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Partial taxon coverage among loci can limit phylogenomic inference by making it impossible to distinguish among multiple alternative trees.
GAMT is a method for searching for the ML tree based on the genetic algorithm (GA), outputting the best tree as well as multiple alternative trees each of which has a likelihood value close to the best one.
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The optimization of sociality is ambiguous on over 99% of the alternative trees examined, however, the multiple loss of sociality within Cetacea seems more likely in general, given that relatives of whales are social.
when multiple alternative generation was included.
A candidate pattern may have multiple alternative isomorphic representations.
Multiple alternative theories were advanced.
The three alternative trees and the ML tree were subjected to AU test.
The alternative trees represented the 2nd and 3rd best ML alternatives according to PROTML, an alternative tree based on housekeeping genes [21], the MP and NJ aa tree and the mtg tree [9].
We offer multiple alternative explanations, which are not mutually exclusive.
For LocTree2, many alternative trees were tested.
We also tried multiple alternative analytical approaches.
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