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 19-Jul-2021 13:26:00 as follows: raxml-ng --ancestral --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q7M4L6/2_msa/Q7M4L6_nogap_msa.fasta --tree /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q7M4L6/3_mltree/Q7M4L6.raxml.bestTree_unrooted --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q7M4L6/4_raxmlng_ancestral/Q7M4L6 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1626690360 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_300621/phylogeny-snakemake/results/Q7M4L6/2_msa/Q7M4L6_nogap_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 423 sites WARNING: Sequences tr_F1NCD9_F1NCD9_CHICK_9031 and tr_U3IYV8_U3IYV8_ANAPL_8839 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_G1NPP1_G1NPP1_MELGA_9103 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A091EW17_A0A091EW17_CORBR_85066 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A093Q5M5_A0A093Q5M5_9PASS_328815 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A091WWA0_A0A091WWA0_NIPNI_128390 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A087QW04_A0A087QW04_APTFO_9233 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A091WJM1_A0A091WJM1_OPIHO_30419 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A091FXQ9_A0A091FXQ9_9AVES_55661 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A0A0AC73_A0A0A0AC73_CHAVO_50402 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A093G3C7_A0A093G3C7_DRYPU_118200 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A226NGC7_A0A226NGC7_CALSU_9009 are exactly identical! WARNING: Sequences tr_F1P4Q4_F1P4Q4_CHICK_9031 and tr_A0A226PLI8_A0A226PLI8_COLVI_9014 are exactly identical! WARNING: Sequences sp_O55033_NCK2_MOUSE_10090 and tr_G3H5P3_G3H5P3_CRIGR_10029 are exactly identical! WARNING: Sequences sp_O55033_NCK2_MOUSE_10090 and tr_D4A3M8_D4A3M8_RAT_10116 are exactly identical! WARNING: Sequences sp_Q99M51_NCK1_MOUSE_10090 and tr_G1STM8_G1STM8_RABIT_9986 are exactly identical! WARNING: Sequences sp_Q99M51_NCK1_MOUSE_10090 and tr_U3CBX5_U3CBX5_CALJA_9483 are exactly identical! WARNING: Sequences tr_M3YHE1_M3YHE1_MUSPF_9669 and tr_G1U3C3_G1U3C3_RABIT_9986 are exactly identical! WARNING: Sequences tr_M3YHE1_M3YHE1_MUSPF_9669 and tr_F7BRP0_F7BRP0_HORSE_9796 are exactly identical! WARNING: Sequences tr_M3YHE1_M3YHE1_MUSPF_9669 and tr_D2GWY7_D2GWY7_AILME_9646 are exactly identical! WARNING: Sequences tr_M3YHE1_M3YHE1_MUSPF_9669 and tr_M3VXW5_M3VXW5_FELCA_9685 are exactly identical! WARNING: Sequences tr_M3YHE1_M3YHE1_MUSPF_9669 and tr_A0A2U3WTE2_A0A2U3WTE2_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3YHE1_M3YHE1_MUSPF_9669 and tr_A0A2U3YX25_A0A2U3YX25_LEPWE_9713 are exactly identical! WARNING: Sequences tr_M3YHE1_M3YHE1_MUSPF_9669 and tr_A0A2Y9KS48_A0A2Y9KS48_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3YHE1_M3YHE1_MUSPF_9669 and tr_A0A384CR76_A0A384CR76_URSMA_29073 are exactly identical! WARNING: Sequences tr_M3YMM7_M3YMM7_MUSPF_9669 and tr_A0A2Y9J9D9_A0A2Y9J9D9_ENHLU_391180 are exactly identical! WARNING: Sequences sp_P00522_ABL_DROME_7227 and tr_B4HJR1_B4HJR1_DROSE_7238 are exactly identical! WARNING: Sequences sp_Q08012_DRK_DROME_7227 and tr_B4JVQ1_B4JVQ1_DROGR_7222 are exactly identical! WARNING: Sequences sp_Q08012_DRK_DROME_7227 and tr_B4HQJ5_B4HQJ5_DROSE_7238 are exactly identical! WARNING: Sequences sp_Q08012_DRK_DROME_7227 and tr_Q28ZT1_Q28ZT1_DROPS_46245 are exactly identical! WARNING: Sequences sp_Q08012_DRK_DROME_7227 and tr_B4MIT0_B4MIT0_DROWI_7260 are exactly identical! WARNING: Sequences sp_Q08012_DRK_DROME_7227 and tr_B3MGZ3_B3MGZ3_DROAN_7217 are exactly identical! WARNING: Sequences sp_Q08012_DRK_DROME_7227 and tr_B4GGT9_B4GGT9_DROPE_7234 are exactly identical! WARNING: Sequences sp_Q08012_DRK_DROME_7227 and tr_B4MCL9_B4MCL9_DROVI_7244 are exactly identical! WARNING: Sequences sp_Q08012_DRK_DROME_7227 and tr_A0A1W4VHZ6_A0A1W4VHZ6_DROFC_30025 are exactly identical! WARNING: Sequences tr_A0A2I3GI86_A0A2I3GI86_NOMLE_61853 and tr_G3RFN5_G3RFN5_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3GI86_A0A2I3GI86_NOMLE_61853 and tr_A0A2J8S9G9_A0A2J8S9G9_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3GI86_A0A2I3GI86_NOMLE_61853 and tr_H2QIH7_H2QIH7_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3GI86_A0A2I3GI86_NOMLE_61853 and sp_O43639_NCK2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3GI86_A0A2I3GI86_NOMLE_61853 and tr_A0A2K6AFG1_A0A2K6AFG1_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3GI86_A0A2I3GI86_NOMLE_61853 and tr_A0A2R9BIN4_A0A2R9BIN4_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_G3SC98_G3SC98_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_A0A2J8TTT9_A0A2J8TTT9_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_G2HHN0_G2HHN0_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and sp_P16333_NCK1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_G7NXX3_G7NXX3_MACFA_9541 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_A0A0D9REU4_A0A0D9REU4_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_A0A2K5LJI1_A0A2K5LJI1_CERAT_9531 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_A0A2K6CMA1_A0A2K6CMA1_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_A0A2K5Y191_A0A2K5Y191_MANLE_9568 are exactly identical! WARNING: Sequences tr_G1QVI6_G1QVI6_NOMLE_61853 and tr_A0A2R9A1S6_A0A2R9A1S6_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_E2RHV6_E2RHV6_CANLF_9615 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_W5PD54_W5PD54_SHEEP_9940 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_H0WPZ9_H0WPZ9_OTOGA_30611 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_Q1LZB2_Q1LZB2_BOVIN_9913 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_L5KZ80_L5KZ80_PTEAL_9402 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_A0A2I2UF94_A0A2I2UF94_FELCA_9685 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_A0A1U7STK4_A0A1U7STK4_TARSY_1868482 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_A0A2U3ZVG4_A0A2U3ZVG4_ODORO_9708 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_A0A2U3X949_A0A2U3X949_LEPWE_9713 are exactly identical! WARNING: Sequences tr_G1NVU5_G1NVU5_MYOLU_59463 and tr_A0A2Y9KAF6_A0A2Y9KAF6_ENHLU_391180 are exactly identical! WARNING: Sequences tr_G1P8R6_G1P8R6_MYOLU_59463 and tr_W5Q539_W5Q539_SHEEP_9940 are exactly identical! WARNING: Sequences tr_G1P8R6_G1P8R6_MYOLU_59463 and tr_D2H3L6_D2H3L6_AILME_9646 are exactly identical! WARNING: Sequences tr_G1PC86_G1PC86_MYOLU_59463 and tr_A0A2U4A468_A0A2U4A468_TURTR_9739 are exactly identical! WARNING: Sequences tr_G3QJK0_G3QJK0_GORGO_9595 and tr_A0A2I3TWE6_A0A2I3TWE6_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3QJK0_G3QJK0_GORGO_9595 and sp_P42684_ABL2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3QJK0_G3QJK0_GORGO_9595 and tr_F7AU70_F7AU70_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3QJK0_G3QJK0_GORGO_9595 and tr_A0A2I3MIM0_A0A2I3MIM0_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3QJK0_G3QJK0_GORGO_9595 and tr_A0A1U7TZR0_A0A1U7TZR0_TARSY_1868482 are exactly identical! WARNING: Sequences tr_G3QJK0_G3QJK0_GORGO_9595 and tr_A0A2K6CR83_A0A2K6CR83_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_F1PEX6_F1PEX6_CANLF_9615 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2I3RAJ1_A0A2I3RAJ1_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2I3S7G9_A0A2I3S7G9_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_E9PT20_E9PT20_RAT_10116 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_H0V6K4_H0V6K4_CAVPO_10141 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_H9YUX8_H9YUX8_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_G3SZ92_G3SZ92_LOXAF_9785 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_U3CVZ7_U3CVZ7_CALJA_9483 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_D2H177_D2H177_AILME_9646 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_G7PRB8_G7PRB8_MACFA_9541 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_M3W3H7_M3W3H7_FELCA_9685 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A1S3A6Y3_A0A1S3A6Y3_ERIEU_9365 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A1S3FJV8_A0A1S3FJV8_DIPOR_10020 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A1U7TEK2_A0A1U7TEK2_TARSY_1868482 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A1U7R1K5_A0A1U7R1K5_MESAU_10036 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2K5LX70_A0A2K5LX70_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2K6B7I9_A0A2K6B7I9_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2K5XNT4_A0A2K5XNT4_MANLE_9568 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2R9BA11_A0A2R9BA11_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2U3VD43_A0A2U3VD43_ODORO_9708 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2Y9DJL9_A0A2Y9DJL9_TRIMA_127582 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2Y9NX24_A0A2Y9NX24_DELLE_9749 are exactly identical! WARNING: Sequences tr_G3R4W2_G3R4W2_GORGO_9595 and tr_A0A2Y9F6C6_A0A2Y9F6C6_PHYCD_9755 are exactly identical! WARNING: Sequences tr_H2N4J6_H2N4J6_PONAB_9601 and tr_I3LP68_I3LP68_PIG_9823 are exactly identical! WARNING: Sequences tr_G1MUH1_G1MUH1_MELGA_9103 and tr_U3J0U7_U3J0U7_ANAPL_8839 are exactly identical! WARNING: Sequences tr_G1MUH1_G1MUH1_MELGA_9103 and tr_A0A093PWB2_A0A093PWB2_9PASS_328815 are exactly identical! WARNING: Sequences tr_G1MUH1_G1MUH1_MELGA_9103 and tr_A0A093GDZ7_A0A093GDZ7_DRYPU_118200 are exactly identical! WARNING: Sequences tr_H2Q9C9_H2Q9C9_PANTR_9598 and tr_A0A2R8ZLI0_A0A2R8ZLI0_PANPA_9597 are exactly identical! WARNING: Sequences tr_K7CHY5_K7CHY5_PANTR_9598 and sp_Q15464_SHB_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A087ZXM2_A0A087ZXM2_APIME_7460 and tr_A0A158NEL3_A0A158NEL3_ATTCE_12957 are exactly identical! WARNING: Sequences tr_A0A087ZXM2_A0A087ZXM2_APIME_7460 and tr_A0A0N0BKX1_A0A0N0BKX1_9HYME_166423 are exactly identical! WARNING: Sequences tr_A0A087ZXM2_A0A087ZXM2_APIME_7460 and tr_A0A195EN05_A0A195EN05_9HYME_471704 are exactly identical! WARNING: Sequences tr_A0A087ZXM2_A0A087ZXM2_APIME_7460 and tr_A0A195FLT0_A0A195FLT0_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A087ZXM2_A0A087ZXM2_APIME_7460 and tr_A0A195BZU9_A0A195BZU9_9HYME_456900 are exactly identical! WARNING: Sequences tr_A0A087ZXM2_A0A087ZXM2_APIME_7460 and tr_A0A2A3EC90_A0A2A3EC90_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A088AT87_A0A088AT87_APIME_7460 and tr_A0A2A3EUP4_A0A2A3EUP4_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A158NUM9_A0A158NUM9_ATTCE_12957 and tr_F4WV60_F4WV60_ACREC_103372 are exactly identical! WARNING: Sequences tr_A0A158NUM9_A0A158NUM9_ATTCE_12957 and tr_A0A151WUC9_A0A151WUC9_9HYME_64791 are exactly identical! WARNING: Sequences tr_A0A158NUM9_A0A158NUM9_ATTCE_12957 and tr_A0A195DS06_A0A195DS06_9HYME_471704 are exactly identical! WARNING: Sequences tr_A0A158NUM9_A0A158NUM9_ATTCE_12957 and tr_A0A195BS54_A0A195BS54_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158NUM9_A0A158NUM9_ATTCE_12957 and tr_A0A195EXC2_A0A195EXC2_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A158NUM9_A0A158NUM9_ATTCE_12957 and tr_A0A195C704_A0A195C704_9HYME_456900 are exactly identical! WARNING: Sequences tr_H0WWK4_H0WWK4_OTOGA_30611 and sp_P00519_ABL1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_H0WWK4_H0WWK4_OTOGA_30611 and tr_A0A0D9RQJ3_A0A0D9RQJ3_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A286XBB5_A0A286XBB5_CAVPO_10141 and tr_A0A091DR65_A0A091DR65_FUKDA_885580 are exactly identical! WARNING: Sequences tr_A0A0K0JDP4_A0A0K0JDP4_BRUMA_6279 and tr_A0A158PSP9_A0A158PSP9_BRUPA_6280 are exactly identical! WARNING: Sequences tr_F6U5Z5_F6U5Z5_MACMU_9544 and tr_A0A096MYU2_A0A096MYU2_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F6U5Z5_F6U5Z5_MACMU_9544 and tr_A0A0D9S5E5_A0A0D9S5E5_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7D094_F7D094_MACMU_9544 and tr_G7PMW0_G7PMW0_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7D094_F7D094_MACMU_9544 and tr_A0A096NGH0_A0A096NGH0_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F7D094_F7D094_MACMU_9544 and tr_A0A0D9RWX0_A0A0D9RWX0_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7D094_F7D094_MACMU_9544 and tr_A0A2K5N045_A0A2K5N045_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7D094_F7D094_MACMU_9544 and tr_A0A2K6D5L9_A0A2K6D5L9_MACNE_9545 are exactly identical! WARNING: Sequences tr_G7NLW6_G7NLW6_MACMU_9544 and tr_A0A0A0MVI4_A0A0A0MVI4_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G7NLW6_G7NLW6_MACMU_9544 and tr_A0A0D9RE21_A0A0D9RE21_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G7NLW6_G7NLW6_MACMU_9544 and tr_A0A2K6C207_A0A2K6C207_MACNE_9545 are exactly identical! WARNING: Sequences tr_H1A456_H1A456_TAEGU_59729 and tr_A0A091IJE8_A0A091IJE8_EGRGA_188379 are exactly identical! WARNING: Sequences tr_H1A456_H1A456_TAEGU_59729 and tr_A0A091UYW5_A0A091UYW5_NIPNI_128390 are exactly identical! WARNING: Sequences tr_H1A456_H1A456_TAEGU_59729 and tr_A0A087QVI0_A0A087QVI0_APTFO_9233 are exactly identical! WARNING: Sequences tr_H1A456_H1A456_TAEGU_59729 and tr_A0A093HBT4_A0A093HBT4_STRCA_441894 are exactly identical! WARNING: Sequences tr_H1A456_H1A456_TAEGU_59729 and tr_A0A091FZH2_A0A091FZH2_9AVES_55661 are exactly identical! WARNING: Sequences tr_A8X798_A8X798_CAEBR_6238 and tr_A0A2G5VT98_A0A2G5VT98_9PELO_1611254 are exactly identical! WARNING: Sequences tr_Q16GF8_Q16GF8_AEDAE_7159 and tr_A0A084WJ51_A0A084WJ51_ANOSI_74873 are exactly identical! WARNING: Sequences tr_F1MWH8_F1MWH8_BOVIN_9913 and tr_A0A2Y9LZ58_A0A2Y9LZ58_DELLE_9749 are exactly identical! WARNING: Sequences tr_F1MWH8_F1MWH8_BOVIN_9913 and tr_A0A2Y9TJX0_A0A2Y9TJX0_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A096NLZ4_A0A096NLZ4_PAPAN_9555 and tr_A0A2K6DJS8_A0A2K6DJS8_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A151MFN4_A0A151MFN4_ALLMI_8496 and tr_A0A1U7S4W8_A0A1U7S4W8_ALLSI_38654 are exactly identical! WARNING: Sequences tr_A0A091JHP5_A0A091JHP5_EGRGA_188379 and tr_A0A093PK85_A0A093PK85_9PASS_328815 are exactly identical! WARNING: Sequences tr_A0A091JHP5_A0A091JHP5_EGRGA_188379 and tr_A0A091URD2_A0A091URD2_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091JHP5_A0A091JHP5_EGRGA_188379 and tr_A0A087RGY7_A0A087RGY7_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091JHP5_A0A091JHP5_EGRGA_188379 and tr_A0A091IH79_A0A091IH79_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A194QRR0_A0A194QRR0_PAPMA_76193 and tr_A0A194QB94_A0A194QB94_PAPXU_66420 are exactly identical! WARNING: Sequences tr_A0A2I0MSQ7_A0A2I0MSQ7_COLLI_8932 and tr_A0A091I9I6_A0A091I9I6_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A0V0S006_A0A0V0S006_9BILA_6336 and tr_A0A0V0WVC0_A0A0V0WVC0_9BILA_92179 are exactly identical! WARNING: Sequences tr_A0A0V0S006_A0A0V0S006_9BILA_6336 and tr_A0A0V1KW03_A0A0V1KW03_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0S006_A0A0V0S006_9BILA_6336 and tr_A0A0V1NZC5_A0A0V1NZC5_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V0S006_A0A0V0S006_9BILA_6336 and tr_A0A0V0TSD2_A0A0V0TSD2_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0V1CHZ0_A0A0V1CHZ0_TRIBR_45882 and tr_A0A0V0VPU7_A0A0V0VPU7_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V1CHZ0_A0A0V1CHZ0_TRIBR_45882 and tr_A0A0V0ZF00_A0A0V0ZF00_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V1NJ15_A0A0V1NJ15_9BILA_92180 and tr_A0A0V0TSP0_A0A0V0TSP0_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A2U3V169_A0A2U3V169_TURTR_9739 and tr_A0A2Y9NTD8_A0A2Y9NTD8_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U3V169_A0A2U3V169_TURTR_9739 and tr_A0A2Y9TBF2_A0A2Y9TBF2_PHYCD_9755 are exactly identical! WARNING: Duplicate sequences found: 151 NOTE: Reduced alignment (with duplicates and gap-only sites/taxa removed) NOTE: was saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q7M4L6/4_raxmlng_ancestral/Q7M4L6.raxml.reduced.phy Alignment comprises 1 partitions and 423 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 423 Gaps: 49.71 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q7M4L6/4_raxmlng_ancestral/Q7M4L6.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_300621/phylogeny-snakemake/results/Q7M4L6/3_mltree/Q7M4L6.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 106 / 8480 [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: -103595.797114 [00:00:00 -103595.797114] Initial branch length optimization [00:00:01 -92902.065807] Model parameter optimization (eps = 0.100000) [00:00:42] Tree #1, final logLikelihood: -92444.320115 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.121413,0.294911) (0.044102,0.266129) (0.323329,0.631652) (0.511156,1.463791) 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_300621/phylogeny-snakemake/results/Q7M4L6/4_raxmlng_ancestral/Q7M4L6.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q7M4L6/4_raxmlng_ancestral/Q7M4L6.raxml.ancestralStates Node-labeled tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q7M4L6/4_raxmlng_ancestral/Q7M4L6.raxml.ancestralTree Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/Q7M4L6/4_raxmlng_ancestral/Q7M4L6.raxml.log Analysis started: 19-Jul-2021 13:26:00 / finished: 19-Jul-2021 13:26:46 Elapsed time: 46.250 seconds