PROCOV report

protein model: JTT
input sequences: EF1karen.fas-gb361PHYML.phy
input tree: EF1karen.fas-gb361PHYML.tree.retree
input option file: ../OLDversion/Options/general.opt

38 species, 361 sites

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Input number of gamma categories: 4
Initial gamma shape parameter: 1.0000	Estimated Gamma shape parameter: 0.8861
Initial covarion1: 1.0000	Estimated covarion1 parameter: 0.4036
Initial covarion2 parameter: 1.0000	Estimated covarion2 parameter: 0.3512
Initial covarion3 parameter: 1.0000	Estimated covarion3 parameter: 1.0295
Initial proportion of covarions: 0.5000	Estimated proportion of covarions: 0.8594


maximum log likelihood: -9474.7899338352

((((((((((((((E_Nictab:0.01607,E_Aratha:0.02143):0.15833,(E_Crypar:0.15849,E_Plakno:0.20116):0.12347):0.01853,E_Phycap:0.16914):0.01243,(E_Stylem:0.19235,(E_Trybru:0.14867,E_Euggra:0.09564):0.02004):0.03721):0.02661,(E_Cyapar:0.11876,((E_Podans:0.07643,E_Schpom:0.09107):0.04158,(E_Homsap:0.06775,E_Caeele:0.1572):0.03276):0.0393):0.03077):0.02714,(E_Dicdis:0.1308,E_Phypol:0.06769):0.05897):0.0166,(E_Masbal:0.19651,E_Porpur:0.1873):0.02174):0.0366,((((E_Strstrc:0.01585,E_Strstra:0.04747):0.02243,E_Strstrb:0.03089):0.08122,(E_OxyA:0.06643,E_Dinexi:0.02855):0.06644):0.12265,((E_Tetrosb:0.0,(E_Tetrosa:0.0,E_Acrros:0.0):0.0):0.24626,(E_Blahom:0.22836,((E_Eupcra:0.27033,E_Tetpyr:0.12417):0.03477,E_Enthis:0.2009):0.03768):0.02728):0.01448):0.01199):0.09202,(E_Naegru:0.03242,E_Naeand:0.04794):0.17733):0.0362,(E_Trivag:0.26480,E_Monbre:2.04402):0.0675):0.29955,E_Gialam:0.13402):0.05039,E_Spibar:0.0641):0.04708,E_Spivor:0.168):0.03844,(E_Hexinf:0.12513,E_Treagi:0.05577):0.03844);

(running time : 30 minutes, 8 seconds)