| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_496 | 26467 | G | T | 38 | 583.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_501 | 53062 | G | C | 55 | 1177.77 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_505 | 40850 | G | T | 15 | 185.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_505 | 40855 | G | C | 16 | 185.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_512 | 47967 | G | C | 10 | 101.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_513 | 21400 | A | T | 15 | 69.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_523 | 28467 | G | T | 18 | 55.77 | exon | Transversion | 0/1 | Calcium-transporting ATPase 4, plasma membrane-type (EC 7.2.2.10) (Ca(2+)-ATPase isoform 4) |
| Scaffold_523 | 49330 | C | A | 237 | 492.77 | CDS | Transversion | 0/1 | Calnexin homolog |
| Scaffold_525 | 64292 | C | G | 15 | 353.28 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_526 | 6444 | C | G | 31 | 169.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_535 | 47115 | A | T | 15 | 86.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_537 | 6293 | C | G | 10 | 30.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_537 | 31834 | C | A | 34 | 133.77 | CDS | Transversion | 0/1 | Protein CHAPERONE-LIKE PROTEIN OF POR1, chloroplastic (AtCPP1) (Protein CELL GROWTH DEFECT FACTOR 1) (AtCDF1) |
| Scaffold_538 | 31494 | A | C | 19 | 46.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_538 | 62558 | G | C | 23 | 743.78 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_538 | 62559 | A | C | 40 | 479.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_541 | 2574 | T | G | 13 | 52.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_553 | 33456 | T | A | 17 | 484.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_564 | 52268 | T | G | 15 | 268.77 | exon | Transversion | 0/1 | Pectinesterase/pectinesterase inhibitor PPE8B [Includes: Pectinesterase inhibitor PPE8B (Pectin methylesterase inhibitor PPE8B); Pectinesterase PPE8B (PE PPE8B) (EC 3.1.1.11) (Pectin methylesterase PPE8B)] |
| Scaffold_566 | 937 | A | T | 22 | 31.77 | CDS | Transversion | 0/1 | Unannotated |