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Fig. S1 Density plots of exploratory runs (termed A, B, C, D, E) shown with plots of the consensus reference runs (termed Ref). All plots are based on data from Masai Mara. Exploratory runs are named as in Settings for MSVAR above. Panel a shows density plots for parameters N0 and N1, panel b shows density plots for parameter T.

Fig. S2 Density graphs showing parameter posterior densities of (a) N0, (b) N1 and (c) T from all individual populations and the combined East African population. Parameters are depicted as in Fig. 2. First axis is on logarithmic scale. Abbreviations correspond to those in Fig. 1: AMB, Amboseli; NAI, Nairobi; MM, Masai Mara; LAI, Laikipia; NAK, Nakuru; KV, Kidepo Valley; MF, Murchison Falls; LM, Lake Mburo; QE, Queen Elizabeth.

Fig. S3 Bayesian Skyline Plot (BSP) comparing the demographic history of the combined East African population with the two focal populations, Masai Mara and Queen Elizabeth. The thick lines show mean values and the correspondingly formatted thin lines show the lower and upper 95% HPDs.

Fig. S4 BSPs showing N through time for the remaining individual populations. Each panel shows the BSP of an individual population. Full lines show the inferred mean value of NE, dashed lines show the upper and lower 95% HPDs. Sampling localities are indicated in each panel.

Table S1 Overview of microsatellite loci and multiplex cores

Table S2 Hyperprior settings in the consensus chains (notation following Storz et al. 2002)

Table S3 Demographic parameter estimates under the constant size model and the boom-bust model for the two focal populations. Mean values in bold and 95% highest probability density interval in brackets

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FilenameFormatSizeDescription
MEC_3961_sm_MM.xml18KSupporting info item
MEC_3961_sm_QE.xml23KSupporting info item
MEC_3961_sm_Supporting.doc269KSupporting info item

Please note: Wiley Blackwell is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.