| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_625 | 20552 | T | C | 34 | 39.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_625 | 20568 | C | T | 20 | 41.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_625 | 37999 | G | A | 18 | 78.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_628 | 11956 | C | T | 124 | 40.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_630 | 63380 | C | T | 43 | 30.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_630 | 65356 | A | G | 15 | 176.56 | intron | Transition | 0/1 | Protein phosphatase 2C 7 (AtPP2C07) (EC 3.1.3.16) (Protein HYPERSENSITIVE TO ABA 2) (Protein phosphatase 2C HAB2) (PP2C HAB2) |
| Scaffold_632 | 59485 | C | T | 60 | 147.77 | noncoding | Transition | 0/1 | Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 (EC 2.4.99.18) (Ribophorin II) (RPN-II) (Ribophorin-2) |
| Scaffold_634 | 61251 | G | A | 250 | 4243.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61260 | T | C | 250 | 3080.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61321 | A | G | 250 | 1313.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61373 | G | A | 56 | 89.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61378 | A | G | 112 | 1431.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61423 | T | C | 250 | 401.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61473 | T | C | 250 | 38.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61582 | G | A | 241 | 3000.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61604 | T | C | 250 | 4738.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61607 | G | A | 250 | 5221.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61651 | T | C | 174 | 3979.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_634 | 61660 | T | C | 115 | 2419.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_638 | 12085 | C | T | 36 | 193.77 | noncoding | Transition | 0/1 | Unannotated |