| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_1468 | 7418 | C | A | 12 | 301.41 | noncoding | Transversion | 0/1 | Histidinol dehydrogenase, chloroplastic (HDH) (EC 1.1.1.23) (Protein HISTIDINE BIOSYNTHESIS 8) |
| Scaffold_1472 | 46528 | G | T | 24 | 185.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1473 | 3410 | A | T | 23 | 236.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1473 | 3494 | G | T | 20 | 94.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1475 | 27412 | T | G | 39 | 648.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1475 | 27413 | A | T | 29 | 214.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1476 | 14111 | G | C | 13 | 40.77 | CDS | Transversion | 0/1 | Probable phosphoribosylformylglycinamidine synthase, chloroplastic/mitochondrial (FGAM synthase) (FGAMS) (EC 6.3.5.3) (Formylglycinamide ribonucleotide amidotransferase) (FGAR amidotransferase) (FGAR-AT) (Formylglycinamide ribotide amidotransferase) |
| Scaffold_1483 | 1257 | G | T | 10 | 252.84 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1484 | 43170 | C | A | 46 | 222.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1484 | 43182 | T | A | 11 | 44.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1496 | 45847 | C | G | 26 | 86.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_1498 | 48166 | C | A | 26 | 590.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_1501 | 16315 | C | A | 17 | 88.81 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1501 | 16317 | C | A | 17 | 82.81 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1503 | 46086 | G | C | 42 | 136.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_1505 | 21042 | C | G | 33 | 420.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1506 | 2558 | A | C | 15 | 30.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_1518 | 32318 | G | C | 10 | 155.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_1519 | 3194 | A | C | 12 | 114.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_1519 | 34472 | C | A | 10 | 149.77 | exon | Transversion | 0/1 | Unannotated |