Fig. 6.

The distribution, polymorphic indexes of poTs and CpContigs in 21 individuals from three Primulina populations. poTs, short for paired & overlap tags, is a contig assembled from Tag1s (clustered from read1 of RAD-Seq) at forward and reverse directions of the same restriction enzyme site (RE) and their paired Tag2s (assembled from read2 of RAD-Seq). CpContigs are longer contigs further assembled from all kinds of RAD tags, including poTs. a, b The distribution of cp fragments (poTs) and CpContigs. The circle (a) showed the gene annotation of WHY01 (Primulina eburnea). Genes shown inside and outside of the circle are transcribed clockwise and counterclockwise, respectively, and their gene names are marked as black and red, respectively. Genes belonging to different groups are marked with different color, with the bar shown in the center. The outside and inside of circle (b) showed the distribution of cp fragments (poTs) and CpContigs, respectively. And brown line in the outside of this circle represented the position of REs. c, d The Bayesian / Maximum Likelihood phylogenetic tree and population genetic indexes based on concatenate sequences of poTs (c) and CpContigs (d). Posterior probabilities >0.5 in BI analysis and bootstrap values >50% in ML analysis are indicated on the left and right of slash respectively