| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_64 | 1326685 | A | T | 42 | 74.77 | CDS | Transversion | 0/1 | Probable serine/threonine-protein kinase At1g54610 (EC 2.7.11.1) |
| Scaffold_65 | 33832 | T | A | 147 | 466.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 33834 | C | G | 219 | 1859.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 34594 | A | C | 111 | 608.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 35318 | A | T | 38 | 153.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 166896 | C | G | 75 | 1359.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 166932 | T | G | 50 | 345.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 209499 | A | C | 14 | 264.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 383421 | T | G | 116 | 117.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 516036 | C | A | 39 | 41.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 604613 | C | G | 58 | 37.77 | CDS | Transversion | 0/1 | Alkaline ceramidase (AlkCDase) (Alkaline CDase) (AtACER) (EC 3.5.1.-) (Acyl-CoA independent ceramide synthase 1) (AtCES1) (Alkaline ceramidase YPC1) (AtYPC1) (Alkaline dihydroceramidase ACER) (Alkaline phytoceramidase) (aPHC) |
| Scaffold_65 | 915910 | A | T | 10 | 128.53 | intron | Transversion | 0/1 | Hypersensitive-induced response protein 1 (AtHIR1) |
| Scaffold_65 | 1307677 | T | A | 13 | 118.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 1323406 | T | A | 11 | 34.77 | CDS | Transversion | 0/1 | Ferrochelatase-1, chloroplastic/mitochondrial (AtFC1) (EC 4.99.1.1) (Ferrochelatase-I) (AtFC-I) (Heme synthase 1) (Protoheme ferro-lyase 1) |
| Scaffold_65 | 1323410 | A | C | 11 | 43.77 | CDS | Transversion | 0/1 | Ferrochelatase-1, chloroplastic/mitochondrial (AtFC1) (EC 4.99.1.1) (Ferrochelatase-I) (AtFC-I) (Heme synthase 1) (Protoheme ferro-lyase 1) |
| Scaffold_65 | 1352579 | A | T | 27 | 31.77 | intron | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 1447262 | T | G | 18 | 94.77 | noncoding | Transversion | 0/1 | Unannotated |
| Scaffold_65 | 1473305 | C | G | 22 | 323.77 | CDS | Transversion | 0/1 | Unannotated |
| Scaffold_66 | 97787 | T | G | 20 | 62.77 | exon | Transversion | 0/1 | Unannotated |
| Scaffold_66 | 197734 | C | A | 47 | 69.77 | intron | Transversion | 0/1 | Unannotated |