Fig. 4
Combined ML species tree with summary of conflicting and concordant SCOTags. The ML species-tree was constructed from 1526 concatenated rooted SCOTags. Outgroups are not shown. Node names are in bold. For each branch, the three values separated by a slash are the local posterior probability (LPP), the bootstrap support (BS) and the Internode Certainty All (ICA), respectively. The pie charts at each node present the fraction of SCOTags that supports that bipartition (blue), the fraction that supports the main alternative bipartition (green), the fraction that supports other alternative bipartitions (red) and the fraction with either less than 70% BS at this bipartition or that do not have this partition due to missing data (gray). On the right side of the pie charts, the top and bottom values indicate the numbers of SCOTags concordant, respectively in conflict, with the corresponding bipartition in the species-tree. Scatter plot on the left side compares values of BS, LPP and ICA at each node. Nodes are ranked from the most ancient (N1) to the most recent (N9) according to Fig. 3b. Stars indicate conflicting nodes with great fractions of alternative bipartitions