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 10-Jul-2021 02:31:44 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD0/2_msa/P0DJD0_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD0/3_mltree/P0DJD0 --seed 2 --threads 3 --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 (3 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD0/2_msa/P0DJD0_trimmed_msa.fasta
[00:00:00] Loaded alignment with 984 taxa and 157 sites

WARNING: Sequences tr_A0A1L1RKB2_A0A1L1RKB2_CHICK_9031 and tr_A0A1L1RKT1_A0A1L1RKT1_CHICK_9031 are exactly identical!
WARNING: Sequences tr_Q5ZJ38_Q5ZJ38_CHICK_9031 and tr_A0A226N8Z5_A0A226N8Z5_CALSU_9009 are exactly identical!
WARNING: Sequences tr_Q5ZJ38_Q5ZJ38_CHICK_9031 and tr_A0A226PYA8_A0A226PYA8_COLVI_9014 are exactly identical!
WARNING: Sequences sp_Q9ERU9_RBP2_MOUSE_10090 and tr_M0R3M4_M0R3M4_RAT_10116 are exactly identical!
WARNING: Sequences sp_Q9ERU9_RBP2_MOUSE_10090 and tr_A0A1U7QQF5_A0A1U7QQF5_MESAU_10036 are exactly identical!
WARNING: Sequences tr_M3XYE2_M3XYE2_MUSPF_9669 and tr_A0A1U7QNG0_A0A1U7QNG0_MESAU_10036 are exactly identical!
WARNING: Sequences tr_M3XYE2_M3XYE2_MUSPF_9669 and tr_A0A2U3WZ47_A0A2U3WZ47_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3XYE2_M3XYE2_MUSPF_9669 and tr_A0A2Y9IS42_A0A2Y9IS42_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3YH78_M3YH78_MUSPF_9669 and tr_A0A2Y9KKM3_A0A2Y9KKM3_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3Z4V0_M3Z4V0_MUSPF_9669 and tr_M3Z5V4_M3Z5V4_MUSPF_9669 are exactly identical!
WARNING: Sequences tr_B6HKG0_B6HKG0_PENRW_500485 and tr_A0A1V6S7X0_A0A1V6S7X0_9EURO_29845 are exactly identical!
WARNING: Sequences tr_E3S994_E3S994_PYRTT_861557 and tr_B2WJ58_B2WJ58_PYRTR_426418 are exactly identical!
WARNING: Sequences tr_E3S994_E3S994_PYRTT_861557 and tr_A0A2W1D5I8_A0A2W1D5I8_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2I3SUC0_A0A2I3SUC0_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A1D5RHC9_A0A1D5RHC9_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2I3M5Z7_A0A2I3M5Z7_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2K5M2D6_A0A2K5M2D6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2K6BKU9_A0A2K6BKU9_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2K5ZMS6_A0A2K5ZMS6_MANLE_9568 are exactly identical!
WARNING: Sequences tr_G1R119_G1R119_NOMLE_61853 and tr_A0A2R9CFI6_A0A2R9CFI6_PANPA_9597 are exactly identical!
WARNING: Sequences tr_A0A0E1RVV2_A0A0E1RVV2_COCIM_246410 and tr_E9D2I8_E9D2I8_COCPS_443226 are exactly identical!
WARNING: Sequences tr_A0A0E1RVV2_A0A0E1RVV2_COCIM_246410 and tr_A0A0J7BF99_A0A0J7BF99_COCIT_404692 are exactly identical!
WARNING: Sequences tr_B6Q9R4_B6Q9R4_TALMQ_441960 and tr_A0A093XM08_A0A093XM08_TALMA_1077442 are exactly identical!
WARNING: Sequences tr_A7F1H4_A7F1H4_SCLS1_665079 and tr_G2XNM3_G2XNM3_BOTF4_999810 are exactly identical!
WARNING: Sequences tr_A7F1H4_A7F1H4_SCLS1_665079 and tr_M7TPS9_M7TPS9_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_A0A2J8RBQ5_A0A2J8RBQ5_PONAB_9601 and sp_P43487_RANG_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2J8RBQ5_A0A2J8RBQ5_PONAB_9601 and tr_A0A0D9RHX8_A0A0D9RHX8_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_K7EUP2_K7EUP2_PONAB_9601 and tr_A0A226M7X8_A0A226M7X8_CALSU_9009 are exactly identical!
WARNING: Sequences tr_U9W553_U9W553_NEUCR_367110 and tr_G4UP01_G4UP01_NEUT9_510952 are exactly identical!
WARNING: Sequences tr_A0A179UWG1_A0A179UWG1_BLAGS_559298 and tr_C5GLI9_C5GLI9_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_A0A2I3SUV5_A0A2I3SUV5_PANTR_9598 and sp_O14715_RGPD8_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I3SUV5_A0A2I3SUV5_PANTR_9598 and sp_P0DJD1_RGPD2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_A0A2I3SUV5_A0A2I3SUV5_PANTR_9598 and sp_Q99666_RGPD5_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_H2QII6_RBP2_PANTR_9598 and sp_P49792_RBP2_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_H2QII6_RBP2_PANTR_9598 and tr_F7HI99_F7HI99_MACMU_9544 are exactly identical!
WARNING: Sequences sp_H2QII6_RBP2_PANTR_9598 and tr_G7PMX2_G7PMX2_MACFA_9541 are exactly identical!
WARNING: Sequences sp_H2QII6_RBP2_PANTR_9598 and tr_A0A096NUB9_A0A096NUB9_PAPAN_9555 are exactly identical!
WARNING: Sequences sp_H2QII6_RBP2_PANTR_9598 and tr_A0A2K5LWX7_A0A2K5LWX7_CERAT_9531 are exactly identical!
WARNING: Sequences sp_H2QII6_RBP2_PANTR_9598 and tr_A0A2K6E1L3_A0A2K6E1L3_MACNE_9545 are exactly identical!
WARNING: Sequences tr_F6QVG6_F6QVG6_ORNAN_9258 and tr_A0A226M7J7_A0A226M7J7_CALSU_9009 are exactly identical!
WARNING: Sequences tr_F6QVG6_F6QVG6_ORNAN_9258 and tr_A0A226M7N5_A0A226M7N5_CALSU_9009 are exactly identical!
WARNING: Sequences tr_F6QVG6_F6QVG6_ORNAN_9258 and tr_A0A226M8F7_A0A226M8F7_CALSU_9009 are exactly identical!
WARNING: Sequences tr_F6QVG6_F6QVG6_ORNAN_9258 and tr_A0A226MJC5_A0A226MJC5_CALSU_9009 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A091J8B6_A0A091J8B6_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A093S9F4_A0A093S9F4_9PASS_328815 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A091WWB1_A0A091WWB1_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A087QVZ1_A0A087QVZ1_APTFO_9233 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A093JAL8_A0A093JAL8_STRCA_441894 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A099Z370_A0A099Z370_TINGU_94827 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A091FXW6_A0A091FXW6_9AVES_55661 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A0A0AFB4_A0A0A0AFB4_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A093G9U1_A0A093G9U1_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_F7C593_F7C593_ORNAN_9258 and tr_A0A091IT59_A0A091IT59_CALAN_9244 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_W7MJJ1_W7MJJ1_GIBM7_334819 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A0D2Y5H4_A0A0D2Y5H4_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_S0EIG4_S0EIG4_GIBF5_1279085 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_N4UH46_N4UH46_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_X0D6D7_X0D6D7_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A0N0V7E0_A0A0N0V7E0_FUSLA_179993 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_I1RJS5_I1RJS5_GIBZE_229533 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A1B8AY57_A0A1B8AY57_FUSPO_36050 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A2H3TM85_A0A2H3TM85_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A2K0WMJ1_A0A2K0WMJ1_GIBNY_42673 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A2T4GY00_A0A2T4GY00_FUSCU_5516 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A2L2TI67_A0A2L2TI67_9HYPO_56646 are exactly identical!
WARNING: Sequences tr_F9G4U0_F9G4U0_FUSOF_660025 and tr_A0A365NHL3_A0A365NHL3_GIBIN_948311 are exactly identical!
WARNING: Sequences tr_E9ER24_E9ER24_METRA_655844 and tr_A0A0B4HQA4_A0A0B4HQA4_METMF_1276143 are exactly identical!
WARNING: Sequences tr_E9ER24_E9ER24_METRA_655844 and tr_A0A0D9PGX9_A0A0D9PGX9_METAN_1291518 are exactly identical!
WARNING: Sequences tr_E9ER24_E9ER24_METRA_655844 and tr_A0A179FMC0_A0A179FMC0_METCM_1380566 are exactly identical!
WARNING: Sequences tr_E9DVJ3_E9DVJ3_METAQ_655827 and tr_A0A162JEF0_A0A162JEF0_9HYPO_1081105 are exactly identical!
WARNING: Sequences tr_J5JQ07_J5JQ07_BEAB2_655819 and tr_A0A0A2VVF9_A0A0A2VVF9_BEABA_1245745 are exactly identical!
WARNING: Sequences tr_J5JQ07_J5JQ07_BEAB2_655819 and tr_A0A2N6NCC0_A0A2N6NCC0_BEABA_176275 are exactly identical!
WARNING: Sequences sp_A6NKT7_RGPD3_HUMAN_9606 and sp_Q7Z3J3_RGPD4_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_Q2U689_Q2U689_ASPOR_510516 and tr_A0A0F0IRN8_A0A0F0IRN8_ASPPU_1403190 are exactly identical!
WARNING: Sequences tr_Q2U689_Q2U689_ASPOR_510516 and tr_A0A1S9D8K8_A0A1S9D8K8_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_Q2U689_Q2U689_ASPOR_510516 and tr_A0A2G7G9J1_A0A2G7G9J1_9EURO_656916 are exactly identical!
WARNING: Sequences tr_A2RA71_A2RA71_ASPNC_425011 and tr_G3YDM7_G3YDM7_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2RA71_A2RA71_ASPNC_425011 and tr_A0A319AKT8_A0A319AKT8_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_F6UF21_F6UF21_MACMU_9544 and tr_G7PMX0_G7PMX0_MACFA_9541 are exactly identical!
WARNING: Sequences tr_F6UF21_F6UF21_MACMU_9544 and tr_A0A096NCD4_A0A096NCD4_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_F6UF21_F6UF21_MACMU_9544 and tr_A0A2K5LL98_A0A2K5LL98_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G7X9P7_G7X9P7_ASPKW_1033177 and tr_A0A124BYP4_A0A124BYP4_ASPNG_5061 are exactly identical!
WARNING: Sequences tr_G7X9P7_G7X9P7_ASPKW_1033177 and tr_A0A146F6N6_A0A146F6N6_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_G7X9P7_G7X9P7_ASPKW_1033177 and tr_A0A1L9NLP6_A0A1L9NLP6_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_G7X9P7_G7X9P7_ASPKW_1033177 and tr_A0A317VME7_A0A317VME7_9EURO_1448314 are exactly identical!
WARNING: Sequences tr_H1VJV1_H1VJV1_COLHI_759273 and tr_E3Q2J2_E3Q2J2_COLGM_645133 are exactly identical!
WARNING: Sequences tr_H1VJV1_H1VJV1_COLHI_759273 and tr_A0A066XPR0_A0A066XPR0_COLSU_1173701 are exactly identical!
WARNING: Sequences tr_F4P0Q8_F4P0Q8_BATDJ_684364 and tr_A0A177WD68_A0A177WD68_BATDE_403673 are exactly identical!
WARNING: Sequences tr_F9X2P5_F9X2P5_ZYMTI_336722 and tr_A0A1X7RIY2_A0A1X7RIY2_ZYMTR_1276538 are exactly identical!
WARNING: Sequences tr_F2SV24_F2SV24_TRIRC_559305 and tr_D4AJE7_D4AJE7_ARTBC_663331 are exactly identical!
WARNING: Sequences tr_F2SV24_F2SV24_TRIRC_559305 and tr_F2PUN2_F2PUN2_TRIEC_559882 are exactly identical!
WARNING: Sequences tr_F2SV24_F2SV24_TRIRC_559305 and tr_A0A059IZ14_A0A059IZ14_9EURO_1215338 are exactly identical!
WARNING: Sequences tr_L0PE37_L0PE37_PNEJ8_1209962 and tr_A0A0W4ZW58_A0A0W4ZW58_PNEJ7_1408657 are exactly identical!
WARNING: Sequences tr_L2FVY3_L2FVY3_COLFN_1213859 and tr_N4VZJ2_N4VZJ2_COLOR_1213857 are exactly identical!
WARNING: Sequences tr_L2FVY3_L2FVY3_COLFN_1213859 and tr_T0L5C0_T0L5C0_COLGC_1237896 are exactly identical!
WARNING: Sequences tr_M3WXW5_M3WXW5_FELCA_9685 and tr_A0A2R9CLK1_A0A2R9CLK1_PANPA_9597 are exactly identical!
WARNING: Sequences tr_S2J756_S2J756_MUCC1_1220926 and tr_A0A0C9MCF7_A0A0C9MCF7_9FUNG_91626 are exactly identical!
WARNING: Sequences tr_S2J756_S2J756_MUCC1_1220926 and tr_A0A168IAV0_A0A168IAV0_MUCCL_747725 are exactly identical!
WARNING: Sequences tr_U5H9P1_U5H9P1_USTV1_683840 and tr_A0A2X0LRN9_A0A2X0LRN9_9BASI_796604 are exactly identical!
WARNING: Sequences tr_V2XXC0_V2XXC0_MONRO_1381753 and tr_A0A0W0F8R5_A0A0W0F8R5_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_A0A015IGS6_A0A015IGS6_9GLOM_1432141 and tr_A0A2I1GWR0_A0A2I1GWR0_9GLOM_588596 are exactly identical!
WARNING: Sequences tr_A0A015IGS6_A0A015IGS6_9GLOM_1432141 and tr_A0A2H5RM43_A0A2H5RM43_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A044U0Y3_A0A044U0Y3_ONCVO_6282 and tr_A0A182EA56_A0A182EA56_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A084QDC9_A0A084QDC9_STAC4_1283841 and tr_A0A084RLD0_A0A084RLD0_STACH_1283842 are exactly identical!
WARNING: Sequences tr_A0A094HA21_A0A094HA21_9PEZI_1420912 and tr_A0A1B8GWB9_A0A1B8GWB9_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A0A2IZG4_A0A0A2IZG4_PENEN_27334 and tr_A0A0G4PHI6_A0A0G4PHI6_PENCA_1429867 are exactly identical!
WARNING: Sequences tr_A0A0A2IZG4_A0A0A2IZG4_PENEN_27334 and tr_A0A1V6R3E8_A0A1V6R3E8_9EURO_60172 are exactly identical!
WARNING: Sequences tr_A0A151NXH0_A0A151NXH0_ALLMI_8496 and tr_A0A3Q0HBC4_A0A3Q0HBC4_ALLSI_38654 are exactly identical!
WARNING: Sequences tr_A0A091ENL0_A0A091ENL0_CORBR_85066 and tr_A0A091J834_A0A091J834_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_A0A091ENL0_A0A091ENL0_CORBR_85066 and tr_A0A093H2T5_A0A093H2T5_STRCA_441894 are exactly identical!
WARNING: Sequences tr_A0A091ENL0_A0A091ENL0_CORBR_85066 and tr_A0A091VYG8_A0A091VYG8_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_A0A091ENL0_A0A091ENL0_CORBR_85066 and tr_A0A091FTL8_A0A091FTL8_9AVES_55661 are exactly identical!
WARNING: Sequences tr_A0A091ENL0_A0A091ENL0_CORBR_85066 and tr_A0A091IGM9_A0A091IGM9_CALAN_9244 are exactly identical!
WARNING: Sequences tr_A0A091VQF2_A0A091VQF2_NIPNI_128390 and tr_A0A087QSM3_A0A087QSM3_APTFO_9233 are exactly identical!
WARNING: Sequences tr_A0A091VQI4_A0A091VQI4_NIPNI_128390 and tr_A0A091FTV3_A0A091FTV3_9AVES_55661 are exactly identical!
WARNING: Sequences tr_W6YPC5_W6YPC5_COCCA_930089 and tr_W6ZGZ6_W6ZGZ6_COCMI_930090 are exactly identical!
WARNING: Sequences tr_A0A0V1CIE8_A0A0V1CIE8_TRIBR_45882 and tr_A0A0V0VRB3_A0A0V0VRB3_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1CIE8_A0A0V1CIE8_TRIBR_45882 and tr_A0A0V1P6X9_A0A0V1P6X9_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1CIE8_A0A0V1CIE8_TRIBR_45882 and tr_A0A0V0TGR9_A0A0V0TGR9_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A135UHP9_A0A135UHP9_9PEZI_1209931 and tr_A0A1G4AZB4_A0A1G4AZB4_9PEZI_1209926 are exactly identical!
WARNING: Sequences tr_A0A166TWQ8_A0A166TWQ8_9PEZI_708197 and tr_A0A167BZL6_A0A167BZL6_9PEZI_1573173 are exactly identical!
WARNING: Sequences tr_A0A162ZY68_A0A162ZY68_DIDRA_5454 and tr_A0A1Y2M6Z3_A0A1Y2M6Z3_EPING_105696 are exactly identical!
WARNING: Sequences tr_A0A1S4BYR1_A0A1S4BYR1_TOBAC_4097 and tr_A0A1U7XSD8_A0A1U7XSD8_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3NYT1_A0A1S3NYT1_SALSA_8030 and tr_A0A1S3NYW4_A0A1S3NYW4_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A1S3NYY3_A0A1S3NYY3_SALSA_8030 and tr_A0A1S3NZ19_A0A1S3NZ19_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A1R3R6L2_A0A1R3R6L2_ASPC5_602072 and tr_A0A317XDR2_A0A317XDR2_9EURO_1450535 are exactly identical!
WARNING: Sequences tr_A0A1Q3DWP1_A0A1Q3DWP1_LENED_5353 and tr_A0A1Q3DXF6_A0A1Q3DXF6_LENED_5353 are exactly identical!
WARNING: Sequences tr_A0A1V8U106_A0A1V8U106_9PEZI_1974281 and tr_A0A1V8SEE1_A0A1V8SEE1_9PEZI_1507870 are exactly identical!
WARNING: Sequences tr_A0A1V8U106_A0A1V8U106_9PEZI_1974281 and tr_A0A1V8TGD1_A0A1V8TGD1_9PEZI_1507870 are exactly identical!
WARNING: Sequences tr_A0A2H3F7X4_A0A2H3F7X4_9HELO_946125 and tr_A0A218ZHJ1_A0A218ZHJ1_9HELO_503106 are exactly identical!
WARNING: Sequences tr_A0A1U8E398_A0A1U8E398_CAPAN_4072 and tr_A0A2G3BSF8_A0A2G3BSF8_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2G5I3G4_A0A2G5I3G4_CERBT_122368 and tr_A0A2S6C6D3_A0A2S6C6D3_9PEZI_357750 are exactly identical!
WARNING: Sequences tr_A0A2S7NU48_A0A2S7NU48_9HELO_2070414 and tr_A0A2S7QU84_A0A2S7QU84_9HELO_2070412 are exactly identical!
WARNING: Sequences tr_A0A2U4B194_A0A2U4B194_TURTR_9739 and tr_A0A2Y9QBP6_A0A2Y9QBP6_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A2U4B194_A0A2U4B194_TURTR_9739 and tr_A0A2Y9S809_A0A2Y9S809_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_A0A2U3VT13_A0A2U3VT13_ODORO_9708 and tr_A0A2U3XBZ4_A0A2U3XBZ4_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_A0A2Y9LB10_A0A2Y9LB10_DELLE_9749 and tr_A0A2Y9SEE8_A0A2Y9SEE8_PHYCD_9755 are exactly identical!
WARNING: Duplicate sequences found: 137

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/P0DJD0/3_mltree/P0DJD0.raxml.reduced.phy

Alignment comprises 1 partitions and 157 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 157 / 157
Gaps: 9.00 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD0/3_mltree/P0DJD0.raxml.rba

Parallelization scheme autoconfig: 3 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 984 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 157 / 12560
[00:00:00] Data distribution: max. searches per worker: 7

Starting ML tree search with 20 distinct starting trees

[00:00:00 -208998.125873] Initial branch length optimization
[00:00:04 -169554.790309] Model parameter optimization (eps = 10.000000)
[00:01:03 -169051.834575] AUTODETECT spr round 1 (radius: 5)
[00:03:29 -119886.045324] AUTODETECT spr round 2 (radius: 10)
[00:06:03 -90493.364797] AUTODETECT spr round 3 (radius: 15)
[00:08:53 -76278.475017] AUTODETECT spr round 4 (radius: 20)
[00:12:03 -68394.608079] AUTODETECT spr round 5 (radius: 25)
[00:15:36 -65307.806471] SPR radius for FAST iterations: 25 (autodetect)
[00:15:36 -65307.806471] Model parameter optimization (eps = 3.000000)
[00:15:56 -65275.371584] FAST spr round 1 (radius: 25)
[00:19:04 -54264.429129] FAST spr round 2 (radius: 25)
[00:21:27 -52669.341025] FAST spr round 3 (radius: 25)
[00:23:26 -52379.809760] FAST spr round 4 (radius: 25)
[00:25:16 -52355.073043] FAST spr round 5 (radius: 25)
[00:27:03 -52355.061266] Model parameter optimization (eps = 1.000000)
[00:27:16 -52352.999933] SLOW spr round 1 (radius: 5)
[00:29:19 -52342.830891] SLOW spr round 2 (radius: 5)
[00:31:25 -52338.943362] SLOW spr round 3 (radius: 5)
[00:33:30 -52338.942588] SLOW spr round 4 (radius: 10)
[00:35:39 -52338.942393] SLOW spr round 5 (radius: 15)
[00:38:51 -52336.638664] SLOW spr round 6 (radius: 5)
[00:41:40 -52336.623437] SLOW spr round 7 (radius: 10)
[00:44:06 -52336.619646] SLOW spr round 8 (radius: 15)
[00:47:03 -52336.618281] SLOW spr round 9 (radius: 20)
[00:51:14 -52336.141376] SLOW spr round 10 (radius: 5)
[00:54:02 -52336.141293] SLOW spr round 11 (radius: 10)
[00:56:29 -52336.141282] SLOW spr round 12 (radius: 15)
[00:59:25 -52336.141272] SLOW spr round 13 (radius: 20)
[01:03:41 -52336.092854] SLOW spr round 14 (radius: 25)
[01:08:48 -52336.092704] Model parameter optimization (eps = 0.100000)

[01:08:59] [worker #0] ML tree search #1, logLikelihood: -52335.982924

[01:09:00 -208594.695272] Initial branch length optimization
[01:09:04 -170371.873112] Model parameter optimization (eps = 10.000000)
[01:09:59 -169790.068091] AUTODETECT spr round 1 (radius: 5)
[01:12:26 -120706.925911] AUTODETECT spr round 2 (radius: 10)
[01:15:05 -92510.612651] AUTODETECT spr round 3 (radius: 15)
[01:15:20] [worker #1] ML tree search #2, logLikelihood: -52352.344833
[01:15:48] [worker #2] ML tree search #3, logLikelihood: -52344.981114
[01:18:01 -75890.370977] AUTODETECT spr round 4 (radius: 20)
[01:21:20 -69380.429769] AUTODETECT spr round 5 (radius: 25)
[01:24:55 -68483.680614] SPR radius for FAST iterations: 25 (autodetect)
[01:24:55 -68483.680614] Model parameter optimization (eps = 3.000000)
[01:25:23 -68462.712027] FAST spr round 1 (radius: 25)
[01:28:33 -61217.146544] FAST spr round 2 (radius: 25)
[01:31:00 -58703.252686] FAST spr round 3 (radius: 25)
[01:33:08 -54128.396828] FAST spr round 4 (radius: 25)
[01:35:14 -52607.529055] FAST spr round 5 (radius: 25)
[01:37:12 -52487.537403] FAST spr round 6 (radius: 25)
[01:39:02 -52459.279930] FAST spr round 7 (radius: 25)
[01:40:53 -52451.244189] FAST spr round 8 (radius: 25)
[01:42:37 -52449.445879] FAST spr round 9 (radius: 25)
[01:44:20 -52442.352645] FAST spr round 10 (radius: 25)
[01:46:01 -52440.884642] FAST spr round 11 (radius: 25)
[01:47:42 -52440.882118] Model parameter optimization (eps = 1.000000)
[01:47:58 -52430.503772] SLOW spr round 1 (radius: 5)
[01:50:01 -52412.760474] SLOW spr round 2 (radius: 5)
[01:52:08 -52411.159677] SLOW spr round 3 (radius: 5)
[01:54:13 -52411.158522] SLOW spr round 4 (radius: 10)
[01:56:24 -52392.225138] SLOW spr round 5 (radius: 5)
[01:59:07 -52389.431698] SLOW spr round 6 (radius: 5)
[02:01:30 -52389.431237] SLOW spr round 7 (radius: 10)
[02:03:44 -52389.430880] SLOW spr round 8 (radius: 15)
[02:06:49 -52388.564220] SLOW spr round 9 (radius: 5)
[02:09:36 -52388.553560] SLOW spr round 10 (radius: 10)
[02:12:01 -52388.553409] SLOW spr round 11 (radius: 15)
[02:14:59 -52388.553305] SLOW spr round 12 (radius: 20)
[02:19:15 -52388.553219] SLOW spr round 13 (radius: 25)
[02:19:52] [worker #1] ML tree search #5, logLikelihood: -52841.630328
[02:24:29 -52388.553146] Model parameter optimization (eps = 0.100000)

[02:24:38] [worker #0] ML tree search #4, logLikelihood: -52388.290073

[02:24:38 -210322.004887] Initial branch length optimization
[02:24:42 -170488.659373] Model parameter optimization (eps = 10.000000)
[02:25:38 -170025.308942] AUTODETECT spr round 1 (radius: 5)
[02:28:07 -123810.926157] AUTODETECT spr round 2 (radius: 10)
[02:30:48 -88567.291729] AUTODETECT spr round 3 (radius: 15)
[02:33:43 -69670.981167] AUTODETECT spr round 4 (radius: 20)
[02:36:56 -65122.114028] AUTODETECT spr round 5 (radius: 25)
[02:37:43] [worker #2] ML tree search #6, logLikelihood: -57108.266018
[02:40:42 -62841.754166] SPR radius for FAST iterations: 25 (autodetect)
[02:40:42 -62841.754166] Model parameter optimization (eps = 3.000000)
[02:41:02 -62806.946531] FAST spr round 1 (radius: 25)
[02:44:00 -55882.597671] FAST spr round 2 (radius: 25)
[02:46:24 -54975.358067] FAST spr round 3 (radius: 25)
[02:48:23 -54940.940717] FAST spr round 4 (radius: 25)
[02:50:14 -54931.216276] FAST spr round 5 (radius: 25)
[02:52:01 -54923.668517] FAST spr round 6 (radius: 25)
[02:53:45 -54920.320862] FAST spr round 7 (radius: 25)
[02:55:26 -54920.320751] Model parameter optimization (eps = 1.000000)
[02:55:40 -54918.864522] SLOW spr round 1 (radius: 5)
[02:57:45 -54895.642741] SLOW spr round 2 (radius: 5)
[02:59:53 -54894.247169] SLOW spr round 3 (radius: 5)
[03:02:01 -54891.259824] SLOW spr round 4 (radius: 5)
[03:04:05 -54891.258293] SLOW spr round 5 (radius: 10)
[03:06:15 -54889.441468] SLOW spr round 6 (radius: 5)
[03:08:55 -54889.394940] SLOW spr round 7 (radius: 10)
[03:11:18 -54888.617899] SLOW spr round 8 (radius: 5)
[03:13:54 -54888.035202] SLOW spr round 9 (radius: 5)
[03:16:12 -54888.035053] SLOW spr round 10 (radius: 10)
[03:18:25 -54888.034945] SLOW spr round 11 (radius: 15)
[03:21:40 -54884.581621] SLOW spr round 12 (radius: 5)
[03:24:28 -54881.711486] SLOW spr round 13 (radius: 5)
[03:24:30] [worker #1] ML tree search #8, logLikelihood: -52503.513641
[03:26:53 -54881.636619] SLOW spr round 14 (radius: 10)
[03:29:08 -54881.635132] SLOW spr round 15 (radius: 15)
[03:32:15 -54881.635043] SLOW spr round 16 (radius: 20)
[03:36:37 -54881.635002] SLOW spr round 17 (radius: 25)
[03:42:02 -54867.519564] SLOW spr round 18 (radius: 5)
[03:44:53 -54866.028119] SLOW spr round 19 (radius: 5)
[03:47:23 -54866.026757] SLOW spr round 20 (radius: 10)
[03:49:38 -54866.026735] SLOW spr round 21 (radius: 15)
[03:52:45 -54866.026718] SLOW spr round 22 (radius: 20)
[03:57:08 -54866.026701] SLOW spr round 23 (radius: 25)
[04:02:30 -54866.026685] Model parameter optimization (eps = 0.100000)

[04:02:42] [worker #0] ML tree search #7, logLikelihood: -54864.980122

[04:02:42 -209734.107808] Initial branch length optimization
[04:02:45 -170402.303090] Model parameter optimization (eps = 10.000000)
[04:03:43 -169858.637909] AUTODETECT spr round 1 (radius: 5)
[04:06:13 -120385.678145] AUTODETECT spr round 2 (radius: 10)
[04:07:53] [worker #2] ML tree search #9, logLikelihood: -58016.294816
[04:08:50 -87438.613733] AUTODETECT spr round 3 (radius: 15)
[04:11:43 -76361.000082] AUTODETECT spr round 4 (radius: 20)
[04:15:14 -65907.984290] AUTODETECT spr round 5 (radius: 25)
[04:18:40 -62873.256666] SPR radius for FAST iterations: 25 (autodetect)
[04:18:40 -62873.256666] Model parameter optimization (eps = 3.000000)
[04:19:07 -62808.787620] FAST spr round 1 (radius: 25)
[04:21:25] [worker #1] ML tree search #11, logLikelihood: -53491.659534
[04:21:58 -53633.716173] FAST spr round 2 (radius: 25)
[04:24:17 -52650.279299] FAST spr round 3 (radius: 25)
[04:26:22 -52395.105137] FAST spr round 4 (radius: 25)
[04:28:16 -52387.541158] FAST spr round 5 (radius: 25)
[04:30:00 -52386.742752] FAST spr round 6 (radius: 25)
[04:31:42 -52386.707107] Model parameter optimization (eps = 1.000000)
[04:31:53 -52385.634937] SLOW spr round 1 (radius: 5)
[04:33:58 -52372.589265] SLOW spr round 2 (radius: 5)
[04:36:05 -52364.947580] SLOW spr round 3 (radius: 5)
[04:38:08 -52364.831612] SLOW spr round 4 (radius: 5)
[04:40:11 -52364.830684] SLOW spr round 5 (radius: 10)
[04:42:20 -52361.941314] SLOW spr round 6 (radius: 5)
[04:44:59 -52361.887258] SLOW spr round 7 (radius: 10)
[04:47:21 -52360.661738] SLOW spr round 8 (radius: 5)
[04:49:56 -52360.661724] SLOW spr round 9 (radius: 10)
[04:52:14 -52360.661724] SLOW spr round 10 (radius: 15)
[04:55:15 -52360.661724] SLOW spr round 11 (radius: 20)
[04:59:29 -52360.661724] SLOW spr round 12 (radius: 25)
[05:04:37 -52360.661724] Model parameter optimization (eps = 0.100000)

[05:04:44] [worker #0] ML tree search #10, logLikelihood: -52360.656346

[05:04:44 -208589.337441] Initial branch length optimization
[05:04:48 -170060.131763] Model parameter optimization (eps = 10.000000)
[05:05:47 -169504.586950] AUTODETECT spr round 1 (radius: 5)
[05:08:14 -117530.666914] AUTODETECT spr round 2 (radius: 10)
[05:10:51 -88074.879447] AUTODETECT spr round 3 (radius: 15)
[05:13:50 -72932.412008] AUTODETECT spr round 4 (radius: 20)
[05:15:45] [worker #2] ML tree search #12, logLikelihood: -52701.478514
[05:17:07 -67983.814289] AUTODETECT spr round 5 (radius: 25)
[05:21:08 -63369.503859] SPR radius for FAST iterations: 25 (autodetect)
[05:21:08 -63369.503859] Model parameter optimization (eps = 3.000000)
[05:21:30 -63335.613908] FAST spr round 1 (radius: 25)
[05:24:36 -53730.600351] FAST spr round 2 (radius: 25)
[05:26:54 -53165.471622] FAST spr round 3 (radius: 25)
[05:28:55 -52528.415954] FAST spr round 4 (radius: 25)
[05:30:49 -52411.352736] FAST spr round 5 (radius: 25)
[05:32:37 -52405.300030] FAST spr round 6 (radius: 25)
[05:34:20 -52405.299045] Model parameter optimization (eps = 1.000000)
[05:34:30 -52404.459367] SLOW spr round 1 (radius: 5)
[05:36:36 -52390.973585] SLOW spr round 2 (radius: 5)
[05:38:45 -52383.060276] SLOW spr round 3 (radius: 5)
[05:40:53 -52376.805791] SLOW spr round 4 (radius: 5)
[05:42:57 -52376.536096] SLOW spr round 5 (radius: 5)
[05:45:00 -52376.535995] SLOW spr round 6 (radius: 10)
[05:47:11 -52376.535927] SLOW spr round 7 (radius: 15)
[05:50:20 -52367.166516] SLOW spr round 8 (radius: 5)
[05:53:09 -52366.391134] SLOW spr round 9 (radius: 5)
[05:55:37 -52366.203538] SLOW spr round 10 (radius: 5)
[05:57:51 -52366.202921] SLOW spr round 11 (radius: 10)
[06:00:03 -52366.202665] SLOW spr round 12 (radius: 15)
[06:03:08 -52366.202498] SLOW spr round 13 (radius: 20)
[06:06:51] [worker #1] ML tree search #14, logLikelihood: -52622.936256
[06:07:18 -52366.202385] SLOW spr round 14 (radius: 25)
[06:12:27 -52366.202308] Model parameter optimization (eps = 0.100000)

[06:12:34] [worker #0] ML tree search #13, logLikelihood: -52366.147490

[06:12:34 -208652.278666] Initial branch length optimization
[06:12:38 -170588.878430] Model parameter optimization (eps = 10.000000)
[06:13:20 -169985.882961] AUTODETECT spr round 1 (radius: 5)
[06:15:48 -121721.354305] AUTODETECT spr round 2 (radius: 10)
[06:18:27 -85493.701040] AUTODETECT spr round 3 (radius: 15)
[06:21:16 -73200.392155] AUTODETECT spr round 4 (radius: 20)
[06:24:32 -66710.583225] AUTODETECT spr round 5 (radius: 25)
[06:28:12 -65936.377028] SPR radius for FAST iterations: 25 (autodetect)
[06:28:12 -65936.377028] Model parameter optimization (eps = 3.000000)
[06:28:37 -65871.057920] FAST spr round 1 (radius: 25)
[06:31:46 -56461.234874] FAST spr round 2 (radius: 25)
[06:34:13 -53231.061565] FAST spr round 3 (radius: 25)
[06:34:54] [worker #2] ML tree search #15, logLikelihood: -52953.070778
[06:36:23 -52481.158943] FAST spr round 4 (radius: 25)
[06:38:20 -52399.988825] FAST spr round 5 (radius: 25)
[06:40:10 -52393.881015] FAST spr round 6 (radius: 25)
[06:41:54 -52392.741425] FAST spr round 7 (radius: 25)
[06:43:38 -52392.737248] Model parameter optimization (eps = 1.000000)
[06:43:53 -52387.360336] SLOW spr round 1 (radius: 5)
[06:45:58 -52376.603865] SLOW spr round 2 (radius: 5)
[06:48:04 -52376.295820] SLOW spr round 3 (radius: 5)
[06:50:10 -52376.295581] SLOW spr round 4 (radius: 10)
[06:52:19 -52376.295546] SLOW spr round 5 (radius: 15)
[06:55:25 -52361.650710] SLOW spr round 6 (radius: 5)
[06:58:13 -52361.603866] SLOW spr round 7 (radius: 10)
[07:00:38 -52361.602920] SLOW spr round 8 (radius: 15)
[07:03:34 -52361.602583] SLOW spr round 9 (radius: 20)
[07:07:34 -52361.602397] SLOW spr round 10 (radius: 25)
[07:12:22 -52361.163013] SLOW spr round 11 (radius: 5)
[07:15:15 -52360.719080] SLOW spr round 12 (radius: 5)
[07:17:44 -52360.717535] SLOW spr round 13 (radius: 10)
[07:20:00 -52360.716447] SLOW spr round 14 (radius: 15)
[07:22:59 -52360.318068] SLOW spr round 15 (radius: 5)
[07:25:45 -52360.316604] SLOW spr round 16 (radius: 10)
[07:28:10 -52359.749564] SLOW spr round 17 (radius: 5)
[07:30:45 -52359.749179] SLOW spr round 18 (radius: 10)
[07:32:31] [worker #1] ML tree search #17, logLikelihood: -52374.495542
[07:33:02 -52359.748920] SLOW spr round 19 (radius: 15)
[07:36:01 -52359.748713] SLOW spr round 20 (radius: 20)
[07:39:59 -52358.287418] SLOW spr round 21 (radius: 5)
[07:42:47 -52358.232780] SLOW spr round 22 (radius: 10)
[07:45:14 -52358.232622] SLOW spr round 23 (radius: 15)
[07:48:11 -52355.299459] SLOW spr round 24 (radius: 5)
[07:50:59 -52346.338108] SLOW spr round 25 (radius: 5)
[07:53:25 -52346.337954] SLOW spr round 26 (radius: 10)
[07:55:40 -52346.337834] SLOW spr round 27 (radius: 15)
[07:58:35] [worker #2] ML tree search #18, logLikelihood: -61452.084357
[07:58:40 -52346.337694] SLOW spr round 28 (radius: 20)
[08:02:39 -52346.337554] SLOW spr round 29 (radius: 25)
[08:07:26 -52346.337411] Model parameter optimization (eps = 0.100000)

[08:07:38] [worker #0] ML tree search #16, logLikelihood: -52344.218241

[08:07:38 -209302.447401] Initial branch length optimization
[08:07:42 -170120.749020] Model parameter optimization (eps = 10.000000)
[08:08:39 -169651.484005] AUTODETECT spr round 1 (radius: 5)
[08:11:08 -119941.571841] AUTODETECT spr round 2 (radius: 10)
[08:13:40 -90801.870680] AUTODETECT spr round 3 (radius: 15)
[08:16:28 -75427.306331] AUTODETECT spr round 4 (radius: 20)
[08:19:45 -69549.575694] AUTODETECT spr round 5 (radius: 25)
[08:23:17 -68662.677968] SPR radius for FAST iterations: 25 (autodetect)
[08:23:17 -68662.677968] Model parameter optimization (eps = 3.000000)
[08:23:39 -68567.362649] FAST spr round 1 (radius: 25)
[08:26:42 -61024.132397] FAST spr round 2 (radius: 25)
[08:28:59 -59217.778667] FAST spr round 3 (radius: 25)
[08:31:03 -59055.219343] FAST spr round 4 (radius: 25)
[08:32:59 -58986.813486] FAST spr round 5 (radius: 25)
[08:34:48 -58983.400218] FAST spr round 6 (radius: 25)
[08:36:32 -58983.399126] Model parameter optimization (eps = 1.000000)
[08:36:46 -58980.757042] SLOW spr round 1 (radius: 5)
[08:38:56 -58964.236825] SLOW spr round 2 (radius: 5)
[08:41:07 -58960.560920] SLOW spr round 3 (radius: 5)
[08:43:14 -58959.974516] SLOW spr round 4 (radius: 5)
[08:45:20 -58959.829747] SLOW spr round 5 (radius: 5)
[08:47:26 -58959.829570] SLOW spr round 6 (radius: 10)
[08:49:38 -58958.112522] SLOW spr round 7 (radius: 5)
[08:51:43] [worker #1] ML tree search #20, logLikelihood: -52735.863532
[08:52:19 -58958.111925] SLOW spr round 8 (radius: 10)
[08:54:39 -58958.111828] SLOW spr round 9 (radius: 15)
[08:57:36 -58958.111736] SLOW spr round 10 (radius: 20)
[09:01:42 -58958.111649] SLOW spr round 11 (radius: 25)
[09:06:31 -58956.783955] SLOW spr round 12 (radius: 5)
[09:09:20 -58956.460282] SLOW spr round 13 (radius: 5)
[09:11:49 -58956.459155] SLOW spr round 14 (radius: 10)
[09:14:03 -58956.458897] SLOW spr round 15 (radius: 15)
[09:17:03 -58956.458747] SLOW spr round 16 (radius: 20)
[09:21:04 -58956.458642] SLOW spr round 17 (radius: 25)
[09:25:52 -58956.458558] Model parameter optimization (eps = 0.100000)

[09:25:57] [worker #0] ML tree search #19, logLikelihood: -58956.428716


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.205234,0.254312) (0.256538,0.423946) (0.270400,0.906277) (0.267828,2.217809) 
   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: -52335.982924

AIC score: 108613.965848 / AICc score: 7882237.965848 / BIC score: 114637.826331
Free parameters (model + branch lengths): 1971

WARNING: Number of free parameters (K=1971) is larger than alignment size (n=157).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD0/3_mltree/P0DJD0.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD0/3_mltree/P0DJD0.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD0/3_mltree/P0DJD0.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P0DJD0/3_mltree/P0DJD0.raxml.log

Analysis started: 10-Jul-2021 02:31:44 / finished: 10-Jul-2021 11:57:41

Elapsed time: 33957.796 seconds