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 02-Jun-2021 18:34:19 as follows: raxml-ng --ancestral --msa /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P0DPB6/2_msa/P0DPB6_nogap_msa.fasta --tree /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P0DPB6/3_mltree/P0DPB6.raxml.bestTree_unrooted --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P0DPB6/4_raxmlng_ancestral/P0DPB6 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1622648059 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/020621_run/phylogeny-snakemake/results/P0DPB6/2_msa/P0DPB6_nogap_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 133 sites WARNING: Sequences tr_B4Q7X4_B4Q7X4_DROSI_7240 and sp_Q9VJE4_RPB11_DROME_7227 are exactly identical! WARNING: Sequences tr_B4Q7X4_B4Q7X4_DROSI_7240 and tr_B4JD16_B4JD16_DROGR_7222 are exactly identical! WARNING: Sequences tr_B4Q7X4_B4Q7X4_DROSI_7240 and tr_B4N1B4_B4N1B4_DROWI_7260 are exactly identical! WARNING: Sequences tr_B4Q7X4_B4Q7X4_DROSI_7240 and tr_B3MMI8_B3MMI8_DROAN_7217 are exactly identical! WARNING: Sequences tr_B4Q7X4_B4Q7X4_DROSI_7240 and tr_B4MDE7_B4MDE7_DROVI_7244 are exactly identical! WARNING: Sequences tr_B4Q7X4_B4Q7X4_DROSI_7240 and tr_B4KFR9_B4KFR9_DROMO_7230 are exactly identical! WARNING: Sequences tr_B4Q7X4_B4Q7X4_DROSI_7240 and tr_A0A0M5J214_A0A0M5J214_DROBS_30019 are exactly identical! WARNING: Sequences tr_B4Q7X4_B4Q7X4_DROSI_7240 and tr_A0A1W4ULL6_A0A1W4ULL6_DROFC_30025 are exactly identical! WARNING: Sequences tr_B4Q9H4_B4Q9H4_DROSI_7240 and tr_B4I5S3_B4I5S3_DROSE_7238 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_G1PFZ6_G1PFZ6_MYOLU_59463 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_G1MWS9_G1MWS9_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_D3ZQI0_D3ZQI0_RAT_10116 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A287DE78_A0A287DE78_ICTTR_43179 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_H0UW44_H0UW44_CAVPO_10141 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and sp_P52435_RPB11_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_G5AXA4_G5AXA4_HETGA_10181 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_G3TML1_G3TML1_LOXAF_9785 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_F1RKE4_F1RKE4_PIG_9823 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and sp_Q32P79_RPB11_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_L5K5V9_L5K5V9_PTEAL_9402 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A2I2U599_A0A2I2U599_FELCA_9685 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_U3K4H8_U3K4H8_FICAL_59894 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A091DWJ8_A0A091DWJ8_FUKDA_885580 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A0D9RZS3_A0A0D9RZS3_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A151N588_A0A151N588_ALLMI_8496 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A1S2ZE48_A0A1S2ZE48_ERIEU_9365 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A1S3GG51_A0A1S3GG51_DIPOR_10020 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A1U7QTD1_A0A1U7QTD1_MESAU_10036 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A1V4K302_A0A1V4K302_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A218V1R7_A0A218V1R7_9PASE_299123 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A226NBY8_A0A226NBY8_CALSU_9009 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A226PFK2_A0A226PFK2_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A2Y9E2N0_A0A2Y9E2N0_TRIMA_127582 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A2Y9PEK0_A0A2Y9PEK0_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A2Y9EKN9_A0A2Y9EKN9_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A384CQJ4_A0A384CQJ4_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A1D5NWZ8_A0A1D5NWZ8_CHICK_9031 and tr_A0A384AHE1_A0A384AHE1_BALAS_310752 are exactly identical! WARNING: Sequences tr_G1QHN7_G1QHN7_NOMLE_61853 and tr_G3RWW1_G3RWW1_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1QHN7_G1QHN7_NOMLE_61853 and tr_H2RA83_H2RA83_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1QHN7_G1QHN7_NOMLE_61853 and sp_P0DPB6_RPAC2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_J3KLY2_J3KLY2_COCIM_246410 and tr_E9D8K9_E9D8K9_COCPS_443226 are exactly identical! WARNING: Sequences tr_B6QVD5_B6QVD5_TALMQ_441960 and tr_A0A093VC80_A0A093VC80_TALMA_1077442 are exactly identical! WARNING: Sequences tr_B2VVA3_B2VVA3_PYRTR_426418 and tr_A0A2W1E4I4_A0A2W1E4I4_9PLEO_45151 are exactly identical! WARNING: Sequences tr_C0NZW5_C0NZW5_AJECG_447093 and tr_F0UR77_F0UR77_AJEC8_544711 are exactly identical! WARNING: Sequences tr_Q29CK4_Q29CK4_DROPS_46245 and tr_B4GXE8_B4GXE8_DROPE_7234 are exactly identical! WARNING: Sequences tr_Q29MR4_Q29MR4_DROPS_46245 and tr_B4G8W2_B4G8W2_DROPE_7234 are exactly identical! WARNING: Sequences tr_B8NDQ0_B8NDQ0_ASPFN_332952 and tr_A0A1S9D9T3_A0A1S9D9T3_ASPOZ_5062 are exactly identical! WARNING: Sequences tr_A0A179UWB9_A0A179UWB9_BLAGS_559298 and tr_C5GLL9_C5GLL9_AJEDR_559297 are exactly identical! WARNING: Sequences tr_E2RI73_E2RI73_CANLF_9615 and tr_A0A2U3WYM9_A0A2U3WYM9_ODORO_9708 are exactly identical! WARNING: Sequences tr_E2RI73_E2RI73_CANLF_9615 and tr_A0A2U3Z107_A0A2U3Z107_LEPWE_9713 are exactly identical! WARNING: Sequences tr_E2RI73_E2RI73_CANLF_9615 and tr_A0A2Y9KYG3_A0A2Y9KYG3_ENHLU_391180 are exactly identical! WARNING: Sequences tr_Q4D7H8_Q4D7H8_TRYCC_353153 and tr_Q4DBQ7_Q4DBQ7_TRYCC_353153 are exactly identical! WARNING: Sequences tr_F9GFS9_F9GFS9_FUSOF_660025 and tr_W7MA67_W7MA67_GIBM7_334819 are exactly identical! WARNING: Sequences tr_F9GFS9_F9GFS9_FUSOF_660025 and tr_X0D1A1_X0D1A1_FUSOX_1089458 are exactly identical! WARNING: Sequences tr_F9GFS9_F9GFS9_FUSOF_660025 and tr_I1RS30_I1RS30_GIBZE_229533 are exactly identical! WARNING: Sequences tr_F9GFS9_F9GFS9_FUSOF_660025 and tr_A0A2H3T495_A0A2H3T495_FUSOX_5507 are exactly identical! WARNING: Sequences tr_F9GFS9_F9GFS9_FUSOF_660025 and tr_A0A2K0WD76_A0A2K0WD76_GIBNY_42673 are exactly identical! WARNING: Sequences tr_Q4WDF9_Q4WDF9_ASPFU_330879 and tr_A0A0K8L8L5_A0A0K8L8L5_9EURO_91492 are exactly identical! WARNING: Sequences tr_Q4WDF9_Q4WDF9_ASPFU_330879 and tr_A0A0S7DER8_A0A0S7DER8_9EURO_293939 are exactly identical! WARNING: Sequences tr_Q4WDF9_Q4WDF9_ASPFU_330879 and tr_A0A2I1CE02_A0A2I1CE02_9EURO_1392255 are exactly identical! WARNING: Sequences tr_J4W9D0_J4W9D0_BEAB2_655819 and tr_A0A0A2VZ08_A0A0A2VZ08_BEABA_1245745 are exactly identical! WARNING: Sequences tr_M4AD97_M4AD97_XIPMA_8083 and tr_I3IUP1_I3IUP1_ORENI_8128 are exactly identical! WARNING: Sequences tr_M4AD97_M4AD97_XIPMA_8083 and tr_A0A3B5KLR2_A0A3B5KLR2_TAKRU_31033 are exactly identical! WARNING: Sequences tr_M4AD97_M4AD97_XIPMA_8083 and tr_G3NG72_G3NG72_GASAC_69293 are exactly identical! WARNING: Sequences tr_M4AD97_M4AD97_XIPMA_8083 and tr_A0A2U9BF23_A0A2U9BF23_SCOMX_52904 are exactly identical! WARNING: Sequences tr_A0A087ZQW2_A0A087ZQW2_APIME_7460 and tr_A0A2A3E356_A0A2A3E356_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A158NBS0_A0A158NBS0_ATTCE_12957 and tr_A0A195BF36_A0A195BF36_9HYME_520822 are exactly identical! WARNING: Sequences tr_G9NJ55_G9NJ55_HYPAI_452589 and tr_A0A2K0TQA4_A0A2K0TQA4_9HYPO_398673 are exactly identical! WARNING: Sequences tr_G9NJ55_G9NJ55_HYPAI_452589 and tr_A0A2T3ZES8_A0A2T3ZES8_9HYPO_1042311 are exactly identical! WARNING: Sequences tr_A0A0E0J7P9_A0A0E0J7P9_ORYNI_4536 and tr_A0A0E0REU1_A0A0E0REU1_ORYRU_4529 are exactly identical! WARNING: Sequences tr_G7XH73_G7XH73_ASPKW_1033177 and tr_A0A100IH03_A0A100IH03_ASPNG_5061 are exactly identical! WARNING: Sequences tr_G7XH73_G7XH73_ASPKW_1033177 and tr_A0A146G0P7_A0A146G0P7_9EURO_1069201 are exactly identical! WARNING: Sequences tr_G7XH73_G7XH73_ASPKW_1033177 and tr_A0A1L9MSX9_A0A1L9MSX9_ASPTU_767770 are exactly identical! WARNING: Sequences tr_G7XH73_G7XH73_ASPKW_1033177 and tr_A0A317W371_A0A317W371_9EURO_1448314 are exactly identical! WARNING: Sequences tr_B8BNJ8_B8BNJ8_ORYSI_39946 and tr_I1R4S8_I1R4S8_ORYGL_4538 are exactly identical! WARNING: Sequences tr_B8BNJ8_B8BNJ8_ORYSI_39946 and tr_A0A0D3HSA1_A0A0D3HSA1_9ORYZ_65489 are exactly identical! WARNING: Sequences tr_B8BNJ8_B8BNJ8_ORYSI_39946 and tr_Q2QWI0_Q2QWI0_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_G9MMW6_G9MMW6_HYPVG_413071 and tr_A0A0G0AK87_A0A0G0AK87_TRIHA_5544 are exactly identical! WARNING: Sequences tr_G9MMW6_G9MMW6_HYPVG_413071 and tr_A0A2T4AHP0_A0A2T4AHP0_TRIHA_983964 are exactly identical! WARNING: Sequences tr_K7FT82_K7FT82_PELSI_13735 and tr_H0Z244_H0Z244_TAEGU_59729 are exactly identical! WARNING: Sequences tr_K7FT82_K7FT82_PELSI_13735 and tr_A0A091F4P6_A0A091F4P6_CORBR_85066 are exactly identical! WARNING: Sequences tr_K7FT82_K7FT82_PELSI_13735 and tr_A0A091JJE0_A0A091JJE0_EGRGA_188379 are exactly identical! WARNING: Sequences tr_K7FT82_K7FT82_PELSI_13735 and tr_A0A093QBN4_A0A093QBN4_9PASS_328815 are exactly identical! WARNING: Sequences tr_K7FT82_K7FT82_PELSI_13735 and tr_A0A091VD31_A0A091VD31_NIPNI_128390 are exactly identical! WARNING: Sequences tr_K7FT82_K7FT82_PELSI_13735 and tr_A0A091FZJ4_A0A091FZJ4_9AVES_55661 are exactly identical! WARNING: Sequences tr_K7FT82_K7FT82_PELSI_13735 and tr_A0A093G998_A0A093G998_DRYPU_118200 are exactly identical! WARNING: Sequences tr_E6R163_E6R163_CRYGW_367775 and tr_A0A095C0K3_A0A095C0K3_CRYGR_294750 are exactly identical! WARNING: Sequences tr_G2XWM6_G2XWM6_BOTF4_999810 and tr_M7TT90_M7TT90_BOTF1_1290391 are exactly identical! WARNING: Sequences tr_F2SVP7_F2SVP7_TRIRC_559305 and tr_A0A178EZ60_A0A178EZ60_TRIRU_5551 are exactly identical! WARNING: Sequences tr_B3S6B1_B3S6B1_TRIAD_10228 and tr_A0A369SKA9_A0A369SKA9_9METZ_287889 are exactly identical! WARNING: Sequences tr_G3XXH5_G3XXH5_ASPNA_380704 and tr_A0A1L9UBX4_A0A1L9UBX4_9EURO_767769 are exactly identical! WARNING: Sequences tr_L0PE14_L0PE14_PNEJ8_1209962 and tr_A0A0W4ZKU6_A0A0W4ZKU6_PNEJ7_1408657 are exactly identical! WARNING: Sequences tr_M4DPD9_M4DPD9_BRARP_51351 and tr_A0A078I6D6_A0A078I6D6_BRANA_3708 are exactly identical! WARNING: Sequences tr_M2TFM4_M2TFM4_COCSN_665912 and tr_M2UFX3_M2UFX3_COCH5_701091 are exactly identical! WARNING: Sequences tr_M2TFM4_M2TFM4_COCSN_665912 and tr_W6XR87_W6XR87_COCCA_930089 are exactly identical! WARNING: Sequences tr_M2TFM4_M2TFM4_COCSN_665912 and tr_W6ZGB3_W6ZGB3_COCMI_930090 are exactly identical! WARNING: Sequences tr_U5H732_U5H732_USTV1_683840 and tr_A0A2X0M4H9_A0A2X0M4H9_9BASI_796604 are exactly identical! WARNING: Sequences tr_W5KJG2_W5KJG2_ASTMX_7994 and tr_E3TFE0_E3TFE0_ICTPU_7998 are exactly identical! WARNING: Sequences tr_W2RED3_W2RED3_PHYPN_761204 and tr_A0A0W8DNE1_A0A0W8DNE1_PHYNI_4790 are exactly identical! WARNING: Sequences tr_W2RED3_W2RED3_PHYPN_761204 and tr_W2P942_W2P942_PHYPR_4792 are exactly identical! WARNING: Sequences tr_W2RED3_W2RED3_PHYPN_761204 and tr_A0A329SPW6_A0A329SPW6_9STRA_29920 are exactly identical! WARNING: Sequences tr_A0A010QYH9_A0A010QYH9_9PEZI_1445577 and tr_A0A135UET1_A0A135UET1_9PEZI_1209931 are exactly identical! WARNING: Sequences tr_A0A015MNU0_A0A015MNU0_9GLOM_1432141 and tr_U9V1F9_U9V1F9_RHIID_747089 are exactly identical! WARNING: Sequences tr_A0A044SB51_A0A044SB51_ONCVO_6282 and tr_A0A182EFX3_A0A182EFX3_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A067FHA8_A0A067FHA8_CITSI_2711 and tr_V4SHE4_V4SHE4_9ROSI_85681 are exactly identical! WARNING: Sequences tr_A0A067FHA8_A0A067FHA8_CITSI_2711 and tr_A0A2H5NCM4_A0A2H5NCM4_CITUN_55188 are exactly identical! WARNING: Sequences tr_A0A096NBI0_A0A096NBI0_PAPAN_9555 and tr_A0A2K6ARY0_A0A2K6ARY0_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A096NBI0_A0A096NBI0_PAPAN_9555 and tr_A0A2K6A0V0_A0A2K6A0V0_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A078ITM9_A0A078ITM9_BRANA_3708 and tr_A0A0D3BTT8_A0A0D3BTT8_BRAOL_109376 are exactly identical! WARNING: Sequences tr_A0A094E3L2_A0A094E3L2_9PEZI_1420912 and tr_A0A1B8GNG1_A0A1B8GNG1_9PEZI_342668 are exactly identical! WARNING: Sequences tr_A0A0A2KUX6_A0A0A2KUX6_PENIT_40296 and tr_A0A0A2KHB2_A0A0A2KHB2_PENEN_27334 are exactly identical! WARNING: Sequences tr_A0A0A2KUX6_A0A0A2KUX6_PENIT_40296 and tr_A0A0N0RXG7_A0A0N0RXG7_9EURO_229535 are exactly identical! WARNING: Sequences tr_A0A0A2KUX6_A0A0A2KUX6_PENIT_40296 and tr_A0A1V6NA53_A0A1V6NA53_9EURO_60169 are exactly identical! WARNING: Sequences tr_A0A0A2KUX6_A0A0A2KUX6_PENIT_40296 and tr_A0A1V6RA00_A0A1V6RA00_9EURO_60172 are exactly identical! WARNING: Sequences tr_A0A067C9Q8_A0A067C9Q8_SAPPC_695850 and tr_T0RFZ1_T0RFZ1_9STRA_1156394 are exactly identical! WARNING: Sequences tr_A0A0D2QZS2_A0A0D2QZS2_GOSRA_29730 and tr_A0A1U8JWV3_A0A1U8JWV3_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0D2QZS2_A0A0D2QZS2_GOSRA_29730 and tr_A0A1U8ND29_A0A1U8ND29_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0F0IBA8_A0A0F0IBA8_ASPPU_1403190 and tr_A0A2G7G2Y2_A0A2G7G2Y2_9EURO_656916 are exactly identical! WARNING: Sequences tr_A0A0F8VF92_A0A0F8VF92_9EURO_308745 and tr_A0A2T5LR36_A0A2T5LR36_9EURO_1392256 are exactly identical! WARNING: Sequences tr_A0A0N4T9M5_A0A0N4T9M5_BRUPA_6280 and tr_A0A0N4TFG4_A0A0N4TFG4_BRUPA_6280 are exactly identical! WARNING: Sequences tr_A0A0A1NIH8_A0A0A1NIH8_9FUNG_58291 and tr_A0A2G4SRG5_A0A2G4SRG5_9FUNG_1340429 are exactly identical! WARNING: Sequences tr_A0A0A1NIH8_A0A0A1NIH8_9FUNG_58291 and tr_A0A367J412_A0A367J412_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A0G4KJQ8_A0A0G4KJQ8_9PEZI_100787 and tr_A0A0G4M7R0_A0A0G4M7R0_9PEZI_100787 are exactly identical! WARNING: Sequences tr_A0A0V0SLD6_A0A0V0SLD6_9BILA_6336 and tr_A0A0V1DF89_A0A0V1DF89_TRIBR_45882 are exactly identical! WARNING: Sequences tr_A0A0V0SLD6_A0A0V0SLD6_9BILA_6336 and tr_A0A0V0X832_A0A0V0X832_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V0SLD6_A0A0V0SLD6_9BILA_6336 and tr_A0A0V1L5Y9_A0A0V1L5Y9_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0SLD6_A0A0V0SLD6_9BILA_6336 and tr_A0A0V1A8G1_A0A0V1A8G1_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V0SLD6_A0A0V0SLD6_9BILA_6336 and tr_A0A0V1NUY0_A0A0V1NUY0_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V0SLD6_A0A0V0SLD6_9BILA_6336 and tr_A0A0V0U1K0_A0A0V0U1K0_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0V1D4H8_A0A0V1D4H8_TRIBR_45882 and tr_A0A0V0VFL1_A0A0V0VFL1_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V1D4H8_A0A0V1D4H8_TRIBR_45882 and tr_A0A0V0ZME8_A0A0V0ZME8_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V1D4H8_A0A0V1D4H8_TRIBR_45882 and tr_A0A0V0UIB8_A0A0V0UIB8_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0P1BCS2_A0A0P1BCS2_9BASI_401625 and tr_A0A316VUX8_A0A316VUX8_9BASI_1522189 are exactly identical! WARNING: Sequences tr_A0A164V8B5_A0A164V8B5_9HOMO_1314777 and tr_A0A166H723_A0A166H723_9HOMO_1314776 are exactly identical! WARNING: Sequences tr_A0A1S3ZHY1_A0A1S3ZHY1_TOBAC_4097 and tr_A0A1U7V770_A0A1U7V770_NICSY_4096 are exactly identical! WARNING: Sequences tr_B5XEX2_B5XEX2_SALSA_8030 and tr_C1BGC8_C1BGC8_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1B8CN36_A0A1B8CN36_9PEZI_1622147 and tr_A0A1B8F4Z5_A0A1B8F4Z5_9PEZI_1622149 are exactly identical! WARNING: Sequences tr_A0A2G5HGV1_A0A2G5HGV1_CERBT_122368 and tr_A0A2S6BSG0_A0A2S6BSG0_9PEZI_357750 are exactly identical! WARNING: Sequences tr_A0A2I2EYX6_A0A2I2EYX6_9EURO_41067 and tr_A0A2J5HDB6_A0A2J5HDB6_9EURO_482145 are exactly identical! WARNING: Sequences tr_A0A2S7PQU7_A0A2S7PQU7_9HELO_2070414 and tr_A0A2S7Q728_A0A2S7Q728_9HELO_2070412 are exactly identical! WARNING: Sequences tr_A0A2T4CCT8_A0A2T4CCT8_TRILO_983965 and tr_A0A2T4BDR0_A0A2T4BDR0_9HYPO_58853 are exactly identical! WARNING: Sequences tr_A0A2Y9NLQ8_A0A2Y9NLQ8_DELLE_9749 and tr_A0A2Y9SUC3_A0A2Y9SUC3_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A367Y156_A0A367Y156_9ASCO_5486 and tr_A0A367YAF0_A0A367YAF0_9ASCO_5486 are exactly identical! WARNING: Duplicate sequences found: 143 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P0DPB6/4_raxmlng_ancestral/P0DPB6.raxml.reduced.phy Alignment comprises 1 partitions and 133 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 133 Gaps: 22.44 % Invariant sites: 1.50 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P0DPB6/4_raxmlng_ancestral/P0DPB6.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/020621_run/phylogeny-snakemake/results/P0DPB6/3_mltree/P0DPB6.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 34 / 2720 [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: -56543.267503 [00:00:00 -56543.267503] Initial branch length optimization [00:00:00 -54197.990745] Model parameter optimization (eps = 0.100000) [00:00:14] Tree #1, final logLikelihood: -53989.742443 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.173174,0.317999) (0.180206,0.383244) (0.207153,0.613342) (0.439467,1.703912) 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/020621_run/phylogeny-snakemake/results/P0DPB6/4_raxmlng_ancestral/P0DPB6.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P0DPB6/4_raxmlng_ancestral/P0DPB6.raxml.ancestralStates Node-labeled tree saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P0DPB6/4_raxmlng_ancestral/P0DPB6.raxml.ancestralTree Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P0DPB6/4_raxmlng_ancestral/P0DPB6.raxml.log Analysis started: 02-Jun-2021 18:34:19 / finished: 02-Jun-2021 18:34:35 Elapsed time: 16.122 seconds Consumed energy: 1.283 Wh