| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3681 | 15858 | A | T | 14 | 176.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3681 | 16753 | G | C | 17 | 560.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_3681 | 16765 | A | C | 27 | 34.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3681 | 16769 | C | A | 26 | 678.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_3681 | 19904 | G | T | 14 | 123.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_3683 | 32489 | A | C | 64 | 2303.77 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_3683 | 32490 | G | T | 78 | 2658.77 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_3691 | 51698 | C | A | 209 | 5806.77 | CDS | Transversion | 1/1 | Pyruvate kinase isozyme A, chloroplastic (EC 2.7.1.40) |
| Scaffold_3693 | 28885 | T | A | 18 | 40.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3693 | 48126 | T | A | 15 | 67.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_3694 | 4650 | T | G | 11 | 104.03 | noncoding | Transversion | 1/1 | Photosystem II CP47 reaction center protein (PSII 47 kDa protein) (Protein CP-47) |
| Scaffold_3695 | 49987 | C | G | 29 | 38.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3696 | 54550 | T | G | 20 | 652.81 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3697 | 43475 | G | T | 86 | 446.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3697 | 43476 | G | C | 119 | 309.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3707 | 10731 | T | A | 163 | 5945.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3707 | 10732 | T | G | 163 | 5945.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3708 | 21008 | C | G | 34 | 601.77 | intron | Transversion | 0/1 | Ferredoxin-dependent glutamate synthase, chloroplastic (EC 1.4.7.1) (Fd-GOGAT) (SoFdGOGAT) |
| Scaffold_3708 | 21779 | A | T | 33 | 826.77 | intron | Transversion | 0/1 | Ferredoxin-dependent glutamate synthase, chloroplastic (EC 1.4.7.1) (Fd-GOGAT) |
| Scaffold_3708 | 22862 | A | T | 13 | 297.77 | CDS | Transversion | 0/1 | Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Includes: Protease (EC 3.4.23.-); Reverse transcriptase (EC 2.7.7.49); Endonuclease] |