| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3859 | 40164 | G | T | 42 | 1468.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3860 | 17063 | C | G | 10 | 356.77 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_3862 | 43264 | G | T | 10 | 49.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3866 | 60092 | C | A | 250 | 790.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3866 | 60168 | C | A | 44 | 1403.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3871 | 33253 | C | A | 10 | 129.77 | noncoding | Transversion | 0/1 | Plastidial pyruvate kinase 4, chloroplastic (PKp4) (EC 2.7.1.40) |
| Scaffold_3872 | 29792 | A | T | 11 | 402.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3872 | 29793 | C | A | 241 | 1767.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3872 | 29794 | A | T | 250 | 3098.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3872 | 29795 | G | T | 250 | 3992.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3872 | 48138 | A | C | 249 | 427.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3873 | 47893 | T | A | 18 | 167.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3873 | 47919 | A | C | 14 | 226.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3873 | 48071 | T | A | 25 | 45.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3873 | 48123 | T | G | 11 | 175.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3873 | 49286 | T | A | 21 | 612.77 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_3877 | 40047 | T | A | 216 | 992.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_3878 | 32012 | G | T | 10 | 104.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3878 | 32278 | T | G | 39 | 54.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3883 | 40649 | G | T | 37 | 1339.77 | intron | Transversion | 1/1 | Unannotated |