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Table 2 Equilibrium probabilities of gene family presence from phylogenetic and non-phylogenetic mixture models.

From: On the artefactual parasitic eubacteria clan in conditioned logdet phylogenies: heterotachy and ortholog identification artefacts as explanations

Database

Model

Ï€p

Ï€q

Ï€r

COG

Phylogenetic

0.08

0.87

0.87

COG

Non phylogenetic

0.02

0.16

0.69

OFAM

Non phylogenetic

1.19 × 10-9

4.67 × 10-3

0.21

TRIBES

Non phylogenetic

0.019

0.074

0.58

  1. πp (probability that a non-essential gene is present in a parasitic genome), πq (probability that a non-essential gene is present in a non-parasitic genome). πr is the probability of presence of essential gene families in both parasitic and non-parasitic genomes.