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 6140 CPU @ 2.30GHz, 36 cores, 251 GB RAM

RAxML-NG was called at 13-Jul-2021 22:48:52 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/2_msa/Q9NRB3_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/3_mltree/Q9NRB3 --seed 2 --threads 6 --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 (6 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/2_msa/Q9NRB3_trimmed_msa.fasta
[00:00:00] Loaded alignment with 827 taxa and 284 sites

WARNING: Sequences tr_A0A1I7Q428_A0A1I7Q428_CHICK_9031 and sp_Q5ZIE4_CHSTA_CHICK_9031 are exactly identical!
WARNING: Sequences tr_M3Y5E1_M3Y5E1_MUSPF_9669 and tr_A0A2Y9IT82_A0A2Y9IT82_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3YKY2_M3YKY2_MUSPF_9669 and tr_A0A2Y9IU53_A0A2Y9IU53_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_G1R428_G1R428_NOMLE_61853 and tr_G3RSV9_G3RSV9_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1R428_G1R428_NOMLE_61853 and tr_A0A2J8MPY7_A0A2J8MPY7_PANTR_9598 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and tr_G3RKX7_G3RKX7_GORGO_9595 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and tr_H2Q6R6_H2Q6R6_PANTR_9598 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and sp_Q9NPF2_CHSTB_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and tr_G7PJD7_G7PJD7_MACFA_9541 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and tr_A0A096MU96_A0A096MU96_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and tr_A0A0D9S2F2_A0A0D9S2F2_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and tr_A0A2K5KUM9_A0A2K5KUM9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and tr_A0A2K6C1T5_A0A2K6C1T5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_M3ZAP0_M3ZAP0_NOMLE_61853 and tr_A0A2R9AA27_A0A2R9AA27_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3QWF9_G3QWF9_GORGO_9595 and tr_A0A2J8QGX8_A0A2J8QGX8_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3QWF9_G3QWF9_GORGO_9595 and tr_A0A2R9ABJ8_A0A2R9ABJ8_PANPA_9597 are exactly identical!
WARNING: Sequences tr_G3RIC8_G3RIC8_GORGO_9595 and tr_A0A2I3SY87_A0A2I3SY87_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3RIC8_G3RIC8_GORGO_9595 and tr_H2QU36_H2QU36_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G3RIC8_G3RIC8_GORGO_9595 and sp_Q9NRB3_CHSTC_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G3RIC8_G3RIC8_GORGO_9595 and tr_A0A2R8ZAC1_A0A2R8ZAC1_PANPA_9597 are exactly identical!
WARNING: Sequences tr_Q29L92_Q29L92_DROPS_46245 and tr_B4GQH5_B4GQH5_DROPE_7234 are exactly identical!
WARNING: Sequences tr_H2QIF5_H2QIF5_PANTR_9598 and tr_A0A2R9C1M3_A0A2R9C1M3_PANPA_9597 are exactly identical!
WARNING: Sequences tr_F7FJK0_F7FJK0_MACMU_9544 and tr_G7PX63_G7PX63_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F7FJK0_F7FJK0_MACMU_9544 and tr_A0A2K5N8F1_A0A2K5N8F1_CERAT_9531 are exactly identical!
WARNING: Sequences tr_F7FJK0_F7FJK0_MACMU_9544 and tr_A0A2K6CAG8_A0A2K6CAG8_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F7FJK0_F7FJK0_MACMU_9544 and tr_A0A2K5XYX7_A0A2K5XYX7_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F7HB73_F7HB73_MACMU_9544 and tr_A0A2K6CGI6_A0A2K6CGI6_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G7MNL0_G7MNL0_MACMU_9544 and tr_A0A2K5KVE7_A0A2K5KVE7_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G7MNL0_G7MNL0_MACMU_9544 and tr_A0A2K6BTA4_A0A2K6BTA4_MACNE_9545 are exactly identical!
WARNING: Sequences tr_H0ZIF3_H0ZIF3_TAEGU_59729 and tr_A0A218UX63_A0A218UX63_9PASE_299123 are exactly identical!
WARNING: Sequences tr_G7PMT7_G7PMT7_MACFA_9541 and tr_A0A2K5MMW9_A0A2K5MMW9_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G7PMT7_G7PMT7_MACFA_9541 and tr_A0A2K6DWJ7_A0A2K6DWJ7_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G7PMT7_G7PMT7_MACFA_9541 and tr_A0A2K6AHX9_A0A2K6AHX9_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G7PWJ8_G7PWJ8_MACFA_9541 and tr_A0A096N419_A0A096N419_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_A0A151N1S7_A0A151N1S7_ALLMI_8496 and tr_A0A1U7SQ16_A0A1U7SQ16_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A091JMD6_A0A091JMD6_EGRGA_188379 and tr_A0A091WDY5_A0A091WDY5_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_A0A091KDP1_A0A091KDP1_EGRGA_188379 and tr_A0A093QJW3_A0A093QJW3_9PASS_328815 are exactly identical!
WARNING: Sequences tr_A0A091KDP1_A0A091KDP1_EGRGA_188379 and tr_A0A091W6Z4_A0A091W6Z4_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_A0A091KDP1_A0A091KDP1_EGRGA_188379 and tr_A0A093HQN2_A0A093HQN2_STRCA_441894 are exactly identical!
WARNING: Sequences tr_A0A091KDP1_A0A091KDP1_EGRGA_188379 and tr_A0A091VH19_A0A091VH19_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_A0A091KDP1_A0A091KDP1_EGRGA_188379 and tr_A0A091G372_A0A091G372_9AVES_55661 are exactly identical!
WARNING: Sequences tr_A0A091KDP1_A0A091KDP1_EGRGA_188379 and tr_A0A0A0ALB4_A0A0A0ALB4_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_A0A091KDP1_A0A091KDP1_EGRGA_188379 and tr_A0A093GXA7_A0A093GXA7_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_A0A2I0M7W8_A0A2I0M7W8_COLLI_8932 and tr_A0A1V4K0N6_A0A1V4K0N6_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A2I0MS48_A0A2I0MS48_COLLI_8932 and tr_A0A1V4J3F9_A0A1V4J3F9_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A226NDA9_A0A226NDA9_CALSU_9009 and tr_A0A226PQA9_A0A226PQA9_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A226NP91_A0A226NP91_CALSU_9009 and tr_A0A226PVT6_A0A226PVT6_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2D0Q595_A0A2D0Q595_ICTPU_7998 and tr_A0A2D0Q7X5_A0A2D0Q7X5_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2D0T4A7_A0A2D0T4A7_ICTPU_7998 and tr_A0A2D0T554_A0A2D0T554_ICTPU_7998 are exactly identical!
WARNING: Sequences tr_A0A2U3V5G1_A0A2U3V5G1_TURTR_9739 and tr_A0A2Y9P9V4_A0A2Y9P9V4_DELLE_9749 are exactly identical!
WARNING: Duplicate sequences found: 50

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/3_mltree/Q9NRB3.raxml.reduced.phy

Alignment comprises 1 partitions and 284 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 284 / 284
Gaps: 7.45 %
Invariant sites: 0.35 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/3_mltree/Q9NRB3.raxml.rba

Parallelization scheme autoconfig: 6 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 827 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 284 / 22720
[00:00:00] Data distribution: max. searches per worker: 4

Starting ML tree search with 20 distinct starting trees

[00:00:00 -413391.280840] Initial branch length optimization
[00:00:06 -339137.701049] Model parameter optimization (eps = 10.000000)
[00:00:58 -338696.540709] AUTODETECT spr round 1 (radius: 5)
[00:03:53 -216777.138543] AUTODETECT spr round 2 (radius: 10)
[00:07:04 -162749.724469] AUTODETECT spr round 3 (radius: 15)
[00:10:33 -129988.487100] AUTODETECT spr round 4 (radius: 20)
[00:13:56 -115728.243860] AUTODETECT spr round 5 (radius: 25)
[00:17:52 -112977.904832] SPR radius for FAST iterations: 25 (autodetect)
[00:17:52 -112977.904832] Model parameter optimization (eps = 3.000000)
[00:18:24 -112910.969145] FAST spr round 1 (radius: 25)
[00:21:49 -98764.443712] FAST spr round 2 (radius: 25)
[00:24:21 -97699.692082] FAST spr round 3 (radius: 25)
[00:26:26 -97652.172871] FAST spr round 4 (radius: 25)
[00:28:16 -97646.639668] FAST spr round 5 (radius: 25)
[00:30:00 -97646.639079] Model parameter optimization (eps = 1.000000)
[00:30:18 -97637.215870] SLOW spr round 1 (radius: 5)
[00:32:55 -97615.898864] SLOW spr round 2 (radius: 5)
[00:35:28 -97614.182227] SLOW spr round 3 (radius: 5)
[00:37:55 -97614.179762] SLOW spr round 4 (radius: 10)
[00:40:21 -97610.722081] SLOW spr round 5 (radius: 5)
[00:43:29 -97609.618455] SLOW spr round 6 (radius: 5)
[00:46:13 -97609.618087] SLOW spr round 7 (radius: 10)
[00:48:46 -97609.617958] SLOW spr round 8 (radius: 15)
[00:53:05 -97602.051291] SLOW spr round 9 (radius: 5)
[00:56:28 -97599.448004] SLOW spr round 10 (radius: 5)
[00:59:20 -97598.929791] SLOW spr round 11 (radius: 5)
[01:02:00 -97598.821181] SLOW spr round 12 (radius: 5)
[01:03:37] [worker #3] ML tree search #4, logLikelihood: -97585.709216
[01:04:29 -97598.821065] SLOW spr round 13 (radius: 10)
[01:06:54 -97598.820958] SLOW spr round 14 (radius: 15)
[01:09:49] [worker #5] ML tree search #6, logLikelihood: -97589.272312
[01:11:12 -97598.820850] SLOW spr round 15 (radius: 20)
[01:12:11] [worker #1] ML tree search #2, logLikelihood: -97599.239947
[01:17:46 -97598.820741] SLOW spr round 16 (radius: 25)
[01:21:27] [worker #4] ML tree search #5, logLikelihood: -97592.908467
[01:25:32] [worker #2] ML tree search #3, logLikelihood: -97594.468940
[01:26:05 -97598.820632] Model parameter optimization (eps = 0.100000)

[01:26:25] [worker #0] ML tree search #1, logLikelihood: -97596.678809

[01:26:25 -409494.160277] Initial branch length optimization
[01:26:31 -338769.824107] Model parameter optimization (eps = 10.000000)
[01:27:17 -338294.022854] AUTODETECT spr round 1 (radius: 5)
[01:30:12 -213751.467393] AUTODETECT spr round 2 (radius: 10)
[01:33:23 -153378.455359] AUTODETECT spr round 3 (radius: 15)
[01:36:33 -122715.649505] AUTODETECT spr round 4 (radius: 20)
[01:39:56 -115899.058484] AUTODETECT spr round 5 (radius: 25)
[01:43:45 -113327.257395] SPR radius for FAST iterations: 25 (autodetect)
[01:43:45 -113327.257395] Model parameter optimization (eps = 3.000000)
[01:44:10 -113285.538386] FAST spr round 1 (radius: 25)
[01:47:33 -98733.409238] FAST spr round 2 (radius: 25)
[01:50:11 -97726.722932] FAST spr round 3 (radius: 25)
[01:52:23 -97670.633358] FAST spr round 4 (radius: 25)
[01:54:15 -97652.090100] FAST spr round 5 (radius: 25)
[01:55:59 -97652.089823] Model parameter optimization (eps = 1.000000)
[01:56:17 -97636.485219] SLOW spr round 1 (radius: 5)
[01:58:55 -97620.267570] SLOW spr round 2 (radius: 5)
[02:01:25 -97616.018462] SLOW spr round 3 (radius: 5)
[02:03:49 -97616.018327] SLOW spr round 4 (radius: 10)
[02:06:13 -97616.018223] SLOW spr round 5 (radius: 15)
[02:07:15] [worker #3] ML tree search #10, logLikelihood: -97615.062560
[02:10:44 -97613.063775] SLOW spr round 6 (radius: 5)
[02:14:08 -97611.473783] SLOW spr round 7 (radius: 5)
[02:17:03 -97609.741950] SLOW spr round 8 (radius: 5)
[02:19:39 -97609.741556] SLOW spr round 9 (radius: 10)
[02:22:07 -97609.741416] SLOW spr round 10 (radius: 15)
[02:23:26] [worker #1] ML tree search #8, logLikelihood: -97603.709242
[02:25:29] [worker #5] ML tree search #12, logLikelihood: -97580.396443
[02:26:28 -97609.741297] SLOW spr round 11 (radius: 20)
[02:33:35 -97609.741178] SLOW spr round 12 (radius: 25)
[02:38:37] [worker #4] ML tree search #11, logLikelihood: -97606.025945
[02:41:02] [worker #2] ML tree search #9, logLikelihood: -97615.352873
[02:42:24 -97609.741059] Model parameter optimization (eps = 0.100000)

[02:42:38] [worker #0] ML tree search #7, logLikelihood: -97608.932487

[02:42:38 -412214.874076] Initial branch length optimization
[02:42:44 -339145.951622] Model parameter optimization (eps = 10.000000)
[02:43:32 -338609.253134] AUTODETECT spr round 1 (radius: 5)
[02:46:27 -212674.625083] AUTODETECT spr round 2 (radius: 10)
[02:49:39 -154475.523632] AUTODETECT spr round 3 (radius: 15)
[02:52:46 -133429.342495] AUTODETECT spr round 4 (radius: 20)
[02:56:26 -122544.015008] AUTODETECT spr round 5 (radius: 25)
[03:00:40 -116227.130548] SPR radius for FAST iterations: 25 (autodetect)
[03:00:40 -116227.130548] Model parameter optimization (eps = 3.000000)
[03:01:10 -116151.162134] FAST spr round 1 (radius: 25)
[03:04:46 -98776.047657] FAST spr round 2 (radius: 25)
[03:07:21 -97757.948322] FAST spr round 3 (radius: 25)
[03:09:33 -97654.916021] FAST spr round 4 (radius: 25)
[03:11:33 -97640.402967] FAST spr round 5 (radius: 25)
[03:13:25 -97637.292137] FAST spr round 6 (radius: 25)
[03:15:12 -97635.851774] FAST spr round 7 (radius: 25)
[03:16:57 -97635.851585] Model parameter optimization (eps = 1.000000)
[03:17:16 -97623.874467] SLOW spr round 1 (radius: 5)
[03:19:58 -97598.829797] SLOW spr round 2 (radius: 5)
[03:22:35 -97595.919394] SLOW spr round 3 (radius: 5)
[03:25:04 -97594.097833] SLOW spr round 4 (radius: 5)
[03:27:29 -97594.097082] SLOW spr round 5 (radius: 10)
[03:28:40] [worker #5] ML tree search #18, logLikelihood: -97596.370188
[03:29:57 -97590.383568] SLOW spr round 6 (radius: 5)
[03:33:09 -97588.561652] SLOW spr round 7 (radius: 5)
[03:35:56 -97588.505059] SLOW spr round 8 (radius: 10)
[03:38:28 -97588.502579] SLOW spr round 9 (radius: 15)
[03:42:43 -97588.501735] SLOW spr round 10 (radius: 20)
[03:42:46] [worker #4] ML tree search #17, logLikelihood: -97600.958718
[03:43:28] [worker #1] ML tree search #14, logLikelihood: -97581.019642
[03:49:44 -97588.501444] SLOW spr round 11 (radius: 25)
[03:51:32] [worker #2] ML tree search #15, logLikelihood: -97619.270198
[03:58:02 -97588.501342] Model parameter optimization (eps = 0.100000)

[03:58:15] [worker #0] ML tree search #13, logLikelihood: -97588.321634

[03:58:16 -410206.723924] Initial branch length optimization
[03:58:21 -337107.845262] Model parameter optimization (eps = 10.000000)
[03:59:09 -336535.067648] AUTODETECT spr round 1 (radius: 5)
[04:02:04 -207454.963553] AUTODETECT spr round 2 (radius: 10)
[04:03:54] [worker #3] ML tree search #16, logLikelihood: -97589.837254
[04:05:04 -152055.003558] AUTODETECT spr round 3 (radius: 15)
[04:08:18 -130992.789549] AUTODETECT spr round 4 (radius: 20)
[04:12:39 -116673.619358] AUTODETECT spr round 5 (radius: 25)
[04:18:11 -111335.253158] SPR radius for FAST iterations: 25 (autodetect)
[04:18:11 -111335.253158] Model parameter optimization (eps = 3.000000)
[04:18:36 -111256.579272] FAST spr round 1 (radius: 25)
[04:22:02 -98294.901936] FAST spr round 2 (radius: 25)
[04:24:37 -97763.282333] FAST spr round 3 (radius: 25)
[04:26:49 -97637.518637] FAST spr round 4 (radius: 25)
[04:28:38 -97632.970385] FAST spr round 5 (radius: 25)
[04:30:21 -97632.970168] Model parameter optimization (eps = 1.000000)
[04:30:37 -97623.317089] SLOW spr round 1 (radius: 5)
[04:33:13 -97598.027598] SLOW spr round 2 (radius: 5)
[04:35:46 -97597.100176] SLOW spr round 3 (radius: 5)
[04:38:12 -97597.099888] SLOW spr round 4 (radius: 10)
[04:40:37 -97597.099818] SLOW spr round 5 (radius: 15)
[04:42:23] [worker #1] ML tree search #20, logLikelihood: -97643.261402
[04:45:04 -97597.099809] SLOW spr round 6 (radius: 20)
[04:51:48 -97597.099799] SLOW spr round 7 (radius: 25)
[05:00:16 -97597.099790] Model parameter optimization (eps = 0.100000)

[05:00:26] [worker #0] ML tree search #19, logLikelihood: -97596.982578


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.114844,0.259049) (0.202417,0.467484) (0.305626,0.773410) (0.377113,1.695111) 
   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: -97580.396443

AIC score: 198474.792887 / AICc score: 5693086.792887 / BIC score: 204521.143200
Free parameters (model + branch lengths): 1657

WARNING: Number of free parameters (K=1657) is larger than alignment size (n=284).
         This might lead to overfitting and compromise tree inference results!


WARNING: Best ML tree contains 130 near-zero branches!

Best ML tree with collapsed near-zero branches saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/3_mltree/Q9NRB3.raxml.bestTreeCollapsed
Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/3_mltree/Q9NRB3.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/3_mltree/Q9NRB3.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/3_mltree/Q9NRB3.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q9NRB3/3_mltree/Q9NRB3.raxml.log

Analysis started: 13-Jul-2021 22:48:52 / finished: 14-Jul-2021 03:49:18

Elapsed time: 18026.482 seconds