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Table 12 Results of the programs on 500 simulated nucleotide alignments

From: PQ, a new program for phylogeny reconstruction

Value

PQ

ME

ML

MP

QP

<D>

0.259

0.248

0.218

0.150

0.277

r DL

− 0.12

− 0.15

− 0.31

− 0.22

− 0.15

Perfect

20

28

51

86

10

Good

177

204

253

362

146

Bad

95

85

79

17

108

PQ is better

NA

118

153

58

154

PQ is worse

NA

165

245

341

76

P-value

NA

0.006

4·10−6

7·10−50

3·10−7

  1. “Good” are numbers of inferred trees whose distance from the corresponding reference trees is less than 0.1667. “Bad” are numbers of inferred trees whose distance from the corresponding reference tree is greater than 0.3333. Other notations are the same as in Tables 9 and 11
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BMC Bioinformatics

ISSN: 1471-2105

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