.......................... ooooooooooooooooooooooooooooo CURRENT SETTINGS ooooooooooooooooooooooooooooooooooo .......................... . Sequence filename : nucleic_M2707_115x1677_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 : SPRs . Starting tree : BioNJ . Add random input tree : no . Optimise branch lengths : yes . Optimise substitution model parameters : yes . Run ID : none oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo . Compressing sequences... . 759 patterns found. (out of a total of 1677 sites) . 924 sites without polymorphism (55.10%). . Computing pairwise distances... . Building BioNJ tree... . This analysis requires at least 46Mo of memory space. . Maximizing likelihood (using SPR moves)... . ( 7 sec) [ -11652.5156] [GTR parameters ] . ( 8 sec) [ -11452.6188] [Alpha ][ 0.500960] . ( 28 sec) [ -11452.0929] [ 1804] [depth= 1] . ( 29 sec) [ -11450.2527] [ 1804] [depth= 1] . ( 29 sec) [ -11449.6563] [ 1804] [depth= 1] . ( 30 sec) [ -11449.6408] [ 1804] [depth= 1] . ( 41 sec) [ -11449.1939] [ 1804] [depth= 2] . ( 56 sec) [ -11448.9557] [ 1804] [depth= 2] . ( 56 sec) [ -11444.7108] [ 1803] [depth= 2] . ( 57 sec) [ -11443.9941] [ 1803] [depth= 1] . ( 58 sec) [ -11443.6221] [ 1803] [depth= 1] . ( 58 sec) [ -11442.0931] [ 1803] [depth= 3] . ( 91 sec) [ -11406.0490] [ 1886] [depth= 14] . ( 92 sec) [ -11277.6012] [ 1822] [depth= 14] . ( 102 sec) [ -11268.9695] [ 1819] [depth= 1] . ( 118 sec) [ -11158.4605] [ 1887] [depth= 15] . ( 123 sec) [ -11131.8817] [ 1877] [depth= 15] . ( 129 sec) [ -11129.1023] [ 1879] [depth= 1] . ( 129 sec) [ -11090.1409] [ 1866] [depth= 14] . ( 130 sec) [ -11089.3356] [ 1859] [depth= 14] . ( 131 sec) [ -11015.8100] [ 1827] [depth= 12] . ( 131 sec) [ -10979.0659] [ 1806] [depth= 5] . ( 138 sec) [ -10941.9667] [ 1849] [depth= 11] . ( 139 sec) [ -10860.2511] [ 1889] [depth= 18] . ( 140 sec) [ -10758.8327] [ 1926] [depth= 8] . ( 141 sec) [ -10712.8479] [ 1923] [depth= 4] . ( 141 sec) [ -10709.3797] [ 1923] [depth= 1] . ( 141 sec) [ -10686.1283] [ 1918] [depth= 1] . ( 142 sec) [ -10668.2959] [ 1909] [depth= 7] . ( 142 sec) [ -10667.5873] [ 1909] [depth= 1] . ( 142 sec) [ -10661.2716] [ 1909] [depth= 12] . ( 143 sec) [ -10624.1735] [ 1902] [depth= 13] . ( 149 sec) [ -10541.1616] [ 1871] [depth= 17] . ( 150 sec) [ -10485.8895] [ 1863] [depth= 1] . ( 161 sec) [ -10484.9627] [ 1865] [depth= 1] . ( 162 sec) [ -10416.1166] [ 1839] [depth= 3] . ( 162 sec) [ -10404.3445] [ 1838] [depth= 1] . ( 163 sec) [ -10402.8187] [ 1848] [depth= 1] . ( 163 sec) [ -10397.5618] [ 1867] [depth= 2] . ( 184 sec) [ -10397.5138] [ 1868] [depth= 1] . ( 205 sec) [ -10366.8560] [ 1857] [depth= 1] . ( 206 sec) [ -10349.3274] [ 1852] [depth= 2] . ( 206 sec) [ -10324.9987] [ 1848] [depth= 1] . ( 212 sec) [ -10321.1176] [ 1849] [depth= 2] . ( 212 sec) [ -10299.3212] [ 1840] [depth= 1] . ( 212 sec) [ -10281.1313] [ 1848] [depth= 4] . ( 213 sec) [ -10281.0152] [ 1848] [depth= 2] . ( 214 sec) [ -10280.8327] [ 1845] [depth= 6] . ( 214 sec) [ -10280.4793] [ 1845] [depth= 1] . ( 215 sec) [ -10276.6733] [ 1845] [depth= 2] . ( 215 sec) [ -10275.5347] [ 1845] [depth= 2] . ( 216 sec) [ -10275.5223] [ 1845] [depth= 2] . ( 216 sec) [ -10274.9627] [ 1845] [depth= 2] . ( 216 sec) [ -10269.5592] [ 1844] [depth= 4] . ( 244 sec) [ -10269.2423] [ 1846] [depth= 3] . ( 245 sec) [ -10268.6188] [ 1846] [depth= 1] . ( 245 sec) [ -10267.8372] [ 1846] [depth= 1] . ( 246 sec) [ -10267.6429] [ 1846] [depth= 1] . ( 246 sec) [ -10266.6485] [ 1846] [depth= 1] . ( 247 sec) [ -10266.6317] [ 1846] [depth= 3] . ( 247 sec) [ -10266.5306] [ 1846] [depth= 1] . ( 248 sec) [ -10264.4770] [ 1846] [depth= 2] . ( 248 sec) [ -10264.4534] [ 1846] [depth= 1] . ( 249 sec) [ -10264.4431] [ 1846] [depth= 3] . ( 258 sec) [ -10264.2431] [ 1846] [depth= 1] . ( 258 sec) [ -10263.9287] [ 1846] [depth= 1] . ( 265 sec) [ -10260.2834] [ 1844] [depth= 1] . ( 265 sec) [ -10258.1870] [ 1844] [depth= 1] . ( 266 sec) [ -10244.8297] [ 1844] [depth= 2] . ( 266 sec) [ -10243.0406] [ 1844] [depth= 3] . ( 267 sec) [ -10242.9922] [ 1844] [depth= 2] . ( 279 sec) [ -10242.9237] [ 1844] [depth= 1] . ( 280 sec) [ -10242.8939] [ 1844] [depth= 1] . ( 280 sec) [ -10242.8321] [ 1844] [depth= 2] . ( 280 sec) [ -10241.5715] [ 1844] [depth= 3] . ( 281 sec) [ -10241.5248] [ 1844] [depth= 1] . ( 281 sec) [ -10238.5477] [ 1843] [depth= 1] . ( 282 sec) [ -10238.5117] [ 1843] [depth= 1] . ( 282 sec) [ -10238.4979] [ 1843] [depth= 3] . ( 295 sec) [ -10238.4738] [ 1844] [depth= 4] . ( 296 sec) [ -10238.4466] [ 1844] [depth= 1] . ( 296 sec) [ -10231.9540] [ 1843] [depth= 2] . ( 310 sec) [ -10231.9332] [ 1843] [depth= 1] . ( 317 sec) [ -10231.8448] [ 1843] [depth= 1] . ( 317 sec) [ -10231.5985] [ 1843] [depth= 2] . ( 318 sec) [ -10231.5660] [ 1843] [depth= 2] . ( 318 sec) [ -10230.5406] [ 1843] [depth= 2] . ( 319 sec) [ -10230.4075] [ 1843] [depth= 3] . ( 337 sec) [ -10229.9436] [ 1843] [depth= 1] . ( 348 sec) [ -10229.4381] [ 1843] [depth= 3] . ( 349 sec) [ -10226.9863] [ 1843] [depth= 3] . ( 349 sec) [ -10226.9395] [ 1843] [depth= 1] . ( 349 sec) [ -10226.9104] [ 1843] [depth= 2] . ( 359 sec) [ -10221.1732] [ 1841] [depth= 1] . ( 360 sec) [ -10221.1595] [ 1841] [depth= 2] . ( 360 sec) [ -10212.1125] [ 1837] [depth= 11] . ( 361 sec) [ -10211.3924] [ 1837] [depth= 1] . ( 362 sec) [ -10210.2686] [ 1837] [depth= 2] . ( 362 sec) [ -10191.0771] [ 1830] [depth= 8] . ( 363 sec) [ -10189.3819] [ 1836] [depth= 3] . ( 365 sec) [ -10187.4582] [ 1837] [depth= 2] . ( 365 sec) [ -10187.0972] [ 1837] [depth= 2] . ( 376 sec) [ -10142.5475] [ 1828] [depth= 7] . ( 377 sec) [ -10141.2682] [ 1828] [depth= 1] . ( 377 sec) [ -10131.2542] [ 1817] [depth= 7] . ( 388 sec) [ -10130.9207] [ 1817] [depth= 1] . ( 389 sec) [ -10130.8090] [ 1817] [depth= 1] . ( 389 sec) [ -10130.7510] [ 1817] [depth= 1] . ( 390 sec) [ -10130.1218] [ 1817] [depth= 2] . ( 423 sec) [ -10130.1018] [ 1817] [depth= 1] . ( 428 sec) [ -10130.0596] [ 1817] [depth= 1] . ( 428 sec) [ -10128.4510] [ 1817] [depth= 1] . ( 429 sec) [ -10124.0649] [ 1810] [depth= 3] . ( 435 sec) [ -10124.0512] [ 1810] [depth= 1] . ( 436 sec) [ -10117.5980] [ 1810] [depth= 1] . ( 436 sec) [ -10117.3151] [ 1810] [depth= 2] . ( 441 sec) [ -10116.1672] [ 1812] [depth= 1] . ( 443 sec) [ -10111.4657] [ 1812] [depth= 4] . ( 462 sec) [ -10105.2507] [ 1812] [depth= 1] . ( 464 sec) [ -10104.7336] [ 1815] [depth= 1] . ( 465 sec) [ -10102.4109] [ 1818] [depth= 2] . ( 465 sec) [ -10092.9436] [ 1815] [depth= 2] . ( 466 sec) [ -10089.6049] [ 1807] [depth= 6] . ( 475 sec) [ -10086.4680] [ 1806] [depth= 3] . ( 476 sec) [ -10086.2614] [ 1809] [depth= 4] . ( 489 sec) [ -10081.6930] [ 1808] [depth= 5] . ( 496 sec) [ -10077.6551] [ 1805] [depth= 2] . ( 497 sec) [ -10073.8688] [ 1804] [depth= 3] . ( 504 sec) [ -10073.0637] [ 1804] [depth= 3] . ( 505 sec) [ -10072.8407] [ 1804] [depth= 1] . ( 517 sec) [ -10070.7374] [ 1804] [depth= 4] . ( 517 sec) [ -10070.4772] [ 1804] [depth= 1] . ( 518 sec) [ -10056.7767] [ 1801] [depth= 10] . ( 518 sec) [ -10056.6995] [ 1801] [depth= 1] . ( 519 sec) [ -10056.4740] [ 1801] [depth= 1] . ( 519 sec) [ -10052.3101] [ 1801] [depth= 1] . ( 519 sec) [ -10052.2369] [ 1801] [depth= 1] . ( 527 sec) [ -10050.7302] [ 1801] [depth= 1] . ( 533 sec) [ -10049.9033] [ 1801] [depth= 2] . ( 538 sec) [ -10049.8045] [ 1801] [depth= 2] . ( 587 sec) [ -10049.5235] [ 1801] [depth= 5] . ( 594 sec) [ -10049.3414] [ 1801] [depth= 1] . ( 595 sec) [ -10048.8084] [ 1801] [depth= 3] . ( 596 sec) [ -10048.4616] [ 1801] [depth= 1] . ( 601 sec) [ -10048.1385] [ 1801] [depth= 2] . ( 602 sec) [ -10048.1174] [ 1801] [depth= 3] . ( 603 sec) [ -10047.8550] [ 1801] [depth= 3] . ( 603 sec) [ -10047.7516] [ 1801] [depth= 3] . ( 608 sec) [ -10047.6079] [ 1801] [depth= 2] . ( 610 sec) [ -10047.4367] [ 1801] [depth= 3] . ( 610 sec) [ -10046.3176] [ 1801] [depth= 3] . ( 620 sec) [ -10046.3046] [ 1801] [depth= 2] . ( 690 sec) [ -9955.3171] [Branch lengths ] . ( 699 sec) [ -9942.0794] [GTR parameters ] . ( 700 sec) [ -9876.2396] [Alpha ][ 0.269655] . ( 726 sec) [ -9876.2033] [ 1801] [depth= 1] . ( 726 sec) [ -9876.1901] [ 1801] [depth= 1] . ( 727 sec) [ -9876.1623] [ 1801] [depth= 1] . ( 839 sec) [ -9874.1251] [ 1819] [depth= 1] . ( 840 sec) [ -9872.7483] [ 1815] [depth= 1] . ( 921 sec) [ -9869.1711] [ 1813] [depth= 2] . ( 935 sec) [ -9864.8512] [ 1811] [depth= 1] . ( 937 sec) [ -9861.0202] [ 1810] [depth= 1] . ( 938 sec) [ -9860.6696] [ 1810] [depth= 1] . ( 955 sec) [ -9860.1570] [ 1810] [depth= 1] . ( 956 sec) [ -9856.6458] [ 1809] [depth= 1] . ( 983 sec) [ -9856.2144] [ 1804] [depth= 2] . ( 998 sec) [ -9856.1897] [ 1804] [depth= 1] . ( 999 sec) [ -9853.2445] [ 1804] [depth= 2] . ( 1000 sec) [ -9853.1329] [ 1804] [depth= 1] . ( 1000 sec) [ -9852.9958] [ 1804] [depth= 1] . ( 1007 sec) [ -9852.9851] [ 1804] [depth= 1] . ( 1013 sec) [ -9850.4077] [ 1800] [depth= 1] . ( 1013 sec) [ -9849.8914] [ 1804] [depth= 1] . ( 1025 sec) [ -9846.4995] [ 1804] [depth= 1] . ( 1026 sec) [ -9842.2327] [ 1806] [depth= 1] . ( 1027 sec) [ -9840.3158] [ 1802] [depth= 1] . ( 1027 sec) [ -9840.2877] [ 1802] [depth= 2] . ( 1028 sec) [ -9840.2077] [ 1802] [depth= 4] . ( 1028 sec) [ -9840.1889] [ 1802] [depth= 4] . ( 1029 sec) [ -9840.1549] [ 1802] [depth= 2] . ( 1029 sec) [ -9840.1149] [ 1802] [depth= 2] . ( 1063 sec) [ -9840.1033] [ 1802] [depth= 2] . ( 1075 sec) [ -9840.0669] [ 1802] [depth= 2] . ( 1088 sec) [ -9840.0042] [ 1802] [depth= 2] . ( 1113 sec) [ -9839.8340] [ 1802] [depth= 1] . ( 1114 sec) [ -9839.8208] [ 1802] [depth= 1] . ( 1129 sec) [ -9839.6420] [ 1802] [depth= 1] . ( 1130 sec) [ -9839.4893] [ 1802] [depth= 6] . ( 1130 sec) [ -9839.3906] [ 1802] [depth= 1] . ( 1131 sec) [ -9839.3742] [ 1802] [depth= 3] . ( 1131 sec) [ -9839.3502] [ 1802] [depth= 4] . ( 1160 sec) [ -9839.1991] [ 1802] [depth= 3] . ( 1274 sec) [ -9839.1779] [ 1802] [depth= 2] . ( 1298 sec) [ -9839.1484] [ 1802] [depth= 1] . ( 1299 sec) [ -9839.1348] [ 1802] [depth= 1] . ( 1299 sec) [ -9838.8838] [ 1802] [depth= 1] . ( 1305 sec) [ -9838.8482] [ 1802] [depth= 1] . ( 1328 sec) [ -9838.4561] [ 1799] [depth= 4] . ( 1340 sec) [ -9838.4011] [ 1797] [depth= 1] . ( 1343 sec) [ -9834.2994] [ 1796] [depth= 1] . ( 1365 sec) [ -9833.7770] [ 1789] [depth= 1] . ( 1376 sec) [ -9833.7336] [ 1789] [depth= 2] . ( 1424 sec) [ -9832.8076] [ 1789] [depth= 1] . ( 1425 sec) [ -9832.0282] [ 1788] [depth= 1] . ( 1457 sec) [ -9830.7574] [ 1788] [depth= 1] . ( 1458 sec) [ -9830.6070] [ 1787] [depth= 1] . ( 1474 sec) [ -9829.4215] [ 1789] [depth= 1] . ( 1504 sec) [ -9821.6100] [ 1788] [depth= 1] . ( 1515 sec) [ -9821.5324] [ 1788] [depth= 1] . ( 1544 sec) [ -9821.0788] [ 1789] [depth= 1] . ( 1545 sec) [ -9821.0665] [ 1789] [depth= 1] . ( 1550 sec) [ -9821.0452] [ 1789] [depth= 1] . ( 1562 sec) [ -9821.0280] [ 1789] [depth= 2] . ( 1602 sec) [ -9820.8553] [ 1789] [depth= 3] . ( 1620 sec) [ -9820.8366] [ 1789] [depth= 1] . ( 1631 sec) [ -9820.8183] [ 1789] [depth= 2] . ( 1638 sec) [ -9820.8024] [ 1789] [depth= 3] . ( 1639 sec) [ -9820.4335] [ 1789] [depth= 1] . ( 1643 sec) [ -9820.3531] [ 1789] [depth= 1] . ( 1644 sec) [ -9820.3323] [ 1789] [depth= 3] . ( 1644 sec) [ -9820.3081] [ 1789] [depth= 1] . ( 1653 sec) [ -9820.2640] [ 1789] [depth= 1] . ( 1654 sec) [ -9820.0144] [ 1789] [depth= 2] . ( 1680 sec) [ -9819.9923] [ 1789] [depth= 4] . ( 1722 sec) [ -9788.0874] [Branch lengths ] . ( 1728 sec) [ -9785.1684] [GTR parameters ] . ( 1729 sec) [ -9784.2312] [Alpha ][ 0.252960] . ( 1764 sec) [ -9784.2095] [ 1789] [depth= 3] . ( 1798 sec) [ -9784.1873] [ 1789] [depth= 1] . ( 1843 sec) [ -9782.1269] [ 1791] [depth= 1] . ( 1919 sec) [ -9781.1128] [ 1782] [depth= 2] . ( 2038 sec) [ -9781.0648] [ 1782] [depth= 1] . ( 2057 sec) [ -9781.0473] [ 1782] [depth= 2] . ( 2058 sec) [ -9780.8658] [ 1782] [depth= 1] . ( 2097 sec) [ -9780.1944] [ 1781] [depth= 1] . ( 2108 sec) [ -9779.8897] [ 1783] [depth= 3] . ( 2109 sec) [ -9779.7939] [ 1783] [depth= 3] . ( 2109 sec) [ -9779.7839] [ 1783] [depth= 1] . ( 2110 sec) [ -9779.7547] [ 1784] [depth= 1] . ( 2153 sec) [ -9779.6605] [ 1784] [depth= 3] . ( 2153 sec) [ -9779.6293] [ 1784] [depth= 4] . ( 2198 sec) [ -9779.5806] [ 1784] [depth= 1] . ( 2239 sec) [ -9779.5632] [ 1784] [depth= 3] . ( 2280 sec) [ -9779.5493] [ 1784] [depth= 4] . ( 2321 sec) [ -9779.5296] [ 1784] [depth= 1] . ( 2352 sec) [ -9779.5162] [ 1784] [depth= 2] . ( 2393 sec) [ -9779.5019] [ 1784] [depth= 2] . ( 2446 sec) [ -9779.3920] [ 1785] [depth= 1] . ( 2493 sec) [ -9779.3716] [ 1785] [depth= 3] . ( 2599 sec) [ -9779.2217] [ 1795] [depth= 1] . ( 2683 sec) [ -9778.6567] [ 1794] [depth= 2] . ( 2684 sec) [ -9778.6415] [ 1794] [depth= 3] . ( 2691 sec) [ -9778.6225] [ 1794] [depth= 4] . ( 2738 sec) [ -9778.5858] [ 1794] [depth= 3] . ( 2739 sec) [ -9778.5224] [ 1794] [depth= 1] . ( 2793 sec) [ -9778.5104] [ 1794] [depth= 2] . ( 2800 sec) [ -9778.4969] [ 1794] [depth= 1] . ( 2849 sec) [ -9778.4690] [ 1794] [depth= 6] . ( 2922 sec) [ -9763.4580] [Branch lengths ] . ( 2929 sec) [ -9763.0210] [GTR parameters ] . ( 2929 sec) [ -9762.1006] [Alpha ][ 0.238567] . ( 2954 sec) [ -9762.0850] [ 1794] [depth= 1] . ( 2983 sec) [ -9762.0649] [ 1794] [depth= 2] . ( 3041 sec) [ -9762.0516] [ 1794] [depth= 3] . ( 3042 sec) [ -9759.4673] [ 1792] [depth= 1] . ( 3134 sec) [ -9758.3702] [ 1791] [depth= 1] . ( 3263 sec) [ -9758.2595] [ 1791] [depth= 1] . ( 3274 sec) [ -9758.1625] [ 1791] [depth= 1] . ( 3323 sec) [ -9757.7643] [ 1791] [depth= 4] . ( 3323 sec) [ -9757.7524] [ 1791] [depth= 3] . ( 3324 sec) [ -9757.6943] [ 1791] [depth= 2] . ( 3324 sec) [ -9757.6778] [ 1791] [depth= 3] . ( 3329 sec) [ -9757.6370] [ 1791] [depth= 1] . ( 3355 sec) [ -9757.6188] [ 1791] [depth= 1] . ( 3355 sec) [ -9757.5192] [ 1791] [depth= 3] . ( 3361 sec) [ -9757.4823] [ 1791] [depth= 2] . ( 3405 sec) [ -9757.4723] [ 1791] [depth= 1] . ( 3405 sec) [ -9757.4482] [ 1791] [depth= 1] . ( 3412 sec) [ -9757.4272] [ 1791] [depth= 1] . ( 3419 sec) [ -9757.2512] [ 1791] [depth= 1] . ( 3419 sec) [ -9757.1978] [ 1791] [depth= 4] . ( 3442 sec) [ -9757.1437] [ 1791] [depth= 4] . ( 3550 sec) [ -9757.1283] [ 1791] [depth= 6] . ( 3554 sec) [ -9757.1120] [ 1791] [depth= 1] . ( 3555 sec) [ -9757.0954] [ 1791] [depth= 2] . ( 3555 sec) [ -9757.0793] [ 1791] [depth= 1] . ( 3556 sec) [ -9756.9604] [ 1791] [depth= 2] . ( 3662 sec) [ -9756.9359] [ 1791] [depth= 3] . ( 3853 sec) [ -9756.8665] [ 1791] [depth= 2] . ( 3867 sec) [ -9756.8117] [ 1791] [depth= 1] . ( 3867 sec) [ -9756.7866] [ 1791] [depth= 1] . ( 3873 sec) [ -9756.7721] [ 1791] [depth= 1] . ( 3886 sec) [ -9756.7484] [ 1791] [depth= 4] . ( 3937 sec) [ -9756.7248] [ 1791] [depth= 3] . ( 3944 sec) [ -9756.7051] [ 1791] [depth= 3] . ( 3989 sec) [ -9756.6912] [ 1791] [depth= 5] . ( 4045 sec) [ -9746.3745] [Branch lengths ] . ( 4050 sec) [ -9745.9787] [GTR parameters ] . ( 4050 sec) [ -9744.9405] [Alpha ][ 0.224734] . ( 4072 sec) [ -9744.9211] [ 1791] [depth= 3] . ( 4077 sec) [ -9744.8928] [ 1791] [depth= 1] . ( 4098 sec) [ -9744.8771] [ 1791] [depth= 1] . ( 4152 sec) [ -9744.3586] [ 1793] [depth= 1] . ( 4225 sec) [ -9743.9290] [ 1794] [depth= 1] . ( 4333 sec) [ -9743.9167] [ 1794] [depth= 1] . ( 4402 sec) [ -9743.8827] [ 1794] [depth= 2] . ( 4467 sec) [ -9743.8491] [ 1794] [depth= 3] . ( 4485 sec) [ -9743.8222] [ 1794] [depth= 3] . ( 4495 sec) [ -9743.8099] [ 1794] [depth= 1] . ( 4526 sec) [ -9743.7873] [ 1794] [depth= 4] . ( 4547 sec) [ -9743.7713] [ 1794] [depth= 4] . ( 4635 sec) [ -9743.7199] [ 1794] [depth= 2] . ( 4640 sec) [ -9743.7092] [ 1794] [depth= 3] . ( 4659 sec) [ -9743.6987] [ 1794] [depth= 1] . ( 4664 sec) [ -9743.6712] [ 1794] [depth= 3] . ( 4704 sec) [ -9743.3763] [ 1784] [depth= 1] . ( 4949 sec) [ -9743.3647] [ 1784] [depth= 3] . ( 4969 sec) [ -9743.3252] [ 1784] [depth= 2] . ( 4990 sec) [ -9743.2898] [ 1784] [depth= 2] . ( 5127 sec) [ -9736.5794] [Branch lengths ] . ( 5131 sec) [ -9736.4093] [GTR parameters ] . ( 5131 sec) [ -9735.4398] [Alpha ][ 0.212310] . ( 5173 sec) [ -9735.4279] [ 1784] [depth= 2] . ( 5218 sec) [ -9734.6724] [ 1784] [depth= 1] . ( 5423 sec) [ -9734.2447] [ 1783] [depth= 1] . ( 5434 sec) [ -9734.2207] [ 1783] [depth= 4] . ( 5497 sec) [ -9734.1971] [ 1783] [depth= 2] . ( 5513 sec) [ -9734.1864] [ 1783] [depth= 1] . ( 5577 sec) [ -9734.1747] [ 1783] [depth= 4] . ( 5605 sec) [ -9734.1622] [ 1782] [depth= 2] . ( 5671 sec) [ -9734.1219] [ 1782] [depth= 1] . ( 5681 sec) [ -9734.0936] [ 1782] [depth= 3] . ( 5707 sec) [ -9734.0441] [ 1782] [depth= 3] . ( 5717 sec) [ -9733.9763] [ 1783] [depth= 1] . ( 5838 sec) [ -9733.6928] [ 1783] [depth= 1] . ( 5961 sec) [ -9733.6518] [ 1783] [depth= 4] . ( 6001 sec) [ -9733.6289] [ 1783] [depth= 3] . ( 6154 sec) [ -9728.2890] [Branch lengths ] . ( 6159 sec) [ -9728.1025] [GTR parameters ] . ( 6159 sec) [ -9727.6679] [Alpha ][ 0.204501] . ( 6180 sec) [ -9727.6558] [ 1783] [depth= 3] . ( 6248 sec) [ -9727.4131] [ 1783] [depth= 1] . ( 6373 sec) [ -9726.9620] [ 1784] [depth= 1] . ( 6445 sec) [ -9726.7301] [ 1783] [depth= 1] . ( 6453 sec) [ -9726.6756] [ 1783] [depth= 2] . ( 6506 sec) [ -9726.6643] [ 1783] [depth= 1] . ( 6555 sec) [ -9726.6476] [ 1783] [depth= 2] . ( 6680 sec) [ -9726.6287] [ 1783] [depth= 3] . ( 6885 sec) [ -9726.2340] [ 1783] [depth= 1] . ( 6901 sec) [ -9726.2221] [ 1783] [depth= 3] . ( 7071 sec) [ -9720.5411] [Branch lengths ] . ( 7074 sec) [ -9720.3177] [GTR parameters ] . ( 7075 sec) [ -9719.7796] [Alpha ][ 0.196278] . ( 7372 sec) [ -9719.7427] [ 1783] [depth= 2] . ( 7521 sec) [ -9719.7324] [ 1783] [depth= 3] . ( 7874 sec) [ -9716.5885] [Branch lengths ] . ( 7877 sec) [ -9716.5166] [GTR parameters ] . ( 7878 sec) [ -9716.1787] [Alpha ][ 0.189993] . ( 8161 sec) [ -9716.1634] [ 1783] [depth= 2] . ( 8217 sec) [ -9716.1509] [ 1783] [depth= 1] . ( 8676 sec) [ -9713.0155] [Branch lengths ] . ( 8678 sec) [ -9712.9830] [GTR parameters ] . ( 8678 sec) [ -9712.8103] [Alpha ][ 0.185613] . ( 9475 sec) [ -9712.2453] [Branch lengths ] . ( 9496 sec) [ -9711.0884] [ 1767] [depth= 1] . ( 9584 sec) [ -9710.8122] [ 1765] [depth= 3] . ( 9661 sec) [ -9710.3193] [Branch lengths ] . ( 9665 sec) [ -9710.3027] [GTR parameters ] . ( 9665 sec) [ -9710.1634] [Alpha ][ 0.181610] . ( 9865 sec) [ -9710.0142] [Branch lengths ] . ( 9866 sec) [ -9710.0142] [Topology ] . ( 9869 sec) [ -9709.9870] [Topology ] . ( 9872 sec) [ -9709.9572] [Topology ] . ( 9875 sec) [ -9709.8544] [Topology ] . ( 9878 sec) [ -9709.7620] [Topology ] . ( 9882 sec) [ -9709.7003] [Topology ] . ( 9885 sec) [ -9709.6673] [Topology ] . ( 9886 sec) [ -9709.6532] [GTR parameters ] . ( 9887 sec) [ -9709.5954] [Alpha ][ 0.179056] . ( 9887 sec) [ -9709.5954] [Topology ] . ( 9890 sec) [ -9709.5615] [Topology ] . ( 9893 sec) [ -9709.5471] [Topology ] . ( 9897 sec) [ -9709.5401] [Topology ] . ( 9900 sec) [ -9709.5364] [Topology ] . ( 9903 sec) [ -9709.5344] [Topology ] . ( 9906 sec) [ -9709.5332] [Topology ] . ( 9908 sec) [ -9709.5303] [GTR parameters ] . ( 9908 sec) [ -9709.5177] [Alpha ][ 0.177905] . ( 9908 sec) [ -9709.5177] [Topology ] . ( 9911 sec) [ -9709.5110] [Topology ] . ( 9915 sec) [ -9709.5075] [Topology ] . ( 9918 sec) [ -9709.5054] [Topology ] . ( 9921 sec) [ -9709.5041] [Topology ] . ( 9924 sec) [ -9709.5033] [Topology ] . ( 9925 sec) [ -9709.5025] [GTR parameters ] . ( 9925 sec) [ -9709.4983] [Alpha ][ 0.177275] . ( 9926 sec) [ -9709.4983] [Topology ] . ( 9929 sec) [ -9709.4957] [Topology ] . ( 9932 sec) [ -9709.4942] [Topology ] . ( 9935 sec) [ -9709.4933] [Topology ] . ( 9936 sec) [ -9709.4931] [GTR parameters ] . ( 9936 sec) [ -9709.4919] [Alpha ][ 0.176973] . ( 9937 sec) [ -9709.4919] [Topology ] . ( 9940 sec) [ -9709.4905] [Topology ] . ( 9943 sec) [ -9709.4897] [Topology ] . ( 9944 sec) [ -9709.4896] [GTR parameters ] . ( 9944 sec) [ -9709.4892] [Alpha ][ 0.176633] . ( 9944 sec) [ -9709.4892] [Topology ] . ( 9948 sec) [ -9709.4878] [Topology ] . ( 9951 sec) [ -9709.4870] [Topology ] . ( 9952 sec) [ -9709.4869] [GTR parameters ] . ( 9952 sec) [ -9709.4869] [Alpha ][ 0.176633] . ( 9952 sec) [ -9709.4869] [Topology ] . ( 9955 sec) [ -9709.4864] [Topology ] . ( 9956 sec) [ -9709.4864] [GTR parameters ] . ( 9956 sec) [ -9709.4863] [Alpha ][ 0.176412] . Checking for NNIs, optimizing five branches... . Log likelihood of the current tree: -9709.486327. . Printing the most likely tree in file 'nucleic_M2707_115x1677_2006.phy_phyml_tree.txt'... . Time used 2h46m22s oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo 7628.36user 0.00system 2:46:23elapsed 76%CPU (0avgtext+0avgdata 0maxresident)k 0inputs+0outputs (0major+0minor)pagefaults 0swaps