Table 5. Similarity of the trees from each coding treatment.

	Discrete only (D)	Discrete + continuous (DC)	Discrete + GM (DM)	Discrete + continuous + GM (DCM)
Discrete only (D)		27 taxa (62.8%) 39 trees	33 taxa (76.7%) 18 trees	26 taxa (60.5%) 27 trees
Discrete + continuous (DC)	13 moves (Similarity: 0.675)		24 taxa (55.8%) 36 trees	38 taxa (88.4%) 9 trees
Discrete + GM (DM)	6 moves (Similarity: 0.850)	11 moves (Similarity: 0.725)		26 taxa (60.5%) 6 trees
Discrete + continuous + GM (DCM)	12 moves (Similarity: 0.700)	3 moves (Similarity: 0.925)	12 moves (Similarity: 0.700)

Note:

Trees are compared using number of taxa retained in their maximum agreement subtree (green), and the number of moves under SPR swapping to move from one tree to the other (blue). The pair of most similar trees are highlighted and emboldened in both comparison techniques. Multiple maximum agreement subtrees are frequently produced where several OTUs are in conflict with each other and when any combination of their pruning results in the same final subtree; the number of trees produced is also included in the table.