| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_690 | 25323 | A | C | 24 | 447.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_699 | 65643 | T | G | 21 | 74.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_701 | 47001 | G | T | 10 | 30.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_709 | 40151 | C | G | 10 | 30.77 | exon | Transversion | 0/1 | Cleavage and polyadenylation specificity factor subunit 3-I (EC 3.1.27.-) (Cleavage and polyadenylation specificity factor 73 kDa subunit I) (AtCPSF73-I) (CPSF 73 kDa subunit I) |
| Scaffold_709 | 40152 | C | A | 10 | 30.77 | exon | Transversion | 0/1 | Cleavage and polyadenylation specificity factor subunit 3-I (EC 3.1.27.-) (Cleavage and polyadenylation specificity factor 73 kDa subunit I) (AtCPSF73-I) (CPSF 73 kDa subunit I) |
| Scaffold_712 | 58542 | T | G | 18 | 40.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_724 | 37219 | A | C | 12 | 89.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_728 | 46627 | G | C | 10 | 33.77 | CDS | Transversion | 0/1 | CDPK-related kinase 1 (AtCRK1) (EC 2.7.11.1) (Calcium/calmodulin-dependent protein kinase 3) (Calmodulin-binding protein kinase 3) (AtCBK3) (CaM-binding protein kinase 3) |
| Scaffold_728 | 46726 | C | A | 10 | 30.77 | CDS | Transversion | 0/1 | CDPK-related kinase 1 (AtCRK1) (EC 2.7.11.1) (Calcium/calmodulin-dependent protein kinase 3) (Calmodulin-binding protein kinase 3) (AtCBK3) (CaM-binding protein kinase 3) |
| Scaffold_732 | 46765 | A | T | 12 | 298.18 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_739 | 18277 | A | C | 23 | 37.77 | exon | Transversion | 0/1 | tRNA(adenine(34)) deaminase, chloroplastic (TADA) (EC 3.5.4.33) (tRNA adenosine deaminase arginine) (tRNA arginine adenosine deaminase) |
| Scaffold_739 | 43444 | G | T | 10 | 30.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_741 | 7773 | G | C | 15 | 107.77 | CDS | Transversion | 0/1 | BTB/POZ domain-containing protein At5g66560 |
| Scaffold_744 | 11602 | C | A | 17 | 86.77 | CDS | Transversion | 0/1 | Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 1 (EC 2.4.1.15) (Trehalose-6-phosphate synthase 1) (AtTPS1) |
| Scaffold_753 | 63657 | T | A | 18 | 120.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_753 | 64783 | A | T | 40 | 121.77 | intron | Transversion | 0/1 | Protein NRT1/ PTR FAMILY 5.4 (AtNPF5.4) |
| Scaffold_753 | 65579 | G | T | 204 | 199.77 | CDS | Transversion | 0/1 | Protein NRT1/ PTR FAMILY 1.2 (AtNPF1.2) (Nitrate transporter 1.11) |
| Scaffold_757 | 44399 | T | A | 32 | 1132.77 | intron | Transversion | 1/1 | Alcohol dehydrogenase-like 6 (EC 1.1.1.1) |
| Scaffold_760 | 626 | C | A | 24 | 715.88 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_760 | 11704 | T | A | 14 | 355.28 | intron | Transversion | 0/1 | Unannotated |