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) CPU E5-2690 v4 @ 2.60GHz, 28 cores, 251 GB RAM RAxML-NG was called at 03-Jun-2021 01:50:13 as follows: raxml-ng --ancestral --msa /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P07951/2_msa/P07951_nogap_msa.fasta --tree /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P07951/3_mltree/P07951.raxml.bestTree_unrooted --model LG4X --prefix /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P07951/4_raxmlng_ancestral/P07951 --threads 4 Analysis options: run mode: Ancestral state reconstruction start tree(s): user random seed: 1622674213 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/P07951/2_msa/P07951_nogap_msa.fasta [00:00:00] Loaded alignment with 961 taxa and 284 sites WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_G1PMJ7_G1PMJ7_MYOLU_59463 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_E2RBW4_E2RBW4_CANLF_9615 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_W5NUU3_W5NUU3_SHEEP_9940 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_G5BDC1_G5BDC1_HETGA_10181 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_H0Z037_H0Z037_TAEGU_59729 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_A0A091F0E5_A0A091F0E5_CORBR_85066 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_A0A091JMU8_A0A091JMU8_EGRGA_188379 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_A0A093Q258_A0A093Q258_9PASS_328815 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_A0A091UK86_A0A091UK86_NIPNI_128390 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_A0A087R9Y6_A0A087R9Y6_APTFO_9233 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_A0A091FH35_A0A091FH35_9AVES_55661 are exactly identical! WARNING: Sequences tr_H9L074_H9L074_CHICK_9031 and tr_A0A226MFW3_A0A226MFW3_CALSU_9009 are exactly identical! WARNING: Sequences sp_P19352_TPM2_CHICK_9031 and tr_A0A087RDL4_A0A087RDL4_APTFO_9233 are exactly identical! WARNING: Sequences sp_P58771_TPM1_MOUSE_10090 and sp_P58772_TPM1_RABIT_9986 are exactly identical! WARNING: Sequences sp_P58771_TPM1_MOUSE_10090 and tr_F7GGK2_F7GGK2_MONDO_13616 are exactly identical! WARNING: Sequences sp_P58771_TPM1_MOUSE_10090 and sp_P04692_TPM1_RAT_10116 are exactly identical! WARNING: Sequences sp_P58771_TPM1_MOUSE_10090 and tr_G3WX56_G3WX56_SARHA_9305 are exactly identical! WARNING: Sequences sp_P58771_TPM1_MOUSE_10090 and tr_A0A1U7QBL2_A0A1U7QBL2_MESAU_10036 are exactly identical! WARNING: Sequences sp_P58771_TPM1_MOUSE_10090 and tr_A0A2U3V249_A0A2U3V249_TURTR_9739 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and sp_P58776_TPM2_RABIT_9986 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and sp_P58775_TPM2_RAT_10116 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and tr_A0A287D3T9_A0A287D3T9_ICTTR_43179 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and tr_A0A287AN33_A0A287AN33_PIG_9823 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and sp_Q5KR48_TPM2_BOVIN_9913 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and tr_M3WH86_M3WH86_FELCA_9685 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and tr_A0A1U7TMR0_A0A1U7TMR0_TARSY_1868482 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and tr_A0A2U3YUX6_A0A2U3YUX6_LEPWE_9713 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and tr_A0A2Y9DCZ9_A0A2Y9DCZ9_TRIMA_127582 are exactly identical! WARNING: Sequences sp_P58774_TPM2_MOUSE_10090 and tr_A0A2Y9ETA1_A0A2Y9ETA1_PHYCD_9755 are exactly identical! WARNING: Sequences tr_M3Y1W9_M3Y1W9_MUSPF_9669 and tr_A0A2U3VCK9_A0A2U3VCK9_ODORO_9708 are exactly identical! WARNING: Sequences tr_M3YX87_M3YX87_MUSPF_9669 and sp_P67936_TPM4_HUMAN_9606 are exactly identical! WARNING: Sequences tr_M3YX87_M3YX87_MUSPF_9669 and sp_P67937_TPM4_PIG_9823 are exactly identical! WARNING: Sequences sp_P09491_TPM2_DROME_7227 and tr_B4HDY5_B4HDY5_DROSE_7238 are exactly identical! WARNING: Sequences tr_A0A2I3G1Q7_A0A2I3G1Q7_NOMLE_61853 and tr_F6ZTR4_F6ZTR4_HORSE_9796 are exactly identical! WARNING: Sequences tr_A0A2I3G1Q7_A0A2I3G1Q7_NOMLE_61853 and sp_P06753_TPM3_HUMAN_9606 are exactly identical! WARNING: Sequences tr_A0A2I3G1Q7_A0A2I3G1Q7_NOMLE_61853 and tr_F7GS35_F7GS35_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I3G1Q7_A0A2I3G1Q7_NOMLE_61853 and sp_Q5KR47_TPM3_BOVIN_9913 are exactly identical! WARNING: Sequences tr_A0A2I3G1Q7_A0A2I3G1Q7_NOMLE_61853 and tr_A0A1U7TLK3_A0A1U7TLK3_TARSY_1868482 are exactly identical! WARNING: Sequences tr_A0A2I3G1Q7_A0A2I3G1Q7_NOMLE_61853 and tr_A0A2K6CA96_A0A2K6CA96_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3G1Q7_A0A2I3G1Q7_NOMLE_61853 and tr_A0A2U3YIJ3_A0A2U3YIJ3_LEPWE_9713 are exactly identical! WARNING: Sequences tr_A0A2I3G1Q7_A0A2I3G1Q7_NOMLE_61853 and tr_A0A2Y9IEC7_A0A2Y9IEC7_ENHLU_391180 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_G1P8B2_G1P8B2_MYOLU_59463 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_H2NNF2_H2NNF2_PONAB_9601 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_I3MEJ9_I3MEJ9_ICTTR_43179 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_F7GV63_F7GV63_MACMU_9544 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_G3SV96_G3SV96_LOXAF_9785 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_F6Y9T0_F6Y9T0_CALJA_9483 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_A0A2I3MED4_A0A2I3MED4_PAPAN_9555 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_A0A2K5NX54_A0A2K5NX54_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_A0A2K6BTX5_A0A2K6BTX5_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_A0A2U3V264_A0A2U3V264_TURTR_9739 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_A0A2U3V265_A0A2U3V265_TURTR_9739 are exactly identical! WARNING: Sequences tr_A0A2I3GPN2_A0A2I3GPN2_NOMLE_61853 and tr_A0A2Y9T4F0_A0A2Y9T4F0_PHYCD_9755 are exactly identical! WARNING: Sequences tr_G1QWA1_G1QWA1_NOMLE_61853 and sp_P07951_TPM2_HUMAN_9606 are exactly identical! WARNING: Sequences tr_G1QWA1_G1QWA1_NOMLE_61853 and tr_A0A096P175_A0A096P175_PAPAN_9555 are exactly identical! WARNING: Sequences tr_G1QWA1_G1QWA1_NOMLE_61853 and tr_A0A2K5ZGF4_A0A2K5ZGF4_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I2YC45_A0A2I2YC45_GORGO_9595 and tr_A0A2R9BYH4_A0A2R9BYH4_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I2ZRG1_A0A2I2ZRG1_GORGO_9595 and tr_A0A2I3T4U6_A0A2I3T4U6_PANTR_9598 are exactly identical! WARNING: Sequences tr_A0A2I2ZRG1_A0A2I2ZRG1_GORGO_9595 and tr_A0A2R8MKU8_A0A2R8MKU8_CALJA_9483 are exactly identical! WARNING: Sequences tr_A0A2I2ZRG1_A0A2I2ZRG1_GORGO_9595 and tr_G1LZH7_G1LZH7_AILME_9646 are exactly identical! WARNING: Sequences tr_A0A2I2ZRG1_A0A2I2ZRG1_GORGO_9595 and tr_A0A2K5NE19_A0A2K5NE19_CERAT_9531 are exactly identical! WARNING: Sequences tr_A0A2I2ZRG1_A0A2I2ZRG1_GORGO_9595 and tr_A0A2K5ZZU7_A0A2K5ZZU7_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2I2ZRG1_A0A2I2ZRG1_GORGO_9595 and tr_A0A2R9B204_A0A2R9B204_PANPA_9597 are exactly identical! WARNING: Sequences tr_A0A2I2ZRG1_A0A2I2ZRG1_GORGO_9595 and tr_A0A2U3W4M8_A0A2U3W4M8_ODORO_9708 are exactly identical! WARNING: Sequences tr_G3RWR8_G3RWR8_GORGO_9595 and tr_H2R0Y4_H2R0Y4_PANTR_9598 are exactly identical! WARNING: Sequences tr_G3RWR8_G3RWR8_GORGO_9595 and tr_A0A2R8ZFR5_A0A2R8ZFR5_PANPA_9597 are exactly identical! WARNING: Sequences tr_H2PRS7_H2PRS7_PONAB_9601 and tr_A0A2I3RAB2_A0A2I3RAB2_PANTR_9598 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A091F4X9_A0A091F4X9_CORBR_85066 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A091J0T1_A0A091J0T1_EGRGA_188379 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A093PFY8_A0A093PFY8_9PASS_328815 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A091VQU0_A0A091VQU0_NIPNI_128390 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A087RBA7_A0A087RBA7_APTFO_9233 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A091V4L5_A0A091V4L5_OPIHO_30419 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A091G8T8_A0A091G8T8_9AVES_55661 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A0A0A3X5_A0A0A0A3X5_CHAVO_50402 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A2I0LQH6_A0A2I0LQH6_COLLI_8932 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A093FXY2_A0A093FXY2_DRYPU_118200 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A091IDP1_A0A091IDP1_CALAN_9244 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A1V4KWP7_A0A1V4KWP7_PATFA_372326 are exactly identical! WARNING: Sequences tr_G1N2D9_G1N2D9_MELGA_9103 and tr_A0A218UFY3_A0A218UFY3_9PASE_299123 are exactly identical! WARNING: Sequences tr_F1P912_F1P912_CANLF_9615 and tr_A0A337SAN6_A0A337SAN6_FELCA_9685 are exactly identical! WARNING: Sequences tr_F6X7L0_F6X7L0_CANLF_9615 and tr_W5NRW4_W5NRW4_SHEEP_9940 are exactly identical! WARNING: Sequences tr_F6X7L0_F6X7L0_CANLF_9615 and tr_M3WAL8_M3WAL8_FELCA_9685 are exactly identical! WARNING: Sequences tr_F6X7L0_F6X7L0_CANLF_9615 and tr_A0A384DCR9_A0A384DCR9_URSMA_29073 are exactly identical! WARNING: Sequences tr_A0A2I3RVF0_A0A2I3RVF0_PANTR_9598 and tr_A0A2R9AEG4_A0A2R9AEG4_PANPA_9597 are exactly identical! WARNING: Sequences tr_F7A281_F7A281_HORSE_9796 and tr_W5PQL4_W5PQL4_SHEEP_9940 are exactly identical! WARNING: Sequences tr_F7A281_F7A281_HORSE_9796 and tr_A0A1S3G005_A0A1S3G005_DIPOR_10020 are exactly identical! WARNING: Sequences sp_Q63610_TPM3_RAT_10116 and tr_H0XHL2_H0XHL2_OTOGA_30611 are exactly identical! WARNING: Sequences tr_J4KMF8_J4KMF8_BEAB2_655819 and tr_A0A0A2VI29_A0A0A2VI29_BEABA_1245745 are exactly identical! WARNING: Sequences tr_J4KMF8_J4KMF8_BEAB2_655819 and tr_A0A2N6NL47_A0A2N6NL47_BEABA_176275 are exactly identical! WARNING: Sequences tr_A0A088A9D8_A0A088A9D8_APIME_7460 and tr_A0A2A3EDC1_A0A2A3EDC1_APICC_94128 are exactly identical! WARNING: Sequences tr_A0A158NF83_A0A158NF83_ATTCE_12957 and tr_A0A195BT87_A0A195BT87_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A158NSB6_A0A158NSB6_ATTCE_12957 and tr_A0A151X364_A0A151X364_9HYME_64791 are exactly identical! WARNING: Sequences tr_H0WKW3_H0WKW3_OTOGA_30611 and tr_A0A2U3WRE7_A0A2U3WRE7_ODORO_9708 are exactly identical! WARNING: Sequences tr_A0A286XLP6_A0A286XLP6_CAVPO_10141 and tr_A0A287AID2_A0A287AID2_PIG_9823 are exactly identical! WARNING: Sequences tr_H0VHZ2_H0VHZ2_CAVPO_10141 and tr_A0A2K6AHN8_A0A2K6AHN8_MANLE_9568 are exactly identical! WARNING: Sequences tr_F7GSX8_F7GSX8_MACMU_9544 and tr_G7PS00_G7PS00_MACFA_9541 are exactly identical! WARNING: Sequences tr_F7GSX8_F7GSX8_MACMU_9544 and tr_A0A2K6BU72_A0A2K6BU72_MACNE_9545 are exactly identical! WARNING: Sequences tr_F7GSX8_F7GSX8_MACMU_9544 and tr_A0A2R9ADN5_A0A2R9ADN5_PANPA_9597 are exactly identical! WARNING: Sequences tr_E5SUX9_E5SUX9_TRISP_6334 and tr_A0A0V0SC53_A0A0V0SC53_9BILA_6336 are exactly identical! WARNING: Sequences tr_E5SUX9_E5SUX9_TRISP_6334 and tr_A0A0V1CIG5_A0A0V1CIG5_TRIBR_45882 are exactly identical! WARNING: Sequences tr_E5SUX9_E5SUX9_TRISP_6334 and tr_A0A0V0V3X6_A0A0V0V3X6_9BILA_181606 are exactly identical! WARNING: Sequences tr_E5SUX9_E5SUX9_TRISP_6334 and tr_A0A0V1KY57_A0A0V1KY57_9BILA_6335 are exactly identical! WARNING: Sequences tr_E5SUX9_E5SUX9_TRISP_6334 and tr_A0A0V0ZGQ4_A0A0V0ZGQ4_9BILA_990121 are exactly identical! WARNING: Sequences tr_E5SUX9_E5SUX9_TRISP_6334 and tr_A0A0V1PD74_A0A0V1PD74_9BILA_92180 are exactly identical! WARNING: Sequences tr_E5SUX9_E5SUX9_TRISP_6334 and tr_A0A0V0TLG1_A0A0V0TLG1_9BILA_144512 are exactly identical! WARNING: Sequences tr_A0A212F7M4_A0A212F7M4_DANPL_278856 and tr_A0A194REU0_A0A194REU0_PAPMA_76193 are exactly identical! WARNING: Sequences tr_F4X196_F4X196_ACREC_103372 and tr_A0A195BCL8_A0A195BCL8_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A287B5N7_A0A287B5N7_PIG_9823 and tr_A0A2Y9NW73_A0A2Y9NW73_DELLE_9749 are exactly identical! WARNING: Sequences tr_A0A3Q0KE08_A0A3Q0KE08_SCHMA_6183 and tr_G4VN73_G4VN73_SCHMA_6183 are exactly identical! WARNING: Sequences tr_G7PZP8_G7PZP8_MACFA_9541 and tr_A0A2I3LFI5_A0A2I3LFI5_PAPAN_9555 are exactly identical! WARNING: Sequences tr_L5K201_L5K201_PTEAL_9402 and tr_A0A2U4CD10_A0A2U4CD10_TURTR_9739 are exactly identical! WARNING: Sequences tr_A0A087YF71_A0A087YF71_POEFO_48698 and tr_A0A2I4C3U5_A0A2I4C3U5_9TELE_52670 are exactly identical! WARNING: Sequences tr_A0A2I3MF02_A0A2I3MF02_PAPAN_9555 and tr_A0A2K6BJJ8_A0A2K6BJJ8_MACNE_9545 are exactly identical! WARNING: Sequences tr_A0A0D9RIN2_A0A0D9RIN2_CHLSB_60711 and tr_A0A2U3V2H6_A0A2U3V2H6_TURTR_9739 are exactly identical! WARNING: Sequences tr_A0A026WJC8_A0A026WJC8_OOCBI_2015173 and tr_A0A151I293_A0A151I293_9HYME_520822 are exactly identical! WARNING: Sequences tr_A0A093S272_A0A093S272_9PASS_328815 and tr_A0A087QRW2_A0A087QRW2_APTFO_9233 are exactly identical! WARNING: Sequences tr_A0A093S272_A0A093S272_9PASS_328815 and tr_A0A091WPN6_A0A091WPN6_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A093S272_A0A093S272_9PASS_328815 and tr_A0A091FUD2_A0A091FUD2_9AVES_55661 are exactly identical! WARNING: Sequences tr_A0A093S272_A0A093S272_9PASS_328815 and tr_A0A093FT31_A0A093FT31_DRYPU_118200 are exactly identical! WARNING: Sequences tr_A0A091VFJ2_A0A091VFJ2_NIPNI_128390 and tr_A0A093K2H1_A0A093K2H1_STRCA_441894 are exactly identical! WARNING: Sequences tr_A0A091VFJ2_A0A091VFJ2_NIPNI_128390 and tr_A0A0A0AM85_A0A0A0AM85_CHAVO_50402 are exactly identical! WARNING: Sequences tr_A0A093H8Y9_A0A093H8Y9_STRCA_441894 and tr_A0A091WDV8_A0A091WDV8_OPIHO_30419 are exactly identical! WARNING: Sequences tr_A0A093H8Y9_A0A093H8Y9_STRCA_441894 and tr_A0A099ZN99_A0A099ZN99_TINGU_94827 are exactly identical! WARNING: Sequences tr_A0A2I0M6M8_A0A2I0M6M8_COLLI_8932 and tr_A0A1V4JEE3_A0A1V4JEE3_PATFA_372326 are exactly identical! WARNING: Sequences tr_A0A151JR25_A0A151JR25_9HYME_471704 and tr_A0A195ES49_A0A195ES49_9HYME_34720 are exactly identical! WARNING: Sequences tr_A0A1S3KNT1_A0A1S3KNT1_SALSA_8030 and tr_A0A060W8G0_A0A060W8G0_ONCMY_8022 are exactly identical! WARNING: Sequences tr_A0A1S3KWY2_A0A1S3KWY2_SALSA_8030 and tr_A0A1S3QTZ7_A0A1S3QTZ7_SALSA_8030 are exactly identical! WARNING: Sequences tr_A0A1I7USX4_A0A1I7USX4_9PELO_1561998 and tr_A0A1I7USX5_A0A1I7USX5_9PELO_1561998 are exactly identical! WARNING: Sequences tr_A0A1V4JZL8_A0A1V4JZL8_PATFA_372326 and tr_A0A218UMT7_A0A218UMT7_9PASE_299123 are exactly identical! WARNING: Sequences tr_A0A226NDQ6_A0A226NDQ6_CALSU_9009 and tr_A0A226PRM1_A0A226PRM1_COLVI_9014 are exactly identical! WARNING: Sequences tr_A0A2D0S238_A0A2D0S238_ICTPU_7998 and tr_A0A2D0S243_A0A2D0S243_ICTPU_7998 are exactly identical! WARNING: Sequences tr_A0A2K5L4M2_A0A2K5L4M2_CERAT_9531 and tr_A0A2K6A6L6_A0A2K6A6L6_MANLE_9568 are exactly identical! WARNING: Sequences tr_A0A2Y9IY25_A0A2Y9IY25_ENHLU_391180 and tr_A0A2Y9EMC7_A0A2Y9EMC7_PHYCD_9755 are exactly identical! WARNING: Duplicate sequences found: 134 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/P07951/4_raxmlng_ancestral/P07951.raxml.reduced.phy Alignment comprises 1 partitions and 284 sites Partition 0: noname Model: LG4X+R4 Alignment sites: 284 Gaps: 17.03 % Invariant sites: 0.00 % NOTE: Binary MSA file created: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P07951/4_raxmlng_ancestral/P07951.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/P07951/3_mltree/P07951.raxml.bestTree_unrooted [00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 71 / 5680 [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: -85881.008002 [00:00:00 -85881.008002] Initial branch length optimization [00:00:01 -85114.324841] Model parameter optimization (eps = 0.100000) [00:00:25] Tree #1, final logLikelihood: -84934.460683 Optimized model parameters: Partition 0: noname Rate heterogeneity: FREE (4 cats, mean), weights&rates: (0.059044,0.096293) (0.006576,0.300127) (0.590439,0.708543) (0.343941,1.668860) 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/P07951/4_raxmlng_ancestral/P07951.raxml.ancestralProbs Reconstructed ancestral sequences saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P07951/4_raxmlng_ancestral/P07951.raxml.ancestralStates Node-labeled tree saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P07951/4_raxmlng_ancestral/P07951.raxml.ancestralTree Execution log saved to: /truba/home/emrah/WORKFOLDER/PROD/020621_run/phylogeny-snakemake/results/P07951/4_raxmlng_ancestral/P07951.raxml.log Analysis started: 03-Jun-2021 01:50:13 / finished: 03-Jun-2021 01:50:41 Elapsed time: 28.167 seconds Consumed energy: 1.922 Wh