RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM RAxML-NG was called at 03-Jun-2021 01:55:58 as follows: raxml-ng --ancestral --msa /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P39019/2_msa/P39019_nogap_msa.fasta --tree /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P39019/3_mltree/P39019.raxml.bestTree_unrooted --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P39019/4_raxmlng_ancestral/P39019 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1622674558 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/P39019/2_msa/P39019_nogap_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 145 sites WARNING: Sequences tr_B4QSD2_B4QSD2_DROSI_7240 and tr_B4HG08_B4HG08_DROSE_7238 are exactly identical! WARNING: Sequences tr_B4R5V4_B4R5V4_DROSI_7240 and sp_P39018_RS19A_DROME_7227 are exactly identical! WARNING: Sequences tr_E9HU52_E9HU52_DAPPU_6669 and tr_A0A162DED7_A0A162DED7_9CRUS_35525 are exactly identical! WARNING: Sequences tr_E2A5Q9_E2A5Q9_CAMFO_104421 and tr_A0A158NIK7_A0A158NIK7_ATTCE_12957 are exactly identical! WARNING: Sequences tr_E2A5Q9_E2A5Q9_CAMFO_104421 and tr_A0A151XBF8_A0A151XBF8_9HYME_64791 are exactly identical! WARNING: Sequences tr_E2A5Q9_E2A5Q9_CAMFO_104421 and tr_A0A195EKY9_A0A195EKY9_9HYME_471704 are exactly identical! WARNING: Sequences tr_E2A5Q9_E2A5Q9_CAMFO_104421 and tr_A0A195B6P7_A0A195B6P7_9HYME_520822 are exactly identical! WARNING: Sequences tr_E2A5Q9_E2A5Q9_CAMFO_104421 and tr_A0A195ETN6_A0A195ETN6_9HYME_34720 are exactly identical! WARNING: Sequences tr_E2A5Q9_E2A5Q9_CAMFO_104421 and tr_A0A195C5S6_A0A195C5S6_9HYME_456900 are exactly identical! WARNING: Sequences sp_Q9CZX8_RS19_MOUSE_10090 and sp_P17074_RS19_RAT_10116 are exactly identical! WARNING: Sequences tr_B6HCX3_B6HCX3_PENRW_500485 and tr_A0A0A2INC9_A0A0A2INC9_PENEN_27334 are exactly identical! WARNING: Sequences tr_B4JK84_B4JK84_DROGR_7222 and tr_B3MRC5_B3MRC5_DROAN_7217 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_G3RGZ2_G3RGZ2_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and sp_Q5R8M9_RS19_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_J9P425_J9P425_CANLF_9615 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2J8QGG2_A0A2J8QGG2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_H9H6D3_H9H6D3_MONDO_13616 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_F6YZX2_F6YZX2_HORSE_9796 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_W5PEV6_W5PEV6_SHEEP_9940 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_I3M2E2_I3M2E2_ICTTR_43179 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_H0XWE3_H0XWE3_OTOGA_30611 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and sp_P39019_RS19_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_G5AZQ1_G5AZQ1_HETGA_10181 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_G3SM38_G3SM38_LOXAF_9785 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_F7AXG4_F7AXG4_CALJA_9483 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and sp_Q32PD5_RS19_BOVIN_9913 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_L5L861_L5L861_PTEAL_9402 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A337SMT8_A0A337SMT8_FELCA_9685 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A096N169_A0A096N169_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A091DRB6_A0A091DRB6_FUKDA_885580 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A1S3GGY1_A0A1S3GGY1_DIPOR_10020 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2K5M0H1_A0A2K5M0H1_CERAT_9531 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2K6AUC0_A0A2K6AUC0_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2K5YHB5_A0A2K5YHB5_MANLE_9568 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2R9C3Q8_A0A2R9C3Q8_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2U3WHM2_A0A2U3WHM2_ODORO_9708 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2U3XKN3_A0A2U3XKN3_LEPWE_9713 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2Y9E7Q1_A0A2Y9E7Q1_TRIMA_127582 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2Y9IJN2_A0A2Y9IJN2_ENHLU_391180 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2Y9P7K3_A0A2Y9P7K3_DELLE_9749 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A2Y9EH42_A0A2Y9EH42_PHYCD_9755 are exactly identical! WARNING: Sequences tr_G1P6B9_G1P6B9_MYOLU_59463 and tr_A0A384DMC8_A0A384DMC8_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A0E1RYX3_A0A0E1RYX3_COCIM_246410 and tr_E9D9D8_E9D9D8_COCPS_443226 are exactly identical! WARNING: Sequences tr_A0A0E1RYX3_A0A0E1RYX3_COCIM_246410 and tr_A0A0J6YAF8_A0A0J6YAF8_COCIT_404692 are exactly identical! WARNING: Sequences tr_G2WR75_G2WR75_VERDV_498257 and tr_C9S602_C9S602_VERA1_526221 are exactly identical! WARNING: Sequences tr_G2WR75_G2WR75_VERDV_498257 and tr_A0A0G4LWK2_A0A0G4LWK2_9PEZI_100787 are exactly identical! WARNING: Sequences tr_B8PBC9_B8PBC9_POSPM_561896 and tr_A0A1X6MJC8_A0A1X6MJC8_9APHY_670580 are exactly identical! WARNING: Sequences tr_B8MEI8_B8MEI8_TALSN_441959 and tr_A0A2H3IL31_A0A2H3IL31_9EURO_290292 are exactly identical! WARNING: Sequences tr_B8MEI8_B8MEI8_TALSN_441959 and tr_A0A364L658_A0A364L658_9EURO_1196081 are exactly identical! WARNING: Sequences tr_Q7SBD8_Q7SBD8_NEUCR_367110 and tr_G4UP24_G4UP24_NEUT9_510952 are exactly identical! WARNING: Sequences tr_B5DV50_B5DV50_DROPS_46245 and tr_Q29IT8_Q29IT8_DROPS_46245 are exactly identical! WARNING: Sequences tr_B5DV50_B5DV50_DROPS_46245 and tr_B4HAM8_B4HAM8_DROPE_7234 are exactly identical! WARNING: Sequences tr_B8NRS4_B8NRS4_ASPFN_332952 and tr_Q2UU90_Q2UU90_ASPOR_510516 are exactly identical! WARNING: Sequences tr_B8NRS4_B8NRS4_ASPFN_332952 and tr_A0A0F0I598_A0A0F0I598_ASPPU_1403190 are exactly identical! WARNING: Sequences tr_B8NRS4_B8NRS4_ASPFN_332952 and tr_A0A1S9D509_A0A1S9D509_ASPOZ_5062 are exactly identical! WARNING: Sequences sp_O18650_RS19_CAEEL_6239 and tr_G0P8N2_G0P8N2_CAEBE_135651 are exactly identical! WARNING: Sequences sp_O18650_RS19_CAEEL_6239 and tr_E3M3T0_E3M3T0_CAERE_31234 are exactly identical! WARNING: Sequences sp_O18650_RS19_CAEEL_6239 and tr_A0A1I7U482_A0A1I7U482_9PELO_1561998 are exactly identical! WARNING: Sequences tr_A0A179URL6_A0A179URL6_BLAGS_559298 and tr_C5GD82_C5GD82_AJEDR_559297 are exactly identical! WARNING: Sequences tr_Q5KJL6_Q5KJL6_CRYNJ_214684 and tr_E6R296_E6R296_CRYGW_367775 are exactly identical! WARNING: Sequences tr_Q5KJL6_Q5KJL6_CRYNJ_214684 and tr_A0A095EKY2_A0A095EKY2_CRYGR_294750 are exactly identical! WARNING: Sequences tr_F9G040_F9G040_FUSOF_660025 and tr_W7MPD3_W7MPD3_GIBM7_334819 are exactly identical! WARNING: Sequences tr_F9G040_F9G040_FUSOF_660025 and tr_A0A0D2Y2F8_A0A0D2Y2F8_FUSO4_426428 are exactly identical! WARNING: Sequences tr_F9G040_F9G040_FUSOF_660025 and tr_S0E9V3_S0E9V3_GIBF5_1279085 are exactly identical! WARNING: Sequences tr_F9G040_F9G040_FUSOF_660025 and tr_N4UBF8_N4UBF8_FUSC1_1229664 are exactly identical! WARNING: Sequences tr_F9G040_F9G040_FUSOF_660025 and tr_X0CCW3_X0CCW3_FUSOX_1089458 are exactly identical! WARNING: Sequences tr_F9G040_F9G040_FUSOF_660025 and tr_A0A2H3SLA3_A0A2H3SLA3_FUSOX_5507 are exactly identical! WARNING: Sequences tr_F9G040_F9G040_FUSOF_660025 and tr_A0A2K0VZF4_A0A2K0VZF4_GIBNY_42673 are exactly identical! WARNING: Sequences tr_F9G040_F9G040_FUSOF_660025 and tr_A0A365MN70_A0A365MN70_GIBIN_948311 are exactly identical! WARNING: Sequences tr_J5JNX8_J5JNX8_BEAB2_655819 and tr_A0A0A2W2Y4_A0A0A2W2Y4_BEABA_1245745 are exactly identical! WARNING: Sequences tr_K4DEQ8_K4DEQ8_SOLLC_4081 and tr_M1BB68_M1BB68_SOLTU_4113 are exactly identical! WARNING: Sequences tr_K4AGC1_K4AGC1_SETIT_4555 and tr_A0A2T7CBA6_A0A2T7CBA6_9POAL_1504633 are exactly identical! WARNING: Sequences tr_H9KEI2_H9KEI2_APIME_7460 and tr_A0A2A3E588_A0A2A3E588_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A158NA91_A0A158NA91_ATTCE_12957 and tr_F4WN53_F4WN53_ACREC_103372 are exactly identical! WARNING: Sequences tr_A0A158NA91_A0A158NA91_ATTCE_12957 and tr_A0A151X7K1_A0A151X7K1_9HYME_64791 are exactly identical! WARNING: Sequences tr_A0A158NA91_A0A158NA91_ATTCE_12957 and tr_A0A195DLZ6_A0A195DLZ6_9HYME_471704 are exactly identical! WARNING: Sequences tr_A0A158NA91_A0A158NA91_ATTCE_12957 and tr_A0A195FRT7_A0A195FRT7_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A0C4DFJ4_A0A0C4DFJ4_PUCT1_630390 and tr_E3K5L7_E3K5L7_PUCGT_418459 are exactly identical! WARNING: Sequences sp_Q9FNP8_RS193_ARATH_3702 and tr_D7MUI1_D7MUI1_ARALL_81972 are exactly identical! WARNING: Sequences sp_Q9LF30_RS192_ARATH_3702 and tr_D7M7D4_D7M7D4_ARALL_81972 are exactly identical! WARNING: Sequences sp_Q9SGA6_RS191_ARATH_3702 and tr_R0G7Q0_R0G7Q0_9BRAS_81985 are exactly identical! WARNING: Sequences tr_A0A0K0J045_A0A0K0J045_BRUMA_6279 and tr_A0A0N4TXT8_A0A0N4TXT8_BRUPA_6280 are exactly identical! WARNING: Sequences tr_A0A0K0J045_A0A0K0J045_BRUMA_6279 and tr_A0A0R3QK42_A0A0R3QK42_9BILA_42155 are exactly identical! WARNING: Sequences tr_A1D494_A1D494_NEOFI_331117 and tr_A0A0S7E580_A0A0S7E580_9EURO_293939 are exactly identical! WARNING: Sequences tr_A2RAS4_A2RAS4_ASPNC_425011 and tr_G3YE37_G3YE37_ASPNA_380704 are exactly identical! WARNING: Sequences tr_A2RAS4_A2RAS4_ASPNC_425011 and tr_A0A319AI42_A0A319AI42_9EURO_1450533 are exactly identical! WARNING: Sequences tr_G7X938_G7X938_ASPKW_1033177 and tr_A0A124BY38_A0A124BY38_ASPNG_5061 are exactly identical! WARNING: Sequences tr_G7X938_G7X938_ASPKW_1033177 and tr_A0A1L9NM36_A0A1L9NM36_ASPTU_767770 are exactly identical! WARNING: Sequences tr_E5SIS9_E5SIS9_TRISP_6334 and tr_A0A0V0RTA6_A0A0V0RTA6_9BILA_6336 are exactly identical! WARNING: Sequences tr_E5SIS9_E5SIS9_TRISP_6334 and tr_A0A0V1CQC4_A0A0V1CQC4_TRIBR_45882 are exactly identical! WARNING: Sequences tr_E5SIS9_E5SIS9_TRISP_6334 and tr_A0A0V0WT30_A0A0V0WT30_9BILA_92179 are exactly identical! WARNING: Sequences tr_E5SIS9_E5SIS9_TRISP_6334 and tr_A0A0V0URP6_A0A0V0URP6_9BILA_181606 are exactly identical! WARNING: Sequences tr_E5SIS9_E5SIS9_TRISP_6334 and tr_A0A0V1P431_A0A0V1P431_9BILA_92180 are exactly identical! WARNING: Sequences tr_E5SIS9_E5SIS9_TRISP_6334 and tr_A0A0V0TWT7_A0A0V0TWT7_9BILA_144512 are exactly identical! WARNING: Sequences tr_A2XI59_A2XI59_ORYSI_39946 and tr_I1PCE2_I1PCE2_ORYGL_4538 are exactly identical! WARNING: Sequences tr_A2XI59_A2XI59_ORYSI_39946 and sp_P40978_RS19_ORYSJ_39947 are exactly identical! WARNING: Sequences tr_G9N794_G9N794_HYPVG_413071 and tr_A0A0G0ACB2_A0A0G0ACB2_TRIHA_5544 are exactly identical! WARNING: Sequences tr_G9N794_G9N794_HYPVG_413071 and tr_A0A2T3Z0M3_A0A2T3Z0M3_9HYPO_1042311 are exactly identical! WARNING: Sequences tr_G9N794_G9N794_HYPVG_413071 and tr_A0A2T4ABI5_A0A2T4ABI5_TRIHA_983964 are exactly identical! WARNING: Sequences tr_H1VBI7_H1VBI7_COLHI_759273 and tr_E3Q2D0_E3Q2D0_COLGM_645133 are exactly identical! WARNING: Sequences tr_H1VBI7_H1VBI7_COLHI_759273 and tr_A0A066X6D0_A0A066X6D0_COLSU_1173701 are exactly identical! WARNING: Sequences tr_H1VBI7_H1VBI7_COLHI_759273 and tr_A0A166R576_A0A166R576_9PEZI_708197 are exactly identical! WARNING: Sequences tr_F4PE42_F4PE42_BATDJ_684364 and tr_A0A177WIM5_A0A177WIM5_BATDE_403673 are exactly identical! WARNING: Sequences tr_Q0CT88_Q0CT88_ASPTN_341663 and tr_A0A1L9UFX8_A0A1L9UFX8_9EURO_767769 are exactly identical! WARNING: Sequences tr_F9WYP0_F9WYP0_ZYMTI_336722 and tr_A0A0F4GX11_A0A0F4GX11_9PEZI_1047168 are exactly identical! WARNING: Sequences tr_F9WYP0_F9WYP0_ZYMTI_336722 and tr_A0A1X7RC98_A0A1X7RC98_ZYMTR_1276538 are exactly identical! WARNING: Sequences tr_G2YJD5_G2YJD5_BOTF4_999810 and tr_M7UE58_M7UE58_BOTF1_1290391 are exactly identical! WARNING: Sequences tr_A8WWI3_A8WWI3_CAEBR_6238 and tr_A0A2G5VFV8_A0A2G5VFV8_9PELO_1611254 are exactly identical! WARNING: Sequences tr_F2SUU0_F2SUU0_TRIRC_559305 and tr_F2PZP6_F2PZP6_TRIEC_559882 are exactly identical! WARNING: Sequences tr_F2SUU0_F2SUU0_TRIRC_559305 and tr_A0A059JFF6_A0A059JFF6_9EURO_1215338 are exactly identical! WARNING: Sequences tr_F2SUU0_F2SUU0_TRIRC_559305 and tr_A0A178F6I4_A0A178F6I4_TRIRU_5551 are exactly identical! WARNING: Sequences tr_G0RJQ4_G0RJQ4_HYPJQ_431241 and tr_A0A2T4C304_A0A2T4C304_TRILO_983965 are exactly identical! WARNING: Sequences tr_B3S4T5_B3S4T5_TRIAD_10228 and tr_A0A369RST2_A0A369RST2_9METZ_287889 are exactly identical! WARNING: Sequences tr_L8G9J3_L8G9J3_PSED2_658429 and tr_A0A094EC38_A0A094EC38_9PEZI_1420912 are exactly identical! WARNING: Sequences tr_L8G9J3_L8G9J3_PSED2_658429 and tr_A0A1B8GSI6_A0A1B8GSI6_9PEZI_342668 are exactly identical! WARNING: Sequences tr_L2G0V3_L2G0V3_COLFN_1213859 and tr_T0LKW8_T0LKW8_COLGC_1237896 are exactly identical! WARNING: Sequences tr_M4D920_M4D920_BRARP_51351 and tr_A0A078GEP8_A0A078GEP8_BRANA_3708 are exactly identical! WARNING: Sequences tr_M4D920_M4D920_BRARP_51351 and tr_A0A0D3DDI5_A0A0D3DDI5_BRAOL_109376 are exactly identical! WARNING: Sequences tr_M4FDH9_M4FDH9_BRARP_51351 and tr_A0A078I2A8_A0A078I2A8_BRANA_3708 are exactly identical! WARNING: Sequences tr_M4FDH9_M4FDH9_BRARP_51351 and tr_A0A0D3AG29_A0A0D3AG29_BRAOL_109376 are exactly identical! WARNING: Sequences tr_S2JKC1_S2JKC1_MUCC1_1220926 and tr_A0A0C9MAI5_A0A0C9MAI5_9FUNG_91626 are exactly identical! WARNING: Sequences tr_S2JKC1_S2JKC1_MUCC1_1220926 and tr_A0A168KJG4_A0A168KJG4_MUCCL_747725 are exactly identical! WARNING: Sequences tr_M7Y6X6_M7Y6X6_TRIUA_4572 and tr_A0A3B6KHQ4_A0A3B6KHQ4_WHEAT_4565 are exactly identical! WARNING: Sequences tr_M2T4A8_M2T4A8_COCSN_665912 and tr_R0IPF3_R0IPF3_SETT2_671987 are exactly identical! WARNING: Sequences tr_M2T4A8_M2T4A8_COCSN_665912 and tr_M2SSX7_M2SSX7_COCH5_701091 are exactly identical! WARNING: Sequences tr_M2T4A8_M2T4A8_COCSN_665912 and tr_W6XWA0_W6XWA0_COCCA_930089 are exactly identical! WARNING: Sequences tr_M2T4A8_M2T4A8_COCSN_665912 and tr_W6ZCI5_W6ZCI5_COCMI_930090 are exactly identical! WARNING: Sequences tr_U5H7D5_U5H7D5_USTV1_683840 and tr_A0A2X0P6F7_A0A2X0P6F7_9BASI_796604 are exactly identical! WARNING: Sequences tr_U5H7D5_U5H7D5_USTV1_683840 and tr_A0A2X0LNE7_A0A2X0LNE7_9BASI_289078 are exactly identical! WARNING: Sequences tr_V2XML1_V2XML1_MONRO_1381753 and tr_A0A0W0EV45_A0A0W0EV45_9AGAR_221103 are exactly identical! WARNING: Sequences tr_S7ZC87_S7ZC87_PENO1_933388 and tr_A0A0F7TC63_A0A0F7TC63_9EURO_104259 are exactly identical! WARNING: Sequences tr_A0A010RUD9_A0A010RUD9_9PEZI_1445577 and tr_A0A1G4BR40_A0A1G4BR40_9PEZI_1209926 are exactly identical! WARNING: Sequences tr_A0A2K6WFC9_A0A2K6WFC9_ONCVO_6282 and tr_A0A182E7N7_A0A182E7N7_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A067GB82_A0A067GB82_CITSI_2711 and tr_V4UXJ0_V4UXJ0_9ROSI_85681 are exactly identical! WARNING: Sequences tr_A0A078FQR5_A0A078FQR5_BRANA_3708 and tr_A0A0D3E1P7_A0A0D3E1P7_BRAOL_109376 are exactly identical! WARNING: Sequences tr_A0A094FAJ3_A0A094FAJ3_9PEZI_1420910 and tr_A0A1B8F051_A0A1B8F051_9PEZI_1622149 are exactly identical! WARNING: Sequences tr_A0A0A0KSI3_A0A0A0KSI3_CUCSA_3659 and tr_A0A1S3CB93_A0A1S3CB93_CUCME_3656 are exactly identical! WARNING: Sequences tr_A0A067C4P4_A0A067C4P4_SAPPC_695850 and tr_T0R8K1_T0R8K1_9STRA_1156394 are exactly identical! WARNING: Sequences tr_A0A0D2M9C2_A0A0D2M9C2_GOSRA_29730 and tr_A0A1U8LK15_A0A1U8LK15_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0D2W4Z3_A0A0D2W4Z3_GOSRA_29730 and tr_A0A1U8IPT8_A0A1U8IPT8_GOSHI_3635 are exactly identical! WARNING: Sequences tr_A0A0L6V512_A0A0L6V512_9BASI_27349 and tr_A0A2N5VN27_A0A2N5VN27_9BASI_200324 are exactly identical! WARNING: Sequences tr_A0A0M9EXF1_A0A0M9EXF1_FUSLA_179993 and tr_I1RFU8_I1RFU8_GIBZE_229533 are exactly identical! WARNING: Sequences tr_A0A0M9EXF1_A0A0M9EXF1_FUSLA_179993 and tr_A0A1B8B7C9_A0A1B8B7C9_FUSPO_36050 are exactly identical! WARNING: Sequences tr_A0A0M9EXF1_A0A0M9EXF1_FUSLA_179993 and tr_A0A2T4H4P0_A0A2T4H4P0_FUSCU_5516 are exactly identical! WARNING: Sequences tr_A0A0A1NYU0_A0A0A1NYU0_9FUNG_58291 and tr_A0A367IXS7_A0A367IXS7_9FUNG_86630 are exactly identical! WARNING: Sequences tr_A0A183HGP8_A0A183HGP8_9BILA_387005 and tr_A0A182EIB0_A0A182EIB0_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A0W8BY81_A0A0W8BY81_PHYNI_4790 and tr_A0A329S357_A0A329S357_9STRA_29920 are exactly identical! WARNING: Sequences tr_A0A0N0BKT1_A0A0N0BKT1_9HYME_166423 and tr_A0A154NZM4_A0A154NZM4_9HYME_178035 are exactly identical! WARNING: Sequences tr_A0A0G4NV43_A0A0G4NV43_PENCA_1429867 and tr_A0A1V6P4P5_A0A1V6P4P5_9EURO_60169 are exactly identical! WARNING: Sequences tr_A0A0G4NV43_A0A0G4NV43_PENCA_1429867 and tr_A0A1V6QBL8_A0A1V6QBL8_9EURO_60172 are exactly identical! WARNING: Sequences tr_A0A0G4NV43_A0A0G4NV43_PENCA_1429867 and tr_A0A1V6QD17_A0A1V6QD17_9EURO_416450 are exactly identical! WARNING: Sequences tr_A0A0G4NV43_A0A0G4NV43_PENCA_1429867 and tr_A0A1V6YFR9_A0A1V6YFR9_PENNA_60175 are exactly identical! WARNING: Sequences tr_A0A164T6H9_A0A164T6H9_9HOMO_1314777 and tr_A0A166AUG1_A0A166AUG1_9HOMO_1314776 are exactly identical! WARNING: Sequences tr_A0A194VN03_A0A194VN03_9PEZI_105487 and tr_A0A194VAU7_A0A194VAU7_9PEZI_694573 are exactly identical! WARNING: Sequences tr_A0A1S4B471_A0A1S4B471_TOBAC_4097 and tr_A0A1J6IHW5_A0A1J6IHW5_NICAT_49451 are exactly identical! WARNING: Sequences tr_A0A1S4B471_A0A1S4B471_TOBAC_4097 and tr_A0A1U7YDP2_A0A1U7YDP2_NICSY_4096 are exactly identical! WARNING: Sequences tr_A0A1S4CYT7_A0A1S4CYT7_TOBAC_4097 and tr_A0A1U7VBQ8_A0A1U7VBQ8_NICSY_4096 are exactly identical! WARNING: Sequences tr_B5XDA8_B5XDA8_SALSA_8030 and tr_A0A060YCL2_A0A060YCL2_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1B7MNA0_A0A1B7MNA0_9HOMO_1314800 and tr_A0A1J8PPK4_A0A1J8PPK4_9HOMO_180088 are exactly identical! WARNING: Sequences tr_A0A1C7N937_A0A1C7N937_9FUNG_101091 and tr_A0A1C7NFL1_A0A1C7NFL1_9FUNG_101091 are exactly identical! WARNING: Sequences tr_A0A1V8UFP0_A0A1V8UFP0_9PEZI_1974281 and tr_A0A1V8TUG2_A0A1V8TUG2_9PEZI_1507870 are exactly identical! WARNING: Sequences tr_A0A397H5J2_A0A397H5J2_9EURO_41047 and tr_A0A2I1CAU4_A0A2I1CAU4_9EURO_1392255 are exactly identical! WARNING: Sequences tr_A0A2H3DR08_A0A2H3DR08_ARMGA_47427 and tr_A0A2H3CFH7_A0A2H3CFH7_9AGAR_1076256 are exactly identical! WARNING: Sequences tr_A0A2H3DR08_A0A2H3DR08_ARMGA_47427 and tr_A0A284RFL2_A0A284RFL2_9AGAR_47428 are exactly identical! WARNING: Sequences tr_A0A1U8G3N2_A0A1U8G3N2_CAPAN_4072 and tr_A0A2G3CZ43_A0A2G3CZ43_CAPCH_80379 are exactly identical! WARNING: Sequences tr_A0A2G5C389_A0A2G5C389_AQUCA_218851 and tr_A0A2G5EPR2_A0A2G5EPR2_AQUCA_218851 are exactly identical! WARNING: Sequences tr_A0A2G5IEF2_A0A2G5IEF2_CERBT_122368 and tr_A0A2I0RVD3_A0A2I0RVD3_9PEZI_348901 are exactly identical! WARNING: Sequences tr_A0A2G5IEF2_A0A2G5IEF2_CERBT_122368 and tr_A0A2S6BY45_A0A2S6BY45_9PEZI_357750 are exactly identical! WARNING: Sequences tr_A0A318ZT80_A0A318ZT80_9EURO_1450539 and tr_A0A2V5IQQ0_A0A2V5IQQ0_9EURO_1450541 are exactly identical! WARNING: Sequences tr_A0A318ZT80_A0A318ZT80_9EURO_1450539 and tr_A0A2V5GSW7_A0A2V5GSW7_9EURO_1450538 are exactly identical! WARNING: Sequences tr_A0A319EIF9_A0A319EIF9_9EURO_1448318 and tr_A0A395GUG8_A0A395GUG8_9EURO_1448316 are exactly identical! WARNING: Duplicate sequences found: 171 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/P39019/4_raxmlng_ancestral/P39019.raxml.reduced.phy Alignment comprises 1 partitions and 145 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 145 Gaps: 3.47 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P39019/4_raxmlng_ancestral/P39019.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/P39019/3_mltree/P39019.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 37 / 2960 [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: -41504.782994 [00:00:00 -41504.782994] Initial branch length optimization [00:00:00 -40200.392233] Model parameter optimization (eps = 0.100000) [00:00:19] Tree #1, final logLikelihood: -39993.357734 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.219536,0.690807) (0.337112,0.744276) (0.291218,0.810283) (0.152134,2.375993) 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/P39019/4_raxmlng_ancestral/P39019.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P39019/4_raxmlng_ancestral/P39019.raxml.ancestralStates Node-labeled tree saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P39019/4_raxmlng_ancestral/P39019.raxml.ancestralTree Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P39019/4_raxmlng_ancestral/P39019.raxml.log Analysis started: 03-Jun-2021 01:55:58 / finished: 03-Jun-2021 01:56:19 Elapsed time: 20.770 seconds Consumed energy: 1.792 Wh