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 17:11:11 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q15031/2_msa/Q15031_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q15031/3_mltree/Q15031 --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/Q15031/2_msa/Q15031_trimmed_msa.fasta
[00:00:00] Loaded alignment with 873 taxa and 858 sites

WARNING: Sequences tr_A0A0D8JSL4_A0A0D8JSL4_COCIM_246410 and tr_A0A0J7AXP6_A0A0J7AXP6_COCIT_404692 are exactly identical!
WARNING: Sequences tr_H2RBW3_H2RBW3_PANTR_9598 and tr_A0A2R9C5F8_A0A2R9C5F8_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A0A0MTG1_A0A0A0MTG1_HUMAN_9606 and tr_A0A140TA40_A0A140TA40_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A140TA45_A0A140TA45_HUMAN_9606 and tr_B7ZL25_B7ZL25_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A2R4H3_A2R4H3_ASPNC_425011 and tr_G3XXE6_G3XXE6_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2R4H3_A2R4H3_ASPNC_425011 and tr_A0A319A9N4_A0A319A9N4_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_G7XZ65_G7XZ65_ASPKW_1033177 and tr_A0A146G0W2_A0A146G0W2_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_A0A0E0MQP7_A0A0E0MQP7_ORYRU_4529 and tr_A0A0D3EJ07_A0A0D3EJ07_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0MQP7_A0A0E0MQP7_ORYRU_4529 and tr_A0A0D9Y2J9_A0A0D9Y2J9_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_R1C5N9_R1C5N9_EMIHU_2903 and tr_R1D0Q9_R1D0Q9_EMIHU_2903 are exactly identical!
WARNING: Sequences tr_V4UAH7_V4UAH7_9ROSI_85681 and tr_A0A2H5N4V3_A0A2H5N4V3_CITUN_55188 are exactly identical!
WARNING: Sequences tr_A0A1S4DR01_A0A1S4DR01_TOBAC_4097 and tr_A0A1U7Y8C2_A0A1U7Y8C2_NICSY_4096 are exactly identical!
WARNING: Duplicate sequences found: 12

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/Q15031/3_mltree/Q15031.raxml.reduced.phy

Alignment comprises 1 partitions and 858 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 858 / 858
Gaps: 13.06 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q15031/3_mltree/Q15031.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 873 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 286 / 22880
[00:00:00] Data distribution: max. searches per worker: 7

Starting ML tree search with 20 distinct starting trees

[00:00:00 -1231636.433479] Initial branch length optimization
[00:00:08 -1047151.694005] Model parameter optimization (eps = 10.000000)
[00:01:13 -1043856.791736] AUTODETECT spr round 1 (radius: 5)
[00:04:02 -788989.903075] AUTODETECT spr round 2 (radius: 10)
[00:07:19 -604814.007645] AUTODETECT spr round 3 (radius: 15)
[00:11:00 -522758.790749] AUTODETECT spr round 4 (radius: 20)
[00:15:14 -493082.222493] AUTODETECT spr round 5 (radius: 25)
[00:20:20 -481917.949204] SPR radius for FAST iterations: 25 (autodetect)
[00:20:20 -481917.949204] Model parameter optimization (eps = 3.000000)
[00:20:45 -481854.670706] FAST spr round 1 (radius: 25)
[00:25:03 -437464.951640] FAST spr round 2 (radius: 25)
[00:28:07 -434851.175291] FAST spr round 3 (radius: 25)
[00:30:45 -434716.199141] FAST spr round 4 (radius: 25)
[00:32:47 -434711.531272] FAST spr round 5 (radius: 25)
[00:34:42 -434711.530384] Model parameter optimization (eps = 1.000000)
[00:34:59 -434703.439244] SLOW spr round 1 (radius: 5)
[00:37:59 -434592.055210] SLOW spr round 2 (radius: 5)
[00:40:46 -434588.488347] SLOW spr round 3 (radius: 5)
[00:43:28 -434585.665155] SLOW spr round 4 (radius: 5)
[00:46:07 -434585.664989] SLOW spr round 5 (radius: 10)
[00:48:54 -434585.664874] SLOW spr round 6 (radius: 15)
[00:53:45 -434585.631956] SLOW spr round 7 (radius: 20)
[01:00:37 -434585.631467] SLOW spr round 8 (radius: 25)
[01:09:16 -434582.971196] SLOW spr round 9 (radius: 5)
[01:11:54] [worker #1] ML tree search #2, logLikelihood: -434576.923781
[01:13:07 -434581.658667] SLOW spr round 10 (radius: 5)
[01:16:22 -434581.657556] SLOW spr round 11 (radius: 10)
[01:19:20 -434581.657493] SLOW spr round 12 (radius: 15)
[01:24:02 -434581.657447] SLOW spr round 13 (radius: 20)
[01:24:20] [worker #2] ML tree search #3, logLikelihood: -434603.568238
[01:30:59 -434581.657405] SLOW spr round 14 (radius: 25)
[01:39:41 -434581.657365] Model parameter optimization (eps = 0.100000)

[01:39:51] [worker #0] ML tree search #1, logLikelihood: -434581.045709

[01:39:51 -1239164.875655] Initial branch length optimization
[01:39:58 -1052933.820151] Model parameter optimization (eps = 10.000000)
[01:41:25 -1049223.195560] AUTODETECT spr round 1 (radius: 5)
[01:44:17 -777147.962160] AUTODETECT spr round 2 (radius: 10)
[01:47:34 -596724.304666] AUTODETECT spr round 3 (radius: 15)
[01:51:16 -526861.499139] AUTODETECT spr round 4 (radius: 20)
[01:55:34 -486117.332421] AUTODETECT spr round 5 (radius: 25)
[02:00:39 -482216.565336] SPR radius for FAST iterations: 25 (autodetect)
[02:00:39 -482216.565336] Model parameter optimization (eps = 3.000000)
[02:01:01 -482157.688868] FAST spr round 1 (radius: 25)
[02:05:21 -436359.380687] FAST spr round 2 (radius: 25)
[02:08:17 -434871.036041] FAST spr round 3 (radius: 25)
[02:10:42 -434735.131000] FAST spr round 4 (radius: 25)
[02:12:44 -434731.292266] FAST spr round 5 (radius: 25)
[02:14:41 -434730.624409] FAST spr round 6 (radius: 25)
[02:16:35 -434730.592246] Model parameter optimization (eps = 1.000000)
[02:16:56 -434705.724954] SLOW spr round 1 (radius: 5)
[02:19:51 -434587.199634] SLOW spr round 2 (radius: 5)
[02:22:40 -434577.591538] SLOW spr round 3 (radius: 5)
[02:25:23 -434574.129082] SLOW spr round 4 (radius: 5)
[02:28:01 -434574.129071] SLOW spr round 5 (radius: 10)
[02:30:49 -434570.986093] SLOW spr round 6 (radius: 5)
[02:34:24 -434570.081794] SLOW spr round 7 (radius: 5)
[02:37:28 -434570.081098] SLOW spr round 8 (radius: 10)
[02:40:23 -434570.080904] SLOW spr round 9 (radius: 15)
[02:41:54] [worker #1] ML tree search #5, logLikelihood: -435033.408230
[02:45:12 -434570.080803] SLOW spr round 10 (radius: 20)
[02:52:17 -434570.080728] SLOW spr round 11 (radius: 25)
[03:01:00 -434568.348630] SLOW spr round 12 (radius: 5)
[03:04:45] [worker #2] ML tree search #6, logLikelihood: -434571.204328
[03:04:52 -434566.525934] SLOW spr round 13 (radius: 5)
[03:08:08 -434566.525518] SLOW spr round 14 (radius: 10)
[03:11:08 -434566.525450] SLOW spr round 15 (radius: 15)
[03:15:55 -434566.525434] SLOW spr round 16 (radius: 20)
[03:23:02 -434566.525427] SLOW spr round 17 (radius: 25)
[03:31:45 -434566.525424] Model parameter optimization (eps = 0.100000)

[03:32:00] [worker #0] ML tree search #4, logLikelihood: -434565.938852

[03:32:00 -1228765.384441] Initial branch length optimization
[03:32:09 -1045099.648608] Model parameter optimization (eps = 10.000000)
[03:33:08 -1041720.289572] AUTODETECT spr round 1 (radius: 5)
[03:35:56 -788400.434132] AUTODETECT spr round 2 (radius: 10)
[03:39:09 -617474.538760] AUTODETECT spr round 3 (radius: 15)
[03:42:52 -510209.810831] AUTODETECT spr round 4 (radius: 20)
[03:46:32 -490111.246927] AUTODETECT spr round 5 (radius: 25)
[03:51:05 -486282.549580] SPR radius for FAST iterations: 25 (autodetect)
[03:51:05 -486282.549580] Model parameter optimization (eps = 3.000000)
[03:51:33 -486246.513834] FAST spr round 1 (radius: 25)
[03:55:38 -436714.924874] FAST spr round 2 (radius: 25)
[03:58:32 -434877.166132] FAST spr round 3 (radius: 25)
[04:00:58 -434754.273345] FAST spr round 4 (radius: 25)
[04:03:02 -434744.189288] FAST spr round 5 (radius: 25)
[04:04:58 -434736.139013] FAST spr round 6 (radius: 25)
[04:06:50 -434736.137993] Model parameter optimization (eps = 1.000000)
[04:07:07 -434732.631387] SLOW spr round 1 (radius: 5)
[04:09:58 -434633.250548] SLOW spr round 2 (radius: 5)
[04:10:38] [worker #2] ML tree search #9, logLikelihood: -434579.657827
[04:12:47 -434624.924986] SLOW spr round 3 (radius: 5)
[04:15:30 -434617.491955] SLOW spr round 4 (radius: 5)
[04:18:09 -434616.700876] SLOW spr round 5 (radius: 5)
[04:19:21] [worker #1] ML tree search #8, logLikelihood: -434589.262898
[04:20:48 -434616.700547] SLOW spr round 6 (radius: 10)
[04:23:41 -434601.868973] SLOW spr round 7 (radius: 5)
[04:27:17 -434600.923270] SLOW spr round 8 (radius: 5)
[04:30:21 -434600.922692] SLOW spr round 9 (radius: 10)
[04:33:17 -434600.922560] SLOW spr round 10 (radius: 15)
[04:38:02 -434600.922504] SLOW spr round 11 (radius: 20)
[04:44:56 -434600.922459] SLOW spr round 12 (radius: 25)
[04:53:32 -434600.922418] Model parameter optimization (eps = 0.100000)

[04:53:42] [worker #0] ML tree search #7, logLikelihood: -434600.581879

[04:53:42 -1237352.935464] Initial branch length optimization
[04:53:51 -1053221.597367] Model parameter optimization (eps = 10.000000)
[04:55:01 -1049946.562005] AUTODETECT spr round 1 (radius: 5)
[04:57:48 -788016.202698] AUTODETECT spr round 2 (radius: 10)
[05:01:05 -591014.427486] AUTODETECT spr round 3 (radius: 15)
[05:04:56 -516325.324757] AUTODETECT spr round 4 (radius: 20)
[05:09:25 -486442.874437] AUTODETECT spr round 5 (radius: 25)
[05:14:10 -482856.244729] SPR radius for FAST iterations: 25 (autodetect)
[05:14:10 -482856.244729] Model parameter optimization (eps = 3.000000)
[05:14:33 -482801.991762] FAST spr round 1 (radius: 25)
[05:18:37 -437503.224722] FAST spr round 2 (radius: 25)
[05:21:36 -434913.125885] FAST spr round 3 (radius: 25)
[05:24:08 -434792.321745] FAST spr round 4 (radius: 25)
[05:26:20 -434773.466378] FAST spr round 5 (radius: 25)
[05:28:15 -434773.465335] Model parameter optimization (eps = 1.000000)
[05:28:32 -434765.534552] SLOW spr round 1 (radius: 5)
[05:31:35 -434609.691416] SLOW spr round 2 (radius: 5)
[05:34:23 -434599.751647] SLOW spr round 3 (radius: 5)
[05:36:04] [worker #1] ML tree search #11, logLikelihood: -434575.857755
[05:37:05 -434594.525786] SLOW spr round 4 (radius: 5)
[05:39:44 -434594.523072] SLOW spr round 5 (radius: 10)
[05:42:33 -434583.455742] SLOW spr round 6 (radius: 5)
[05:46:09 -434582.650309] SLOW spr round 7 (radius: 5)
[05:49:17 -434580.738401] SLOW spr round 8 (radius: 5)
[05:52:08 -434580.737996] SLOW spr round 9 (radius: 10)
[05:55:00 -434579.981355] SLOW spr round 10 (radius: 5)
[05:58:33 -434579.981232] SLOW spr round 11 (radius: 10)
[06:01:42 -434579.803612] SLOW spr round 12 (radius: 5)
[06:05:12 -434579.802145] SLOW spr round 13 (radius: 10)
[06:08:18 -434579.801928] SLOW spr round 14 (radius: 15)
[06:12:55 -434579.801881] SLOW spr round 15 (radius: 20)
[06:19:56 -434579.801849] SLOW spr round 16 (radius: 25)
[06:28:15 -434578.901499] SLOW spr round 17 (radius: 5)
[06:32:06 -434578.741877] SLOW spr round 18 (radius: 5)
[06:35:20 -434578.741210] SLOW spr round 19 (radius: 10)
[06:38:21 -434578.741176] SLOW spr round 20 (radius: 15)
[06:43:05 -434578.741152] SLOW spr round 21 (radius: 20)
[06:45:52] [worker #2] ML tree search #12, logLikelihood: -434573.750211
[06:50:07 -434578.741128] SLOW spr round 22 (radius: 25)
[06:58:30 -434578.741105] Model parameter optimization (eps = 0.100000)

[06:58:44] [worker #0] ML tree search #10, logLikelihood: -434578.349258

[06:58:44 -1238795.658185] Initial branch length optimization
[06:58:53 -1054992.154194] Model parameter optimization (eps = 10.000000)
[07:00:01 -1051663.413060] AUTODETECT spr round 1 (radius: 5)
[07:02:51 -775659.850168] AUTODETECT spr round 2 (radius: 10)
[07:06:11 -586512.257259] AUTODETECT spr round 3 (radius: 15)
[07:06:43] [worker #1] ML tree search #14, logLikelihood: -434571.629149
[07:09:57 -511370.440374] AUTODETECT spr round 4 (radius: 20)
[07:13:58 -487902.886771] AUTODETECT spr round 5 (radius: 25)
[07:18:12 -486113.244008] SPR radius for FAST iterations: 25 (autodetect)
[07:18:12 -486113.244008] Model parameter optimization (eps = 3.000000)
[07:18:33 -486083.844844] FAST spr round 1 (radius: 25)
[07:22:37 -436250.466954] FAST spr round 2 (radius: 25)
[07:25:32 -434792.112169] FAST spr round 3 (radius: 25)
[07:27:57 -434737.467926] FAST spr round 4 (radius: 25)
[07:29:58 -434734.390870] FAST spr round 5 (radius: 25)
[07:31:53 -434734.387006] Model parameter optimization (eps = 1.000000)
[07:32:10 -434720.305518] SLOW spr round 1 (radius: 5)
[07:35:11 -434605.568464] SLOW spr round 2 (radius: 5)
[07:38:05 -434590.538497] SLOW spr round 3 (radius: 5)
[07:40:46 -434590.416892] SLOW spr round 4 (radius: 5)
[07:43:25 -434590.416641] SLOW spr round 5 (radius: 10)
[07:46:14 -434590.022070] SLOW spr round 6 (radius: 5)
[07:49:49 -434590.021788] SLOW spr round 7 (radius: 10)
[07:52:58 -434590.021755] SLOW spr round 8 (radius: 15)
[07:57:41 -434589.889465] SLOW spr round 9 (radius: 5)
[08:01:27 -434589.877347] SLOW spr round 10 (radius: 10)
[08:03:57] [worker #2] ML tree search #15, logLikelihood: -434576.482998
[08:04:48 -434589.876693] SLOW spr round 11 (radius: 15)
[08:09:28 -434589.876120] SLOW spr round 12 (radius: 20)
[08:16:55 -434589.875617] SLOW spr round 13 (radius: 25)
[08:21:23] [worker #1] ML tree search #17, logLikelihood: -434598.151755
[08:26:00 -434589.875177] Model parameter optimization (eps = 0.100000)

[08:26:10] [worker #0] ML tree search #13, logLikelihood: -434589.521825

[08:26:10 -1239900.877168] Initial branch length optimization
[08:26:18 -1055292.132209] Model parameter optimization (eps = 10.000000)
[08:27:25 -1051746.138214] AUTODETECT spr round 1 (radius: 5)
[08:30:16 -796548.615105] AUTODETECT spr round 2 (radius: 10)
[08:33:31 -596791.680562] AUTODETECT spr round 3 (radius: 15)
[08:37:07 -518836.699404] AUTODETECT spr round 4 (radius: 20)
[08:41:04 -484431.764595] AUTODETECT spr round 5 (radius: 25)
[08:45:37 -482538.650387] SPR radius for FAST iterations: 25 (autodetect)
[08:45:37 -482538.650387] Model parameter optimization (eps = 3.000000)
[08:45:46 -482534.292011] FAST spr round 1 (radius: 25)
[08:49:58 -436493.208582] FAST spr round 2 (radius: 25)
[08:53:01 -434887.230000] FAST spr round 3 (radius: 25)
[08:55:37 -434793.128271] FAST spr round 4 (radius: 25)
[08:57:39 -434785.438848] FAST spr round 5 (radius: 25)
[08:59:34 -434785.425060] Model parameter optimization (eps = 1.000000)
[08:59:59 -434717.811206] SLOW spr round 1 (radius: 5)
[09:03:03 -434603.745446] SLOW spr round 2 (radius: 5)
[09:06:02 -434588.767329] SLOW spr round 3 (radius: 5)
[09:08:42 -434588.717917] SLOW spr round 4 (radius: 10)
[09:11:30 -434578.932981] SLOW spr round 5 (radius: 5)
[09:15:06 -434578.288617] SLOW spr round 6 (radius: 5)
[09:18:12 -434578.288600] SLOW spr round 7 (radius: 10)
[09:21:06 -434578.288592] SLOW spr round 8 (radius: 15)
[09:25:53 -434578.288588] SLOW spr round 9 (radius: 20)
[09:32:50 -434578.288586] SLOW spr round 10 (radius: 25)
[09:41:25 -434578.288585] Model parameter optimization (eps = 0.100000)

[09:41:41] [worker #0] ML tree search #16, logLikelihood: -434577.580922

[09:41:41 -1240836.488200] Initial branch length optimization
[09:41:49 -1060501.677916] Model parameter optimization (eps = 10.000000)
[09:43:02 -1056857.468896] AUTODETECT spr round 1 (radius: 5)
[09:45:13] [worker #1] ML tree search #20, logLikelihood: -434581.116613
[09:45:50 -777291.807297] AUTODETECT spr round 2 (radius: 10)
[09:49:05 -580351.325812] AUTODETECT spr round 3 (radius: 15)
[09:50:02] [worker #2] ML tree search #18, logLikelihood: -434577.808238
[09:52:38 -512513.413455] AUTODETECT spr round 4 (radius: 20)
[09:56:34 -477304.906194] AUTODETECT spr round 5 (radius: 25)
[10:01:00 -474417.165865] SPR radius for FAST iterations: 25 (autodetect)
[10:01:00 -474417.165865] Model parameter optimization (eps = 3.000000)
[10:01:22 -474340.697441] FAST spr round 1 (radius: 25)
[10:05:22 -436209.013107] FAST spr round 2 (radius: 25)
[10:08:18 -434788.998545] FAST spr round 3 (radius: 25)
[10:10:46 -434706.176964] FAST spr round 4 (radius: 25)
[10:12:54 -434672.740098] FAST spr round 5 (radius: 25)
[10:14:48 -434672.736735] Model parameter optimization (eps = 1.000000)
[10:14:56 -434672.440859] SLOW spr round 1 (radius: 5)
[10:17:55 -434584.455798] SLOW spr round 2 (radius: 5)
[10:20:43 -434579.121860] SLOW spr round 3 (radius: 5)
[10:23:23 -434574.776328] SLOW spr round 4 (radius: 5)
[10:26:03 -434570.863496] SLOW spr round 5 (radius: 5)
[10:28:42 -434569.460349] SLOW spr round 6 (radius: 5)
[10:31:19 -434569.459973] SLOW spr round 7 (radius: 10)
[10:34:07 -434569.459871] SLOW spr round 8 (radius: 15)
[10:38:56 -434569.459798] SLOW spr round 9 (radius: 20)
[10:45:50 -434569.459732] SLOW spr round 10 (radius: 25)
[10:54:27 -434569.459667] Model parameter optimization (eps = 0.100000)

[10:54:45] [worker #0] ML tree search #19, logLikelihood: -434568.495576


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.165672,0.252771) (0.231813,0.426560) (0.308313,0.854944) (0.294203,2.024628) 
   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: -434565.938852

AIC score: 872629.877704 / AICc score: 6994129.877704 / BIC score: 880945.680274
Free parameters (model + branch lengths): 1749

WARNING: Number of free parameters (K=1749) is larger than alignment size (n=858).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 24 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q15031/3_mltree/Q15031.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q15031/3_mltree/Q15031.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q15031/3_mltree/Q15031.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q15031/3_mltree/Q15031.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q15031/3_mltree/Q15031.raxml.log

Analysis started: 13-Jul-2021 17:11:11 / finished: 14-Jul-2021 04:05:57

Elapsed time: 39286.144 seconds

Consumed energy: 3020.144 Wh (= 15 km in an electric car, or 76 km with an e-scooter!)