Additional file 5.
– Network based on 230 U6 samples. All positions are scored against the RSRS  and are transitions, unless followed by a capital letter that marks the resulting transversion. Indels are scored with i or d, heteroplasmies follow the IUB code and reversal to ancestral state by an exclamation mark (!). The positions are colour coded according to their status: purple – non-coding; blue – non-synonymous; and black – synonymous. Variations in the C tracts were ignored (i.e., 16182C, 16193C, 309+2C, etc.). The box containing the sample ID is colour coded according to the publications which they are from (See the main text for the full reference), and below it their geographic origin is colour coded (See Additional file 7 for the specifics). The reticulation created by position 150 in U6a3’s clades is left unresolved.
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Pennarun et al. BMC Evolutionary Biology 2012 12:234 doi:10.1186/1471-2148-12-234