CRP groupsa
|
Group
|
LRT M1:M2
|
P
b
|
LRT M7:M8
|
P
b
|
Estimates for M8c
|
M8 BEB sitesd
|
FUBAR positivee
|
FUBAR positive partitionsf
|
FUBAR negativee
|
FUBAR negative partitionsf
|
GARD break pointsg
|
---|
CRP0260
|
S125
|
12.03
|
0.03
|
12.08
|
0.04
|
ω = 4.92
|
p1 = 0.2
|
5
|
4
|
3
|
2
|
2
|
0 (3)
|
CRP0340
|
S43
|
44.01
|
0.01
|
24.85
|
0.01
|
ω = 5.42
|
p1 = 0.22
|
8
|
6
|
6
|
3
|
3
|
0 (1)
|
CRP0360
|
S81
|
16.99
|
0.01
|
19.27
|
0.01
|
ω = 5.66
|
p1 = 0.16
|
3
|
2
|
3
|
3
|
2
|
0 (2)
|
CRP0360
|
S87
|
38.60
|
0.01
|
44.39
|
0.01
|
ω = 5.25
|
p1 = 0.28
|
14
|
4
|
6
|
2
|
2
|
0 (2)
|
CRP0560
|
S14
|
22.32
|
0.01
|
10.52
|
0.05
|
ω = 3.25
|
p1 = 0.53
|
7
|
3
|
3
|
2
|
2
|
0 (4)
|
CRP0580
|
S65
|
7.64
|
0.03
|
9.57
|
0.06
|
ω = 3.66
|
p1 = 0.08
|
2
|
2
|
N.A.
|
3
|
N.A.
|
N.E.
|
CRP0830
|
S63
|
9.30
|
0.10
|
9.52
|
0.06
|
ω = 9.65
|
p1 = 0.04
|
3
|
7
|
8
|
3
|
4
|
0 (2)
|
CRP1110
|
S68
|
16.57
|
0.01
|
16.68
|
0.01
|
ω = 5.45
|
p1 = 0.16
|
7
|
5
|
5
|
2
|
4
|
0 (1)
|
-
aCysteine Rich Peptide groups (CRPs) of defensin and defensin-like genes (DEFLs) as defined for A. thaliana in [29]
-
b
P-values are corrected for multiple comparisons with the Benjamini-Hochberg procedure employing a False Discovery Rate of 0.10. Values in bold represent significant tests in which ω is inferred to be >1.0
-
cω is dN:dS estimated under M8; p1 is the inferred proportion of positively selected sites. Positions under positive selection are provided in Additional file 13: Data 8
-
dNumber of codon position under positive selection with M8 inferred with Bayes Empirical Bayes analysis with P > 0.9
-
eAccording to the FUBAR procedure this is the number of codon positions under positive or negative selection with P > 0.9
-
fResults obtained with FUBAR analysis based on the partitions of all breakpoints detected with GARD regardless of their statistical significance
-
gNumber of breakpoints with significant phylogenetic topological incongruence at p ≤ 0.1, between parentheses is the total number of breakpoints detected. N.E. means no evidence for recombination was detected. For such groups a second FUBAR analysis was not performed (N.A.)