| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_18 | 948099 | T | G | 20 | 730.77 | 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_18 | 1228660 | T | G | 12 | 367.77 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_18 | 2277616 | G | T | 17 | 432.77 | CDS | Transversion | 1/1 | F-box/kelch-repeat protein At1g67480 |
| Scaffold_18 | 2339887 | G | C | 53 | 852.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_18 | 2340320 | C | G | 11 | 294.78 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_18 | 2602018 | G | T | 10 | 272.18 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_19 | 138412 | G | C | 123 | 2490.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_19 | 203095 | T | A | 23 | 645.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_19 | 488534 | A | T | 15 | 52.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_19 | 526167 | A | C | 10 | 347.77 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_19 | 857535 | T | G | 20 | 634.77 | noncoding | Transversion | 1/1 | Unannotated |
| Scaffold_19 | 1314779 | T | G | 15 | 243.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_19 | 1416793 | T | A | 44 | 1279.77 | exon | Transversion | 1/1 | Unannotated |
| Scaffold_19 | 1534051 | T | A | 17 | 284.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_19 | 1594348 | T | A | 19 | 503.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_19 | 1628295 | C | A | 56 | 1743.77 | CDS | Transversion | 1/1 | Sucrose transport protein (Sucrose permease) (Sucrose-proton symporter) |
| Scaffold_19 | 1700766 | C | A | 10 | 330.78 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_19 | 2084335 | C | A | 55 | 1942.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_19 | 2084340 | G | T | 16 | 536.77 | CDS | Transversion | 1/1 | Unannotated |
| Scaffold_20 | 92372 | C | G | 14 | 81.77 | exon | Transversion | 0/1 | Unannotated |