| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_80 | 192530 | T | C | 73 | 2168.77 | CDS | Transition | 1/1 | 1,4-dihydroxy-2-naphthoyl-CoA thioesterase 1 (AtDHNAT1) (DHNA-CoA thioesterase 1) (EC 3.1.2.-) |
| Scaffold_3798 | 6068 | C | T | 29 | 743.79 | CDS | Transition | 1/1 | 12-oxophytodienoate reductase 3 (EC 1.3.1.42) (12-oxophytodienoate-10,11-reductase 3) (OPDA-reductase 3) (LeOPR3) |
| Scaffold_71 | 686802 | T | C | 13 | 200.77 | intron | Transition | 0/1 | 14-3-3-like protein (Fragment) |
| Scaffold_2538 | 6860 | A | G | 12 | 58.77 | exon | Transition | 0/1 | 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (BPG-independent PGAM) (Phosphoglyceromutase) (EC 5.4.2.12) (PGAM-I) |
| Scaffold_8 | 529678 | G | A | 14 | 95.77 | CDS | Transition | 0/1 | 26S proteasome non-ATPase regulatory subunit 1 homolog B (26S proteasome regulatory subunit RPN2b) (AtRPN2b) (26S proteasome regulatory subunit S1 homolog B) |
| Scaffold_32 | 1248107 | G | A | 32 | 714.77 | CDS | Transition | 0/1 | 26S proteasome regulatory subunit 7 (26S proteasome AAA-ATPase subunit RPT1) (26S proteasome subunit 7) (Regulatory particle triple-A ATPase subunit 1) |
| Scaffold_32 | 1248131 | C | T | 34 | 288.77 | CDS | Transition | 0/1 | 26S proteasome regulatory subunit 7 (26S proteasome AAA-ATPase subunit RPT1) (26S proteasome subunit 7) (Regulatory particle triple-A ATPase subunit 1) |
| Scaffold_242 | 74164 | T | C | 35 | 38.77 | CDS | Transition | 0/1 | 28 kDa ribonucleoprotein, chloroplastic (28RNP) |
| Scaffold_16 | 1604069 | C | T | 66 | 1368.77 | exon | Transition | 0/1 | 2-hydroxyisoflavanone dehydratase (EC 3.1.1.1) (EC 4.2.1.105) (Carboxylesterase HIDM) |
| Scaffold_16 | 1604637 | A | G | 234 | 1428.77 | CDS | Transition | 0/1 | 2-hydroxyisoflavanone dehydratase (EC 3.1.1.1) (EC 4.2.1.105) (Carboxylesterase HIDM) |
| Scaffold_3065 | 47158 | C | T | 250 | 56.77 | noncoding | Transition | 0/1 | 30S ribosomal protein S12-B, chloroplastic |
| Scaffold_3618 | 55982 | C | T | 58 | 2086.77 | noncoding | Transition | 1/1 | 30S ribosomal protein S12-B, chloroplastic |
| Scaffold_3618 | 55983 | T | C | 53 | 1998.77 | noncoding | Transition | 1/1 | 30S ribosomal protein S12-B, chloroplastic |
| Scaffold_3431 | 49480 | C | T | 250 | 6241.77 | noncoding | Transition | 0/1 | 30S ribosomal protein S14, chloroplastic |
| Scaffold_3476 | 55137 | C | T | 249 | 4988.77 | noncoding | Transition | 0/1 | 30S ribosomal protein S16, chloroplastic |
| Scaffold_3900 | 2573 | T | C | 69 | 2699.77 | noncoding | Transition | 1/1 | 30S ribosomal protein S16, chloroplastic |
| Scaffold_2947 | 4920 | C | T | 130 | 3963.77 | noncoding | Transition | 0/1 | 30S ribosomal protein S2, chloroplastic |
| Scaffold_3384 | 36499 | G | A | 10 | 335.77 | noncoding | Transition | 1/1 | 30S ribosomal protein S2, chloroplastic |
| Scaffold_3384 | 36598 | C | T | 73 | 1460.77 | noncoding | Transition | 0/1 | 30S ribosomal protein S2, chloroplastic |
| Scaffold_3594 | 21846 | T | C | 106 | 67.77 | intron | Transition | 0/1 | 30S ribosomal protein S3, chloroplastic |