| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_15 | 2393610 | A | G | 10 | 84.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_15 | 2483580 | G | A | 17 | 321.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_15 | 2483604 | A | G | 21 | 420.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_15 | 2502444 | A | G | 15 | 98.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_16 | 107418 | C | T | 189 | 73.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_16 | 109420 | T | C | 23 | 53.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_16 | 206829 | C | T | 16 | 157.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_16 | 366870 | T | C | 18 | 89.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_16 | 400598 | T | C | 24 | 85.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_16 | 543101 | C | T | 16 | 265.77 | exon | Transition | 0/1 | Tubulin beta-1 chain (Beta-1-tubulin) (Fragment) |
| Scaffold_16 | 845927 | A | G | 12 | 43.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_16 | 853475 | C | T | 10 | 30.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_16 | 853477 | C | T | 10 | 30.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_16 | 865260 | C | T | 17 | 34.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_16 | 903491 | C | T | 23 | 464.77 | CDS | Transition | 0/1 | Probable mixed-linked glucan synthase 6 (EC 2.4.1.-) (1,3;1,4-beta-D-glucan synthase 6) (Cellulose synthase-like protein F6) (OsCslF6) |
| Scaffold_16 | 983701 | T | C | 171 | 2158.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_16 | 1278371 | T | C | 17 | 219.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_16 | 1299646 | T | C | 16 | 75.77 | CDS | Transition | 0/1 | Retrovirus-related Pol polyprotein from transposon RE1 (Retro element 1) (AtRE1) [Includes: Protease RE1 (EC 3.4.23.-); Reverse transcriptase RE1 (EC 2.7.7.49); Endonuclease RE1] |
| Scaffold_16 | 1309491 | A | G | 13 | 55.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_16 | 1515913 | A | G | 11 | 70.77 | noncoding | Transition | 0/1 | Unannotated |