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 02-Jun-2021 23:23:46 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/2_msa/P01308_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/3_mltree/P01308 --seed 2 --threads 1 --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), NONE/sequential

[00:00:00] Reading alignment from file: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/2_msa/P01308_trimmed_msa.fasta
[00:00:00] Loaded alignment with 268 taxa and 42 sites

WARNING: Sequences tr_Q90VV9_Q90VV9_DANRE_7955 and tr_A0A3B3H3R6_A0A3B3H3R6_ORYLA_8090 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_O93380_O93380_MELGA_9103 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_F6PZT8_F6PZT8_ORNAN_9258 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_K7G3B2_K7G3B2_PELSI_13735 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_H0ZM10_H0ZM10_TAEGU_59729 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_U3K384_U3K384_FICAL_59894 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A2IT63_A2IT63_ANAPL_8839 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A151NI81_A0A151NI81_ALLMI_8496 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A0Q3X9B0_A0A0Q3X9B0_AMAAE_12930 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A091EW35_A0A091EW35_CORBR_85066 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A091IS51_A0A091IS51_EGRGA_188379 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A091W703_A0A091W703_NIPNI_128390 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A087RJL1_A0A087RJL1_APTFO_9233 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A093HWM4_A0A093HWM4_STRCA_441894 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A091VH88_A0A091VH88_OPIHO_30419 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A099ZWK7_A0A099ZWK7_TINGU_94827 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A091G467_A0A091G467_9AVES_55661 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A0A0ANY6_A0A0A0ANY6_CHAVO_50402 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A2I0MK45_A0A2I0MK45_COLLI_8932 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A093IBU7_A0A093IBU7_DRYPU_118200 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A091I6R2_A0A091I6R2_CALAN_9244 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_K7SEB5_K7SEB5_ALLSI_38654 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A1V4K7V7_A0A1V4K7V7_PATFA_372326 are exactly identical!
WARNING: Sequences sp_P18254_IGF1_CHICK_9031 and tr_A0A218UWW6_A0A218UWW6_9PASE_299123 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_M3Y2P9_M3Y2P9_MUSPF_9669 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2I3GG72_A0A2I3GG72_NOMLE_61853 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2I2ZL48_A0A2I2ZL48_GORGO_9595 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_H2NCF8_H2NCF8_PONAB_9601 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_Q5MGT1_Q5MGT1_MELGA_9103 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_J9P961_J9P961_CANLF_9615 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2I3SPQ3_A0A2I3SPQ3_PANTR_9598 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and sp_P51459_IGF2_HORSE_9796 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_I3N2V4_I3N2V4_ICTTR_43179 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A286XQQ0_A0A286XQQ0_CAVPO_10141 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and sp_Q08279_IGF2_CAVPO_10141 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and sp_P01344_IGF2_HUMAN_9606 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A1D5R7J7_A0A1D5R7J7_MACMU_9544 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_G5C2F3_G5C2F3_HETGA_10181 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_H0ZGA6_H0ZGA6_TAEGU_59729 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_F6XMS3_F6XMS3_CALJA_9483 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_H3A5N5_H3A5N5_LATCH_7897 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_G1L5W6_G1L5W6_AILME_9646 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_G7PNW7_G7PNW7_MACFA_9541 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and sp_P07456_IGF2_BOVIN_9913 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2I2UMR3_A0A2I2UMR3_FELCA_9685 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_U3KAP3_U3KAP3_FICAL_59894 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_U3IZS4_U3IZS4_ANAPL_8839 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A096MVH6_A0A096MVH6_PAPAN_9555 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A091DB43_A0A091DB43_FUKDA_885580 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A0D9RBQ8_A0A0D9RBQ8_CHLSB_60711 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A151MC98_A0A151MC98_ALLMI_8496 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A0Q3MIW4_A0A0Q3MIW4_AMAAE_12930 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A091EBY6_A0A091EBY6_CORBR_85066 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A093PRC8_A0A093PRC8_9PASS_328815 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A091UJ82_A0A091UJ82_NIPNI_128390 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A087RK38_A0A087RK38_APTFO_9233 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A091XDC3_A0A091XDC3_OPIHO_30419 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A099ZEZ3_A0A099ZEZ3_TINGU_94827 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A091FN27_A0A091FN27_9AVES_55661 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A0A0AY17_A0A0A0AY17_CHAVO_50402 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2I0MHK7_A0A2I0MHK7_COLLI_8932 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A093GYH7_A0A093GYH7_DRYPU_118200 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A091HLI9_A0A091HLI9_CALAN_9244 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A1S3FJ49_A0A1S3FJ49_DIPOR_10020 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A3Q0HL91_A0A3Q0HL91_ALLSI_38654 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A1V4JNK4_A0A1V4JNK4_PATFA_372326 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A218UTL8_A0A218UTL8_9PASE_299123 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A226N8C3_A0A226N8C3_CALSU_9009 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A226P242_A0A226P242_COLVI_9014 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2K5NSA8_A0A2K5NSA8_CERAT_9531 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2K6CQS4_A0A2K6CQS4_MACNE_9545 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2K5XCI6_A0A2K5XCI6_MANLE_9568 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2R9B770_A0A2R9B770_PANPA_9597 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2U4BNR4_A0A2U4BNR4_TURTR_9739 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2Y9JPY2_A0A2Y9JPY2_ENHLU_391180 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2Y9PND8_A0A2Y9PND8_DELLE_9749 are exactly identical!
WARNING: Sequences sp_P33717_IGF2_CHICK_9031 and tr_A0A2Y9SAJ2_A0A2Y9SAJ2_PHYCD_9755 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_G1N7C1_G1N7C1_MELGA_9103 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and sp_P67968_INS_MELGA_9103 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_K7G107_K7G107_PELSI_13735 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and sp_P01333_INS_ANAPL_8839 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_R0L6M4_R0L6M4_ANAPL_8839 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A0Q3Q2K4_A0A0Q3Q2K4_AMAAE_12930 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A091JSW1_A0A091JSW1_EGRGA_188379 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A091UM90_A0A091UM90_NIPNI_128390 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A087RK39_A0A087RK39_APTFO_9233 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A093JQS9_A0A093JQS9_STRCA_441894 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A091W867_A0A091W867_OPIHO_30419 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A099ZCB3_A0A099ZCB3_TINGU_94827 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A091FRU0_A0A091FRU0_9AVES_55661 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A0A0AY39_A0A0A0AY39_CHAVO_50402 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A091HNM6_A0A091HNM6_CALAN_9244 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A226N8G4_A0A226N8G4_CALSU_9009 are exactly identical!
WARNING: Sequences sp_P67970_INS_CHICK_9031 and tr_A0A226P241_A0A226P241_COLVI_9014 are exactly identical!
WARNING: Sequences sp_P01325_INS1_MOUSE_10090 and sp_P01322_INS1_RAT_10116 are exactly identical!
WARNING: Sequences sp_P01326_INS2_MOUSE_10090 and tr_G3HXZ8_G3HXZ8_CRIGR_10029 are exactly identical!
WARNING: Sequences sp_P01326_INS2_MOUSE_10090 and sp_P01323_INS2_RAT_10116 are exactly identical!
WARNING: Sequences sp_P01326_INS2_MOUSE_10090 and tr_L5KR12_L5KR12_PTEAL_9402 are exactly identical!
WARNING: Sequences sp_P01326_INS2_MOUSE_10090 and tr_A0A1S3AJG7_A0A1S3AJG7_ERIEU_9365 are exactly identical!
WARNING: Sequences sp_P01326_INS2_MOUSE_10090 and tr_A0A1S3FKC1_A0A1S3FKC1_DIPOR_10020 are exactly identical!
WARNING: Sequences sp_P01326_INS2_MOUSE_10090 and tr_A0A1U8BPF3_A0A1U8BPF3_MESAU_10036 are exactly identical!
WARNING: Sequences sp_P09535_IGF2_MOUSE_10090 and sp_P01346_IGF2_RAT_10116 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_Q6YK33_INS_GORGO_9595 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P01311_INS_RABIT_9986 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P01321_INS_CANLF_9615 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P30410_INS_PANTR_9598 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_F6QQU6_F6QQU6_HORSE_9796 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P01310_INS_HORSE_9796 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P01318_INS_SHEEP_9940 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_Q91XI3_INS_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_B5FWC2_B5FWC2_OTOGA_30611 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P01308_INS_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_G3TLG9_G3TLG9_LOXAF_9785 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P01315_INS_PIG_9823 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A5PJB2_A5PJB2_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P01317_INS_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A096MTW9_A0A096MTW9_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A0D9RBQ0_A0A0D9RBQ0_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2K5P2L3_A0A2K5P2L3_CERAT_9531 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2K6CQQ5_A0A2K6CQQ5_MACNE_9545 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2K5YKV7_A0A2K5YKV7_MANLE_9568 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2U3V333_A0A2U3V333_TURTR_9739 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2U3W6R9_A0A2U3W6R9_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2U3Z329_A0A2U3Z329_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2Y9EA78_A0A2Y9EA78_TRIMA_127582 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2Y9JQV6_A0A2Y9JQV6_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A2Y9PTW5_A0A2Y9PTW5_DELLE_9749 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and sp_P67974_INS_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_M3Y2P2_M3Y2P2_MUSPF_9669 and tr_A0A383Z7M6_A0A383Z7M6_BALAS_310752 are exactly identical!
WARNING: Sequences tr_G1RSR9_G1RSR9_NOMLE_61853 and sp_F8WCM5_INSR2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1RSR9_G1RSR9_NOMLE_61853 and tr_A0A2R9C3V0_A0A2R9C3V0_PANPA_9597 are exactly identical!
WARNING: Sequences sp_P33712_IGF1_CANLF_9615 and tr_G5AME0_G5AME0_HETGA_10181 are exactly identical!
WARNING: Sequences sp_P33712_IGF1_CANLF_9615 and tr_A0A091DDT1_A0A091DDT1_FUKDA_885580 are exactly identical!
WARNING: Sequences sp_P33712_IGF1_CANLF_9615 and tr_A0A2Y9FWL7_A0A2Y9FWL7_PHYCD_9755 are exactly identical!
WARNING: Sequences sp_P33712_IGF1_CANLF_9615 and tr_A0A383YSK5_A0A383YSK5_BALAS_310752 are exactly identical!
WARNING: Sequences tr_F7B9P9_F7B9P9_MONDO_13616 and tr_G3W215_G3W215_SARHA_9305 are exactly identical!
WARNING: Sequences tr_A0A3B5QFU1_A0A3B5QFU1_XIPMA_8083 and tr_I3KAU3_I3KAU3_ORENI_8128 are exactly identical!
WARNING: Sequences tr_A0A3B5QFU1_A0A3B5QFU1_XIPMA_8083 and tr_A0A087Y814_A0A087Y814_POEFO_48698 are exactly identical!
WARNING: Sequences tr_A0A3B5QFU1_A0A3B5QFU1_XIPMA_8083 and tr_A4GUE9_A4GUE9_SALSA_8030 are exactly identical!
WARNING: Sequences tr_A0A3B5QFU1_A0A3B5QFU1_XIPMA_8083 and tr_A0A2I4AZV3_A0A2I4AZV3_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A3B5QFU1_A0A3B5QFU1_XIPMA_8083 and tr_C6GBY8_C6GBY8_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A3B5QM20_A0A3B5QM20_XIPMA_8083 and tr_A0A087YIN9_A0A087YIN9_POEFO_48698 are exactly identical!
WARNING: Sequences tr_I3IUZ1_I3IUZ1_ORENI_8128 and sp_P81025_INS_ORENI_8128 are exactly identical!
WARNING: Sequences tr_B5FWC1_B5FWC1_OTOGA_30611 and tr_A0A2U3Z2C1_A0A2U3Z2C1_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_B5FWC1_B5FWC1_OTOGA_30611 and tr_A0A384CSS8_A0A384CSS8_URSMA_29073 are exactly identical!
WARNING: Sequences tr_G7NBL9_G7NBL9_MACMU_9544 and tr_G7PNW8_G7PNW8_MACFA_9541 are exactly identical!
WARNING: Sequences tr_G3Q9B0_G3Q9B0_GASAC_69293 and tr_A0A0P7YFI9_A0A0P7YFI9_9TELE_113540 are exactly identical!
WARNING: Sequences tr_G3VK40_G3VK40_SARHA_9305 and tr_A0A383Z7L7_A0A383Z7L7_BALAS_310752 are exactly identical!
WARNING: Sequences tr_H0ZG98_H0ZG98_TAEGU_59729 and tr_U3KAN7_U3KAN7_FICAL_59894 are exactly identical!
WARNING: Sequences tr_H0ZG98_H0ZG98_TAEGU_59729 and tr_A0A218USS7_A0A218USS7_9PASE_299123 are exactly identical!
WARNING: Sequences tr_A4IGV9_A4IGV9_XENTR_8364 and tr_A0A1L8GD41_A0A1L8GD41_XENLA_8355 are exactly identical!
WARNING: Sequences tr_A0A337SBX1_A0A337SBX1_FELCA_9685 and sp_P06306_INS_FELCA_9685 are exactly identical!
WARNING: Sequences tr_A0A3B1IH75_A0A3B1IH75_ASTMX_7994 and tr_A0A0P7Y8P2_A0A0P7Y8P2_9TELE_113540 are exactly identical!
WARNING: Sequences tr_A0A093S946_A0A093S946_9PASS_328815 and tr_A0A093GS49_A0A093GS49_DRYPU_118200 are exactly identical!
WARNING: Sequences tr_A0A2I0MHN3_A0A2I0MHN3_COLLI_8932 and tr_A0A1V4JNL6_A0A1V4JNL6_PATFA_372326 are exactly identical!
WARNING: Sequences tr_A0A1S3RMY0_A0A1S3RMY0_SALSA_8030 and tr_A0A060WIH3_A0A060WIH3_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3RMY0_A0A1S3RMY0_SALSA_8030 and tr_A0A060Y6K0_A0A060Y6K0_ONCMY_8022 are exactly identical!
WARNING: Duplicate sequences found: 157

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/3_mltree/P01308.raxml.reduced.phy

Alignment comprises 1 partitions and 42 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 42 / 42
Gaps: 2.11 %
Invariant sites: 0.00 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/3_mltree/P01308.raxml.rba

Parallelization scheme autoconfig: 1 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 268 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 42 / 3360
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -11978.874116] Initial branch length optimization
[00:00:00 -8882.060296] Model parameter optimization (eps = 10.000000)
[00:00:04 -8850.707889] AUTODETECT spr round 1 (radius: 5)
[00:00:09 -4928.333509] AUTODETECT spr round 2 (radius: 10)
[00:00:16 -3753.133422] AUTODETECT spr round 3 (radius: 15)
[00:00:24 -3011.621729] AUTODETECT spr round 4 (radius: 20)
[00:00:33 -2907.370119] AUTODETECT spr round 5 (radius: 25)
[00:00:42 -2802.891325] SPR radius for FAST iterations: 25 (autodetect)
[00:00:42 -2802.891325] Model parameter optimization (eps = 3.000000)
[00:00:48 -2775.632101] FAST spr round 1 (radius: 25)
[00:00:56 -2647.013576] FAST spr round 2 (radius: 25)
[00:01:04 -2632.717899] FAST spr round 3 (radius: 25)
[00:01:11 -2629.299137] FAST spr round 4 (radius: 25)
[00:01:18 -2629.299136] Model parameter optimization (eps = 1.000000)
[00:01:20 -2628.735468] SLOW spr round 1 (radius: 5)
[00:01:27 -2628.178829] SLOW spr round 2 (radius: 5)
[00:01:35 -2628.178734] SLOW spr round 3 (radius: 10)
[00:01:42 -2626.611254] SLOW spr round 4 (radius: 5)
[00:01:50 -2624.449807] SLOW spr round 5 (radius: 5)
[00:01:57 -2624.449778] SLOW spr round 6 (radius: 10)
[00:02:05 -2624.449778] SLOW spr round 7 (radius: 15)
[00:02:13 -2624.449778] SLOW spr round 8 (radius: 20)
[00:02:22 -2624.449778] SLOW spr round 9 (radius: 25)
[00:02:32 -2624.449778] Model parameter optimization (eps = 0.100000)

[00:02:34] ML tree search #1, logLikelihood: -2624.380511

[00:02:34 -11790.281259] Initial branch length optimization
[00:02:34 -8688.018972] Model parameter optimization (eps = 10.000000)
[00:02:38 -8667.900156] AUTODETECT spr round 1 (radius: 5)
[00:02:44 -5021.539457] AUTODETECT spr round 2 (radius: 10)
[00:02:50 -3893.121893] AUTODETECT spr round 3 (radius: 15)
[00:02:59 -3119.772103] AUTODETECT spr round 4 (radius: 20)
[00:03:08 -3002.641043] AUTODETECT spr round 5 (radius: 25)
[00:03:18 -2979.716116] SPR radius for FAST iterations: 25 (autodetect)
[00:03:18 -2979.716116] Model parameter optimization (eps = 3.000000)
[00:03:22 -2954.124061] FAST spr round 1 (radius: 25)
[00:03:30 -2700.114403] FAST spr round 2 (radius: 25)
[00:03:38 -2657.345858] FAST spr round 3 (radius: 25)
[00:03:45 -2654.578143] FAST spr round 4 (radius: 25)
[00:03:52 -2654.578004] Model parameter optimization (eps = 1.000000)
[00:03:56 -2650.257323] SLOW spr round 1 (radius: 5)
[00:04:04 -2646.954264] SLOW spr round 2 (radius: 5)
[00:04:11 -2646.925231] SLOW spr round 3 (radius: 10)
[00:04:20 -2611.311355] SLOW spr round 4 (radius: 5)
[00:04:28 -2610.569051] SLOW spr round 5 (radius: 5)
[00:04:35 -2610.569021] SLOW spr round 6 (radius: 10)
[00:04:43 -2602.692907] SLOW spr round 7 (radius: 5)
[00:04:51 -2598.888722] SLOW spr round 8 (radius: 5)
[00:04:58 -2598.888720] SLOW spr round 9 (radius: 10)
[00:05:06 -2598.888720] SLOW spr round 10 (radius: 15)
[00:05:15 -2598.420796] SLOW spr round 11 (radius: 5)
[00:05:24 -2598.420768] SLOW spr round 12 (radius: 10)
[00:05:32 -2595.707611] SLOW spr round 13 (radius: 5)
[00:05:40 -2594.758293] SLOW spr round 14 (radius: 5)
[00:05:47 -2594.757415] SLOW spr round 15 (radius: 10)
[00:05:56 -2585.243526] SLOW spr round 16 (radius: 5)
[00:06:04 -2583.819175] SLOW spr round 17 (radius: 5)
[00:06:11 -2583.818774] SLOW spr round 18 (radius: 10)
[00:06:19 -2583.818770] SLOW spr round 19 (radius: 15)
[00:06:28 -2583.818770] SLOW spr round 20 (radius: 20)
[00:06:36 -2583.818769] SLOW spr round 21 (radius: 25)
[00:06:45 -2583.818769] Model parameter optimization (eps = 0.100000)

[00:06:48] ML tree search #2, logLikelihood: -2583.583487

[00:06:48 -11545.693554] Initial branch length optimization
[00:06:49 -8491.601776] Model parameter optimization (eps = 10.000000)
[00:06:53 -8473.977553] AUTODETECT spr round 1 (radius: 5)
[00:06:58 -4873.837650] AUTODETECT spr round 2 (radius: 10)
[00:07:05 -3791.486079] AUTODETECT spr round 3 (radius: 15)
[00:07:13 -3317.889107] AUTODETECT spr round 4 (radius: 20)
[00:07:21 -3163.221420] AUTODETECT spr round 5 (radius: 25)
[00:07:29 -3001.830438] SPR radius for FAST iterations: 25 (autodetect)
[00:07:29 -3001.830438] Model parameter optimization (eps = 3.000000)
[00:07:35 -2984.391396] FAST spr round 1 (radius: 25)
[00:07:43 -2728.333766] FAST spr round 2 (radius: 25)
[00:07:51 -2658.148902] FAST spr round 3 (radius: 25)
[00:07:58 -2657.641046] FAST spr round 4 (radius: 25)
[00:08:05 -2650.610595] FAST spr round 5 (radius: 25)
[00:08:11 -2650.610519] Model parameter optimization (eps = 1.000000)
[00:08:17 -2644.367760] SLOW spr round 1 (radius: 5)
[00:08:25 -2644.072623] SLOW spr round 2 (radius: 5)
[00:08:32 -2644.004747] SLOW spr round 3 (radius: 10)
[00:08:40 -2635.757060] SLOW spr round 4 (radius: 5)
[00:08:49 -2635.566100] SLOW spr round 5 (radius: 5)
[00:08:56 -2635.565955] SLOW spr round 6 (radius: 10)
[00:09:04 -2628.845637] SLOW spr round 7 (radius: 5)
[00:09:12 -2627.724337] SLOW spr round 8 (radius: 5)
[00:09:20 -2627.724320] SLOW spr round 9 (radius: 10)
[00:09:28 -2627.724297] SLOW spr round 10 (radius: 15)
[00:09:37 -2596.572124] SLOW spr round 11 (radius: 5)
[00:09:46 -2596.565378] SLOW spr round 12 (radius: 10)
[00:09:54 -2595.545677] SLOW spr round 13 (radius: 5)
[00:10:02 -2595.545018] SLOW spr round 14 (radius: 10)
[00:10:10 -2595.544845] SLOW spr round 15 (radius: 15)
[00:10:19 -2588.490634] SLOW spr round 16 (radius: 5)
[00:10:28 -2586.611180] SLOW spr round 17 (radius: 5)
[00:10:35 -2586.611141] SLOW spr round 18 (radius: 10)
[00:10:43 -2586.611140] SLOW spr round 19 (radius: 15)
[00:10:51 -2586.611139] SLOW spr round 20 (radius: 20)
[00:11:01 -2586.611139] SLOW spr round 21 (radius: 25)
[00:11:11 -2581.787777] SLOW spr round 22 (radius: 5)
[00:11:20 -2581.787761] SLOW spr round 23 (radius: 10)
[00:11:28 -2581.787759] SLOW spr round 24 (radius: 15)
[00:11:36 -2581.787758] SLOW spr round 25 (radius: 20)
[00:11:46 -2581.787758] SLOW spr round 26 (radius: 25)
[00:11:56 -2581.787758] Model parameter optimization (eps = 0.100000)

[00:12:02] ML tree search #3, logLikelihood: -2580.730538

[00:12:02 -11809.525712] Initial branch length optimization
[00:12:02 -8815.567623] Model parameter optimization (eps = 10.000000)
[00:12:07 -8800.005947] AUTODETECT spr round 1 (radius: 5)
[00:12:12 -4533.134850] AUTODETECT spr round 2 (radius: 10)
[00:12:19 -3456.993357] AUTODETECT spr round 3 (radius: 15)
[00:12:26 -3119.974537] AUTODETECT spr round 4 (radius: 20)
[00:12:33 -3020.165436] AUTODETECT spr round 5 (radius: 25)
[00:12:42 -2962.546461] SPR radius for FAST iterations: 25 (autodetect)
[00:12:42 -2962.546461] Model parameter optimization (eps = 3.000000)
[00:12:47 -2934.943454] FAST spr round 1 (radius: 25)
[00:12:54 -2707.118722] FAST spr round 2 (radius: 25)
[00:13:01 -2635.630659] FAST spr round 3 (radius: 25)
[00:13:08 -2634.795180] FAST spr round 4 (radius: 25)
[00:13:14 -2634.795085] Model parameter optimization (eps = 1.000000)
[00:13:19 -2632.798113] SLOW spr round 1 (radius: 5)
[00:13:26 -2632.452739] SLOW spr round 2 (radius: 5)
[00:13:33 -2632.451105] SLOW spr round 3 (radius: 10)
[00:13:41 -2597.580492] SLOW spr round 4 (radius: 5)
[00:13:49 -2597.324829] SLOW spr round 5 (radius: 5)
[00:13:56 -2597.324748] SLOW spr round 6 (radius: 10)
[00:14:04 -2597.324746] SLOW spr round 7 (radius: 15)
[00:14:13 -2595.970006] SLOW spr round 8 (radius: 5)
[00:14:22 -2595.969377] SLOW spr round 9 (radius: 10)
[00:14:30 -2595.969376] SLOW spr round 10 (radius: 15)
[00:14:40 -2595.969376] SLOW spr round 11 (radius: 20)
[00:14:49 -2595.969376] SLOW spr round 12 (radius: 25)
[00:14:59 -2595.969376] Model parameter optimization (eps = 0.100000)

[00:15:04] ML tree search #4, logLikelihood: -2595.636095

[00:15:04 -11935.007437] Initial branch length optimization
[00:15:04 -8892.909189] Model parameter optimization (eps = 10.000000)
[00:15:08 -8876.463981] AUTODETECT spr round 1 (radius: 5)
[00:15:14 -5025.053693] AUTODETECT spr round 2 (radius: 10)
[00:15:20 -4019.213669] AUTODETECT spr round 3 (radius: 15)
[00:15:28 -3268.024590] AUTODETECT spr round 4 (radius: 20)
[00:15:37 -3131.277354] AUTODETECT spr round 5 (radius: 25)
[00:15:45 -2999.595685] SPR radius for FAST iterations: 25 (autodetect)
[00:15:45 -2999.595685] Model parameter optimization (eps = 3.000000)
[00:15:49 -2969.895223] FAST spr round 1 (radius: 25)
[00:15:57 -2765.400044] FAST spr round 2 (radius: 25)
[00:16:04 -2748.035441] FAST spr round 3 (radius: 25)
[00:16:11 -2747.705804] FAST spr round 4 (radius: 25)
[00:16:17 -2747.705675] Model parameter optimization (eps = 1.000000)
[00:16:22 -2742.790784] SLOW spr round 1 (radius: 5)
[00:16:30 -2741.456716] SLOW spr round 2 (radius: 5)
[00:16:37 -2740.908037] SLOW spr round 3 (radius: 5)
[00:16:44 -2740.906853] SLOW spr round 4 (radius: 10)
[00:16:53 -2736.680666] SLOW spr round 5 (radius: 5)
[00:17:01 -2733.587083] SLOW spr round 6 (radius: 5)
[00:17:08 -2733.587072] SLOW spr round 7 (radius: 10)
[00:17:16 -2733.587071] SLOW spr round 8 (radius: 15)
[00:17:27 -2717.911342] SLOW spr round 9 (radius: 5)
[00:17:36 -2712.757268] SLOW spr round 10 (radius: 5)
[00:17:44 -2712.757264] SLOW spr round 11 (radius: 10)
[00:17:52 -2712.757264] SLOW spr round 12 (radius: 15)
[00:18:02 -2712.757264] SLOW spr round 13 (radius: 20)
[00:18:13 -2691.723154] SLOW spr round 14 (radius: 5)
[00:18:23 -2678.036120] SLOW spr round 15 (radius: 5)
[00:18:31 -2678.035413] SLOW spr round 16 (radius: 10)
[00:18:39 -2678.035368] SLOW spr round 17 (radius: 15)
[00:18:49 -2678.035365] SLOW spr round 18 (radius: 20)
[00:19:00 -2678.035364] SLOW spr round 19 (radius: 25)
[00:19:12 -2674.357551] SLOW spr round 20 (radius: 5)
[00:19:22 -2674.357397] SLOW spr round 21 (radius: 10)
[00:19:31 -2674.357395] SLOW spr round 22 (radius: 15)
[00:19:41 -2674.357395] SLOW spr round 23 (radius: 20)
[00:19:52 -2674.357395] SLOW spr round 24 (radius: 25)
[00:20:04 -2674.357395] Model parameter optimization (eps = 0.100000)

[00:20:06] ML tree search #5, logLikelihood: -2674.258399

[00:20:06 -11923.432812] Initial branch length optimization
[00:20:06 -8892.135806] Model parameter optimization (eps = 10.000000)
[00:20:08 -8885.543177] AUTODETECT spr round 1 (radius: 5)
[00:20:14 -4802.405207] AUTODETECT spr round 2 (radius: 10)
[00:20:21 -3596.104623] AUTODETECT spr round 3 (radius: 15)
[00:20:30 -3031.424586] AUTODETECT spr round 4 (radius: 20)
[00:20:41 -2867.195762] AUTODETECT spr round 5 (radius: 25)
[00:20:53 -2854.250263] SPR radius for FAST iterations: 25 (autodetect)
[00:20:53 -2854.250263] Model parameter optimization (eps = 3.000000)
[00:21:02 -2827.841498] FAST spr round 1 (radius: 25)
[00:21:11 -2688.341156] FAST spr round 2 (radius: 25)
[00:21:20 -2687.400499] FAST spr round 3 (radius: 25)
[00:21:29 -2687.400482] Model parameter optimization (eps = 1.000000)
[00:21:36 -2686.581902] SLOW spr round 1 (radius: 5)
[00:21:48 -2681.940291] SLOW spr round 2 (radius: 5)
[00:21:59 -2681.174225] SLOW spr round 3 (radius: 5)
[00:22:09 -2681.174201] SLOW spr round 4 (radius: 10)
[00:22:21 -2677.518258] SLOW spr round 5 (radius: 5)
[00:22:32 -2676.724310] SLOW spr round 6 (radius: 5)
[00:22:42 -2676.724301] SLOW spr round 7 (radius: 10)
[00:22:53 -2674.978507] SLOW spr round 8 (radius: 5)
[00:23:04 -2674.978490] SLOW spr round 9 (radius: 10)
[00:23:15 -2674.978487] SLOW spr round 10 (radius: 15)
[00:23:28 -2674.319303] SLOW spr round 11 (radius: 5)
[00:23:39 -2674.314005] SLOW spr round 12 (radius: 10)
[00:23:51 -2674.313805] SLOW spr round 13 (radius: 15)
[00:24:03 -2674.313781] SLOW spr round 14 (radius: 20)
[00:24:18 -2674.313777] SLOW spr round 15 (radius: 25)
[00:24:32 -2674.313776] Model parameter optimization (eps = 0.100000)

[00:24:39] ML tree search #6, logLikelihood: -2674.148653

[00:24:39 -11909.576700] Initial branch length optimization
[00:24:39 -8909.103974] Model parameter optimization (eps = 10.000000)
[00:24:45 -8890.026855] AUTODETECT spr round 1 (radius: 5)
[00:24:53 -4907.962455] AUTODETECT spr round 2 (radius: 10)
[00:25:03 -3712.489860] AUTODETECT spr round 3 (radius: 15)
[00:25:14 -3074.406144] AUTODETECT spr round 4 (radius: 20)
[00:25:28 -2865.073244] AUTODETECT spr round 5 (radius: 25)
[00:25:41 -2841.065807] SPR radius for FAST iterations: 25 (autodetect)
[00:25:41 -2841.065807] Model parameter optimization (eps = 3.000000)
[00:25:53 -2816.201851] FAST spr round 1 (radius: 25)
[00:26:04 -2634.043975] FAST spr round 2 (radius: 25)
[00:26:14 -2605.663594] FAST spr round 3 (radius: 25)
[00:26:21 -2605.661491] Model parameter optimization (eps = 1.000000)
[00:26:27 -2604.115261] SLOW spr round 1 (radius: 5)
[00:26:34 -2604.101395] SLOW spr round 2 (radius: 10)
[00:26:42 -2604.033212] SLOW spr round 3 (radius: 15)
[00:26:52 -2601.560647] SLOW spr round 4 (radius: 5)
[00:27:01 -2596.615319] SLOW spr round 5 (radius: 5)
[00:27:08 -2596.615306] SLOW spr round 6 (radius: 10)
[00:27:16 -2591.112793] SLOW spr round 7 (radius: 5)
[00:27:24 -2591.095184] SLOW spr round 8 (radius: 10)
[00:27:32 -2591.094606] SLOW spr round 9 (radius: 15)
[00:27:41 -2591.094491] SLOW spr round 10 (radius: 20)
[00:27:51 -2591.094457] SLOW spr round 11 (radius: 25)
[00:28:01 -2586.201078] SLOW spr round 12 (radius: 5)
[00:28:11 -2584.684849] SLOW spr round 13 (radius: 5)
[00:28:19 -2584.683193] SLOW spr round 14 (radius: 10)
[00:28:27 -2584.682987] SLOW spr round 15 (radius: 15)
[00:28:36 -2584.682930] SLOW spr round 16 (radius: 20)
[00:28:46 -2584.682916] SLOW spr round 17 (radius: 25)
[00:28:56 -2584.682916] Model parameter optimization (eps = 0.100000)

[00:29:00] ML tree search #7, logLikelihood: -2583.968280

[00:29:00 -11771.969705] Initial branch length optimization
[00:29:01 -8667.180231] Model parameter optimization (eps = 10.000000)
[00:29:05 -8650.932730] AUTODETECT spr round 1 (radius: 5)
[00:29:10 -4715.167866] AUTODETECT spr round 2 (radius: 10)
[00:29:17 -3685.968469] AUTODETECT spr round 3 (radius: 15)
[00:29:25 -3296.246844] AUTODETECT spr round 4 (radius: 20)
[00:29:33 -2955.031665] AUTODETECT spr round 5 (radius: 25)
[00:29:41 -2856.847792] SPR radius for FAST iterations: 25 (autodetect)
[00:29:41 -2856.847792] Model parameter optimization (eps = 3.000000)
[00:29:46 -2841.854630] FAST spr round 1 (radius: 25)
[00:29:54 -2657.203949] FAST spr round 2 (radius: 25)
[00:30:01 -2629.109026] FAST spr round 3 (radius: 25)
[00:30:08 -2628.907021] FAST spr round 4 (radius: 25)
[00:30:14 -2628.906985] Model parameter optimization (eps = 1.000000)
[00:30:18 -2625.101217] SLOW spr round 1 (radius: 5)
[00:30:26 -2621.415137] SLOW spr round 2 (radius: 5)
[00:30:33 -2621.415005] SLOW spr round 3 (radius: 10)
[00:30:41 -2599.802139] SLOW spr round 4 (radius: 5)
[00:30:49 -2598.554136] SLOW spr round 5 (radius: 5)
[00:30:57 -2598.547166] SLOW spr round 6 (radius: 10)
[00:31:05 -2598.545040] SLOW spr round 7 (radius: 15)
[00:31:13 -2591.512358] SLOW spr round 8 (radius: 5)
[00:31:22 -2591.097001] SLOW spr round 9 (radius: 5)
[00:31:30 -2591.096585] SLOW spr round 10 (radius: 10)
[00:31:38 -2590.202631] SLOW spr round 11 (radius: 5)
[00:31:46 -2590.202286] SLOW spr round 12 (radius: 10)
[00:31:54 -2590.202283] SLOW spr round 13 (radius: 15)
[00:32:02 -2585.167010] SLOW spr round 14 (radius: 5)
[00:32:11 -2584.653769] SLOW spr round 15 (radius: 5)
[00:32:18 -2584.653503] SLOW spr round 16 (radius: 10)
[00:32:27 -2584.653501] SLOW spr round 17 (radius: 15)
[00:32:34 -2584.653501] SLOW spr round 18 (radius: 20)
[00:32:44 -2584.653501] SLOW spr round 19 (radius: 25)
[00:32:52 -2584.653501] Model parameter optimization (eps = 0.100000)

[00:32:54] ML tree search #8, logLikelihood: -2584.602052

[00:32:54 -12089.562566] Initial branch length optimization
[00:32:54 -9142.095798] Model parameter optimization (eps = 10.000000)
[00:33:00 -9114.690546] AUTODETECT spr round 1 (radius: 5)
[00:33:06 -5052.647186] AUTODETECT spr round 2 (radius: 10)
[00:33:12 -3797.167186] AUTODETECT spr round 3 (radius: 15)
[00:33:19 -3375.550024] AUTODETECT spr round 4 (radius: 20)
[00:33:27 -3135.242427] AUTODETECT spr round 5 (radius: 25)
[00:33:35 -2993.132563] SPR radius for FAST iterations: 25 (autodetect)
[00:33:35 -2993.132563] Model parameter optimization (eps = 3.000000)
[00:33:42 -2967.151871] FAST spr round 1 (radius: 25)
[00:33:51 -2669.422705] FAST spr round 2 (radius: 25)
[00:33:58 -2642.540655] FAST spr round 3 (radius: 25)
[00:34:05 -2642.094633] FAST spr round 4 (radius: 25)
[00:34:12 -2642.094600] Model parameter optimization (eps = 1.000000)
[00:34:14 -2641.646173] SLOW spr round 1 (radius: 5)
[00:34:22 -2640.924269] SLOW spr round 2 (radius: 5)
[00:34:30 -2639.960065] SLOW spr round 3 (radius: 5)
[00:34:37 -2639.958280] SLOW spr round 4 (radius: 10)
[00:34:45 -2630.655247] SLOW spr round 5 (radius: 5)
[00:34:53 -2630.655130] SLOW spr round 6 (radius: 10)
[00:35:02 -2630.655127] SLOW spr round 7 (radius: 15)
[00:35:11 -2623.913061] SLOW spr round 8 (radius: 5)
[00:35:21 -2588.638270] SLOW spr round 9 (radius: 5)
[00:35:28 -2588.635358] SLOW spr round 10 (radius: 10)
[00:35:36 -2588.634807] SLOW spr round 11 (radius: 15)
[00:35:46 -2588.634708] SLOW spr round 12 (radius: 20)
[00:35:58 -2588.634690] SLOW spr round 13 (radius: 25)
[00:36:08 -2588.634687] Model parameter optimization (eps = 0.100000)

[00:36:12] ML tree search #9, logLikelihood: -2587.955164

[00:36:12 -11643.821690] Initial branch length optimization
[00:36:12 -8560.009113] Model parameter optimization (eps = 10.000000)
[00:36:16 -8547.139036] AUTODETECT spr round 1 (radius: 5)
[00:36:21 -4789.582030] AUTODETECT spr round 2 (radius: 10)
[00:36:28 -3842.183680] AUTODETECT spr round 3 (radius: 15)
[00:36:35 -3464.359793] AUTODETECT spr round 4 (radius: 20)
[00:36:44 -3029.616559] AUTODETECT spr round 5 (radius: 25)
[00:36:54 -2879.758779] SPR radius for FAST iterations: 25 (autodetect)
[00:36:54 -2879.758779] Model parameter optimization (eps = 3.000000)
[00:36:59 -2850.975986] FAST spr round 1 (radius: 25)
[00:37:07 -2630.673049] FAST spr round 2 (radius: 25)
[00:37:15 -2598.702715] FAST spr round 3 (radius: 25)
[00:37:22 -2598.701881] Model parameter optimization (eps = 1.000000)
[00:37:24 -2598.018259] SLOW spr round 1 (radius: 5)
[00:37:32 -2597.564945] SLOW spr round 2 (radius: 5)
[00:37:39 -2595.668652] SLOW spr round 3 (radius: 5)
[00:37:47 -2595.668593] SLOW spr round 4 (radius: 10)
[00:37:54 -2595.668572] SLOW spr round 5 (radius: 15)
[00:38:03 -2592.929640] SLOW spr round 6 (radius: 5)
[00:38:13 -2588.004989] SLOW spr round 7 (radius: 5)
[00:38:21 -2587.683622] SLOW spr round 8 (radius: 5)
[00:38:28 -2587.683508] SLOW spr round 9 (radius: 10)
[00:38:36 -2587.683507] SLOW spr round 10 (radius: 15)
[00:38:45 -2581.841644] SLOW spr round 11 (radius: 5)
[00:38:55 -2580.813639] SLOW spr round 12 (radius: 5)
[00:39:02 -2580.813622] SLOW spr round 13 (radius: 10)
[00:39:10 -2580.813619] SLOW spr round 14 (radius: 15)
[00:39:20 -2580.813619] SLOW spr round 15 (radius: 20)
[00:39:29 -2580.813619] SLOW spr round 16 (radius: 25)
[00:39:38 -2580.813619] Model parameter optimization (eps = 0.100000)

[00:39:41] ML tree search #10, logLikelihood: -2580.411477

[00:39:41 -11844.308112] Initial branch length optimization
[00:39:42 -8787.128128] Model parameter optimization (eps = 10.000000)
[00:39:46 -8771.737627] AUTODETECT spr round 1 (radius: 5)
[00:39:51 -4908.741912] AUTODETECT spr round 2 (radius: 10)
[00:39:58 -3719.233106] AUTODETECT spr round 3 (radius: 15)
[00:40:05 -3198.738850] AUTODETECT spr round 4 (radius: 20)
[00:40:14 -2928.000123] AUTODETECT spr round 5 (radius: 25)
[00:40:21 -2854.970193] SPR radius for FAST iterations: 25 (autodetect)
[00:40:21 -2854.970193] Model parameter optimization (eps = 3.000000)
[00:40:28 -2837.062987] FAST spr round 1 (radius: 25)
[00:40:35 -2609.688885] FAST spr round 2 (radius: 25)
[00:40:43 -2592.921970] FAST spr round 3 (radius: 25)
[00:40:49 -2592.265841] FAST spr round 4 (radius: 25)
[00:40:56 -2592.265393] Model parameter optimization (eps = 1.000000)
[00:41:01 -2589.561087] SLOW spr round 1 (radius: 5)
[00:41:08 -2589.357196] SLOW spr round 2 (radius: 5)
[00:41:15 -2589.357119] SLOW spr round 3 (radius: 10)
[00:41:24 -2588.539038] SLOW spr round 4 (radius: 5)
[00:41:32 -2586.613785] SLOW spr round 5 (radius: 5)
[00:41:40 -2586.611154] SLOW spr round 6 (radius: 10)
[00:41:48 -2585.301724] SLOW spr round 7 (radius: 5)
[00:41:56 -2584.733798] SLOW spr round 8 (radius: 5)
[00:42:03 -2584.733102] SLOW spr round 9 (radius: 10)
[00:42:11 -2584.733074] SLOW spr round 10 (radius: 15)
[00:42:20 -2584.419557] SLOW spr round 11 (radius: 5)
[00:42:29 -2584.419538] SLOW spr round 12 (radius: 10)
[00:42:37 -2579.055499] SLOW spr round 13 (radius: 5)
[00:42:45 -2579.055475] SLOW spr round 14 (radius: 10)
[00:42:53 -2579.055458] SLOW spr round 15 (radius: 15)
[00:43:03 -2579.055458] SLOW spr round 16 (radius: 20)
[00:43:13 -2579.055457] SLOW spr round 17 (radius: 25)
[00:43:22 -2578.632423] SLOW spr round 18 (radius: 5)
[00:43:32 -2578.632383] SLOW spr round 19 (radius: 10)
[00:43:40 -2578.632382] SLOW spr round 20 (radius: 15)
[00:43:49 -2578.632382] SLOW spr round 21 (radius: 20)
[00:43:59 -2578.632382] SLOW spr round 22 (radius: 25)
[00:44:08 -2578.632382] Model parameter optimization (eps = 0.100000)

[00:44:10] ML tree search #11, logLikelihood: -2578.540837

[00:44:10 -12065.970793] Initial branch length optimization
[00:44:10 -8932.487350] Model parameter optimization (eps = 10.000000)
[00:44:16 -8826.973159] AUTODETECT spr round 1 (radius: 5)
[00:44:21 -5159.347308] AUTODETECT spr round 2 (radius: 10)
[00:44:27 -3956.187765] AUTODETECT spr round 3 (radius: 15)
[00:44:35 -3544.399891] AUTODETECT spr round 4 (radius: 20)
[00:44:44 -3371.989633] AUTODETECT spr round 5 (radius: 25)
[00:44:53 -3102.044481] SPR radius for FAST iterations: 25 (autodetect)
[00:44:53 -3102.044481] Model parameter optimization (eps = 3.000000)
[00:44:59 -3059.603944] FAST spr round 1 (radius: 25)
[00:45:07 -2745.926080] FAST spr round 2 (radius: 25)
[00:45:14 -2681.117365] FAST spr round 3 (radius: 25)
[00:45:21 -2621.828866] FAST spr round 4 (radius: 25)
[00:45:28 -2621.027037] FAST spr round 5 (radius: 25)
[00:45:35 -2620.558123] FAST spr round 6 (radius: 25)
[00:45:41 -2620.557799] Model parameter optimization (eps = 1.000000)
[00:45:46 -2615.428418] SLOW spr round 1 (radius: 5)
[00:45:53 -2614.744633] SLOW spr round 2 (radius: 5)
[00:46:01 -2614.744375] SLOW spr round 3 (radius: 10)
[00:46:10 -2604.771926] SLOW spr round 4 (radius: 5)
[00:46:18 -2603.639066] SLOW spr round 5 (radius: 5)
[00:46:25 -2603.639053] SLOW spr round 6 (radius: 10)
[00:46:33 -2600.445514] SLOW spr round 7 (radius: 5)
[00:46:41 -2600.445481] SLOW spr round 8 (radius: 10)
[00:46:50 -2594.786339] SLOW spr round 9 (radius: 5)
[00:46:58 -2591.797294] SLOW spr round 10 (radius: 5)
[00:47:05 -2591.394848] SLOW spr round 11 (radius: 5)
[00:47:12 -2591.394652] SLOW spr round 12 (radius: 10)
[00:47:20 -2591.394647] SLOW spr round 13 (radius: 15)
[00:47:29 -2591.394647] SLOW spr round 14 (radius: 20)
[00:47:39 -2590.486270] SLOW spr round 15 (radius: 5)
[00:47:49 -2589.986301] SLOW spr round 16 (radius: 5)
[00:47:57 -2589.985777] SLOW spr round 17 (radius: 10)
[00:48:05 -2589.985674] SLOW spr round 18 (radius: 15)
[00:48:14 -2586.229130] SLOW spr round 19 (radius: 5)
[00:48:23 -2586.228858] SLOW spr round 20 (radius: 10)
[00:48:32 -2586.228854] SLOW spr round 21 (radius: 15)
[00:48:40 -2586.228854] SLOW spr round 22 (radius: 20)
[00:48:50 -2586.228854] SLOW spr round 23 (radius: 25)
[00:49:00 -2579.551023] SLOW spr round 24 (radius: 5)
[00:49:10 -2579.549366] SLOW spr round 25 (radius: 10)
[00:49:20 -2579.549269] SLOW spr round 26 (radius: 15)
[00:49:28 -2579.549263] SLOW spr round 27 (radius: 20)
[00:49:39 -2579.549263] SLOW spr round 28 (radius: 25)
[00:49:48 -2579.549263] Model parameter optimization (eps = 0.100000)

[00:49:50] ML tree search #12, logLikelihood: -2579.452893

[00:49:50 -11942.272286] Initial branch length optimization
[00:49:51 -8709.374043] Model parameter optimization (eps = 10.000000)
[00:49:57 -8585.378148] AUTODETECT spr round 1 (radius: 5)
[00:50:02 -4785.167225] AUTODETECT spr round 2 (radius: 10)
[00:50:09 -3753.948374] AUTODETECT spr round 3 (radius: 15)
[00:50:17 -3283.061029] AUTODETECT spr round 4 (radius: 20)
[00:50:25 -3122.529037] AUTODETECT spr round 5 (radius: 25)
[00:50:33 -3057.213876] SPR radius for FAST iterations: 25 (autodetect)
[00:50:33 -3057.213876] Model parameter optimization (eps = 3.000000)
[00:50:38 -3023.411623] FAST spr round 1 (radius: 25)
[00:50:46 -2778.569482] FAST spr round 2 (radius: 25)
[00:50:53 -2726.178151] FAST spr round 3 (radius: 25)
[00:51:00 -2698.854769] FAST spr round 4 (radius: 25)
[00:51:07 -2698.854572] Model parameter optimization (eps = 1.000000)
[00:51:13 -2695.655015] SLOW spr round 1 (radius: 5)
[00:51:20 -2694.470922] SLOW spr round 2 (radius: 5)
[00:51:28 -2694.470686] SLOW spr round 3 (radius: 10)
[00:51:36 -2612.524886] SLOW spr round 4 (radius: 5)
[00:51:44 -2612.524827] SLOW spr round 5 (radius: 10)
[00:51:53 -2595.194708] SLOW spr round 6 (radius: 5)
[00:52:01 -2586.056152] SLOW spr round 7 (radius: 5)
[00:52:08 -2586.056094] SLOW spr round 8 (radius: 10)
[00:52:16 -2586.056081] SLOW spr round 9 (radius: 15)
[00:52:26 -2586.056065] SLOW spr round 10 (radius: 20)
[00:52:36 -2586.056062] SLOW spr round 11 (radius: 25)
[00:52:45 -2586.056062] Model parameter optimization (eps = 0.100000)

[00:52:48] ML tree search #13, logLikelihood: -2585.854552

[00:52:48 -11604.370647] Initial branch length optimization
[00:52:48 -8670.876448] Model parameter optimization (eps = 10.000000)
[00:52:52 -8657.366572] AUTODETECT spr round 1 (radius: 5)
[00:52:57 -5095.404417] AUTODETECT spr round 2 (radius: 10)
[00:53:04 -3844.795301] AUTODETECT spr round 3 (radius: 15)
[00:53:11 -3549.933122] AUTODETECT spr round 4 (radius: 20)
[00:53:20 -2895.909304] AUTODETECT spr round 5 (radius: 25)
[00:53:29 -2845.718590] SPR radius for FAST iterations: 25 (autodetect)
[00:53:29 -2845.718590] Model parameter optimization (eps = 3.000000)
[00:53:34 -2821.829837] FAST spr round 1 (radius: 25)
[00:53:41 -2661.009103] FAST spr round 2 (radius: 25)
[00:53:49 -2621.839511] FAST spr round 3 (radius: 25)
[00:53:56 -2620.721643] FAST spr round 4 (radius: 25)
[00:54:02 -2620.721466] Model parameter optimization (eps = 1.000000)
[00:54:06 -2617.705761] SLOW spr round 1 (radius: 5)
[00:54:14 -2617.506188] SLOW spr round 2 (radius: 5)
[00:54:21 -2617.504051] SLOW spr round 3 (radius: 10)
[00:54:30 -2605.278313] SLOW spr round 4 (radius: 5)
[00:54:38 -2604.610381] SLOW spr round 5 (radius: 5)
[00:54:45 -2604.610051] SLOW spr round 6 (radius: 10)
[00:54:54 -2604.610026] SLOW spr round 7 (radius: 15)
[00:55:03 -2600.005879] SLOW spr round 8 (radius: 5)
[00:55:12 -2600.005354] SLOW spr round 9 (radius: 10)
[00:55:21 -2600.005307] SLOW spr round 10 (radius: 15)
[00:55:30 -2600.005298] SLOW spr round 11 (radius: 20)
[00:55:41 -2596.194730] SLOW spr round 12 (radius: 5)
[00:55:50 -2596.194092] SLOW spr round 13 (radius: 10)
[00:55:59 -2596.193951] SLOW spr round 14 (radius: 15)
[00:56:07 -2596.193919] SLOW spr round 15 (radius: 20)
[00:56:18 -2596.193912] SLOW spr round 16 (radius: 25)
[00:56:27 -2596.193911] Model parameter optimization (eps = 0.100000)

[00:56:30] ML tree search #14, logLikelihood: -2596.076179

[00:56:30 -11787.413136] Initial branch length optimization
[00:56:30 -8764.576032] Model parameter optimization (eps = 10.000000)
[00:56:35 -8660.087487] AUTODETECT spr round 1 (radius: 5)
[00:56:40 -5092.806629] AUTODETECT spr round 2 (radius: 10)
[00:56:47 -3816.971179] AUTODETECT spr round 3 (radius: 15)
[00:56:56 -3212.539411] AUTODETECT spr round 4 (radius: 20)
[00:57:04 -2996.368900] AUTODETECT spr round 5 (radius: 25)
[00:57:12 -2992.953771] SPR radius for FAST iterations: 25 (autodetect)
[00:57:12 -2992.953771] Model parameter optimization (eps = 3.000000)
[00:57:24 -2952.339789] FAST spr round 1 (radius: 25)
[00:57:32 -2746.930421] FAST spr round 2 (radius: 25)
[00:57:40 -2725.182935] FAST spr round 3 (radius: 25)
[00:57:47 -2707.810517] FAST spr round 4 (radius: 25)
[00:57:53 -2707.810507] Model parameter optimization (eps = 1.000000)
[00:57:57 -2706.032786] SLOW spr round 1 (radius: 5)
[00:58:04 -2705.688923] SLOW spr round 2 (radius: 5)
[00:58:12 -2705.688727] SLOW spr round 3 (radius: 10)
[00:58:20 -2705.688606] SLOW spr round 4 (radius: 15)
[00:58:30 -2701.378511] SLOW spr round 5 (radius: 5)
[00:58:39 -2701.378434] SLOW spr round 6 (radius: 10)
[00:58:48 -2700.896161] SLOW spr round 7 (radius: 5)
[00:58:56 -2700.896063] SLOW spr round 8 (radius: 10)
[00:59:05 -2700.896058] SLOW spr round 9 (radius: 15)
[00:59:14 -2700.896058] SLOW spr round 10 (radius: 20)
[00:59:25 -2596.157449] SLOW spr round 11 (radius: 5)
[00:59:35 -2586.307613] SLOW spr round 12 (radius: 5)
[00:59:43 -2585.198589] SLOW spr round 13 (radius: 5)
[00:59:50 -2585.198442] SLOW spr round 14 (radius: 10)
[00:59:58 -2585.198427] SLOW spr round 15 (radius: 15)
[01:00:06 -2585.198425] SLOW spr round 16 (radius: 20)
[01:00:16 -2585.198425] SLOW spr round 17 (radius: 25)
[01:00:25 -2585.198425] Model parameter optimization (eps = 0.100000)

[01:00:27] ML tree search #15, logLikelihood: -2585.075293

[01:00:27 -12067.596788] Initial branch length optimization
[01:00:27 -8926.470425] Model parameter optimization (eps = 10.000000)
[01:00:32 -8907.071712] AUTODETECT spr round 1 (radius: 5)
[01:00:38 -4778.899073] AUTODETECT spr round 2 (radius: 10)
[01:00:44 -3897.951303] AUTODETECT spr round 3 (radius: 15)
[01:00:52 -3067.468121] AUTODETECT spr round 4 (radius: 20)
[01:01:01 -2897.395309] AUTODETECT spr round 5 (radius: 25)
[01:01:09 -2873.225082] SPR radius for FAST iterations: 25 (autodetect)
[01:01:09 -2873.225082] Model parameter optimization (eps = 3.000000)
[01:01:18 -2847.428036] FAST spr round 1 (radius: 25)
[01:01:27 -2618.607134] FAST spr round 2 (radius: 25)
[01:01:34 -2599.270993] FAST spr round 3 (radius: 25)
[01:01:41 -2599.043727] FAST spr round 4 (radius: 25)
[01:01:47 -2599.043686] Model parameter optimization (eps = 1.000000)
[01:01:50 -2598.580176] SLOW spr round 1 (radius: 5)
[01:01:57 -2593.225152] SLOW spr round 2 (radius: 5)
[01:02:05 -2593.013079] SLOW spr round 3 (radius: 5)
[01:02:12 -2593.012580] SLOW spr round 4 (radius: 10)
[01:02:20 -2593.012499] SLOW spr round 5 (radius: 15)
[01:02:28 -2591.009642] SLOW spr round 6 (radius: 5)
[01:02:37 -2591.002265] SLOW spr round 7 (radius: 10)
[01:02:45 -2586.855921] SLOW spr round 8 (radius: 5)
[01:02:53 -2586.854176] SLOW spr round 9 (radius: 10)
[01:03:01 -2586.853997] SLOW spr round 10 (radius: 15)
[01:03:09 -2586.853978] SLOW spr round 11 (radius: 20)
[01:03:20 -2586.516280] SLOW spr round 12 (radius: 5)
[01:03:29 -2585.706856] SLOW spr round 13 (radius: 5)
[01:03:37 -2585.700839] SLOW spr round 14 (radius: 10)
[01:03:45 -2585.700622] SLOW spr round 15 (radius: 15)
[01:03:54 -2585.700617] SLOW spr round 16 (radius: 20)
[01:04:04 -2585.504612] SLOW spr round 17 (radius: 5)
[01:04:13 -2585.503625] SLOW spr round 18 (radius: 10)
[01:04:22 -2585.503521] SLOW spr round 19 (radius: 15)
[01:04:30 -2585.503503] SLOW spr round 20 (radius: 20)
[01:04:40 -2585.503499] SLOW spr round 21 (radius: 25)
[01:04:50 -2578.470786] SLOW spr round 22 (radius: 5)
[01:04:59 -2578.470781] SLOW spr round 23 (radius: 10)
[01:05:08 -2578.464502] SLOW spr round 24 (radius: 15)
[01:05:16 -2578.464475] SLOW spr round 25 (radius: 20)
[01:05:26 -2577.906872] SLOW spr round 26 (radius: 5)
[01:05:35 -2577.906864] SLOW spr round 27 (radius: 10)
[01:05:44 -2577.906864] SLOW spr round 28 (radius: 15)
[01:05:52 -2577.906864] SLOW spr round 29 (radius: 20)
[01:06:01 -2577.906864] SLOW spr round 30 (radius: 25)
[01:06:10 -2577.906864] Model parameter optimization (eps = 0.100000)

[01:06:12] ML tree search #16, logLikelihood: -2577.825219

[01:06:12 -11997.431100] Initial branch length optimization
[01:06:12 -8871.068161] Model parameter optimization (eps = 10.000000)
[01:06:17 -8843.665509] AUTODETECT spr round 1 (radius: 5)
[01:06:23 -4826.860611] AUTODETECT spr round 2 (radius: 10)
[01:06:29 -3788.688248] AUTODETECT spr round 3 (radius: 15)
[01:06:37 -3420.299962] AUTODETECT spr round 4 (radius: 20)
[01:06:45 -3127.130134] AUTODETECT spr round 5 (radius: 25)
[01:06:53 -3000.334490] SPR radius for FAST iterations: 25 (autodetect)
[01:06:53 -3000.334490] Model parameter optimization (eps = 3.000000)
[01:06:58 -2956.585241] FAST spr round 1 (radius: 25)
[01:07:06 -2724.089016] FAST spr round 2 (radius: 25)
[01:07:13 -2709.161231] FAST spr round 3 (radius: 25)
[01:07:20 -2709.067791] Model parameter optimization (eps = 1.000000)
[01:07:25 -2704.782879] SLOW spr round 1 (radius: 5)
[01:07:32 -2701.612617] SLOW spr round 2 (radius: 5)
[01:07:40 -2700.139006] SLOW spr round 3 (radius: 5)
[01:07:47 -2700.138514] SLOW spr round 4 (radius: 10)
[01:07:55 -2698.486396] SLOW spr round 5 (radius: 5)
[01:08:03 -2696.387516] SLOW spr round 6 (radius: 5)
[01:08:10 -2696.386738] SLOW spr round 7 (radius: 10)
[01:08:19 -2695.926730] SLOW spr round 8 (radius: 5)
[01:08:26 -2695.926722] SLOW spr round 9 (radius: 10)
[01:08:35 -2695.582887] SLOW spr round 10 (radius: 5)
[01:08:42 -2695.582862] SLOW spr round 11 (radius: 10)
[01:08:50 -2695.582859] SLOW spr round 12 (radius: 15)
[01:09:00 -2685.111605] SLOW spr round 13 (radius: 5)
[01:09:08 -2685.110892] SLOW spr round 14 (radius: 10)
[01:09:16 -2685.110826] SLOW spr round 15 (radius: 15)
[01:09:25 -2684.833336] SLOW spr round 16 (radius: 5)
[01:09:34 -2682.882620] SLOW spr round 17 (radius: 5)
[01:09:42 -2682.882513] SLOW spr round 18 (radius: 10)
[01:09:50 -2682.882511] SLOW spr round 19 (radius: 15)
[01:09:58 -2680.663212] SLOW spr round 20 (radius: 5)
[01:10:07 -2674.946803] SLOW spr round 21 (radius: 5)
[01:10:15 -2674.946587] SLOW spr round 22 (radius: 10)
[01:10:23 -2674.946580] SLOW spr round 23 (radius: 15)
[01:10:31 -2674.946579] SLOW spr round 24 (radius: 20)
[01:10:40 -2674.946579] SLOW spr round 25 (radius: 25)
[01:10:49 -2670.536691] SLOW spr round 26 (radius: 5)
[01:10:58 -2670.536627] SLOW spr round 27 (radius: 10)
[01:11:07 -2670.536626] SLOW spr round 28 (radius: 15)
[01:11:15 -2670.536626] SLOW spr round 29 (radius: 20)
[01:11:24 -2670.536626] SLOW spr round 30 (radius: 25)
[01:11:33 -2670.536626] Model parameter optimization (eps = 0.100000)

[01:11:36] ML tree search #17, logLikelihood: -2670.356579

[01:11:36 -11987.277300] Initial branch length optimization
[01:11:36 -8916.043973] Model parameter optimization (eps = 10.000000)
[01:11:42 -8818.740664] AUTODETECT spr round 1 (radius: 5)
[01:11:47 -4814.025485] AUTODETECT spr round 2 (radius: 10)
[01:11:54 -3867.140322] AUTODETECT spr round 3 (radius: 15)
[01:12:01 -3263.550094] AUTODETECT spr round 4 (radius: 20)
[01:12:09 -3092.666767] AUTODETECT spr round 5 (radius: 25)
[01:12:18 -2924.220717] SPR radius for FAST iterations: 25 (autodetect)
[01:12:18 -2924.220717] Model parameter optimization (eps = 3.000000)
[01:12:26 -2887.506462] FAST spr round 1 (radius: 25)
[01:12:33 -2688.334573] FAST spr round 2 (radius: 25)
[01:12:41 -2641.309957] FAST spr round 3 (radius: 25)
[01:12:48 -2639.546601] FAST spr round 4 (radius: 25)
[01:12:54 -2639.546508] Model parameter optimization (eps = 1.000000)
[01:12:59 -2636.660967] SLOW spr round 1 (radius: 5)
[01:13:06 -2635.662285] SLOW spr round 2 (radius: 5)
[01:13:13 -2635.548694] SLOW spr round 3 (radius: 5)
[01:13:20 -2635.548290] SLOW spr round 4 (radius: 10)
[01:13:28 -2605.553518] SLOW spr round 5 (radius: 5)
[01:13:37 -2595.630957] SLOW spr round 6 (radius: 5)
[01:13:44 -2595.630162] SLOW spr round 7 (radius: 10)
[01:13:52 -2595.630109] SLOW spr round 8 (radius: 15)
[01:14:01 -2591.971462] SLOW spr round 9 (radius: 5)
[01:14:10 -2591.376520] SLOW spr round 10 (radius: 5)
[01:14:18 -2591.376409] SLOW spr round 11 (radius: 10)
[01:14:25 -2591.376405] SLOW spr round 12 (radius: 15)
[01:14:35 -2591.376404] SLOW spr round 13 (radius: 20)
[01:14:44 -2591.376404] SLOW spr round 14 (radius: 25)
[01:14:54 -2589.721266] SLOW spr round 15 (radius: 5)
[01:15:04 -2589.720791] SLOW spr round 16 (radius: 10)
[01:15:12 -2584.976780] SLOW spr round 17 (radius: 5)
[01:15:20 -2584.976682] SLOW spr round 18 (radius: 10)
[01:15:28 -2584.976680] SLOW spr round 19 (radius: 15)
[01:15:37 -2584.976680] SLOW spr round 20 (radius: 20)
[01:15:47 -2584.976680] SLOW spr round 21 (radius: 25)
[01:15:56 -2584.976680] Model parameter optimization (eps = 0.100000)

[01:16:00] ML tree search #18, logLikelihood: -2583.522261

[01:16:00 -12054.047962] Initial branch length optimization
[01:16:01 -8920.029898] Model parameter optimization (eps = 10.000000)
[01:16:06 -8886.282213] AUTODETECT spr round 1 (radius: 5)
[01:16:11 -4905.279723] AUTODETECT spr round 2 (radius: 10)
[01:16:18 -3858.673999] AUTODETECT spr round 3 (radius: 15)
[01:16:25 -3421.591061] AUTODETECT spr round 4 (radius: 20)
[01:16:33 -3215.865919] AUTODETECT spr round 5 (radius: 25)
[01:16:42 -2983.976734] SPR radius for FAST iterations: 25 (autodetect)
[01:16:42 -2983.976734] Model parameter optimization (eps = 3.000000)
[01:16:51 -2941.614808] FAST spr round 1 (radius: 25)
[01:16:59 -2687.514740] FAST spr round 2 (radius: 25)
[01:17:06 -2670.631434] FAST spr round 3 (radius: 25)
[01:17:13 -2667.526572] FAST spr round 4 (radius: 25)
[01:17:20 -2667.525964] Model parameter optimization (eps = 1.000000)
[01:17:23 -2666.374997] SLOW spr round 1 (radius: 5)
[01:17:30 -2665.954782] SLOW spr round 2 (radius: 5)
[01:17:37 -2665.954072] SLOW spr round 3 (radius: 10)
[01:17:45 -2660.362884] SLOW spr round 4 (radius: 5)
[01:17:53 -2660.362567] SLOW spr round 5 (radius: 10)
[01:18:01 -2658.823481] SLOW spr round 6 (radius: 5)
[01:18:09 -2658.823410] SLOW spr round 7 (radius: 10)
[01:18:17 -2658.823393] SLOW spr round 8 (radius: 15)
[01:18:26 -2634.122636] SLOW spr round 9 (radius: 5)
[01:18:35 -2609.197296] SLOW spr round 10 (radius: 5)
[01:18:43 -2609.196401] SLOW spr round 11 (radius: 10)
[01:18:51 -2609.196236] SLOW spr round 12 (radius: 15)
[01:18:59 -2606.193955] SLOW spr round 13 (radius: 5)
[01:19:08 -2604.977336] SLOW spr round 14 (radius: 5)
[01:19:15 -2604.977334] SLOW spr round 15 (radius: 10)
[01:19:23 -2604.977334] SLOW spr round 16 (radius: 15)
[01:19:32 -2604.977334] SLOW spr round 17 (radius: 20)
[01:19:42 -2586.147073] SLOW spr round 18 (radius: 5)
[01:19:51 -2585.125689] SLOW spr round 19 (radius: 5)
[01:19:58 -2585.125535] SLOW spr round 20 (radius: 10)
[01:20:06 -2585.125520] SLOW spr round 21 (radius: 15)
[01:20:14 -2585.125519] SLOW spr round 22 (radius: 20)
[01:20:23 -2583.962459] SLOW spr round 23 (radius: 5)
[01:20:32 -2583.962381] SLOW spr round 24 (radius: 10)
[01:20:40 -2583.962377] SLOW spr round 25 (radius: 15)
[01:20:48 -2583.962376] SLOW spr round 26 (radius: 20)
[01:20:57 -2583.962375] SLOW spr round 27 (radius: 25)
[01:21:06 -2583.962375] Model parameter optimization (eps = 0.100000)

[01:21:08] ML tree search #19, logLikelihood: -2583.580130

[01:21:08 -11985.091128] Initial branch length optimization
[01:21:09 -8874.048940] Model parameter optimization (eps = 10.000000)
[01:21:13 -8848.492314] AUTODETECT spr round 1 (radius: 5)
[01:21:18 -4878.872631] AUTODETECT spr round 2 (radius: 10)
[01:21:25 -3743.783578] AUTODETECT spr round 3 (radius: 15)
[01:21:32 -3263.365815] AUTODETECT spr round 4 (radius: 20)
[01:21:40 -3077.051334] AUTODETECT spr round 5 (radius: 25)
[01:21:48 -2935.782961] SPR radius for FAST iterations: 25 (autodetect)
[01:21:48 -2935.782961] Model parameter optimization (eps = 3.000000)
[01:21:53 -2913.886026] FAST spr round 1 (radius: 25)
[01:22:01 -2635.392387] FAST spr round 2 (radius: 25)
[01:22:08 -2623.005542] FAST spr round 3 (radius: 25)
[01:22:15 -2623.003035] Model parameter optimization (eps = 1.000000)
[01:22:19 -2619.585913] SLOW spr round 1 (radius: 5)
[01:22:27 -2617.389626] SLOW spr round 2 (radius: 5)
[01:22:35 -2617.388324] SLOW spr round 3 (radius: 10)
[01:22:43 -2617.192421] SLOW spr round 4 (radius: 5)
[01:22:52 -2610.425688] SLOW spr round 5 (radius: 5)
[01:22:59 -2610.425482] SLOW spr round 6 (radius: 10)
[01:23:08 -2610.425451] SLOW spr round 7 (radius: 15)
[01:23:16 -2609.587757] SLOW spr round 8 (radius: 5)
[01:23:26 -2609.549689] SLOW spr round 9 (radius: 10)
[01:23:34 -2609.549554] SLOW spr round 10 (radius: 15)
[01:23:43 -2609.549521] SLOW spr round 11 (radius: 20)
[01:23:53 -2609.549510] SLOW spr round 12 (radius: 25)
[01:24:01 -2596.461671] SLOW spr round 13 (radius: 5)
[01:24:11 -2578.850160] SLOW spr round 14 (radius: 5)
[01:24:19 -2578.849967] SLOW spr round 15 (radius: 10)
[01:24:27 -2578.849955] SLOW spr round 16 (radius: 15)
[01:24:36 -2576.978810] SLOW spr round 17 (radius: 5)
[01:24:45 -2576.978725] SLOW spr round 18 (radius: 10)
[01:24:54 -2576.978721] SLOW spr round 19 (radius: 15)
[01:25:02 -2576.978721] SLOW spr round 20 (radius: 20)
[01:25:11 -2576.978721] SLOW spr round 21 (radius: 25)
[01:25:20 -2576.491301] SLOW spr round 22 (radius: 5)
[01:25:30 -2576.491212] SLOW spr round 23 (radius: 10)
[01:25:39 -2576.491208] SLOW spr round 24 (radius: 15)
[01:25:47 -2576.491207] SLOW spr round 25 (radius: 20)
[01:25:56 -2576.491207] SLOW spr round 26 (radius: 25)
[01:26:05 -2576.491207] Model parameter optimization (eps = 0.100000)

[01:26:07] ML tree search #20, logLikelihood: -2576.435073


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.370325,0.390235) (0.068677,0.909998) (0.362362,1.193625) (0.198635,1.814711) 
   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: -2576.435073

AIC score: 6230.870147 / AICc score: 588350.870147 / BIC score: 7167.474071
Free parameters (model + branch lengths): 539

WARNING: Number of free parameters (K=539) is larger than alignment size (n=42).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/3_mltree/P01308.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/3_mltree/P01308.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/3_mltree/P01308.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/P01308/3_mltree/P01308.raxml.log

Analysis started: 02-Jun-2021 23:23:46 / finished: 03-Jun-2021 00:49:54

Elapsed time: 5167.427 seconds