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 01-Jul-2021 13:16:42 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6NY19/2_msa/Q6NY19_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6NY19/3_mltree/Q6NY19 --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/300621_run/phylogeny-snakemake/results/Q6NY19/2_msa/Q6NY19_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 314 sites

WARNING: Sequences tr_G1S2U2_G1S2U2_NOMLE_61853 and tr_G3S4C5_G3S4C5_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1S2U2_G1S2U2_NOMLE_61853 and tr_H2R3U2_H2R3U2_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1S2U2_G1S2U2_NOMLE_61853 and sp_Q01484_ANK2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1S2U2_G1S2U2_NOMLE_61853 and tr_A0A2R9BUB3_A0A2R9BUB3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3QRT9_G3QRT9_GORGO_9595 and tr_H2PSA4_H2PSA4_PONAB_9601 are exactly identical!
WARNING: Sequences tr_A0A2I3RS74_A0A2I3RS74_PANTR_9598 and sp_Q6NY19_KANK3_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I3S7K8_A0A2I3S7K8_PANTR_9598 and tr_A0A2R9C0T4_A0A2R9C0T4_PANPA_9597 are exactly identical!
WARNING: Sequences tr_H2R912_H2R912_PANTR_9598 and tr_A0A2R8ZAU9_A0A2R8ZAU9_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A158N935_A0A158N935_ATTCE_12957 and tr_A0A195BVM6_A0A195BVM6_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A158NR73_A0A158NR73_ATTCE_12957 and tr_A0A151JQ77_A0A151JQ77_9HYME_471704 are exactly identical!
WARNING: Sequences tr_A0A158NR73_A0A158NR73_ATTCE_12957 and tr_A0A195BE65_A0A195BE65_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A158NR73_A0A158NR73_ATTCE_12957 and tr_A0A195FJR6_A0A195FJR6_9HYME_34720 are exactly identical!
WARNING: Sequences tr_A0A1D5Q686_A0A1D5Q686_MACMU_9544 and tr_A0A0A0MTV6_A0A0A0MTV6_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A1D5Q686_A0A1D5Q686_MACMU_9544 and tr_A0A2K6BP54_A0A2K6BP54_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A1D5Q686_A0A1D5Q686_MACMU_9544 and tr_A0A2K5XJY8_A0A2K5XJY8_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F7GTI0_F7GTI0_MACMU_9544 and tr_G7PSG7_G7PSG7_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7GTI0_F7GTI0_MACMU_9544 and tr_A0A2I3LTG5_A0A2I3LTG5_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7GTI0_F7GTI0_MACMU_9544 and tr_A0A0D9R8C9_A0A0D9R8C9_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F7GTI0_F7GTI0_MACMU_9544 and tr_A0A2K6BCR3_A0A2K6BCR3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7GTI0_F7GTI0_MACMU_9544 and tr_A0A2K5ZZJ7_A0A2K5ZZJ7_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F7H4E0_F7H4E0_MACMU_9544 and tr_G7P649_G7P649_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7H4E0_F7H4E0_MACMU_9544 and tr_A0A096N0E1_A0A096N0E1_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F7H4E0_F7H4E0_MACMU_9544 and tr_A0A2K5MCB6_A0A2K5MCB6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7H4E0_F7H4E0_MACMU_9544 and tr_A0A2K5YPQ5_A0A2K5YPQ5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_H0YUA6_H0YUA6_TAEGU_59729 and tr_A0A218UPI7_A0A218UPI7_9PASE_299123 are exactly identical!
WARNING: Sequences tr_A0A337SR04_A0A337SR04_FELCA_9685 and tr_A0A2U3WE70_A0A2U3WE70_ODORO_9708 are exactly identical!
WARNING: Sequences tr_A0A337SR04_A0A337SR04_FELCA_9685 and tr_A0A2Y9K0E1_A0A2Y9K0E1_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_A0A337SR04_A0A337SR04_FELCA_9685 and tr_A0A384BYK5_A0A384BYK5_URSMA_29073 are exactly identical!
WARNING: Sequences tr_W2Q6Y0_W2Q6Y0_PHYPN_761204 and tr_A0A0W8CLS5_A0A0W8CLS5_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_W2Q6Y0_W2Q6Y0_PHYPN_761204 and tr_A0A0W8D9H5_A0A0W8D9H5_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_A0A0D9S740_A0A0D9S740_CHLSB_60711 and tr_A0A2K6BZQ0_A0A2K6BZQ0_MACNE_9545 are exactly identical!
WARNING: Sequences tr_A0A0V1D2F8_A0A0V1D2F8_TRIBR_45882 and tr_A0A0V0VCY6_A0A0V0VCY6_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1D2F8_A0A0V1D2F8_TRIBR_45882 and tr_A0A0V1PIQ3_A0A0V1PIQ3_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1D2F8_A0A0V1D2F8_TRIBR_45882 and tr_A0A0V0TKH9_A0A0V0TKH9_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V0WBU9_A0A0V0WBU9_9BILA_92179 and tr_A0A0V1KW05_A0A0V1KW05_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A1I7ULL4_A0A1I7ULL4_9PELO_1561998 and tr_A0A1I7ULL5_A0A1I7ULL5_9PELO_1561998 are exactly identical!
WARNING: Sequences tr_A0A2D0PLW1_A0A2D0PLW1_ICTPU_7998 and tr_A0A2D0PQ75_A0A2D0PQ75_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2U4AR11_A0A2U4AR11_TURTR_9739 and tr_A0A2Y9Q3F6_A0A2Y9Q3F6_DELLE_9749 are exactly identical!
WARNING: Duplicate sequences found: 38

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/Q6NY19/3_mltree/Q6NY19.raxml.reduced.phy

Alignment comprises 1 partitions and 314 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 314 / 314
Gaps: 18.30 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6NY19/3_mltree/Q6NY19.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 / 314 / 25120
[00:00:00] Data distribution: max. searches per worker: 4

Starting ML tree search with 20 distinct starting trees

[00:00:00 -544567.212549] Initial branch length optimization
[00:00:08 -457593.660490] Model parameter optimization (eps = 10.000000)
[00:01:42 -456082.090581] AUTODETECT spr round 1 (radius: 5)
[00:06:09 -336201.310184] AUTODETECT spr round 2 (radius: 10)
[00:11:08 -260498.472604] AUTODETECT spr round 3 (radius: 15)
[00:16:34 -221999.892369] AUTODETECT spr round 4 (radius: 20)
[00:22:30 -213678.130424] AUTODETECT spr round 5 (radius: 25)
[00:29:43 -211278.772144] SPR radius for FAST iterations: 25 (autodetect)
[00:29:43 -211278.772144] Model parameter optimization (eps = 3.000000)
[00:30:00 -211263.939332] FAST spr round 1 (radius: 25)
[00:37:40 -195403.549292] FAST spr round 2 (radius: 25)
[00:43:14 -194553.804883] FAST spr round 3 (radius: 25)
[00:47:38 -194476.368378] FAST spr round 4 (radius: 25)
[00:51:32 -194447.934658] FAST spr round 5 (radius: 25)
[00:55:16 -194436.967453] FAST spr round 6 (radius: 25)
[00:58:30 -194436.351420] FAST spr round 7 (radius: 25)
[01:01:42 -194436.351296] Model parameter optimization (eps = 1.000000)
[01:01:56 -194429.583640] SLOW spr round 1 (radius: 5)
[01:06:27 -194385.311249] SLOW spr round 2 (radius: 5)
[01:10:48 -194380.697318] SLOW spr round 3 (radius: 5)
[01:14:59 -194380.379528] SLOW spr round 4 (radius: 5)
[01:19:04 -194380.379099] SLOW spr round 5 (radius: 10)
[01:23:27 -194369.267861] SLOW spr round 6 (radius: 5)
[01:28:33 -194361.802661] SLOW spr round 7 (radius: 5)
[01:33:03 -194361.802226] SLOW spr round 8 (radius: 10)
[01:37:30 -194361.802180] SLOW spr round 9 (radius: 15)
[01:45:25 -194361.802137] SLOW spr round 10 (radius: 20)
[01:56:58 -194361.248982] SLOW spr round 11 (radius: 5)
[02:02:17 -194361.235353] SLOW spr round 12 (radius: 10)
[02:07:57 -194361.232626] SLOW spr round 13 (radius: 15)
[02:15:25 -194361.232078] SLOW spr round 14 (radius: 20)
[02:27:22 -194361.231943] SLOW spr round 15 (radius: 25)
[02:43:23 -194361.231885] Model parameter optimization (eps = 0.100000)

[02:43:35] [worker #0] ML tree search #1, logLikelihood: -194361.089507

[02:43:35 -542864.906615] Initial branch length optimization
[02:43:42 -456185.798253] Model parameter optimization (eps = 10.000000)
[02:45:02 -454807.443693] AUTODETECT spr round 1 (radius: 5)
[02:49:26 -351079.039878] AUTODETECT spr round 2 (radius: 10)
[02:54:16 -270637.111253] AUTODETECT spr round 3 (radius: 15)
[02:59:30 -234345.831187] AUTODETECT spr round 4 (radius: 20)
[03:05:35 -215179.801919] AUTODETECT spr round 5 (radius: 25)
[03:06:34] [worker #4] ML tree search #5, logLikelihood: -194245.956234
[03:12:27 -212650.023595] SPR radius for FAST iterations: 25 (autodetect)
[03:12:27 -212650.023595] Model parameter optimization (eps = 3.000000)
[03:13:23 -211219.324141] FAST spr round 1 (radius: 25)
[03:13:32] [worker #3] ML tree search #4, logLikelihood: -194240.298683
[03:20:59 -193936.883302] FAST spr round 2 (radius: 25)
[03:25:49] [worker #1] ML tree search #2, logLikelihood: -194213.155662
[03:26:45 -193232.900648] FAST spr round 3 (radius: 25)
[03:31:08 -193117.781138] FAST spr round 4 (radius: 25)
[03:32:03] [worker #2] ML tree search #3, logLikelihood: -192989.538670
[03:34:51 -193106.170252] FAST spr round 5 (radius: 25)
[03:38:14 -193106.168803] Model parameter optimization (eps = 1.000000)
[03:38:23 -193105.779611] SLOW spr round 1 (radius: 5)
[03:43:14 -193011.739026] SLOW spr round 2 (radius: 5)
[03:47:40 -192997.165621] SLOW spr round 3 (radius: 5)
[03:51:53 -192993.381426] SLOW spr round 4 (radius: 5)
[03:55:58 -192993.381176] SLOW spr round 5 (radius: 10)
[04:00:13 -192986.035356] SLOW spr round 6 (radius: 5)
[04:05:25 -192982.084420] SLOW spr round 7 (radius: 5)
[04:10:03 -192980.117784] SLOW spr round 8 (radius: 5)
[04:14:29 -192978.342157] SLOW spr round 9 (radius: 5)
[04:18:46 -192977.874438] SLOW spr round 10 (radius: 5)
[04:22:54 -192976.328043] SLOW spr round 11 (radius: 5)
[04:27:03 -192975.670130] SLOW spr round 12 (radius: 5)
[04:31:06 -192975.669417] SLOW spr round 13 (radius: 10)
[04:35:16 -192975.669206] SLOW spr round 14 (radius: 15)
[04:42:58 -192975.669135] SLOW spr round 15 (radius: 20)
[04:54:05 -192975.669104] SLOW spr round 16 (radius: 25)
[05:08:18 -192975.669085] Model parameter optimization (eps = 0.100000)

[05:08:24] [worker #0] ML tree search #6, logLikelihood: -192975.662988

[05:08:25 -543643.828362] Initial branch length optimization
[05:08:31 -454936.576029] Model parameter optimization (eps = 10.000000)
[05:10:17 -453454.276536] AUTODETECT spr round 1 (radius: 5)
[05:14:44 -344661.872987] AUTODETECT spr round 2 (radius: 10)
[05:19:34 -261677.208959] AUTODETECT spr round 3 (radius: 15)
[05:24:43 -229934.511621] AUTODETECT spr round 4 (radius: 20)
[05:30:38 -223763.854245] AUTODETECT spr round 5 (radius: 25)
[05:38:25 -214627.358412] SPR radius for FAST iterations: 25 (autodetect)
[05:38:25 -214627.358412] Model parameter optimization (eps = 3.000000)
[05:38:44 -214589.279086] FAST spr round 1 (radius: 25)
[05:46:27 -195559.226557] FAST spr round 2 (radius: 25)
[05:52:06 -194499.938179] FAST spr round 3 (radius: 25)
[05:56:43 -194353.211391] FAST spr round 4 (radius: 25)
[06:00:50 -194332.518210] FAST spr round 5 (radius: 25)
[06:04:30 -194322.060655] FAST spr round 6 (radius: 25)
[06:08:03 -194313.426809] FAST spr round 7 (radius: 25)
[06:11:17 -194313.425856] Model parameter optimization (eps = 1.000000)
[06:11:27 -194313.294015] SLOW spr round 1 (radius: 5)
[06:16:08 -194256.046696] SLOW spr round 2 (radius: 5)
[06:16:21] [worker #3] ML tree search #9, logLikelihood: -194324.160320
[06:20:33 -194250.911315] SLOW spr round 3 (radius: 5)
[06:21:26] [worker #2] ML tree search #8, logLikelihood: -193023.819818
[06:24:48 -194249.344956] SLOW spr round 4 (radius: 5)
[06:28:56 -194249.343766] SLOW spr round 5 (radius: 10)
[06:33:13 -194246.562369] SLOW spr round 6 (radius: 5)
[06:38:19 -194243.298728] SLOW spr round 7 (radius: 5)
[06:41:59] [worker #4] ML tree search #10, logLikelihood: -194322.250168
[06:43:07 -194241.189297] SLOW spr round 8 (radius: 5)
[06:47:27 -194240.900092] SLOW spr round 9 (radius: 5)
[06:51:41 -194240.888305] SLOW spr round 10 (radius: 10)
[06:55:56 -194240.886634] SLOW spr round 11 (radius: 15)
[07:03:47 -194240.125681] SLOW spr round 12 (radius: 5)
[07:05:41] [worker #1] ML tree search #7, logLikelihood: -194222.294007
[07:09:04 -194239.378460] SLOW spr round 13 (radius: 5)
[07:13:51 -194238.507777] SLOW spr round 14 (radius: 5)
[07:18:14 -194238.504254] SLOW spr round 15 (radius: 10)
[07:22:34 -194238.503287] SLOW spr round 16 (radius: 15)
[07:30:16 -194238.194130] SLOW spr round 17 (radius: 5)
[07:35:33 -194237.982221] SLOW spr round 18 (radius: 5)
[07:40:15 -194237.982157] SLOW spr round 19 (radius: 10)
[07:44:48 -194237.982122] SLOW spr round 20 (radius: 15)
[07:52:19 -194237.982092] SLOW spr round 21 (radius: 20)
[08:03:59 -194237.982066] SLOW spr round 22 (radius: 25)
[08:19:39 -194237.982041] Model parameter optimization (eps = 0.100000)

[08:19:47] [worker #0] ML tree search #11, logLikelihood: -194237.956090

[08:19:47 -545403.542272] Initial branch length optimization
[08:19:54 -457179.450823] Model parameter optimization (eps = 10.000000)
[08:21:18 -455657.997455] AUTODETECT spr round 1 (radius: 5)
[08:25:49 -350634.927554] AUTODETECT spr round 2 (radius: 10)
[08:30:47 -264924.098662] AUTODETECT spr round 3 (radius: 15)
[08:36:08 -235012.417202] AUTODETECT spr round 4 (radius: 20)
[08:42:16 -214328.950509] AUTODETECT spr round 5 (radius: 25)
[08:52:12 -212098.344112] SPR radius for FAST iterations: 25 (autodetect)
[08:52:12 -212098.344112] Model parameter optimization (eps = 3.000000)
[08:53:13 -210488.733753] FAST spr round 1 (radius: 25)
[09:01:06 -193763.941160] FAST spr round 2 (radius: 25)
[09:06:36 -193157.637043] FAST spr round 3 (radius: 25)
[09:10:58 -193091.209967] FAST spr round 4 (radius: 25)
[09:12:10] [worker #1] ML tree search #12, logLikelihood: -194305.252316
[09:14:40 -193083.138971] FAST spr round 5 (radius: 25)
[09:18:07 -193077.890392] FAST spr round 6 (radius: 25)
[09:21:24 -193077.890290] Model parameter optimization (eps = 1.000000)
[09:21:31 -193077.828115] SLOW spr round 1 (radius: 5)
[09:26:12 -193024.488218] SLOW spr round 2 (radius: 5)
[09:30:41 -193017.084779] SLOW spr round 3 (radius: 5)
[09:34:56 -193015.498675] SLOW spr round 4 (radius: 5)
[09:39:06 -193009.196970] SLOW spr round 5 (radius: 5)
[09:43:14 -193006.819722] SLOW spr round 6 (radius: 5)
[09:47:23 -193004.863019] SLOW spr round 7 (radius: 5)
[09:51:29 -193004.862986] SLOW spr round 8 (radius: 10)
[09:55:46 -193000.370593] SLOW spr round 9 (radius: 5)
[09:59:49] [worker #4] ML tree search #15, logLikelihood: -192976.375286
[10:01:03 -192997.065560] SLOW spr round 10 (radius: 5)
[10:05:42 -192996.322489] SLOW spr round 11 (radius: 5)
[10:10:02 -192996.322133] SLOW spr round 12 (radius: 10)
[10:11:48] [worker #2] ML tree search #13, logLikelihood: -194330.296389
[10:14:24 -192992.952145] SLOW spr round 13 (radius: 5)
[10:19:37 -192990.056218] SLOW spr round 14 (radius: 5)
[10:24:22 -192988.749693] SLOW spr round 15 (radius: 5)
[10:28:46 -192987.996838] SLOW spr round 16 (radius: 5)
[10:32:57 -192987.284444] SLOW spr round 17 (radius: 5)
[10:37:01 -192987.283743] SLOW spr round 18 (radius: 10)
[10:41:06 -192987.283651] SLOW spr round 19 (radius: 15)
[10:48:54 -192986.767601] SLOW spr round 20 (radius: 5)
[10:51:57] [worker #3] ML tree search #14, logLikelihood: -194329.366837
[10:54:14 -192986.088402] SLOW spr round 21 (radius: 5)
[10:58:54 -192986.087841] SLOW spr round 22 (radius: 10)
[11:03:21 -192986.087778] SLOW spr round 23 (radius: 15)
[11:10:51 -192985.726119] SLOW spr round 24 (radius: 5)
[11:16:05 -192985.726055] SLOW spr round 25 (radius: 10)
[11:21:14 -192985.726038] SLOW spr round 26 (radius: 15)
[11:28:25 -192985.726024] SLOW spr round 27 (radius: 20)
[11:40:11 -192985.726010] SLOW spr round 28 (radius: 25)
[11:43:24] [worker #1] ML tree search #17, logLikelihood: -194101.856079
[11:55:49 -192985.725997] Model parameter optimization (eps = 0.100000)

[11:55:59] [worker #0] ML tree search #16, logLikelihood: -192985.722424

[12:46:13] [worker #4] ML tree search #20, logLikelihood: -194325.998902
[13:33:25] [worker #3] ML tree search #19, logLikelihood: -193001.227358
[13:38:26] [worker #2] ML tree search #18, logLikelihood: -192950.559648

Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.138230,0.607065) (0.103930,0.380009) (0.443651,0.942275) (0.314189,1.459472) 
   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: -192950.559648

AIC score: 389911.119296 / AICc score: 8433971.119296 / BIC score: 397428.652233
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=314).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 110 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6NY19/3_mltree/Q6NY19.raxml.bestTreeCollapsed
Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6NY19/3_mltree/Q6NY19.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6NY19/3_mltree/Q6NY19.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6NY19/3_mltree/Q6NY19.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q6NY19/3_mltree/Q6NY19.raxml.log

Analysis started: 01-Jul-2021 13:16:42 / finished: 02-Jul-2021 02:55:09

Elapsed time: 49106.638 seconds

Consumed energy: 3972.478 Wh (= 20 km in an electric car, or 99 km with an e-scooter!)