| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_16 | 1210606 | G | C | 13 | 55.77 | exon | Transversion | 0/1 | Pentatricopeptide repeat-containing protein At1g79080, chloroplastic |
| Scaffold_16 | 1308684 | T | A | 21 | 43.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1312501 | T | A | 18 | 77.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1312868 | G | C | 16 | 49.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1312869 | G | T | 17 | 40.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1318946 | T | G | 13 | 33.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1499543 | T | G | 16 | 40.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1599996 | T | G | 10 | 30.77 | intron | Transversion | 0/1 | 2-hydroxyisoflavanone dehydratase (EC 3.1.1.1) (EC 4.2.1.105) (Carboxylesterase HIDM) |
| Scaffold_16 | 1657033 | T | G | 14 | 58.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1915451 | G | T | 10 | 67.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1915548 | T | A | 13 | 58.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_16 | 1939359 | T | A | 17 | 34.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_17 | 142583 | G | T | 126 | 2243.77 | exon | Transversion | 0/1 | Protein SUPPRESSOR OF K(+) TRANSPORT GROWTH DEFECT 1 (AtSKD1) (EC 3.6.4.6) (Protein VACUOLAR PROTEIN SORTING 4) |
| Scaffold_17 | 142682 | G | C | 109 | 627.77 | exon | Transversion | 0/1 | Protein SUPPRESSOR OF K(+) TRANSPORT GROWTH DEFECT 1 (AtSKD1) (EC 3.6.4.6) (Protein VACUOLAR PROTEIN SORTING 4) |
| Scaffold_17 | 464338 | A | T | 10 | 30.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_17 | 563446 | A | T | 60 | 42.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_17 | 840923 | A | T | 13 | 36.77 | exon | Transversion | 0/1 | DEAD-box ATP-dependent RNA helicase 27 (EC 3.6.4.13) |
| Scaffold_17 | 986419 | A | T | 58 | 133.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_17 | 987577 | A | T | 31 | 49.74 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_17 | 987696 | T | A | 250 | 1977.77 | CDS | Transversion | 0/1 | Unannotated |