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 12-Jul-2021 17:37:22 as follows: raxml-ng --ancestral --msa /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10826/2_msa/P10826_nogap_msa.fasta --tree /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10826/3_mltree/P10826.raxml.bestTree_unrooted --model LG4X --prefix /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10826/4_raxmlng_ancestral/P10826 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1626100642 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/P10826/2_msa/P10826_nogap_msa.fasta [00:00:00] Loaded alignment with 1001 taxa and 455 sites WARNING: Sequences tr_E9HV90_E9HV90_DAPPU_6669 and tr_A1XQQ1_A1XQQ1_9CRUS_35525 are exactly identical! WARNING: Sequences sp_P22448_RARB_CHICK_9031 and tr_G3UUU2_G3UUU2_MELGA_9103 are exactly identical! WARNING: Sequences sp_P68306_THB_CHICK_9031 and tr_U3K3J5_U3K3J5_FICAL_59894 are exactly identical! WARNING: Sequences sp_P68306_THB_CHICK_9031 and tr_A0A218VE64_A0A218VE64_9PASE_299123 are exactly identical! WARNING: Sequences tr_Q8JHU1_Q8JHU1_CHICK_9031 and tr_G1NE58_G1NE58_MELGA_9103 are exactly identical! WARNING: Sequences tr_Q8JHU1_Q8JHU1_CHICK_9031 and tr_A0A226MEB0_A0A226MEB0_CALSU_9009 are exactly identical! WARNING: Sequences tr_G9KK78_G9KK78_MUSPF_9669 and tr_A0A2U3VJK3_A0A2U3VJK3_ODORO_9708 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_G3QWF5_G3QWF5_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_A0A2I3SVN9_A0A2I3SVN9_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_F6S9P7_F6S9P7_CALJA_9483 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_G7NY92_G7NY92_MACFA_9541 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_A0A2I3NB61_A0A2I3NB61_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_A0A2K5MKR8_A0A2K5MKR8_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_A0A2K6E1L8_A0A2K6E1L8_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_A0A2K5YHL0_A0A2K5YHL0_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3FV35_A0A2I3FV35_NOMLE_61853 and tr_A0A2R9A5N1_A0A2R9A5N1_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1PPF3_G1PPF3_MYOLU_59463 and tr_L5L040_L5L040_PTEAL_9402 are exactly identical! WARNING: Sequences tr_G3IDY0_G3IDY0_CRIGR_10029 and tr_A0A1U7RBT2_A0A1U7RBT2_MESAU_10036 are exactly identical! WARNING: Sequences tr_G3S7Z4_G3S7Z4_GORGO_9595 and sp_P48443_RXRG_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3S8K4_G3S8K4_GORGO_9595 and tr_A0A2I3T0W6_A0A2I3T0W6_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3S8K4_G3S8K4_GORGO_9595 and tr_A0A1D5QJY1_A0A1D5QJY1_MACMU_9544 are exactly identical! WARNING: Sequences tr_G3S8K4_G3S8K4_GORGO_9595 and tr_A0A2I3MGX5_A0A2I3MGX5_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G3S8K4_G3S8K4_GORGO_9595 and tr_A0A2K5NBP9_A0A2K5NBP9_CERAT_9531 are exactly identical! WARNING: Sequences tr_G3S8K4_G3S8K4_GORGO_9595 and tr_A0A2K6DR22_A0A2K6DR22_MACNE_9545 are exactly identical! WARNING: Sequences tr_G3S8K4_G3S8K4_GORGO_9595 and tr_A0A2K5Z0E7_A0A2K5Z0E7_MANLE_9568 are exactly identical! WARNING: Sequences tr_G3S8K4_G3S8K4_GORGO_9595 and tr_A0A2R9BQB5_A0A2R9BQB5_PANPA_9597 are exactly identical! WARNING: Sequences sp_Q5REL6_RXRG_PONAB_9601 and tr_A0A096MW06_A0A096MW06_PAPAN_9555 are exactly identical! WARNING: Sequences sp_Q5REL6_RXRG_PONAB_9601 and tr_A0A0D9REB7_A0A0D9REB7_CHLSB_60711 are exactly identical! WARNING: Sequences sp_Q5REL6_RXRG_PONAB_9601 and tr_A0A1U7UAI0_A0A1U7UAI0_TARSY_1868482 are exactly identical! WARNING: Sequences sp_Q5REL6_RXRG_PONAB_9601 and tr_A0A2K5XT39_A0A2K5XT39_MANLE_9568 are exactly identical! WARNING: Sequences tr_E2R2A6_E2R2A6_CANLF_9615 and tr_M3WD77_M3WD77_FELCA_9685 are exactly identical! WARNING: Sequences tr_A0A2I3SPS8_A0A2I3SPS8_PANTR_9598 and tr_A0A2R9BRK5_A0A2R9BRK5_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I3SXI5_A0A2I3SXI5_PANTR_9598 and tr_A0A2R9AQF8_A0A2R9AQF8_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I3T1N3_A0A2I3T1N3_PANTR_9598 and tr_A0A2K6BUA5_A0A2K6BUA5_MACNE_9545 are exactly identical! WARNING: Sequences tr_H2QCV7_H2QCV7_PANTR_9598 and tr_A0A2R9BJJ5_A0A2R9BJJ5_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2R395_H2R395_PANTR_9598 and sp_P19793_RXRA_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3ZHC5_M3ZHC5_XIPMA_8083 and tr_A0A096M8G6_A0A096M8G6_POEFO_48698 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_L5JS23_L5JS23_PTEAL_9402 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A1S3A8J3_A0A1S3A8J3_ERIEU_9365 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A1S3GX10_A0A1S3GX10_DIPOR_10020 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A1U8CBE0_A0A1U8CBE0_MESAU_10036 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A2U3VJY3_A0A2U3VJY3_ODORO_9708 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A2U3YR99_A0A2U3YR99_LEPWE_9713 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A2Y9JVU8_A0A2Y9JVU8_ENHLU_391180 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A2Y9LYM2_A0A2Y9LYM2_DELLE_9749 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A2Y9F266_A0A2Y9F266_PHYCD_9755 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A384BYE0_A0A384BYE0_URSMA_29073 are exactly identical! WARNING: Sequences tr_H0WSU1_H0WSU1_OTOGA_30611 and tr_A0A383ZR94_A0A383ZR94_BALAS_310752 are exactly identical! WARNING: Sequences sp_P10276_RARA_HUMAN_9606 and tr_A0A0D9S321_A0A0D9S321_CHLSB_60711 are exactly identical! WARNING: Sequences sp_P10276_RARA_HUMAN_9606 and tr_A0A1U7UH95_A0A1U7UH95_TARSY_1868482 are exactly identical! WARNING: Sequences sp_P10827_THA_HUMAN_9606 and tr_A0A0D9S339_A0A0D9S339_CHLSB_60711 are exactly identical! WARNING: Sequences sp_P10828_THB_HUMAN_9606 and tr_F7G9B9_F7G9B9_MACMU_9544 are exactly identical! WARNING: Sequences sp_P10828_THB_HUMAN_9606 and tr_A0A0D9RBL0_A0A0D9RBL0_CHLSB_60711 are exactly identical! WARNING: Sequences sp_P13631_RARG_HUMAN_9606 and tr_G7PHU3_G7PHU3_MACFA_9541 are exactly identical! WARNING: Sequences sp_P28702_RXRB_HUMAN_9606 and tr_A0A096NHF9_A0A096NHF9_PAPAN_9555 are exactly identical! WARNING: Sequences sp_P28702_RXRB_HUMAN_9606 and tr_A0A0D9RAX9_A0A0D9RAX9_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7HDB8_F7HDB8_MACMU_9544 and tr_G7NU27_G7NU27_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7HDB8_F7HDB8_MACMU_9544 and tr_A0A2K6CSH7_A0A2K6CSH7_MACNE_9545 are exactly identical! WARNING: Sequences tr_H0Z605_H0Z605_TAEGU_59729 and tr_A0A091FAL0_A0A091FAL0_CORBR_85066 are exactly identical! WARNING: Sequences tr_H0Z605_H0Z605_TAEGU_59729 and tr_A0A093Q422_A0A093Q422_9PASS_328815 are exactly identical! WARNING: Sequences tr_H0ZJP2_H0ZJP2_TAEGU_59729 and tr_A0A218V9F4_A0A218V9F4_9PASE_299123 are exactly identical! WARNING: Sequences tr_A5D9P3_A5D9P3_PIG_9823 and tr_A0A2Y9P552_A0A2Y9P552_DELLE_9749 are exactly identical! WARNING: Sequences tr_A5D9P3_A5D9P3_PIG_9823 and tr_A0A2Y9ETG3_A0A2Y9ETG3_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A5D9P3_A5D9P3_PIG_9823 and tr_A0A384AIB7_A0A384AIB7_BALAS_310752 are exactly identical! WARNING: Sequences sp_Q0GFF6_RXRG_PIG_9823 and tr_A0A2Y9FR90_A0A2Y9FR90_PHYCD_9755 are exactly identical! WARNING: Sequences tr_A0A2I3LZ58_A0A2I3LZ58_PAPAN_9555 and tr_A0A2K5KQN8_A0A2K5KQN8_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3LZ58_A0A2I3LZ58_PAPAN_9555 and tr_A0A2K5Z439_A0A2K5Z439_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3MWU2_A0A2I3MWU2_PAPAN_9555 and tr_A0A2K5N2P2_A0A2K5N2P2_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3N6C1_A0A2I3N6C1_PAPAN_9555 and tr_A0A2K6BFY8_A0A2K6BFY8_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A091J542_A0A091J542_EGRGA_188379 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A093PWL8_A0A093PWL8_9PASS_328815 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A091V740_A0A091V740_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A087RK02_A0A087RK02_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A093IA54_A0A093IA54_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A099YYA9_A0A099YYA9_TINGU_94827 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A091FJQ0_A0A091FJQ0_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A0A0AD91_A0A0A0AD91_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A093GWB3_A0A093GWB3_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A091EIP2_A0A091EIP2_CORBR_85066 and tr_A0A091IMM0_A0A091IMM0_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A091EMJ6_A0A091EMJ6_CORBR_85066 and tr_A0A091JW13_A0A091JW13_EGRGA_188379 are exactly identical! WARNING: Sequences tr_A0A091EMJ6_A0A091EMJ6_CORBR_85066 and tr_A0A093PVM7_A0A093PVM7_9PASS_328815 are exactly identical! WARNING: Sequences tr_A0A091EMJ6_A0A091EMJ6_CORBR_85066 and tr_A0A091V746_A0A091V746_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091EMJ6_A0A091EMJ6_CORBR_85066 and tr_A0A091WG07_A0A091WG07_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A091J7E3_A0A091J7E3_EGRGA_188379 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A093Q306_A0A093Q306_9PASS_328815 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A091V568_A0A091V568_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A087RK01_A0A087RK01_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A093HZ44_A0A093HZ44_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A091WGU7_A0A091WGU7_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A099YY43_A0A099YY43_TINGU_94827 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A091FP34_A0A091FP34_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A0A0A8T3_A0A0A0A8T3_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A093GLC4_A0A093GLC4_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A091ENA7_A0A091ENA7_CORBR_85066 and tr_A0A091IJ14_A0A091IJ14_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A091JE53_A0A091JE53_EGRGA_188379 and tr_A0A091UQP9_A0A091UQP9_NIPNI_128390 are exactly identical! WARNING: Sequences tr_A0A091JE53_A0A091JE53_EGRGA_188379 and tr_A0A087R4Q8_A0A087R4Q8_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091JE53_A0A091JE53_EGRGA_188379 and tr_A0A093H9R3_A0A093H9R3_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A091JE53_A0A091JE53_EGRGA_188379 and tr_A0A091V921_A0A091V921_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A091JE53_A0A091JE53_EGRGA_188379 and tr_A0A091I5Q5_A0A091I5Q5_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A091KHJ0_A0A091KHJ0_EGRGA_188379 and tr_A0A087QYK9_A0A087QYK9_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A091KHJ0_A0A091KHJ0_EGRGA_188379 and tr_A0A091GNL5_A0A091GNL5_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A087QJ49_A0A087QJ49_APTFO_9233 and tr_A0A091FNT7_A0A091FNT7_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A087RJZ9_A0A087RJZ9_APTFO_9233 and tr_A0A093GIW4_A0A093GIW4_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A2I0MQP2_A0A2I0MQP2_COLLI_8932 and tr_A0A1V4KDS9_A0A1V4KDS9_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A0V1CSX1_A0A0V1CSX1_TRIBR_45882 and tr_A0A0V1PEM3_A0A0V1PEM3_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V1CSX1_A0A0V1CSX1_TRIBR_45882 and tr_A0A0V0U9D4_A0A0V0U9D4_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A0V0X104_A0A0V0X104_9BILA_92179 and tr_A0A0V0VYE3_A0A0V0VYE3_9BILA_181606 are exactly identical! WARNING: Sequences tr_A0A0V0X104_A0A0V0X104_9BILA_92179 and tr_A0A0V1LAZ7_A0A0V1LAZ7_9BILA_6335 are exactly identical! WARNING: Sequences tr_A0A0V0X104_A0A0V0X104_9BILA_92179 and tr_A0A0V1A7P5_A0A0V1A7P5_9BILA_990121 are exactly identical! WARNING: Sequences tr_A0A0V0X104_A0A0V0X104_9BILA_92179 and tr_A0A0V1PEM8_A0A0V1PEM8_9BILA_92180 are exactly identical! WARNING: Sequences tr_A0A0V0X104_A0A0V0X104_9BILA_92179 and tr_A0A0V0U7W0_A0A0V0U7W0_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A1S2ZM55_A0A1S2ZM55_ERIEU_9365 and tr_A0A2U3YXK0_A0A2U3YXK0_LEPWE_9713 are exactly identical! WARNING: Sequences tr_A0A1S3JVH9_A0A1S3JVH9_LINUN_7574 and tr_A0A1S3JVP8_A0A1S3JVP8_LINUN_7574 are exactly identical! WARNING: Sequences tr_A0A1S2WZ42_A0A1S2WZ42_SALSA_8030 and sp_Q9W785_THA_SALSA_8030 are exactly identical! WARNING: Sequences tr_Q90Y21_Q90Y21_SALSA_8030 and tr_Q90Y22_Q90Y22_SALSA_8030 are exactly identical! WARNING: Sequences tr_A0A2D0PY04_A0A2D0PY04_ICTPU_7998 and tr_A0A2D0PZA2_A0A2D0PZA2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0Q8R6_A0A2D0Q8R6_ICTPU_7998 and tr_A0A2D0QBB9_A0A2D0QBB9_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0S1X8_A0A2D0S1X8_ICTPU_7998 and tr_A0A2D0S2S1_A0A2D0S2S1_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0S1X8_A0A2D0S1X8_ICTPU_7998 and tr_A0A2D0S3F2_A0A2D0S3F2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0T0F7_A0A2D0T0F7_ICTPU_7998 and tr_A0A2D0T1D2_A0A2D0T1D2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0T0G0_A0A2D0T0G0_ICTPU_7998 and tr_A0A2D0T0U4_A0A2D0T0U4_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0T0G4_A0A2D0T0G4_ICTPU_7998 and tr_A0A2D0T0V0_A0A2D0T0V0_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2K5P3R2_A0A2K5P3R2_CERAT_9531 and tr_A0A2K6A937_A0A2K6A937_MANLE_9568 are exactly identical! WARNING: Duplicate sequences found: 123 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/P10826/4_raxmlng_ancestral/P10826.raxml.reduced.phy Alignment comprises 1 partitions and 455 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 455 Gaps: 22.94 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10826/4_raxmlng_ancestral/P10826.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/P10826/3_mltree/P10826.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 114 / 9120 [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: -120873.520771 [00:00:00 -120873.520771] Initial branch length optimization [00:00:01 -99359.411216] Model parameter optimization (eps = 0.100000) [00:00:52] Tree #1, final logLikelihood: -98673.226609 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.241847,0.258567) (0.173604,0.300790) (0.316066,0.637739) (0.268482,2.546464) 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/P10826/4_raxmlng_ancestral/P10826.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10826/4_raxmlng_ancestral/P10826.raxml.ancestralStates Node-labeled tree saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10826/4_raxmlng_ancestral/P10826.raxml.ancestralTree Execution log saved to: /cta/users/eakkoyun/WORKFOLDER/PROD/run_300621/phylogeny-snakemake/results/P10826/4_raxmlng_ancestral/P10826.raxml.log Analysis started: 12-Jul-2021 17:37:22 / finished: 12-Jul-2021 17:38:20 Elapsed time: 57.055 seconds