| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_1139 | 3023 | T | C | 180 | 2124.77 | CDS | Transition | 0/1 | AP2/ERF and B3 domain-containing transcription repressor TEM1 (Protein TEMPRANILLO 1) (RAV1-like ethylene-responsive transcription factor TEM1) |
| Scaffold_1146 | 24120 | A | G | 36 | 30.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1148 | 37560 | A | G | 83 | 257.77 | CDS | Transition | 0/1 | Mitochondrial adenine nucleotide transporter ADNT1 (Adenine nucleotide transporter 1) |
| Scaffold_1152 | 33513 | T | C | 11 | 55.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1152 | 49885 | A | G | 15 | 149.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1156 | 18358 | A | G | 46 | 42.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_1156 | 30987 | T | C | 23 | 43.77 | exon | Transition | 0/1 | Pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic (EC 1.2.4.1) |
| Scaffold_1159 | 19224 | A | G | 22 | 46.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1162 | 34333 | T | C | 16 | 86.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1163 | 31345 | A | G | 54 | 864.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1172 | 1530 | T | C | 28 | 38.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1172 | 37082 | A | G | 22 | 31.77 | exon | Transition | 0/1 | Probable alpha,alpha-trehalose-phosphate synthase [UDP-forming] 10 (EC 2.4.1.15) (Trehalose-6-phosphate synthase 10) (AtTPS10) |
| Scaffold_1173 | 1426 | T | C | 11 | 55.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1180 | 19064 | G | A | 62 | 464.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1180 | 19107 | C | T | 15 | 98.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1198 | 8585 | T | C | 12 | 52.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1210 | 9082 | T | C | 40 | 51.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1216 | 24430 | A | G | 12 | 89.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1250 | 751 | T | C | 26 | 37.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_1253 | 151 | T | C | 12 | 312.03 | CDS | Transition | 0/1 | Unannotated |