CHEM 2364 Lecture 11: Maximum parsimony example

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12 Nov 2017
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You have 4 species you are comparing based on a 3 base sequence (unrealistically small for the purpose of this example). Build a difference table showing the number of differences between the sequences. From row 1 species 1 looks closer to species 2 than it does to either 3 or 4. From row 2 species 2 looks equally close to 1 and 4 and further from species 3. Those 2 pieces of data suggest 1 and 2 are sister taxa. From row 3 species 3 looks closer to species 4 than it does to either 1 or 2. From row 4 species 4 look equally close to 2 and 3 and further from species 1. That suggests 3 and 4 are sister taxa. The ancestor of species 1 and 2 had the sequence aa(g/a) and the ancestor to species 3 and 4 had the sequence (a/g)ga. In these sequence the g/a or a/g indicate an uncertainty.

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