| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_2811 | 9460 | T | G | 46 | 799.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_2811 | 9628 | A | T | 85 | 676.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_2812 | 30936 | G | T | 49 | 1906.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_2812 | 58876 | T | A | 25 | 552.53 | exon | Transversion | 1/1 | 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_2812 | 58896 | G | T | 20 | 430.77 | 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_2812 | 59149 | T | A | 23 | 537.77 | 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_2812 | 77105 | C | G | 43 | 1499.77 | intron | Transversion | 1/1 | 50S ribosomal protein L2-B, chloroplastic |
| Scaffold_2815 | 3856 | G | T | 248 | 143.03 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_2815 | 5495 | G | T | 60 | 1317.77 | intron | Transversion | 0/1 | Probable inactive dual specificity protein phosphatase-like At4g18593 |
| Scaffold_2815 | 5523 | T | G | 28 | 612.74 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_2820 | 24005 | A | C | 107 | 3937.77 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_2828 | 2136 | A | T | 10 | 303.78 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_2831 | 18369 | A | C | 18 | 43.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_2831 | 19953 | C | A | 10 | 243.84 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_2831 | 25120 | C | G | 12 | 351.78 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_2831 | 25860 | T | G | 14 | 112.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_2831 | 26149 | G | C | 10 | 39.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_2835 | 47224 | T | A | 14 | 467.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_2839 | 17707 | A | C | 11 | 243.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_2840 | 7994 | G | T | 51 | 1719.77 | noncoding | Transversion | 1/1 | Unannotated |