| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_12 | 817691 | C | A | 11 | 267.9 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 820721 | G | T | 98 | 1758.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 1223068 | T | G | 13 | 191.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 1411240 | T | G | 73 | 31.77 | intron | Transversion | 0/1 | Probable 1-deoxy-D-xylulose-5-phosphate synthase, chloroplastic (1-deoxyxylulose-5-phosphate synthase) (DXP synthase) (DXPS) (EC 2.2.1.7) (CapTKT2) |
| Scaffold_12 | 1412628 | G | T | 15 | 114.77 | intron | Transversion | 0/1 | Probable 1-deoxy-D-xylulose-5-phosphate synthase, chloroplastic (1-deoxyxylulose-5-phosphate synthase) (DXP synthase) (DXPS) (EC 2.2.1.7) (CapTKT2) |
| Scaffold_12 | 1772147 | T | G | 203 | 1846.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2143913 | T | G | 20 | 508.84 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2628401 | C | A | 14 | 38.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2628563 | C | A | 250 | 1931.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2628605 | A | C | 250 | 3775.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2628635 | A | T | 249 | 4497.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2628936 | T | A | 75 | 1360.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2628981 | A | T | 250 | 4882.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2629077 | C | A | 250 | 1833.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2630037 | A | T | 21 | 118.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2632623 | T | A | 250 | 1166.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2633146 | C | G | 250 | 5416.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2633302 | T | A | 250 | 1198.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2633326 | A | C | 248 | 4748.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_12 | 2870984 | C | G | 34 | 229.77 | CDS | Transversion | 0/1 | Unannotated |