| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3252 | 38984 | C | G | 16 | 30.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3253 | 41852 | A | C | 16 | 316.77 | exon | 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] |
| Scaffold_3253 | 41970 | C | A | 10 | 190.77 | exon | 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] |
| Scaffold_3264 | 16267 | G | T | 10 | 66.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3271 | 2205 | G | T | 155 | 5364.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3274 | 56753 | C | G | 80 | 77.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3274 | 56950 | A | T | 16 | 137.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3274 | 56968 | T | A | 22 | 270.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3276 | 42387 | A | C | 15 | 33.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3279 | 30597 | T | A | 24 | 39.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3280 | 15068 | T | A | 250 | 111.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3281 | 14615 | T | G | 10 | 58.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_3283 | 43471 | A | T | 39 | 60.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3288 | 6166 | A | T | 18 | 545.81 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3288 | 6295 | C | A | 250 | 239.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3289 | 36583 | G | T | 31 | 56.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_3297 | 37765 | C | A | 14 | 86.77 | exon | Transversion | 0/1 | Monothiol glutaredoxin-S2 (AtGrxS2) (Protein ROXY 10) |
| Scaffold_3299 | 27148 | A | C | 250 | 61.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3299 | 27288 | T | A | 250 | 67.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3299 | 27349 | A | C | 245 | 149.77 | noncoding | Transversion | 0/1 | Unannotated |