| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_2551 | 30073 | G | A | 13 | 225.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2552 | 103818 | A | G | 198 | 61.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2555 | 3864 | A | G | 15 | 184.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2558 | 49477 | T | C | 19 | 68.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2558 | 106533 | C | T | 13 | 238.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2559 | 31057 | A | G | 46 | 389.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2560 | 92880 | A | G | 30 | 37.77 | CDS | Transition | 0/1 | 12-oxophytodienoate reductase 2 (EC 1.3.1.42) (12-oxophytodienoate-10,11-reductase 2) (AtOPR2) (OPDA-reductase 2) |
| Scaffold_2562 | 20181 | G | A | 17 | 35.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2565 | 86359 | T | C | 20 | 107.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2565 | 86395 | G | A | 27 | 37.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2566 | 90223 | G | A | 247 | 214.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2566 | 90238 | G | A | 250 | 4330.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2566 | 90247 | C | T | 250 | 717.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2570 | 61397 | A | G | 114 | 2460.77 | CDS | Transition | 0/1 | Cell division cycle 20.1, cofactor of APC complex (AtCDC20.1) |
| Scaffold_2571 | 12167 | C | T | 59 | 1367.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2571 | 14098 | A | G | 23 | 574.18 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2573 | 192 | C | T | 96 | 1158.77 | CDS | Transition | 0/1 | Cellulose synthase-like protein H1 (EC 2.4.1.-) (OsCslH1) |
| Scaffold_2573 | 438 | A | G | 62 | 80.77 | CDS | Transition | 0/1 | Cellulose synthase-like protein H1 (EC 2.4.1.-) (OsCslH1) |
| Scaffold_2574 | 11746 | G | A | 12 | 169.77 | noncoding | Transition | 0/1 | Uridine nucleosidase 1 (EC 3.2.2.3) (Uridine ribohydrolase 1) |
| Scaffold_2576 | 55034 | T | C | 20 | 135.77 | exon | Transition | 0/1 | Unannotated |