We're certainly out of my realm of expertise here, but a "quick read" suggests that 16S RNA is only used for classifying bacteria?

My limited understanding is that mtDNA is generally used to classify higher organisms and that it not only gives enough information to build a tree, but allows for an estimate of how long ago two organisms diverged. So if you compared a human to a rattlesnake it would be obvious that they had no recent common ancestor.

I could also be completely wrong again...
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What goes up must come down...unless it exceeds escape velocity.

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