| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3480 | 40559 | G | A | 250 | 2331.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3480 | 40766 | C | T | 129 | 2033.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3481 | 28595 | G | A | 21 | 92.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3481 | 28658 | G | A | 23 | 218.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3481 | 28684 | C | T | 66 | 1056.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3487 | 17383 | A | G | 11 | 95.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3488 | 46292 | T | C | 21 | 34.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3489 | 4962 | G | A | 22 | 34.77 | exon | Transition | 0/1 | Serine carboxypeptidase-like 50 (EC 3.4.16.-) |
| Scaffold_3492 | 5068 | A | G | 69 | 141.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3492 | 5072 | A | G | 143 | 138.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3492 | 6262 | A | G | 250 | 157.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3498 | 21077 | T | C | 250 | 138.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3498 | 22249 | T | C | 65 | 166.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3503 | 27905 | C | T | 250 | 1473.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3503 | 27906 | A | G | 250 | 3592.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3504 | 2071 | A | G | 84 | 106.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3504 | 22728 | T | C | 16 | 71.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3505 | 37774 | G | A | 13 | 66.77 | exon | Transition | 0/1 | Retrovirus-related Pol polyprotein from transposon RE1 (Retro element 1) (AtRE1) [Includes: Protease RE1 (EC 3.4.23.-); Reverse transcriptase RE1 (EC 2.7.7.49); Endonuclease RE1] |
| Scaffold_3505 | 37846 | T | C | 12 | 64.77 | exon | Transition | 0/1 | Retrovirus-related Pol polyprotein from transposon RE1 (Retro element 1) (AtRE1) [Includes: Protease RE1 (EC 3.4.23.-); Reverse transcriptase RE1 (EC 2.7.7.49); Endonuclease RE1] |
| Scaffold_3506 | 14179 | G | A | 30 | 40.77 | CDS | Transition | 0/1 | Unannotated |