Table 2

Site-by-site detection of positive selection (PAML and HyPhy)

AGAP005194

AGAP005195

AGAP005196


Site model

ωa

p (ω)b

lnL

χ2

p

ωa

p (ω)b

lnL

χ2

p

ωa

p (ω)b

lnL

χ2

p


M1a (nearly neutral)

1.00

0.32

-1732.78

34.97

1 × 10-6

1.00

0.26

-1810.86

69.72

0.00

1.00

0.27

-1319.28

4.04

0.14

M2a (selection)

5.42

0.04

-1715.29

9.23

0.04

-1776.00

3.91

0.03

-1317.26


M7 (beta)

1.00

0.10

-1732.88

35.11

1 × 10-6

1.00

0.10

-1811.09

70.12

0.00

1.00

0.10

-1319.60

4.76

0.09

M8 (beta & ω)

5.22

0.05

-1715.32

9.12

0.04

-1776.03

3.55

0.05

-1317.22


Sites with dN/dS> 1

5c, 42, 43d, 48, 74, 121d, 161d

37e, 51, 93, 141, 157, 186, 199, 201

8d, 16d, 18d, 37d, 39d, 59d, 67d, 81d, 82d, 94d, 109d, 113d, 124d


a Estimate of the highest ω value for any codon, b Proportion of codons with the highest ω value

Residues identified by FELc , RELd, and BEB from M2e only; residues identified by all analyses (PAML and HyPhy) are in bold

Mancini et al. BMC Evolutionary Biology 2011 11:72   doi:10.1186/1471-2148-11-72

Open Data