Fig. 4

Results of several analyzes across the plastome sequences of Calypogeia sp. using the sliding window method. a- the plot of the mean Kimura 2-parameter distance matrix for each 500 bp- long window. The greatest one is at about 30, 000 bp position and the lowest one at the 90, 000 bp position. b- the proportion of zero non- conspecific distances, which find their maximum at around 90, 000 bp. c- the proportion of zero cells in the distance matrix. This is maximized around 90, 000 bp. The unbroken horizontal line crossing the y-axis at 0 is the proportion of zero cells in the distance matrix created from the full dataset. d- the proportion of clades that are identical between the windows and the full dataset. It is pretty high at most windows and visibly low at around 90, 000 bp position. e- the sum of diagnostic nucleotide positions for all species. The most of these nucleotides are at around 30, 000 bp position and the least at around 90, 000 bp position. f- the proportion of species that are monophyletic. The position around 90, 000 bp is clearly in the doldrums, but most positions distinguish species pretty well.