| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_44 | 1505458 | A | G | 13 | 52.77 | exon | Transition | 0/1 | Pentatricopeptide repeat-containing protein At4g31850, chloroplastic (Protein PROTON GRADIENT REGULATION 3) |
| Scaffold_44 | 1563710 | T | C | 32 | 47.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_45 | 68981 | A | G | 23 | 62.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 277861 | T | C | 25 | 31.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_45 | 380778 | A | G | 22 | 145.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_45 | 380779 | T | C | 27 | 82.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_45 | 380785 | A | G | 48 | 436.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_45 | 386945 | A | G | 244 | 2611.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_45 | 387011 | G | A | 195 | 2287.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_45 | 387630 | T | C | 85 | 290.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 387737 | C | T | 249 | 116.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 387806 | A | G | 215 | 884.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 387897 | G | A | 140 | 722.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 388007 | T | C | 109 | 1524.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 388134 | A | G | 250 | 1775.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 388217 | G | A | 248 | 2186.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 388382 | T | C | 211 | 3150.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 388424 | A | G | 123 | 1193.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 388523 | C | T | 45 | 152.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_45 | 388538 | A | G | 39 | 145.77 | CDS | Transition | 0/1 | Unannotated |