| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_1194 | 15085 | A | C | 17 | 293.77 | exon | Transversion | 0/1 | Subtilisin-like protease SBT3.9 (EC 3.4.21.-) (Subtilase subfamily 3 member 9) (AtSBT3.9) |
| Scaffold_1210 | 6919 | G | C | 11 | 67.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1210 | 6920 | A | T | 12 | 67.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1229 | 52609 | T | A | 16 | 57.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_1241 | 52550 | C | G | 14 | 403.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_1257 | 32923 | G | T | 16 | 135.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1264 | 9310 | C | A | 13 | 55.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_1269 | 49728 | G | C | 10 | 58.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_1273 | 2727 | A | C | 27 | 44.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1273 | 2828 | T | G | 163 | 5978.77 | noncoding | Transversion | 1/1 | Ubiquitin-60S ribosomal protein L40 [Cleaved into: Ubiquitin; 60S ribosomal protein L40 (CEP52)] |
| Scaffold_1274 | 8321 | C | A | 22 | 49.77 | exon | Transversion | 0/1 | Protein phosphatase 1 regulatory subunit INH3 (Protein INHIBITOR-3) (AtINH3) |
| Scaffold_1281 | 18107 | T | A | 16 | 40.77 | noncoding | Transversion | 0/1 | Glutathione S-transferase T2 (AtGSTT2) (EC 2.5.1.18) (GST class-theta member 2) (Glutathione S-transferase 10B) |
| Scaffold_1296 | 29915 | A | T | 28 | 354.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_1300 | 8697 | A | C | 10 | 30.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_1300 | 32986 | A | T | 54 | 211.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1300 | 33086 | C | A | 41 | 152.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1302 | 2660 | A | T | 58 | 64.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_1306 | 48546 | A | C | 10 | 164.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_1308 | 44077 | T | A | 202 | 333.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_1308 | 44101 | A | T | 141 | 1067.77 | CDS | Transversion | 0/1 | Unannotated |