| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_2689 | 104567 | T | C | 30 | 86.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2689 | 105803 | C | T | 38 | 243.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2692 | 50217 | C | T | 21 | 173.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2692 | 50235 | G | A | 23 | 201.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2692 | 50516 | G | A | 39 | 48.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2692 | 116957 | T | C | 58 | 131.77 | intron | Transition | 0/1 | Peroxiredoxin Q, chloroplastic (EC 1.11.1.15) (Thioredoxin peroxidase) |
| Scaffold_2692 | 117430 | G | A | 58 | 438.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_2693 | 32001 | C | T | 218 | 747.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2693 | 32169 | A | G | 16 | 35.78 | exon | Transition | 0/1 | Endoglucanase 6 (EC 3.2.1.4) (Endo-1,4-beta glucanase 6) |
| Scaffold_2693 | 38766 | C | T | 250 | 318.77 | CDS | Transition | 0/1 | Endoglucanase 6 (EC 3.2.1.4) (Endo-1,4-beta glucanase 6) |
| Scaffold_2694 | 78611 | T | C | 11 | 84.77 | noncoding | Transition | 0/1 | Phosphoenolpyruvate carboxylase 4 (AtPPC4) (PEPC 4) (PEPCase 4) (EC 4.1.1.31) |
| Scaffold_2694 | 118187 | A | G | 11 | 41.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2694 | 134482 | C | T | 33 | 817.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2694 | 134742 | C | T | 97 | 97.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2694 | 134917 | A | G | 60 | 66.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2694 | 134998 | A | G | 79 | 157.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2694 | 136895 | C | T | 23 | 275.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2694 | 137020 | C | T | 52 | 135.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2695 | 105961 | A | G | 132 | 967.77 | exon | Transition | 0/1 | UDP-glycosyltransferase 73C2 (EC 2.4.1.-) |
| Scaffold_2695 | 106054 | T | C | 92 | 181.77 | exon | Transition | 0/1 | UDP-glycosyltransferase 73C2 (EC 2.4.1.-) |