Table 3

Rejection rates of H0 for CADM comparing data sets simulated on partly similar trees and with identical evolutionary parameters (GTR+ Γ + I), M = 5.

CMP


n

L

2

3

4

5


10

1000

0.106

0.263

0.523

0.802

(0.087-0.125)

(0.236-0.290)

(0.492-0.554)

(0.777-0.827)

5000

0.105

0.300

0.586

0.866

(0.086-0.124)

(0.272-0.328)

(0.555-0.617)

(0.845-0.887)

10 000

0.113

0.311

0.608

0.872

(0.093-0.133)

(0.282-0.340)

(0.578-0.638)

(0.851-0.893)

20 000

0.122

0.314

0.615

0.875

(0.102-0.142)

(0.285-0.343)

(0.585-0.645)

(0.854-0.896)


25

1000

0.130

0.409

0.805

0.977

(0.109-0.151)

(0.378-0.440)

(0.780-0.830)

(0.968-0.986)

5000

0.158

0.495

0.893

0.993

(0.135-0.181)

(0.464-0.526)

(0.874-0.912)

(0.988-0.998)

10 000

0.151

0.508

0.902

0.997

(0.129-0.173)

(0.477-0.539)

(0.884-0.920)

(0.994-1.000)

20 000

0.153

0.514

0.907

0.996

(0.131-0.175)

(0.483-0.545)

(0.889-0.925)

(0.992-1.000)


50

1000

0.163

0.560

0.960

1.000

(0.140-0.186)

(0.529-0.591)

(0.948-0.972)

-

5000

0.206

0.701

0.991

1.000

(0.181-0.231)

(0.673-0.729)

(0.985-1.000)

-

10 000

0.218

0.730

0.996

1.000

(0.192-0.244)

(0.702-0.758)

(0.992-1.000)

-

20 000

0.229

0.748

0.997

1.000

(0.203-0.255)

(0.721-0.775)

(0.994-1.000)

-


100

1000

0.210*

0.730*

0.990*

1.000*

(0.129-0.291)

(0.641-0.819)

(0.970-1.000)

-

5000

0.260*

0.880*

1.000*

1.000*

(0.173-0.347)

(0.815-0.945)

-

-

10 000

0.270*

0.900*

1.000*

1.000*

(0.181-0.359)

(0.840-0.960)

-

-

20 000

0.310*

0.920*

1.000*

1.000*

(0.218-0.402)

(0.866-0.974)

-

-


A different number of partially congruent matrices (CMP) and a different number of incongruent matrices (IM) were included in each test, for a total of five distance matrices (M = 5). To generate CMP, nucleotide sequences were simulated on partly similar trees (with permutations of 40% of n). Rejection rates are given at a significance level of 0.05, with 95% confidence intervals in parentheses. Calculated from 1000 replicates, except for cells with * (100 replicates). Dashes (-) correspond to a CI of 1.000 - 1.000.

Campbell et al. BMC Evolutionary Biology 2011 11:64   doi:10.1186/1471-2148-11-64

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