| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_182 | 94556 | G | A | 34 | 474.77 | noncoding | Transition | 1/1 | Unannotated |
| Scaffold_185 | 15701 | T | C | 134 | 231.77 | intron | Transition | 0/1 | ATP synthase subunit beta, chloroplastic (EC 7.1.2.2) (ATP synthase F1 sector subunit beta) (F-ATPase subunit beta) |
| Scaffold_188 | 16716 | G | A | 74 | 36.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_188 | 17120 | A | G | 58 | 1550.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_188 | 17121 | C | T | 64 | 1759.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_188 | 68382 | T | C | 22 | 30.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_192 | 35876 | A | G | 18 | 46.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_192 | 59362 | T | C | 10 | 33.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_197 | 39140 | A | G | 37 | 63.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_197 | 39472 | A | G | 28 | 53.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_198 | 76683 | A | G | 60 | 777.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_198 | 76694 | G | A | 41 | 51.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_205 | 52460 | C | T | 13 | 49.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_205 | 86679 | A | G | 15 | 33.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_206 | 31347 | T | C | 14 | 75.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_206 | 75685 | G | A | 12 | 33.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_208 | 29785 | C | T | 28 | 113.77 | exon | Transition | 0/1 | Disease resistance protein RPP13 (Resistance to Peronospora parasitica protein 13) |
| Scaffold_210 | 39359 | T | C | 31 | 84.77 | exon | Transition | 0/1 | Rab escort protein 1 (AthREP) |
| Scaffold_210 | 53708 | G | A | 20 | 63.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_211 | 35282 | G | A | 15 | 52.77 | CDS | Transition | 0/1 | Unannotated |