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Table 2 Comparison of the best ML unconstrained trees with the constrained best ML trees of both mitochondrial and nuclear phylogenies

From: Comprehensive phylogenetic analysis of all species of swordtails and platies (Pisces: Genus Xiphophorus) uncovers a hybrid origin of a swordtail fish, Xiphophorus monticolus, and demonstrates that the sexually selected sword originated in the ancestral lineage of the genus, but was lost again secondarily

Mitochondrial DNA AU (SE) SH (SE) Nuclear DNA AU (SE) SH (SE)
Unconstraint best ML tree (Figure 2a) 0.992 (0.001) 0.989 (0.001) Unconstraint best ML tree (Figure 2b) 1 (0) 1(0)
Constraint best ML tree (X. monticolus with X. mixei) 0.010 (0.002) 0.022 (0.001) Constraint best ML tree (X. monticolus with platies) 7.00E-005(0) 1.00E-04(0)
Constraint best ML tree (X. monticolus with X. mixei and X. clemenciae) 0.001 (0) 0.001 (0) Constraint best ML tree (X. monticolus with platies except X. maculatus) 2.00E-058(0) 0(0)
  1. P-values were estimated by AU [Approximately Unbiased] and SH [Shimodaira-Hasegawa] tests implemented in CONSEL [72] (SE: standard error).