| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_2417 | 139206 | T | C | 31 | 87.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2417 | 139241 | C | T | 62 | 1587.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2417 | 139278 | T | C | 63 | 74.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2417 | 139294 | C | T | 53 | 83.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2418 | 57968 | A | G | 16 | 222.77 | CDS | Transition | 0/1 | 60S ribosomal protein L18-3 |
| Scaffold_2418 | 60348 | A | G | 10 | 79.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2419 | 144145 | C | T | 13 | 61.77 | exon | Transition | 0/1 | Protein FAR-RED ELONGATED HYPOCOTYL 3 |
| Scaffold_2422 | 19823 | A | G | 19 | 37.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2422 | 110992 | A | G | 11 | 36.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2422 | 142528 | G | A | 16 | 77.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2423 | 108762 | G | A | 33 | 32.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2429 | 28385 | T | C | 33 | 31.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2429 | 140946 | G | A | 19 | 40.77 | exon | Transition | 0/1 | Type IV inositol polyphosphate 5-phosphatase 3 (At5PTase3) (EC 3.1.3.36) (EC 3.1.3.86) |
| Scaffold_2429 | 140950 | T | C | 18 | 34.77 | exon | Transition | 0/1 | Type IV inositol polyphosphate 5-phosphatase 3 (At5PTase3) (EC 3.1.3.36) (EC 3.1.3.86) |
| Scaffold_2430 | 51929 | G | A | 20 | 49.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2431 | 32381 | C | T | 53 | 45.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2431 | 71528 | A | G | 11 | 30.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_2433 | 1794 | A | G | 11 | 89.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_2433 | 30520 | A | G | 15 | 86.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_2433 | 129804 | A | G | 34 | 130.77 | exon | Transition | 0/1 | Unannotated |