.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2639_19x331_2006.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... . 227 patterns found. (out of a total of 331 sites) . 124 sites without polymorphism (37.46%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 10Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -7741.3508] [Alpha ][ 0.500960] . ( 1 sec) [ -7648.2280] [ 1228] [depth= 6] . ( 1 sec) [ -7351.8877] [ 1180] [depth= 6] . ( 1 sec) [ -7252.0109] [ 1171] [depth= 3] . ( 1 sec) [ -7223.8856] [ 1160] [depth= 3] . ( 1 sec) [ -7209.2162] [ 1155] [depth= 1] . ( 1 sec) [ -7067.0408] [ 1150] [depth= 3] . ( 2 sec) [ -6984.0526] [ 1147] [depth= 2] . ( 2 sec) [ -6972.0691] [ 1148] [depth= 1] . ( 2 sec) [ -6938.7513] [ 1141] [depth= 1] . ( 2 sec) [ -6808.9229] [ 1122] [depth= 4] . ( 2 sec) [ -6795.0398] [ 1119] [depth= 1] . ( 2 sec) [ -6702.8348] [ 1096] [depth= 1] . ( 3 sec) [ -6641.8344] [ 1086] [depth= 3] . ( 3 sec) [ -6639.5315] [ 1090] [depth= 1] . ( 3 sec) [ -6634.0238] [ 1091] [depth= 1] . ( 4 sec) [ -6600.6333] [ 1081] [depth= 1] . ( 4 sec) [ -6592.5594] [ 1078] [depth= 1] . ( 4 sec) [ -6558.0908] [ 1081] [depth= 3] . ( 4 sec) [ -6363.2447] [ 1042] [depth= 5] . ( 4 sec) [ -6362.2331] [ 1038] [depth= 7] . ( 5 sec) [ -6361.3218] [ 1041] [depth= 1] . ( 5 sec) [ -6351.9594] [ 1036] [depth= 2] . ( 5 sec) [ -6347.1911] [ 1033] [depth= 1] . ( 5 sec) [ -6245.1870] [ 1018] [depth= 5] . ( 6 sec) [ -6181.2470] [ 1013] [depth= 1] . ( 6 sec) [ -5941.8462] [ 969] [depth= 2] . ( 6 sec) [ -5937.5285] [ 975] [depth= 1] . ( 6 sec) [ -5923.7963] [ 969] [depth= 1] . ( 6 sec) [ -5910.4698] [ 967] [depth= 3] . ( 7 sec) [ -5909.0558] [ 968] [depth= 2] . ( 7 sec) [ -5908.8325] [ 969] [depth= 1] . ( 7 sec) [ -5825.3205] [ 943] [depth= 1] . ( 7 sec) [ -5803.6774] [ 943] [depth= 2] . ( 8 sec) [ -5752.4770] [Branch lengths ] . ( 8 sec) [ -5752.1278] [Alpha ][ 0.539674] . ( 9 sec) [ -5752.0537] [ 941] [depth= 1] . ( 10 sec) [ -5750.5925] [ 941] [depth= 1] . ( 10 sec) [ -5750.2975] [ 943] [depth= 1] . ( 10 sec) [ -5743.6082] [ 942] [depth= 1] . ( 11 sec) [ -5743.2324] [ 939] [depth= 1] . ( 21 sec) [ -5739.1864] [Branch lengths ] . ( 21 sec) [ -5739.1826] [Alpha ][ 0.543993] . ( 36 sec) [ -5739.0550] [Branch lengths ] . ( 36 sec) [ -5739.0550] [Topology ] . ( 37 sec) [ -5739.0519] [Topology ] . ( 38 sec) [ -5739.0511] [Topology ] . ( 38 sec) [ -5739.0490] [Alpha ][ 0.540607] . ( 38 sec) [ -5739.0490] [Topology ] . ( 39 sec) [ -5739.0481] [Topology ] . ( 39 sec) [ -5739.0481] [Alpha ][ 0.540607] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5739.048057. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -8112.3138] [Alpha ][ 0.500960] . ( 0 sec) [ -8058.1069] [ 1273] [depth= 3] . ( 0 sec) [ -7861.1940] [ 1231] [depth= 2] . ( 1 sec) [ -7678.0786] [ 1220] [depth= 3] . ( 1 sec) [ -7335.3170] [ 1210] [depth= 3] . ( 1 sec) [ -7208.6114] [ 1183] [depth= 5] . ( 1 sec) [ -7121.0969] [ 1171] [depth= 3] . ( 1 sec) [ -6790.1803] [ 1171] [depth= 5] . ( 1 sec) [ -6672.9469] [ 1167] [depth= 2] . ( 1 sec) [ -6564.7767] [ 1144] [depth= 4] . ( 2 sec) [ -6473.4759] [ 1103] [depth= 6] . ( 2 sec) [ -6469.4991] [ 1107] [depth= 1] . ( 2 sec) [ -6381.9506] [ 1082] [depth= 3] . ( 2 sec) [ -6292.4862] [ 1072] [depth= 1] . ( 2 sec) [ -6214.9284] [ 1047] [depth= 6] . ( 2 sec) [ -6214.5995] [ 1045] [depth= 8] . ( 3 sec) [ -6186.4218] [ 1031] [depth= 1] . ( 3 sec) [ -6182.1763] [ 1027] [depth= 1] . ( 3 sec) [ -6175.6169] [ 1027] [depth= 1] . ( 4 sec) [ -6168.8153] [ 1024] [depth= 2] . ( 4 sec) [ -6148.1314] [ 1015] [depth= 4] . ( 4 sec) [ -6028.8770] [ 998] [depth= 3] . ( 4 sec) [ -5947.5017] [ 972] [depth= 1] . ( 5 sec) [ -5944.3224] [ 970] [depth= 3] . ( 5 sec) [ -5943.7324] [ 979] [depth= 4] . ( 5 sec) [ -5937.1066] [ 978] [depth= 2] . ( 5 sec) [ -5853.6132] [ 953] [depth= 1] . ( 6 sec) [ -5833.0049] [ 951] [depth= 1] . ( 6 sec) [ -5802.2677] [ 947] [depth= 2] . ( 9 sec) [ -5757.0870] [Branch lengths ] . ( 9 sec) [ -5756.3561] [Alpha ][ 0.557179] . ( 15 sec) [ -5747.8477] [ 942] [depth= 2] . ( 15 sec) [ -5747.7261] [ 945] [depth= 1] . ( 21 sec) [ -5746.3622] [Branch lengths ] . ( 21 sec) [ -5746.3504] [Alpha ][ 0.549780] . ( 24 sec) [ -5745.4243] [ 941] [depth= 2] . ( 26 sec) [ -5744.9900] [ 942] [depth= 1] . ( 37 sec) [ -5743.4803] [Branch lengths ] . ( 37 sec) [ -5743.4759] [Alpha ][ 0.544965] . ( 53 sec) [ -5743.3941] [Branch lengths ] . ( 53 sec) [ -5743.3941] [Topology ] . ( 54 sec) [ -5743.3826] [Topology ] . ( 55 sec) [ -5743.3786] [Topology ] . ( 55 sec) [ -5743.3767] [Topology ] . ( 56 sec) [ -5743.3758] [Topology ] . ( 57 sec) [ -5743.3689] [Alpha ][ 0.538974] . ( 57 sec) [ -5743.3689] [Topology ] . ( 58 sec) [ -5743.3668] [Topology ] . ( 58 sec) [ -5743.3659] [Topology ] . ( 59 sec) [ -5743.3658] [Alpha ][ 0.538212] . ( 59 sec) [ -5743.3658] [Topology ] . ( 60 sec) [ -5743.3652] [Topology ] . ( 60 sec) [ -5743.3652] [Alpha ][ 0.538212] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5743.365157. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -7389.8910] [Alpha ][ 0.500960] . ( 1 sec) [ -7285.0906] [ 1202] [depth= 4] . ( 1 sec) [ -7139.5385] [ 1192] [depth= 3] . ( 1 sec) [ -7070.3505] [ 1187] [depth= 2] . ( 1 sec) [ -7006.8164] [ 1169] [depth= 4] . ( 1 sec) [ -6859.3486] [ 1133] [depth= 1] . ( 2 sec) [ -6849.8837] [ 1132] [depth= 1] . ( 2 sec) [ -6810.4048] [ 1128] [depth= 1] . ( 2 sec) [ -6767.1755] [ 1123] [depth= 1] . ( 2 sec) [ -6728.2098] [ 1114] [depth= 4] . ( 2 sec) [ -6584.9014] [ 1107] [depth= 3] . ( 2 sec) [ -6568.5365] [ 1100] [depth= 1] . ( 3 sec) [ -6557.4146] [ 1099] [depth= 6] . ( 3 sec) [ -6535.6604] [ 1092] [depth= 4] . ( 3 sec) [ -6484.0711] [ 1086] [depth= 9] . ( 3 sec) [ -6369.0349] [ 1052] [depth= 3] . ( 3 sec) [ -6365.0681] [ 1053] [depth= 1] . ( 4 sec) [ -6294.1481] [ 1050] [depth= 7] . ( 4 sec) [ -6264.4184] [ 1046] [depth= 2] . ( 4 sec) [ -6193.9353] [ 1038] [depth= 1] . ( 4 sec) [ -6192.6698] [ 1037] [depth= 4] . ( 4 sec) [ -6175.0759] [ 1033] [depth= 5] . ( 4 sec) [ -6160.8292] [ 1027] [depth= 1] . ( 5 sec) [ -6148.1793] [ 1023] [depth= 1] . ( 5 sec) [ -6090.1142] [ 993] [depth= 2] . ( 6 sec) [ -6005.8715] [ 983] [depth= 1] . ( 6 sec) [ -5997.9039] [ 979] [depth= 1] . ( 6 sec) [ -5968.7374] [ 974] [depth= 4] . ( 6 sec) [ -5945.3880] [ 967] [depth= 1] . ( 7 sec) [ -5932.3137] [ 967] [depth= 1] . ( 7 sec) [ -5895.7921] [ 950] [depth= 2] . ( 7 sec) [ -5889.8520] [ 949] [depth= 1] . ( 7 sec) [ -5858.4299] [ 944] [depth= 1] . ( 8 sec) [ -5772.0075] [Branch lengths ] . ( 8 sec) [ -5771.0275] [Alpha ][ 0.565982] . ( 8 sec) [ -5767.0955] [ 942] [depth= 1] . ( 9 sec) [ -5760.2109] [ 941] [depth= 1] . ( 9 sec) [ -5755.8899] [ 939] [depth= 1] . ( 10 sec) [ -5750.4135] [ 941] [depth= 1] . ( 13 sec) [ -5750.1461] [ 944] [depth= 1] . ( 20 sec) [ -5744.6264] [Branch lengths ] . ( 20 sec) [ -5744.5754] [Alpha ][ 0.549983] . ( 27 sec) [ -5744.1697] [ 941] [depth= 1] . ( 36 sec) [ -5742.9424] [Branch lengths ] . ( 36 sec) [ -5742.9361] [Alpha ][ 0.544214] . ( 51 sec) [ -5742.8467] [Branch lengths ] . ( 51 sec) [ -5742.8467] [Topology ] . ( 52 sec) [ -5742.8367] [Topology ] . ( 53 sec) [ -5742.8334] [Topology ] . ( 54 sec) [ -5742.8318] [Topology ] . ( 55 sec) [ -5742.8310] [Topology ] . ( 55 sec) [ -5742.8262] [Alpha ][ 0.539175] . ( 55 sec) [ -5742.8262] [Topology ] . ( 56 sec) [ -5742.8248] [Topology ] . ( 57 sec) [ -5742.8241] [Topology ] . ( 57 sec) [ -5742.8241] [Alpha ][ 0.538604] . ( 57 sec) [ -5742.8241] [Topology ] . ( 58 sec) [ -5742.8237] [Topology ] . ( 58 sec) [ -5742.8237] [Alpha ][ 0.538604] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5742.823656. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -7266.0070] [Alpha ][ 0.500960] . ( 0 sec) [ -7174.3754] [ 1175] [depth= 6] . ( 0 sec) [ -7138.2264] [ 1171] [depth= 2] . ( 1 sec) [ -7098.4115] [ 1154] [depth= 5] . ( 1 sec) [ -7066.2217] [ 1143] [depth= 1] . ( 1 sec) [ -7045.4785] [ 1140] [depth= 3] . ( 1 sec) [ -7009.8207] [ 1131] [depth= 1] . ( 1 sec) [ -6914.0552] [ 1129] [depth= 1] . ( 1 sec) [ -6843.3507] [ 1121] [depth= 4] . ( 1 sec) [ -6755.8364] [ 1111] [depth= 7] . ( 2 sec) [ -6708.9030] [ 1089] [depth= 3] . ( 2 sec) [ -6652.0465] [ 1090] [depth= 5] . ( 2 sec) [ -6628.8962] [ 1086] [depth= 2] . ( 2 sec) [ -6605.3377] [ 1085] [depth= 2] . ( 2 sec) [ -6583.2806] [ 1081] [depth= 1] . ( 2 sec) [ -6578.8735] [ 1079] [depth= 1] . ( 3 sec) [ -6424.3311] [ 1077] [depth= 3] . ( 3 sec) [ -6385.8005] [ 1067] [depth= 4] . ( 3 sec) [ -6166.4139] [ 1003] [depth= 3] . ( 3 sec) [ -6064.6795] [ 989] [depth= 1] . ( 4 sec) [ -5994.6996] [ 978] [depth= 7] . ( 4 sec) [ -5965.6436] [ 975] [depth= 1] . ( 4 sec) [ -5963.6601] [ 978] [depth= 1] . ( 4 sec) [ -5958.1651] [ 980] [depth= 2] . ( 5 sec) [ -5925.7337] [ 969] [depth= 4] . ( 5 sec) [ -5907.0323] [ 983] [depth= 1] . ( 5 sec) [ -5830.6736] [ 960] [depth= 1] . ( 5 sec) [ -5827.5459] [ 962] [depth= 1] . ( 5 sec) [ -5805.6054] [ 945] [depth= 1] . ( 6 sec) [ -5803.8818] [ 942] [depth= 3] . ( 7 sec) [ -5801.5486] [ 943] [depth= 1] . ( 7 sec) [ -5748.9981] [Branch lengths ] . ( 7 sec) [ -5748.9781] [Alpha ][ 0.510338] . ( 9 sec) [ -5747.3150] [ 939] [depth= 1] . ( 10 sec) [ -5744.5230] [ 942] [depth= 2] . ( 10 sec) [ -5744.2158] [ 939] [depth= 1] . ( 16 sec) [ -5742.9663] [ 942] [depth= 1] . ( 20 sec) [ -5740.0163] [Branch lengths ] . ( 20 sec) [ -5739.9875] [Alpha ][ 0.521316] . ( 22 sec) [ -5739.8721] [ 939] [depth= 1] . ( 34 sec) [ -5739.1389] [Branch lengths ] . ( 35 sec) [ -5739.1092] [Alpha ][ 0.532709] . ( 35 sec) [ -5739.1092] [Topology ] . ( 36 sec) [ -5739.0771] [Topology ] . ( 36 sec) [ -5739.0653] [Topology ] . ( 37 sec) [ -5739.0599] [Topology ] . ( 38 sec) [ -5739.0574] [Topology ] . ( 39 sec) [ -5739.0562] [Topology ] . ( 40 sec) [ -5739.0555] [Topology ] . ( 40 sec) [ -5739.0503] [Alpha ][ 0.537755] . ( 40 sec) [ -5739.0503] [Topology ] . ( 41 sec) [ -5739.0488] [Topology ] . ( 42 sec) [ -5739.0481] [Topology ] . ( 42 sec) [ -5739.0480] [Alpha ][ 0.538419] . ( 42 sec) [ -5739.0480] [Topology ] . ( 43 sec) [ -5739.0476] [Topology ] . ( 43 sec) [ -5739.0476] [Alpha ][ 0.538957] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5739.047571. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 0 sec) [ -7612.7228] [Alpha ][ 0.500960] . ( 0 sec) [ -7522.5147] [ 1258] [depth= 2] . ( 0 sec) [ -7221.5852] [ 1216] [depth= 8] . ( 0 sec) [ -7171.3634] [ 1200] [depth= 3] . ( 1 sec) [ -7073.6605] [ 1174] [depth= 1] . ( 1 sec) [ -6919.4772] [ 1173] [depth= 8] . ( 1 sec) [ -6912.3161] [ 1170] [depth= 1] . ( 1 sec) [ -6872.6110] [ 1163] [depth= 2] . ( 1 sec) [ -6804.9963] [ 1154] [depth= 3] . ( 1 sec) [ -6708.4016] [ 1124] [depth= 2] . ( 2 sec) [ -6648.7455] [ 1123] [depth= 2] . ( 2 sec) [ -6643.0594] [ 1117] [depth= 1] . ( 2 sec) [ -6589.0166] [ 1108] [depth= 3] . ( 2 sec) [ -6582.1761] [ 1106] [depth= 1] . ( 2 sec) [ -6541.2467] [ 1097] [depth= 8] . ( 2 sec) [ -6535.0326] [ 1089] [depth= 3] . ( 3 sec) [ -6517.0666] [ 1094] [depth= 4] . ( 3 sec) [ -6460.8877] [ 1083] [depth= 1] . ( 3 sec) [ -6455.3388] [ 1079] [depth= 1] . ( 3 sec) [ -6422.3504] [ 1073] [depth= 2] . ( 3 sec) [ -6414.4511] [ 1068] [depth= 2] . ( 3 sec) [ -6373.7341] [ 1059] [depth= 1] . ( 3 sec) [ -6337.5289] [ 1058] [depth= 1] . ( 4 sec) [ -6333.0411] [ 1057] [depth= 1] . ( 4 sec) [ -6302.1359] [ 1068] [depth= 7] . ( 4 sec) [ -6117.6922] [ 1034] [depth= 5] . ( 4 sec) [ -6110.1484] [ 1031] [depth= 1] . ( 5 sec) [ -6075.0308] [ 1027] [depth= 1] . ( 5 sec) [ -6052.6024] [ 1020] [depth= 2] . ( 5 sec) [ -5963.1116] [ 997] [depth= 3] . ( 5 sec) [ -5953.7561] [ 999] [depth= 1] . ( 5 sec) [ -5931.4806] [ 997] [depth= 2] . ( 6 sec) [ -5903.5366] [ 990] [depth= 1] . ( 6 sec) [ -5895.6150] [ 986] [depth= 1] . ( 7 sec) [ -5883.3116] [ 978] [depth= 1] . ( 7 sec) [ -5880.7484] [ 979] [depth= 1] . ( 7 sec) [ -5873.4068] [ 978] [depth= 4] . ( 7 sec) [ -5838.9141] [Branch lengths ] . ( 7 sec) [ -5838.6774] [Alpha ][ 0.531582] . ( 10 sec) [ -5838.3903] [ 976] [depth= 1] . ( 10 sec) [ -5773.4862] [ 952] [depth= 1] . ( 10 sec) [ -5772.3837] [ 951] [depth= 1] . ( 10 sec) [ -5749.4252] [ 943] [depth= 3] . ( 16 sec) [ -5749.2616] [ 944] [depth= 1] . ( 21 sec) [ -5746.6744] [Branch lengths ] . ( 21 sec) [ -5746.6507] [Alpha ][ 0.542350] . ( 30 sec) [ -5746.2854] [ 944] [depth= 2] . ( 34 sec) [ -5746.2188] [ 943] [depth= 1] . ( 38 sec) [ -5745.3206] [Branch lengths ] . ( 38 sec) [ -5745.3206] [Alpha ][ 0.542350] . ( 40 sec) [ -5744.4813] [ 940] [depth= 1] . ( 44 sec) [ -5742.0371] [ 942] [depth= 2] . ( 51 sec) [ -5739.7073] [Branch lengths ] . ( 52 sec) [ -5739.7024] [Alpha ][ 0.537281] . ( 53 sec) [ -5739.4420] [ 939] [depth= 1] . ( 66 sec) [ -5739.0649] [Branch lengths ] . ( 66 sec) [ -5739.0629] [Alpha ][ 0.540410] . ( 67 sec) [ -5739.0629] [Topology ] . ( 67 sec) [ -5739.0488] [Topology ] . ( 68 sec) [ -5739.0476] [Topology ] . ( 69 sec) [ -5739.0473] [Topology ] . ( 69 sec) [ -5739.0473] [Alpha ][ 0.539820] . ( 69 sec) [ -5739.0473] [Topology ] . ( 70 sec) [ -5739.0471] [Topology ] . ( 71 sec) [ -5739.0471] [Alpha ][ 0.539820] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -5739.047115. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . ( 0 sec) [ -5780.2367] [Alpha ][ 0.500960] . ( 0 sec) [ -5780.2367] [Topology ] . ( 1 sec) [ -5754.7918] [Topology ] . ( 2 sec) [ -5747.5766] [Topology ] . ( 3 sec) [ -5749.2733] [Topology ] . Moving backward . ( 3 sec) [ -5746.2586] [Topology ] . ( 4 sec) [ -5744.3171] [Topology ] . ( 5 sec) [ -5743.7284] [Topology ] . ( 6 sec) [ -5743.6475] [Topology ] . ( 7 sec) [ -5743.6261] [Topology ] . ( 8 sec) [ -5743.6191] [Topology ] . Checking for NNIs, optimizing five branches... . ( 16 sec) [ -5743.4260] [Alpha ][ 0.529523] . ( 16 sec) [ -5743.4260] [Topology ] . ( 17 sec) [ -5743.3977] [Topology ] . ( 18 sec) [ -5743.3859] [Topology ] . ( 19 sec) [ -5743.3803] [Topology ] . ( 20 sec) [ -5743.3777] [Topology ] . ( 20 sec) [ -5743.3764] [Topology ] . ( 21 sec) [ -5743.3758] [Topology ] . Checking for NNIs, optimizing five branches... . ( 29 sec) [ -5743.3685] [Alpha ][ 0.535434] . ( 29 sec) [ -5743.3685] [Topology ] . ( 30 sec) [ -5743.3666] [Topology ] . ( 31 sec) [ -5743.3658] [Topology ] . Checking for NNIs, optimizing five branches... . ( 38 sec) [ -5743.3657] [Alpha ][ 0.536169] . ( 38 sec) [ -5743.3657] [Topology ] . ( 39 sec) [ -5743.3651] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 54 sec) [ -5780.2367] [Alpha ][ 0.500960] . ( 57 sec) [ -5774.8860] [ 941] [depth= 2] . ( 57 sec) [ -5767.3329] [ 943] [depth= 1] . ( 58 sec) [ -5766.6547] [ 944] [depth= 2] . ( 58 sec) [ -5763.2682] [ 944] [depth= 2] . ( 58 sec) [ -5762.3342] [ 945] [depth= 2] . ( 58 sec) [ -5758.4246] [ 941] [depth= 2] . ( 59 sec) [ -5757.6473] [ 939] [depth= 1] . ( 62 sec) [ -5756.4267] [ 938] [depth= 1] . ( 64 sec) [ -5756.2650] [ 939] [depth= 1] . ( 64 sec) [ -5740.6467] [Branch lengths ] . ( 64 sec) [ -5740.5207] [Alpha ][ 0.524174] . ( 78 sec) [ -5739.8544] [Branch lengths ] . ( 78 sec) [ -5739.8544] [Topology ] . ( 79 sec) [ -5739.8424] [Topology ] . ( 80 sec) [ -5739.8402] [Topology ] . ( 81 sec) [ -5739.8394] [Topology ] . ( 81 sec) [ -5739.8313] [Alpha ][ 0.530438] . ( 81 sec) [ -5739.8313] [Topology ] . ( 82 sec) [ -5739.8294] [Topology ] . ( 83 sec) [ -5739.8286] [Topology ] . ( 83 sec) [ -5739.8285] [Alpha ][ 0.531172] . ( 83 sec) [ -5739.8285] [Topology ] . ( 84 sec) [ -5739.8280] [Topology ] . ( 84 sec) [ -5739.8280] [Alpha ][ 0.531703] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -5743.365133 . Log likelihood obtained after SPR moves : -5739.828022 . Log likelihood of the current tree: -5739.828022. . Printing the most likely tree in file 'proteic_M2639_19x331_2006.phy_phyml_tree.txt'... . Best log likelihood : -5739.047115 . Time used 0h1m32s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 398.70user 0.00system 6:41.02elapsed 99%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps