| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3589 | 18724 | T | G | 18 | 443.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3595 | 12332 | G | T | 17 | 467.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3595 | 51883 | A | C | 250 | 9038.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3597 | 2732 | C | A | 110 | 3938.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3601 | 66444 | T | A | 250 | 781.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3601 | 66445 | C | A | 250 | 2851.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3602 | 17713 | C | A | 38 | 1237.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3602 | 17714 | T | G | 12 | 332.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3602 | 19337 | T | G | 19 | 562.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_3602 | 41628 | T | G | 96 | 1717.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3602 | 41629 | G | T | 96 | 108.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3602 | 41813 | G | T | 10 | 311.78 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_3603 | 15985 | G | T | 101 | 3792.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3603 | 15988 | A | C | 236 | 4076.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3605 | 9355 | A | C | 250 | 202.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_3605 | 9462 | T | A | 46 | 1582.77 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_3611 | 1918 | C | G | 250 | 9226.77 | exon | Transversion | 1/1 | ATP synthase subunit alpha, chloroplastic (EC 3.6.3.14) (ATP synthase F1 sector subunit alpha) (F-ATPase subunit alpha) |
| Scaffold_3611 | 2480 | G | C | 249 | 9198.77 | CDS | Transversion | 1/1 | ATP synthase subunit alpha, chloroplastic (EC 3.6.3.14) (ATP synthase F1 sector subunit alpha) (F-ATPase subunit alpha) |
| Scaffold_3611 | 2567 | T | A | 250 | 8799.77 | intron | Transversion | 1/1 | ATP synthase subunit alpha, chloroplastic (EC 3.6.3.14) (ATP synthase F1 sector subunit alpha) (F-ATPase subunit alpha) |
| Scaffold_3611 | 2652 | T | A | 250 | 8958.77 | intron | Transversion | 1/1 | ATP synthase subunit alpha, chloroplastic (EC 3.6.3.14) (ATP synthase F1 sector subunit alpha) (F-ATPase subunit alpha) |