|
CG
|
Fragment length (bp)
|
Gene coverage a
|
No. of lines b
|
No. of SNPs c(non-synonymous)
|
d
N
/d
S
|
No. of Indels
|
No. of haplotypes
|
Hd± SD
|
π± SD × 10-3(only exon)
|
Tajima's D
|
Intra-genic LD (r2)
|
|---|
|
ScCbf2
|
619
|
5'UTR/E
|
169
|
2 (0)
|
0.001
|
1
|
7
|
0.67 ± 0.02
|
1.5 ± 0.1 (1.4 ± 0.1)
|
1.17
|
0.13
|
|
ScCbf6
|
495
|
E
|
197
|
3 (0)
|
0.023
|
0
|
9
|
0.44 ± 0.04
|
3.6 ± 0.3
|
-0.35
|
0.77
|
|
ScCbf9b
|
1,371
|
5'UTR/E/3'UTR
|
183
|
30 (10)
|
0.174***
|
1
|
95
|
0.98 ± 0.03
|
7.1 ± 0.3 (11.5 ± 0.2)
|
1.71
|
0.14
|
|
ScCbf11
|
623
|
E
|
128
|
27 (12)
|
0.165
|
0
|
12
|
0.65 ± 0.02
|
14.5 ± 0. 9
|
1.74
|
0.51
|
|
ScCbf12
|
754
|
5'UTR/E/3'UTR
|
141
|
25 (8)
|
0.286***
|
1
|
48
|
0.89 ± 0.02
|
8.8 ± 1.0 (7.7 ± 0.1)
|
0.40
|
0.38
|
|
ScCbf14
|
560
|
E
|
185
|
5 (3)
|
0.606**
|
0
|
4
|
0.17 ± 0.04
|
1.5 ± 0.3
|
-0.27
|
0.92
|
|
ScCbf15
|
502
|
E
|
172
|
3 (3)
|
1.490***
|
1
|
9
|
0.68 ± 0.04
|
3.0 ± 0.2
|
2.14*
|
0.30
|
|
ScDhn1
|
435
|
5'UTR/E
|
138
|
4 (1)
|
0.128**
|
2
|
12
|
0.33 ± 0.05
|
2.7 ± 0.5 (4.4 ± 0.1)
|
-1.86*
|
0.48
|
|
ScDhn3
|
514
|
I/E/3'UTR
|
130
|
12 (2)
|
0.229***
|
2
|
21
|
0.73 ± 0.03
|
8.1 ± 0.6 (8.9 ± 0.1)
|
0.008
|
0.25
|
|
ScIce2
|
1,224
|
I/E
|
189
|
36d
|
n.a.
|
0
|
32
|
0.80 ± 0.02
|
11.2 ± 0.6 (0)
|
2.34*
|
0.36
|
|
ScVrn1
|
542
|
5'UTR/E
|
198
|
0
|
n.a.
|
1
|
2
|
0.11 ± 0.03
|
0.4 ± 0.1 (0)
|
-0.33
|
n.a.
|
|
Total
|
7,639
| | |
147 (39)
| |
9
|
251
| | | | |
- a E: exon; UTR: untranslated region; I: intron
- b Failure of amplification in some of the lines may be due to the presence of SNPs/Indels in the binding sites of the sequences and/or the absence of some of the Cbf genes in some particular lines.
- c Minor allele frequency (MAF) > 0.05
- d SNPs are silent since they were all located in the first intron of the gene.
- Significance levels: * P < 0.05, ** P < 0.01, *** P < 0.001
- n.a.: not available
