RAxML-NG v. 1.0.2 released on 22.02.2021 by The Exelixis Lab. Developed by: Alexey M. Kozlov and Alexandros Stamatakis. Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth. Latest version: https://github.com/amkozlov/raxml-ng Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml System: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, 40 cores, 376 GB RAM RAxML-NG was called at 02-Jun-2021 18:10:54 as follows: raxml-ng --ancestral --msa /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P14770/2_msa/P14770_nogap_msa.fasta --tree /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P14770/3_mltree/P14770.raxml.bestTree_unrooted --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P14770/4_raxmlng_ancestral/P14770 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1622646654 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/P14770/2_msa/P14770_nogap_msa.fasta [00:00:00] Loaded alignment with 826 taxa and 177 sites WARNING: Sequences tr_A0A1D5P0S9_A0A1D5P0S9_CHICK_9031 and tr_G1NIV1_G1NIV1_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A1D5PFF3_A0A1D5PFF3_CHICK_9031 and tr_G1N9F8_G1N9F8_MELGA_9103 are exactly identical! WARNING: Sequences tr_A0A1D5PJA9_A0A1D5PJA9_CHICK_9031 and tr_A0A226NIW2_A0A226NIW2_CALSU_9009 are exactly identical! WARNING: Sequences tr_A0A1D5PJA9_A0A1D5PJA9_CHICK_9031 and tr_A0A226P6M7_A0A226P6M7_COLVI_9014 are exactly identical! WARNING: Sequences tr_F1NF14_F1NF14_CHICK_9031 and tr_G1MTP6_G1MTP6_MELGA_9103 are exactly identical! WARNING: Sequences sp_P56400_GP1BB_MOUSE_10090 and sp_Q9JJM7_GP1BB_RAT_10116 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_W5P3Y8_W5P3Y8_SHEEP_9940 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_A0A287B5N1_A0A287B5N1_PIG_9823 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_F1MLJ7_F1MLJ7_BOVIN_9913 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_A0A337S3C4_A0A337S3C4_FELCA_9685 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_A0A091CP99_A0A091CP99_FUKDA_885580 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_A0A2U4ASP4_A0A2U4ASP4_TURTR_9739 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_A0A2Y9JUW0_A0A2Y9JUW0_ENHLU_391180 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_A0A2Y9MKI2_A0A2Y9MKI2_DELLE_9749 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_A0A2Y9SG38_A0A2Y9SG38_PHYCD_9755 are exactly identical! WARNING: Sequences tr_M3YZ90_M3YZ90_MUSPF_9669 and tr_A0A384AK33_A0A384AK33_BALAS_310752 are exactly identical! WARNING: Sequences tr_M3Z032_M3Z032_MUSPF_9669 and tr_A0A2Y9J257_A0A2Y9J257_ENHLU_391180 are exactly identical! WARNING: Sequences tr_A0A3B3INK1_A0A3B3INK1_ORYLA_8090 and tr_A0A2I4CBY6_A0A2I4CBY6_9TELE_52670 are exactly identical! WARNING: Sequences tr_A0A2I3G3A7_A0A2I3G3A7_NOMLE_61853 and tr_G3SFA3_G3SFA3_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3G3A7_A0A2I3G3A7_NOMLE_61853 and tr_H2P3M5_H2P3M5_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3G3A7_A0A2I3G3A7_NOMLE_61853 and tr_H2RCB6_H2RCB6_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3G3A7_A0A2I3G3A7_NOMLE_61853 and sp_P13224_GP1BB_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3G3A7_A0A2I3G3A7_NOMLE_61853 and tr_A0A1D5Q037_A0A1D5Q037_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I3G3A7_A0A2I3G3A7_NOMLE_61853 and tr_A0A096MQD8_A0A096MQD8_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I3G3A7_A0A2I3G3A7_NOMLE_61853 and tr_A0A2K5KR80_A0A2K5KR80_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_A0A2I2Y7Y7_A0A2I2Y7Y7_GORGO_9595 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_H2PD01_H2PD01_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_A0A2I3SS24_A0A2I3SS24_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and sp_O94813_SLIT2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_F7H9D3_F7H9D3_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_F7H815_F7H815_CALJA_9483 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_A0A2I3M603_A0A2I3M603_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_A0A3Q0DPJ6_A0A3Q0DPJ6_TARSY_1868482 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_A0A2K5P0G9_A0A2K5P0G9_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_A0A2K6DXW7_A0A2K6DXW7_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_A0A2K5XKL1_A0A2K5XKL1_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I3HY02_A0A2I3HY02_NOMLE_61853 and tr_A0A2R9CKN8_A0A2R9CKN8_PANPA_9597 are exactly identical! WARNING: Sequences tr_G1QQN3_G1QQN3_NOMLE_61853 and tr_A0A2J8S3N3_A0A2J8S3N3_PONAB_9601 are exactly identical! WARNING: Sequences tr_G1QQN3_G1QQN3_NOMLE_61853 and tr_A0A2K6CNG2_A0A2K6CNG2_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1QQN3_G1QQN3_NOMLE_61853 and tr_A0A2K5XR18_A0A2K5XR18_MANLE_9568 are exactly identical! WARNING: Sequences tr_G1RTQ5_G1RTQ5_NOMLE_61853 and tr_A0A2I2YCZ6_A0A2I2YCZ6_GORGO_9595 are exactly identical! WARNING: Sequences tr_G1RTQ5_G1RTQ5_NOMLE_61853 and tr_A0A2I3T1U4_A0A2I3T1U4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1RTQ5_G1RTQ5_NOMLE_61853 and sp_O75093_SLIT1_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1RTQ5_G1RTQ5_NOMLE_61853 and tr_A0A2I3LQQ5_A0A2I3LQQ5_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1RTQ5_G1RTQ5_NOMLE_61853 and tr_A0A0D9R0Q4_A0A0D9R0Q4_CHLSB_60711 are exactly identical! WARNING: Sequences tr_G1RTQ5_G1RTQ5_NOMLE_61853 and tr_A0A2K6BN20_A0A2K6BN20_MACNE_9545 are exactly identical! WARNING: Sequences tr_G1RTQ5_G1RTQ5_NOMLE_61853 and tr_A0A2R8ZSB7_A0A2R8ZSB7_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3R4K4_G3R4K4_GORGO_9595 and tr_H2PHB4_H2PHB4_PONAB_9601 are exactly identical! WARNING: Sequences tr_G3R4K4_G3R4K4_GORGO_9595 and tr_H2QRZ2_H2QRZ2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3R4K4_G3R4K4_GORGO_9595 and sp_O75094_SLIT3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R4K4_G3R4K4_GORGO_9595 and tr_A0A2R9ATN7_A0A2R9ATN7_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3R521_G3R521_GORGO_9595 and sp_Q8N967_LRTM2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G3R521_G3R521_GORGO_9595 and tr_A0A2R9AZA3_A0A2R9AZA3_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3SDX5_G3SDX5_GORGO_9595 and tr_H2QVB4_H2QVB4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3SDX5_G3SDX5_GORGO_9595 and tr_A0A2R9A6Z7_A0A2R9A6Z7_PANPA_9597 are exactly identical! WARNING: Sequences tr_G3SHZ6_G3SHZ6_GORGO_9595 and tr_H2RCK8_H2RCK8_PANTR_9598 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_E2RH90_E2RH90_CANLF_9615 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and sp_Q45R42_LRRC4_RAT_10116 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_H0XS73_H0XS73_OTOGA_30611 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_F6Q3P7_F6Q3P7_MACMU_9544 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_G3TMK9_G3TMK9_LOXAF_9785 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_D2GWR2_D2GWR2_AILME_9646 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_L5KR26_L5KR26_PTEAL_9402 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A0D9SCQ8_A0A0D9SCQ8_CHLSB_60711 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A1U7TDX1_A0A1U7TDX1_TARSY_1868482 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A2U3UZJ5_A0A2U3UZJ5_TURTR_9739 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A2U3VS62_A0A2U3VS62_ODORO_9708 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A2U3YUV5_A0A2U3YUV5_LEPWE_9713 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A2Y9DY10_A0A2Y9DY10_TRIMA_127582 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A2Y9NXF8_A0A2Y9NXF8_DELLE_9749 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A384DAI9_A0A384DAI9_URSMA_29073 are exactly identical! WARNING: Sequences tr_H2PNE9_H2PNE9_PONAB_9601 and tr_A0A383ZQ82_A0A383ZQ82_BALAS_310752 are exactly identical! WARNING: Sequences tr_E2RFX7_E2RFX7_CANLF_9615 and tr_A0A2I2U579_A0A2I2U579_FELCA_9685 are exactly identical! WARNING: Sequences tr_F1PYZ6_F1PYZ6_CANLF_9615 and tr_G1LC33_G1LC33_AILME_9646 are exactly identical! WARNING: Sequences tr_F1PYZ6_F1PYZ6_CANLF_9615 and tr_A0A384D7J2_A0A384D7J2_URSMA_29073 are exactly identical! WARNING: Sequences tr_F7BVS9_F7BVS9_MONDO_13616 and tr_F7DUX8_F7DUX8_HORSE_9796 are exactly identical! WARNING: Sequences tr_A0A3B5RCW8_A0A3B5RCW8_XIPMA_8083 and tr_A0A096LZW8_A0A096LZW8_POEFO_48698 are exactly identical! WARNING: Sequences tr_B8XNP5_B8XNP5_MACMU_9544 and tr_G7PIN6_G7PIN6_MACFA_9541 are exactly identical! WARNING: Sequences tr_B8XNP5_B8XNP5_MACMU_9544 and tr_A0A2K6ARW7_A0A2K6ARW7_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7CX22_F7CX22_MACMU_9544 and tr_G7PDN7_G7PDN7_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7GT29_F7GT29_MACMU_9544 and tr_G7PVK4_G7PVK4_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7GT29_F7GT29_MACMU_9544 and tr_A0A096NCU7_A0A096NCU7_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F7GT29_F7GT29_MACMU_9544 and tr_A0A0D9SA78_A0A0D9SA78_CHLSB_60711 are exactly identical! WARNING: Sequences tr_F7GT29_F7GT29_MACMU_9544 and tr_A0A2K5KWA4_A0A2K5KWA4_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7GT29_F7GT29_MACMU_9544 and tr_A0A2K5XV41_A0A2K5XV41_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7HJ55_F7HJ55_MACMU_9544 and tr_G7P6V0_G7P6V0_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7HJ55_F7HJ55_MACMU_9544 and tr_A0A096NXH8_A0A096NXH8_PAPAN_9555 are exactly identical! WARNING: Sequences tr_F7HJ55_F7HJ55_MACMU_9544 and tr_A0A2K5NF91_A0A2K5NF91_CERAT_9531 are exactly identical! WARNING: Sequences tr_F7HJ55_F7HJ55_MACMU_9544 and tr_A0A2K6CND7_A0A2K6CND7_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7HJ55_F7HJ55_MACMU_9544 and tr_A0A2K5YU95_A0A2K5YU95_MANLE_9568 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_U3J2A6_U3J2A6_ANAPL_8839 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_A0A091K4H1_A0A091K4H1_EGRGA_188379 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_A0A091ULK6_A0A091ULK6_NIPNI_128390 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_A0A087QZ36_A0A087QZ36_APTFO_9233 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_A0A091W9P0_A0A091W9P0_OPIHO_30419 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_A0A0A0AT31_A0A0A0AT31_CHAVO_50402 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_A0A091IFU8_A0A091IFU8_CALAN_9244 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_A0A218UXQ2_A0A218UXQ2_9PASE_299123 are exactly identical! WARNING: Sequences tr_H0ZEE0_H0ZEE0_TAEGU_59729 and tr_A0A226NWV4_A0A226NWV4_COLVI_9014 are exactly identical! WARNING: Sequences tr_H0ZQR8_H0ZQR8_TAEGU_59729 and tr_U3IDA6_U3IDA6_ANAPL_8839 are exactly identical! WARNING: Sequences tr_H0ZQR8_H0ZQR8_TAEGU_59729 and tr_A0A091IS13_A0A091IS13_EGRGA_188379 are exactly identical! WARNING: Sequences tr_H0ZQR8_H0ZQR8_TAEGU_59729 and tr_A0A091VUJ5_A0A091VUJ5_NIPNI_128390 are exactly identical! WARNING: Sequences tr_H0ZQR8_H0ZQR8_TAEGU_59729 and tr_A0A099YY68_A0A099YY68_TINGU_94827 are exactly identical! WARNING: Sequences tr_H0ZQR8_H0ZQR8_TAEGU_59729 and tr_A0A0A0A758_A0A0A0A758_CHAVO_50402 are exactly identical! WARNING: Sequences tr_F4W9S8_F4W9S8_ACREC_103372 and tr_A0A151JLV6_A0A151JLV6_9HYME_471704 are exactly identical! WARNING: Sequences tr_F4W9S8_F4W9S8_ACREC_103372 and tr_A0A195EY64_A0A195EY64_9HYME_34720 are exactly identical! WARNING: Sequences tr_D2HWK5_D2HWK5_AILME_9646 and tr_A0A384BM87_A0A384BM87_URSMA_29073 are exactly identical! WARNING: Sequences tr_M3W500_M3W500_FELCA_9685 and tr_A0A2U3WEC2_A0A2U3WEC2_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3W500_M3W500_FELCA_9685 and tr_A0A2U3YF81_A0A2U3YF81_LEPWE_9713 are exactly identical! WARNING: Sequences tr_A0A096N8V6_A0A096N8V6_PAPAN_9555 and tr_A0A0D9SBU3_A0A0D9SBU3_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A096N8V6_A0A096N8V6_PAPAN_9555 and tr_A0A2K5XED2_A0A2K5XED2_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A096NB36_A0A096NB36_PAPAN_9555 and tr_A0A2K5N576_A0A2K5N576_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A096NB36_A0A096NB36_PAPAN_9555 and tr_A0A2K6CU43_A0A2K6CU43_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A091CTG4_A0A091CTG4_FUKDA_885580 and tr_A0A0D9RVN6_A0A0D9RVN6_CHLSB_60711 are exactly identical! WARNING: Sequences tr_A0A091IP68_A0A091IP68_EGRGA_188379 and tr_A0A0A0AQW4_A0A0A0AQW4_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A093Q7P4_A0A093Q7P4_9PASS_328815 and tr_A0A087REI1_A0A087REI1_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A093Q7P4_A0A093Q7P4_9PASS_328815 and tr_A0A093II53_A0A093II53_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A091VLC8_A0A091VLC8_NIPNI_128390 and tr_A0A093FYC6_A0A093FYC6_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A087QZ88_A0A087QZ88_APTFO_9233 and tr_A0A091HT33_A0A091HT33_CALAN_9244 are exactly identical! WARNING: Sequences tr_A0A091GA59_A0A091GA59_9AVES_55661 and tr_A0A0A0AY12_A0A0A0AY12_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A1S3RV46_A0A1S3RV46_SALSA_8030 and tr_A0A060VZ60_A0A060VZ60_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A226N6E5_A0A226N6E5_CALSU_9009 and tr_A0A226PS52_A0A226PS52_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2D0QI67_A0A2D0QI67_ICTPU_7998 and tr_W5UJ55_W5UJ55_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2D0QY69_A0A2D0QY69_ICTPU_7998 and tr_W5UJG2_W5UJG2_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2U4A6U7_A0A2U4A6U7_TURTR_9739 and tr_A0A2Y9NBW3_A0A2Y9NBW3_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A2U4A6U7_A0A2U4A6U7_TURTR_9739 and tr_A0A384BB63_A0A384BB63_BALAS_310752 are exactly identical! WARNING: Sequences tr_A0A2Y9S627_A0A2Y9S627_PHYCD_9755 and tr_A0A383Z8C7_A0A383Z8C7_BALAS_310752 are exactly identical! WARNING: Duplicate sequences found: 127 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/P14770/4_raxmlng_ancestral/P14770.raxml.reduced.phy Alignment comprises 1 partitions and 177 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 177 Gaps: 33.01 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P14770/4_raxmlng_ancestral/P14770.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/P14770/3_mltree/P14770.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 45 / 3600 [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: -55626.072707 [00:00:00 -55626.072707] Initial branch length optimization [00:00:00 -51938.791589] Model parameter optimization (eps = 0.100000) [00:00:32] Tree #1, final logLikelihood: -51743.522385 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.090175,0.216873) (0.108421,0.340436) (0.516400,0.983927) (0.285005,1.527811) 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/P14770/4_raxmlng_ancestral/P14770.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P14770/4_raxmlng_ancestral/P14770.raxml.ancestralStates Node-labeled tree saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P14770/4_raxmlng_ancestral/P14770.raxml.ancestralTree Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P14770/4_raxmlng_ancestral/P14770.raxml.log Analysis started: 02-Jun-2021 18:10:54 / finished: 02-Jun-2021 18:11:27 Elapsed time: 33.366 seconds Consumed energy: 2.750 Wh