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8 May 2014: 2002) Estimat-. ing mutation parameters, population history and genealogy. simultaneously from temporally spaced sequence data.

2 Jan 2013: Maximum likelihood genealogy of the D. melanogaster mtDNA in the DGRP and DPGP strains. ... incongruent genealogies, even if horizontal or paternal transmis-. sion was taking place solely within populations.

4 Feb 2011: yakuba. All trees are drawn to the same scale. Theshallow within-species genealogy associated with recent selective sweeps in AGO2 is clear in both species.

3 Nov 2006: symbionts it harbours. This can result in a mitochondrial. genealogy with deep internal branches and short terminal.

22 Apr 2021: Genes are organized according to Type, as defined from their genealogy(fig.

18 Nov 2015: rooted genealogy(Cummings, Neel, and Shaw 2008), for each of our host associa-tion categories.

12 Apr 2011: We simulated 1000 coalescent genealogies ofa neutrally evolving equilibrium population under the es-timated recombination rate, none of which showed linkagedisequilibrium at the second intron that was as high as weobserved

16 Nov 2012: Chromosome. Pat. ters. on’s. D-s. tatis. tic. Sitepattern. Gene genealogy 2. ... timareta and H. melpomene, equal numbers of ABBA and BABAsites are expected under a null hypothesis of no introgression22, as depicted inthe two gene genealogies.

3 Nov 2006: We also performed Fu andLi’s D and F tests with an outgroup (Fu and Li 1993) bycomparing the number of mutations on terminal andinternal branches of the genealogy.

18 Feb 2008: These sequencesare mostly protein coding but include small intergenicregions. We compared the tree topology for the twosequenced regions and found no significant conflictbetween genealogies using a one-tailed Shimodaira-Hasegawa ... ratio test (. P. >