| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3362 | 2938 | G | C | 211 | 4546.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3362 | 3416 | A | T | 19 | 123.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3362 | 3572 | A | C | 250 | 6168.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3362 | 4019 | T | A | 190 | 1815.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3362 | 4040 | C | G | 35 | 138.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3365 | 7830 | A | C | 249 | 92.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3368 | 1700 | C | G | 57 | 779.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_3368 | 3903 | T | G | 11 | 269.77 | exon | Transversion | 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_3368 | 34974 | G | C | 10 | 33.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3369 | 2048 | T | A | 226 | 3105.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3369 | 2050 | G | C | 230 | 1786.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3369 | 2058 | A | T | 232 | 960.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3369 | 2059 | G | C | 237 | 711.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3369 | 2125 | A | C | 250 | 286.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3369 | 2344 | C | A | 102 | 3405.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3373 | 12884 | A | C | 13 | 52.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_3376 | 17281 | T | A | 25 | 797.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_3376 | 17382 | T | G | 44 | 850.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3379 | 2638 | T | A | 57 | 110.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_3379 | 2669 | A | C | 88 | 1025.77 | noncoding | Transversion | 0/1 | Unannotated |