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 6258R CPU @ 2.70GHz, 56 cores, 187 GB RAM RAxML-NG was called at 04-Jun-2021 03:53:06 as follows: raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/2_msa/Q13415_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/3_mltree/Q13415 --seed 2 --threads 5 --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 (5 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/2_msa/Q13415_trimmed_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 317 sites WARNING: Sequences tr_A0A0E1RVQ5_A0A0E1RVQ5_COCIM_246410 and tr_A0A0J6YN24_A0A0J6YN24_COCIT_404692 are exactly identical! WARNING: Sequences tr_J3K3K6_J3K3K6_COCIM_246410 and tr_A0A0J7B7F2_A0A0J7B7F2_COCIT_404692 are exactly identical! WARNING: Sequences tr_B6QQL1_B6QQL1_TALMQ_441960 and tr_A0A093VLT7_A0A093VLT7_TALMA_1077442 are exactly identical! WARNING: Sequences tr_A0A144A1W6_A0A144A1W6_PLAF7_36329 and sp_Q8I615_ORC1_PLAF7_36329 are exactly identical! WARNING: Sequences tr_B2VU15_B2VU15_PYRTR_426418 and tr_A0A2W1ED22_A0A2W1ED22_9PLEO_45151 are exactly identical! WARNING: Sequences tr_B2VZD3_B2VZD3_PYRTR_426418 and tr_A0A317BM54_A0A317BM54_9PLEO_45151 are exactly identical! WARNING: Sequences tr_B8PD31_B8PD31_POSPM_561896 and tr_A0A1X6N5K1_A0A1X6N5K1_9APHY_670580 are exactly identical! WARNING: Sequences tr_Q7SH04_Q7SH04_NEUCR_367110 and tr_G4U5J3_G4U5J3_NEUT9_510952 are exactly identical! WARNING: Sequences tr_Q28YI8_Q28YI8_DROPS_46245 and tr_B4H8K0_B4H8K0_DROPE_7234 are exactly identical! WARNING: Sequences tr_B8NJT2_B8NJT2_ASPFN_332952 and tr_Q2U2R6_Q2U2R6_ASPOR_510516 are exactly identical! WARNING: Sequences tr_B8NJT2_B8NJT2_ASPFN_332952 and tr_A0A1S9DJP3_A0A1S9DJP3_ASPOZ_5062 are exactly identical! WARNING: Sequences tr_B8NJT2_B8NJT2_ASPFN_332952 and tr_A0A2G7G4R2_A0A2G7G4R2_9EURO_656916 are exactly identical! WARNING: Sequences tr_A0A179V2I7_A0A179V2I7_BLAGS_559298 and tr_C5GML0_C5GML0_AJEDR_559297 are exactly identical! WARNING: Sequences tr_K7DL03_K7DL03_PANTR_9598 and tr_A0A2R9BD96_A0A2R9BD96_PANPA_9597 are exactly identical! WARNING: Sequences tr_E9EL78_E9EL78_METRA_655844 and tr_A0A0D9PCE1_A0A0D9PCE1_METAN_1291518 are exactly identical! WARNING: Sequences tr_C6H984_C6H984_AJECH_544712 and tr_F0UAS1_F0UAS1_AJEC8_544711 are exactly identical! WARNING: Sequences tr_J5JLB7_J5JLB7_BEAB2_655819 and tr_A0A0A2W3N7_A0A0A2W3N7_BEABA_1245745 are exactly identical! WARNING: Sequences tr_E5SHN2_E5SHN2_TRISP_6334 and tr_A0A0V1NSM2_A0A0V1NSM2_9BILA_92180 are exactly identical! WARNING: Sequences tr_G2Y8H7_G2Y8H7_BOTF4_999810 and tr_M7UQG2_M7UQG2_BOTF1_1290391 are exactly identical! WARNING: Sequences tr_F2SHP1_F2SHP1_TRIRC_559305 and tr_A0A178F1P6_A0A178F1P6_TRIRU_5551 are exactly identical! WARNING: Sequences tr_G3YGG9_G3YGG9_ASPNA_380704 and tr_A0A319AWF7_A0A319AWF7_9EURO_1450533 are exactly identical! WARNING: Sequences tr_F2PS59_F2PS59_TRIEC_559882 and tr_A0A059JC50_A0A059JC50_9EURO_1215338 are exactly identical! WARNING: Sequences tr_M4EL04_M4EL04_BRARP_51351 and tr_A0A078J711_A0A078J711_BRANA_3708 are exactly identical! WARNING: Sequences tr_M4EL04_M4EL04_BRARP_51351 and tr_A0A0D3E8D0_A0A0D3E8D0_BRAOL_109376 are exactly identical! WARNING: Sequences tr_S0DIE7_S0DIE7_GIBF5_1279085 and tr_A0A365MSR6_A0A365MSR6_GIBIN_948311 are exactly identical! WARNING: Sequences tr_N4UP27_N4UP27_FUSC1_1229664 and tr_A0A2H3TAV8_A0A2H3TAV8_FUSOX_5507 are exactly identical! WARNING: Sequences tr_N4UP27_N4UP27_FUSC1_1229664 and tr_A0A2H3I0V2_A0A2H3I0V2_FUSOX_327505 are exactly identical! WARNING: Sequences tr_N4UP27_N4UP27_FUSC1_1229664 and tr_A0A2K0WD98_A0A2K0WD98_GIBNY_42673 are exactly identical! WARNING: Sequences tr_V2Y5G1_V2Y5G1_MONRO_1381753 and tr_A0A0W0EUB6_A0A0W0EUB6_9AGAR_221103 are exactly identical! WARNING: Sequences tr_W2QD83_W2QD83_PHYPN_761204 and tr_A0A0W8DXV9_A0A0W8DXV9_PHYNI_4790 are exactly identical! WARNING: Sequences tr_W2QD83_W2QD83_PHYPN_761204 and tr_W2NJA5_W2NJA5_PHYPR_4792 are exactly identical! WARNING: Sequences tr_A0A3B6SCU7_A0A3B6SCU7_WHEAT_4565 and tr_A0A3B6TMB1_A0A3B6TMB1_WHEAT_4565 are exactly identical! WARNING: Sequences tr_A0A015LJW2_A0A015LJW2_9GLOM_1432141 and tr_U9T192_U9T192_RHIID_747089 are exactly identical! WARNING: Sequences tr_A0A044UZZ9_A0A044UZZ9_ONCVO_6282 and tr_A0A182EA68_A0A182EA68_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A067F1M3_A0A067F1M3_CITSI_2711 and tr_V4UAU2_V4UAU2_9ROSI_85681 are exactly identical! WARNING: Sequences tr_A0A087XFW6_A0A087XFW6_POEFO_48698 and tr_A0A096MC74_A0A096MC74_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A094E9G7_A0A094E9G7_9PEZI_1420912 and tr_A0A1B8GHT2_A0A1B8GHT2_9PEZI_342668 are exactly identical! WARNING: Sequences tr_U4UQB9_U4UQB9_DENPD_77166 and tr_U4UUM8_U4UUM8_DENPD_77166 are exactly identical! WARNING: Sequences tr_A0A0F9XFT5_A0A0F9XFT5_TRIHA_5544 and tr_A0A2T4ARW7_A0A2T4ARW7_TRIHA_983964 are exactly identical! WARNING: Sequences tr_A0A0F8URU3_A0A0F8URU3_9EURO_308745 and tr_A0A2T5M215_A0A2T5M215_9EURO_1392256 are exactly identical! WARNING: Sequences tr_A0A0C2WJ42_A0A0C2WJ42_AMAMU_946122 and tr_A0A0C2WN28_A0A0C2WN28_AMAMU_946122 are exactly identical! WARNING: Sequences tr_A0A0V1CPY3_A0A0V1CPY3_TRIBR_45882 and tr_A0A0V0VL36_A0A0V0VL36_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A124GR19_A0A124GR19_9EURO_48697 and tr_A0A1V6NFW7_A0A1V6NFW7_9EURO_60169 are exactly identical! WARNING: Sequences tr_A0A100IHX9_A0A100IHX9_ASPNG_5061 and tr_A0A1L9NN82_A0A1L9NN82_ASPTU_767770 are exactly identical! WARNING: Sequences tr_I1RCL7_I1RCL7_GIBZE_229533 and tr_A0A1B8B407_A0A1B8B407_FUSPO_36050 are exactly identical! WARNING: Sequences tr_A0A164TMI7_A0A164TMI7_9HOMO_1314777 and tr_A0A166GYX8_A0A166GYX8_9HOMO_1314776 are exactly identical! WARNING: Sequences tr_A0A196SFH6_A0A196SFH6_BLAHN_478820 and tr_A0A196SIS9_A0A196SIS9_BLAHN_478820 are exactly identical! WARNING: Sequences tr_A0A1S3Z358_A0A1S3Z358_TOBAC_4097 and tr_A0A1U7WEB6_A0A1U7WEB6_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A2A2J5A3_A0A2A2J5A3_9BILA_2018661 and tr_A0A2A2LV31_A0A2A2LV31_9BILA_2018661 are exactly identical! WARNING: Sequences tr_A0A2D0RXR0_A0A2D0RXR0_ICTPU_7998 and tr_A0A2D0RXR1_A0A2D0RXR1_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0RXR0_A0A2D0RXR0_ICTPU_7998 and tr_A0A2D0RZA3_A0A2D0RZA3_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2G2Y429_A0A2G2Y429_CAPAN_4072 and tr_A0A2G3CK53_A0A2G3CK53_CAPCH_80379 are exactly identical! WARNING: Sequences tr_A0A2S7QG73_A0A2S7QG73_9HELO_2070414 and tr_A0A2S7QDJ3_A0A2S7QDJ3_9HELO_2070412 are exactly identical! WARNING: Sequences tr_A0A2U4BJV3_A0A2U4BJV3_TURTR_9739 and tr_A0A2Y9NIZ2_A0A2Y9NIZ2_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2V5I1L9_A0A2V5I1L9_9EURO_1450541 and tr_A0A2V5GRN8_A0A2V5GRN8_9EURO_1450538 are exactly identical! WARNING: Duplicate sequences found: 55 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/3_mltree/Q13415.raxml.reduced.phy Alignment comprises 1 partitions and 317 patterns Partition 0: noname Model: LG4X+R4 Alignment sites / patterns: 317 / 317 Gaps: 2.68 % Invariant sites: 0.63 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/3_mltree/Q13415.raxml.rba Parallelization scheme autoconfig: 5 worker(s) x 1 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 / 317 / 25360 [00:00:00] Data distribution: max. searches per worker: 4 Starting ML tree search with 20 distinct starting trees [00:00:00 -523931.651835] Initial branch length optimization [00:00:08 -434284.974924] Model parameter optimization (eps = 10.000000) [00:01:14 -432592.738037] AUTODETECT spr round 1 (radius: 5) [00:05:37 -329225.791887] AUTODETECT spr round 2 (radius: 10) [00:10:22 -252071.833765] AUTODETECT spr round 3 (radius: 15) [00:16:04 -201004.746419] AUTODETECT spr round 4 (radius: 20) [00:23:04 -173822.021145] AUTODETECT spr round 5 (radius: 25) [00:30:49 -169149.661652] SPR radius for FAST iterations: 25 (autodetect) [00:30:49 -169149.661652] Model parameter optimization (eps = 3.000000) [00:31:41 -168899.196425] FAST spr round 1 (radius: 25) [00:36:32 -146718.510444] FAST spr round 2 (radius: 25) [00:40:14 -145708.417853] FAST spr round 3 (radius: 25) [00:43:24 -145229.804231] FAST spr round 4 (radius: 25) [00:46:17 -145180.995524] FAST spr round 5 (radius: 25) [00:48:52 -145178.634226] FAST spr round 6 (radius: 25) [00:51:22 -145178.632632] Model parameter optimization (eps = 1.000000) [00:51:43 -145177.530278] SLOW spr round 1 (radius: 5) [00:55:32 -145140.139484] SLOW spr round 2 (radius: 5) [00:59:15 -145134.504595] SLOW spr round 3 (radius: 5) [01:02:44 -145134.504096] SLOW spr round 4 (radius: 10) [01:06:20 -145133.907444] SLOW spr round 5 (radius: 5) [01:10:51 -145133.907438] SLOW spr round 6 (radius: 10) [01:14:55 -145133.907437] SLOW spr round 7 (radius: 15) [01:20:41 -145133.907436] SLOW spr round 8 (radius: 20) [01:29:25 -145133.907435] SLOW spr round 9 (radius: 25) [01:40:34 -145133.907434] Model parameter optimization (eps = 0.100000) [01:40:42] [worker #0] ML tree search #1, logLikelihood: -145133.898719 [01:40:42 -523096.572857] Initial branch length optimization [01:40:51 -433550.210659] Model parameter optimization (eps = 10.000000) [01:41:44 -431948.207447] AUTODETECT spr round 1 (radius: 5) [01:43:40] [worker #2] ML tree search #3, logLikelihood: -145151.749923 [01:46:07 -336167.453753] AUTODETECT spr round 2 (radius: 10) [01:49:43] [worker #3] ML tree search #4, logLikelihood: -145155.430926 [01:50:53 -255323.836456] AUTODETECT spr round 3 (radius: 15) [01:56:25 -205084.932094] AUTODETECT spr round 4 (radius: 20) [02:02:17 -184159.044857] AUTODETECT spr round 5 (radius: 25) [02:08:45 -172953.451380] SPR radius for FAST iterations: 25 (autodetect) [02:08:46 -172953.451380] Model parameter optimization (eps = 3.000000) [02:09:23 -172763.166505] FAST spr round 1 (radius: 25) [02:12:39] [worker #4] ML tree search #5, logLikelihood: -145136.392778 [02:13:21] [worker #1] ML tree search #2, logLikelihood: -145132.249218 [02:14:35 -146180.084516] FAST spr round 2 (radius: 25) [02:18:22 -145276.126178] FAST spr round 3 (radius: 25) [02:21:32 -145208.697627] FAST spr round 4 (radius: 25) [02:24:14 -145200.832430] FAST spr round 5 (radius: 25) [02:26:48 -145199.587847] FAST spr round 6 (radius: 25) [02:29:16 -145199.587424] Model parameter optimization (eps = 1.000000) [02:29:38 -145191.843153] SLOW spr round 1 (radius: 5) [02:33:29 -145166.759340] SLOW spr round 2 (radius: 5) [02:37:19 -145154.239415] SLOW spr round 3 (radius: 5) [02:40:58 -145150.655089] SLOW spr round 4 (radius: 5) [02:44:29 -145148.042873] SLOW spr round 5 (radius: 5) [02:47:55 -145148.042873] SLOW spr round 6 (radius: 10) [02:51:35 -145144.232968] SLOW spr round 7 (radius: 5) [02:56:08 -145143.514630] SLOW spr round 8 (radius: 5) [03:00:02 -145143.514499] SLOW spr round 9 (radius: 10) [03:03:47 -145143.514497] SLOW spr round 10 (radius: 15) [03:09:57 -145143.514497] SLOW spr round 11 (radius: 20) [03:18:50 -145143.514497] SLOW spr round 12 (radius: 25) [03:24:03] [worker #2] ML tree search #8, logLikelihood: -145143.430234 [03:30:45 -145143.514497] Model parameter optimization (eps = 0.100000) [03:30:54] [worker #0] ML tree search #6, logLikelihood: -145143.455961 [03:30:54 -523152.315876] Initial branch length optimization [03:31:02 -431625.579049] Model parameter optimization (eps = 10.000000) [03:32:16 -430042.639764] AUTODETECT spr round 1 (radius: 5) [03:36:35 -330302.909737] AUTODETECT spr round 2 (radius: 10) [03:41:17 -248793.739619] AUTODETECT spr round 3 (radius: 15) [03:45:39] [worker #3] ML tree search #9, logLikelihood: -145146.049356 [03:47:07 -208417.802254] AUTODETECT spr round 4 (radius: 20) [03:48:36] [worker #4] ML tree search #10, logLikelihood: -145178.282087 [03:51:51] [worker #1] ML tree search #7, logLikelihood: -145155.000051 [03:53:23 -185310.315651] AUTODETECT spr round 5 (radius: 25) [04:00:33 -175420.422207] SPR radius for FAST iterations: 25 (autodetect) [04:00:33 -175420.422207] Model parameter optimization (eps = 3.000000) [04:01:17 -175055.703283] FAST spr round 1 (radius: 25) [04:06:39 -146589.397332] FAST spr round 2 (radius: 25) [04:10:13 -145334.270786] FAST spr round 3 (radius: 25) [04:13:20 -145260.554973] FAST spr round 4 (radius: 25) [04:16:05 -145245.114225] FAST spr round 5 (radius: 25) [04:18:37 -145245.114067] Model parameter optimization (eps = 1.000000) [04:19:07 -145234.964225] SLOW spr round 1 (radius: 5) [04:23:01 -145190.586467] SLOW spr round 2 (radius: 5) [04:26:47 -145183.311128] SLOW spr round 3 (radius: 5) [04:30:19 -145180.387134] SLOW spr round 4 (radius: 5) [04:33:48 -145176.983975] SLOW spr round 5 (radius: 5) [04:37:15 -145176.983940] SLOW spr round 6 (radius: 10) [04:40:48 -145176.983939] SLOW spr round 7 (radius: 15) [04:47:07 -145176.983939] SLOW spr round 8 (radius: 20) [04:55:41 -145176.983939] SLOW spr round 9 (radius: 25) [05:07:32 -145176.983939] Model parameter optimization (eps = 0.100000) [05:07:51] [worker #0] ML tree search #11, logLikelihood: -145176.156130 [05:07:51 -522384.903137] Initial branch length optimization [05:07:59 -431427.294552] Model parameter optimization (eps = 10.000000) [05:09:07 -429854.190124] AUTODETECT spr round 1 (radius: 5) [05:13:25 -325910.547430] AUTODETECT spr round 2 (radius: 10) [05:18:11 -254403.221500] AUTODETECT spr round 3 (radius: 15) [05:21:13] [worker #2] ML tree search #13, logLikelihood: -145148.748141 [05:24:02 -200588.015326] AUTODETECT spr round 4 (radius: 20) [05:29:29] [worker #3] ML tree search #14, logLikelihood: -145152.404237 [05:30:12 -177448.184400] AUTODETECT spr round 5 (radius: 25) [05:37:46 -172811.097261] SPR radius for FAST iterations: 25 (autodetect) [05:37:46 -172811.097261] Model parameter optimization (eps = 3.000000) [05:38:31 -172546.820817] FAST spr round 1 (radius: 25) [05:40:04] [worker #1] ML tree search #12, logLikelihood: -145131.898665 [05:40:24] [worker #4] ML tree search #15, logLikelihood: -145147.699279 [05:43:49 -146305.810269] FAST spr round 2 (radius: 25) [05:47:32 -145318.618370] FAST spr round 3 (radius: 25) [05:50:54 -145229.734177] FAST spr round 4 (radius: 25) [05:53:36 -145222.343387] FAST spr round 5 (radius: 25) [05:56:08 -145222.343288] Model parameter optimization (eps = 1.000000) [05:56:30 -145215.671180] SLOW spr round 1 (radius: 5) [06:00:24 -145162.688437] SLOW spr round 2 (radius: 5) [06:03:58 -145162.506926] SLOW spr round 3 (radius: 5) [06:07:27 -145162.506729] SLOW spr round 4 (radius: 10) [06:11:00 -145162.506727] SLOW spr round 5 (radius: 15) [06:17:19 -145162.506727] SLOW spr round 6 (radius: 20) [06:25:58 -145162.506727] SLOW spr round 7 (radius: 25) [06:37:38 -145162.506727] Model parameter optimization (eps = 0.100000) [06:37:45] [worker #0] ML tree search #16, logLikelihood: -145162.497313 [07:02:55] [worker #3] ML tree search #19, logLikelihood: -145140.102764 [07:13:36] [worker #2] ML tree search #18, logLikelihood: -145134.881090 [07:25:42] [worker #4] ML tree search #20, logLikelihood: -145152.072239 [07:34:05] [worker #1] ML tree search #17, logLikelihood: -145142.804509 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.205721,0.415861) (0.271617,0.503578) (0.364285,1.102214) (0.158378,2.375013) 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: -145131.898665 AIC score: 294273.797330 / AICc score: 8338333.797330 / BIC score: 301810.395387 Free parameters (model + branch lengths): 2005 WARNING: Number of free parameters (K=2005) is larger than alignment size (n=317). This might lead to overfitting and compromise tree inference results! WARNING: Best ML tree contains 99 near-zero branches! Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/3_mltree/Q13415.raxml.bestTreeCollapsed Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/3_mltree/Q13415.raxml.bestTree All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/3_mltree/Q13415.raxml.mlTrees Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/3_mltree/Q13415.raxml.bestModel Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/Q13415/3_mltree/Q13415.raxml.log Analysis started: 04-Jun-2021 03:53:06 / finished: 04-Jun-2021 11:27:12 Elapsed time: 27246.106 seconds Consumed energy: 2262.294 Wh (= 11 km in an electric car, or 57 km with an e-scooter!)