| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_2526 | 110856 | G | A | 21 | 351.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2526 | 110862 | C | T | 21 | 350.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2526 | 111821 | G | A | 76 | 56.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2526 | 111875 | T | C | 72 | 197.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2528 | 44190 | G | A | 20 | 115.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2529 | 43239 | A | G | 42 | 268.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2530 | 71844 | C | T | 16 | 173.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2530 | 71857 | C | T | 20 | 39.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2531 | 39122 | T | C | 10 | 145.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2531 | 48729 | T | C | 101 | 749.77 | exon | Transition | 0/1 | Uncharacterized acetyltransferase At3g50280 (EC 2.3.1.-) |
| Scaffold_2533 | 46961 | C | T | 22 | 42.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2533 | 47021 | T | C | 17 | 321.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2533 | 47038 | T | C | 13 | 88.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2534 | 63359 | G | A | 19 | 48.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2534 | 63394 | C | T | 12 | 235.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2535 | 13639 | A | G | 16 | 37.77 | noncoding | Transition | 0/1 | Short-chain dehydrogenase TIC 32, chloroplastic (EC 1.1.1.-) (Translocon at the inner envelope membrane of chloroplasts 32) (PsTIC32) |
| Scaffold_2535 | 107423 | G | C,T | 28 | 896.77 | exon | Transition | 1/2 | Unannotated |
| Scaffold_2535 | 110637 | T | C | 245 | 1796.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2536 | 58189 | A | G | 14 | 36.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2536 | 58194 | G | A | 14 | 190.77 | noncoding | Transition | 0/1 | Unannotated |