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 13-Jul-2021 16:31:59 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P52732/2_msa/P52732_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P52732/3_mltree/P52732 --seed 2 --threads 9 --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 (9 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P52732/2_msa/P52732_trimmed_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 874 sites WARNING: Sequences tr_B8NW45_B8NW45_ASPFN_332952 and tr_Q2TXB0_Q2TXB0_ASPOR_510516 are exactly identical! WARNING: Sequences tr_A0A0E0GKR9_A0A0E0GKR9_ORYNI_4536 and tr_A0A0E0NTD6_A0A0E0NTD6_ORYRU_4529 are exactly identical! WARNING: Sequences tr_A0A0E0H8P9_A0A0E0H8P9_ORYNI_4536 and tr_A2XZQ9_A2XZQ9_ORYSI_39946 are exactly identical! WARNING: Sequences tr_G7XZW2_G7XZW2_ASPKW_1033177 and tr_A0A146FG23_A0A146FG23_9EURO_1069201 are exactly identical! WARNING: Sequences tr_A0A0E0PGR4_A0A0E0PGR4_ORYRU_4529 and sp_Q5W7C6_KN5A_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_G2YXS5_G2YXS5_BOTF4_999810 and tr_M7U8F6_M7U8F6_BOTF1_1290391 are exactly identical! WARNING: Sequences tr_F2Q3U7_F2Q3U7_TRIEC_559882 and tr_A0A059JEB7_A0A059JEB7_9EURO_1215338 are exactly identical! WARNING: Sequences tr_L0P8E8_L0P8E8_PNEJ8_1209962 and tr_L0PEB0_L0PEB0_PNEJ8_1209962 are exactly identical! WARNING: Sequences tr_N4TDZ9_N4TDZ9_FUSC1_1229664 and tr_A0A2H3T377_A0A2H3T377_FUSOX_5507 are exactly identical! WARNING: Sequences tr_N4TDZ9_N4TDZ9_FUSC1_1229664 and tr_A0A2H3HV95_A0A2H3HV95_FUSOX_327505 are exactly identical! WARNING: Sequences tr_V2XWP8_V2XWP8_MONRO_1381753 and tr_A0A0W0F9A8_A0A0W0F9A8_9AGAR_221103 are exactly identical! WARNING: Sequences tr_A0A0D3G2L0_A0A0D3G2L0_9ORYZ_65489 and tr_A0A0D9ZTH3_A0A0D9ZTH3_9ORYZ_40148 are exactly identical! WARNING: Sequences tr_A0A094E146_A0A094E146_9PEZI_1420912 and tr_A0A1B8GH74_A0A1B8GH74_9PEZI_342668 are exactly identical! WARNING: Sequences tr_A0A0F8WNX1_A0A0F8WNX1_9EURO_308745 and tr_A0A2T5M0N3_A0A2T5M0N3_9EURO_1392256 are exactly identical! WARNING: Sequences tr_A0A165ALU3_A0A165ALU3_9HOMO_1314777 and tr_A0A166GVS4_A0A166GVS4_9HOMO_1314776 are exactly identical! WARNING: Sequences tr_A0A1S3WZX4_A0A1S3WZX4_TOBAC_4097 and tr_A0A1U7YF73_A0A1U7YF73_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A1S4CHU6_A0A1S4CHU6_TOBAC_4097 and tr_A0A1U7WEY0_A0A1U7WEY0_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A1I7UXK9_A0A1I7UXK9_9PELO_1561998 and tr_A0A1I7UXL0_A0A1I7UXL0_9PELO_1561998 are exactly identical! WARNING: Duplicate sequences found: 18 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/P52732/3_mltree/P52732.raxml.reduced.phy Alignment comprises 1 partitions and 874 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 874 / 874 Gaps: 5.30 % Invariant sites: 1.03 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P52732/3_mltree/P52732.raxml.rba Parallelization scheme autoconfig: 3 worker(s) x 3 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Generating 20 random starting tree(s) with 1001 taxa [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 292 / 23360 [00:00:00] Data distribution: max. searches per worker: 7 Starting ML tree search with 20 distinct starting trees [00:00:00 -1631413.921558] Initial branch length optimization [00:00:10 -1387747.865383] Model parameter optimization (eps = 10.000000) [00:01:09 -1386645.207387] AUTODETECT spr round 1 (radius: 5) [00:04:55 -1035262.825959] AUTODETECT spr round 2 (radius: 10) [00:09:13 -829281.133387] AUTODETECT spr round 3 (radius: 15) [00:14:19 -684655.757688] AUTODETECT spr round 4 (radius: 20) [00:20:30 -615449.380724] AUTODETECT spr round 5 (radius: 25) [00:26:09 -609820.678934] SPR radius for FAST iterations: 25 (autodetect) [00:26:09 -609820.678934] Model parameter optimization (eps = 3.000000) [00:26:39 -609397.030588] FAST spr round 1 (radius: 25) [00:32:58 -524416.078058] FAST spr round 2 (radius: 25) [00:37:27 -521526.036884] FAST spr round 3 (radius: 25) [00:41:04 -521420.750765] FAST spr round 4 (radius: 25) [00:43:57 -521407.250448] FAST spr round 5 (radius: 25) [00:46:33 -521407.249505] Model parameter optimization (eps = 1.000000) [00:46:47 -521402.135101] SLOW spr round 1 (radius: 5) [00:51:16 -521294.537517] SLOW spr round 2 (radius: 5) [00:55:25 -521285.471555] SLOW spr round 3 (radius: 5) [00:59:19 -521281.276798] SLOW spr round 4 (radius: 5) [01:03:04 -521281.276146] SLOW spr round 5 (radius: 10) [01:07:08 -521281.276116] SLOW spr round 6 (radius: 15) [01:16:18 -521281.276112] SLOW spr round 7 (radius: 20) [01:29:42 -521281.276110] SLOW spr round 8 (radius: 25) [01:46:16 -521281.276109] Model parameter optimization (eps = 0.100000) [01:46:27] [worker #0] ML tree search #1, logLikelihood: -521281.093860 [01:46:27 -1647558.083422] Initial branch length optimization [01:46:34 -1399292.110936] Model parameter optimization (eps = 10.000000) [01:47:27 -1398225.011860] AUTODETECT spr round 1 (radius: 5) [01:51:16 -1038972.643607] AUTODETECT spr round 2 (radius: 10) [01:55:36 -826265.344786] AUTODETECT spr round 3 (radius: 15) [02:00:25 -702461.577999] AUTODETECT spr round 4 (radius: 20) [02:01:12] [worker #2] ML tree search #3, logLikelihood: -521268.610097 [02:07:06 -617323.672469] AUTODETECT spr round 5 (radius: 25) [02:14:04 -603418.096447] SPR radius for FAST iterations: 25 (autodetect) [02:14:04 -603418.096447] Model parameter optimization (eps = 3.000000) [02:14:16 -603410.896615] FAST spr round 1 (radius: 25) [02:20:37 -524656.159509] FAST spr round 2 (radius: 25) [02:24:56 -521740.003409] FAST spr round 3 (radius: 25) [02:27:03] [worker #1] ML tree search #2, logLikelihood: -521288.426659 [02:28:29 -521645.256331] FAST spr round 4 (radius: 25) [02:31:18 -521626.058117] FAST spr round 5 (radius: 25) [02:33:53 -521618.560404] FAST spr round 6 (radius: 25) [02:36:23 -521608.478039] FAST spr round 7 (radius: 25) [02:38:48 -521608.477704] Model parameter optimization (eps = 1.000000) [02:39:15 -521373.435274] SLOW spr round 1 (radius: 5) [02:43:41 -521289.809087] SLOW spr round 2 (radius: 5) [02:47:35 -521287.526657] SLOW spr round 3 (radius: 5) [02:51:22 -521287.526575] SLOW spr round 4 (radius: 10) [02:55:33 -521287.526569] SLOW spr round 5 (radius: 15) [03:04:51 -521287.526566] SLOW spr round 6 (radius: 20) [03:18:31 -521287.526565] SLOW spr round 7 (radius: 25) [03:35:10 -521287.526563] Model parameter optimization (eps = 0.100000) [03:35:17] [worker #0] ML tree search #4, logLikelihood: -521287.519025 [03:35:17 -1632819.050563] Initial branch length optimization [03:35:28 -1388496.375874] Model parameter optimization (eps = 10.000000) [03:36:19 -1387541.854454] AUTODETECT spr round 1 (radius: 5) [03:40:05 -1048340.180177] AUTODETECT spr round 2 (radius: 10) [03:44:25 -827309.131694] AUTODETECT spr round 3 (radius: 15) [03:49:07 -705258.738470] AUTODETECT spr round 4 (radius: 20) [03:55:01 -616314.624906] AUTODETECT spr round 5 (radius: 25) [04:00:42 -602334.251495] SPR radius for FAST iterations: 25 (autodetect) [04:00:42 -602334.251495] Model parameter optimization (eps = 3.000000) [04:00:58 -602326.163817] FAST spr round 1 (radius: 25) [04:07:07 -524136.963704] FAST spr round 2 (radius: 25) [04:07:28] [worker #1] ML tree search #5, logLikelihood: -521292.697011 [04:09:03] [worker #2] ML tree search #6, logLikelihood: -521285.543267 [04:11:20 -521848.132484] FAST spr round 3 (radius: 25) [04:14:55 -521764.882967] FAST spr round 4 (radius: 25) [04:17:44 -521747.741898] FAST spr round 5 (radius: 25) [04:20:16 -521747.740961] Model parameter optimization (eps = 1.000000) [04:20:39 -521427.140353] SLOW spr round 1 (radius: 5) [04:25:16 -521283.585354] SLOW spr round 2 (radius: 5) [04:29:24 -521271.569968] SLOW spr round 3 (radius: 5) [04:33:17 -521270.916713] SLOW spr round 4 (radius: 5) [04:37:09 -521268.943051] SLOW spr round 5 (radius: 5) [04:40:58 -521268.942998] SLOW spr round 6 (radius: 10) [04:45:07 -521268.942997] SLOW spr round 7 (radius: 15) [04:54:27 -521268.942995] SLOW spr round 8 (radius: 20) [05:08:00 -521268.942994] SLOW spr round 9 (radius: 25) [05:24:28 -521268.942992] Model parameter optimization (eps = 0.100000) [05:24:33] [worker #0] ML tree search #7, logLikelihood: -521268.936083 [05:24:33 -1645235.228345] Initial branch length optimization [05:24:40 -1396552.846799] Model parameter optimization (eps = 10.000000) [05:25:37 -1395642.201333] AUTODETECT spr round 1 (radius: 5) [05:29:25 -1033145.754976] AUTODETECT spr round 2 (radius: 10) [05:33:45 -813177.757734] AUTODETECT spr round 3 (radius: 15) [05:38:23 -670875.480898] AUTODETECT spr round 4 (radius: 20) [05:44:11 -620966.652756] AUTODETECT spr round 5 (radius: 25) [05:49:35] [worker #1] ML tree search #8, logLikelihood: -521287.317743 [05:51:04 -604206.656474] SPR radius for FAST iterations: 25 (autodetect) [05:51:04 -604206.656474] Model parameter optimization (eps = 3.000000) [05:51:36 -603668.734179] FAST spr round 1 (radius: 25) [05:55:18] [worker #2] ML tree search #9, logLikelihood: -521271.223919 [05:57:44 -525941.625871] FAST spr round 2 (radius: 25) [06:02:02 -521592.817032] FAST spr round 3 (radius: 25) [06:05:36 -521419.163050] FAST spr round 4 (radius: 25) [06:08:30 -521403.975359] FAST spr round 5 (radius: 25) [06:11:08 -521400.594927] FAST spr round 6 (radius: 25) [06:13:39 -521400.594494] Model parameter optimization (eps = 1.000000) [06:13:58 -521396.538623] SLOW spr round 1 (radius: 5) [06:18:18 -521281.039146] SLOW spr round 2 (radius: 5) [06:22:17 -521276.130595] SLOW spr round 3 (radius: 5) [06:26:06 -521276.130573] SLOW spr round 4 (radius: 10) [06:30:11 -521276.130566] SLOW spr round 5 (radius: 15) [06:39:24 -521276.130563] SLOW spr round 6 (radius: 20) [06:52:50 -521276.130561] SLOW spr round 7 (radius: 25) [07:09:28 -521276.130559] Model parameter optimization (eps = 0.100000) [07:09:35] [worker #0] ML tree search #10, logLikelihood: -521276.084690 [07:09:35 -1636265.297654] Initial branch length optimization [07:09:43 -1397307.897093] Model parameter optimization (eps = 10.000000) [07:11:41 -1396035.501480] AUTODETECT spr round 1 (radius: 5) [07:15:30 -1044119.627654] AUTODETECT spr round 2 (radius: 10) [07:19:51 -831931.553678] AUTODETECT spr round 3 (radius: 15) [07:24:56 -710259.967047] AUTODETECT spr round 4 (radius: 20) [07:30:58 -631088.697496] AUTODETECT spr round 5 (radius: 25) [07:37:04 -612396.869297] SPR radius for FAST iterations: 25 (autodetect) [07:37:04 -612396.869297] Model parameter optimization (eps = 3.000000) [07:37:15 -612391.756082] FAST spr round 1 (radius: 25) [07:43:33 -525102.515720] FAST spr round 2 (radius: 25) [07:48:00 -521860.289794] FAST spr round 3 (radius: 25) [07:51:38 -521740.336094] FAST spr round 4 (radius: 25) [07:53:45] [worker #1] ML tree search #11, logLikelihood: -521291.636149 [07:54:22 -521729.226246] FAST spr round 5 (radius: 25) [07:56:56 -521726.104691] FAST spr round 6 (radius: 25) [07:58:29] [worker #2] ML tree search #12, logLikelihood: -521272.512506 [07:59:31 -521716.017478] FAST spr round 7 (radius: 25) [08:01:58 -521716.017468] Model parameter optimization (eps = 1.000000) [08:02:21 -521429.576824] SLOW spr round 1 (radius: 5) [08:06:48 -521291.281459] SLOW spr round 2 (radius: 5) [08:10:46 -521288.328391] SLOW spr round 3 (radius: 5) [08:14:34 -521288.327401] SLOW spr round 4 (radius: 10) [08:18:40 -521285.066298] SLOW spr round 5 (radius: 5) [08:23:40 -521284.953431] SLOW spr round 6 (radius: 5) [08:27:59 -521284.953427] SLOW spr round 7 (radius: 10) [08:32:20 -521284.953425] SLOW spr round 8 (radius: 15) [08:41:08 -521284.953424] SLOW spr round 9 (radius: 20) [08:54:30 -521284.953422] SLOW spr round 10 (radius: 25) [09:11:09 -521284.953420] Model parameter optimization (eps = 0.100000) [09:11:23] [worker #0] ML tree search #13, logLikelihood: -521284.419489 [09:11:23 -1644490.645056] Initial branch length optimization [09:11:32 -1396546.848548] Model parameter optimization (eps = 10.000000) [09:12:31 -1395675.038784] AUTODETECT spr round 1 (radius: 5) [09:16:18 -1024798.576224] AUTODETECT spr round 2 (radius: 10) [09:20:38 -827133.305804] AUTODETECT spr round 3 (radius: 15) [09:25:37 -702795.025777] AUTODETECT spr round 4 (radius: 20) [09:32:29 -622729.566765] AUTODETECT spr round 5 (radius: 25) [09:38:40 -602453.343868] SPR radius for FAST iterations: 25 (autodetect) [09:38:40 -602453.343868] Model parameter optimization (eps = 3.000000) [09:39:09 -602089.570643] FAST spr round 1 (radius: 25) [09:45:17 -525276.131419] FAST spr round 2 (radius: 25) [09:49:37 -521621.060595] FAST spr round 3 (radius: 25) [09:53:07 -521409.492426] FAST spr round 4 (radius: 25) [09:56:00 -521391.444260] FAST spr round 5 (radius: 25) [09:58:36 -521389.296926] FAST spr round 6 (radius: 25) [10:00:02] [worker #2] ML tree search #15, logLikelihood: -521291.571698 [10:01:05 -521389.296498] Model parameter optimization (eps = 1.000000) [10:01:29 -521383.311466] SLOW spr round 1 (radius: 5) [10:05:52 -521286.447122] SLOW spr round 2 (radius: 5) [10:09:50 -521278.619446] SLOW spr round 3 (radius: 5) [10:13:42 -521275.539972] SLOW spr round 4 (radius: 5) [10:17:29 -521275.539969] SLOW spr round 5 (radius: 10) [10:20:57] [worker #1] ML tree search #14, logLikelihood: -521630.379242 [10:21:36 -521275.539967] SLOW spr round 6 (radius: 15) [10:31:10 -521275.539965] SLOW spr round 7 (radius: 20) [10:45:11 -521275.539964] SLOW spr round 8 (radius: 25) [11:02:28 -521275.539963] Model parameter optimization (eps = 0.100000) [11:02:49] [worker #0] ML tree search #16, logLikelihood: -521275.316707 [11:02:49 -1636107.011759] Initial branch length optimization [11:02:57 -1393557.827524] Model parameter optimization (eps = 10.000000) [11:04:02 -1392457.247045] AUTODETECT spr round 1 (radius: 5) [11:08:00 -1011348.874939] AUTODETECT spr round 2 (radius: 10) [11:12:20 -827598.231234] AUTODETECT spr round 3 (radius: 15) [11:17:18 -668268.389429] AUTODETECT spr round 4 (radius: 20) [11:22:29 -614678.295259] AUTODETECT spr round 5 (radius: 25) [11:29:08 -603350.533467] SPR radius for FAST iterations: 25 (autodetect) [11:29:08 -603350.533467] Model parameter optimization (eps = 3.000000) [11:29:39 -602861.530274] FAST spr round 1 (radius: 25) [11:35:51 -524173.084185] FAST spr round 2 (radius: 25) [11:40:00 -521517.629588] FAST spr round 3 (radius: 25) [11:43:29 -521415.972417] FAST spr round 4 (radius: 25) [11:46:18 -521410.975853] FAST spr round 5 (radius: 25) [11:48:53 -521410.975848] Model parameter optimization (eps = 1.000000) [11:49:13 -521401.162262] SLOW spr round 1 (radius: 5) [11:53:40 -521299.423008] SLOW spr round 2 (radius: 5) [11:57:53 -521273.444241] SLOW spr round 3 (radius: 5) [12:01:45 -521270.949065] SLOW spr round 4 (radius: 5) [12:05:32 -521270.947028] SLOW spr round 5 (radius: 10) [12:09:39 -521270.946787] SLOW spr round 6 (radius: 15) [12:18:37] [worker #1] ML tree search #17, logLikelihood: -521270.739407 [12:18:56 -521270.946756] SLOW spr round 7 (radius: 20) [12:23:06] [worker #2] ML tree search #18, logLikelihood: -521287.324576 [12:32:32 -521270.946751] SLOW spr round 8 (radius: 25) [12:49:11 -521270.946749] Model parameter optimization (eps = 0.100000) [12:49:27] [worker #0] ML tree search #19, logLikelihood: -521270.382793 [14:05:27] [worker #1] ML tree search #20, logLikelihood: -521531.917261 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.170457,0.125128) (0.154786,0.242515) (0.370275,0.902912) (0.304482,1.992919) 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: -521268.610097 AIC score: 1046547.220194 / AICc score: 9090607.220194 / BIC score: 1056117.246347 Free parameters (model + branch lengths): 2005 WARNING: Number of free parameters (K=2005) is larger than alignment size (n=874). This might lead to overfitting and compromise tree inference results! Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P52732/3_mltree/P52732.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P52732/3_mltree/P52732.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P52732/3_mltree/P52732.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/P52732/3_mltree/P52732.raxml.log Analysis started: 13-Jul-2021 16:31:59 / finished: 14-Jul-2021 06:37:27 Elapsed time: 50727.913 seconds Consumed energy: 3917.857 Wh (= 20 km in an electric car, or 98 km with an e-scooter!)