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 17-Jul-2021 04:04:46 as follows:

raxml-ng --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/2_msa/P21281_trimmed_msa.fasta --data-type AA --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/3_mltree/P21281 --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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/2_msa/P21281_trimmed_msa.fasta
[00:00:00] Loaded alignment with 1001 taxa and 470 sites

WARNING: Sequences tr_B4QS89_B4QS89_DROSI_7240 and sp_P31409_VATB_DROME_7227 are exactly identical!
WARNING: Sequences tr_B4QS89_B4QS89_DROSI_7240 and tr_B4HGV7_B4HGV7_DROSE_7238 are exactly identical!
WARNING: Sequences tr_B4QS89_B4QS89_DROSI_7240 and tr_B4NHZ6_B4NHZ6_DROWI_7260 are exactly identical!
WARNING: Sequences tr_B4QS89_B4QS89_DROSI_7240 and tr_B3MST7_B3MST7_DROAN_7217 are exactly identical!
WARNING: Sequences tr_B4QS89_B4QS89_DROSI_7240 and tr_B4K7G7_B4K7G7_DROMO_7230 are exactly identical!
WARNING: Sequences tr_B4QS89_B4QS89_DROSI_7240 and tr_A0A0M3QXN3_A0A0M3QXN3_DROBS_30019 are exactly identical!
WARNING: Sequences tr_B4QS89_B4QS89_DROSI_7240 and tr_A0A1W4UPV6_A0A1W4UPV6_DROFC_30025 are exactly identical!
WARNING: Sequences tr_E9FZ14_E9FZ14_DAPPU_6669 and tr_A0A0P6IW21_A0A0P6IW21_9CRUS_35525 are exactly identical!
WARNING: Sequences sp_P62814_VATB2_MOUSE_10090 and sp_P62815_VATB2_RAT_10116 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_W5PLZ0_W5PLZ0_SHEEP_9940 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_A0A2R8MBE4_A0A2R8MBE4_CALJA_9483 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_F1RMZ8_F1RMZ8_PIG_9823 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_G1M221_G1M221_AILME_9646 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and sp_P31408_VATB2_BOVIN_9913 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_A0A1S3AJQ1_A0A1S3AJQ1_ERIEU_9365 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_A0A1U7UPP5_A0A1U7UPP5_TARSY_1868482 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_A0A2U3WWV6_A0A2U3WWV6_ODORO_9708 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_A0A2U3YP02_A0A2U3YP02_LEPWE_9713 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_A0A2Y9KAN7_A0A2Y9KAN7_ENHLU_391180 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_A0A2Y9EJ25_A0A2Y9EJ25_PHYCD_9755 are exactly identical!
WARNING: Sequences tr_M3XYU1_M3XYU1_MUSPF_9669 and tr_A0A384DAS4_A0A384DAS4_URSMA_29073 are exactly identical!
WARNING: Sequences tr_A0A194YJS5_A0A194YJS5_SORBI_4558 and tr_B6T9C0_B6T9C0_MAIZE_4577 are exactly identical!
WARNING: Sequences tr_E3RUH5_E3RUH5_PYRTT_861557 and tr_B2W5T6_B2W5T6_PYRTR_426418 are exactly identical!
WARNING: Sequences tr_E3RUH5_E3RUH5_PYRTT_861557 and tr_A0A2W1DPG8_A0A2W1DPG8_9PLEO_45151 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and tr_G3QMS3_G3QMS3_GORGO_9595 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and sp_Q5R5V5_VATB2_PONAB_9601 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and tr_A0A2I3SVI7_A0A2I3SVI7_PANTR_9598 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and sp_P21281_VATB2_HUMAN_9606 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and tr_F7GLJ4_F7GLJ4_MACMU_9544 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and tr_A0A096MY74_A0A096MY74_PAPAN_9555 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and tr_A0A0D9RVV5_A0A0D9RVV5_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and tr_A0A2K5P7H6_A0A2K5P7H6_CERAT_9531 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and tr_A0A2K6DBD4_A0A2K6DBD4_MACNE_9545 are exactly identical!
WARNING: Sequences tr_G1QJ94_G1QJ94_NOMLE_61853 and tr_A0A2R9CKF5_A0A2R9CKF5_PANPA_9597 are exactly identical!
WARNING: Sequences tr_B0CV73_B0CV73_LACBS_486041 and tr_A0A0C9Y5R1_A0A0C9Y5R1_9AGAR_1095629 are exactly identical!
WARNING: Sequences tr_J3KEU6_J3KEU6_COCIM_246410 and tr_A0A0J6Y9E1_A0A0J6Y9E1_COCIT_404692 are exactly identical!
WARNING: Sequences tr_G2WWK2_G2WWK2_VERDV_498257 and tr_A0A0G4KXF8_A0A0G4KXF8_9PEZI_100787 are exactly identical!
WARNING: Sequences tr_G2WWK2_G2WWK2_VERDV_498257 and tr_A0A0G4MTI8_A0A0G4MTI8_9PEZI_100787 are exactly identical!
WARNING: Sequences sp_P11593_VATB_NEUCR_367110 and tr_G4UTR2_G4UTR2_NEUT9_510952 are exactly identical!
WARNING: Sequences tr_Q29BS3_Q29BS3_DROPS_46245 and tr_B4GN04_B4GN04_DROPE_7234 are exactly identical!
WARNING: Sequences tr_B8NGL6_B8NGL6_ASPFN_332952 and tr_Q2UFA6_Q2UFA6_ASPOR_510516 are exactly identical!
WARNING: Sequences tr_B8NGL6_B8NGL6_ASPFN_332952 and tr_A0A0F0I1Q8_A0A0F0I1Q8_ASPPU_1403190 are exactly identical!
WARNING: Sequences tr_B8NGL6_B8NGL6_ASPFN_332952 and tr_A0A1S9E0X3_A0A1S9E0X3_ASPOZ_5062 are exactly identical!
WARNING: Sequences tr_A0A179UGQ1_A0A179UGQ1_BLAGS_559298 and tr_C5GT74_C5GT74_AJEDR_559297 are exactly identical!
WARNING: Sequences tr_B9PQR4_B9PQR4_TOXGV_432359 and tr_A0A074SR29_A0A074SR29_HAMHA_99158 are exactly identical!
WARNING: Sequences tr_A0A2J8KUK5_A0A2J8KUK5_PANTR_9598 and tr_A0A0D9RRS2_A0A0D9RRS2_CHLSB_60711 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_W7LVM6_W7LVM6_GIBM7_334819 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_A0A0D2XAN8_A0A0D2XAN8_FUSO4_426428 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_S0DK96_S0DK96_GIBF5_1279085 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_N4TXX8_N4TXX8_FUSC1_1229664 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_X0CZ20_X0CZ20_FUSOX_1089458 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_A0A2H3I940_A0A2H3I940_FUSOX_327505 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_A0A2K0WLS1_A0A2K0WLS1_GIBNY_42673 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_A0A365MUK1_A0A365MUK1_GIBIN_948311 are exactly identical!
WARNING: Sequences tr_F9F348_F9F348_FUSOF_660025 and tr_A0A366QT94_A0A366QT94_9HYPO_2109339 are exactly identical!
WARNING: Sequences tr_E9EPX2_E9EPX2_METRA_655844 and tr_A0A0B4I6X6_A0A0B4I6X6_METMF_1276143 are exactly identical!
WARNING: Sequences tr_E9EPX2_E9EPX2_METRA_655844 and tr_A0A0D9P676_A0A0D9P676_METAN_1291518 are exactly identical!
WARNING: Sequences tr_C6HDT8_C6HDT8_AJECH_544712 and tr_F0UUK8_F0UUK8_AJEC8_544711 are exactly identical!
WARNING: Sequences tr_C6HDT8_C6HDT8_AJECH_544712 and tr_A6RAG3_A6RAG3_AJECN_339724 are exactly identical!
WARNING: Sequences tr_A0A088ADH1_A0A088ADH1_APIME_7460 and tr_A0A2A3EDR1_A0A2A3EDR1_APICC_94128 are exactly identical!
WARNING: Sequences tr_A0A158NVJ8_A0A158NVJ8_ATTCE_12957 and tr_A0A151IZY9_A0A151IZY9_9HYME_471704 are exactly identical!
WARNING: Sequences tr_A0A158NVJ8_A0A158NVJ8_ATTCE_12957 and tr_A0A195BP22_A0A195BP22_9HYME_520822 are exactly identical!
WARNING: Sequences tr_A0A158NVJ8_A0A158NVJ8_ATTCE_12957 and tr_A0A195FY38_A0A195FY38_9HYME_34720 are exactly identical!
WARNING: Sequences sp_P15313_VATB1_HUMAN_9606 and tr_G7PMF8_G7PMF8_MACFA_9541 are exactly identical!
WARNING: Sequences sp_P15313_VATB1_HUMAN_9606 and tr_A0A096N0R0_A0A096N0R0_PAPAN_9555 are exactly identical!
WARNING: Sequences sp_P15313_VATB1_HUMAN_9606 and tr_A0A2K5LUV0_A0A2K5LUV0_CERAT_9531 are exactly identical!
WARNING: Sequences sp_P15313_VATB1_HUMAN_9606 and tr_A0A2K6EBN9_A0A2K6EBN9_MACNE_9545 are exactly identical!
WARNING: Sequences sp_P15313_VATB1_HUMAN_9606 and tr_A0A2K5ZX84_A0A2K5ZX84_MANLE_9568 are exactly identical!
WARNING: Sequences sp_P15313_VATB1_HUMAN_9606 and tr_A0A2R8ZSZ1_A0A2R8ZSZ1_PANPA_9597 are exactly identical!
WARNING: Sequences sp_Q9SZN1_VATB2_ARATH_3702 and tr_D7MEZ5_D7MEZ5_ARALL_81972 are exactly identical!
WARNING: Sequences tr_A0A0E0FS05_A0A0E0FS05_ORYNI_4536 and tr_B8A8D4_B8A8D4_ORYSI_39946 are exactly identical!
WARNING: Sequences tr_A0A0E0FS05_A0A0E0FS05_ORYNI_4536 and tr_I1NR66_I1NR66_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0FS05_A0A0E0FS05_ORYNI_4536 and tr_A0A0E0N1I7_A0A0E0N1I7_ORYRU_4529 are exactly identical!
WARNING: Sequences tr_A0A0E0FS05_A0A0E0FS05_ORYNI_4536 and tr_A0A0D3ET61_A0A0D3ET61_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0FS05_A0A0E0FS05_ORYNI_4536 and tr_A0A0D9YDY3_A0A0D9YDY3_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0HSR1_A0A0E0HSR1_ORYNI_4536 and tr_I1Q355_I1Q355_ORYGL_4538 are exactly identical!
WARNING: Sequences tr_A0A0E0HSR1_A0A0E0HSR1_ORYNI_4536 and tr_A0A0E0E301_A0A0E0E301_9ORYZ_40149 are exactly identical!
WARNING: Sequences tr_A0A0E0HSR1_A0A0E0HSR1_ORYNI_4536 and tr_A0A0D3GHZ7_A0A0D3GHZ7_9ORYZ_65489 are exactly identical!
WARNING: Sequences tr_A0A0E0HSR1_A0A0E0HSR1_ORYNI_4536 and tr_A0A0E0AB33_A0A0E0AB33_9ORYZ_40148 are exactly identical!
WARNING: Sequences tr_A0A0E0HSR1_A0A0E0HSR1_ORYNI_4536 and tr_A0A0E0LCT3_A0A0E0LCT3_ORYPU_4537 are exactly identical!
WARNING: Sequences tr_A0A0E0HSR1_A0A0E0HSR1_ORYNI_4536 and tr_Q93W07_Q93W07_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_D0N6F5_D0N6F5_PHYIT_403677 and tr_W2Q7V6_W2Q7V6_PHYPN_761204 are exactly identical!
WARNING: Sequences tr_D0N6F5_D0N6F5_PHYIT_403677 and tr_W2GS66_W2GS66_PHYPR_4792 are exactly identical!
WARNING: Sequences tr_D0N6F5_D0N6F5_PHYIT_403677 and tr_A0A329RVN2_A0A329RVN2_9STRA_29920 are exactly identical!
WARNING: Sequences tr_A0A0K0IZ72_A0A0K0IZ72_BRUMA_6279 and tr_A0A158PRF3_A0A158PRF3_BRUPA_6280 are exactly identical!
WARNING: Sequences tr_A2QC23_A2QC23_ASPNC_425011 and tr_A0A319AWY6_A0A319AWY6_9EURO_1450533 are exactly identical!
WARNING: Sequences tr_G7X692_G7X692_ASPKW_1033177 and tr_A0A100I6W3_A0A100I6W3_ASPNG_5061 are exactly identical!
WARNING: Sequences tr_G7X692_G7X692_ASPKW_1033177 and tr_A0A1L9NA73_A0A1L9NA73_ASPTU_767770 are exactly identical!
WARNING: Sequences tr_G7X692_G7X692_ASPKW_1033177 and tr_A0A317VCI9_A0A317VCI9_9EURO_1448314 are exactly identical!
WARNING: Sequences tr_F4P171_F4P171_BATDJ_684364 and tr_A0A177WNL4_A0A177WNL4_BATDE_403673 are exactly identical!
WARNING: Sequences tr_A0A0E0C6N8_A0A0E0C6N8_9ORYZ_40149 and tr_Q9ASE0_Q9ASE0_ORYSJ_39947 are exactly identical!
WARNING: Sequences tr_F9XA11_F9XA11_ZYMTI_336722 and tr_A0A0F4GVR1_A0A0F4GVR1_9PEZI_1047168 are exactly identical!
WARNING: Sequences tr_F9XA11_F9XA11_ZYMTI_336722 and tr_A0A1X7RRT4_A0A1X7RRT4_ZYMTR_1276538 are exactly identical!
WARNING: Sequences tr_G2YD81_G2YD81_BOTF4_999810 and tr_M7U0C8_M7U0C8_BOTF1_1290391 are exactly identical!
WARNING: Sequences tr_I1L655_I1L655_SOYBN_3847 and tr_I1LF60_I1LF60_SOYBN_3847 are exactly identical!
WARNING: Sequences tr_F2SKS3_F2SKS3_TRIRC_559305 and tr_A0A178ERL8_A0A178ERL8_TRIRU_5551 are exactly identical!
WARNING: Sequences tr_B3SAY3_B3SAY3_TRIAD_10228 and tr_A0A369SHT5_A0A369SHT5_9METZ_287889 are exactly identical!
WARNING: Sequences tr_G7PCN6_G7PCN6_MACFA_9541 and tr_A0A2K6A8T9_A0A2K6A8T9_MANLE_9568 are exactly identical!
WARNING: Sequences tr_F2PLK7_F2PLK7_TRIEC_559882 and tr_A0A059J7X9_A0A059J7X9_9EURO_1215338 are exactly identical!
WARNING: Sequences tr_L8FNP5_L8FNP5_PSED2_658429 and tr_A0A1B8EVD8_A0A1B8EVD8_9PEZI_1622149 are exactly identical!
WARNING: Sequences tr_L2GFF4_L2GFF4_COLFN_1213859 and tr_T0KY81_T0KY81_COLGC_1237896 are exactly identical!
WARNING: Sequences tr_A0A287LG21_A0A287LG21_HORVV_112509 and tr_A0A3B6EH90_A0A3B6EH90_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A287U044_A0A287U044_HORVV_112509 and tr_W5H1G1_W5H1G1_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A287X7A0_A0A287X7A0_HORVV_112509 and tr_M7Z8R2_M7Z8R2_TRIUA_4572 are exactly identical!
WARNING: Sequences tr_A0A287X7A0_A0A287X7A0_HORVV_112509 and tr_A0A3B6RM15_A0A3B6RM15_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_A0A287X7A0_A0A287X7A0_HORVV_112509 and tr_W5HK74_W5HK74_WHEAT_4565 are exactly identical!
WARNING: Sequences tr_M4DH20_M4DH20_BRARP_51351 and tr_A0A0D3D108_A0A0D3D108_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_S2K1V3_S2K1V3_MUCC1_1220926 and tr_A0A0C9N484_A0A0C9N484_9FUNG_91626 are exactly identical!
WARNING: Sequences tr_S2K1V3_S2K1V3_MUCC1_1220926 and tr_A0A162QGN1_A0A162QGN1_MUCCL_747725 are exactly identical!
WARNING: Sequences tr_U3J9J8_U3J9J8_ANAPL_8839 and tr_A0A093QBT1_A0A093QBT1_9PASS_328815 are exactly identical!
WARNING: Sequences tr_U3J9J8_U3J9J8_ANAPL_8839 and tr_A0A091WHX1_A0A091WHX1_NIPNI_128390 are exactly identical!
WARNING: Sequences tr_U3J9J8_U3J9J8_ANAPL_8839 and tr_A0A0A0AI92_A0A0A0AI92_CHAVO_50402 are exactly identical!
WARNING: Sequences tr_M2T4F5_M2T4F5_COCSN_665912 and tr_M2UBL1_M2UBL1_COCH5_701091 are exactly identical!
WARNING: Sequences tr_M2T4F5_M2T4F5_COCSN_665912 and tr_W6Y8F1_W6Y8F1_COCCA_930089 are exactly identical!
WARNING: Sequences tr_M2T4F5_M2T4F5_COCSN_665912 and tr_W6ZSC7_W6ZSC7_COCMI_930090 are exactly identical!
WARNING: Sequences tr_U5H1P7_U5H1P7_USTV1_683840 and tr_A0A2X0LXU9_A0A2X0LXU9_9BASI_796604 are exactly identical!
WARNING: Sequences tr_U5H1P7_U5H1P7_USTV1_683840 and tr_A0A2X0KQG1_A0A2X0KQG1_9BASI_289078 are exactly identical!
WARNING: Sequences tr_V2XMM9_V2XMM9_MONRO_1381753 and tr_A0A0W0F3K0_A0A0W0F3K0_9AGAR_221103 are exactly identical!
WARNING: Sequences tr_A0A015JWW9_A0A015JWW9_9GLOM_1432141 and tr_A0A2I1GCV7_A0A2I1GCV7_9GLOM_588596 are exactly identical!
WARNING: Sequences tr_A0A015JWW9_A0A015JWW9_9GLOM_1432141 and tr_U9T1P6_U9T1P6_RHIID_747089 are exactly identical!
WARNING: Sequences tr_A0A067FXK2_A0A067FXK2_CITSI_2711 and tr_V4S5X8_V4S5X8_9ROSI_85681 are exactly identical!
WARNING: Sequences tr_A0A078IN27_A0A078IN27_BRANA_3708 and tr_A0A0D3CDW7_A0A0D3CDW7_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A078IYV7_A0A078IYV7_BRANA_3708 and tr_A0A0D3DQJ4_A0A0D3DQJ4_BRAOL_109376 are exactly identical!
WARNING: Sequences tr_A0A094F3I5_A0A094F3I5_9PEZI_1420912 and tr_A0A1B8EEL4_A0A1B8EEL4_9PEZI_1524831 are exactly identical!
WARNING: Sequences tr_A0A094F3I5_A0A094F3I5_9PEZI_1420912 and tr_A0A1B8GM36_A0A1B8GM36_9PEZI_342668 are exactly identical!
WARNING: Sequences tr_A0A067CC27_A0A067CC27_SAPPC_695850 and tr_T0PZ88_T0PZ88_9STRA_1156394 are exactly identical!
WARNING: Sequences tr_A0A0D2QBS6_A0A0D2QBS6_GOSRA_29730 and tr_A0A1U8L4B5_A0A1U8L4B5_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A0D2QD39_A0A0D2QD39_GOSRA_29730 and tr_A0A1U8MXM7_A0A1U8MXM7_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A0D2TSF2_A0A0D2TSF2_GOSRA_29730 and tr_A0A1U8IIE8_A0A1U8IIE8_GOSHI_3635 are exactly identical!
WARNING: Sequences tr_A0A0F8U4R8_A0A0F8U4R8_9EURO_308745 and tr_A0A2T5LTH0_A0A2T5LTH0_9EURO_1392256 are exactly identical!
WARNING: Sequences tr_A0A0K0F2W3_A0A0K0F2W3_STRVS_75913 and tr_A0A0N5BUL2_A0A0N5BUL2_STREA_174720 are exactly identical!
WARNING: Sequences tr_A0A0L9U1W8_A0A0L9U1W8_PHAAN_3914 and tr_A0A1S3V652_A0A1S3V652_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A0L9U3L5_A0A0L9U3L5_PHAAN_3914 and tr_A0A1S3TW21_A0A1S3TW21_VIGRR_3916 are exactly identical!
WARNING: Sequences tr_A0A0V1D889_A0A0V1D889_TRIBR_45882 and tr_A0A0V0VVE0_A0A0V0VVE0_9BILA_181606 are exactly identical!
WARNING: Sequences tr_A0A0V1D889_A0A0V1D889_TRIBR_45882 and tr_A0A0V1PLE2_A0A0V1PLE2_9BILA_92180 are exactly identical!
WARNING: Sequences tr_A0A0V1D889_A0A0V1D889_TRIBR_45882 and tr_A0A0V0UH54_A0A0V0UH54_9BILA_144512 are exactly identical!
WARNING: Sequences tr_A0A0V0WVD9_A0A0V0WVD9_9BILA_92179 and tr_A0A0V1LQG6_A0A0V1LQG6_9BILA_6335 are exactly identical!
WARNING: Sequences tr_A0A0V1J8Q5_A0A0V1J8Q5_TRIPS_6337 and tr_A0A0V1MJP3_A0A0V1MJP3_9BILA_268474 are exactly identical!
WARNING: Sequences tr_I1RAU9_I1RAU9_GIBZE_229533 and tr_A0A2T4HAF2_A0A2T4HAF2_FUSCU_5516 are exactly identical!
WARNING: Sequences tr_A0A164RE43_A0A164RE43_9HOMO_1314777 and tr_A0A166FFU5_A0A166FFU5_9HOMO_1314776 are exactly identical!
WARNING: Sequences tr_A0A177D7S5_A0A177D7S5_ALTAL_5599 and tr_A0A364MXS8_A0A364MXS8_9PLEO_183478 are exactly identical!
WARNING: Sequences tr_A0A194WB40_A0A194WB40_9PEZI_105487 and tr_A0A194VCD2_A0A194VCD2_9PEZI_694573 are exactly identical!
WARNING: Sequences tr_A0A1S3X5A3_A0A1S3X5A3_TOBAC_4097 and tr_A0A1J6K6T8_A0A1J6K6T8_NICAT_49451 are exactly identical!
WARNING: Sequences tr_A0A1S3XI04_A0A1S3XI04_TOBAC_4097 and tr_A0A314KTM0_A0A314KTM0_NICAT_49451 are exactly identical!
WARNING: Sequences tr_A0A1S3XI04_A0A1S3XI04_TOBAC_4097 and tr_A0A1U7VEK8_A0A1U7VEK8_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1S3KYH8_A0A1S3KYH8_SALSA_8030 and tr_A0A060XFP6_A0A060XFP6_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_B5X274_B5X274_SALSA_8030 and tr_Q9W6M4_Q9W6M4_ONCMY_8022 are exactly identical!
WARNING: Sequences tr_A0A1L9WX26_A0A1L9WX26_ASPAC_690307 and tr_A0A2V5IMN1_A0A2V5IMN1_9EURO_1450541 are exactly identical!
WARNING: Sequences tr_A0A1L8H210_A0A1L8H210_XENLA_8355 and tr_Q7ZTJ4_Q7ZTJ4_XENLA_8355 are exactly identical!
WARNING: Sequences tr_A0A1J6IVM9_A0A1J6IVM9_NICAT_49451 and tr_A0A1U7Y314_A0A1U7Y314_NICSY_4096 are exactly identical!
WARNING: Sequences tr_A0A1V8UUU9_A0A1V8UUU9_9PEZI_1974281 and tr_A0A1V8TAN3_A0A1V8TAN3_9PEZI_1507870 are exactly identical!
WARNING: Sequences tr_A0A1V8UUU9_A0A1V8UUU9_9PEZI_1974281 and tr_A0A1V8TCK9_A0A1V8TCK9_9PEZI_1507870 are exactly identical!
WARNING: Sequences tr_A0A1Y1Y1P0_A0A1Y1Y1P0_9FUNG_1314790 and tr_A0A1Y1Y4G3_A0A1Y1Y4G3_9FUNG_1314790 are exactly identical!
WARNING: Sequences tr_A0A1X2I928_A0A1X2I928_9FUNG_90262 and tr_A0A1X2IGC0_A0A1X2IGC0_9FUNG_90262 are exactly identical!
WARNING: Sequences tr_A0A226N576_A0A226N576_CALSU_9009 and tr_A0A226P4X5_A0A226P4X5_COLVI_9014 are exactly identical!
WARNING: Sequences tr_A0A2H3E3S4_A0A2H3E3S4_ARMGA_47427 and tr_A0A2H3BV95_A0A2H3BV95_9AGAR_1076256 are exactly identical!
WARNING: Sequences tr_A0A2H3E3S4_A0A2H3E3S4_ARMGA_47427 and tr_A0A284RF57_A0A284RF57_9AGAR_47428 are exactly identical!
WARNING: Sequences tr_A0A2H3EFV2_A0A2H3EFV2_9HELO_946125 and tr_A0A218Z2Q0_A0A218Z2Q0_9HELO_503106 are exactly identical!
WARNING: Sequences tr_A0A2G2Y2U7_A0A2G2Y2U7_CAPAN_4072 and tr_A0A2G3AUF1_A0A2G3AUF1_CAPCH_80379 are exactly identical!
WARNING: Sequences tr_A0A2G5I7E6_A0A2G5I7E6_CERBT_122368 and tr_A0A2S6CKV5_A0A2S6CKV5_9PEZI_357750 are exactly identical!
WARNING: Sequences tr_A0A2G4T4Z7_A0A2G4T4Z7_9FUNG_1340429 and tr_A0A367JGU6_A0A367JGU6_9FUNG_86630 are exactly identical!
WARNING: Sequences tr_A0A2U4BF84_A0A2U4BF84_TURTR_9739 and tr_A0A2Y9MHL6_A0A2Y9MHL6_DELLE_9749 are exactly identical!
WARNING: Sequences tr_A0A317WXM9_A0A317WXM9_9EURO_1450535 and tr_A0A319FJ50_A0A319FJ50_9EURO_1448318 are exactly identical!
WARNING: Sequences tr_A0A317WXM9_A0A317WXM9_9EURO_1450535 and tr_A0A395GI05_A0A395GI05_9EURO_1448316 are exactly identical!
WARNING: Sequences tr_A0A367Y136_A0A367Y136_9ASCO_5486 and tr_A0A367Y960_A0A367Y960_9ASCO_5486 are exactly identical!
WARNING: Duplicate sequences found: 165

NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) 
NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/3_mltree/P21281.raxml.reduced.phy

Alignment comprises 1 partitions and 458 patterns

Partition 0: noname
Model: LG4X+R4
Alignment sites / patterns: 470 / 458
Gaps: 0.61 %
Invariant sites: 10.85 %


NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/3_mltree/P21281.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 / 66 / 5280
[00:00:00] Data distribution: max. searches per worker: 20

Starting ML tree search with 20 distinct starting trees

[00:00:00 -274945.150775] Initial branch length optimization
[00:00:03 -244206.081251] Model parameter optimization (eps = 10.000000)
[00:00:27 -243564.126194] AUTODETECT spr round 1 (radius: 5)
[00:02:00 -130402.636244] AUTODETECT spr round 2 (radius: 10)
[00:03:22 -89120.042103] AUTODETECT spr round 3 (radius: 15)
[00:04:55 -69472.947798] AUTODETECT spr round 4 (radius: 20)
[00:06:33 -63988.302483] AUTODETECT spr round 5 (radius: 25)
[00:08:27 -63652.858267] SPR radius for FAST iterations: 25 (autodetect)
[00:08:27 -63652.858267] Model parameter optimization (eps = 3.000000)
[00:08:41 -63607.825714] FAST spr round 1 (radius: 25)
[00:10:12 -54345.869146] FAST spr round 2 (radius: 25)
[00:11:33 -53814.480372] FAST spr round 3 (radius: 25)
[00:12:49 -53752.498315] FAST spr round 4 (radius: 25)
[00:13:59 -53743.977747] FAST spr round 5 (radius: 25)
[00:15:05 -53743.977711] Model parameter optimization (eps = 1.000000)
[00:15:15 -53739.418947] SLOW spr round 1 (radius: 5)
[00:16:42 -53728.495716] SLOW spr round 2 (radius: 5)
[00:18:09 -53722.108592] SLOW spr round 3 (radius: 5)
[00:19:32 -53715.840302] SLOW spr round 4 (radius: 5)
[00:20:52 -53715.839740] SLOW spr round 5 (radius: 10)
[00:22:14 -53712.215243] SLOW spr round 6 (radius: 5)
[00:23:54 -53711.040081] SLOW spr round 7 (radius: 5)
[00:25:24 -53711.040081] SLOW spr round 8 (radius: 10)
[00:26:47 -53711.040081] SLOW spr round 9 (radius: 15)
[00:28:47 -53709.349963] SLOW spr round 10 (radius: 5)
[00:30:30 -53709.223373] SLOW spr round 11 (radius: 5)
[00:32:02 -53709.223256] SLOW spr round 12 (radius: 10)
[00:33:25 -53709.223249] SLOW spr round 13 (radius: 15)
[00:35:24 -53709.223249] SLOW spr round 14 (radius: 20)
[00:37:43 -53709.223249] SLOW spr round 15 (radius: 25)
[00:40:14 -53709.223249] Model parameter optimization (eps = 0.100000)

[00:40:18] ML tree search #1, logLikelihood: -53709.198318

[00:40:19 -273508.203913] Initial branch length optimization
[00:40:22 -243002.952836] Model parameter optimization (eps = 10.000000)
[00:40:46 -242310.624354] AUTODETECT spr round 1 (radius: 5)
[00:42:21 -133339.530164] AUTODETECT spr round 2 (radius: 10)
[00:43:52 -89278.103345] AUTODETECT spr round 3 (radius: 15)
[00:45:24 -75589.324346] AUTODETECT spr round 4 (radius: 20)
[00:47:06 -68604.014892] AUTODETECT spr round 5 (radius: 25)
[00:49:15 -65806.071359] SPR radius for FAST iterations: 25 (autodetect)
[00:49:15 -65806.071359] Model parameter optimization (eps = 3.000000)
[00:49:29 -65783.907077] FAST spr round 1 (radius: 25)
[00:51:05 -54579.643787] FAST spr round 2 (radius: 25)
[00:52:30 -53783.300225] FAST spr round 3 (radius: 25)
[00:53:51 -53740.853452] FAST spr round 4 (radius: 25)
[00:55:06 -53727.030989] FAST spr round 5 (radius: 25)
[00:56:17 -53725.276702] FAST spr round 6 (radius: 25)
[00:57:28 -53725.276697] Model parameter optimization (eps = 1.000000)
[00:57:41 -53722.196825] SLOW spr round 1 (radius: 5)
[00:59:14 -53708.736862] SLOW spr round 2 (radius: 5)
[01:00:39 -53708.736791] SLOW spr round 3 (radius: 10)
[01:02:05 -53708.736791] SLOW spr round 4 (radius: 15)
[01:04:14 -53708.370014] SLOW spr round 5 (radius: 5)
[01:06:01 -53708.370014] SLOW spr round 6 (radius: 10)
[01:07:36 -53708.370014] SLOW spr round 7 (radius: 15)
[01:09:33 -53708.370014] SLOW spr round 8 (radius: 20)
[01:11:58 -53708.370010] SLOW spr round 9 (radius: 25)
[01:14:30 -53708.370010] Model parameter optimization (eps = 0.100000)

[01:14:34] ML tree search #2, logLikelihood: -53708.357641

[01:14:34 -272150.423650] Initial branch length optimization
[01:14:37 -242473.254475] Model parameter optimization (eps = 10.000000)
[01:15:10 -241918.561058] AUTODETECT spr round 1 (radius: 5)
[01:16:38 -131317.428949] AUTODETECT spr round 2 (radius: 10)
[01:18:02 -87650.335296] AUTODETECT spr round 3 (radius: 15)
[01:19:39 -70524.761501] AUTODETECT spr round 4 (radius: 20)
[01:21:27 -65193.140027] AUTODETECT spr round 5 (radius: 25)
[01:23:25 -64273.086081] SPR radius for FAST iterations: 25 (autodetect)
[01:23:25 -64273.086081] Model parameter optimization (eps = 3.000000)
[01:23:38 -64251.717220] FAST spr round 1 (radius: 25)
[01:25:15 -54136.999610] FAST spr round 2 (radius: 25)
[01:26:37 -53796.616408] FAST spr round 3 (radius: 25)
[01:27:54 -53770.916413] FAST spr round 4 (radius: 25)
[01:29:09 -53754.884879] FAST spr round 5 (radius: 25)
[01:30:20 -53753.268871] FAST spr round 6 (radius: 25)
[01:31:30 -53753.268448] Model parameter optimization (eps = 1.000000)
[01:31:42 -53750.550975] SLOW spr round 1 (radius: 5)
[01:33:12 -53733.823920] SLOW spr round 2 (radius: 5)
[01:34:40 -53730.786308] SLOW spr round 3 (radius: 5)
[01:36:07 -53729.276375] SLOW spr round 4 (radius: 5)
[01:37:33 -53729.276173] SLOW spr round 5 (radius: 10)
[01:38:58 -53729.276169] SLOW spr round 6 (radius: 15)
[01:41:07 -53729.276169] SLOW spr round 7 (radius: 20)
[01:43:22 -53729.276169] SLOW spr round 8 (radius: 25)
[01:45:37 -53729.276169] Model parameter optimization (eps = 0.100000)

[01:45:43] ML tree search #3, logLikelihood: -53729.198614

[01:45:43 -271843.547649] Initial branch length optimization
[01:45:47 -241313.683794] Model parameter optimization (eps = 10.000000)
[01:46:11 -240603.268578] AUTODETECT spr round 1 (radius: 5)
[01:47:44 -132521.950262] AUTODETECT spr round 2 (radius: 10)
[01:49:12 -87380.850499] AUTODETECT spr round 3 (radius: 15)
[01:50:49 -72584.003655] AUTODETECT spr round 4 (radius: 20)
[01:52:43 -67801.574751] AUTODETECT spr round 5 (radius: 25)
[01:54:33 -65338.951546] SPR radius for FAST iterations: 25 (autodetect)
[01:54:33 -65338.951546] Model parameter optimization (eps = 3.000000)
[01:54:48 -65318.846433] FAST spr round 1 (radius: 25)
[01:56:24 -54385.703209] FAST spr round 2 (radius: 25)
[01:57:46 -53959.737530] FAST spr round 3 (radius: 25)
[01:59:01 -53895.158410] FAST spr round 4 (radius: 25)
[02:00:16 -53881.222910] FAST spr round 5 (radius: 25)
[02:01:26 -53881.220434] Model parameter optimization (eps = 1.000000)
[02:01:36 -53876.743701] SLOW spr round 1 (radius: 5)
[02:03:06 -53859.704068] SLOW spr round 2 (radius: 5)
[02:04:31 -53856.627248] SLOW spr round 3 (radius: 5)
[02:05:50 -53856.627188] SLOW spr round 4 (radius: 10)
[02:07:10 -53856.627181] SLOW spr round 5 (radius: 15)
[02:09:13 -53856.627180] SLOW spr round 6 (radius: 20)
[02:11:31 -53856.627180] SLOW spr round 7 (radius: 25)
[02:14:00 -53856.627180] Model parameter optimization (eps = 0.100000)

[02:14:04] ML tree search #4, logLikelihood: -53856.538869

[02:14:04 -271310.047309] Initial branch length optimization
[02:14:07 -241382.807310] Model parameter optimization (eps = 10.000000)
[02:14:31 -240788.082991] AUTODETECT spr round 1 (radius: 5)
[02:16:03 -132879.891879] AUTODETECT spr round 2 (radius: 10)
[02:17:28 -94639.189278] AUTODETECT spr round 3 (radius: 15)
[02:19:07 -79272.907863] AUTODETECT spr round 4 (radius: 20)
[02:20:53 -71386.836461] AUTODETECT spr round 5 (radius: 25)
[02:22:44 -67817.020330] SPR radius for FAST iterations: 25 (autodetect)
[02:22:44 -67817.020330] Model parameter optimization (eps = 3.000000)
[02:23:06 -67775.598783] FAST spr round 1 (radius: 25)
[02:24:40 -55513.135701] FAST spr round 2 (radius: 25)
[02:26:02 -53958.296202] FAST spr round 3 (radius: 25)
[02:27:17 -53773.757631] FAST spr round 4 (radius: 25)
[02:28:25 -53766.646480] FAST spr round 5 (radius: 25)
[02:29:32 -53766.646202] Model parameter optimization (eps = 1.000000)
[02:29:45 -53750.940803] SLOW spr round 1 (radius: 5)
[02:31:12 -53733.469500] SLOW spr round 2 (radius: 5)
[02:32:37 -53730.418696] SLOW spr round 3 (radius: 5)
[02:34:00 -53729.736870] SLOW spr round 4 (radius: 5)
[02:35:20 -53729.736853] SLOW spr round 5 (radius: 10)
[02:36:41 -53729.736286] SLOW spr round 6 (radius: 15)
[02:38:42 -53726.797544] SLOW spr round 7 (radius: 5)
[02:40:26 -53726.797543] SLOW spr round 8 (radius: 10)
[02:41:59 -53726.739004] SLOW spr round 9 (radius: 15)
[02:43:53 -53726.738957] SLOW spr round 10 (radius: 20)
[02:46:24 -53726.738957] SLOW spr round 11 (radius: 25)
[02:49:00 -53726.738957] Model parameter optimization (eps = 0.100000)

[02:49:04] ML tree search #5, logLikelihood: -53726.729961

[02:49:04 -274111.394565] Initial branch length optimization
[02:49:07 -243393.780225] Model parameter optimization (eps = 10.000000)
[02:49:30 -242884.135158] AUTODETECT spr round 1 (radius: 5)
[02:51:08 -131638.380671] AUTODETECT spr round 2 (radius: 10)
[02:52:37 -87061.841532] AUTODETECT spr round 3 (radius: 15)
[02:54:15 -71269.397637] AUTODETECT spr round 4 (radius: 20)
[02:56:01 -63849.859371] AUTODETECT spr round 5 (radius: 25)
[02:58:00 -63556.213378] SPR radius for FAST iterations: 25 (autodetect)
[02:58:00 -63556.213378] Model parameter optimization (eps = 3.000000)
[02:58:15 -63520.678395] FAST spr round 1 (radius: 25)
[02:59:54 -54147.747411] FAST spr round 2 (radius: 25)
[03:01:17 -53780.558485] FAST spr round 3 (radius: 25)
[03:02:33 -53751.461568] FAST spr round 4 (radius: 25)
[03:03:48 -53740.952990] FAST spr round 5 (radius: 25)
[03:05:00 -53736.215626] FAST spr round 6 (radius: 25)
[03:06:11 -53736.213280] Model parameter optimization (eps = 1.000000)
[03:06:24 -53730.246234] SLOW spr round 1 (radius: 5)
[03:07:54 -53717.811309] SLOW spr round 2 (radius: 5)
[03:09:22 -53713.973542] SLOW spr round 3 (radius: 5)
[03:10:47 -53711.996710] SLOW spr round 4 (radius: 5)
[03:12:16 -53706.330596] SLOW spr round 5 (radius: 5)
[03:13:37 -53706.329959] SLOW spr round 6 (radius: 10)
[03:14:57 -53706.329954] SLOW spr round 7 (radius: 15)
[03:17:00 -53704.822375] SLOW spr round 8 (radius: 5)
[03:18:46 -53703.543111] SLOW spr round 9 (radius: 5)
[03:20:18 -53703.543090] SLOW spr round 10 (radius: 10)
[03:21:40 -53703.543088] SLOW spr round 11 (radius: 15)
[03:23:38 -53703.542894] SLOW spr round 12 (radius: 20)
[03:25:55 -53703.542892] SLOW spr round 13 (radius: 25)
[03:28:17 -53703.542890] Model parameter optimization (eps = 0.100000)

[03:28:23] ML tree search #6, logLikelihood: -53703.502842

[03:28:23 -272330.619681] Initial branch length optimization
[03:28:27 -241822.452381] Model parameter optimization (eps = 10.000000)
[03:28:57 -241159.719776] AUTODETECT spr round 1 (radius: 5)
[03:30:28 -132297.059109] AUTODETECT spr round 2 (radius: 10)
[03:31:56 -93320.716287] AUTODETECT spr round 3 (radius: 15)
[03:33:35 -78670.960997] AUTODETECT spr round 4 (radius: 20)
[03:35:25 -73821.908546] AUTODETECT spr round 5 (radius: 25)
[03:37:29 -67567.729079] SPR radius for FAST iterations: 25 (autodetect)
[03:37:29 -67567.729079] Model parameter optimization (eps = 3.000000)
[03:37:44 -67524.910889] FAST spr round 1 (radius: 25)
[03:39:21 -54864.359401] FAST spr round 2 (radius: 25)
[03:40:42 -53851.446384] FAST spr round 3 (radius: 25)
[03:42:00 -53756.030934] FAST spr round 4 (radius: 25)
[03:43:12 -53749.029364] FAST spr round 5 (radius: 25)
[03:44:21 -53749.029355] Model parameter optimization (eps = 1.000000)
[03:44:31 -53744.400623] SLOW spr round 1 (radius: 5)
[03:46:01 -53729.786230] SLOW spr round 2 (radius: 5)
[03:47:27 -53724.711723] SLOW spr round 3 (radius: 5)
[03:48:52 -53722.632992] SLOW spr round 4 (radius: 5)
[03:50:15 -53722.418730] SLOW spr round 5 (radius: 5)
[03:51:37 -53722.418727] SLOW spr round 6 (radius: 10)
[03:53:00 -53717.911055] SLOW spr round 7 (radius: 5)
[03:54:41 -53717.901579] SLOW spr round 8 (radius: 10)
[03:56:10 -53717.900289] SLOW spr round 9 (radius: 15)
[03:58:05 -53717.899983] SLOW spr round 10 (radius: 20)
[04:00:25 -53717.899920] SLOW spr round 11 (radius: 25)
[04:02:54 -53717.899907] Model parameter optimization (eps = 0.100000)

[04:03:01] ML tree search #7, logLikelihood: -53717.864778

[04:03:01 -276113.740394] Initial branch length optimization
[04:03:04 -245629.544190] Model parameter optimization (eps = 10.000000)
[04:03:25 -245164.076400] AUTODETECT spr round 1 (radius: 5)
[04:04:57 -130476.626967] AUTODETECT spr round 2 (radius: 10)
[04:06:24 -81432.059207] AUTODETECT spr round 3 (radius: 15)
[04:08:02 -68037.242581] AUTODETECT spr round 4 (radius: 20)
[04:09:48 -64403.029775] AUTODETECT spr round 5 (radius: 25)
[04:11:40 -64098.093425] SPR radius for FAST iterations: 25 (autodetect)
[04:11:40 -64098.093425] Model parameter optimization (eps = 3.000000)
[04:11:54 -64073.594372] FAST spr round 1 (radius: 25)
[04:13:25 -54179.165531] FAST spr round 2 (radius: 25)
[04:14:45 -53803.795721] FAST spr round 3 (radius: 25)
[04:15:57 -53780.739697] FAST spr round 4 (radius: 25)
[04:17:06 -53778.862563] FAST spr round 5 (radius: 25)
[04:18:13 -53778.862233] Model parameter optimization (eps = 1.000000)
[04:18:22 -53777.130707] SLOW spr round 1 (radius: 5)
[04:19:50 -53755.718953] SLOW spr round 2 (radius: 5)
[04:21:14 -53746.932702] SLOW spr round 3 (radius: 5)
[04:22:36 -53746.932485] SLOW spr round 4 (radius: 10)
[04:23:57 -53746.932477] SLOW spr round 5 (radius: 15)
[04:25:57 -53746.691213] SLOW spr round 6 (radius: 5)
[04:27:40 -53746.691136] SLOW spr round 7 (radius: 10)
[04:29:12 -53746.691027] SLOW spr round 8 (radius: 15)
[04:31:03 -53746.691027] SLOW spr round 9 (radius: 20)
[04:33:26 -53746.691015] SLOW spr round 10 (radius: 25)
[04:36:01 -53746.691015] Model parameter optimization (eps = 0.100000)

[04:36:07] ML tree search #8, logLikelihood: -53746.658890

[04:36:07 -273654.438634] Initial branch length optimization
[04:36:10 -243118.056087] Model parameter optimization (eps = 10.000000)
[04:36:49 -242465.427865] AUTODETECT spr round 1 (radius: 5)
[04:38:24 -131171.695767] AUTODETECT spr round 2 (radius: 10)
[04:39:53 -93698.774918] AUTODETECT spr round 3 (radius: 15)
[04:41:36 -78864.747740] AUTODETECT spr round 4 (radius: 20)
[04:43:25 -69139.349245] AUTODETECT spr round 5 (radius: 25)
[04:45:32 -66622.181173] SPR radius for FAST iterations: 25 (autodetect)
[04:45:33 -66622.181173] Model parameter optimization (eps = 3.000000)
[04:45:47 -66571.596064] FAST spr round 1 (radius: 25)
[04:47:27 -54530.983441] FAST spr round 2 (radius: 25)
[04:48:50 -53813.941060] FAST spr round 3 (radius: 25)
[04:50:09 -53768.177327] FAST spr round 4 (radius: 25)
[04:51:24 -53756.285070] FAST spr round 5 (radius: 25)
[04:52:35 -53756.281009] Model parameter optimization (eps = 1.000000)
[04:52:45 -53750.769518] SLOW spr round 1 (radius: 5)
[04:54:15 -53735.285776] SLOW spr round 2 (radius: 5)
[04:55:43 -53734.677989] SLOW spr round 3 (radius: 5)
[04:57:08 -53734.677988] SLOW spr round 4 (radius: 10)
[04:58:33 -53734.677988] SLOW spr round 5 (radius: 15)
[05:00:41 -53734.677988] SLOW spr round 6 (radius: 20)
[05:03:05 -53734.677988] SLOW spr round 7 (radius: 25)
[05:05:35 -53734.677988] Model parameter optimization (eps = 0.100000)

[05:05:41] ML tree search #9, logLikelihood: -53734.665886

[05:05:41 -273846.858320] Initial branch length optimization
[05:05:44 -244524.963124] Model parameter optimization (eps = 10.000000)
[05:06:13 -243821.330603] AUTODETECT spr round 1 (radius: 5)
[05:07:53 -133153.166966] AUTODETECT spr round 2 (radius: 10)
[05:09:24 -89548.956951] AUTODETECT spr round 3 (radius: 15)
[05:11:02 -70258.576128] AUTODETECT spr round 4 (radius: 20)
[05:12:57 -64225.443312] AUTODETECT spr round 5 (radius: 25)
[05:14:59 -63489.551758] SPR radius for FAST iterations: 25 (autodetect)
[05:14:59 -63489.551758] Model parameter optimization (eps = 3.000000)
[05:15:13 -63458.812890] FAST spr round 1 (radius: 25)
[05:16:49 -54331.241566] FAST spr round 2 (radius: 25)
[05:18:12 -53876.794464] FAST spr round 3 (radius: 25)
[05:19:32 -53829.133602] FAST spr round 4 (radius: 25)
[05:20:42 -53814.865233] FAST spr round 5 (radius: 25)
[05:21:57 -53800.151941] FAST spr round 6 (radius: 25)
[05:23:09 -53795.726526] FAST spr round 7 (radius: 25)
[05:24:20 -53795.726525] Model parameter optimization (eps = 1.000000)
[05:24:30 -53794.223249] SLOW spr round 1 (radius: 5)
[05:26:00 -53780.766463] SLOW spr round 2 (radius: 5)
[05:27:28 -53775.091041] SLOW spr round 3 (radius: 5)
[05:28:55 -53773.352901] SLOW spr round 4 (radius: 5)
[05:30:20 -53773.352708] SLOW spr round 5 (radius: 10)
[05:31:46 -53771.643792] SLOW spr round 6 (radius: 5)
[05:33:31 -53771.583130] SLOW spr round 7 (radius: 10)
[05:35:01 -53770.249976] SLOW spr round 8 (radius: 5)
[05:36:39 -53770.049135] SLOW spr round 9 (radius: 5)
[05:38:06 -53770.048752] SLOW spr round 10 (radius: 10)
[05:39:30 -53770.048746] SLOW spr round 11 (radius: 15)
[05:41:29 -53770.048745] SLOW spr round 12 (radius: 20)
[05:43:41 -53770.048745] SLOW spr round 13 (radius: 25)
[05:46:03 -53770.048745] Model parameter optimization (eps = 0.100000)

[05:46:12] ML tree search #10, logLikelihood: -53769.459934

[05:46:12 -275532.838324] Initial branch length optimization
[05:46:16 -244427.938827] Model parameter optimization (eps = 10.000000)
[05:46:40 -243976.007103] AUTODETECT spr round 1 (radius: 5)
[05:48:10 -132222.371543] AUTODETECT spr round 2 (radius: 10)
[05:49:31 -93449.424814] AUTODETECT spr round 3 (radius: 15)
[05:51:02 -78694.733707] AUTODETECT spr round 4 (radius: 20)
[05:52:43 -72157.010818] AUTODETECT spr round 5 (radius: 25)
[05:54:31 -67185.934274] SPR radius for FAST iterations: 25 (autodetect)
[05:54:31 -67185.934274] Model parameter optimization (eps = 3.000000)
[05:54:45 -67152.238001] FAST spr round 1 (radius: 25)
[05:56:19 -54854.431951] FAST spr round 2 (radius: 25)
[05:57:40 -53859.874905] FAST spr round 3 (radius: 25)
[05:58:55 -53763.026211] FAST spr round 4 (radius: 25)
[06:00:10 -53730.646193] FAST spr round 5 (radius: 25)
[06:01:19 -53726.696729] FAST spr round 6 (radius: 25)
[06:02:24 -53726.696672] Model parameter optimization (eps = 1.000000)
[06:02:37 -53723.864802] SLOW spr round 1 (radius: 5)
[06:04:00 -53709.936392] SLOW spr round 2 (radius: 5)
[06:05:23 -53707.814865] SLOW spr round 3 (radius: 5)
[06:06:48 -53707.814745] SLOW spr round 4 (radius: 10)
[06:08:11 -53707.814741] SLOW spr round 5 (radius: 15)
[06:10:14 -53707.814739] SLOW spr round 6 (radius: 20)
[06:12:29 -53705.179828] SLOW spr round 7 (radius: 5)
[06:14:16 -53705.179335] SLOW spr round 8 (radius: 10)
[06:15:51 -53705.179335] SLOW spr round 9 (radius: 15)
[06:17:38 -53705.179335] SLOW spr round 10 (radius: 20)
[06:19:54 -53705.179335] SLOW spr round 11 (radius: 25)
[06:22:16 -53705.179335] Model parameter optimization (eps = 0.100000)

[06:22:23] ML tree search #11, logLikelihood: -53704.843277

[06:22:23 -273954.393807] Initial branch length optimization
[06:22:26 -242788.540109] Model parameter optimization (eps = 10.000000)
[06:22:51 -242077.298272] AUTODETECT spr round 1 (radius: 5)
[06:24:24 -131342.112422] AUTODETECT spr round 2 (radius: 10)
[06:25:49 -94592.716794] AUTODETECT spr round 3 (radius: 15)
[06:27:23 -78831.715024] AUTODETECT spr round 4 (radius: 20)
[06:29:05 -70145.994104] AUTODETECT spr round 5 (radius: 25)
[06:30:49 -67516.678752] SPR radius for FAST iterations: 25 (autodetect)
[06:30:49 -67516.678752] Model parameter optimization (eps = 3.000000)
[06:31:06 -67467.641645] FAST spr round 1 (radius: 25)
[06:32:39 -54418.076346] FAST spr round 2 (radius: 25)
[06:33:56 -53855.532913] FAST spr round 3 (radius: 25)
[06:35:08 -53797.371892] FAST spr round 4 (radius: 25)
[06:36:18 -53788.319312] FAST spr round 5 (radius: 25)
[06:37:22 -53786.184506] FAST spr round 6 (radius: 25)
[06:38:26 -53786.184504] Model parameter optimization (eps = 1.000000)
[06:38:41 -53777.440357] SLOW spr round 1 (radius: 5)
[06:40:04 -53748.133126] SLOW spr round 2 (radius: 5)
[06:41:27 -53742.228600] SLOW spr round 3 (radius: 5)
[06:42:51 -53738.876115] SLOW spr round 4 (radius: 5)
[06:44:11 -53738.876102] SLOW spr round 5 (radius: 10)
[06:45:32 -53738.876101] SLOW spr round 6 (radius: 15)
[06:47:37 -53738.876100] SLOW spr round 7 (radius: 20)
[06:49:57 -53738.876099] SLOW spr round 8 (radius: 25)
[06:52:36 -53738.876098] Model parameter optimization (eps = 0.100000)

[06:52:41] ML tree search #12, logLikelihood: -53738.801445

[06:52:41 -276105.113619] Initial branch length optimization
[06:52:45 -245837.309688] Model parameter optimization (eps = 10.000000)
[06:53:12 -245058.201447] AUTODETECT spr round 1 (radius: 5)
[06:54:47 -131629.978251] AUTODETECT spr round 2 (radius: 10)
[06:56:17 -94987.296335] AUTODETECT spr round 3 (radius: 15)
[06:57:57 -74103.899238] AUTODETECT spr round 4 (radius: 20)
[06:59:36 -68409.484214] AUTODETECT spr round 5 (radius: 25)
[07:01:40 -64302.799067] SPR radius for FAST iterations: 25 (autodetect)
[07:01:40 -64302.799067] Model parameter optimization (eps = 3.000000)
[07:01:56 -64266.862898] FAST spr round 1 (radius: 25)
[07:03:34 -54266.956465] FAST spr round 2 (radius: 25)
[07:04:58 -53798.213167] FAST spr round 3 (radius: 25)
[07:06:17 -53764.011790] FAST spr round 4 (radius: 25)
[07:07:32 -53744.303036] FAST spr round 5 (radius: 25)
[07:08:42 -53743.817144] FAST spr round 6 (radius: 25)
[07:09:52 -53743.817098] Model parameter optimization (eps = 1.000000)
[07:10:00 -53742.284301] SLOW spr round 1 (radius: 5)
[07:11:29 -53728.559975] SLOW spr round 2 (radius: 5)
[07:12:49 -53727.264305] SLOW spr round 3 (radius: 5)
[07:14:11 -53725.077881] SLOW spr round 4 (radius: 5)
[07:15:29 -53725.077729] SLOW spr round 5 (radius: 10)
[07:16:49 -53722.380996] SLOW spr round 6 (radius: 5)
[07:18:29 -53711.759573] SLOW spr round 7 (radius: 5)
[07:19:59 -53707.699643] SLOW spr round 8 (radius: 5)
[07:21:23 -53707.497090] SLOW spr round 9 (radius: 5)
[07:22:47 -53707.497048] SLOW spr round 10 (radius: 10)
[07:24:13 -53707.497048] SLOW spr round 11 (radius: 15)
[07:26:21 -53707.497046] SLOW spr round 12 (radius: 20)
[07:28:44 -53705.016205] SLOW spr round 13 (radius: 5)
[07:30:35 -53705.008656] SLOW spr round 14 (radius: 10)
[07:32:15 -53705.005711] SLOW spr round 15 (radius: 15)
[07:34:14 -53705.004513] SLOW spr round 16 (radius: 20)
[07:36:41 -53705.004441] SLOW spr round 17 (radius: 25)
[07:39:11 -53705.004441] Model parameter optimization (eps = 0.100000)

[07:39:19] ML tree search #13, logLikelihood: -53704.883757

[07:39:19 -274662.006386] Initial branch length optimization
[07:39:22 -244212.787572] Model parameter optimization (eps = 10.000000)
[07:40:00 -243691.981647] AUTODETECT spr round 1 (radius: 5)
[07:41:32 -130096.745832] AUTODETECT spr round 2 (radius: 10)
[07:43:01 -88542.399954] AUTODETECT spr round 3 (radius: 15)
[07:44:36 -75804.695011] AUTODETECT spr round 4 (radius: 20)
[07:46:20 -69136.532881] AUTODETECT spr round 5 (radius: 25)
[07:48:30 -66296.353355] SPR radius for FAST iterations: 25 (autodetect)
[07:48:30 -66296.353355] Model parameter optimization (eps = 3.000000)
[07:48:45 -66259.571459] FAST spr round 1 (radius: 25)
[07:50:16 -54389.580869] FAST spr round 2 (radius: 25)
[07:51:37 -53836.755872] FAST spr round 3 (radius: 25)
[07:52:51 -53794.340643] FAST spr round 4 (radius: 25)
[07:54:00 -53773.961112] FAST spr round 5 (radius: 25)
[07:55:08 -53760.062242] FAST spr round 6 (radius: 25)
[07:56:16 -53760.062204] Model parameter optimization (eps = 1.000000)
[07:56:26 -53753.880341] SLOW spr round 1 (radius: 5)
[07:57:54 -53735.540528] SLOW spr round 2 (radius: 5)
[07:59:20 -53733.220535] SLOW spr round 3 (radius: 5)
[08:00:43 -53733.220532] SLOW spr round 4 (radius: 10)
[08:02:07 -53732.849813] SLOW spr round 5 (radius: 5)
[08:03:49 -53732.849813] SLOW spr round 6 (radius: 10)
[08:05:18 -53732.849813] SLOW spr round 7 (radius: 15)
[08:07:12 -53731.705016] SLOW spr round 8 (radius: 5)
[08:08:56 -53730.427423] SLOW spr round 9 (radius: 5)
[08:10:30 -53730.427423] SLOW spr round 10 (radius: 10)
[08:11:56 -53730.427423] SLOW spr round 11 (radius: 15)
[08:13:59 -53730.427423] SLOW spr round 12 (radius: 20)
[08:16:22 -53730.427423] SLOW spr round 13 (radius: 25)
[08:18:49 -53730.427423] Model parameter optimization (eps = 0.100000)

[08:18:57] ML tree search #14, logLikelihood: -53730.254534

[08:18:57 -276425.905162] Initial branch length optimization
[08:19:00 -246296.209992] Model parameter optimization (eps = 10.000000)
[08:19:27 -245563.669679] AUTODETECT spr round 1 (radius: 5)
[08:21:03 -134833.014418] AUTODETECT spr round 2 (radius: 10)
[08:22:28 -94415.441484] AUTODETECT spr round 3 (radius: 15)
[08:24:05 -74761.861171] AUTODETECT spr round 4 (radius: 20)
[08:25:51 -67919.429131] AUTODETECT spr round 5 (radius: 25)
[08:27:47 -65853.085632] SPR radius for FAST iterations: 25 (autodetect)
[08:27:47 -65853.085632] Model parameter optimization (eps = 3.000000)
[08:28:03 -65812.564072] FAST spr round 1 (radius: 25)
[08:29:30 -54378.958190] FAST spr round 2 (radius: 25)
[08:30:46 -53978.555266] FAST spr round 3 (radius: 25)
[08:31:58 -53943.085003] FAST spr round 4 (radius: 25)
[08:33:08 -53929.104995] FAST spr round 5 (radius: 25)
[08:34:17 -53921.479673] FAST spr round 6 (radius: 25)
[08:35:23 -53921.479339] Model parameter optimization (eps = 1.000000)
[08:35:34 -53914.214235] SLOW spr round 1 (radius: 5)
[08:36:59 -53893.611089] SLOW spr round 2 (radius: 5)
[08:38:23 -53886.306844] SLOW spr round 3 (radius: 5)
[08:39:46 -53885.131066] SLOW spr round 4 (radius: 5)
[08:41:06 -53885.131066] SLOW spr round 5 (radius: 10)
[08:42:27 -53885.131066] SLOW spr round 6 (radius: 15)
[08:44:30 -53885.131066] SLOW spr round 7 (radius: 20)
[08:46:50 -53885.131066] SLOW spr round 8 (radius: 25)
[08:49:26 -53885.131066] Model parameter optimization (eps = 0.100000)

[08:49:33] ML tree search #15, logLikelihood: -53884.907494

[08:49:33 -275949.947375] Initial branch length optimization
[08:49:38 -244957.003924] Model parameter optimization (eps = 10.000000)
[08:50:00 -244331.825385] AUTODETECT spr round 1 (radius: 5)
[08:51:34 -132314.259653] AUTODETECT spr round 2 (radius: 10)
[08:53:03 -90038.381780] AUTODETECT spr round 3 (radius: 15)
[08:54:43 -70921.725680] AUTODETECT spr round 4 (radius: 20)
[08:56:40 -65431.185046] AUTODETECT spr round 5 (radius: 25)
[08:58:56 -64983.465543] SPR radius for FAST iterations: 25 (autodetect)
[08:58:56 -64983.465543] Model parameter optimization (eps = 3.000000)
[08:59:06 -64970.632888] FAST spr round 1 (radius: 25)
[09:00:37 -54481.468823] FAST spr round 2 (radius: 25)
[09:01:56 -53865.752174] FAST spr round 3 (radius: 25)
[09:03:11 -53787.955975] FAST spr round 4 (radius: 25)
[09:04:23 -53785.424448] FAST spr round 5 (radius: 25)
[09:05:33 -53785.424185] Model parameter optimization (eps = 1.000000)
[09:05:42 -53782.939147] SLOW spr round 1 (radius: 5)
[09:07:11 -53764.696108] SLOW spr round 2 (radius: 5)
[09:08:39 -53754.468551] SLOW spr round 3 (radius: 5)
[09:10:07 -53753.519244] SLOW spr round 4 (radius: 5)
[09:11:30 -53753.519175] SLOW spr round 5 (radius: 10)
[09:12:54 -53751.325550] SLOW spr round 6 (radius: 5)
[09:14:38 -53750.115348] SLOW spr round 7 (radius: 5)
[09:16:13 -53750.115324] SLOW spr round 8 (radius: 10)
[09:17:39 -53750.115324] SLOW spr round 9 (radius: 15)
[09:19:47 -53750.115324] SLOW spr round 10 (radius: 20)
[09:22:14 -53750.115324] SLOW spr round 11 (radius: 25)
[09:24:50 -53750.115324] Model parameter optimization (eps = 0.100000)

[09:24:58] ML tree search #16, logLikelihood: -53749.390954

[09:24:58 -276852.511629] Initial branch length optimization
[09:25:01 -246575.151812] Model parameter optimization (eps = 10.000000)
[09:25:27 -245869.759272] AUTODETECT spr round 1 (radius: 5)
[09:27:07 -132743.679477] AUTODETECT spr round 2 (radius: 10)
[09:28:36 -90791.516050] AUTODETECT spr round 3 (radius: 15)
[09:30:13 -77437.813662] AUTODETECT spr round 4 (radius: 20)
[09:32:06 -67887.596350] AUTODETECT spr round 5 (radius: 25)
[09:34:25 -65805.860077] SPR radius for FAST iterations: 25 (autodetect)
[09:34:25 -65805.860077] Model parameter optimization (eps = 3.000000)
[09:34:40 -65740.528285] FAST spr round 1 (radius: 25)
[09:36:16 -54900.379373] FAST spr round 2 (radius: 25)
[09:37:39 -53858.945553] FAST spr round 3 (radius: 25)
[09:38:56 -53810.438989] FAST spr round 4 (radius: 25)
[09:40:11 -53798.758641] FAST spr round 5 (radius: 25)
[09:41:24 -53790.029478] FAST spr round 6 (radius: 25)
[09:42:33 -53790.028779] Model parameter optimization (eps = 1.000000)
[09:42:42 -53774.011889] SLOW spr round 1 (radius: 5)
[09:44:11 -53766.647726] SLOW spr round 2 (radius: 5)
[09:45:36 -53765.836558] SLOW spr round 3 (radius: 5)
[09:47:03 -53764.421942] SLOW spr round 4 (radius: 5)
[09:48:27 -53764.421937] SLOW spr round 5 (radius: 10)
[09:49:52 -53764.421934] SLOW spr round 6 (radius: 15)
[09:51:57 -53764.421932] SLOW spr round 7 (radius: 20)
[09:54:23 -53764.421932] SLOW spr round 8 (radius: 25)
[09:56:57 -53764.421932] Model parameter optimization (eps = 0.100000)

[09:57:02] ML tree search #17, logLikelihood: -53764.403902

[09:57:02 -275650.210839] Initial branch length optimization
[09:57:05 -245205.548093] Model parameter optimization (eps = 10.000000)
[09:57:26 -244606.993547] AUTODETECT spr round 1 (radius: 5)
[09:58:58 -130640.388323] AUTODETECT spr round 2 (radius: 10)
[10:00:25 -86887.897755] AUTODETECT spr round 3 (radius: 15)
[10:02:02 -70236.535927] AUTODETECT spr round 4 (radius: 20)
[10:03:46 -67009.352675] AUTODETECT spr round 5 (radius: 25)
[10:05:40 -65896.070455] SPR radius for FAST iterations: 25 (autodetect)
[10:05:40 -65896.070455] Model parameter optimization (eps = 3.000000)
[10:05:54 -65849.031457] FAST spr round 1 (radius: 25)
[10:07:28 -54587.053113] FAST spr round 2 (radius: 25)
[10:08:45 -54100.798023] FAST spr round 3 (radius: 25)
[10:10:00 -54048.000974] FAST spr round 4 (radius: 25)
[10:11:15 -54033.867221] FAST spr round 5 (radius: 25)
[10:12:23 -54031.216982] FAST spr round 6 (radius: 25)
[10:13:31 -54031.216932] Model parameter optimization (eps = 1.000000)
[10:13:41 -54028.723096] SLOW spr round 1 (radius: 5)
[10:15:06 -54012.510335] SLOW spr round 2 (radius: 5)
[10:16:32 -54008.764452] SLOW spr round 3 (radius: 5)
[10:17:52 -54008.764351] SLOW spr round 4 (radius: 10)
[10:19:14 -54007.180586] SLOW spr round 5 (radius: 5)
[10:20:56 -54005.967638] SLOW spr round 6 (radius: 5)
[10:22:27 -54005.967638] SLOW spr round 7 (radius: 10)
[10:23:51 -54005.967638] SLOW spr round 8 (radius: 15)
[10:25:53 -54005.967638] SLOW spr round 9 (radius: 20)
[10:28:18 -54005.967638] SLOW spr round 10 (radius: 25)
[10:30:47 -54005.967638] Model parameter optimization (eps = 0.100000)

[10:30:52] ML tree search #18, logLikelihood: -54005.921234

[10:30:52 -276961.985138] Initial branch length optimization
[10:30:55 -246888.868093] Model parameter optimization (eps = 10.000000)
[10:31:23 -246287.266019] AUTODETECT spr round 1 (radius: 5)
[10:32:54 -131581.287409] AUTODETECT spr round 2 (radius: 10)
[10:34:24 -87950.231854] AUTODETECT spr round 3 (radius: 15)
[10:36:06 -68262.827910] AUTODETECT spr round 4 (radius: 20)
[10:38:00 -62391.846537] AUTODETECT spr round 5 (radius: 25)
[10:40:01 -62160.823822] SPR radius for FAST iterations: 25 (autodetect)
[10:40:01 -62160.823822] Model parameter optimization (eps = 3.000000)
[10:40:19 -62142.149852] FAST spr round 1 (radius: 25)
[10:41:51 -54216.455783] FAST spr round 2 (radius: 25)
[10:43:10 -53802.415734] FAST spr round 3 (radius: 25)
[10:44:26 -53758.397911] FAST spr round 4 (radius: 25)
[10:45:38 -53758.397138] Model parameter optimization (eps = 1.000000)
[10:45:47 -53754.081963] SLOW spr round 1 (radius: 5)
[10:47:18 -53742.656733] SLOW spr round 2 (radius: 5)
[10:48:43 -53742.009972] SLOW spr round 3 (radius: 5)
[10:50:08 -53742.009946] SLOW spr round 4 (radius: 10)
[10:51:33 -53741.560235] SLOW spr round 5 (radius: 5)
[10:53:18 -53741.223394] SLOW spr round 6 (radius: 5)
[10:54:51 -53741.220951] SLOW spr round 7 (radius: 10)
[10:56:19 -53741.135332] SLOW spr round 8 (radius: 15)
[10:58:23 -53737.343492] SLOW spr round 9 (radius: 5)
[11:00:12 -53733.942044] SLOW spr round 10 (radius: 5)
[11:01:48 -53733.941998] SLOW spr round 11 (radius: 10)
[11:03:16 -53733.941988] SLOW spr round 12 (radius: 15)
[11:05:22 -53733.941979] SLOW spr round 13 (radius: 20)
[11:07:50 -53733.941977] SLOW spr round 14 (radius: 25)
[11:10:28 -53733.941975] Model parameter optimization (eps = 0.100000)

[11:10:32] ML tree search #19, logLikelihood: -53733.932880

[11:10:32 -277236.923188] Initial branch length optimization
[11:10:37 -246937.141220] Model parameter optimization (eps = 10.000000)
[11:10:58 -246473.984482] AUTODETECT spr round 1 (radius: 5)
[11:12:37 -127865.989749] AUTODETECT spr round 2 (radius: 10)
[11:14:06 -86092.549952] AUTODETECT spr round 3 (radius: 15)
[11:15:45 -73928.285464] AUTODETECT spr round 4 (radius: 20)
[11:17:29 -65174.665207] AUTODETECT spr round 5 (radius: 25)
[11:19:32 -63875.044893] SPR radius for FAST iterations: 25 (autodetect)
[11:19:32 -63875.044893] Model parameter optimization (eps = 3.000000)
[11:19:46 -63842.349712] FAST spr round 1 (radius: 25)
[11:21:22 -54225.713162] FAST spr round 2 (radius: 25)
[11:22:44 -53837.028813] FAST spr round 3 (radius: 25)
[11:24:03 -53781.396304] FAST spr round 4 (radius: 25)
[11:25:17 -53771.269554] FAST spr round 5 (radius: 25)
[11:26:27 -53767.675958] FAST spr round 6 (radius: 25)
[11:27:37 -53767.675858] Model parameter optimization (eps = 1.000000)
[11:27:45 -53766.246767] SLOW spr round 1 (radius: 5)
[11:29:15 -53745.514916] SLOW spr round 2 (radius: 5)
[11:30:45 -53724.964721] SLOW spr round 3 (radius: 5)
[11:32:09 -53723.601464] SLOW spr round 4 (radius: 5)
[11:33:32 -53723.601462] SLOW spr round 5 (radius: 10)
[11:34:56 -53722.466653] SLOW spr round 6 (radius: 5)
[11:36:39 -53722.466627] SLOW spr round 7 (radius: 10)
[11:38:10 -53720.444117] SLOW spr round 8 (radius: 5)
[11:39:52 -53714.722858] SLOW spr round 9 (radius: 5)
[11:41:25 -53709.437028] SLOW spr round 10 (radius: 5)
[11:42:52 -53709.107185] SLOW spr round 11 (radius: 5)
[11:44:17 -53709.107175] SLOW spr round 12 (radius: 10)
[11:45:41 -53709.107175] SLOW spr round 13 (radius: 15)
[11:47:46 -53709.107175] SLOW spr round 14 (radius: 20)
[11:50:06 -53708.736753] SLOW spr round 15 (radius: 5)
[11:51:53 -53708.736751] SLOW spr round 16 (radius: 10)
[11:53:30 -53708.736751] SLOW spr round 17 (radius: 15)
[11:55:28 -53706.286110] SLOW spr round 18 (radius: 5)
[11:57:14 -53706.286104] SLOW spr round 19 (radius: 10)
[11:58:49 -53706.286104] SLOW spr round 20 (radius: 15)
[12:00:44 -53706.286104] SLOW spr round 21 (radius: 20)
[12:03:07 -53706.286104] SLOW spr round 22 (radius: 25)
[12:05:38 -53706.286104] Model parameter optimization (eps = 0.100000)

[12:05:42] ML tree search #20, logLikelihood: -53706.190892


Optimized model parameters:

   Partition 0: noname
   Rate heterogeneity: FREE (4 cats, mean),  weights&rates: (0.426985,0.371414) (0.354364,0.636848) (0.150857,1.915152) (0.067794,4.820789) 
   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: -53703.502842

AIC score: 111417.005684 / AICc score: 8155477.005684 / BIC score: 119743.234737
Free parameters (model + branch lengths): 2005

WARNING: Number of free parameters (K=2005) is larger than alignment size (n=470).
         This might lead to overfitting and compromise tree inference results!


Best ML tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/3_mltree/P21281.raxml.bestTree
All ML trees saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/3_mltree/P21281.raxml.mlTrees
Optimized model saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/3_mltree/P21281.raxml.bestModel

Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P21281/3_mltree/P21281.raxml.log

Analysis started: 17-Jul-2021 04:04:46 / finished: 17-Jul-2021 16:10:29

Elapsed time: 43542.900 seconds