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Table 2 Comparison of alternatively parameterized models of evolution indicates significant departure from neutrality at an early stage of duplicate gene evolution.

From: Duplicate gene evolution and expression in the wake of vertebrate allopolyploidization

Comparison # bp -lnL Ho -lnL Ha P value Fixed Ka/Ks ratio in early lineage in null model Estimated Ka/Ks ratio in other lineages in null model Estimated Ka/Ks ratio in early lineage in alternative model Estimated Ka/Ks ratio in other lineages in alternative model
Fig. 1B 80856 -166032.2641 -165608.1273 0.0000 1 0.1322 0.158 0.1415
Fig. 1C 9717 -15716.3195 -15698.0601 0.0000 1 0.2261 0.1242 0.228
Fig. 1D 6966 -13235.97398 -13187.03582 0.0000 1 0.141 0.1052 0.1557
Fig. 1B (partitioned) 80856 -160755.0615 -160071.0687 0.0000 1 NL NL NL
Fig. 1C (partitioned) 9717 -15436.44329 -15413.5068 0.0000 1 NL NL NL
Fig. 1D (partitioned) 6966 -13077.6404 -13016.5679 0.0000 1 NL NL NL
  1. Likelihoods of a null model with the Ka/Ks ratio fixed at one at an early stage of duplicate gene evolution and an alternative model with this ratio estimated are indicated. Species acronyms are the same as in Fig. 1 and abbreviations are the same as in Table 1.