The EPP analysis assigns a probability for each spotted cDNA sequence of being present (i.e. conserved), slightly divergent, or highly divergent in the non-reference species and therefore allows to statistically identify conserved and divergent genes based on their hybridization signal intensity ratios [ 44].
The analysis was performed using the "Trinary Output" option, which classifies genes as either being present (1), slightly divergent (0) or highly divergent (−1).
By performing simulations in EVOLVER, Castric and Vekemans [ 28] revealed that the power for the maximum likelihood analysis with CODEML is low when sequences were only slightly divergent or when sequence divergence reached saturation, and that it increases at intermediate levels of divergence.
Consistent with [ 27], our simulations showed that power was initially low when sequences were only slightly divergent (zero sites detected with sequence divergence <5 substitutions per codon), then increased at intermediate levels of divergence and then started to decrease again when sequence divergence reached saturation.
The consequences are loss of variation, divergence among populations due to isolation, genome reorganization and hybridisation of slightly divergent genomes [ 44, 45].
In some cases, however, the hits are found to be stretches of total conservation within otherwise somewhat divergent proteins, often having slightly variant functions and from rather more distant species.
Two groups with slightly divergent mitochondrial DNA sequences (separated by 1.3 to 1.4% sequence divergence) are distinguishable within the species, which probably correspond to different glacial refugia where M. alcathoe populations survived the last glacial period.
In another continuity, two slightly divergent versions of the same set-piece encounter are retailed.
Alder makes much of the fact that Méchain's calculations contained a "secret error" — a slightly divergent latitude reading, which Méchain suspected but covered up.
However, the structural changes necessary to bring this about seem to have lagged behind the function, and the geometrical axes of most eyes are still slightly divergent (i.e., the two eyes at rest are directed slightly away from the nose).
