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 23-Jun-2021 00:30:08 as follows: raxml-ng --ancestral --msa /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/2_msa/P60891_nogap_msa.fasta --tree /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/3_mltree/P60891.raxml.bestTree_unrooted --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/4_raxmlng_ancestral/P60891 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1624397408 tip-inner: ON pattern compression: OFF per-rate scalers: OFF site repeats: OFF branch lengths: proportional (ML estimate, algorithm: NR-FAST) SIMD kernels: AVX2 parallelization: coarse-grained (auto), PTHREADS (4 threads), thread pinning: OFF [00:00:00] Reading alignment from file: /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/2_msa/P60891_nogap_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 318 sites WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_Q9VT33_Q9VT33_DROME_7227 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_B4IYA0_B4IYA0_DROGR_7222 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_B4HL90_B4HL90_DROSE_7238 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_A0A0R3P7I4_A0A0R3P7I4_DROPS_46245 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_B4MMS3_B4MMS3_DROWI_7260 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_A0A0P8Y8Z0_A0A0P8Y8Z0_DROAN_7217 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_B4KVU8_B4KVU8_DROMO_7230 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_A0A0L0CDS4_A0A0L0CDS4_LUCCU_7375 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_A0A0M4EYQ0_A0A0M4EYQ0_DROBS_30019 are exactly identical! WARNING: Sequences tr_B4QNA7_B4QNA7_DROSI_7240 and tr_A0A1W4UMB9_A0A1W4UMB9_DROFC_30025 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_A0A158NTP6_A0A158NTP6_ATTCE_12957 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_F4WIZ3_F4WIZ3_ACREC_103372 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_E2BGT8_E2BGT8_HARSA_610380 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_A0A026W0V1_A0A026W0V1_OOCBI_2015173 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_A0A0L7QXR7_A0A0L7QXR7_9HYME_597456 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_A0A151XHG3_A0A151XHG3_9HYME_64791 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_A0A151IY24_A0A151IY24_9HYME_471704 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_A0A151I051_A0A151I051_9HYME_520822 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_A0A195FP82_A0A195FP82_9HYME_34720 are exactly identical! WARNING: Sequences tr_E2B1Y4_E2B1Y4_CAMFO_104421 and tr_A0A195CU27_A0A195CU27_9HYME_456900 are exactly identical! WARNING: Sequences tr_F1NIP5_F1NIP5_CHICK_9031 and tr_H0Z7Y7_H0Z7Y7_TAEGU_59729 are exactly identical! WARNING: Sequences tr_F1NIP5_F1NIP5_CHICK_9031 and tr_U3K9R5_U3K9R5_FICAL_59894 are exactly identical! WARNING: Sequences tr_F1NIP5_F1NIP5_CHICK_9031 and tr_A0A218ULN7_A0A218ULN7_9PASE_299123 are exactly identical! WARNING: Sequences tr_F1NIP5_F1NIP5_CHICK_9031 and tr_A0A226MPB5_A0A226MPB5_CALSU_9009 are exactly identical! WARNING: Sequences tr_F1NIP5_F1NIP5_CHICK_9031 and tr_A0A226PJM8_A0A226PJM8_COLVI_9014 are exactly identical! WARNING: Sequences sp_Q5ZI49_PRPS2_CHICK_9031 and tr_G1NPD4_G1NPD4_MELGA_9103 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_M3XXG3_M3XXG3_MUSPF_9669 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A2I3FSD8_A0A2I3FSD8_NOMLE_61853 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_G1PSG7_G1PSG7_MYOLU_59463 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_G3R9N5_G3R9N5_GORGO_9595 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and sp_Q5RFJ7_PRPS1_PONAB_9601 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_E2RBG1_E2RBG1_CANLF_9615 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_H2QYZ4_H2QYZ4_PANTR_9598 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and sp_P60892_PRPS1_RAT_10116 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_I3MA44_I3MA44_ICTTR_43179 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and sp_P60891_PRPS1_HUMAN_9606 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_F6RUH7_F6RUH7_MACMU_9544 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_G3THY0_G3THY0_LOXAF_9785 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_F7HZU6_F7HZU6_CALJA_9483 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_F7I4I3_F7I4I3_CALJA_9483 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_F2Z572_F2Z572_PIG_9823 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_D2HJV9_D2HJV9_AILME_9646 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and sp_Q2HJ58_PRPS1_BOVIN_9913 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_L5KF57_L5KF57_PTEAL_9402 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A337SDM3_A0A337SDM3_FELCA_9685 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A096N9P3_A0A096N9P3_PAPAN_9555 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A091EMD1_A0A091EMD1_FUKDA_885580 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A1S3A564_A0A1S3A564_ERIEU_9365 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A1S3FZ81_A0A1S3FZ81_DIPOR_10020 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A3Q0DH12_A0A3Q0DH12_TARSY_1868482 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A2K5MSF0_A0A2K5MSF0_CERAT_9531 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A2K6CQS0_A0A2K6CQS0_MACNE_9545 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A2R9CDT0_A0A2R9CDT0_PANPA_9597 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A2U3V999_A0A2U3V999_TURTR_9739 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A2Y9LAJ2_A0A2Y9LAJ2_ENHLU_391180 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A2Y9LRU6_A0A2Y9LRU6_DELLE_9749 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A2Y9EFD4_A0A2Y9EFD4_PHYCD_9755 are exactly identical! WARNING: Sequences sp_Q9D7G0_PRPS1_MOUSE_10090 and tr_A0A384B9U9_A0A384B9U9_BALAS_310752 are exactly identical! WARNING: Sequences tr_H2LP36_H2LP36_ORYLA_8090 and tr_I3KN25_I3KN25_ORENI_8128 are exactly identical! WARNING: Sequences tr_E3S8T3_E3S8T3_PYRTT_861557 and tr_B2W7N0_B2W7N0_PYRTR_426418 are exactly identical! WARNING: Sequences tr_E3S8T3_E3S8T3_PYRTT_861557 and tr_M2RRK8_M2RRK8_COCSN_665912 are exactly identical! WARNING: Sequences tr_E3S8T3_E3S8T3_PYRTT_861557 and tr_R0J2K5_R0J2K5_SETT2_671987 are exactly identical! WARNING: Sequences tr_E3S8T3_E3S8T3_PYRTT_861557 and tr_M2V7R5_M2V7R5_COCH5_701091 are exactly identical! WARNING: Sequences tr_E3S8T3_E3S8T3_PYRTT_861557 and tr_W6YU62_W6YU62_COCCA_930089 are exactly identical! WARNING: Sequences tr_E3S8T3_E3S8T3_PYRTT_861557 and tr_W6YY43_W6YY43_COCMI_930090 are exactly identical! WARNING: Sequences tr_E3S8T3_E3S8T3_PYRTT_861557 and tr_A0A2W1I037_A0A2W1I037_9PLEO_45151 are exactly identical! WARNING: Sequences tr_G3I9Z3_G3I9Z3_CRIGR_10029 and sp_P09330_PRPS2_RAT_10116 are exactly identical! WARNING: Sequences tr_G3I9Z3_G3I9Z3_CRIGR_10029 and tr_A0A2Y9M8Z1_A0A2Y9M8Z1_DELLE_9749 are exactly identical! WARNING: Sequences tr_G3I9Z3_G3I9Z3_CRIGR_10029 and tr_A0A2Y9FIJ0_A0A2Y9FIJ0_PHYCD_9755 are exactly identical! WARNING: Sequences tr_J3KJA7_J3KJA7_COCIM_246410 and tr_A0A0J7AVQ8_A0A0J7AVQ8_COCIT_404692 are exactly identical! WARNING: Sequences tr_B6QQ74_B6QQ74_TALMQ_441960 and tr_A0A093V8K9_A0A093V8K9_TALMA_1077442 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and sp_Q5R8F8_PRPS2_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and tr_K7D407_K7D407_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and sp_P11908_PRPS2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and tr_I0FJ99_I0FJ99_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and tr_A0A2R8MRN4_A0A2R8MRN4_CALJA_9483 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and tr_A0A096MNC3_A0A096MNC3_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and tr_A0A0D9RRL0_A0A0D9RRL0_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and tr_A0A2K5P4J8_A0A2K5P4J8_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and tr_A0A2K6B971_A0A2K6B971_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3QZ28_G3QZ28_GORGO_9595 and tr_A0A2R9B019_A0A2R9B019_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1T373_G1T373_RABIT_9986 and tr_A0A1U7QDE2_A0A1U7QDE2_MESAU_10036 are exactly identical! WARNING: Sequences tr_B8N369_B8N369_ASPFN_332952 and tr_Q2UJP1_Q2UJP1_ASPOR_510516 are exactly identical! WARNING: Sequences tr_B8N369_B8N369_ASPFN_332952 and tr_A0A0F0IF43_A0A0F0IF43_ASPPU_1403190 are exactly identical! WARNING: Sequences tr_B8N369_B8N369_ASPFN_332952 and tr_A0A1F7ZQ15_A0A1F7ZQ15_9EURO_109264 are exactly identical! WARNING: Sequences tr_B8N369_B8N369_ASPFN_332952 and tr_A0A1S9DLR7_A0A1S9DLR7_ASPOZ_5062 are exactly identical! WARNING: Sequences tr_B8N369_B8N369_ASPFN_332952 and tr_A0A2G7FUT1_A0A2G7FUT1_9EURO_656916 are exactly identical! WARNING: Sequences tr_A0A179UJX5_A0A179UJX5_BLAGS_559298 and tr_C5GV17_C5GV17_AJEDR_559297 are exactly identical! WARNING: Sequences tr_F9FXN7_F9FXN7_FUSOF_660025 and tr_W7M2N9_W7M2N9_GIBM7_334819 are exactly identical! WARNING: Sequences tr_F9FXN7_F9FXN7_FUSOF_660025 and tr_A0A0D2XPQ1_A0A0D2XPQ1_FUSO4_426428 are exactly identical! WARNING: Sequences tr_F9FXN7_F9FXN7_FUSOF_660025 and tr_S0DXC4_S0DXC4_GIBF5_1279085 are exactly identical! WARNING: Sequences tr_F9FXN7_F9FXN7_FUSOF_660025 and tr_N4ULB7_N4ULB7_FUSC1_1229664 are exactly identical! WARNING: Sequences tr_F9FXN7_F9FXN7_FUSOF_660025 and tr_X0C094_X0C094_FUSOX_1089458 are exactly identical! WARNING: Sequences tr_F9FXN7_F9FXN7_FUSOF_660025 and tr_A0A2H3HMJ8_A0A2H3HMJ8_FUSOX_327505 are exactly identical! WARNING: Sequences tr_F9FXN7_F9FXN7_FUSOF_660025 and tr_A0A2K0WUA8_A0A2K0WUA8_GIBNY_42673 are exactly identical! WARNING: Sequences tr_F9FXN7_F9FXN7_FUSOF_660025 and tr_A0A365NDL4_A0A365NDL4_GIBIN_948311 are exactly identical! WARNING: Sequences tr_A0A0G2JSV3_A0A0G2JSV3_RAT_10116 and tr_A0A2Y9R9T2_A0A2Y9R9T2_TRIMA_127582 are exactly identical! WARNING: Sequences tr_J4W526_J4W526_BEAB2_655819 and tr_A0A0A2VH00_A0A0A2VH00_BEABA_1245745 are exactly identical! WARNING: Sequences tr_A0A3B5QVP7_A0A3B5QVP7_XIPMA_8083 and tr_A0A087XDC9_A0A087XDC9_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A087ZTI8_A0A087ZTI8_APIME_7460 and tr_A0A0M8ZR17_A0A0M8ZR17_9HYME_166423 are exactly identical! WARNING: Sequences tr_A0A087ZTI8_A0A087ZTI8_APIME_7460 and tr_A0A154P910_A0A154P910_9HYME_178035 are exactly identical! WARNING: Sequences tr_A0A087ZTI8_A0A087ZTI8_APIME_7460 and tr_A0A2A3E4B2_A0A2A3E4B2_APICC_94128 are exactly identical! WARNING: Sequences tr_G9NMZ7_G9NMZ7_HYPAI_452589 and tr_A0A2P4ZMW6_A0A2P4ZMW6_9HYPO_398673 are exactly identical! WARNING: Sequences tr_J3NNM0_J3NNM0_GAGT3_644352 and tr_A0A0C4DMF2_A0A0C4DMF2_MAGP6_644358 are exactly identical! WARNING: Sequences tr_A0A158PXU9_A0A158PXU9_BRUMA_6279 and tr_A0A0N4TPU9_A0A0N4TPU9_BRUPA_6280 are exactly identical! WARNING: Sequences tr_A0A158PXU9_A0A158PXU9_BRUMA_6279 and tr_A0A0R3QZ84_A0A0R3QZ84_9BILA_42155 are exactly identical! WARNING: Sequences tr_A1CWP0_A1CWP0_NEOFI_331117 and tr_A0A0S7DUF5_A0A0S7DUF5_9EURO_293939 are exactly identical! WARNING: Sequences tr_A1CWP0_A1CWP0_NEOFI_331117 and tr_A0A229XLB7_A0A229XLB7_9EURO_1245748 are exactly identical! WARNING: Sequences tr_A1CWP0_A1CWP0_NEOFI_331117 and tr_A0A397GA68_A0A397GA68_9EURO_41047 are exactly identical! WARNING: Sequences tr_A1CWP0_A1CWP0_NEOFI_331117 and tr_A0A2I1C4Y1_A0A2I1C4Y1_9EURO_1392255 are exactly identical! WARNING: Sequences tr_A2QJ56_A2QJ56_ASPNC_425011 and tr_G7X856_G7X856_ASPKW_1033177 are exactly identical! WARNING: Sequences tr_A2QJ56_A2QJ56_ASPNC_425011 and tr_G3Y9G3_G3Y9G3_ASPNA_380704 are exactly identical! WARNING: Sequences tr_A2QJ56_A2QJ56_ASPNC_425011 and tr_A0A117DZ69_A0A117DZ69_ASPNG_5061 are exactly identical! WARNING: Sequences tr_A2QJ56_A2QJ56_ASPNC_425011 and tr_A0A146FKJ5_A0A146FKJ5_9EURO_1069201 are exactly identical! WARNING: Sequences tr_A2QJ56_A2QJ56_ASPNC_425011 and tr_A0A1L9MVL3_A0A1L9MVL3_ASPTU_767770 are exactly identical! WARNING: Sequences tr_A2QJ56_A2QJ56_ASPNC_425011 and tr_A0A319AGL4_A0A319AGL4_9EURO_1450533 are exactly identical! WARNING: Sequences tr_E5SAF5_E5SAF5_TRISP_6334 and tr_A0A0V1CYL5_A0A0V1CYL5_TRIBR_45882 are exactly identical! WARNING: Sequences tr_E5SAF5_E5SAF5_TRISP_6334 and tr_A0A0V0WV17_A0A0V0WV17_9BILA_92179 are exactly identical! WARNING: Sequences tr_E5SAF5_E5SAF5_TRISP_6334 and tr_A0A0V0V647_A0A0V0V647_9BILA_181606 are exactly identical! WARNING: Sequences tr_E5SAF5_E5SAF5_TRISP_6334 and tr_A0A0V1ADA0_A0A0V1ADA0_9BILA_990121 are exactly identical! WARNING: Sequences tr_E5SAF5_E5SAF5_TRISP_6334 and tr_A0A0V0TEC4_A0A0V0TEC4_9BILA_144512 are exactly identical! WARNING: Sequences tr_F4NW53_F4NW53_BATDJ_684364 and tr_A0A177WHU7_A0A177WHU7_BATDE_403673 are exactly identical! WARNING: Sequences tr_E6R9G4_E6R9G4_CRYGW_367775 and tr_A0A095EGD9_A0A095EGD9_CRYGR_294750 are exactly identical! WARNING: Sequences tr_F9XA70_F9XA70_ZYMTI_336722 and tr_A0A0F4GF20_A0A0F4GF20_9PEZI_1047168 are exactly identical! WARNING: Sequences tr_G0N5K4_G0N5K4_CAEBE_135651 and tr_A0A260ZVS3_A0A260ZVS3_9PELO_1503980 are exactly identical! WARNING: Sequences tr_G2YD46_G2YD46_BOTF4_999810 and tr_M7U0A4_M7U0A4_BOTF1_1290391 are exactly identical! WARNING: Sequences tr_A8XP61_A8XP61_CAEBR_6238 and tr_A0A2G5UFG5_A0A2G5UFG5_9PELO_1611254 are exactly identical! WARNING: Sequences tr_F2SX86_F2SX86_TRIRC_559305 and tr_D4B1E5_D4B1E5_ARTBC_663331 are exactly identical! WARNING: Sequences tr_F2SX86_F2SX86_TRIRC_559305 and tr_F2PST0_F2PST0_TRIEC_559882 are exactly identical! WARNING: Sequences tr_F2SX86_F2SX86_TRIRC_559305 and tr_A0A059JH33_A0A059JH33_9EURO_1215338 are exactly identical! WARNING: Sequences tr_F2SX86_F2SX86_TRIRC_559305 and tr_A0A178F875_A0A178F875_TRIRU_5551 are exactly identical! WARNING: Sequences tr_G0RPX9_G0RPX9_HYPJQ_431241 and tr_A0A2T4C4X8_A0A2T4C4X8_TRILO_983965 are exactly identical! WARNING: Sequences tr_G0RPX9_G0RPX9_HYPJQ_431241 and tr_A0A2T4B5F0_A0A2T4B5F0_9HYPO_58853 are exactly identical! WARNING: Sequences tr_B3RXQ0_B3RXQ0_TRIAD_10228 and tr_A0A369SJV4_A0A369SJV4_9METZ_287889 are exactly identical! WARNING: Sequences tr_K9FQB9_K9FQB9_PEND2_1170229 and tr_A0A0A2LET5_A0A0A2LET5_PENIT_40296 are exactly identical! WARNING: Sequences tr_K9FQB9_K9FQB9_PEND2_1170229 and tr_A0A0A2KXN2_A0A0A2KXN2_PENEN_27334 are exactly identical! WARNING: Sequences tr_K9FQB9_K9FQB9_PEND2_1170229 and tr_A0A0G4PRD5_A0A0G4PRD5_PENCA_1429867 are exactly identical! WARNING: Sequences tr_K9FQB9_K9FQB9_PEND2_1170229 and tr_A0A1V6S7A5_A0A1V6S7A5_9EURO_29845 are exactly identical! WARNING: Sequences tr_L8G329_L8G329_PSED2_658429 and tr_A0A094DNE3_A0A094DNE3_9PEZI_1420910 are exactly identical! WARNING: Sequences tr_S2K7H6_S2K7H6_MUCC1_1220926 and tr_A0A0C9MFX5_A0A0C9MFX5_9FUNG_91626 are exactly identical! WARNING: Sequences tr_S2K7H6_S2K7H6_MUCC1_1220926 and tr_A0A162QKU9_A0A162QKU9_MUCCL_747725 are exactly identical! WARNING: Sequences tr_V2X1L4_V2X1L4_MONRO_1381753 and tr_A0A0W0G3R0_A0A0W0G3R0_9AGAR_221103 are exactly identical! WARNING: Sequences tr_A0A015N575_A0A015N575_9GLOM_1432141 and tr_A0A2I1E172_A0A2I1E172_9GLOM_588596 are exactly identical! WARNING: Sequences tr_A0A015N575_A0A015N575_9GLOM_1432141 and tr_A0A2H5U1I9_A0A2H5U1I9_RHIID_747089 are exactly identical! WARNING: Sequences tr_A0A094EIX0_A0A094EIX0_9PEZI_1420912 and tr_A0A1B8EE43_A0A1B8EE43_9PEZI_1524831 are exactly identical! WARNING: Sequences tr_A0A094EIX0_A0A094EIX0_9PEZI_1420912 and tr_A0A1B8GM93_A0A1B8GM93_9PEZI_342668 are exactly identical! WARNING: Sequences tr_A0A0F8URT3_A0A0F8URT3_9EURO_308745 and tr_A0A2T5M6Z2_A0A2T5M6Z2_9EURO_1392256 are exactly identical! WARNING: Sequences tr_A0A0M8PBW5_A0A0M8PBW5_9EURO_229535 and tr_A0A135LPL2_A0A135LPL2_PENPA_5078 are exactly identical! WARNING: Sequences tr_A0A0M8PBW5_A0A0M8PBW5_9EURO_229535 and tr_A0A1V6NLE5_A0A1V6NLE5_9EURO_60169 are exactly identical! WARNING: Sequences tr_A0A0A1N783_A0A0A1N783_9FUNG_58291 and tr_A0A2G4T6B1_A0A2G4T6B1_9FUNG_1340429 are exactly identical! WARNING: Sequences tr_A0A0A1P2U1_A0A0A1P2U1_9FUNG_58291 and tr_A0A367IV38_A0A367IV38_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A0F7U275_A0A0F7U275_9EURO_104259 and tr_A0A1Q5UNE7_A0A1Q5UNE7_9EURO_1316194 are exactly identical! WARNING: Sequences tr_A0A0Q3TT27_A0A0Q3TT27_AMAAE_12930 and tr_A0A091IVA2_A0A091IVA2_EGRGA_188379 are exactly identical! WARNING: Sequences tr_A0A0Q3TT27_A0A0Q3TT27_AMAAE_12930 and tr_A0A091WEX6_A0A091WEX6_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091JQB0_A0A091JQB0_EGRGA_188379 and tr_A0A091UP68_A0A091UP68_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091JQB0_A0A091JQB0_EGRGA_188379 and tr_A0A087R0I9_A0A087R0I9_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091JQB0_A0A091JQB0_EGRGA_188379 and tr_A0A0A0AIU9_A0A0A0AIU9_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A0N0PEY1_A0A0N0PEY1_PAPMA_76193 and tr_A0A194QC00_A0A194QC00_PAPXU_66420 are exactly identical! WARNING: Sequences tr_A0A093PYP7_A0A093PYP7_9PASS_328815 and tr_A0A087RFL7_A0A087RFL7_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A093PYP7_A0A093PYP7_9PASS_328815 and tr_A0A091FS11_A0A091FS11_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A093PYP7_A0A093PYP7_9PASS_328815 and tr_A0A0A0AQ45_A0A0A0AQ45_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A093PYP7_A0A093PYP7_9PASS_328815 and tr_A0A093J2B5_A0A093J2B5_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A091WQ05_A0A091WQ05_OPIHO_30419 and tr_A0A091I290_A0A091I290_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A0V0SKM4_A0A0V0SKM4_9BILA_6336 and tr_A0A0V1L0Y6_A0A0V1L0Y6_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V1N732_A0A0V1N732_9BILA_268474 and tr_A0A0V1I6S4_A0A0V1I6S4_9BILA_268475 are exactly identical! WARNING: Sequences tr_A0A0P1BIS9_A0A0P1BIS9_9BASI_401625 and tr_A0A316VXM2_A0A316VXM2_9BASI_1522189 are exactly identical! WARNING: Sequences tr_I1RY62_I1RY62_GIBZE_229533 and tr_A0A2T4GE43_A0A2T4GE43_FUSCU_5516 are exactly identical! WARNING: Sequences tr_A0A164U5X7_A0A164U5X7_9HOMO_1314777 and tr_A0A166J548_A0A166J548_9HOMO_1314776 are exactly identical! WARNING: Sequences tr_A0A1A6A112_A0A1A6A112_9TREE_1296121 and tr_A0A1B9I4A0_A0A1B9I4A0_9TREE_1296096 are exactly identical! WARNING: Sequences tr_A0A1S3RIB2_A0A1S3RIB2_SALSA_8030 and tr_B5X3W4_B5X3W4_SALSA_8030 are exactly identical! WARNING: Sequences tr_A0A1S3SWD8_A0A1S3SWD8_SALSA_8030 and tr_A0A060Y2S4_A0A060Y2S4_ONCMY_8022 are exactly identical! WARNING: Sequences tr_B5XFY7_B5XFY7_SALSA_8030 and tr_A0A060WDU5_A0A060WDU5_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1I7T3C7_A0A1I7T3C7_9PELO_1561998 and tr_A0A1I7T3C8_A0A1I7T3C8_9PELO_1561998 are exactly identical! WARNING: Sequences tr_A0A1I7T3C7_A0A1I7T3C7_9PELO_1561998 and tr_A0A1I7T3C9_A0A1I7T3C9_9PELO_1561998 are exactly identical! WARNING: Sequences tr_A0A1F5LFW4_A0A1F5LFW4_9EURO_1835702 and tr_A0A1V6QEP6_A0A1V6QEP6_9EURO_416450 are exactly identical! WARNING: Sequences tr_A0A1V8UTA5_A0A1V8UTA5_9PEZI_1974281 and tr_A0A1V8TA81_A0A1V8TA81_9PEZI_1507870 are exactly identical! WARNING: Sequences tr_A0A1V8UTA5_A0A1V8UTA5_9PEZI_1974281 and tr_A0A1V8TD68_A0A1V8TD68_9PEZI_1507870 are exactly identical! WARNING: Sequences tr_A0A1Z5TB41_A0A1Z5TB41_HORWE_1157616 and tr_A0A1Z5TKY2_A0A1Z5TKY2_HORWE_1157616 are exactly identical! WARNING: Sequences tr_A0A2A2JBY8_A0A2A2JBY8_9BILA_2018661 and tr_A0A2A2LM34_A0A2A2LM34_9BILA_2018661 are exactly identical! WARNING: Sequences tr_A0A2U3XPY2_A0A2U3XPY2_LEPWE_9713 and tr_A0A384CIC6_A0A384CIC6_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A318ZCM2_A0A318ZCM2_9EURO_1450539 and tr_A0A395HQK4_A0A395HQK4_9EURO_1450537 are exactly identical! WARNING: Sequences tr_A0A2V5IZU6_A0A2V5IZU6_9EURO_1450541 and tr_A0A2V5IEV0_A0A2V5IEV0_9EURO_1450538 are exactly identical! WARNING: Sequences tr_A0A369GMT7_A0A369GMT7_9HYPO_2039875 and tr_A0A369H6Y4_A0A369H6Y4_9HYPO_2039874 are exactly identical! WARNING: Duplicate sequences found: 183 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/4_raxmlng_ancestral/P60891.raxml.reduced.phy Alignment comprises 1 partitions and 318 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 318 Gaps: 1.64 % Invariant sites: 1.57 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/4_raxmlng_ancestral/P60891.raxml.rba Parallelization scheme autoconfig: 1 worker(s) x 4 thread(s) Parallel reduction/worker buffer size: 1 KB / 0 KB [00:00:00] Loading user starting tree(s) from: /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/3_mltree/P60891.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 80 / 6400 [00:00:00] Data distribution: max. searches per worker: 1 Starting ML tree search with 1 distinct starting trees [00:00:00] Tree #1, initial LogLikelihood: -65965.458043 [00:00:00 -65965.458043] Initial branch length optimization [00:00:00 -65543.847629] Model parameter optimization (eps = 0.100000) [00:00:27] Tree #1, final logLikelihood: -65215.383775 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.333038,0.344077) (0.334271,0.502732) (0.209983,1.238946) (0.122708,3.725949) 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 Marginal ancestral probabilities saved to: /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/4_raxmlng_ancestral/P60891.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/4_raxmlng_ancestral/P60891.raxml.ancestralStates Node-labeled tree saved to: /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/4_raxmlng_ancestral/P60891.raxml.ancestralTree Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/030621_run/phylogeny-snakemake/results/P60891/4_raxmlng_ancestral/P60891.raxml.log Analysis started: 23-Jun-2021 00:30:08 / finished: 23-Jun-2021 00:30:39 Elapsed time: 30.272 seconds Consumed energy: 1.806 Wh