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Reconstructing large regions of an ancestral mammalian genome in silico

Mathieu Blanchette^1,4^,5,
Eric D. Green²,
Webb Miller³ and
David Haussler^1,5

Figure 4.
Example of reconstruction of an ancestral Boreoeutherian sequence based
on actual orthologous sequences derived from a MER20 retrotransposon.
Arrows indicate positions where the reconstructed ancestor differs from
the MER20 consensus. Longer arrows indicate the positions where the
knowledge of the MER20 consensus sequence would have changed the
ancestral base prediction. The position of the human sequence displayed
is chr7:115,739,755-115,739,899 (NCBI build 34). The alignment of the
flanking nonrepetitive DNA (data not shown) verifies that the sequences
from the different species are, in fact,orthologous. The tree and
branches are derived directly from Eizirik et al.(2001).

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