|
SNP type
|
Allele
|
Number of SNPs
|
Percentage
|
|---|
|
Transition
|
A/G
|
11757
|
32.29%
|
| |
G/C
|
12703
|
34.89%
|
|
Transversion
|
A/C
|
2814
|
7.73%
|
| |
A/T
|
3898
|
10.71%
|
| |
T/G
|
2814
|
7.73%
|
| |
G/C
|
2313
|
6.35%
|
|
Tri-nucleotide
| |
112
|
0.31%
|
|
Total
| |
36411
|
100.00%
|
|
Synonymous (a)
| |
17622
|
36.52%
|
|
Non-synonymous (b)
| |
10140
|
21.02%
|
|
Coding (a)+(b)
| |
27762
|
57.54%
|
|
Non-coding
| |
20485
|
42.46%
|
|
Total
| |
48247
|
100.00%
|
- Peptides were predicted by FrameDP, which often produces multiple peptide for a single unigene elements. Because location of SNP sites (coding/non-coding) were estimated for each predicted peptide, the sum of coding and non-coding SNPs exceeded the total number (36,411) of SNPs. Tri-nucleotides are polymorphic sites with three alleles.
