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 04-Jun-2021 13:48:25 as follows: raxml-ng --ancestral --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/2_msa/O75360_nogap_msa.fasta --tree /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/3_mltree/O75360.raxml.bestTree_unrooted --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/4_raxmlng_ancestral/O75360 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1622803705 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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/2_msa/O75360_nogap_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 226 sites WARNING: Sequences tr_B4Q3P8_B4Q3P8_DROSI_7240 and sp_P06601_PRD_DROME_7227 are exactly identical! WARNING: Sequences tr_B4Q3P8_B4Q3P8_DROSI_7240 and tr_B4IE61_B4IE61_DROSE_7238 are exactly identical! WARNING: Sequences tr_B4Q632_B4Q632_DROSI_7240 and sp_Q06453_AL_DROME_7227 are exactly identical! WARNING: Sequences tr_B4Q632_B4Q632_DROSI_7240 and tr_B4ICW1_B4ICW1_DROSE_7238 are exactly identical! WARNING: Sequences tr_E2AWK2_E2AWK2_CAMFO_104421 and tr_A0A158NQ21_A0A158NQ21_ATTCE_12957 are exactly identical! WARNING: Sequences tr_E2AWK2_E2AWK2_CAMFO_104421 and tr_F4WT83_F4WT83_ACREC_103372 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2I3GB05_A0A2I3GB05_NOMLE_61853 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_G3QTR1_G3QTR1_GORGO_9595 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_H2QPD7_H2QPD7_PANTR_9598 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A0G2JYE6_A0A0G2JYE6_RAT_10116 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and sp_Q99453_PHX2B_HUMAN_9606 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A096NPT4_A0A096NPT4_PAPAN_9555 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A0D9RWY9_A0A0D9RWY9_CHLSB_60711 are exactly identical! WARNING: Sequences sp_O35690_PHX2B_MOUSE_10090 and tr_A0A2K6BFM4_A0A2K6BFM4_MACNE_9545 are exactly identical! WARNING: Sequences tr_M3Y3Z2_M3Y3Z2_MUSPF_9669 and tr_A0A2Y9JUX1_A0A2Y9JUX1_ENHLU_391180 are exactly identical! WARNING: Sequences tr_B4JDS0_B4JDS0_DROGR_7222 and tr_B4K0N7_B4K0N7_DROGR_7222 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_G3QD58_G3QD58_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_H2NI70_H2NI70_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_H2Q6K1_H2Q6K1_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_F6VW17_F6VW17_HORSE_9796 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_I3NDR7_I3NDR7_ICTTR_43179 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and sp_Q15699_ALX1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_F7D9L8_F7D9L8_CALJA_9483 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_G7PIK8_G7PIK8_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_L5JU17_L5JU17_PTEAL_9402 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A096MXS2_A0A096MXS2_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A0D9QV21_A0A0D9QV21_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A1S2ZA71_A0A1S2ZA71_ERIEU_9365 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A1S3FH96_A0A1S3FH96_DIPOR_10020 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A2K5NLC8_A0A2K5NLC8_CERAT_9531 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A2K5YFN0_A0A2K5YFN0_MANLE_9568 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A2R9B0M3_A0A2R9B0M3_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A2U3V8G0_A0A2U3V8G0_TURTR_9739 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A2U3WGP3_A0A2U3WGP3_ODORO_9708 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A2Y9EA01_A0A2Y9EA01_TRIMA_127582 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A2Y9LER6_A0A2Y9LER6_DELLE_9749 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A2Y9F3H7_A0A2Y9F3H7_PHYCD_9755 are exactly identical! WARNING: Sequences tr_G1QZZ6_G1QZZ6_NOMLE_61853 and tr_A0A383YSY1_A0A383YSY1_BALAS_310752 are exactly identical! WARNING: Sequences tr_G3QN78_G3QN78_GORGO_9595 and tr_H2N6G3_H2N6G3_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3QN78_G3QN78_GORGO_9595 and sp_O95076_ALX3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3RFJ8_G3RFJ8_GORGO_9595 and sp_A2T711_RAX2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3RFJ8_G3RFJ8_GORGO_9595 and sp_Q96IS3_RAX2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3RFJ8_G3RFJ8_GORGO_9595 and tr_F6YCG6_F6YCG6_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3RFJ8_G3RFJ8_GORGO_9595 and tr_G7PYK7_G7PYK7_MACFA_9541 are exactly identical! WARNING: Sequences tr_G3RFJ8_G3RFJ8_GORGO_9595 and tr_A0A0A0MW01_A0A0A0MW01_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3RFJ8_G3RFJ8_GORGO_9595 and tr_A0A2K5MZL8_A0A2K5MZL8_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3RFJ8_G3RFJ8_GORGO_9595 and tr_A0A2K5YMP4_A0A2K5YMP4_MANLE_9568 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_H2R547_H2R547_PANTR_9598 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_H0Y1P9_H0Y1P9_OTOGA_30611 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and sp_O14813_PHX2A_HUMAN_9606 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_F7H939_F7H939_CALJA_9483 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_A0A096MYH6_A0A096MYH6_PAPAN_9555 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_A0A0D9QVW1_A0A0D9QVW1_CHLSB_60711 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_A0A1S3EYM7_A0A1S3EYM7_DIPOR_10020 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_A0A2K5NYM3_A0A2K5NYM3_CERAT_9531 are exactly identical! WARNING: Sequences tr_H2NEK3_H2NEK3_PONAB_9601 and tr_A0A2K6CSM3_A0A2K6CSM3_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1SWL0_G1SWL0_RABIT_9986 and tr_G5BJL1_G5BJL1_HETGA_10181 are exactly identical! WARNING: Sequences tr_Q28ZR8_Q28ZR8_DROPS_46245 and tr_B4GGV7_B4GGV7_DROPE_7234 are exactly identical! WARNING: Sequences tr_Q29N35_Q29N35_DROPS_46245 and tr_B4G8B0_B4G8B0_DROPE_7234 are exactly identical! WARNING: Sequences tr_A0A2I3T249_A0A2I3T249_PANTR_9598 and sp_Q9H161_ALX4_HUMAN_9606 are exactly identical! WARNING: Sequences tr_F7DM34_F7DM34_HORSE_9796 and tr_A0A1S2ZLG1_A0A1S2ZLG1_ERIEU_9365 are exactly identical! WARNING: Sequences tr_W5Q1B1_W5Q1B1_SHEEP_9940 and tr_E1BKK2_E1BKK2_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A3B5Q688_A0A3B5Q688_XIPMA_8083 and tr_A0A087YKF0_A0A087YKF0_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A3B5Q688_A0A3B5Q688_XIPMA_8083 and tr_A0A2I4C6T8_A0A2I4C6T8_9TELE_52670 are exactly identical! WARNING: Sequences tr_A0A3B5QTV7_A0A3B5QTV7_XIPMA_8083 and tr_I3KA10_I3KA10_ORENI_8128 are exactly identical! WARNING: Sequences tr_A0A3B5QTV7_A0A3B5QTV7_XIPMA_8083 and tr_A0A087Y7Y3_A0A087Y7Y3_POEFO_48698 are exactly identical! WARNING: Sequences tr_A0A3B5QTV7_A0A3B5QTV7_XIPMA_8083 and tr_A0A2D0PM96_A0A2D0PM96_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A088AMF9_A0A088AMF9_APIME_7460 and tr_A0A2A3EH84_A0A2A3EH84_APICC_94128 are exactly identical! WARNING: Sequences tr_H0WNC5_H0WNC5_OTOGA_30611 and tr_A0A1S3WH26_A0A1S3WH26_ERIEU_9365 are exactly identical! WARNING: Sequences tr_H0WNC5_H0WNC5_OTOGA_30611 and tr_A0A1S3EK83_A0A1S3EK83_DIPOR_10020 are exactly identical! WARNING: Sequences tr_H2T173_H2T173_TAKRU_31033 and tr_Q4S3X1_Q4S3X1_TETNG_99883 are exactly identical! WARNING: Sequences tr_G3U4Z3_G3U4Z3_LOXAF_9785 and tr_A0A2U4CFB7_A0A2U4CFB7_TURTR_9739 are exactly identical! WARNING: Sequences tr_G3U4Z3_G3U4Z3_LOXAF_9785 and tr_A0A2Y9PRZ1_A0A2Y9PRZ1_DELLE_9749 are exactly identical! WARNING: Sequences tr_G3U4Z3_G3U4Z3_LOXAF_9785 and tr_A0A2Y9FLV2_A0A2Y9FLV2_PHYCD_9755 are exactly identical! WARNING: Sequences tr_G3U4Z3_G3U4Z3_LOXAF_9785 and tr_A0A384A1U7_A0A384A1U7_BALAS_310752 are exactly identical! WARNING: Sequences tr_H0YRH0_H0YRH0_TAEGU_59729 and tr_A0A087QMY0_A0A087QMY0_APTFO_9233 are exactly identical! WARNING: Sequences tr_H0ZTN1_H0ZTN1_TAEGU_59729 and tr_U3JUS3_U3JUS3_FICAL_59894 are exactly identical! WARNING: Sequences tr_B1WBH8_B1WBH8_XENTR_8364 and tr_A0A1L8HTL8_A0A1L8HTL8_XENLA_8355 are exactly identical! WARNING: Sequences tr_A0A2R8PD18_A0A2R8PD18_CALJA_9483 and tr_A0A287BRW7_A0A287BRW7_PIG_9823 are exactly identical! WARNING: Sequences tr_A0A2R8PD18_A0A2R8PD18_CALJA_9483 and tr_E1BME7_E1BME7_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A2R8PD18_A0A2R8PD18_CALJA_9483 and tr_A0A337SCW9_A0A337SCW9_FELCA_9685 are exactly identical! WARNING: Sequences tr_A0A2R8PD18_A0A2R8PD18_CALJA_9483 and tr_A0A2U3VMC9_A0A2U3VMC9_ODORO_9708 are exactly identical! WARNING: Sequences tr_D2HVJ0_D2HVJ0_AILME_9646 and tr_A0A384BUQ0_A0A384BUQ0_URSMA_29073 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A151LYQ9_A0A151LYQ9_ALLMI_8496 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A093Q0U8_A0A093Q0U8_9PASS_328815 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A091UNZ2_A0A091UNZ2_NIPNI_128390 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A087R8H3_A0A087R8H3_APTFO_9233 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A093HNU3_A0A093HNU3_STRCA_441894 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A091WS91_A0A091WS91_OPIHO_30419 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A091GMG9_A0A091GMG9_9AVES_55661 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A2I0LTL8_A0A2I0LTL8_COLLI_8932 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A091I9T0_A0A091I9T0_CALAN_9244 are exactly identical! WARNING: Sequences tr_U3K7J7_U3K7J7_FICAL_59894 and tr_A0A1U7S7Z5_A0A1U7S7Z5_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A044SI79_A0A044SI79_ONCVO_6282 and tr_A0A182E2Q2_A0A182E2Q2_ONCOC_42157 are exactly identical! WARNING: Sequences tr_A0A096N4Y9_A0A096N4Y9_PAPAN_9555 and tr_A0A2K5LA39_A0A2K5LA39_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A096N4Y9_A0A096N4Y9_PAPAN_9555 and tr_A0A2K6CVM9_A0A2K6CVM9_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A096N4Y9_A0A096N4Y9_PAPAN_9555 and tr_A0A2K5Y838_A0A2K5Y838_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A096NH47_A0A096NH47_PAPAN_9555 and tr_A0A0D9S6H7_A0A0D9S6H7_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A096NH47_A0A096NH47_PAPAN_9555 and tr_A0A2K5MU88_A0A2K5MU88_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A096NH47_A0A096NH47_PAPAN_9555 and tr_A0A2K5YZ09_A0A2K5YZ09_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A0K0FWG0_A0A0K0FWG0_STRVS_75913 and tr_A0A0K0E8R2_A0A0K0E8R2_STRER_6248 are exactly identical! WARNING: Sequences tr_A0A0K0FWG0_A0A0K0FWG0_STRVS_75913 and tr_A0A0N5B6J3_A0A0N5B6J3_STREA_174720 are exactly identical! WARNING: Sequences tr_A0A091EDG2_A0A091EDG2_CORBR_85066 and tr_A0A099ZYK1_A0A099ZYK1_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A091F0W8_A0A091F0W8_CORBR_85066 and tr_A0A091J9V4_A0A091J9V4_EGRGA_188379 are exactly identical! WARNING: Sequences tr_A0A091F0W8_A0A091F0W8_CORBR_85066 and tr_A0A091VLU5_A0A091VLU5_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091F0W8_A0A091F0W8_CORBR_85066 and tr_A0A093HBJ4_A0A093HBJ4_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A091F0W8_A0A091F0W8_CORBR_85066 and tr_A0A0A0AXJ7_A0A0A0AXJ7_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V1CYJ1_A0A0V1CYJ1_TRIBR_45882 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V0WKS2_A0A0V0WKS2_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V0UYQ8_A0A0V0UYQ8_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V1LP54_A0A0V1LP54_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V0ZQ63_A0A0V0ZQ63_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V1MTK2_A0A0V1MTK2_9BILA_268474 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V1PLM6_A0A0V1PLM6_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V1HZ73_A0A0V1HZ73_9BILA_268475 are exactly identical! WARNING: Sequences tr_A0A0V0SE42_A0A0V0SE42_9BILA_6336 and tr_A0A0V0TKL1_A0A0V0TKL1_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0V0SJG4_A0A0V0SJG4_9BILA_6336 and tr_A0A0V1CS45_A0A0V1CS45_TRIBR_45882 are exactly identical! WARNING: Sequences tr_A0A0V0SJG4_A0A0V0SJG4_9BILA_6336 and tr_A0A0V0VUR5_A0A0V0VUR5_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V0SJG4_A0A0V0SJG4_9BILA_6336 and tr_A0A0V1P0P5_A0A0V1P0P5_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V1CKA2_A0A0V1CKA2_TRIBR_45882 and tr_A0A0V0U3N3_A0A0V0U3N3_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0V1CVD0_A0A0V1CVD0_TRIBR_45882 and tr_A0A0V0WTX8_A0A0V0WTX8_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V1CVD0_A0A0V1CVD0_TRIBR_45882 and tr_A0A0V0V5C4_A0A0V0V5C4_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V1CVD0_A0A0V1CVD0_TRIBR_45882 and tr_A0A0V0ZW61_A0A0V0ZW61_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V1CVD0_A0A0V1CVD0_TRIBR_45882 and tr_A0A0V1NV53_A0A0V1NV53_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V1CVD0_A0A0V1CVD0_TRIBR_45882 and tr_A0A0V0U4K5_A0A0V0U4K5_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0V0WVI6_A0A0V0WVI6_9BILA_92179 and tr_A0A0V1LSW0_A0A0V1LSW0_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0WVI6_A0A0V0WVI6_9BILA_92179 and tr_A0A0V1P8B1_A0A0V1P8B1_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V0X317_A0A0V0X317_9BILA_92179 and tr_A0A0V1LI12_A0A0V1LI12_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V1MU14_A0A0V1MU14_9BILA_268474 and tr_A0A0V1I2I9_A0A0V1I2I9_9BILA_268475 are exactly identical! WARNING: Sequences tr_A0A1S3RR13_A0A1S3RR13_SALSA_8030 and tr_A0A060YC01_A0A060YC01_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A226N5U7_A0A226N5U7_CALSU_9009 and tr_A0A226P0L8_A0A226P0L8_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A260ZJA2_A0A260ZJA2_9PELO_1503980 and tr_A0A261BMK5_A0A261BMK5_9PELO_1503980 are exactly identical! WARNING: Sequences tr_A0A2D0QQP4_A0A2D0QQP4_ICTPU_7998 and tr_A0A2D0QT11_A0A2D0QT11_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2U4ARL5_A0A2U4ARL5_TURTR_9739 and tr_A0A2Y9MLH6_A0A2Y9MLH6_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U4ARL5_A0A2U4ARL5_TURTR_9739 and tr_A0A2Y9TJS7_A0A2Y9TJS7_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A2Y9P0U9_A0A2Y9P0U9_DELLE_9749 and tr_A0A2Y9SD92_A0A2Y9SD92_PHYCD_9755 are exactly identical! WARNING: Duplicate sequences found: 136 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/4_raxmlng_ancestral/O75360.raxml.reduced.phy Alignment comprises 1 partitions and 226 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 226 Gaps: 38.81 % Invariant sites: 5.31 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/4_raxmlng_ancestral/O75360.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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/3_mltree/O75360.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 57 / 4560 [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: -134733.597921 [00:00:00 -134733.597921] Initial branch length optimization [00:00:01 -74246.748311] Model parameter optimization (eps = 0.100000) [00:00:28] Tree #1, final logLikelihood: -74093.736062 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.136126,0.108771) (0.123291,0.141759) (0.174250,0.662793) (0.566333,1.504811) 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: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/4_raxmlng_ancestral/O75360.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/4_raxmlng_ancestral/O75360.raxml.ancestralStates Node-labeled tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/4_raxmlng_ancestral/O75360.raxml.ancestralTree Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_020621/phylogeny-snakemake/results/O75360/4_raxmlng_ancestral/O75360.raxml.log Analysis started: 04-Jun-2021 13:48:25 / finished: 04-Jun-2021 13:48:55 Elapsed time: 30.687 seconds