| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_491 | 21012 | C | G | 22 | 123.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_491 | 21013 | T | A | 13 | 135.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_498 | 5332 | A | T | 61 | 1891.77 | CDS | Transversion | 1/1 | Peroxisomal fatty acid beta-oxidation multifunctional protein MFP2 (AtMPF2) [Includes: Enoyl-CoA hydratase/3-2-trans-enoyl-CoA isomerase/3-hydroxybutyryl-CoA epimerase (EC 4.2.1.17) (EC 5.1.2.3) (EC 5.3.3.8); 3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35)] |
| Scaffold_501 | 53062 | G | C | 40 | 672.77 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_501 | 54021 | T | G | 21 | 67.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_505 | 40850 | G | T | 33 | 188.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_505 | 40855 | G | C | 29 | 185.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_508 | 20387 | C | G | 55 | 1774.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_508 | 66976 | T | A | 43 | 51.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_513 | 21291 | T | A | 49 | 1743.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_513 | 72254 | A | C | 11 | 49.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_514 | 5469 | T | A | 10 | 124.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_520 | 61364 | G | T | 13 | 450.77 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_523 | 49195 | G | T | 250 | 8536.77 | CDS | Transversion | 1/1 | Calnexin homolog |
| Scaffold_523 | 49330 | C | A | 188 | 695.77 | CDS | Transversion | 0/1 | Calnexin homolog |
| Scaffold_523 | 49363 | A | C | 171 | 291.77 | CDS | Transversion | 0/1 | Calnexin homolog |
| Scaffold_524 | 24247 | G | C | 10 | 264.78 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_525 | 64292 | C | G | 10 | 168.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_526 | 6444 | C | G | 145 | 4535.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_534 | 59833 | C | G | 76 | 2457.77 | CDS | Transversion | 1/1 | WEB family protein At5g16730, chloroplastic |