Table 2

The p-values of the approximately unbiased test and weighted or unweighted Kishino-Hasegawa and Shimodaira-Hasegawa tests are provided as well as the bootstrap and Bayesian posterior probabilities of the selected topology.

Test

rank

item

obs

au

np

bp

pp

kh

sh

wkh

wsh


A.

1

A1

-119.3

1.000

1.000

1.000

1.000

1.000

1.000

1.000

1.000

2

A3

119.3

<0.001

<0.001

0

<0.0001

0

0

0

0

3

A2

121.3

<0.001

<0.001

0

<0.0001

0

0

0

0


B.

1

B1

-5.0

0.902

0.882

0.883

0.993

0.876

0.926

0.876

0.974

2

B3

5

0.01

0.01

0.117

0.007

0.124

0.501

0.124

0.237

3

B2

178.4

<0.001

<0.001

0

<0.001

0

0

0

0


C.

1

C1

-554.2

1.000

1.000

1.000

1.000

1.000

1.000

1.000

1.000

2

C2

554.2

<0.001

<0.001

0

<0.001

0

0

0

0


D.

1

D2

-291.8

1.000

1.000

1.000

1.000

1.000

1.000

1.000

1.000

2

D1

291.8

<0.001

<0.001

0

<0.001

0

0

0

0


Tested alternative topologies are shown in Figure 2. Obs = observed log-likelihood difference to the best topology; au = approximately unbiased; np = bootstrap probability of the topology (i.e., the probability that the given topology has the largest likelihood in 10 scaled sets of 10,000 bootstrap replicates); bp = np with 10 non-scaled sets of 10,000 bootstrap replicates; pp = Bayesian posterior probabilities of the model; kh = Kishino-Hasegawa; sh = Shimodeira-Hasegawa; wkh = weighted KH; wsh = weighted SH.

Vilstrup et al. BMC Evolutionary Biology 2011 11:65   doi:10.1186/1471-2148-11-65

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