RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM RAxML-NG was called at 03-Jul-2021 21:06:59 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/2_msa/O75170_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/3_mltree/O75170 --seed 2 --threads 7 --tree rand{20} pars{20} Analysis options: run mode: ML tree search start tree(s): random (20) random seed: 2 tip-inner: OFF pattern compression: ON per-rate scalers: OFF site repeats: ON fast spr radius: AUTO spr subtree cutoff: 1.000000 branch lengths: proportional (ML estimate, algorithm: NR-FAST) SIMD kernels: AVX2 parallelization: coarse-grained (auto), PTHREADS (7 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/2_msa/O75170_trimmed_msa.fasta [00:00:00] Loaded alignment with 605 taxa and 606 sites WARNING: Sequences tr_G3S525_G3S525_GORGO_9595 and sp_Q5H9R7_PP6R3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3RZ92_A0A2I3RZ92_PANTR_9598 and tr_A0A2R9ACH2_A0A2R9ACH2_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I3SPJ3_A0A2I3SPJ3_PANTR_9598 and tr_A0A2R9C1Z9_A0A2R9C1Z9_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A158NHR2_A0A158NHR2_ATTCE_12957 and tr_A0A195AWT6_A0A195AWT6_9HYME_520822 are exactly identical! WARNING: Sequences tr_G7NBV2_G7NBV2_MACMU_9544 and tr_G7PP54_G7PP54_MACFA_9541 are exactly identical! WARNING: Sequences tr_G7NBV2_G7NBV2_MACMU_9544 and tr_A0A096NAW4_A0A096NAW4_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G7NBV2_G7NBV2_MACMU_9544 and tr_A0A0D9R9G9_A0A0D9R9G9_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G7NBV2_G7NBV2_MACMU_9544 and tr_A0A2K5MNQ2_A0A2K5MNQ2_CERAT_9531 are exactly identical! WARNING: Sequences tr_G7NBV2_G7NBV2_MACMU_9544 and tr_A0A2K6EBR0_A0A2K6EBR0_MACNE_9545 are exactly identical! WARNING: Sequences tr_G7NBV2_G7NBV2_MACMU_9544 and tr_A0A2K5ZTY6_A0A2K5ZTY6_MANLE_9568 are exactly identical! WARNING: Sequences tr_V2WFK3_V2WFK3_MONRO_1381753 and tr_A0A0W0F3Q5_A0A0W0F3Q5_9AGAR_221103 are exactly identical! WARNING: Sequences tr_A0A015L9B0_A0A015L9B0_9GLOM_1432141 and tr_A0A2H5RVZ7_A0A2H5RVZ7_RHIID_747089 are exactly identical! WARNING: Sequences tr_A0A078H5R7_A0A078H5R7_BRANA_3708 and tr_A0A0D3DJD8_A0A0D3DJD8_BRAOL_109376 are exactly identical! WARNING: Sequences tr_A0A1S4A3C0_A0A1S4A3C0_TOBAC_4097 and tr_A0A1U7XLE5_A0A1U7XLE5_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A2D0SEB0_A0A2D0SEB0_ICTPU_7998 and tr_A0A2D0SFN8_A0A2D0SFN8_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0SEB4_A0A2D0SEB4_ICTPU_7998 and tr_A0A2D0SEB5_A0A2D0SEB5_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2G2YHP7_A0A2G2YHP7_CAPAN_4072 and tr_A0A2G3BBN4_A0A2G3BBN4_CAPCH_80379 are exactly identical! WARNING: Duplicate sequences found: 17 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/3_mltree/O75170.raxml.reduced.phy Alignment comprises 1 partitions and 606 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 606 / 606 Gaps: 11.97 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/3_mltree/O75170.raxml.rba Parallelization scheme autoconfig: 1 worker(s) x 7 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 605 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 87 / 6960 [00:00:00] Data distribution: max. searches per worker: 20 Starting ML tree search with 20 distinct starting trees [00:00:00 -608178.749889] Initial branch length optimization [00:00:02 -490791.725771] Model parameter optimization (eps = 10.000000) [00:00:32 -489161.367790] AUTODETECT spr round 1 (radius: 5) [00:01:18 -322656.953466] AUTODETECT spr round 2 (radius: 10) [00:02:06 -252355.749564] AUTODETECT spr round 3 (radius: 15) [00:03:03 -209905.530742] AUTODETECT spr round 4 (radius: 20) [00:04:17 -189344.607518] AUTODETECT spr round 5 (radius: 25) [00:05:44 -188373.248346] SPR radius for FAST iterations: 25 (autodetect) [00:05:44 -188373.248346] Model parameter optimization (eps = 3.000000) [00:05:56 -188102.484659] FAST spr round 1 (radius: 25) [00:07:00 -164660.512281] FAST spr round 2 (radius: 25) [00:07:50 -163647.191843] FAST spr round 3 (radius: 25) [00:08:35 -163609.133364] FAST spr round 4 (radius: 25) [00:09:15 -163598.365710] FAST spr round 5 (radius: 25) [00:09:53 -163598.353855] Model parameter optimization (eps = 1.000000) [00:10:03 -163592.682204] SLOW spr round 1 (radius: 5) [00:11:00 -163540.914946] SLOW spr round 2 (radius: 5) [00:11:57 -163532.752189] SLOW spr round 3 (radius: 5) [00:12:48 -163532.740711] SLOW spr round 4 (radius: 10) [00:13:43 -163532.253105] SLOW spr round 5 (radius: 5) [00:14:46 -163532.240864] SLOW spr round 6 (radius: 10) [00:15:47 -163532.239517] SLOW spr round 7 (radius: 15) [00:17:07 -163531.108577] SLOW spr round 8 (radius: 5) [00:18:16 -163531.081595] SLOW spr round 9 (radius: 10) [00:19:23 -163531.079930] SLOW spr round 10 (radius: 15) [00:20:41 -163531.078924] SLOW spr round 11 (radius: 20) [00:22:31 -163531.078126] SLOW spr round 12 (radius: 25) [00:24:38 -163530.967251] SLOW spr round 13 (radius: 5) [00:25:51 -163530.960344] SLOW spr round 14 (radius: 10) [00:27:03 -163530.958082] SLOW spr round 15 (radius: 15) [00:28:22 -163530.956772] SLOW spr round 16 (radius: 20) [00:30:13 -163530.955829] SLOW spr round 17 (radius: 25) [00:32:20 -163530.955569] Model parameter optimization (eps = 0.100000) [00:32:25] ML tree search #1, logLikelihood: -163530.818727 [00:32:25 -612321.113742] Initial branch length optimization [00:32:28 -494438.948908] Model parameter optimization (eps = 10.000000) [00:32:52 -492881.979974] AUTODETECT spr round 1 (radius: 5) [00:33:39 -326762.975633] AUTODETECT spr round 2 (radius: 10) [00:34:28 -245800.126331] AUTODETECT spr round 3 (radius: 15) [00:35:26 -211781.888098] AUTODETECT spr round 4 (radius: 20) [00:36:33 -186197.898040] AUTODETECT spr round 5 (radius: 25) [00:37:51 -186048.858777] SPR radius for FAST iterations: 25 (autodetect) [00:37:51 -186048.858777] Model parameter optimization (eps = 3.000000) [00:38:03 -185819.887826] FAST spr round 1 (radius: 25) [00:39:01 -164955.695899] FAST spr round 2 (radius: 25) [00:39:47 -163609.906413] FAST spr round 3 (radius: 25) [00:40:31 -163575.579247] FAST spr round 4 (radius: 25) [00:41:12 -163564.555031] FAST spr round 5 (radius: 25) [00:41:51 -163564.554654] Model parameter optimization (eps = 1.000000) [00:42:00 -163542.740482] SLOW spr round 1 (radius: 5) [00:42:54 -163519.108466] SLOW spr round 2 (radius: 5) [00:43:47 -163518.496489] SLOW spr round 3 (radius: 5) [00:44:38 -163518.496031] SLOW spr round 4 (radius: 10) [00:45:35 -163517.938379] SLOW spr round 5 (radius: 5) [00:46:39 -163517.879422] SLOW spr round 6 (radius: 10) [00:47:41 -163517.879093] SLOW spr round 7 (radius: 15) [00:49:02 -163517.878772] SLOW spr round 8 (radius: 20) [00:50:59 -163517.878456] SLOW spr round 9 (radius: 25) [00:53:09 -163517.878141] Model parameter optimization (eps = 0.100000) [00:53:14] ML tree search #2, logLikelihood: -163517.757005 [00:53:14 -608427.246645] Initial branch length optimization [00:53:16 -491784.826769] Model parameter optimization (eps = 10.000000) [00:53:44 -490195.609902] AUTODETECT spr round 1 (radius: 5) [00:54:30 -329554.513231] AUTODETECT spr round 2 (radius: 10) [00:55:20 -244145.455766] AUTODETECT spr round 3 (radius: 15) [00:56:19 -196139.388366] AUTODETECT spr round 4 (radius: 20) [00:57:21 -185820.392440] AUTODETECT spr round 5 (radius: 25) [00:58:34 -185512.147622] SPR radius for FAST iterations: 25 (autodetect) [00:58:34 -185512.147622] Model parameter optimization (eps = 3.000000) [00:58:52 -185286.892795] FAST spr round 1 (radius: 25) [00:59:51 -164203.073437] FAST spr round 2 (radius: 25) [01:00:41 -163612.002225] FAST spr round 3 (radius: 25) [01:01:25 -163567.306744] FAST spr round 4 (radius: 25) [01:02:04 -163565.533469] FAST spr round 5 (radius: 25) [01:02:42 -163565.522102] Model parameter optimization (eps = 1.000000) [01:02:53 -163558.681815] SLOW spr round 1 (radius: 5) [01:03:46 -163524.372761] SLOW spr round 2 (radius: 5) [01:04:38 -163521.653422] SLOW spr round 3 (radius: 5) [01:05:28 -163521.652685] SLOW spr round 4 (radius: 10) [01:06:25 -163521.577834] SLOW spr round 5 (radius: 15) [01:07:51 -163520.693604] SLOW spr round 6 (radius: 5) [01:09:01 -163520.228008] SLOW spr round 7 (radius: 5) [01:09:59 -163520.226820] SLOW spr round 8 (radius: 10) [01:11:00 -163520.226322] SLOW spr round 9 (radius: 15) [01:12:21 -163520.225955] SLOW spr round 10 (radius: 20) [01:14:14 -163520.225618] SLOW spr round 11 (radius: 25) [01:16:29 -163520.225286] Model parameter optimization (eps = 0.100000) [01:16:33] ML tree search #3, logLikelihood: -163520.088621 [01:16:33 -613268.935991] Initial branch length optimization [01:16:35 -495953.970388] Model parameter optimization (eps = 10.000000) [01:17:02 -494298.876297] AUTODETECT spr round 1 (radius: 5) [01:17:47 -316950.321594] AUTODETECT spr round 2 (radius: 10) [01:18:37 -236704.336002] AUTODETECT spr round 3 (radius: 15) [01:19:32 -203727.117200] AUTODETECT spr round 4 (radius: 20) [01:20:38 -189927.890205] AUTODETECT spr round 5 (radius: 25) [01:21:58 -188013.427001] SPR radius for FAST iterations: 25 (autodetect) [01:21:58 -188013.427001] Model parameter optimization (eps = 3.000000) [01:22:16 -187761.617636] FAST spr round 1 (radius: 25) [01:23:20 -164239.194263] FAST spr round 2 (radius: 25) [01:24:13 -163595.393768] FAST spr round 3 (radius: 25) [01:25:00 -163570.554360] FAST spr round 4 (radius: 25) [01:25:42 -163560.908339] FAST spr round 5 (radius: 25) [01:26:20 -163560.907563] Model parameter optimization (eps = 1.000000) [01:26:29 -163555.771006] SLOW spr round 1 (radius: 5) [01:27:25 -163524.815725] SLOW spr round 2 (radius: 5) [01:28:19 -163519.238928] SLOW spr round 3 (radius: 5) [01:29:12 -163516.798074] SLOW spr round 4 (radius: 5) [01:30:04 -163516.796682] SLOW spr round 5 (radius: 10) [01:31:02 -163516.576128] SLOW spr round 6 (radius: 5) [01:32:07 -163516.357251] SLOW spr round 7 (radius: 5) [01:33:05 -163516.356150] SLOW spr round 8 (radius: 10) [01:34:04 -163516.355236] SLOW spr round 9 (radius: 15) [01:35:25 -163516.354427] SLOW spr round 10 (radius: 20) [01:37:16 -163516.353676] SLOW spr round 11 (radius: 25) [01:39:28 -163516.352957] Model parameter optimization (eps = 0.100000) [01:39:35] ML tree search #4, logLikelihood: -163516.053658 [01:39:35 -600529.732866] Initial branch length optimization [01:39:38 -487753.383748] Model parameter optimization (eps = 10.000000) [01:40:00 -486080.686942] AUTODETECT spr round 1 (radius: 5) [01:40:47 -329351.949022] AUTODETECT spr round 2 (radius: 10) [01:41:37 -250192.696668] AUTODETECT spr round 3 (radius: 15) [01:42:34 -205554.162099] AUTODETECT spr round 4 (radius: 20) [01:43:40 -188028.386893] AUTODETECT spr round 5 (radius: 25) [01:44:58 -187791.302039] SPR radius for FAST iterations: 25 (autodetect) [01:44:58 -187791.302039] Model parameter optimization (eps = 3.000000) [01:45:10 -187547.600237] FAST spr round 1 (radius: 25) [01:46:11 -164365.972931] FAST spr round 2 (radius: 25) [01:46:58 -163647.098330] FAST spr round 3 (radius: 25) [01:47:44 -163596.523368] FAST spr round 4 (radius: 25) [01:48:24 -163587.658691] FAST spr round 5 (radius: 25) [01:49:03 -163587.657772] Model parameter optimization (eps = 1.000000) [01:49:16 -163568.555814] SLOW spr round 1 (radius: 5) [01:50:11 -163510.091899] SLOW spr round 2 (radius: 5) [01:51:04 -163509.019612] SLOW spr round 3 (radius: 5) [01:51:57 -163509.008669] SLOW spr round 4 (radius: 10) [01:52:52 -163508.908597] SLOW spr round 5 (radius: 5) [01:53:56 -163508.907999] SLOW spr round 6 (radius: 10) [01:54:59 -163508.799919] SLOW spr round 7 (radius: 5) [01:56:03 -163508.796469] SLOW spr round 8 (radius: 10) [01:57:07 -163508.795078] SLOW spr round 9 (radius: 15) [01:58:28 -163508.175726] SLOW spr round 10 (radius: 5) [01:59:36 -163508.166542] SLOW spr round 11 (radius: 10) [02:00:43 -163508.165485] SLOW spr round 12 (radius: 15) [02:02:01 -163508.165299] SLOW spr round 13 (radius: 20) [02:03:54 -163508.165287] SLOW spr round 14 (radius: 25) [02:06:06 -163508.165284] Model parameter optimization (eps = 0.100000) [02:06:09] ML tree search #5, logLikelihood: -163508.150299 [02:06:09 -615657.887006] Initial branch length optimization [02:06:12 -496047.007547] Model parameter optimization (eps = 10.000000) [02:06:35 -494429.963434] AUTODETECT spr round 1 (radius: 5) [02:07:21 -326894.392982] AUTODETECT spr round 2 (radius: 10) [02:08:10 -254965.829696] AUTODETECT spr round 3 (radius: 15) [02:09:03 -220175.889662] AUTODETECT spr round 4 (radius: 20) [02:10:08 -201274.968841] AUTODETECT spr round 5 (radius: 25) [02:11:21 -191112.511787] SPR radius for FAST iterations: 25 (autodetect) [02:11:21 -191112.511787] Model parameter optimization (eps = 3.000000) [02:11:34 -190872.880638] FAST spr round 1 (radius: 25) [02:12:39 -164574.831372] FAST spr round 2 (radius: 25) [02:13:34 -163602.549045] FAST spr round 3 (radius: 25) [02:14:22 -163568.478604] FAST spr round 4 (radius: 25) [02:15:01 -163566.438113] FAST spr round 5 (radius: 25) [02:15:39 -163563.673581] FAST spr round 6 (radius: 25) [02:16:16 -163563.672723] Model parameter optimization (eps = 1.000000) [02:16:27 -163539.783419] SLOW spr round 1 (radius: 5) [02:17:22 -163512.009344] SLOW spr round 2 (radius: 5) [02:18:13 -163511.976595] SLOW spr round 3 (radius: 10) [02:19:08 -163511.589837] SLOW spr round 4 (radius: 5) [02:20:14 -163511.350644] SLOW spr round 5 (radius: 5) [02:21:12 -163511.349726] SLOW spr round 6 (radius: 10) [02:22:11 -163511.348922] SLOW spr round 7 (radius: 15) [02:23:30 -163511.260387] SLOW spr round 8 (radius: 20) [02:25:18 -163511.258542] SLOW spr round 9 (radius: 25) [02:27:25 -163511.257681] Model parameter optimization (eps = 0.100000) [02:27:31] ML tree search #6, logLikelihood: -163511.133106 [02:27:31 -599391.763354] Initial branch length optimization [02:27:33 -484397.842343] Model parameter optimization (eps = 10.000000) [02:27:56 -482685.824138] AUTODETECT spr round 1 (radius: 5) [02:28:42 -335672.961290] AUTODETECT spr round 2 (radius: 10) [02:29:34 -244580.350344] AUTODETECT spr round 3 (radius: 15) [02:30:32 -205709.053557] AUTODETECT spr round 4 (radius: 20) [02:31:38 -195076.757968] AUTODETECT spr round 5 (radius: 25) [02:32:55 -192365.637480] SPR radius for FAST iterations: 25 (autodetect) [02:32:55 -192365.637480] Model parameter optimization (eps = 3.000000) [02:33:08 -192160.966578] FAST spr round 1 (radius: 25) [02:34:14 -164893.683937] FAST spr round 2 (radius: 25) [02:35:09 -163673.384542] FAST spr round 3 (radius: 25) [02:35:58 -163560.919500] FAST spr round 4 (radius: 25) [02:36:41 -163553.215440] FAST spr round 5 (radius: 25) [02:37:20 -163553.214590] Model parameter optimization (eps = 1.000000) [02:37:32 -163544.179183] SLOW spr round 1 (radius: 5) [02:38:27 -163529.965134] SLOW spr round 2 (radius: 5) [02:39:19 -163529.964369] SLOW spr round 3 (radius: 10) [02:40:15 -163529.889737] SLOW spr round 4 (radius: 15) [02:41:35 -163528.997385] SLOW spr round 5 (radius: 5) [02:42:44 -163528.700320] SLOW spr round 6 (radius: 5) [02:43:44 -163528.696490] SLOW spr round 7 (radius: 10) [02:44:46 -163528.695537] SLOW spr round 8 (radius: 15) [02:46:07 -163528.694898] SLOW spr round 9 (radius: 20) [02:48:00 -163528.694370] SLOW spr round 10 (radius: 25) [02:50:08 -163528.693871] Model parameter optimization (eps = 0.100000) [02:50:11] ML tree search #7, logLikelihood: -163528.616034 [02:50:11 -605342.304123] Initial branch length optimization [02:50:13 -489687.616322] Model parameter optimization (eps = 10.000000) [02:50:37 -488021.800587] AUTODETECT spr round 1 (radius: 5) [02:51:24 -325481.802635] AUTODETECT spr round 2 (radius: 10) [02:52:14 -250828.842583] AUTODETECT spr round 3 (radius: 15) [02:53:12 -205485.262263] AUTODETECT spr round 4 (radius: 20) [02:54:29 -189047.733900] AUTODETECT spr round 5 (radius: 25) [02:55:53 -188041.689924] SPR radius for FAST iterations: 25 (autodetect) [02:55:53 -188041.689924] Model parameter optimization (eps = 3.000000) [02:56:04 -187814.323011] FAST spr round 1 (radius: 25) [02:57:06 -164449.692134] FAST spr round 2 (radius: 25) [02:57:57 -163602.748569] FAST spr round 3 (radius: 25) [02:58:44 -163564.651515] FAST spr round 4 (radius: 25) [02:59:27 -163559.514014] FAST spr round 5 (radius: 25) [03:00:05 -163559.513521] Model parameter optimization (eps = 1.000000) [03:00:16 -163534.518228] SLOW spr round 1 (radius: 5) [03:01:12 -163514.388214] SLOW spr round 2 (radius: 5) [03:02:06 -163511.742792] SLOW spr round 3 (radius: 5) [03:02:56 -163511.736212] SLOW spr round 4 (radius: 10) [03:03:52 -163511.650692] SLOW spr round 5 (radius: 15) [03:05:14 -163511.649675] SLOW spr round 6 (radius: 20) [03:07:02 -163511.649061] SLOW spr round 7 (radius: 25) [03:09:14 -163511.648616] Model parameter optimization (eps = 0.100000) [03:09:17] ML tree search #8, logLikelihood: -163511.627427 [03:09:17 -607608.631459] Initial branch length optimization [03:09:19 -491062.612449] Model parameter optimization (eps = 10.000000) [03:09:45 -489359.794581] AUTODETECT spr round 1 (radius: 5) [03:10:29 -334796.640630] AUTODETECT spr round 2 (radius: 10) [03:11:18 -253243.708452] AUTODETECT spr round 3 (radius: 15) [03:12:13 -221681.112919] AUTODETECT spr round 4 (radius: 20) [03:13:14 -206944.958051] AUTODETECT spr round 5 (radius: 25) [03:14:29 -190837.241444] SPR radius for FAST iterations: 25 (autodetect) [03:14:29 -190837.241444] Model parameter optimization (eps = 3.000000) [03:14:43 -190615.617936] FAST spr round 1 (radius: 25) [03:15:48 -164693.185064] FAST spr round 2 (radius: 25) [03:16:38 -163664.296340] FAST spr round 3 (radius: 25) [03:17:23 -163570.025688] FAST spr round 4 (radius: 25) [03:18:02 -163566.986826] FAST spr round 5 (radius: 25) [03:18:38 -163566.975419] Model parameter optimization (eps = 1.000000) [03:18:48 -163561.162233] SLOW spr round 1 (radius: 5) [03:19:41 -163540.846091] SLOW spr round 2 (radius: 5) [03:20:32 -163540.223500] SLOW spr round 3 (radius: 5) [03:21:22 -163540.222660] SLOW spr round 4 (radius: 10) [03:22:18 -163540.221984] SLOW spr round 5 (radius: 15) [03:23:45 -163540.012668] SLOW spr round 6 (radius: 5) [03:24:54 -163540.009196] SLOW spr round 7 (radius: 10) [03:26:02 -163540.007971] SLOW spr round 8 (radius: 15) [03:27:23 -163540.007225] SLOW spr round 9 (radius: 20) [03:29:18 -163540.006541] SLOW spr round 10 (radius: 25) [03:31:39 -163540.005864] Model parameter optimization (eps = 0.100000) [03:31:43] ML tree search #9, logLikelihood: -163539.904640 [03:31:43 -608233.004292] Initial branch length optimization [03:31:45 -494728.230813] Model parameter optimization (eps = 10.000000) [03:32:11 -493120.457705] AUTODETECT spr round 1 (radius: 5) [03:32:58 -328502.443055] AUTODETECT spr round 2 (radius: 10) [03:33:46 -249517.687975] AUTODETECT spr round 3 (radius: 15) [03:34:39 -220224.845705] AUTODETECT spr round 4 (radius: 20) [03:35:42 -201705.999429] AUTODETECT spr round 5 (radius: 25) [03:36:51 -198141.007915] SPR radius for FAST iterations: 25 (autodetect) [03:36:51 -198141.007915] Model parameter optimization (eps = 3.000000) [03:37:06 -197928.334474] FAST spr round 1 (radius: 25) [03:38:08 -164595.558649] FAST spr round 2 (radius: 25) [03:39:01 -163649.838524] FAST spr round 3 (radius: 25) [03:39:50 -163602.241049] FAST spr round 4 (radius: 25) [03:40:29 -163600.379844] FAST spr round 5 (radius: 25) [03:41:08 -163600.379044] Model parameter optimization (eps = 1.000000) [03:41:19 -163555.212553] SLOW spr round 1 (radius: 5) [03:42:15 -163516.769521] SLOW spr round 2 (radius: 5) [03:43:07 -163516.266770] SLOW spr round 3 (radius: 5) [03:43:57 -163516.249829] SLOW spr round 4 (radius: 10) [03:44:50 -163515.891401] SLOW spr round 5 (radius: 5) [03:45:54 -163515.657337] SLOW spr round 6 (radius: 5) [03:46:52 -163515.656423] SLOW spr round 7 (radius: 10) [03:47:50 -163515.655609] SLOW spr round 8 (radius: 15) [03:49:11 -163515.654857] SLOW spr round 9 (radius: 20) [03:50:58 -163515.654137] SLOW spr round 10 (radius: 25) [03:53:05 -163515.653434] Model parameter optimization (eps = 0.100000) [03:53:13] ML tree search #10, logLikelihood: -163515.409372 [03:53:13 -609254.844426] Initial branch length optimization [03:53:16 -492620.683645] Model parameter optimization (eps = 10.000000) [03:53:39 -490970.603930] AUTODETECT spr round 1 (radius: 5) [03:54:25 -326513.537558] AUTODETECT spr round 2 (radius: 10) [03:55:14 -255719.870577] AUTODETECT spr round 3 (radius: 15) [03:56:13 -202125.022419] AUTODETECT spr round 4 (radius: 20) [03:57:18 -189253.072203] AUTODETECT spr round 5 (radius: 25) [03:58:33 -187546.510949] SPR radius for FAST iterations: 25 (autodetect) [03:58:33 -187546.510949] Model parameter optimization (eps = 3.000000) [03:58:45 -187334.114473] FAST spr round 1 (radius: 25) [03:59:49 -164332.180223] FAST spr round 2 (radius: 25) [04:00:40 -163645.351730] FAST spr round 3 (radius: 25) [04:01:28 -163568.752917] FAST spr round 4 (radius: 25) [04:02:09 -163564.906165] FAST spr round 5 (radius: 25) [04:02:48 -163558.591807] FAST spr round 6 (radius: 25) [04:03:26 -163558.591290] Model parameter optimization (eps = 1.000000) [04:03:36 -163549.802470] SLOW spr round 1 (radius: 5) [04:04:33 -163525.100256] SLOW spr round 2 (radius: 5) [04:05:26 -163524.769465] SLOW spr round 3 (radius: 5) [04:06:16 -163524.768346] SLOW spr round 4 (radius: 10) [04:07:12 -163524.693894] SLOW spr round 5 (radius: 15) [04:08:33 -163524.693229] SLOW spr round 6 (radius: 20) [04:10:20 -163524.692594] SLOW spr round 7 (radius: 25) [04:12:28 -163524.691971] Model parameter optimization (eps = 0.100000) [04:12:31] ML tree search #11, logLikelihood: -163524.593249 [04:12:31 -607279.712840] Initial branch length optimization [04:12:34 -489690.265236] Model parameter optimization (eps = 10.000000) [04:13:00 -488030.772894] AUTODETECT spr round 1 (radius: 5) [04:13:44 -328448.138114] AUTODETECT spr round 2 (radius: 10) [04:14:33 -245224.967388] AUTODETECT spr round 3 (radius: 15) [04:15:26 -200791.980208] AUTODETECT spr round 4 (radius: 20) [04:16:23 -189351.835732] AUTODETECT spr round 5 (radius: 25) [04:17:39 -188679.875917] SPR radius for FAST iterations: 25 (autodetect) [04:17:39 -188679.875917] Model parameter optimization (eps = 3.000000) [04:17:53 -188452.476819] FAST spr round 1 (radius: 25) [04:18:56 -164461.638284] FAST spr round 2 (radius: 25) [04:19:49 -163639.163834] FAST spr round 3 (radius: 25) [04:20:37 -163581.062024] FAST spr round 4 (radius: 25) [04:21:21 -163563.073080] FAST spr round 5 (radius: 25) [04:21:57 -163561.023991] FAST spr round 6 (radius: 25) [04:22:34 -163561.023144] Model parameter optimization (eps = 1.000000) [04:22:43 -163556.086413] SLOW spr round 1 (radius: 5) [04:23:38 -163524.447589] SLOW spr round 2 (radius: 5) [04:24:32 -163519.574330] SLOW spr round 3 (radius: 5) [04:25:23 -163518.984084] SLOW spr round 4 (radius: 5) [04:26:15 -163518.714922] SLOW spr round 5 (radius: 5) [04:27:07 -163518.712192] SLOW spr round 6 (radius: 10) [04:28:03 -163518.711340] SLOW spr round 7 (radius: 15) [04:29:24 -163518.710709] SLOW spr round 8 (radius: 20) [04:31:09 -163518.710110] SLOW spr round 9 (radius: 25) [04:33:15 -163518.600239] SLOW spr round 10 (radius: 5) [04:34:27 -163518.583340] SLOW spr round 11 (radius: 10) [04:35:37 -163518.582740] SLOW spr round 12 (radius: 15) [04:36:56 -163518.582142] SLOW spr round 13 (radius: 20) [04:38:43 -163518.581575] SLOW spr round 14 (radius: 25) [04:40:48 -163518.581241] Model parameter optimization (eps = 0.100000) [04:40:54] ML tree search #12, logLikelihood: -163518.402459 [04:40:54 -604385.212704] Initial branch length optimization [04:40:57 -491202.860682] Model parameter optimization (eps = 10.000000) [04:41:23 -489637.673720] AUTODETECT spr round 1 (radius: 5) [04:42:09 -329455.794934] AUTODETECT spr round 2 (radius: 10) [04:42:59 -253389.413375] AUTODETECT spr round 3 (radius: 15) [04:43:55 -203275.778474] AUTODETECT spr round 4 (radius: 20) [04:44:57 -195638.107195] AUTODETECT spr round 5 (radius: 25) [04:46:05 -190523.475242] SPR radius for FAST iterations: 25 (autodetect) [04:46:05 -190523.475242] Model parameter optimization (eps = 3.000000) [04:46:20 -190303.146531] FAST spr round 1 (radius: 25) [04:47:20 -164903.243257] FAST spr round 2 (radius: 25) [04:48:09 -163625.208519] FAST spr round 3 (radius: 25) [04:48:52 -163561.660614] FAST spr round 4 (radius: 25) [04:49:31 -163556.239937] FAST spr round 5 (radius: 25) [04:50:09 -163554.110102] FAST spr round 6 (radius: 25) [04:50:47 -163554.109608] Model parameter optimization (eps = 1.000000) [04:50:56 -163547.474569] SLOW spr round 1 (radius: 5) [04:51:49 -163518.271704] SLOW spr round 2 (radius: 5) [04:52:42 -163517.571380] SLOW spr round 3 (radius: 5) [04:53:32 -163517.570597] SLOW spr round 4 (radius: 10) [04:54:26 -163517.315071] SLOW spr round 5 (radius: 5) [04:55:29 -163517.085976] SLOW spr round 6 (radius: 5) [04:56:24 -163517.085021] SLOW spr round 7 (radius: 10) [04:57:21 -163517.084198] SLOW spr round 8 (radius: 15) [04:58:43 -163516.936247] SLOW spr round 9 (radius: 5) [04:59:51 -163516.934296] SLOW spr round 10 (radius: 10) [05:00:56 -163516.933374] SLOW spr round 11 (radius: 15) [05:02:14 -163516.932607] SLOW spr round 12 (radius: 20) [05:04:03 -163516.931900] SLOW spr round 13 (radius: 25) [05:06:07 -163516.931208] Model parameter optimization (eps = 0.100000) [05:06:13] ML tree search #13, logLikelihood: -163516.819587 [05:06:13 -606834.680923] Initial branch length optimization [05:06:15 -491668.901330] Model parameter optimization (eps = 10.000000) [05:06:43 -490045.576701] AUTODETECT spr round 1 (radius: 5) [05:07:29 -333317.414306] AUTODETECT spr round 2 (radius: 10) [05:08:20 -254805.882616] AUTODETECT spr round 3 (radius: 15) [05:09:17 -212149.562296] AUTODETECT spr round 4 (radius: 20) [05:10:24 -189398.079937] AUTODETECT spr round 5 (radius: 25) [05:11:35 -187698.509544] SPR radius for FAST iterations: 25 (autodetect) [05:11:35 -187698.509544] Model parameter optimization (eps = 3.000000) [05:11:48 -187450.006381] FAST spr round 1 (radius: 25) [05:12:46 -164253.822498] FAST spr round 2 (radius: 25) [05:13:33 -163631.256164] FAST spr round 3 (radius: 25) [05:14:18 -163571.868633] FAST spr round 4 (radius: 25) [05:14:58 -163563.615166] FAST spr round 5 (radius: 25) [05:15:36 -163563.614627] Model parameter optimization (eps = 1.000000) [05:15:45 -163554.353461] SLOW spr round 1 (radius: 5) [05:16:39 -163517.142018] SLOW spr round 2 (radius: 5) [05:17:31 -163511.237326] SLOW spr round 3 (radius: 5) [05:18:22 -163511.236452] SLOW spr round 4 (radius: 10) [05:19:15 -163511.159730] SLOW spr round 5 (radius: 15) [05:20:37 -163511.011423] SLOW spr round 6 (radius: 5) [05:21:44 -163511.009409] SLOW spr round 7 (radius: 10) [05:22:48 -163511.008474] SLOW spr round 8 (radius: 15) [05:24:08 -163511.007692] SLOW spr round 9 (radius: 20) [05:25:57 -163511.006968] SLOW spr round 10 (radius: 25) [05:28:03 -163511.006256] Model parameter optimization (eps = 0.100000) [05:28:10] ML tree search #14, logLikelihood: -163510.841603 [05:28:10 -609400.916635] Initial branch length optimization [05:28:13 -491799.359751] Model parameter optimization (eps = 10.000000) [05:28:39 -490196.029606] AUTODETECT spr round 1 (radius: 5) [05:29:24 -336643.515241] AUTODETECT spr round 2 (radius: 10) [05:30:15 -250043.400321] AUTODETECT spr round 3 (radius: 15) [05:31:09 -219502.367341] AUTODETECT spr round 4 (radius: 20) [05:32:13 -198945.195902] AUTODETECT spr round 5 (radius: 25) [05:33:28 -193248.139447] SPR radius for FAST iterations: 25 (autodetect) [05:33:28 -193248.139447] Model parameter optimization (eps = 3.000000) [05:33:39 -193054.394641] FAST spr round 1 (radius: 25) [05:34:46 -165047.042143] FAST spr round 2 (radius: 25) [05:35:37 -163703.103965] FAST spr round 3 (radius: 25) [05:36:22 -163640.715293] FAST spr round 4 (radius: 25) [05:37:00 -163626.943258] FAST spr round 5 (radius: 25) [05:37:39 -163626.941551] Model parameter optimization (eps = 1.000000) [05:37:48 -163560.653929] SLOW spr round 1 (radius: 5) [05:38:42 -163533.706186] SLOW spr round 2 (radius: 5) [05:39:36 -163528.750400] SLOW spr round 3 (radius: 5) [05:40:29 -163525.620396] SLOW spr round 4 (radius: 5) [05:41:21 -163525.609187] SLOW spr round 5 (radius: 10) [05:42:15 -163525.529529] SLOW spr round 6 (radius: 15) [05:43:37 -163525.528723] SLOW spr round 7 (radius: 20) [05:45:23 -163525.528159] SLOW spr round 8 (radius: 25) [05:47:34 -163525.527678] Model parameter optimization (eps = 0.100000) [05:47:37] ML tree search #15, logLikelihood: -163525.518298 [05:47:37 -610286.162834] Initial branch length optimization [05:47:40 -494352.111786] Model parameter optimization (eps = 10.000000) [05:48:06 -492754.991800] AUTODETECT spr round 1 (radius: 5) [05:48:52 -318191.727945] AUTODETECT spr round 2 (radius: 10) [05:49:41 -229287.262712] AUTODETECT spr round 3 (radius: 15) [05:50:34 -200299.496621] AUTODETECT spr round 4 (radius: 20) [05:51:39 -188432.875200] AUTODETECT spr round 5 (radius: 25) [05:52:58 -186477.246825] SPR radius for FAST iterations: 25 (autodetect) [05:52:58 -186477.246825] Model parameter optimization (eps = 3.000000) [05:53:11 -186233.160968] FAST spr round 1 (radius: 25) [05:54:12 -164082.324688] FAST spr round 2 (radius: 25) [05:55:09 -163599.490251] FAST spr round 3 (radius: 25) [05:55:53 -163561.961402] FAST spr round 4 (radius: 25) [05:56:32 -163561.960762] Model parameter optimization (eps = 1.000000) [05:56:41 -163552.268820] SLOW spr round 1 (radius: 5) [05:57:37 -163511.258874] SLOW spr round 2 (radius: 5) [05:58:29 -163509.862528] SLOW spr round 3 (radius: 5) [05:59:20 -163509.861745] SLOW spr round 4 (radius: 10) [06:00:14 -163509.861063] SLOW spr round 5 (radius: 15) [06:01:36 -163509.813206] SLOW spr round 6 (radius: 20) [06:03:27 -163509.811306] SLOW spr round 7 (radius: 25) [06:05:34 -163509.810453] Model parameter optimization (eps = 0.100000) [06:05:37] ML tree search #16, logLikelihood: -163509.759785 [06:05:37 -605544.379377] Initial branch length optimization [06:05:40 -491050.780384] Model parameter optimization (eps = 10.000000) [06:06:05 -489387.644582] AUTODETECT spr round 1 (radius: 5) [06:06:50 -318873.937767] AUTODETECT spr round 2 (radius: 10) [06:07:38 -238557.482414] AUTODETECT spr round 3 (radius: 15) [06:08:30 -213265.127192] AUTODETECT spr round 4 (radius: 20) [06:09:32 -197999.567667] AUTODETECT spr round 5 (radius: 25) [06:10:53 -188932.333273] SPR radius for FAST iterations: 25 (autodetect) [06:10:53 -188932.333273] Model parameter optimization (eps = 3.000000) [06:11:11 -188771.747623] FAST spr round 1 (radius: 25) [06:12:13 -164687.772394] FAST spr round 2 (radius: 25) [06:13:01 -163685.463690] FAST spr round 3 (radius: 25) [06:13:49 -163583.213191] FAST spr round 4 (radius: 25) [06:14:27 -163574.689526] FAST spr round 5 (radius: 25) [06:15:04 -163569.692206] FAST spr round 6 (radius: 25) [06:15:41 -163566.678671] FAST spr round 7 (radius: 25) [06:16:17 -163566.678378] Model parameter optimization (eps = 1.000000) [06:16:26 -163553.255544] SLOW spr round 1 (radius: 5) [06:17:20 -163524.906251] SLOW spr round 2 (radius: 5) [06:18:12 -163522.880115] SLOW spr round 3 (radius: 5) [06:19:05 -163520.565669] SLOW spr round 4 (radius: 5) [06:19:57 -163520.564322] SLOW spr round 5 (radius: 10) [06:20:51 -163519.592883] SLOW spr round 6 (radius: 5) [06:21:54 -163519.592474] SLOW spr round 7 (radius: 10) [06:22:54 -163519.592127] SLOW spr round 8 (radius: 15) [06:24:12 -163519.591789] SLOW spr round 9 (radius: 20) [06:26:02 -163519.591452] SLOW spr round 10 (radius: 25) [06:28:09 -163519.591116] Model parameter optimization (eps = 0.100000) [06:28:15] ML tree search #17, logLikelihood: -163518.809612 [06:28:16 -607652.385893] Initial branch length optimization [06:28:18 -490224.509884] Model parameter optimization (eps = 10.000000) [06:28:46 -488637.808138] AUTODETECT spr round 1 (radius: 5) [06:29:31 -316921.872062] AUTODETECT spr round 2 (radius: 10) [06:30:19 -240363.864249] AUTODETECT spr round 3 (radius: 15) [06:31:12 -204399.300011] AUTODETECT spr round 4 (radius: 20) [06:32:16 -194839.582990] AUTODETECT spr round 5 (radius: 25) [06:33:46 -189317.562855] SPR radius for FAST iterations: 25 (autodetect) [06:33:46 -189317.562855] Model parameter optimization (eps = 3.000000) [06:33:57 -189074.788610] FAST spr round 1 (radius: 25) [06:34:57 -164529.660062] FAST spr round 2 (radius: 25) [06:35:44 -163680.320253] FAST spr round 3 (radius: 25) [06:36:28 -163579.675044] FAST spr round 4 (radius: 25) [06:37:07 -163576.108724] FAST spr round 5 (radius: 25) [06:37:43 -163576.108072] Model parameter optimization (eps = 1.000000) [06:37:55 -163551.187471] SLOW spr round 1 (radius: 5) [06:38:47 -163521.300949] SLOW spr round 2 (radius: 5) [06:39:40 -163521.289621] SLOW spr round 3 (radius: 10) [06:40:36 -163520.539075] SLOW spr round 4 (radius: 5) [06:41:41 -163520.524333] SLOW spr round 5 (radius: 10) [06:42:45 -163520.523976] SLOW spr round 6 (radius: 15) [06:44:04 -163520.523661] SLOW spr round 7 (radius: 20) [06:45:58 -163520.523346] SLOW spr round 8 (radius: 25) [06:48:11 -163520.523031] Model parameter optimization (eps = 0.100000) [06:48:15] ML tree search #18, logLikelihood: -163520.424735 [06:48:15 -598265.332041] Initial branch length optimization [06:48:17 -483705.178231] Model parameter optimization (eps = 10.000000) [06:48:42 -482058.262399] AUTODETECT spr round 1 (radius: 5) [06:49:28 -321470.423358] AUTODETECT spr round 2 (radius: 10) [06:50:18 -246935.381804] AUTODETECT spr round 3 (radius: 15) [06:51:16 -207939.911127] AUTODETECT spr round 4 (radius: 20) [06:52:23 -189780.197360] AUTODETECT spr round 5 (radius: 25) [06:53:35 -189182.945680] SPR radius for FAST iterations: 25 (autodetect) [06:53:35 -189182.945680] Model parameter optimization (eps = 3.000000) [06:53:46 -189005.356839] FAST spr round 1 (radius: 25) [06:54:48 -164480.872377] FAST spr round 2 (radius: 25) [06:55:40 -163618.997347] FAST spr round 3 (radius: 25) [06:56:25 -163589.646249] FAST spr round 4 (radius: 25) [06:57:04 -163589.633940] Model parameter optimization (eps = 1.000000) [06:57:13 -163564.117613] SLOW spr round 1 (radius: 5) [06:58:12 -163519.041621] SLOW spr round 2 (radius: 5) [06:59:08 -163511.549780] SLOW spr round 3 (radius: 5) [06:59:59 -163509.087629] SLOW spr round 4 (radius: 5) [07:00:51 -163509.076184] SLOW spr round 5 (radius: 10) [07:01:45 -163508.878270] SLOW spr round 6 (radius: 5) [07:02:47 -163508.865643] SLOW spr round 7 (radius: 10) [07:03:50 -163508.864962] SLOW spr round 8 (radius: 15) [07:05:09 -163508.675140] SLOW spr round 9 (radius: 5) [07:06:18 -163508.674304] SLOW spr round 10 (radius: 10) [07:07:23 -163508.673598] SLOW spr round 11 (radius: 15) [07:08:40 -163508.672913] SLOW spr round 12 (radius: 20) [07:10:27 -163508.672230] SLOW spr round 13 (radius: 25) [07:12:32 -163508.671548] Model parameter optimization (eps = 0.100000) [07:12:38] ML tree search #19, logLikelihood: -163508.221966 [07:12:38 -612270.080285] Initial branch length optimization [07:12:41 -493136.462075] Model parameter optimization (eps = 10.000000) [07:13:08 -491599.897406] AUTODETECT spr round 1 (radius: 5) [07:13:55 -331834.167983] AUTODETECT spr round 2 (radius: 10) [07:14:44 -248237.129704] AUTODETECT spr round 3 (radius: 15) [07:15:42 -201958.751044] AUTODETECT spr round 4 (radius: 20) [07:16:49 -190680.453040] AUTODETECT spr round 5 (radius: 25) [07:18:06 -189626.987011] SPR radius for FAST iterations: 25 (autodetect) [07:18:06 -189626.987011] Model parameter optimization (eps = 3.000000) [07:18:17 -189414.409239] FAST spr round 1 (radius: 25) [07:19:15 -164468.455437] FAST spr round 2 (radius: 25) [07:20:03 -163661.872449] FAST spr round 3 (radius: 25) [07:20:46 -163592.106784] FAST spr round 4 (radius: 25) [07:21:26 -163588.841007] FAST spr round 5 (radius: 25) [07:22:04 -163588.839720] Model parameter optimization (eps = 1.000000) [07:22:15 -163571.590712] SLOW spr round 1 (radius: 5) [07:23:08 -163542.980632] SLOW spr round 2 (radius: 5) [07:24:01 -163529.063225] SLOW spr round 3 (radius: 5) [07:24:53 -163529.052078] SLOW spr round 4 (radius: 10) [07:25:47 -163528.982202] SLOW spr round 5 (radius: 15) [07:27:09 -163528.981588] SLOW spr round 6 (radius: 20) [07:28:58 -163528.980977] SLOW spr round 7 (radius: 25) [07:31:04 -163528.980365] Model parameter optimization (eps = 0.100000) [07:31:07] ML tree search #20, logLikelihood: -163528.936802 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.183120,0.498613) (0.167140,0.429370) (0.300354,0.772183) (0.349386,1.731613) Base frequencies (model): M0: 0.147383 0.017579 0.058208 0.017707 0.026331 0.041582 0.017494 0.027859 0.011849 0.076971 0.147823 0.019535 0.037132 0.029940 0.008059 0.088179 0.089653 0.006477 0.032308 0.097931 M1: 0.063139 0.066357 0.011586 0.066571 0.010800 0.009276 0.053984 0.146986 0.034214 0.088822 0.098196 0.032390 0.021263 0.072697 0.016761 0.020711 0.020797 0.025463 0.045615 0.094372 M2: 0.062457 0.066826 0.049332 0.065270 0.006513 0.041231 0.058965 0.080852 0.028024 0.037024 0.075925 0.064131 0.019620 0.028710 0.104579 0.056388 0.062027 0.008241 0.033124 0.050760 M3: 0.106471 0.074171 0.044513 0.096390 0.002148 0.066733 0.158908 0.037625 0.020691 0.014608 0.028797 0.105352 0.007864 0.007477 0.083595 0.055726 0.047711 0.003975 0.010088 0.027159 Substitution rates (model): M 0: 0.295719 0.067388 0.253712 1.029289 0.107964 0.514644 10.868848 0.380498 0.084223 0.086976 0.188789 0.286389 0.155567 1.671061 2.132922 0.529591 0.115551 0.102453 0.916683 0.448317 0.457483 0.576016 1.741924 0.736017 0.704334 5.658311 0.123387 0.221777 93.433377 0.382175 0.235965 6.535048 0.525521 0.303537 0.641259 0.289466 0.102065 2.358429 0.251987 0.216561 0.503084 0.435271 4.873453 0.090748 0.033310 0.746537 0.128905 0.127321 0.904011 0.939733 0.435450 0.046646 0.262076 0.043986 0.189008 0.599450 109.901504 1.070052 5.229858 0.052764 0.021407 0.621146 0.081091 0.205164 5.164456 0.747330 0.308078 0.260889 0.185083 0.080708 0.029955 0.084794 1.862626 0.553477 0.151733 0.230320 0.096955 0.352526 0.590018 0.386853 1.559564 0.606648 0.587531 0.592318 0.885230 4.117654 0.246260 6.508329 0.054187 0.195703 1.669092 0.810168 0.066081 2.437439 0.165666 0.106333 0.093417 0.035149 0.072549 1.202023 1.634845 0.060194 0.069359 2.448827 0.232297 0.064822 3.537387 0.435384 0.290413 0.280695 0.105999 0.206603 0.404968 0.048984 0.069963 0.256662 0.228519 0.241077 4.320442 3.656545 0.290216 0.307466 0.096556 0.306067 0.204296 0.504221 1.991533 0.655465 6.799829 11.291065 0.961142 0.448965 6.227274 20.304886 0.205944 1.495537 0.091940 1.994320 0.754940 0.170343 0.050315 0.372166 0.206332 0.097050 5.381403 0.122332 3.256485 2.261319 0.848067 0.064441 0.102493 0.459041 0.133091 0.561215 0.457430 0.163849 5.260446 0.360946 0.389413 0.033291 0.115301 0.112593 1.559944 0.426508 0.132547 0.498634 0.559069 0.264728 0.693307 0.438856 0.306683 0.109129 18.392863 66.647302 0.400021 4.586081 2.099355 0.411347 0.476350 0.584622 3.634276 0.101797 0.148995 0.089177 0.034710 0.063603 0.755865 20.561407 0.133790 0.154902 M 1: 0.066142 0.590377 0.069930 9.850951 1.101363 0.150375 0.568586 0.051668 0.127170 0.292429 0.071458 1.218562 0.075144 7.169085 30.139501 13.461692 0.021372 0.045779 4.270235 0.468325 0.013688 0.302287 1.353957 0.028386 0.037750 0.262130 0.016923 0.064289 0.855973 0.079621 0.011169 0.161937 0.276530 0.161053 0.081472 0.036742 0.030342 2.851667 3.932151 8.159169 0.219934 0.421974 2.468752 0.344765 0.210724 1.172204 0.763553 0.082464 0.726566 11.149790 4.782635 0.058046 0.498072 0.258487 0.146882 0.249672 0.560142 0.046719 0.106259 0.003656 0.004200 0.014189 0.009876 0.002656 0.040244 0.267322 0.053740 0.006597 0.027639 0.012745 0.582670 0.005035 0.275844 0.098208 0.445038 1.217010 0.033969 1.988516 0.681161 0.825960 18.762977 11.949233 0.286794 0.534219 4.336817 3.054085 0.129551 4.210126 0.165753 1.088704 1.889645 3.344809 0.111063 2.067758 3.547017 2.466507 0.188236 0.203493 0.281953 0.037250 0.029788 0.008541 0.014768 0.125869 0.056702 0.004186 0.110993 0.201148 0.139705 0.009201 0.012095 0.043812 0.013513 0.002533 0.005848 0.031390 0.021612 0.004854 0.129497 0.976631 0.053397 0.019475 0.004964 0.015539 0.031779 0.064558 0.065585 0.079927 0.095591 0.196886 0.408834 0.126088 0.037226 0.452302 0.016212 7.278994 0.029917 7.918203 0.450964 0.169797 0.104288 1.578530 0.015909 0.094365 16.179952 0.042762 14.799537 1.506485 0.637893 0.123793 0.641351 0.154810 0.140750 3.416059 0.259400 0.009457 0.090576 0.292108 0.297913 0.017172 0.021976 0.032578 1.375871 0.457399 0.598048 4.418398 0.239749 0.168432 2.950318 0.143327 0.328689 0.125011 0.562720 1.414883 0.227807 3.478333 2.984862 0.061299 0.077470 1.050562 13.974326 0.154326 0.224675 0.112000 0.060703 0.123480 5.294490 0.447011 0.033381 0.045528 M 2: 0.733336 0.558955 0.503360 4.149599 1.415369 1.367574 1.263002 0.994098 0.517204 0.775054 0.763094 1.890137 0.540460 0.200122 4.972745 1.825593 0.450842 0.526135 3.839269 0.597671 0.058964 2.863355 2.872594 0.258365 0.366868 2.578946 0.358350 0.672023 5.349861 0.691594 0.063347 0.032875 0.821562 0.580847 0.661866 0.265730 0.395134 5.581680 1.279881 1.335650 0.397108 1.840061 5.739035 0.284730 0.109781 1.612642 0.466979 0.141582 0.019509 4.670980 1.967383 0.088064 0.581928 0.145401 0.225860 0.434096 2.292917 1.024707 0.821921 0.027824 0.021443 0.088850 0.060820 0.018288 0.042687 1.199607 0.420710 0.037642 0.141233 0.090101 1.043232 0.209978 0.823594 3.039380 1.463390 1.983693 0.397640 2.831098 4.102068 0.059723 5.901348 2.034980 2.600668 5.413080 4.193725 4.534772 0.377181 4.877840 0.370939 1.298542 3.509873 2.646440 0.087872 0.072299 1.139018 0.864479 0.390688 0.322761 0.625409 0.496780 0.532488 0.232460 0.169219 0.755219 0.379926 0.020447 0.023282 0.503875 0.577513 0.109318 0.153776 0.696533 0.398817 0.008940 0.043707 0.436013 0.087640 0.064863 0.036426 1.673207 0.124068 0.218118 0.039217 0.104335 0.349195 0.838324 0.888693 0.488389 1.385133 0.050226 0.962470 0.502294 1.065585 8.351808 0.377304 5.102837 0.561690 7.010411 3.054968 0.039318 0.204155 2.653232 0.564368 0.854294 15.559906 0.401070 8.929538 5.525874 0.067505 0.273372 0.437116 1.927515 0.940458 2.508169 1.357738 0.043394 0.023126 0.567639 1.048288 0.120994 0.180650 0.449074 3.135353 0.012695 0.570771 2.319555 1.856122 0.975427 3.404087 0.015631 0.458799 0.151684 4.154750 11.429924 1.457957 0.233109 0.077004 0.011074 0.026268 0.052132 8.113282 0.377578 0.429221 0.260296 0.222293 0.273138 2.903836 4.731579 0.564762 0.681215 M 3: 0.658412 0.566269 0.854111 0.884454 1.309554 1.272639 1.874713 0.552007 0.227683 0.581512 0.695190 0.967985 0.344015 0.978992 3.427163 2.333253 0.154701 0.221089 2.088785 0.540749 0.058015 5.851132 2.294145 0.182966 0.684164 3.192521 0.528161 1.128882 3.010922 1.012866 0.227296 0.156635 0.878405 0.802754 0.830884 0.431617 0.456530 3.060574 1.279257 1.438430 0.431464 2.075952 4.840271 0.644656 0.266076 2.084975 0.720060 0.291854 0.028961 4.071574 2.258357 0.073037 1.238426 0.199728 0.160296 0.482619 2.992763 1.296206 0.841829 0.031467 0.048542 0.132774 0.133055 0.056045 0.209188 0.925172 0.360522 0.094591 0.313945 0.118104 0.992259 0.086318 2.149634 5.103188 3.775817 3.954021 0.190734 1.776095 4.495841 0.264277 7.063879 2.221150 3.017954 8.558815 4.310199 2.130054 0.571406 4.137385 0.437589 2.071689 2.498630 1.763546 0.116381 0.296578 1.033710 1.283423 0.312579 0.305772 0.681277 0.507160 0.351381 0.189152 0.217780 0.767361 0.278392 0.092075 0.177263 0.451893 0.653836 0.074620 0.181992 0.752277 0.679853 0.025780 0.082005 0.326441 0.343977 0.195877 0.217424 3.057583 0.377558 0.401252 0.072258 0.241015 0.665865 1.266791 0.680174 0.717301 4.001286 0.362942 1.189259 0.964545 1.350568 12.869737 0.531100 8.904999 0.652629 10.091413 2.671718 0.086367 0.359932 4.797423 0.336801 1.021885 23.029406 0.440178 14.013035 5.069337 0.539010 0.742569 0.780580 1.331875 1.531589 4.414850 1.082703 0.091278 0.172734 0.693405 1.422571 0.068958 0.163829 0.481711 4.643214 0.121821 0.584083 4.216178 1.677263 1.575754 5.046403 0.161015 1.531223 0.599244 5.832025 33.873091 1.914768 1.287474 0.444362 0.076328 0.079916 0.466823 5.231362 0.548763 0.831890 0.382271 0.208791 0.307846 3.717971 5.910440 0.282540 0.964421 Final LogLikelihood: -163508.150299 AIC score: 329442.300598 / AICc score: 3274606.300598 / BIC score: 334787.846021 Free parameters (model + branch lengths): 1213 WARNING: Number of free parameters (K=1213) is larger than alignment size (n=606). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 41 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/3_mltree/O75170.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/3_mltree/O75170.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/3_mltree/O75170.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/3_mltree/O75170.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/O75170/3_mltree/O75170.raxml.log Analysis started: 03-Jul-2021 21:06:59 / finished: 04-Jul-2021 04:38:07 Elapsed time: 27067.995 seconds Consumed energy: 2249.303 Wh (= 11 km in an electric car, or 56 km with an e-scooter!)