| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_2640 | 66045 | A | C | 250 | 540.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_2647 | 1468 | C | G | 11 | 38.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_2647 | 1504 | C | G | 21 | 396.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_2648 | 7687 | C | A | 39 | 103.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_2648 | 7734 | C | A | 45 | 524.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_2648 | 65614 | A | T | 40 | 624.77 | noncoding | Transversion | 0/1 | Chavicol O-methyltransferase (EC 2.1.1.146) ((Iso)eugenol O-methyltransferase CVOMT1) (S-adenosysl-L-methionine:(Iso)eugenol O-methyltransferase CVOMT1) |
| Scaffold_2648 | 65616 | C | A | 71 | 569.77 | noncoding | Transversion | 0/1 | Chavicol O-methyltransferase (EC 2.1.1.146) ((Iso)eugenol O-methyltransferase CVOMT1) (S-adenosysl-L-methionine:(Iso)eugenol O-methyltransferase CVOMT1) |
| Scaffold_2648 | 66385 | T | G | 11 | 93.77 | intron | Transversion | 0/1 | Desmethylxanthohumol 6'-O-methyltransferase (EC 2.1.1.338) (O-methyltransferase 1) (HlOMT1) |
| Scaffold_2654 | 34357 | T | A | 54 | 1307.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_2659 | 59456 | C | G | 18 | 117.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_2660 | 10330 | G | T | 55 | 1015.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_2660 | 10332 | G | T | 55 | 347.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_2662 | 29614 | A | T | 24 | 71.77 | CDS | Transversion | 0/1 | Vacuolar-sorting protein BRO1 (BRO domain-containing protein 1) (AtBRO1) |
| Scaffold_2664 | 59514 | A | T | 13 | 76.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_2664 | 59534 | A | T | 13 | 118.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_2667 | 59435 | T | A | 58 | 393.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_2668 | 54788 | T | G | 36 | 93.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_2669 | 2079 | C | G | 17 | 308.77 | intron | Transversion | 0/1 | Chaperone protein dnaJ A6, chloroplastic (atDjA6) (Chaperone protein dnaJ A26) (AtDjA26) |
| Scaffold_2669 | 39346 | G | T | 13 | 37.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_2669 | 39386 | A | T | 65 | 491.77 | noncoding | Transversion | 0/1 | Unannotated |