RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab.
Developed by: Alexey M. Kozlov and Alexandros Stamatakis.
Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth.
Latest version: https://github.com/amkozlov/raxml-ng
Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml

System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM

RAxML-NG was called at 03-Jul-2021 21:47:13 as follows:

raxml-ng --msa /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/2_msa/Q86YA3_trimmed_msa.fasta --data-type AA --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/3_mltree/Q86YA3 --seed 2 --threads 7 --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 (7 threads), thread pinning: OFF

[00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/2_msa/Q86YA3_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 555 sites

WARNING: Sequences tr_V7CEN9_V7CEN9_PHAVU_3885 and tr_I1LGX2_I1LGX2_SOYBN_3847 are exactly identical!
WARNING: Sequences tr_V7CEN9_V7CEN9_PHAVU_3885 and tr_A0A0L9UQQ5_A0A0L9UQQ5_PHAAN_3914 are exactly identical!
WARNING: Sequences tr_V7CEN9_V7CEN9_PHAVU_3885 and tr_A0A151TIY4_A0A151TIY4_CAJCA_3821 are exactly identical!
WARNING: Sequences tr_V7CEN9_V7CEN9_PHAVU_3885 and tr_A0A1S3VRN7_A0A1S3VRN7_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_M3YVP4_M3YVP4_MUSPF_9669 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_G1PJW3_G1PJW3_MYOLU_59463 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_G3QJH7_G3QJH7_GORGO_9595 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_E2RL81_E2RL81_CANLF_9615 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2I3RWB5_A0A2I3RWB5_PANTR_9598 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_F7E550_F7E550_ORNAN_9258 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_F7FAH9_F7FAH9_MONDO_13616 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_F7D007_F7D007_HORSE_9796 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_W5PM50_W5PM50_SHEEP_9940 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A287D9H5_A0A287D9H5_ICTTR_43179 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_H0X7W8_H0X7W8_OTOGA_30611 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_H0VY86_H0VY86_CAVPO_10141 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and sp_Q92900_RENT1_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_F7FFJ3_F7FFJ3_MACMU_9544 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_G3U647_G3U647_LOXAF_9785 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_G3W9Z2_G3W9Z2_SARHA_9305 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_F7HDF7_F7HDF7_CALJA_9483 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A287BFP7_A0A287BFP7_PIG_9823 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_G1LYD2_G1LYD2_AILME_9646 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_E1BEK9_E1BEK9_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_M3WC21_M3WC21_FELCA_9685 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_U3K3X3_U3K3X3_FICAL_59894 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_U3INS3_U3INS3_ANAPL_8839 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2I3MB73_A0A2I3MB73_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A0D9QZ01_A0A0D9QZ01_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A151P187_A0A151P187_ALLMI_8496 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A091EFI7_A0A091EFI7_CORBR_85066 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A091JFB2_A0A091JFB2_EGRGA_188379 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A093PXL0_A0A093PXL0_9PASS_328815 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A091V3N0_A0A091V3N0_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A087R321_A0A087R321_APTFO_9233 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A093HN62_A0A093HN62_STRCA_441894 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A091X2M4_A0A091X2M4_OPIHO_30419 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A091H5T2_A0A091H5T2_9AVES_55661 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A0A0APW8_A0A0A0APW8_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A091J3P1_A0A091J3P1_CALAN_9244 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A1S3AD93_A0A1S3AD93_ERIEU_9365 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A1L8HN47_A0A1L8HN47_XENLA_8355 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A1L8HWC1_A0A1L8HWC1_XENLA_8355 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A3Q0DLF8_A0A3Q0DLF8_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A1V4KQH3_A0A1V4KQH3_PATFA_372326 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A226MM45_A0A226MM45_CALSU_9009 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A226NZ98_A0A226NZ98_COLVI_9014 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2K5NBM5_A0A2K5NBM5_CERAT_9531 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2K6ALR1_A0A2K6ALR1_MACNE_9545 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2K5XYX5_A0A2K5XYX5_MANLE_9568 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2R9CSY2_A0A2R9CSY2_PANPA_9597 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2U4AL74_A0A2U4AL74_TURTR_9739 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2U3W8W2_A0A2U3W8W2_ODORO_9708 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2Y9FZH5_A0A2Y9FZH5_TRIMA_127582 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2Y9J0Z4_A0A2Y9J0Z4_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2Y9M426_A0A2Y9M426_DELLE_9749 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A2Y9F7V0_A0A2Y9F7V0_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A384D5N5_A0A384D5N5_URSMA_29073 are exactly identical!
WARNING: Sequences tr_E1C0J4_E1C0J4_CHICK_9031 and tr_A0A384B783_A0A384B783_BALAS_310752 are exactly identical!
WARNING: Sequences sp_Q9EPU0_RENT1_MOUSE_10090 and tr_A0A0U1RS25_A0A0U1RS25_RAT_10116 are exactly identical!
WARNING: Sequences sp_Q9EPU0_RENT1_MOUSE_10090 and tr_A0A3Q0CDU6_A0A3Q0CDU6_MESAU_10036 are exactly identical!
WARNING: Sequences tr_H2LWX5_H2LWX5_ORYLA_8090 and tr_I3K4H4_I3K4H4_ORENI_8128 are exactly identical!
WARNING: Sequences tr_J3K905_J3K905_COCIM_246410 and tr_E9DI37_E9DI37_COCPS_443226 are exactly identical!
WARNING: Sequences tr_J3K905_J3K905_COCIM_246410 and tr_A0A0J6Y8E4_A0A0J6Y8E4_COCIT_404692 are exactly identical!
WARNING: Sequences tr_B6QCK9_B6QCK9_TALMQ_441960 and tr_A0A093XID1_A0A093XID1_TALMA_1077442 are exactly identical!
WARNING: Sequences tr_B6QCK9_B6QCK9_TALMQ_441960 and tr_A0A2H3IHD9_A0A2H3IHD9_9EURO_290292 are exactly identical!
WARNING: Sequences tr_B2WIV2_B2WIV2_PYRTR_426418 and tr_A0A2W1DLH5_A0A2W1DLH5_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_C0NNJ3_C0NNJ3_AJECG_447093 and tr_A0A179U8M2_A0A179U8M2_BLAGS_559298 are exactly identical!
WARNING: Sequences tr_C0NNJ3_C0NNJ3_AJECG_447093 and tr_C5GIH5_C5GIH5_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_C0NNJ3_C0NNJ3_AJECG_447093 and tr_C6HFT1_C6HFT1_AJECH_544712 are exactly identical!
WARNING: Sequences tr_C0NNJ3_C0NNJ3_AJECG_447093 and tr_F0UMG1_F0UMG1_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_C0NNJ3_C0NNJ3_AJECG_447093 and tr_A6QTP5_A6QTP5_AJECN_339724 are exactly identical!
WARNING: Sequences tr_C0NNJ3_C0NNJ3_AJECG_447093 and tr_A0A1J9Q0T1_A0A1J9Q0T1_9EURO_1658174 are exactly identical!
WARNING: Sequences tr_B8N676_B8N676_ASPFN_332952 and tr_Q2UCH7_Q2UCH7_ASPOR_510516 are exactly identical!
WARNING: Sequences tr_B8N676_B8N676_ASPFN_332952 and tr_A0A0F0IG97_A0A0F0IG97_ASPPU_1403190 are exactly identical!
WARNING: Sequences tr_B8N676_B8N676_ASPFN_332952 and tr_A0A1S9DQD0_A0A1S9DQD0_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_B8N676_B8N676_ASPFN_332952 and tr_A0A2G7G7H9_A0A2G7G7H9_9EURO_656916 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_W7LX99_W7LX99_GIBM7_334819 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_A0A0D2XNG4_A0A0D2XNG4_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_S0E1I0_S0E1I0_GIBF5_1279085 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_X0CIY9_X0CIY9_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_I1RZS7_I1RZS7_GIBZE_229533 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_A0A1B8B865_A0A1B8B865_FUSPO_36050 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_A0A2H3SW07_A0A2H3SW07_FUSOX_5507 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_A0A2H3GY76_A0A2H3GY76_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_A0A2K0WBG5_A0A2K0WBG5_GIBNY_42673 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_A0A2T4GGH1_A0A2T4GGH1_FUSCU_5516 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_A0A2L2TMI9_A0A2L2TMI9_9HYPO_56646 are exactly identical!
WARNING: Sequences tr_F9FS40_F9FS40_FUSOF_660025 and tr_A0A365MXW4_A0A365MXW4_GIBIN_948311 are exactly identical!
WARNING: Sequences tr_E9EZX2_E9EZX2_METRA_655844 and tr_A0A0B4I8Z9_A0A0B4I8Z9_METMF_1276143 are exactly identical!
WARNING: Sequences tr_E9QTE7_E9QTE7_ASPFU_330879 and tr_A1D2B4_A1D2B4_NEOFI_331117 are exactly identical!
WARNING: Sequences tr_E9QTE7_E9QTE7_ASPFU_330879 and tr_A0A0S7DYZ0_A0A0S7DYZ0_9EURO_293939 are exactly identical!
WARNING: Sequences tr_E4USV3_E4USV3_ARTGP_535722 and tr_D4ARE7_D4ARE7_ARTBC_663331 are exactly identical!
WARNING: Sequences tr_J4KN16_J4KN16_BEAB2_655819 and tr_A0A0A2VX51_A0A0A2VX51_BEABA_1245745 are exactly identical!
WARNING: Sequences tr_M3ZK10_M3ZK10_XIPMA_8083 and tr_A0A087X4Q5_A0A087X4Q5_POEFO_48698 are exactly identical!
WARNING: Sequences tr_M3ZK10_M3ZK10_XIPMA_8083 and tr_A0A2I4CUP0_A0A2I4CUP0_9TELE_52670 are exactly identical!
WARNING: Sequences tr_A0A088A104_A0A088A104_APIME_7460 and tr_A0A0L7QUG9_A0A0L7QUG9_9HYME_597456 are exactly identical!
WARNING: Sequences tr_A0A088A104_A0A088A104_APIME_7460 and tr_A0A2A3ELK0_A0A2A3ELK0_APICC_94128 are exactly identical!
WARNING: Sequences tr_A0A158NDR3_A0A158NDR3_ATTCE_12957 and tr_A0A151X4G6_A0A151X4G6_9HYME_64791 are exactly identical!
WARNING: Sequences tr_A0A158NDR3_A0A158NDR3_ATTCE_12957 and tr_A0A195D7K7_A0A195D7K7_9HYME_471704 are exactly identical!
WARNING: Sequences tr_A0A158NDR3_A0A158NDR3_ATTCE_12957 and tr_A0A195BQY4_A0A195BQY4_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A158NDR3_A0A158NDR3_ATTCE_12957 and tr_A0A195EZE6_A0A195EZE6_9HYME_34720 are exactly identical!
WARNING: Sequences tr_A0A158NDR3_A0A158NDR3_ATTCE_12957 and tr_A0A195CLG1_A0A195CLG1_9HYME_456900 are exactly identical!
WARNING: Sequences tr_G9NW16_G9NW16_HYPAI_452589 and tr_A0A2P4Z6S5_A0A2P4Z6S5_9HYPO_398673 are exactly identical!
WARNING: Sequences tr_J3ML19_J3ML19_ORYBR_4533 and tr_I1QWM4_I1QWM4_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_J3NHF4_J3NHF4_GAGT3_644352 and tr_A0A0C4DZM6_A0A0C4DZM6_MAGP6_644358 are exactly identical!
WARNING: Sequences tr_A0A0E0I131_A0A0E0I131_ORYNI_4536 and tr_B8B6D2_B8B6D2_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0I131_A0A0E0I131_ORYNI_4536 and tr_I1QAT8_I1QAT8_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0I131_A0A0E0I131_ORYNI_4536 and tr_A0A0E0EBG9_A0A0E0EBG9_9ORYZ_40149 are exactly identical!
WARNING: Sequences tr_A0A0E0I131_A0A0E0I131_ORYNI_4536 and tr_A0A0E0Q8J8_A0A0E0Q8J8_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0I131_A0A0E0I131_ORYNI_4536 and tr_A0A0E0AK54_A0A0E0AK54_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0I131_A0A0E0I131_ORYNI_4536 and tr_A0A0E0LKW6_A0A0E0LKW6_ORYPU_4537 are exactly identical!
WARNING: Sequences tr_A0A0E0I131_A0A0E0I131_ORYNI_4536 and tr_Q0D6B1_Q0D6B1_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_A2QRH3_A2QRH3_ASPNC_425011 and tr_G7XNH3_G7XNH3_ASPKW_1033177 are exactly identical!
WARNING: Sequences tr_A2QRH3_A2QRH3_ASPNC_425011 and tr_G3YHG6_G3YHG6_ASPNA_380704 are exactly identical!
WARNING: Sequences tr_A2QRH3_A2QRH3_ASPNC_425011 and tr_A0A100IJE5_A0A100IJE5_ASPNG_5061 are exactly identical!
WARNING: Sequences tr_A2QRH3_A2QRH3_ASPNC_425011 and tr_A0A146FTK0_A0A146FTK0_9EURO_1069201 are exactly identical!
WARNING: Sequences tr_G2XUQ9_G2XUQ9_BOTF4_999810 and tr_M7TLN5_M7TLN5_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_F2PN61_F2PN61_TRIEC_559882 and tr_A0A059JIR6_A0A059JIR6_9EURO_1215338 are exactly identical!
WARNING: Sequences tr_L0P928_L0P928_PNEJ8_1209962 and tr_A0A0W4ZCZ9_A0A0W4ZCZ9_PNEJ7_1408657 are exactly identical!
WARNING: Sequences tr_L8FQX2_L8FQX2_PSED2_658429 and tr_A0A094CRK2_A0A094CRK2_9PEZI_1420910 are exactly identical!
WARNING: Sequences tr_L8FQX2_L8FQX2_PSED2_658429 and tr_A0A094GU29_A0A094GU29_9PEZI_1420912 are exactly identical!
WARNING: Sequences tr_L8FQX2_L8FQX2_PSED2_658429 and tr_A0A2P6FGT2_A0A2P6FGT2_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A287I1S7_A0A287I1S7_HORVV_112509 and tr_A0A1D5UW03_A0A1D5UW03_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A287I1S7_A0A287I1S7_HORVV_112509 and tr_A0A3B6AXE6_A0A3B6AXE6_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_U5H5X9_U5H5X9_USTV1_683840 and tr_A0A2X0MNX4_A0A2X0MNX4_9BASI_796604 are exactly identical!
WARNING: Sequences tr_W5M218_W5M218_LEPOC_7918 and tr_A0A0P7UJJ3_A0A0P7UJJ3_9TELE_113540 are exactly identical!
WARNING: Sequences tr_W2Q3V4_W2Q3V4_PHYPN_761204 and tr_A0A0W8CKT1_A0A0W8CKT1_PHYNI_4790 are exactly identical!
WARNING: Sequences tr_W2Q3V4_W2Q3V4_PHYPN_761204 and tr_W2L3E7_W2L3E7_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_S7Z3V6_S7Z3V6_PENO1_933388 and tr_A0A1Q5U250_A0A1Q5U250_9EURO_1316194 are exactly identical!
WARNING: Sequences tr_W9W806_W9W806_9EURO_1182544 and tr_A0A1C1CAK8_A0A1C1CAK8_9EURO_86049 are exactly identical!
WARNING: Sequences tr_A0A010RJV5_A0A010RJV5_9PEZI_1445577 and tr_A0A135V3U3_A0A135V3U3_9PEZI_1209931 are exactly identical!
WARNING: Sequences tr_A0A010RJV5_A0A010RJV5_9PEZI_1445577 and tr_A0A1G4BCK2_A0A1G4BCK2_9PEZI_1209926 are exactly identical!
WARNING: Sequences tr_A0A015KKB5_A0A015KKB5_9GLOM_1432141 and tr_A0A2H5RCW5_A0A2H5RCW5_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A044V7R3_A0A044V7R3_ONCVO_6282 and tr_A0A182DZI7_A0A182DZI7_ONCOC_42157 are exactly identical!
WARNING: Sequences tr_A0A084QEK0_A0A084QEK0_STAC4_1283841 and tr_A0A084REC0_A0A084REC0_STACH_1283842 are exactly identical!
WARNING: Sequences tr_A0A078HFJ9_A0A078HFJ9_BRANA_3708 and tr_A0A078I3F2_A0A078I3F2_BRANA_3708 are exactly identical!
WARNING: Sequences tr_A0A078HFJ9_A0A078HFJ9_BRANA_3708 and tr_A0A0D3AUT8_A0A0D3AUT8_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A0A2KY17_A0A0A2KY17_PENIT_40296 and tr_A0A0A2IUG9_A0A0A2IUG9_PENEN_27334 are exactly identical!
WARNING: Sequences tr_W6PX99_W6PX99_PENRF_1365484 and tr_A0A0G4P8K6_A0A0G4P8K6_PENCA_1429867 are exactly identical!
WARNING: Sequences tr_W6PX99_W6PX99_PENRF_1365484 and tr_A0A117NRI6_A0A117NRI6_9EURO_48697 are exactly identical!
WARNING: Sequences tr_W6PX99_W6PX99_PENRF_1365484 and tr_A0A1V6N9N4_A0A1V6N9N4_9EURO_60169 are exactly identical!
WARNING: Sequences tr_W6PX99_W6PX99_PENRF_1365484 and tr_A0A1V6R140_A0A1V6R140_9EURO_60172 are exactly identical!
WARNING: Sequences tr_A0A0F9X6M0_A0A0F9X6M0_TRIHA_5544 and tr_A0A2T4AL40_A0A2T4AL40_TRIHA_983964 are exactly identical!
WARNING: Sequences tr_A0A0K0F658_A0A0K0F658_STRVS_75913 and tr_A0A0N5CES7_A0A0N5CES7_STREA_174720 are exactly identical!
WARNING: Sequences tr_A0A0A1N5J9_A0A0A1N5J9_9FUNG_58291 and tr_A0A367JFR2_A0A367JFR2_9FUNG_86630 are exactly identical!
WARNING: Sequences tr_A0A0V0RX48_A0A0V0RX48_9BILA_6336 and tr_A0A0V1A360_A0A0V1A360_9BILA_990121 are exactly identical!
WARNING: Sequences tr_A0A0V1DC80_A0A0V1DC80_TRIBR_45882 and tr_A0A0V0X664_A0A0V0X664_9BILA_92179 are exactly identical!
WARNING: Sequences tr_A0A0V1DC80_A0A0V1DC80_TRIBR_45882 and tr_A0A0V0VJ50_A0A0V0VJ50_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1DC80_A0A0V1DC80_TRIBR_45882 and tr_A0A0V1L6U7_A0A0V1L6U7_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V1DC80_A0A0V1DC80_TRIBR_45882 and tr_A0A0V1P9P9_A0A0V1P9P9_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1DC80_A0A0V1DC80_TRIBR_45882 and tr_A0A0V0TZC7_A0A0V0TZC7_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A166XUS9_A0A166XUS9_9PEZI_708197 and tr_A0A162NYZ7_A0A162NYZ7_9PEZI_1573173 are exactly identical!
WARNING: Sequences tr_A0A194WD92_A0A194WD92_9PEZI_105487 and tr_A0A194V3T5_A0A194V3T5_9PEZI_694573 are exactly identical!
WARNING: Sequences tr_A0A1S3LWR0_A0A1S3LWR0_SALSA_8030 and tr_A0A060WTG3_A0A060WTG3_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3MNS3_A0A1S3MNS3_SALSA_8030 and tr_A0A060VYX7_A0A060VYX7_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1S3QZL1_A0A1S3QZL1_SALSA_8030 and tr_A0A060X7M4_A0A060X7M4_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1D1VWV5_A0A1D1VWV5_RAMVA_947166 and tr_A0A1D1VYA2_A0A1D1VYA2_RAMVA_947166 are exactly identical!
WARNING: Sequences tr_A0A1R1X811_A0A1R1X811_9FUNG_133412 and tr_A0A1R1XL96_A0A1R1XL96_9FUNG_133412 are exactly identical!
WARNING: Sequences tr_A0A1U8B2M6_A0A1U8B2M6_NELNU_4432 and tr_A0A1U8BE07_A0A1U8BE07_NELNU_4432 are exactly identical!
WARNING: Sequences tr_A0A2G3AF80_A0A2G3AF80_CAPAN_4072 and tr_A0A2G3DCA3_A0A2G3DCA3_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2G5VMI4_A0A2G5VMI4_9PELO_1611254 and tr_A0A2G5VMW2_A0A2G5VMW2_9PELO_1611254 are exactly identical!
WARNING: Sequences tr_A0A2N5T4E6_A0A2N5T4E6_9BASI_200324 and tr_A0A2N5VCN6_A0A2N5VCN6_9BASI_200324 are exactly identical!
WARNING: Sequences tr_A0A2P5BHX4_A0A2P5BHX4_TREOI_63057 and tr_A0A2P5BEC0_A0A2P5BEC0_PARAD_3476 are exactly identical!
WARNING: Duplicate sequences found: 164

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/3_mltree/Q86YA3.raxml.reduced.phy

Alignment comprises 1 partitions and 555 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 555 / 555
Gaps: 5.22 %
Invariant sites: 0.18 %


NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/3_mltree/Q86YA3.raxml.rba

Parallelization scheme autoconfig: 1 worker(s) x 7 thread(s)

Parallel reduction/worker buffer size: 1 KB  / 0 KB

[00:00:00] Generating 20 random starting tree(s) with 1001 taxa
[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 80 / 6400
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -733960.009077] Initial branch length optimization
[00:00:03 -572988.832607] Model parameter optimization (eps = 10.000000)
[00:00:24 -570762.311123] AUTODETECT spr round 1 (radius: 5)
[00:01:46 -398464.832012] AUTODETECT spr round 2 (radius: 10)
[00:03:18 -308457.080159] AUTODETECT spr round 3 (radius: 15)
[00:04:56 -266269.104872] AUTODETECT spr round 4 (radius: 20)
[00:06:44 -244710.967793] AUTODETECT spr round 5 (radius: 25)
[00:09:04 -232007.367488] SPR radius for FAST iterations: 25 (autodetect)
[00:09:04 -232007.367488] Model parameter optimization (eps = 3.000000)
[00:09:32 -231291.343369] FAST spr round 1 (radius: 25)
[00:11:19 -198727.660775] FAST spr round 2 (radius: 25)
[00:12:42 -197380.503340] FAST spr round 3 (radius: 25)
[00:13:56 -197315.922411] FAST spr round 4 (radius: 25)
[00:15:04 -197309.941225] FAST spr round 5 (radius: 25)
[00:16:09 -197305.267661] FAST spr round 6 (radius: 25)
[00:17:12 -197305.266919] Model parameter optimization (eps = 1.000000)
[00:17:26 -197290.194141] SLOW spr round 1 (radius: 5)
[00:18:44 -197248.472456] SLOW spr round 2 (radius: 5)
[00:20:02 -197244.339361] SLOW spr round 3 (radius: 5)
[00:21:18 -197244.338613] SLOW spr round 4 (radius: 10)
[00:22:38 -197242.318042] SLOW spr round 5 (radius: 5)
[00:24:14 -197239.979742] SLOW spr round 6 (radius: 5)
[00:25:40 -197239.978668] SLOW spr round 7 (radius: 10)
[00:27:03 -197239.978668] SLOW spr round 8 (radius: 15)
[00:28:55 -197239.978668] SLOW spr round 9 (radius: 20)
[00:31:32 -197238.776554] SLOW spr round 10 (radius: 5)
[00:33:12 -197238.776293] SLOW spr round 11 (radius: 10)
[00:34:44 -197238.776290] SLOW spr round 12 (radius: 15)
[00:36:33 -197238.776290] SLOW spr round 13 (radius: 20)
[00:39:10 -197238.776290] SLOW spr round 14 (radius: 25)
[00:42:11 -197236.059772] SLOW spr round 15 (radius: 5)
[00:43:54 -197168.147649] SLOW spr round 16 (radius: 5)
[00:45:25 -197163.610299] SLOW spr round 17 (radius: 5)
[00:46:50 -197160.453788] SLOW spr round 18 (radius: 5)
[00:48:10 -197159.290130] SLOW spr round 19 (radius: 5)
[00:49:28 -197159.289983] SLOW spr round 20 (radius: 10)
[00:50:47 -197159.289976] SLOW spr round 21 (radius: 15)
[00:52:45 -197159.289976] SLOW spr round 22 (radius: 20)
[00:55:20 -197159.289976] SLOW spr round 23 (radius: 25)
[00:58:26 -197159.289976] Model parameter optimization (eps = 0.100000)

[00:58:33] ML tree search #1, logLikelihood: -197159.178997

[00:58:33 -732484.515107] Initial branch length optimization
[00:58:36 -569038.449232] Model parameter optimization (eps = 10.000000)
[00:59:02 -566723.759171] AUTODETECT spr round 1 (radius: 5)
[01:00:25 -401654.503448] AUTODETECT spr round 2 (radius: 10)
[01:02:00 -302657.315835] AUTODETECT spr round 3 (radius: 15)
[01:03:40 -256759.609143] AUTODETECT spr round 4 (radius: 20)
[01:05:25 -237097.087913] AUTODETECT spr round 5 (radius: 25)
[01:07:26 -226893.713967] SPR radius for FAST iterations: 25 (autodetect)
[01:07:26 -226893.713967] Model parameter optimization (eps = 3.000000)
[01:07:33 -226835.848375] FAST spr round 1 (radius: 25)
[01:09:30 -199126.499540] FAST spr round 2 (radius: 25)
[01:10:59 -198268.200230] FAST spr round 3 (radius: 25)
[01:12:23 -198191.587188] FAST spr round 4 (radius: 25)
[01:13:33 -198186.397309] FAST spr round 5 (radius: 25)
[01:14:40 -198186.397256] Model parameter optimization (eps = 1.000000)
[01:15:08 -197242.992435] SLOW spr round 1 (radius: 5)
[01:16:32 -197189.467579] SLOW spr round 2 (radius: 5)
[01:17:56 -197180.666462] SLOW spr round 3 (radius: 5)
[01:19:15 -197180.666115] SLOW spr round 4 (radius: 10)
[01:20:37 -197175.204897] SLOW spr round 5 (radius: 5)
[01:22:17 -197163.986234] SLOW spr round 6 (radius: 5)
[01:23:44 -197163.584255] SLOW spr round 7 (radius: 5)
[01:25:06 -197163.583958] SLOW spr round 8 (radius: 10)
[01:26:27 -197163.583925] SLOW spr round 9 (radius: 15)
[01:28:23 -197163.583922] SLOW spr round 10 (radius: 20)
[01:31:01 -197163.583922] SLOW spr round 11 (radius: 25)
[01:34:06 -197163.583921] Model parameter optimization (eps = 0.100000)

[01:34:09] ML tree search #2, logLikelihood: -197163.548887

[01:34:10 -730319.791741] Initial branch length optimization
[01:34:12 -569656.998834] Model parameter optimization (eps = 10.000000)
[01:34:40 -567393.163000] AUTODETECT spr round 1 (radius: 5)
[01:36:03 -412799.208730] AUTODETECT spr round 2 (radius: 10)
[01:37:37 -320322.798505] AUTODETECT spr round 3 (radius: 15)
[01:39:17 -271092.052939] AUTODETECT spr round 4 (radius: 20)
[01:41:00 -247665.708169] AUTODETECT spr round 5 (radius: 25)
[01:43:07 -232071.825640] SPR radius for FAST iterations: 25 (autodetect)
[01:43:07 -232071.825640] Model parameter optimization (eps = 3.000000)
[01:43:34 -231245.452990] FAST spr round 1 (radius: 25)
[01:45:26 -198913.175754] FAST spr round 2 (radius: 25)
[01:46:50 -197380.039578] FAST spr round 3 (radius: 25)
[01:48:04 -197243.509858] FAST spr round 4 (radius: 25)
[01:49:12 -197231.814136] FAST spr round 5 (radius: 25)
[01:50:18 -197231.502997] FAST spr round 6 (radius: 25)
[01:51:23 -197229.030044] FAST spr round 7 (radius: 25)
[01:52:27 -197228.936453] Model parameter optimization (eps = 1.000000)
[01:52:39 -197221.693536] SLOW spr round 1 (radius: 5)
[01:53:54 -197177.399901] SLOW spr round 2 (radius: 5)
[01:55:12 -197173.383856] SLOW spr round 3 (radius: 5)
[01:56:29 -197173.382135] SLOW spr round 4 (radius: 10)
[01:57:49 -197172.390753] SLOW spr round 5 (radius: 5)
[01:59:23 -197172.389700] SLOW spr round 6 (radius: 10)
[02:00:49 -197172.389695] SLOW spr round 7 (radius: 15)
[02:02:39 -197172.389695] SLOW spr round 8 (radius: 20)
[02:05:16 -197172.389695] SLOW spr round 9 (radius: 25)
[02:08:16 -197172.389695] Model parameter optimization (eps = 0.100000)

[02:08:22] ML tree search #3, logLikelihood: -197172.248321

[02:08:22 -733804.335096] Initial branch length optimization
[02:08:25 -573873.529285] Model parameter optimization (eps = 10.000000)
[02:08:52 -571541.689797] AUTODETECT spr round 1 (radius: 5)
[02:10:16 -406421.661893] AUTODETECT spr round 2 (radius: 10)
[02:11:49 -318157.660196] AUTODETECT spr round 3 (radius: 15)
[02:13:33 -274041.861446] AUTODETECT spr round 4 (radius: 20)
[02:15:17 -247246.496759] AUTODETECT spr round 5 (radius: 25)
[02:17:24 -233162.183675] SPR radius for FAST iterations: 25 (autodetect)
[02:17:24 -233162.183675] Model parameter optimization (eps = 3.000000)
[02:17:50 -232276.697084] FAST spr round 1 (radius: 25)
[02:19:40 -198515.095098] FAST spr round 2 (radius: 25)
[02:21:07 -197349.280042] FAST spr round 3 (radius: 25)
[02:22:25 -197260.274830] FAST spr round 4 (radius: 25)
[02:23:34 -197260.273672] Model parameter optimization (eps = 1.000000)
[02:23:50 -197244.565645] SLOW spr round 1 (radius: 5)
[02:25:16 -197183.412668] SLOW spr round 2 (radius: 5)
[02:26:38 -197175.558393] SLOW spr round 3 (radius: 5)
[02:28:00 -197175.557769] SLOW spr round 4 (radius: 10)
[02:29:23 -197174.624969] SLOW spr round 5 (radius: 5)
[02:31:00 -197174.623857] SLOW spr round 6 (radius: 10)
[02:32:30 -197174.623752] SLOW spr round 7 (radius: 15)
[02:34:22 -197174.623653] SLOW spr round 8 (radius: 20)
[02:37:00 -197173.797249] SLOW spr round 9 (radius: 5)
[02:38:44 -197173.181649] SLOW spr round 10 (radius: 5)
[02:40:14 -197173.181264] SLOW spr round 11 (radius: 10)
[02:41:39 -197173.178946] SLOW spr round 12 (radius: 15)
[02:43:31 -197172.788724] SLOW spr round 13 (radius: 5)
[02:45:11 -197172.740099] SLOW spr round 14 (radius: 10)
[02:46:41 -197170.293888] SLOW spr round 15 (radius: 5)
[02:48:13 -197170.293882] SLOW spr round 16 (radius: 10)
[02:49:38 -197170.293882] SLOW spr round 17 (radius: 15)
[02:51:28 -197170.293882] SLOW spr round 18 (radius: 20)
[02:54:08 -197170.293882] SLOW spr round 19 (radius: 25)
[02:57:13 -197170.293882] Model parameter optimization (eps = 0.100000)

[02:57:18] ML tree search #4, logLikelihood: -197170.173055

[02:57:18 -731933.019253] Initial branch length optimization
[02:57:21 -567892.401785] Model parameter optimization (eps = 10.000000)
[02:57:51 -565636.646562] AUTODETECT spr round 1 (radius: 5)
[02:59:14 -406965.850624] AUTODETECT spr round 2 (radius: 10)
[03:00:47 -310721.699352] AUTODETECT spr round 3 (radius: 15)
[03:02:28 -270939.284650] AUTODETECT spr round 4 (radius: 20)
[03:04:20 -243002.669374] AUTODETECT spr round 5 (radius: 25)
[03:06:28 -232712.528426] SPR radius for FAST iterations: 25 (autodetect)
[03:06:28 -232712.528426] Model parameter optimization (eps = 3.000000)
[03:06:54 -231850.294331] FAST spr round 1 (radius: 25)
[03:08:45 -198367.954042] FAST spr round 2 (radius: 25)
[03:10:06 -197277.890892] FAST spr round 3 (radius: 25)
[03:11:18 -197215.291299] FAST spr round 4 (radius: 25)
[03:12:26 -197213.967261] FAST spr round 5 (radius: 25)
[03:13:30 -197213.966122] Model parameter optimization (eps = 1.000000)
[03:13:42 -197202.944288] SLOW spr round 1 (radius: 5)
[03:15:01 -197180.520264] SLOW spr round 2 (radius: 5)
[03:16:20 -197177.550095] SLOW spr round 3 (radius: 5)
[03:17:39 -197177.549913] SLOW spr round 4 (radius: 10)
[03:18:58 -197177.549887] SLOW spr round 5 (radius: 15)
[03:20:55 -197177.549831] SLOW spr round 6 (radius: 20)
[03:23:30 -197177.549651] SLOW spr round 7 (radius: 25)
[03:26:34 -197177.549589] Model parameter optimization (eps = 0.100000)

[03:26:37] ML tree search #5, logLikelihood: -197177.516597

[03:26:37 -727902.236246] Initial branch length optimization
[03:26:40 -570871.429444] Model parameter optimization (eps = 10.000000)
[03:27:06 -568494.875936] AUTODETECT spr round 1 (radius: 5)
[03:28:31 -410420.091803] AUTODETECT spr round 2 (radius: 10)
[03:30:04 -328067.351945] AUTODETECT spr round 3 (radius: 15)
[03:31:50 -271355.481435] AUTODETECT spr round 4 (radius: 20)
[03:33:37 -246136.163251] AUTODETECT spr round 5 (radius: 25)
[03:35:54 -233366.386327] SPR radius for FAST iterations: 25 (autodetect)
[03:35:54 -233366.386327] Model parameter optimization (eps = 3.000000)
[03:36:29 -232548.841077] FAST spr round 1 (radius: 25)
[03:38:21 -199089.975234] FAST spr round 2 (radius: 25)
[03:39:45 -197394.904439] FAST spr round 3 (radius: 25)
[03:41:05 -197242.966243] FAST spr round 4 (radius: 25)
[03:42:16 -197207.748972] FAST spr round 5 (radius: 25)
[03:43:24 -197207.746637] Model parameter optimization (eps = 1.000000)
[03:43:37 -197199.497127] SLOW spr round 1 (radius: 5)
[03:44:58 -197168.210743] SLOW spr round 2 (radius: 5)
[03:46:18 -197162.333940] SLOW spr round 3 (radius: 5)
[03:47:38 -197162.333038] SLOW spr round 4 (radius: 10)
[03:48:58 -197162.332897] SLOW spr round 5 (radius: 15)
[03:50:57 -197162.330546] SLOW spr round 6 (radius: 20)
[03:53:33 -197162.078294] SLOW spr round 7 (radius: 5)
[03:55:14 -197162.067217] SLOW spr round 8 (radius: 10)
[03:56:49 -197162.056074] SLOW spr round 9 (radius: 15)
[03:58:40 -197161.091172] SLOW spr round 10 (radius: 5)
[04:00:21 -197159.445451] SLOW spr round 11 (radius: 5)
[04:01:50 -197159.445253] SLOW spr round 12 (radius: 10)
[04:03:13 -197159.445250] SLOW spr round 13 (radius: 15)
[04:05:05 -197159.445250] SLOW spr round 14 (radius: 20)
[04:07:41 -197159.445250] SLOW spr round 15 (radius: 25)
[04:10:49 -197159.445250] Model parameter optimization (eps = 0.100000)

[04:10:55] ML tree search #6, logLikelihood: -197159.262280

[04:10:55 -731594.227518] Initial branch length optimization
[04:10:58 -572509.882949] Model parameter optimization (eps = 10.000000)
[04:11:31 -570231.225290] AUTODETECT spr round 1 (radius: 5)
[04:12:52 -409388.719928] AUTODETECT spr round 2 (radius: 10)
[04:14:29 -298352.336854] AUTODETECT spr round 3 (radius: 15)
[04:16:03 -259087.576463] AUTODETECT spr round 4 (radius: 20)
[04:17:53 -247866.356699] AUTODETECT spr round 5 (radius: 25)
[04:20:15 -230576.324748] SPR radius for FAST iterations: 25 (autodetect)
[04:20:15 -230576.324748] Model parameter optimization (eps = 3.000000)
[04:20:38 -229739.332092] FAST spr round 1 (radius: 25)
[04:22:29 -198938.953727] FAST spr round 2 (radius: 25)
[04:23:54 -197287.912938] FAST spr round 3 (radius: 25)
[04:25:11 -197223.489526] FAST spr round 4 (radius: 25)
[04:26:20 -197218.825417] FAST spr round 5 (radius: 25)
[04:27:25 -197218.825356] Model parameter optimization (eps = 1.000000)
[04:27:40 -197211.649570] SLOW spr round 1 (radius: 5)
[04:29:12 -197173.892063] SLOW spr round 2 (radius: 5)
[04:30:37 -197166.105850] SLOW spr round 3 (radius: 5)
[04:32:07 -197162.778190] SLOW spr round 4 (radius: 5)
[04:33:36 -197161.662212] SLOW spr round 5 (radius: 5)
[04:35:05 -197161.661684] SLOW spr round 6 (radius: 10)
[04:36:36 -197159.825242] SLOW spr round 7 (radius: 5)
[04:38:23 -197158.650698] SLOW spr round 8 (radius: 5)
[04:39:59 -197158.650636] SLOW spr round 9 (radius: 10)
[04:41:32 -197158.650438] SLOW spr round 10 (radius: 15)
[04:43:37 -197158.649872] SLOW spr round 11 (radius: 20)
[04:46:25 -197158.649871] SLOW spr round 12 (radius: 25)
[04:49:46 -197158.649855] Model parameter optimization (eps = 0.100000)

[04:49:50] ML tree search #7, logLikelihood: -197158.583056

[04:49:50 -731244.848574] Initial branch length optimization
[04:49:53 -568852.277459] Model parameter optimization (eps = 10.000000)
[04:50:15 -566531.415007] AUTODETECT spr round 1 (radius: 5)
[04:51:50 -403916.768568] AUTODETECT spr round 2 (radius: 10)
[04:53:34 -317626.156505] AUTODETECT spr round 3 (radius: 15)
[04:55:27 -271504.626113] AUTODETECT spr round 4 (radius: 20)
[04:57:25 -242811.859608] AUTODETECT spr round 5 (radius: 25)
[04:59:53 -233563.836759] SPR radius for FAST iterations: 25 (autodetect)
[04:59:53 -233563.836759] Model parameter optimization (eps = 3.000000)
[05:00:22 -232649.305012] FAST spr round 1 (radius: 25)
[05:02:15 -198591.440896] FAST spr round 2 (radius: 25)
[05:03:44 -197348.735769] FAST spr round 3 (radius: 25)
[05:05:03 -197267.433318] FAST spr round 4 (radius: 25)
[05:06:20 -197265.668377] FAST spr round 5 (radius: 25)
[05:07:33 -197263.915185] FAST spr round 6 (radius: 25)
[05:08:44 -197263.914716] Model parameter optimization (eps = 1.000000)
[05:08:58 -197252.909190] SLOW spr round 1 (radius: 5)
[05:10:24 -197215.381406] SLOW spr round 2 (radius: 5)
[05:11:53 -197206.003852] SLOW spr round 3 (radius: 5)
[05:13:23 -197205.380350] SLOW spr round 4 (radius: 5)
[05:14:46 -197205.380231] SLOW spr round 5 (radius: 10)
[05:16:15 -197205.380227] SLOW spr round 6 (radius: 15)
[05:18:20 -197205.380227] SLOW spr round 7 (radius: 20)
[05:21:04 -197205.377933] SLOW spr round 8 (radius: 25)
[05:24:26 -197201.129716] SLOW spr round 9 (radius: 5)
[05:26:21 -197193.867183] SLOW spr round 10 (radius: 5)
[05:28:02 -197193.867116] SLOW spr round 11 (radius: 10)
[05:29:36 -197193.867115] SLOW spr round 12 (radius: 15)
[05:31:37 -197193.867115] SLOW spr round 13 (radius: 20)
[05:34:21 -197193.867115] SLOW spr round 14 (radius: 25)
[05:37:40 -197193.867115] Model parameter optimization (eps = 0.100000)

[05:37:45] ML tree search #8, logLikelihood: -197193.785874

[05:37:45 -729540.712763] Initial branch length optimization
[05:37:48 -567603.212741] Model parameter optimization (eps = 10.000000)
[05:38:15 -565300.686736] AUTODETECT spr round 1 (radius: 5)
[05:39:47 -405312.840875] AUTODETECT spr round 2 (radius: 10)
[05:41:34 -316668.566013] AUTODETECT spr round 3 (radius: 15)
[05:43:29 -265879.463089] AUTODETECT spr round 4 (radius: 20)
[05:45:30 -244935.477177] AUTODETECT spr round 5 (radius: 25)
[05:47:47 -233382.069044] SPR radius for FAST iterations: 25 (autodetect)
[05:47:47 -233382.069044] Model parameter optimization (eps = 3.000000)
[05:48:11 -232513.077905] FAST spr round 1 (radius: 25)
[05:50:05 -202727.920857] FAST spr round 2 (radius: 25)
[05:51:41 -200549.602889] FAST spr round 3 (radius: 25)
[05:53:05 -197689.648572] FAST spr round 4 (radius: 25)
[05:54:23 -197388.610761] FAST spr round 5 (radius: 25)
[05:55:41 -197237.234489] FAST spr round 6 (radius: 25)
[05:56:53 -197232.777877] FAST spr round 7 (radius: 25)
[05:58:05 -197229.798493] FAST spr round 8 (radius: 25)
[05:59:15 -197229.798120] Model parameter optimization (eps = 1.000000)
[05:59:31 -197216.109883] SLOW spr round 1 (radius: 5)
[06:00:57 -197188.305479] SLOW spr round 2 (radius: 5)
[06:02:24 -197186.527241] SLOW spr round 3 (radius: 5)
[06:03:51 -197185.776811] SLOW spr round 4 (radius: 5)
[06:05:17 -197185.776806] SLOW spr round 5 (radius: 10)
[06:06:46 -197184.938248] SLOW spr round 6 (radius: 5)
[06:08:33 -197184.938247] SLOW spr round 7 (radius: 10)
[06:10:08 -197184.938247] SLOW spr round 8 (radius: 15)
[06:12:07 -197184.938247] SLOW spr round 9 (radius: 20)
[06:14:52 -197184.938247] SLOW spr round 10 (radius: 25)
[06:18:06 -197184.935889] Model parameter optimization (eps = 0.100000)

[06:18:09] ML tree search #9, logLikelihood: -197184.933005

[06:18:09 -736403.681198] Initial branch length optimization
[06:18:12 -575259.751575] Model parameter optimization (eps = 10.000000)
[06:18:36 -572834.168716] AUTODETECT spr round 1 (radius: 5)
[06:20:08 -412525.633758] AUTODETECT spr round 2 (radius: 10)
[06:21:53 -308051.478494] AUTODETECT spr round 3 (radius: 15)
[06:23:44 -260070.138221] AUTODETECT spr round 4 (radius: 20)
[06:25:53 -232083.876397] AUTODETECT spr round 5 (radius: 25)
[06:28:03 -226477.652954] SPR radius for FAST iterations: 25 (autodetect)
[06:28:03 -226477.652954] Model parameter optimization (eps = 3.000000)
[06:28:28 -225663.949834] FAST spr round 1 (radius: 25)
[06:30:23 -198895.124717] FAST spr round 2 (radius: 25)
[06:31:53 -197688.281679] FAST spr round 3 (radius: 25)
[06:33:14 -197619.563342] FAST spr round 4 (radius: 25)
[06:34:31 -197231.933034] FAST spr round 5 (radius: 25)
[06:35:45 -197229.326667] FAST spr round 6 (radius: 25)
[06:36:57 -197229.326514] Model parameter optimization (eps = 1.000000)
[06:37:13 -197214.049940] SLOW spr round 1 (radius: 5)
[06:38:39 -197175.164434] SLOW spr round 2 (radius: 5)
[06:40:08 -197172.968810] SLOW spr round 3 (radius: 5)
[06:41:37 -197172.968211] SLOW spr round 4 (radius: 10)
[06:43:09 -197172.097233] SLOW spr round 5 (radius: 5)
[06:44:57 -197172.096402] SLOW spr round 6 (radius: 10)
[06:46:38 -197172.096141] SLOW spr round 7 (radius: 15)
[06:48:45 -197172.095979] SLOW spr round 8 (radius: 20)
[06:51:43 -197172.095979] SLOW spr round 9 (radius: 25)
[06:55:15 -197172.095979] Model parameter optimization (eps = 0.100000)

[06:55:24] ML tree search #10, logLikelihood: -197171.916700

[06:55:25 -728436.897450] Initial branch length optimization
[06:55:27 -571609.783330] Model parameter optimization (eps = 10.000000)
[06:56:05 -569251.933279] AUTODETECT spr round 1 (radius: 5)
[06:57:39 -403958.678373] AUTODETECT spr round 2 (radius: 10)
[06:59:25 -314546.204987] AUTODETECT spr round 3 (radius: 15)
[07:01:17 -264435.819167] AUTODETECT spr round 4 (radius: 20)
[07:03:16 -241667.500592] AUTODETECT spr round 5 (radius: 25)
[07:05:35 -230428.920347] SPR radius for FAST iterations: 25 (autodetect)
[07:05:35 -230428.920347] Model parameter optimization (eps = 3.000000)
[07:06:02 -229577.225946] FAST spr round 1 (radius: 25)
[07:08:00 -198560.944601] FAST spr round 2 (radius: 25)
[07:09:31 -197277.700395] FAST spr round 3 (radius: 25)
[07:10:54 -197229.379885] FAST spr round 4 (radius: 25)
[07:12:11 -197220.337135] FAST spr round 5 (radius: 25)
[07:13:25 -197218.464283] FAST spr round 6 (radius: 25)
[07:14:40 -197217.380189] FAST spr round 7 (radius: 25)
[07:15:46 -197214.915892] FAST spr round 8 (radius: 25)
[07:16:55 -197214.813211] FAST spr round 9 (radius: 25)
[07:18:06 -197214.813049] Model parameter optimization (eps = 1.000000)
[07:18:17 -197202.610491] SLOW spr round 1 (radius: 5)
[07:19:44 -197163.909418] SLOW spr round 2 (radius: 5)
[07:21:12 -197156.557510] SLOW spr round 3 (radius: 5)
[07:22:38 -197156.174696] SLOW spr round 4 (radius: 5)
[07:24:04 -197156.174666] SLOW spr round 5 (radius: 10)
[07:25:33 -197156.174661] SLOW spr round 6 (radius: 15)
[07:27:41 -197156.174661] SLOW spr round 7 (radius: 20)
[07:30:29 -197156.174661] SLOW spr round 8 (radius: 25)
[07:33:50 -197156.174661] Model parameter optimization (eps = 0.100000)

[07:33:54] ML tree search #11, logLikelihood: -197156.084288

[07:33:54 -728028.604408] Initial branch length optimization
[07:33:57 -567644.002567] Model parameter optimization (eps = 10.000000)
[07:34:33 -565332.348055] AUTODETECT spr round 1 (radius: 5)
[07:36:05 -398465.924513] AUTODETECT spr round 2 (radius: 10)
[07:37:50 -322576.295454] AUTODETECT spr round 3 (radius: 15)
[07:39:46 -275975.177998] AUTODETECT spr round 4 (radius: 20)
[07:42:01 -246403.484098] AUTODETECT spr round 5 (radius: 25)
[07:44:58 -236560.433196] SPR radius for FAST iterations: 25 (autodetect)
[07:44:58 -236560.433196] Model parameter optimization (eps = 3.000000)
[07:45:23 -235732.760137] FAST spr round 1 (radius: 25)
[07:47:28 -198793.669463] FAST spr round 2 (radius: 25)
[07:49:04 -197409.887457] FAST spr round 3 (radius: 25)
[07:50:26 -197255.706147] FAST spr round 4 (radius: 25)
[07:51:42 -197238.630453] FAST spr round 5 (radius: 25)
[07:52:54 -197238.629402] Model parameter optimization (eps = 1.000000)
[07:53:09 -197225.897132] SLOW spr round 1 (radius: 5)
[07:54:37 -197195.675591] SLOW spr round 2 (radius: 5)
[07:56:07 -197190.536900] SLOW spr round 3 (radius: 5)
[07:57:37 -197188.373761] SLOW spr round 4 (radius: 5)
[07:59:06 -197188.373331] SLOW spr round 5 (radius: 10)
[08:00:36 -197186.978316] SLOW spr round 6 (radius: 5)
[08:02:26 -197186.978135] SLOW spr round 7 (radius: 10)
[08:04:06 -197186.978009] SLOW spr round 8 (radius: 15)
[08:06:08 -197186.977884] SLOW spr round 9 (radius: 20)
[08:08:58 -197186.977869] SLOW spr round 10 (radius: 25)
[08:12:16 -197186.977869] Model parameter optimization (eps = 0.100000)

[08:12:24] ML tree search #12, logLikelihood: -197186.788712

[08:12:24 -735012.371677] Initial branch length optimization
[08:12:27 -571772.403029] Model parameter optimization (eps = 10.000000)
[08:12:55 -569462.780712] AUTODETECT spr round 1 (radius: 5)
[08:14:27 -404320.094976] AUTODETECT spr round 2 (radius: 10)
[08:16:13 -304062.098957] AUTODETECT spr round 3 (radius: 15)
[08:18:03 -257548.039500] AUTODETECT spr round 4 (radius: 20)
[08:20:03 -234823.144741] AUTODETECT spr round 5 (radius: 25)
[08:22:16 -225674.463287] SPR radius for FAST iterations: 25 (autodetect)
[08:22:17 -225674.463287] Model parameter optimization (eps = 3.000000)
[08:22:46 -224803.702313] FAST spr round 1 (radius: 25)
[08:24:51 -198512.802136] FAST spr round 2 (radius: 25)
[08:26:31 -197336.991373] FAST spr round 3 (radius: 25)
[08:28:02 -197262.359237] FAST spr round 4 (radius: 25)
[08:29:14 -197253.944986] FAST spr round 5 (radius: 25)
[08:30:25 -197251.961511] FAST spr round 6 (radius: 25)
[08:31:36 -197251.961472] Model parameter optimization (eps = 1.000000)
[08:31:48 -197247.991464] SLOW spr round 1 (radius: 5)
[08:33:18 -197190.380045] SLOW spr round 2 (radius: 5)
[08:34:50 -197166.167948] SLOW spr round 3 (radius: 5)
[08:36:23 -197160.492409] SLOW spr round 4 (radius: 5)
[08:37:54 -197159.922109] SLOW spr round 5 (radius: 5)
[08:39:21 -197159.921555] SLOW spr round 6 (radius: 10)
[08:40:54 -197158.592328] SLOW spr round 7 (radius: 5)
[08:42:39 -197158.592240] SLOW spr round 8 (radius: 10)
[08:44:17 -197158.592219] SLOW spr round 9 (radius: 15)
[08:46:26 -197158.592190] SLOW spr round 10 (radius: 20)
[08:49:29 -197158.589912] SLOW spr round 11 (radius: 25)
[08:52:54 -197156.025303] SLOW spr round 12 (radius: 5)
[08:54:50 -197155.705211] SLOW spr round 13 (radius: 5)
[08:56:32 -197155.704836] SLOW spr round 14 (radius: 10)
[08:58:08 -197155.704797] SLOW spr round 15 (radius: 15)
[09:00:14 -197155.704787] SLOW spr round 16 (radius: 20)
[09:03:09 -197155.704787] SLOW spr round 17 (radius: 25)
[09:06:34 -197155.704787] Model parameter optimization (eps = 0.100000)

[09:06:43] ML tree search #13, logLikelihood: -197155.479716

[09:06:43 -731821.987405] Initial branch length optimization
[09:06:48 -569307.926340] Model parameter optimization (eps = 10.000000)
[09:07:19 -566954.436113] AUTODETECT spr round 1 (radius: 5)
[09:08:51 -396520.466535] AUTODETECT spr round 2 (radius: 10)
[09:10:40 -305746.104918] AUTODETECT spr round 3 (radius: 15)
[09:12:36 -264612.561879] AUTODETECT spr round 4 (radius: 20)
[09:14:42 -235444.386420] AUTODETECT spr round 5 (radius: 25)
[09:16:59 -230240.896981] SPR radius for FAST iterations: 25 (autodetect)
[09:16:59 -230240.896981] Model parameter optimization (eps = 3.000000)
[09:17:29 -229433.770231] FAST spr round 1 (radius: 25)
[09:19:30 -201290.546979] FAST spr round 2 (radius: 25)
[09:21:05 -199300.505778] FAST spr round 3 (radius: 25)
[09:22:28 -197504.814713] FAST spr round 4 (radius: 25)
[09:23:50 -197266.100245] FAST spr round 5 (radius: 25)
[09:25:04 -197249.137249] FAST spr round 6 (radius: 25)
[09:26:17 -197247.091435] FAST spr round 7 (radius: 25)
[09:27:28 -197247.091428] Model parameter optimization (eps = 1.000000)
[09:27:44 -197238.353092] SLOW spr round 1 (radius: 5)
[09:29:12 -197180.537294] SLOW spr round 2 (radius: 5)
[09:30:39 -197165.125046] SLOW spr round 3 (radius: 5)
[09:32:09 -197160.251650] SLOW spr round 4 (radius: 5)
[09:33:39 -197160.242720] SLOW spr round 5 (radius: 10)
[09:35:12 -197159.187095] SLOW spr round 6 (radius: 5)
[09:36:59 -197159.185558] SLOW spr round 7 (radius: 10)
[09:38:37 -197159.185513] SLOW spr round 8 (radius: 15)
[09:40:42 -197159.185360] SLOW spr round 9 (radius: 20)
[09:43:35 -197157.152146] SLOW spr round 10 (radius: 5)
[09:45:29 -197155.868801] SLOW spr round 11 (radius: 5)
[09:47:08 -197155.868379] SLOW spr round 12 (radius: 10)
[09:48:41 -197155.866105] SLOW spr round 13 (radius: 15)
[09:50:53 -197155.522650] SLOW spr round 14 (radius: 5)
[09:52:34 -197155.455791] SLOW spr round 15 (radius: 10)
[09:54:04 -197152.981062] SLOW spr round 16 (radius: 5)
[09:55:37 -197152.981061] SLOW spr round 17 (radius: 10)
[09:57:04 -197152.981061] SLOW spr round 18 (radius: 15)
[09:58:55 -197152.981061] SLOW spr round 19 (radius: 20)
[10:01:32 -197152.981061] SLOW spr round 20 (radius: 25)
[10:04:37 -197152.981057] Model parameter optimization (eps = 0.100000)

[10:04:44] ML tree search #14, logLikelihood: -197152.857246

[10:04:44 -732629.172479] Initial branch length optimization
[10:04:46 -573267.207874] Model parameter optimization (eps = 10.000000)
[10:05:08 -570929.566712] AUTODETECT spr round 1 (radius: 5)
[10:06:30 -408952.641353] AUTODETECT spr round 2 (radius: 10)
[10:08:04 -302990.767262] AUTODETECT spr round 3 (radius: 15)
[10:09:37 -259016.419800] AUTODETECT spr round 4 (radius: 20)
[10:11:25 -239067.265842] AUTODETECT spr round 5 (radius: 25)
[10:13:20 -229645.299036] SPR radius for FAST iterations: 25 (autodetect)
[10:13:20 -229645.299036] Model parameter optimization (eps = 3.000000)
[10:13:45 -228764.349745] FAST spr round 1 (radius: 25)
[10:15:28 -200110.092822] FAST spr round 2 (radius: 25)
[10:16:50 -197491.104007] FAST spr round 3 (radius: 25)
[10:18:04 -197233.100322] FAST spr round 4 (radius: 25)
[10:19:12 -197225.747418] FAST spr round 5 (radius: 25)
[10:20:16 -197225.744284] Model parameter optimization (eps = 1.000000)
[10:20:25 -197222.291111] SLOW spr round 1 (radius: 5)
[10:21:43 -197174.419101] SLOW spr round 2 (radius: 5)
[10:23:01 -197170.720071] SLOW spr round 3 (radius: 5)
[10:24:17 -197170.719518] SLOW spr round 4 (radius: 10)
[10:25:36 -197169.757340] SLOW spr round 5 (radius: 5)
[10:27:09 -197169.755844] SLOW spr round 6 (radius: 10)
[10:28:35 -197169.755827] SLOW spr round 7 (radius: 15)
[10:30:23 -197169.755820] SLOW spr round 8 (radius: 20)
[10:32:59 -197169.753554] SLOW spr round 9 (radius: 25)
[10:36:05 -197167.730814] SLOW spr round 10 (radius: 5)
[10:37:46 -197166.930845] SLOW spr round 11 (radius: 5)
[10:39:14 -197166.868678] SLOW spr round 12 (radius: 10)
[10:40:38 -197166.868520] SLOW spr round 13 (radius: 15)
[10:42:26 -197166.868512] SLOW spr round 14 (radius: 20)
[10:45:03 -197166.348622] SLOW spr round 15 (radius: 5)
[10:46:43 -197166.278135] SLOW spr round 16 (radius: 10)
[10:48:14 -197166.277729] SLOW spr round 17 (radius: 15)
[10:50:01 -197166.277701] SLOW spr round 18 (radius: 20)
[10:52:36 -197166.277699] SLOW spr round 19 (radius: 25)
[10:55:48 -197166.277699] Model parameter optimization (eps = 0.100000)

[10:55:52] ML tree search #15, logLikelihood: -197166.186941

[10:55:52 -734723.733338] Initial branch length optimization
[10:55:55 -569806.649933] Model parameter optimization (eps = 10.000000)
[10:56:19 -567479.543265] AUTODETECT spr round 1 (radius: 5)
[10:57:49 -400154.881549] AUTODETECT spr round 2 (radius: 10)
[10:59:35 -308419.138844] AUTODETECT spr round 3 (radius: 15)
[11:01:20 -254664.123947] AUTODETECT spr round 4 (radius: 20)
[11:03:15 -234503.061520] AUTODETECT spr round 5 (radius: 25)
[11:05:20 -229059.910316] SPR radius for FAST iterations: 25 (autodetect)
[11:05:20 -229059.910316] Model parameter optimization (eps = 3.000000)
[11:05:54 -228230.996538] FAST spr round 1 (radius: 25)
[11:07:44 -199387.522218] FAST spr round 2 (radius: 25)
[11:09:15 -198345.159613] FAST spr round 3 (radius: 25)
[11:10:35 -197574.057764] FAST spr round 4 (radius: 25)
[11:11:52 -197253.242623] FAST spr round 5 (radius: 25)
[11:13:00 -197246.702042] FAST spr round 6 (radius: 25)
[11:14:06 -197234.996666] FAST spr round 7 (radius: 25)
[11:15:11 -197234.996565] Model parameter optimization (eps = 1.000000)
[11:15:28 -197219.788529] SLOW spr round 1 (radius: 5)
[11:16:52 -197196.213171] SLOW spr round 2 (radius: 5)
[11:18:20 -197185.653555] SLOW spr round 3 (radius: 5)
[11:19:46 -197185.652962] SLOW spr round 4 (radius: 10)
[11:21:20 -197185.652942] SLOW spr round 5 (radius: 15)
[11:23:22 -197185.652938] SLOW spr round 6 (radius: 20)
[11:25:54 -197185.652936] SLOW spr round 7 (radius: 25)
[11:28:54 -197185.652934] Model parameter optimization (eps = 0.100000)

[11:29:02] ML tree search #16, logLikelihood: -197185.340741

[11:29:03 -732972.928813] Initial branch length optimization
[11:29:05 -567978.853127] Model parameter optimization (eps = 10.000000)
[11:29:39 -565645.449798] AUTODETECT spr round 1 (radius: 5)
[11:31:07 -397861.116972] AUTODETECT spr round 2 (radius: 10)
[11:32:46 -304819.033117] AUTODETECT spr round 3 (radius: 15)
[11:34:27 -247031.624548] AUTODETECT spr round 4 (radius: 20)
[11:36:26 -231311.595384] AUTODETECT spr round 5 (radius: 25)
[11:38:34 -226231.311990] SPR radius for FAST iterations: 25 (autodetect)
[11:38:34 -226231.311990] Model parameter optimization (eps = 3.000000)
[11:39:03 -225306.634505] FAST spr round 1 (radius: 25)
[11:40:56 -198643.211089] FAST spr round 2 (radius: 25)
[11:42:26 -197480.678117] FAST spr round 3 (radius: 25)
[11:43:49 -197242.646504] FAST spr round 4 (radius: 25)
[11:45:03 -197227.684514] FAST spr round 5 (radius: 25)
[11:46:12 -197227.684256] Model parameter optimization (eps = 1.000000)
[11:46:23 -197219.548498] SLOW spr round 1 (radius: 5)
[11:47:46 -197192.964066] SLOW spr round 2 (radius: 5)
[11:49:08 -197190.441176] SLOW spr round 3 (radius: 5)
[11:50:31 -197190.440249] SLOW spr round 4 (radius: 10)
[11:51:58 -197190.439786] SLOW spr round 5 (radius: 15)
[11:54:10 -197187.913191] SLOW spr round 6 (radius: 5)
[11:56:07 -197187.912420] SLOW spr round 7 (radius: 10)
[11:57:55 -197187.912347] SLOW spr round 8 (radius: 15)
[12:00:03 -197187.912300] SLOW spr round 9 (radius: 20)
[12:02:52 -197187.912237] SLOW spr round 10 (radius: 25)
[12:06:18 -197187.912237] Model parameter optimization (eps = 0.100000)

[12:06:22] ML tree search #17, logLikelihood: -197187.870397

[12:06:22 -729535.275997] Initial branch length optimization
[12:06:25 -566321.740883] Model parameter optimization (eps = 10.000000)
[12:06:58 -564063.259258] AUTODETECT spr round 1 (radius: 5)
[12:08:29 -398557.153255] AUTODETECT spr round 2 (radius: 10)
[12:10:18 -313545.016626] AUTODETECT spr round 3 (radius: 15)
[12:12:13 -266624.878107] AUTODETECT spr round 4 (radius: 20)
[12:14:09 -248138.048256] AUTODETECT spr round 5 (radius: 25)
[12:16:22 -240883.944711] SPR radius for FAST iterations: 25 (autodetect)
[12:16:22 -240883.944711] Model parameter optimization (eps = 3.000000)
[12:16:48 -240083.978119] FAST spr round 1 (radius: 25)
[12:19:00 -201871.148321] FAST spr round 2 (radius: 25)
[12:20:42 -197459.517553] FAST spr round 3 (radius: 25)
[12:22:08 -197278.385950] FAST spr round 4 (radius: 25)
[12:23:26 -197249.558201] FAST spr round 5 (radius: 25)
[12:24:38 -197246.463899] FAST spr round 6 (radius: 25)
[12:25:51 -197246.462658] Model parameter optimization (eps = 1.000000)
[12:26:09 -197226.837012] SLOW spr round 1 (radius: 5)
[12:27:34 -197173.649490] SLOW spr round 2 (radius: 5)
[12:28:58 -197167.187765] SLOW spr round 3 (radius: 5)
[12:30:19 -197163.276747] SLOW spr round 4 (radius: 5)
[12:31:40 -197163.276721] SLOW spr round 5 (radius: 10)
[12:33:03 -197163.276715] SLOW spr round 6 (radius: 15)
[12:34:59 -197163.276145] SLOW spr round 7 (radius: 20)
[12:37:37 -197163.276143] SLOW spr round 8 (radius: 25)
[12:40:50 -197163.276143] Model parameter optimization (eps = 0.100000)

[12:40:58] ML tree search #18, logLikelihood: -197162.988244

[12:40:58 -730052.258792] Initial branch length optimization
[12:41:01 -570476.086078] Model parameter optimization (eps = 10.000000)
[12:41:26 -568075.738203] AUTODETECT spr round 1 (radius: 5)
[12:42:53 -410198.930121] AUTODETECT spr round 2 (radius: 10)
[12:44:31 -313495.892535] AUTODETECT spr round 3 (radius: 15)
[12:46:14 -266331.561257] AUTODETECT spr round 4 (radius: 20)
[12:48:14 -240625.006053] AUTODETECT spr round 5 (radius: 25)
[12:50:21 -230204.396298] SPR radius for FAST iterations: 25 (autodetect)
[12:50:21 -230204.396298] Model parameter optimization (eps = 3.000000)
[12:50:44 -229394.026772] FAST spr round 1 (radius: 25)
[12:52:41 -198268.864657] FAST spr round 2 (radius: 25)
[12:54:08 -197298.893323] FAST spr round 3 (radius: 25)
[12:55:22 -197257.521617] FAST spr round 4 (radius: 25)
[12:56:33 -197248.048649] FAST spr round 5 (radius: 25)
[12:57:40 -197244.732527] FAST spr round 6 (radius: 25)
[12:58:43 -197244.732439] Model parameter optimization (eps = 1.000000)
[12:58:58 -197227.965249] SLOW spr round 1 (radius: 5)
[13:00:15 -197193.453053] SLOW spr round 2 (radius: 5)
[13:01:34 -197185.553089] SLOW spr round 3 (radius: 5)
[13:02:50 -197185.167554] SLOW spr round 4 (radius: 5)
[13:04:07 -197185.167179] SLOW spr round 5 (radius: 10)
[13:05:27 -197185.167082] SLOW spr round 6 (radius: 15)
[13:07:20 -197185.167054] SLOW spr round 7 (radius: 20)
[13:09:49 -197185.167046] SLOW spr round 8 (radius: 25)
[13:12:51 -197185.167043] Model parameter optimization (eps = 0.100000)

[13:12:58] ML tree search #19, logLikelihood: -197184.865757

[13:12:58 -733242.738962] Initial branch length optimization
[13:13:01 -570566.763137] Model parameter optimization (eps = 10.000000)
[13:13:27 -568247.756857] AUTODETECT spr round 1 (radius: 5)
[13:14:49 -405446.840192] AUTODETECT spr round 2 (radius: 10)
[13:16:24 -312274.128167] AUTODETECT spr round 3 (radius: 15)
[13:18:09 -266232.740442] AUTODETECT spr round 4 (radius: 20)
[13:20:06 -241978.841716] AUTODETECT spr round 5 (radius: 25)
[13:22:15 -229333.197153] SPR radius for FAST iterations: 25 (autodetect)
[13:22:15 -229333.197153] Model parameter optimization (eps = 3.000000)
[13:22:40 -228505.053752] FAST spr round 1 (radius: 25)
[13:24:27 -199958.129874] FAST spr round 2 (radius: 25)
[13:25:52 -197421.046959] FAST spr round 3 (radius: 25)
[13:27:06 -197302.301564] FAST spr round 4 (radius: 25)
[13:28:17 -197256.383265] FAST spr round 5 (radius: 25)
[13:29:24 -197242.365472] FAST spr round 6 (radius: 25)
[13:30:29 -197242.365221] Model parameter optimization (eps = 1.000000)
[13:30:44 -197230.282990] SLOW spr round 1 (radius: 5)
[13:32:02 -197174.941950] SLOW spr round 2 (radius: 5)
[13:33:34 -197171.176074] SLOW spr round 3 (radius: 5)
[13:35:06 -197171.174699] SLOW spr round 4 (radius: 10)
[13:36:43 -197170.101220] SLOW spr round 5 (radius: 5)
[13:38:39 -197170.099704] SLOW spr round 6 (radius: 10)
[13:40:23 -197170.099676] SLOW spr round 7 (radius: 15)
[13:42:32 -197170.099615] SLOW spr round 8 (radius: 20)
[13:45:32 -197170.099599] SLOW spr round 9 (radius: 25)
[13:49:14 -197170.099599] Model parameter optimization (eps = 0.100000)

[13:49:21] ML tree search #20, logLikelihood: -197169.946546


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.190594,0.447085) (0.218348,0.443501) (0.356145,0.949607) (0.234913,2.042259) 
   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: -197152.857246

AIC score: 398315.714491 / AICc score: 8442375.714491 / BIC score: 406975.245559
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=555).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/3_mltree/Q86YA3.raxml.bestTree
All ML trees saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/3_mltree/Q86YA3.raxml.mlTrees
Optimized model saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/3_mltree/Q86YA3.raxml.bestModel

Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/300621_run/phylogeny-snakemake/results/Q86YA3/3_mltree/Q86YA3.raxml.log

Analysis started: 03-Jul-2021 21:47:13 / finished: 04-Jul-2021 11:36:34

Elapsed time: 49761.755 seconds

Consumed energy: 3551.511 Wh (= 18 km in an electric car, or 89 km with an e-scooter!)