| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3928 | 29956 | A | G | 25 | 197.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3929 | 48718 | A | G | 59 | 1580.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3929 | 48721 | G | A | 248 | 7771.77 | noncoding | Transition | 1/1 | Unannotated |
| Scaffold_3929 | 48723 | T | C | 250 | 174.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3929 | 48732 | T | C | 250 | 216.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3931 | 1753 | A | G | 15 | 330.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3931 | 1754 | C | T | 15 | 327.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3931 | 1855 | A | G | 23 | 659.84 | noncoding | Transition | 1/1 | Unannotated |
| Scaffold_3934 | 11374 | A | G | 10 | 66.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3934 | 11782 | T | C | 58 | 837.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_3934 | 11788 | T | C | 82 | 1742.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_3934 | 11907 | A | G | 200 | 5848.77 | CDS | Transition | 1/1 | Unannotated |
| Scaffold_3934 | 12149 | T | C | 85 | 2456.77 | CDS | Transition | 1/1 | Unannotated |
| Scaffold_3934 | 12158 | G | A | 83 | 264.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_3934 | 12228 | A | G | 15 | 335.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_3934 | 42543 | C | T | 250 | 7947.77 | intron | Transition | 1/1 | Unannotated |
| Scaffold_3934 | 42755 | C | T | 249 | 926.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_3937 | 15907 | C | T | 17 | 52.77 | exon | Transition | 0/1 | Serine/threonine-protein phosphatase PP1 isozyme 4 (EC 3.1.3.16) (Type one protein phosphatase 4) |
| Scaffold_3942 | 6725 | C | T | 171 | 334.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3942 | 33804 | C | T | 16 | 168.77 | CDS | 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] |