I can't copy the tree so go back and look at it again.
The marsupials cluster together; the placentals cluster together. The placental wolf and marsupial thylacine show less genetic similarities to eachother than to the other members of their own suborder. The marsupial durrant and placental mouse are as genetically far apart as any pair in that sample despite some external similarities.
I think a reasonable way of showing this when you can't post the tree is to sort the alignments score in descending order. In this example you can clearly see the three groupings - the marsupials with each other, the placentals with other and finally the marsupial and placental combinations at the bottom (exactly as everybody but randman would predict
)
Sequences (2:5) Aligned. Score: 92 (Dunnart:Thylacine)
Sequences (1:5) Aligned. Score: 87 (Wombat:Thylacine)
Sequences (1:2) Aligned. Score: 87 (Wombat: Dunnart)
unnart isn't a good thing to have in the text!
Sequences (4:6) Aligned. Score: 87 (Woodchuck:Wolf)
Sequences (3:6) Aligned. Score: 86 (Mouse:Wolf)
Sequences (3:4) Aligned. Score: 84 (Mouse:Woodchuck)
Sequences (2:4) Aligned. Score: 81 (Dunnart:Woodchuck)
Sequences (2:6) Aligned. Score: 81 (Dunnart:Wolf)
Sequences (1:6) Aligned. Score: 80 (Wombat:Wolf)
Sequences (5:6) Aligned. Score: 80 (Thylacine:Wolf)
Sequences (2:3) Aligned. Score: 80 (Dunnart:Mouse)
Sequences (4:5) Aligned. Score: 80 (Woodchuck:Thylacine)
Sequences (1:3) Aligned. Score: 80 (Wombat:Mouse)
Sequences (3:5) Aligned. Score: 79 (Mouse:Thylacine)
Sequences (1:4) Aligned. Score: 79 (Wombat:Woodchuck)
Oops! Wrong Planet