| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3572 | 13890 | C | T | 97 | 1654.77 | noncoding | Transition | 0/1 | NADH-ubiquinone oxidoreductase chain 3 (EC 7.1.1.2) (NADH dehydrogenase subunit 3) |
| Scaffold_3572 | 13908 | C | T | 144 | 3069.77 | noncoding | Transition | 0/1 | NADH-ubiquinone oxidoreductase chain 3 (EC 7.1.1.2) (NADH dehydrogenase subunit 3) |
| Scaffold_3572 | 13996 | C | T | 67 | 83.77 | noncoding | Transition | 0/1 | NADH-ubiquinone oxidoreductase chain 3 (EC 7.1.1.2) (NADH dehydrogenase subunit 3) |
| Scaffold_3572 | 14036 | C | T | 40 | 32.77 | noncoding | Transition | 0/1 | NADH-ubiquinone oxidoreductase chain 3 (EC 7.1.1.2) (NADH dehydrogenase subunit 3) |
| Scaffold_3572 | 14145 | C | T | 117 | 230.77 | noncoding | Transition | 0/1 | NADH-ubiquinone oxidoreductase chain 3 (EC 7.1.1.2) (NADH dehydrogenase subunit 3) |
| Scaffold_3572 | 14172 | C | T | 93 | 513.77 | noncoding | Transition | 0/1 | NADH-ubiquinone oxidoreductase chain 3 (EC 7.1.1.2) (NADH dehydrogenase subunit 3) |
| Scaffold_3572 | 14177 | C | T | 88 | 77.77 | noncoding | Transition | 0/1 | NADH-ubiquinone oxidoreductase chain 3 (EC 7.1.1.2) (NADH dehydrogenase subunit 3) |
| Scaffold_3574 | 51306 | C | T | 184 | 6832.77 | CDS | Transition | 1/1 | Puromycin-sensitive aminopeptidase (PSA) (EC 3.4.11.14) (Cytosol alanyl aminopeptidase) (AAP-S) |
| Scaffold_3575 | 6910 | A | G | 17 | 46.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_3576 | 23849 | T | C | 26 | 349.77 | noncoding | Transition | 0/1 | ATP synthase subunit a, chloroplastic (ATP synthase F0 sector subunit a) (F-ATPase subunit IV) |
| Scaffold_3584 | 15190 | C | T | 250 | 9234.77 | noncoding | Transition | 1/1 | Unannotated |
| Scaffold_3584 | 15255 | A | G | 250 | 251.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3585 | 46388 | C | T | 69 | 2044.77 | noncoding | Transition | 1/1 | Unannotated |
| Scaffold_3585 | 46409 | C | T | 87 | 144.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3585 | 46444 | A | C,G | 68 | 2094.77 | noncoding | Transition | 1/2 | Unannotated |
| Scaffold_3585 | 46786 | T | C | 11 | 33.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3585 | 46804 | T | C | 14 | 72.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3585 | 46846 | A | G | 46 | 606.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3585 | 46939 | G | A | 86 | 766.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3587 | 31598 | C | T | 14 | 263.77 | intron | Transition | 0/1 | Uncharacterized tatC-like protein ymf16 (ORFX) |