| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_128 | 164827 | A | T | 11 | 30.77 | CDS | Transversion | 0/1 | BRASSINOSTEROID INSENSITIVE 1-associated receptor kinase 1 (AtBAK1) (BRI1-associated receptor kinase 1) (EC 2.7.10.1) (EC 2.7.11.1) (Protein ELONGATED) (Somatic embryogenesis receptor kinase 3) (AtSERK3) (Somatic embryogenesis receptor-like kinase 3) |
| Scaffold_128 | 256181 | A | T | 11 | 55.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_128 | 271123 | A | C | 18 | 43.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_128 | 274545 | G | T | 13 | 46.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 59793 | A | T | 12 | 64.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 60183 | T | A | 61 | 605.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 60212 | C | A | 14 | 58.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 60213 | C | G | 13 | 61.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 61053 | T | A | 26 | 561.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 73390 | A | T | 11 | 61.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 178327 | A | C | 20 | 116.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 178354 | C | G | 20 | 168.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 194993 | A | C | 31 | 50.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_129 | 198958 | C | G | 126 | 142.77 | CDS | Transversion | 0/1 | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic (EC 1.2.1.13) (NADP-dependent glyceraldehydephosphate dehydrogenase subunit A) |
| Scaffold_129 | 198959 | C | A | 78 | 42.77 | CDS | Transversion | 0/1 | Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic (EC 1.2.1.13) (NADP-dependent glyceraldehydephosphate dehydrogenase subunit A) |
| Scaffold_129 | 199654 | A | C | 97 | 3489.77 | intron | Transversion | 1/1 | Unannotated |
| Scaffold_130 | 96729 | C | G | 26 | 34.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_130 | 99087 | C | A | 12 | 36.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_130 | 398487 | G | T | 35 | 127.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_130 | 398673 | G | T | 73 | 859.77 | exon | Transversion | 0/1 | Unannotated |