| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_644 | 9546 | A | G | 29 | 204.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_647 | 42509 | C | T | 35 | 513.77 | intron | Transition | 0/1 | Patatin-like protein 2 (AtPLP2) (EC 3.1.1.-) (Patatin-related phospholipase A IIalpha) (pPLAIIa) (Phospholipase A IIA) (AtPLAIIA) |
| Scaffold_651 | 68490 | A | G | 20 | 252.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_654 | 23903 | T | C | 12 | 52.77 | exon | Transition | 0/1 | Probable LRR receptor-like serine/threonine-protein kinase At3g47570 (EC 2.7.11.1) |
| Scaffold_654 | 49564 | A | G | 60 | 182.77 | CDS | Transition | 0/1 | Ubiquitin receptor RAD23d (AtRAD23d) (Putative DNA repair protein RAD23-4) (RAD23-like protein 4) (AtRAD23-4) |
| Scaffold_662 | 60039 | T | C | 10 | 56.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_663 | 63840 | T | C | 20 | 457.9 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_666 | 41783 | A | G | 244 | 263.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_666 | 41799 | C | T | 250 | 127.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_669 | 43774 | A | G | 208 | 2404.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_669 | 43789 | A | G | 248 | 3542.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_669 | 43834 | G | A | 190 | 3544.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_669 | 43837 | T | C | 176 | 395.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_669 | 43843 | A | G | 250 | 5857.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_669 | 45817 | A | G | 57 | 133.77 | CDS | Transition | 0/1 | 3-hydroxy-3-methylglutaryl-coenzyme A reductase 1 (HMG-CoA reductase 1) (EC 1.1.1.34) |
| Scaffold_669 | 45824 | T | C | 58 | 102.77 | CDS | Transition | 0/1 | 3-hydroxy-3-methylglutaryl-coenzyme A reductase 1 (HMG-CoA reductase 1) (EC 1.1.1.34) |
| Scaffold_670 | 24033 | T | C | 17 | 58.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_670 | 25939 | G | A | 13 | 68.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_673 | 4343 | T | C | 250 | 391.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_675 | 49408 | A | G | 18 | 239.77 | intron | Transition | 0/1 | Unannotated |