sec) [ -9268.3105] [ 1504] [depth= 1] . ( 4 sec) [ -9070.3736] [ 1504] [depth= 1] . ( 5 sec) [ -9015.6939] [ 1501] [depth= 12] . ( 5 sec) [ -8969.5932] [ 1488] [depth= 13] . ( 5 sec) [ -8967.9018] [ 1487] [depth= 1] . ( 6 sec) [ -8914.7876] [ 1477] [depth= 6] . ( 7 sec) [ -8853.6293] [ 1460] [depth= 6] . ( 7 sec) [ -8839.3876] [ 1457] [depth= 1] . ( 7 sec) [ -8828.0885] [ 1451] [depth= 8] . ( 8 sec) [ -8807.3249] [ 1439] [depth= 10] . ( 8 sec) [ -8762.0528] [ 1420] [depth= 10] . ( 9 sec) [ -8667.6576] [ 1398] [depth= 9] . ( 9 sec) [ -8618.4027] [ 1391] [depth= 8] . ( 10 sec) [ -8546.1426] [ 1389] [depth= 1] . ( 10 sec) [ -8539.2955] [ 1389] [depth= 1] . ( 11 sec) [ -8411.0308] [ 1384] [depth= 1] . ( 11 sec) [ -8399.8186] [ 1381] [depth= 3] . ( 11 sec) [ -8380.2336] [ 1382] [depth= 3] . ( 12 sec) [ -8297.4293] [ 1372] [depth= 5] . ( 12 sec) [ -8288.5809] [ 1372] [depth= 3] . ( 13 sec) [ -8232.2059] [ 1354] [depth= 12] . ( 13 sec) [ -8112.0913] [ 1338] [depth= 6] . ( 13 sec) [ -8106.2613] [ 1342] [depth= 16] . ( 14 sec) [ -8009.0357] [ 1319] [depth= 4] . ( 14 sec) [ -7941.8276] [ 1317] [depth= 1] . ( 15 sec) [ -7785.4749] [ 1301] [depth= 14] . ( 15 sec) [ -7778.6270] [ 1298] [depth= 1] . ( 15 sec) [ -7711.6894] [ 1291] [depth= 3] . ( 16 sec) [ -7681.2329] [ 1268] [depth= 13] . ( 16 sec) [ -7654.9858] [ 1265] [depth= 2] . ( 19 sec) [ -7624.2418] [ 1255] [depth= 2] . ( 19 sec) [ -7506.4534] [ 1249] [depth= 5] . ( 20 sec) [ -7504.3547] [ 1245] [depth= 2] . ( 20 sec) [ -7428.3234] [ 1237] [depth= 8] . ( 21 sec) [ -7420.8536] [ 1239] [depth= 2] . ( 22 sec) [ -7394.9110] [ 1235] [depth= 1] . ( 22 sec) [ -7394.0667] [ 1234] [depth= 1] . ( 24 sec) [ -7370.7968] [ 1233] [depth= 2] . ( 24 sec) [ -7351.0298] [ 1225] [depth= 2] . ( 25 sec) [ -7347.2073] [ 1225] [depth= 1] . ( 25 sec) [ -7338.9608] [ 1222] [depth= 2] . ( 25 sec) [ -7314.7921] [ 1219] [depth= 7] . ( 26 sec) [ -7310.0888] [ 1222] [depth= 1] . ( 26 sec) [ -7227.5592] [ 1201] [depth= 4] . ( 27 sec) [ -7225.1018] [ 1201] [depth= 1] . ( 29 sec) [ -7214.7885] [ 1200] [depth= 1] . ( 29 sec) [ -7198.2558] [ 1200] [depth= 1] . ( 29 sec) [ -7191.3786] [ 1199] [depth= 2] . ( 30 sec) [ -7190.5546] [ 1200] [depth= 1] . ( 31 sec) [ -7150.1353] [ 1199] [depth= 2] . ( 31 sec) [ -7137.5644] [ 1192] [depth= 12] . ( 31 sec) [ -7133.2086] [ 1188] [depth= 2] . ( 32 sec) [ -7121.9072] [ 1185] [depth= 5] . ( 32 sec) [ -7119.0815] [ 1184] [depth= 1] . ( 34 sec) [ -7092.5509] [ 1179] [depth= 3] . ( 35 sec) [ -7090.5185] [ 1175] [depth= 2] . ( 35 sec) [ -7083.0753] [ 1175] [depth= 3] . ( 36 sec) [ -7076.6620] [ 1173] [depth= 1] . ( 36 sec) [ -7066.2475] [ 1169] [depth= 3] . ( 37 sec) [ -7064.4462] [ 1169] [depth= 1] . ( 37 sec) [ -7063.2497] [ 1173] [depth= 1] . ( 38 sec) [ -7053.4168] [ 1170] [depth= 4] . ( 38 sec) [ -7052.6544] [ 1170] [depth= 1] . ( 39 sec) [ -7051.1305] [ 1170] [depth= 1] . ( 39 sec) [ -7049.7902] [ 1172] [depth= 1] . ( 40 sec) [ -7044.5565] [ 1168] [depth= 1] . ( 41 sec) [ -7041.9926] [ 1167] [depth= 1] . ( 42 sec) [ -7040.5005] [ 1167] [depth= 1] . ( 43 sec) [ -7037.2206] [ 1168] [depth= 1] . ( 44 sec) [ -6973.8565] [Branch lengths ] . ( 45 sec) [ -6958.6204] [Alpha ][ 1.091747] . ( 50 sec) [ -6958.5155] [ 1164] [depth= 1] . ( 52 sec) [ -6945.5664] [ 1159] [depth= 4] . ( 54 sec) [ -6945.3920] [ 1159] [depth= 1] . ( 62 sec) [ -6940.0055] [ 1157] [depth= 1] . ( 67 sec) [ -6939.7572] [ 1157] [depth= 1] . ( 74 sec) [ -6939.2196] [ 1157] [depth= 1] . ( 80 sec) [ -6938.3612] [ 1158] [depth= 3] . ( 81 sec) [ -6936.6461] [ 1157] [depth= 1] . ( 83 sec) [ -6935.5138] [ 1160] [depth= 1] . ( 84 sec) [ -6933.8277] [ 1159] [depth= 2] . ( 84 sec) [ -6933.7082] [ 1159] [depth= 1] . ( 85 sec) [ -6933.6588] [ 1159] [depth= 1] . ( 86 sec) [ -6933.1130] [ 1161] [depth= 1] . ( 88 sec) [ -6930.6949] [ 1159] [depth= 1] . ( 98 sec) [ -6926.7479] [ 1162] [depth= 4] . ( 99 sec) [ -6925.3418] [ 1157] [depth= 1] . ( 100 sec) [ -6924.7518] [ 1157] [depth= 1] . ( 104 sec) [ -6923.6516] [ 1157] [depth= 1] . ( 105 sec) [ -6923.4594] [ 1157] [depth= 1] . ( 119 sec) [ -6913.7014] [Branch lengths ] . ( 119 sec) [ -6913.6981] [Alpha ][ 1.100912] . ( 205 sec) [ -6913.2512] [Branch lengths ] . ( 205 sec) [ -6913.2512] [Topology ] . ( 208 sec) [ -6912.8078] [Topology ] . ( 211 sec) [ -6912.4645] [Topology ] . ( 215 sec) [ -6912.4250] [Topology ] . ( 218 sec) [ -6912.4149] [Topology ] . ( 221 sec) [ -6912.4110] [Topology ] . ( 224 sec) [ -6912.4091] [Topology ] . ( 227 sec) [ -6912.4080] [Topology ] . ( 228 sec) [ -6912.4080] [Alpha ][ 1.102012] . ( 228 sec) [ -6912.4080] [Topology ] . ( 231 sec) [ -6912.4075] [Topology ] . ( 232 sec) [ -6912.4075] [Alpha ][ 1.102012] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -6912.407457. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -7041.5767] [Alpha ][ 1.039970] . ( 1 sec) [ -7041.5767] [Topology ] . ( 4 sec) [ -6954.7233] [Topology ] . ( 7 sec) [ -6937.3995] [Topology ] . ( 10 sec) [ -6929.6201] [Topology ] . ( 13 sec) [ -6925.4982] [Topology ] . ( 16 sec) [ -6923.5250] [Topology ] . ( 19 sec) [ -6923.0761] [Topology ] . ( 23 sec) [ -6922.8111] [Topology ] . ( 26 sec) [ -6922.4654] [Topology ] . ( 29 sec) [ -6921.7624] [Topology ] . Checking for NNIs, optimizing five branches... . ( 53 sec) [ -6921.4194] [Alpha ][ 1.108338] . ( 53 sec) [ -6921.4194] [Topology ] . ( 56 sec) [ -6921.3642] [Topology ] . ( 59 sec) [ -6921.3434] [Topology ] . ( 62 sec) [ -6921.3336] [Topology ] . ( 66 sec) [ -6921.3286] [Topology ] . ( 69 sec) [ -6921.3259] [Topology ] . ( 72 sec) [ -6921.3244] [Topology ] . Checking for NNIs, optimizing five branches... . ( 93 sec) [ -6921.3244] [Alpha ][ 1.107229] . ( 93 sec) [ -6921.3244] [Topology ] . ( 96 sec) [ -6921.3235] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 138 sec) [ -7041.5767] [Alpha ][ 1.039970] . ( 139 sec) [ -7041.4766] [ 1170] [depth= 1] . ( 139 sec) [ -7032.3161] [ 1167] [depth= 1] . ( 141 sec) [ -7032.0406] [ 1171] [depth= 1] . ( 143 sec) [ -7029.4414] [ 1170] [depth= 1] . ( 149 sec) [ -7021.2467] [ 1169] [depth= 1] . ( 150 sec) [ -7020.6891] [ 1169] [depth= 1] . ( 150 sec) [ -7019.0608] [ 1169] [depth= 1] . ( 151 sec) [ -7019.0134] [ 1169] [depth= 1] . ( 151 sec) [ -7014.7294] [ 1168] [depth= 1] . ( 152 sec) [ -7014.0785] [ 1172] [depth= 2] . ( 153 sec) [ -6995.0640] [ 1171] [depth= 3] . ( 153 sec) [ -6989.8121] [ 1169] [depth= 1] . ( 154 sec) [ -6987.0472] [ 1167] [depth= 1] . ( 157 sec) [ -6983.8166] [ 1168] [depth= 2] . ( 158 sec) [ -6982.3027] [ 1166] [depth= 1] . ( 165 sec) [ -6975.1448] [ 1163] [depth= 1] . ( 168 sec) [ -6973.3467] [ 1163] [depth= 1] . ( 171 sec) [ -6969.0660] [ 1162] [depth= 1] . ( 171 sec) [ -6965.6660] [ 1162] [depth= 2] . ( 172 sec) [ -6963.6494] [ 1162] [depth= 1] . ( 181 sec) [ -6963.3661] [ 1162] [depth= 1] . ( 181 sec) [ -6957.2622] [ 1159] [depth= 2] . ( 192 sec) [ -6953.8349] [ 1158] [depth= 1] . ( 193 sec) [ -6951.2446] [ 1157] [depth= 1] . ( 195 sec) [ -6951.1408] [ 1157] [depth= 1] . ( 203 sec) [ -6920.4360] [Branch lengths ] . ( 204 sec) [ -6920.1948] [Alpha ][ 1.117385] . ( 206 sec) [ -6918.7101] [ 1154] [depth= 1] . ( 209 sec) [ -6917.2558] [ 1155] [depth= 4] . ( 233 sec) [ -6916.4072] [ 1155] [depth= 1] . ( 286 sec) [ -6912.9641] [Branch lengths ] . ( 287 sec) [ -6912.9639] [Alpha ][ 1.115145] . ( 372 sec) [ -6912.5176] [Branch lengths ] . ( 372 sec) [ -6912.5176] [Topology ] . ( 375 sec) [ -6912.4635] [Topology ] . ( 378 sec) [ -6912.4413] [Topology ] . ( 381 sec) [ -6912.4295] [Topology ] . ( 385 sec) [ -6912.4229] [Topology ] . ( 388 sec) [ -6912.4193] [Topology ] . ( 391 sec) [ -6912.4171] [Topology ] . ( 392 sec) [ -6912.4114] [Alpha ][ 1.102780] . ( 392 sec) [ -6912.4114] [Topology ] . ( 395 sec) [ -6912.4094] [Topology ] . ( 398 sec) [ -6912.4083] [Topology ] . ( 401 sec) [ -6912.4077] [Topology ] . ( 402 sec) [ -6912.4077] [Alpha ][ 1.101636] . ( 402 sec) [ -6912.4077] [Topology ] . ( 405 sec) [ -6912.4073] [Topology ] . ( 406 sec) [ -6912.4073] [Alpha ][ 1.101636] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -6921.323469 . Log likelihood obtained after SPR moves : -6912.407324 . Log likelihood of the current tree: -6912.407324. . Printing the most likely tree in file 'proteic_M1601_36x340_2003.phy_phyml_tree.txt'... . Best log likelihood : -6912.407295 . Time used 0h7m7s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 2166.73user 0.00system 36:18.66elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps