| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_1035 | 19875 | C | T | 20 | 317.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_1048 | 7128 | C | T | 36 | 614.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1048 | 52246 | T | C | 24 | 105.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1048 | 54269 | G | A | 13 | 284.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_1052 | 50831 | A | G | 32 | 479.77 | noncoding | Transition | 0/1 | Cyclase-like protein 2 (OsCYL2) |
| Scaffold_1058 | 33059 | T | C | 39 | 460.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_1058 | 33060 | A | G | 18 | 59.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_1061 | 32526 | A | G | 247 | 39.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_1066 | 49970 | T | C | 19 | 170.77 | exon | Transition | 0/1 | Uncharacterized acetyltransferase At3g50280 (EC 2.3.1.-) |
| Scaffold_1067 | 38949 | C | T | 89 | 95.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1067 | 38964 | A | G | 92 | 138.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_1068 | 40703 | A | G | 191 | 762.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1072 | 15873 | A | G | 93 | 392.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1073 | 47050 | G | A | 39 | 232.77 | noncoding | Transition | 0/1 | Cytochrome P450 82A4 (EC 1.14.-.-) (Cytochrome P450 CP9) |
| Scaffold_1073 | 47132 | G | A | 74 | 419.77 | noncoding | Transition | 0/1 | Cytochrome P450 82A4 (EC 1.14.-.-) (Cytochrome P450 CP9) |
| Scaffold_1073 | 47176 | G | A | 66 | 1200.77 | noncoding | Transition | 0/1 | Cytochrome P450 82A4 (EC 1.14.-.-) (Cytochrome P450 CP9) |
| Scaffold_1074 | 55692 | A | G | 250 | 208.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1074 | 56799 | C | T | 19 | 62.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1077 | 20371 | T | C | 71 | 296.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_1078 | 25837 | C | T | 61 | 484.77 | CDS | Transition | 0/1 | Unannotated |