| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_683 | 23061 | C | T | 10 | 229.84 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_684 | 8967 | G | A | 91 | 913.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_684 | 9511 | T | C | 11 | 280.22 | exon | Transition | 0/1 | Unannotated |
| Scaffold_684 | 27638 | G | A | 12 | 167.77 | exon | Transition | 0/1 | Pentatricopeptide repeat-containing protein At3g06430, chloroplastic (Protein EMBRYO DEFECTIVE 2750) |
| Scaffold_685 | 59287 | G | A | 57 | 302.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_690 | 10685 | G | A | 58 | 442.77 | noncoding | Transition | 0/1 | Expansin-A1 (AtEXPA1) (Alpha-expansin-1) (At-EXP1) (AtEx1) (Ath-ExpAlpha-1.2) |
| Scaffold_690 | 12972 | G | A | 22 | 428.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_690 | 62628 | C | T | 14 | 126.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_693 | 63540 | G | A | 107 | 922.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_703 | 18411 | A | G | 29 | 101.77 | noncoding | Transition | 0/1 | Protein DA1-related 5 |
| Scaffold_711 | 2097 | C | T | 58 | 76.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_711 | 2159 | T | C | 62 | 1259.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_714 | 994 | A | G | 14 | 234.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_726 | 62566 | T | C | 20 | 127.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_728 | 24865 | T | C | 250 | 456.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_731 | 39744 | G | A | 63 | 556.77 | CDS | Transition | 0/1 | Serine/threonine-protein kinase TOUSLED (EC 2.7.11.1) |
| Scaffold_732 | 47556 | C | T | 10 | 30.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_741 | 7370 | T | C | 22 | 102.77 | CDS | Transition | 0/1 | BTB/POZ domain-containing protein At5g66560 |
| Scaffold_741 | 7525 | G | A | 24 | 99.77 | CDS | Transition | 0/1 | BTB/POZ domain-containing protein At5g66560 |
| Scaffold_741 | 8508 | C | T | 22 | 79.77 | CDS | Transition | 0/1 | BTB/POZ domain-containing protein At5g66560 |