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Numbers below each partition name represent optimal treelength for clade in left-most column; column "WO" indicates optimal treelength without that clade; column "BS" indicates branch support for that clade from partition (i.e., partition WO - partition).

▪ Full lines indicate branch lengths.

Figure 1 shows a tree indicating branch points marked by the different chlamydiae group-specific proteins.

Nevertheless, they differed in relative branch lengths indicating branch specific rates of evolutionary change of the TLR2 protein sequence.

The topologies of the NJ, ML and Bayesian trees were almost identical; therefore, we present a phylogenetic tree with ML bootstrap (BS) values and Bayesian PP indicating branch support (Fig. 3A).

However, the topologies of the ML, unpartitioned Bayesian and partitioned Bayesian trees were congruent, therefore we present the optimal ML tree (-ln L = 14501.43296) with ML bootstrap (BS) values and unpartitioned Bayesian posterior probabilities (PP) indicating branch support.

Round brackets '(' and ')' indicating branches.

Red lines indicate branches with losses; green lines indicate branches with gains.

Arrows indicate branches being pruned while arrowheads point to growing branches.

Grey circles indicate branches where acquisition events are predicted to have taken place.

Asterisks indicate branches retained in the strict consensus of 243470 trees.