Q. A method of sequence alignment based on a Model (Bishop and Thompson 1986) was introduced that predicts the manner in which DNA sequences change during evolution. Which of the following is wrong about it?

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Q. Phylogenetic analysis of a set of sequences that aligns ______ is straightforward because the positions that correspond in the sequences can be readily identified in a ______ of the sequences.

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Q. For sequences that have ________ a phylogenetic analysis is __________

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Q. The choice of a suitable multiple sequence alignment method depends on the degree of variation among the sequences.

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Q. In the bootstrap method, the data are resampled by _____ choosing _____ columns from the aligned sequences to produce, in effect, a new sequence alignment of the _____

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Q. In the bootstrap method, for branches in the predicted tree topology to be significant, the resampled data sets should frequently predict the same branches.

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Q. In the final steps of the bootstrap method, the _____ the decay value, the _______ significant the original branches.

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Q. A common recommendation is to use at least two of the methods—maximum parsimony, distance, or maximum likelihood, for the analysis.

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Q. The traditional use of phylogenetic analysis is to discover evolutionary relationships among species.

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Q. Two more recent uses of phylogenetic analysis are to analyze ______ and to trace the evolutionary history of specific genes. Which of the following could not be the correct blank?

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Q. Tracking the evolutionary history of individual genes in a group of species can reveal which genes have remained in a genome for a long time and which genes have been horizontally transferred between species.

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