.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : proteic_M2636_20x1275_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... . 775 patterns found. (out of a total of 1275 sites) . 495 sites without polymorphism (38.82%). . [Random start 1/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . This analysis requires at least 35Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -27087.4594] [Alpha ][ 0.500960] . ( 2 sec) [ -26650.7807] [ 4292] [depth= 7] . ( 3 sec) [ -26356.4897] [ 4249] [depth= 5] . ( 3 sec) [ -26156.2637] [ 4240] [depth= 2] . ( 4 sec) [ -25501.6610] [ 4106] [depth= 1] . ( 4 sec) [ -25485.9647] [ 4094] [depth= 5] . ( 5 sec) [ -25072.8401] [ 4030] [depth= 2] . ( 5 sec) [ -24950.7368] [ 4008] [depth= 2] . ( 6 sec) [ -24778.4794] [ 3908] [depth= 1] . ( 6 sec) [ -23895.0900] [ 3859] [depth= 4] . ( 7 sec) [ -23131.4834] [ 3792] [depth= 2] . ( 7 sec) [ -22925.0666] [ 3791] [depth= 2] . ( 8 sec) [ -22403.8637] [ 3580] [depth= 6] . ( 8 sec) [ -21679.9088] [ 3412] [depth= 1] . ( 9 sec) [ -21548.7422] [ 3394] [depth= 1] . ( 9 sec) [ -21457.3690] [ 3392] [depth= 2] . ( 10 sec) [ -20863.9629] [ 3221] [depth= 2] . ( 11 sec) [ -20764.3159] [ 3205] [depth= 1] . ( 12 sec) [ -20703.5127] [ 3201] [depth= 1] . ( 12 sec) [ -20681.8725] [ 3198] [depth= 3] . ( 13 sec) [ -20503.2799] [ 3159] [depth= 4] . ( 14 sec) [ -20491.2709] [ 3160] [depth= 1] . ( 14 sec) [ -20471.1173] [ 3161] [depth= 1] . ( 15 sec) [ -20446.4571] [ 3161] [depth= 1] . ( 16 sec) [ -20433.3402] [ 3160] [depth= 1] . ( 17 sec) [ -20420.1566] [ 3161] [depth= 5] . ( 17 sec) [ -20303.3447] [ 3149] [depth= 2] . ( 18 sec) [ -20302.8223] [ 3147] [depth= 1] . ( 18 sec) [ -20286.4930] [ 3144] [depth= 1] . ( 19 sec) [ -20276.9154] [ 3142] [depth= 4] . ( 20 sec) [ -20231.1288] [ 3122] [depth= 2] . ( 21 sec) [ -20214.4798] [ 3121] [depth= 2] . ( 21 sec) [ -19750.0190] [ 3122] [depth= 4] . ( 22 sec) [ -19447.9577] [ 3003] [depth= 1] . ( 22 sec) [ -19338.9764] [ 2994] [depth= 3] . ( 23 sec) [ -19334.9121] [ 2997] [depth= 1] . ( 24 sec) [ -19299.8606] [ 2995] [depth= 1] . ( 24 sec) [ -19273.6045] [ 3001] [depth= 1] . ( 25 sec) [ -19212.6006] [ 2989] [depth= 2] . ( 25 sec) [ -19210.9104] [ 2987] [depth= 1] . ( 26 sec) [ -19186.4292] [ 2971] [depth= 3] . ( 27 sec) [ -19120.7851] [Branch lengths ] . ( 28 sec) [ -19118.6272] [Alpha ][ 0.453778] . ( 29 sec) [ -19110.2474] [ 2960] [depth= 2] . ( 30 sec) [ -19096.8947] [ 2960] [depth= 3] . ( 36 sec) [ -19094.8565] [ 2961] [depth= 1] . ( 37 sec) [ -19092.6802] [ 2954] [depth= 1] . ( 38 sec) [ -19092.3208] [ 2959] [depth= 2] . ( 42 sec) [ -19078.9359] [ 2955] [depth= 1] . ( 45 sec) [ -19075.4813] [ 2952] [depth= 1] . ( 57 sec) [ -19067.5965] [Branch lengths ] . ( 58 sec) [ -19067.5832] [Alpha ][ 0.457337] . ( 83 sec) [ -19066.9031] [Branch lengths ] . ( 83 sec) [ -19066.9031] [Topology ] . ( 86 sec) [ -19066.8343] [Topology ] . ( 89 sec) [ -19066.8078] [Topology ] . ( 92 sec) [ -19066.7934] [Topology ] . ( 95 sec) [ -19066.7854] [Topology ] . ( 98 sec) [ -19066.7809] [Topology ] . ( 100 sec) [ -19066.7784] [Topology ] . ( 101 sec) [ -19066.7698] [Alpha ][ 0.460183] . ( 101 sec) [ -19066.7698] [Topology ] . ( 104 sec) [ -19066.7678] [Topology ] . ( 107 sec) [ -19066.7668] [Topology ] . ( 110 sec) [ -19066.7662] [Topology ] . ( 110 sec) [ -19066.7662] [Alpha ][ 0.460183] . ( 111 sec) [ -19066.7662] [Topology ] . ( 114 sec) [ -19066.7658] [Topology ] . ( 114 sec) [ -19066.7658] [Alpha ][ 0.460183] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -19066.765818. . [Random start 2/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -26467.1434] [Alpha ][ 0.500960] . ( 2 sec) [ -26099.9181] [ 3991] [depth= 1] . ( 2 sec) [ -25701.0445] [ 3968] [depth= 2] . ( 3 sec) [ -25677.4135] [ 3978] [depth= 1] . ( 3 sec) [ -25044.8068] [ 3873] [depth= 6] . ( 4 sec) [ -24923.0772] [ 3813] [depth= 1] . ( 4 sec) [ -24919.5004] [ 3805] [depth= 2] . ( 5 sec) [ -24874.3481] [ 3798] [depth= 2] . ( 5 sec) [ -24728.4327] [ 3785] [depth= 3] . ( 6 sec) [ -23918.8390] [ 3707] [depth= 2] . ( 6 sec) [ -23447.7875] [ 3693] [depth= 2] . ( 7 sec) [ -22772.3642] [ 3550] [depth= 4] . ( 7 sec) [ -22134.3580] [ 3518] [depth= 2] . ( 8 sec) [ -21916.7464] [ 3484] [depth= 5] . ( 8 sec) [ -21650.7256] [ 3480] [depth= 3] . ( 9 sec) [ -21612.1301] [ 3472] [depth= 1] . ( 9 sec) [ -21460.3203] [ 3447] [depth= 2] . ( 10 sec) [ -21455.5447] [ 3452] [depth= 1] . ( 11 sec) [ -21374.1917] [ 3442] [depth= 1] . ( 11 sec) [ -21208.7427] [ 3404] [depth= 3] . ( 12 sec) [ -21177.6595] [ 3403] [depth= 1] . ( 12 sec) [ -21067.9843] [ 3367] [depth= 6] . ( 13 sec) [ -21027.9173] [ 3359] [depth= 3] . ( 13 sec) [ -20999.5671] [ 3358] [depth= 1] . ( 14 sec) [ -20976.7898] [ 3347] [depth= 3] . ( 14 sec) [ -20974.9744] [ 3349] [depth= 1] . ( 15 sec) [ -20376.0131] [ 3231] [depth= 1] . ( 15 sec) [ -20293.1477] [ 3196] [depth= 1] . ( 16 sec) [ -19697.8640] [ 3031] [depth= 5] . ( 17 sec) [ -19456.9182] [ 3013] [depth= 4] . ( 17 sec) [ -19384.2929] [ 2996] [depth= 5] . ( 18 sec) [ -19378.2840] [ 2991] [depth= 1] . ( 20 sec) [ -19368.8274] [ 2981] [depth= 4] . ( 20 sec) [ -19326.1308] [ 2970] [depth= 1] . ( 21 sec) [ -19321.8517] [ 2973] [depth= 1] . ( 21 sec) [ -19282.8499] [ 2968] [depth= 1] . ( 22 sec) [ -19279.2497] [ 2973] [depth= 1] . ( 23 sec) [ -19256.3546] [ 2967] [depth= 4] . ( 24 sec) [ -19216.1921] [ 2969] [depth= 1] . ( 24 sec) [ -19207.7470] [ 2959] [depth= 2] . ( 25 sec) [ -19102.7596] [Branch lengths ] . ( 26 sec) [ -19101.2978] [Alpha ][ 0.461730] . ( 29 sec) [ -19081.0076] [ 2951] [depth= 1] . ( 34 sec) [ -19080.3139] [ 2955] [depth= 1] . ( 36 sec) [ -19080.1665] [ 2957] [depth= 2] . ( 45 sec) [ -19077.7501] [ 2953] [depth= 1] . ( 46 sec) [ -19073.6501] [ 2952] [depth= 1] . ( 53 sec) [ -19067.1305] [Branch lengths ] . ( 54 sec) [ -19067.1260] [Alpha ][ 0.459554] . ( 79 sec) [ -19066.8087] [Branch lengths ] . ( 79 sec) [ -19066.8087] [Topology ] . ( 82 sec) [ -19066.7844] [Topology ] . ( 85 sec) [ -19066.7761] [Topology ] . ( 88 sec) [ -19066.7717] [Topology ] . ( 91 sec) [ -19066.7692] [Topology ] . ( 94 sec) [ -19066.7678] [Topology ] . ( 96 sec) [ -19066.7671] [Topology ] . ( 97 sec) [ -19066.7665] [Alpha ][ 0.460240] . ( 97 sec) [ -19066.7665] [Topology ] . ( 100 sec) [ -19066.7660] [Topology ] . ( 101 sec) [ -19066.7660] [Alpha ][ 0.460240] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -19066.766001. . [Random start 3/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -27718.2286] [Alpha ][ 0.500960] . ( 2 sec) [ -26912.9479] [ 4059] [depth= 2] . ( 3 sec) [ -26789.1422] [ 3939] [depth= 6] . ( 3 sec) [ -25987.2781] [ 3894] [depth= 1] . ( 4 sec) [ -25911.7117] [ 3876] [depth= 2] . ( 4 sec) [ -25834.6146] [ 3856] [depth= 4] . ( 5 sec) [ -24035.2103] [ 3722] [depth= 1] . ( 5 sec) [ -23193.5514] [ 3708] [depth= 2] . ( 6 sec) [ -23085.0577] [ 3695] [depth= 2] . ( 6 sec) [ -22840.1120] [ 3687] [depth= 1] . ( 7 sec) [ -22598.7251] [ 3611] [depth= 1] . ( 7 sec) [ -22551.2398] [ 3613] [depth= 1] . ( 8 sec) [ -22278.4086] [ 3517] [depth= 5] . ( 8 sec) [ -22087.0251] [ 3512] [depth= 3] . ( 9 sec) [ -21879.5156] [ 3485] [depth= 3] . ( 9 sec) [ -21848.8095] [ 3488] [depth= 1] . ( 10 sec) [ -21751.0263] [ 3473] [depth= 1] . ( 10 sec) [ -21677.3269] [ 3455] [depth= 1] . ( 11 sec) [ -21554.0030] [ 3411] [depth= 1] . ( 11 sec) [ -21536.3128] [ 3406] [depth= 2] . ( 12 sec) [ -21439.3492] [ 3384] [depth= 1] . ( 14 sec) [ -21433.1628] [ 3380] [depth= 1] . ( 17 sec) [ -21319.2718] [ 3386] [depth= 1] . ( 18 sec) [ -21090.1181] [ 3360] [depth= 2] . ( 18 sec) [ -21010.9531] [ 3358] [depth= 2] . ( 19 sec) [ -20694.6699] [ 3216] [depth= 1] . ( 19 sec) [ -20285.2255] [ 3213] [depth= 1] . ( 20 sec) [ -20273.2302] [ 3207] [depth= 1] . ( 20 sec) [ -20094.8400] [ 3198] [depth= 2] . ( 21 sec) [ -19452.2830] [ 3015] [depth= 6] . ( 22 sec) [ -19366.1484] [ 3007] [depth= 2] . ( 22 sec) [ -19343.3959] [ 2996] [depth= 2] . ( 23 sec) [ -19248.0650] [ 2981] [depth= 1] . ( 23 sec) [ -19169.5580] [ 2956] [depth= 4] . ( 25 sec) [ -19167.1195] [ 2965] [depth= 1] . ( 26 sec) [ -19162.1211] [ 2962] [depth= 1] . ( 27 sec) [ -19101.4071] [Branch lengths ] . ( 28 sec) [ -19099.7961] [Alpha ][ 0.459769] . ( 35 sec) [ -19099.4352] [ 2960] [depth= 1] . ( 35 sec) [ -19086.9302] [ 2954] [depth= 5] . ( 36 sec) [ -19082.6159] [ 2958] [depth= 1] . ( 43 sec) [ -19079.1341] [ 2957] [depth= 1] . ( 46 sec) [ -19076.4440] [ 2952] [depth= 1] . ( 60 sec) [ -19067.3719] [Branch lengths ] . ( 60 sec) [ -19067.3718] [Alpha ][ 0.459310] . ( 85 sec) [ -19066.8660] [Branch lengths ] . ( 85 sec) [ -19066.8660] [Topology ] . ( 88 sec) [ -19066.8130] [Topology ] . ( 91 sec) [ -19066.7922] [Topology ] . ( 94 sec) [ -19066.7809] [Topology ] . ( 97 sec) [ -19066.7746] [Topology ] . ( 100 sec) [ -19066.7711] [Topology ] . ( 103 sec) [ -19066.7691] [Topology ] . ( 103 sec) [ -19066.7682] [Alpha ][ 0.460191] . ( 103 sec) [ -19066.7682] [Topology ] . ( 106 sec) [ -19066.7670] [Topology ] . ( 109 sec) [ -19066.7663] [Topology ] . ( 110 sec) [ -19066.7663] [Alpha ][ 0.460191] . ( 110 sec) [ -19066.7663] [Topology ] . ( 113 sec) [ -19066.7659] [Topology ] . ( 113 sec) [ -19066.7659] [Alpha ][ 0.460191] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -19066.765887. . [Random start 4/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -28668.5219] [Alpha ][ 0.500960] . ( 2 sec) [ -28060.1771] [ 4215] [depth= 7] . ( 2 sec) [ -27050.2961] [ 4206] [depth= 4] . ( 2 sec) [ -26348.2487] [ 4182] [depth= 1] . ( 3 sec) [ -24236.6321] [ 4177] [depth= 2] . ( 3 sec) [ -23896.5349] [ 4004] [depth= 2] . ( 4 sec) [ -23851.3680] [ 4001] [depth= 2] . ( 5 sec) [ -23835.9771] [ 3994] [depth= 1] . ( 5 sec) [ -23747.6509] [ 3984] [depth= 3] . ( 6 sec) [ -23460.7912] [ 3962] [depth= 1] . ( 6 sec) [ -23454.5160] [ 3947] [depth= 1] . ( 6 sec) [ -23331.8885] [ 3922] [depth= 2] . ( 7 sec) [ -23246.1006] [ 3907] [depth= 2] . ( 7 sec) [ -22875.6626] [ 3927] [depth= 2] . ( 8 sec) [ -22859.0659] [ 3907] [depth= 1] . ( 8 sec) [ -22649.4491] [ 3868] [depth= 1] . ( 9 sec) [ -22582.2347] [ 3856] [depth= 3] . ( 9 sec) [ -22464.3808] [ 3850] [depth= 2] . ( 10 sec) [ -21950.1161] [ 3741] [depth= 1] . ( 10 sec) [ -21935.0896] [ 3721] [depth= 3] . ( 11 sec) [ -21491.3146] [ 3579] [depth= 1] . ( 11 sec) [ -21324.3877] [ 3555] [depth= 1] . ( 12 sec) [ -21236.3004] [ 3545] [depth= 3] . ( 12 sec) [ -20630.3693] [ 3390] [depth= 4] . ( 13 sec) [ -20536.0002] [ 3380] [depth= 1] . ( 13 sec) [ -20478.1165] [ 3371] [depth= 2] . ( 14 sec) [ -20391.6876] [ 3358] [depth= 1] . ( 15 sec) [ -19935.7927] [ 3190] [depth= 3] . ( 16 sec) [ -19866.0774] [ 3182] [depth= 2] . ( 16 sec) [ -19789.9996] [ 3167] [depth= 1] . ( 17 sec) [ -19781.2031] [ 3154] [depth= 5] . ( 17 sec) [ -19649.5427] [ 3108] [depth= 5] . ( 18 sec) [ -19640.5387] [ 3092] [depth= 1] . ( 19 sec) [ -19627.2137] [ 3067] [depth= 2] . ( 20 sec) [ -19625.9640] [ 3068] [depth= 1] . ( 21 sec) [ -19578.1603] [ 3076] [depth= 1] . ( 22 sec) [ -19571.1709] [ 3068] [depth= 1] . ( 22 sec) [ -19550.3247] [ 3076] [depth= 1] . ( 23 sec) [ -19547.4000] [ 3073] [depth= 1] . ( 23 sec) [ -19535.1573] [ 3064] [depth= 1] . ( 24 sec) [ -19526.9230] [ 3065] [depth= 1] . ( 24 sec) [ -19521.3089] [ 3067] [depth= 1] . ( 26 sec) [ -19424.5697] [Branch lengths ] . ( 26 sec) [ -19421.8100] [Alpha ][ 0.449022] . ( 27 sec) [ -19264.5332] [ 2951] [depth= 1] . ( 30 sec) [ -19155.6840] [ 2949] [depth= 2] . ( 30 sec) [ -19155.3148] [ 2961] [depth= 1] . ( 31 sec) [ -19147.0357] [ 2958] [depth= 1] . ( 33 sec) [ -19133.6966] [ 2945] [depth= 1] . ( 46 sec) [ -19089.2392] [ 2947] [depth= 1] . ( 50 sec) [ -19072.0321] [Branch lengths ] . ( 50 sec) [ -19071.7599] [Alpha ][ 0.464691] . ( 71 sec) [ -19070.2946] [Branch lengths ] . ( 72 sec) [ -19070.2946] [Topology ] . ( 74 sec) [ -19070.2718] [Topology ] . ( 77 sec) [ -19070.2657] [Topology ] . ( 80 sec) [ -19070.2629] [Topology ] . ( 83 sec) [ -19070.2615] [Topology ] . ( 86 sec) [ -19070.2607] [Topology ] . ( 86 sec) [ -19070.2605] [Alpha ][ 0.465155] . ( 87 sec) [ -19070.2605] [Topology ] . ( 90 sec) [ -19070.2600] [Topology ] . ( 90 sec) [ -19070.2600] [Alpha ][ 0.465155] . Checking for NNIs, optimizing five branches... . ( 115 sec) [ -19069.8415] [Topology ] . Checking for NNIs, optimizing five branches... . ( 141 sec) [ -19066.8230] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -19066.822986. . [Random start 5/ 5] . Computing pairwise distances... . Building BioNJ tree... . Randomising the tree... . Maximizing likelihood (using SPR moves)... . ( 1 sec) [ -24440.9981] [Alpha ][ 0.500960] . ( 2 sec) [ -24186.8425] [ 3809] [depth= 5] . ( 2 sec) [ -23844.3488] [ 3812] [depth= 5] . ( 3 sec) [ -23656.6966] [ 3807] [depth= 2] . ( 3 sec) [ -23495.9338] [ 3797] [depth= 1] . ( 4 sec) [ -22679.8700] [ 3692] [depth= 5] . ( 4 sec) [ -22453.2571] [ 3659] [depth= 1] . ( 5 sec) [ -22309.4826] [ 3639] [depth= 3] . ( 5 sec) [ -22071.1279] [ 3611] [depth= 2] . ( 6 sec) [ -21730.8386] [ 3592] [depth= 1] . ( 6 sec) [ -21691.6836] [ 3593] [depth= 2] . ( 7 sec) [ -21524.4641] [ 3560] [depth= 4] . ( 8 sec) [ -21011.9904] [ 3367] [depth= 4] . ( 9 sec) [ -20935.8883] [ 3362] [depth= 3] . ( 9 sec) [ -20917.1676] [ 3357] [depth= 1] . ( 10 sec) [ -20839.8934] [ 3337] [depth= 1] . ( 11 sec) [ -20768.7781] [ 3317] [depth= 2] . ( 12 sec) [ -20318.2723] [ 3180] [depth= 1] . ( 12 sec) [ -20004.5272] [ 3139] [depth= 2] . ( 13 sec) [ -19915.9525] [ 3148] [depth= 1] . ( 14 sec) [ -19898.0318] [ 3139] [depth= 1] . ( 15 sec) [ -19896.9722] [ 3140] [depth= 1] . ( 16 sec) [ -19889.9080] [ 3145] [depth= 1] . ( 16 sec) [ -19742.3221] [ 3114] [depth= 4] . ( 17 sec) [ -19739.3783] [ 3112] [depth= 1] . ( 17 sec) [ -19732.1183] [ 3109] [depth= 1] . ( 18 sec) [ -19584.8756] [ 3100] [depth= 1] . ( 18 sec) [ -19579.5987] [ 3112] [depth= 1] . ( 19 sec) [ -19576.7218] [ 3113] [depth= 1] . ( 20 sec) [ -19561.4875] [ 3098] [depth= 1] . ( 21 sec) [ -19560.8607] [ 3102] [depth= 1] . ( 23 sec) [ -19263.0391] [ 2973] [depth= 1] . ( 26 sec) [ -19259.1194] [ 2975] [depth= 1] . ( 27 sec) [ -19179.7735] [Branch lengths ] . ( 28 sec) [ -19178.0691] [Alpha ][ 0.458393] . ( 29 sec) [ -19174.9686] [ 2973] [depth= 1] . ( 31 sec) [ -19172.0552] [ 2966] [depth= 2] . ( 33 sec) [ -19168.6750] [ 2959] [depth= 1] . ( 36 sec) [ -19166.9934] [ 2966] [depth= 1] . ( 42 sec) [ -19166.9240] [ 2971] [depth= 1] . ( 43 sec) [ -19109.7215] [ 2967] [depth= 2] . ( 43 sec) [ -19106.2574] [ 2957] [depth= 1] . ( 48 sec) [ -19103.3021] [ 2960] [depth= 1] . ( 49 sec) [ -19082.9554] [ 2947] [depth= 3] . ( 55 sec) [ -19071.5311] [Branch lengths ] . ( 56 sec) [ -19071.4965] [Alpha ][ 0.464249] . ( 77 sec) [ -19070.4812] [Branch lengths ] . ( 78 sec) [ -19070.4812] [Topology ] . ( 80 sec) [ -19070.3627] [Topology ] . ( 83 sec) [ -19070.3182] [Topology ] . ( 86 sec) [ -19070.2936] [Topology ] . ( 89 sec) [ -19070.2795] [Topology ] . ( 92 sec) [ -19070.2715] [Topology ] . ( 95 sec) [ -19070.2668] [Topology ] . ( 95 sec) [ -19070.2662] [Alpha ][ 0.465027] . ( 96 sec) [ -19070.2662] [Topology ] . ( 98 sec) [ -19070.2633] [Topology ] . ( 101 sec) [ -19070.2617] [Topology ] . ( 104 sec) [ -19070.2608] [Topology ] . ( 105 sec) [ -19070.2608] [Alpha ][ 0.465027] . ( 105 sec) [ -19070.2608] [Topology ] . ( 108 sec) [ -19070.2602] [Topology ] . ( 108 sec) [ -19070.2602] [Alpha ][ 0.465027] . Checking for NNIs, optimizing five branches... . ( 133 sec) [ -19069.8412] [Topology ] . Checking for NNIs, optimizing five branches... . ( 158 sec) [ -19066.8214] [Topology ] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -19066.821389. . Computing pairwise distances... . Building BioNJ tree... . Maximizing likelihood (using NNI moves)... . ( 1 sec) [ -19286.6097] [Alpha ][ 0.500960] . ( 1 sec) [ -19286.6097] [Topology ] . ( 4 sec) [ -19142.1897] [Topology ] . ( 6 sec) [ -19106.5853] [Topology ] . ( 9 sec) [ -19091.7092] [Topology ] . ( 12 sec) [ -19073.4036] [Topology ] . ( 15 sec) [ -19070.3500] [Topology ] . ( 18 sec) [ -19069.3404] [Topology ] . ( 21 sec) [ -19068.8612] [Topology ] . ( 24 sec) [ -19068.6158] [Topology ] . ( 27 sec) [ -19068.4866] [Topology ] . Checking for NNIs, optimizing five branches... . ( 55 sec) [ -19066.8279] [Alpha ][ 0.460393] . ( 56 sec) [ -19066.8279] [Topology ] . ( 58 sec) [ -19066.7881] [Topology ] . ( 61 sec) [ -19066.7777] [Topology ] . ( 64 sec) [ -19066.7723] [Topology ] . ( 67 sec) [ -19066.7693] [Topology ] . ( 70 sec) [ -19066.7676] [Topology ] . ( 73 sec) [ -19066.7666] [Topology ] . Checking for NNIs, optimizing five branches... . ( 99 sec) [ -19066.7666] [Alpha ][ 0.460393] . ( 99 sec) [ -19066.7666] [Topology ] . ( 102 sec) [ -19066.7661] [Topology ] . Checking for NNIs, optimizing five branches... . Checking for NNIs, optimizing five branches... . Maximizing likelihood (using SPR moves)... . ( 154 sec) [ -19286.6097] [Alpha ][ 0.500960] . ( 155 sec) [ -19264.9501] [ 2961] [depth= 3] . ( 155 sec) [ -19245.5435] [ 2957] [depth= 1] . ( 157 sec) [ -19229.4626] [ 2949] [depth= 2] . ( 157 sec) [ -19226.1529] [ 2951] [depth= 1] . ( 158 sec) [ -19225.7052] [ 2954] [depth= 1] . ( 158 sec) [ -19222.7629] [ 2955] [depth= 1] . ( 160 sec) [ -19219.7154] [ 2955] [depth= 1] . ( 160 sec) [ -19216.8399] [ 2957] [depth= 1] . ( 161 sec) [ -19201.6074] [ 2955] [depth= 1] . ( 162 sec) [ -19179.5748] [ 2957] [depth= 1] . ( 167 sec) [ -19176.7644] [ 2968] [depth= 1] . ( 167 sec) [ -19175.9925] [ 2972] [depth= 1] . ( 168 sec) [ -19163.4504] [ 2968] [depth= 1] . ( 169 sec) [ -19152.6440] [ 2957] [depth= 1] . ( 171 sec) [ -19151.7799] [ 2961] [depth= 1] . ( 172 sec) [ -19136.9597] [ 2957] [depth= 1] . ( 176 sec) [ -19083.3318] [Branch lengths ] . ( 177 sec) [ -19081.4762] [Alpha ][ 0.456360] . ( 179 sec) [ -19078.6047] [ 2950] [depth= 1] . ( 181 sec) [ -19078.2784] [ 2952] [depth= 1] . ( 202 sec) [ -19067.9645] [Branch lengths ] . ( 202 sec) [ -19067.9611] [Alpha ][ 0.458159] . ( 227 sec) [ -19066.9681] [Branch lengths ] . ( 227 sec) [ -19066.9681] [Topology ] . ( 230 sec) [ -19066.8616] [Topology ] . ( 233 sec) [ -19066.8205] [Topology ] . ( 236 sec) [ -19066.7984] [Topology ] . ( 239 sec) [ -19066.7862] [Topology ] . ( 242 sec) [ -19066.7793] [Topology ] . ( 244 sec) [ -19066.7755] [Topology ] . ( 245 sec) [ -19066.7713] [Alpha ][ 0.460143] . ( 245 sec) [ -19066.7713] [Topology ] . ( 248 sec) [ -19066.7687] [Topology ] . ( 251 sec) [ -19066.7672] [Topology ] . ( 254 sec) [ -19066.7664] [Topology ] . ( 254 sec) [ -19066.7664] [Alpha ][ 0.460143] . ( 255 sec) [ -19066.7664] [Topology ] . ( 257 sec) [ -19066.7660] [Topology ] . ( 258 sec) [ -19066.7660] [Alpha ][ 0.460143] . Checking for NNIs, optimizing five branches... . Log likelihood obtained after NNI moves : -19066.766054 . Log likelihood obtained after SPR moves : -19066.765986 . Log likelihood of the current tree: -19066.765986. . Printing the most likely tree in file 'proteic_M2636_20x1275_2006.phy_phyml_tree.txt'... . Best log likelihood : -19066.765818 . Time used 0h4m45s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 1030.82user 0.00system 17:26.88elapsed 98%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps