| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3788 | 45383 | A | G | 250 | 617.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3788 | 46680 | G | A | 249 | 657.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3788 | 46872 | C | T | 27 | 102.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3788 | 47064 | G | A | 87 | 142.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3788 | 47149 | G | A | 55 | 373.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3788 | 47683 | G | A | 62 | 508.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3788 | 47690 | G | A | 63 | 111.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3789 | 20867 | A | G | 14 | 100.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_3789 | 22506 | G | A | 27 | 225.77 | 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_3789 | 22595 | G | A | 42 | 31.77 | 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_3789 | 22600 | G | A | 39 | 169.77 | 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_3789 | 22604 | G | A | 37 | 187.77 | 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_3792 | 35050 | C | T | 52 | 280.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3794 | 1185 | A | G | 32 | 777.79 | exon | Transition | 1/1 | Unannotated |
| Scaffold_3798 | 5901 | C | T | 13 | 132.77 | CDS | Transition | 0/1 | 12-oxophytodienoate reductase 3 (EC 1.3.1.42) (12-oxophytodienoate-10,11-reductase 3) (OPDA-reductase 3) (LeOPR3) |
| Scaffold_3798 | 5902 | A | G | 14 | 175.77 | CDS | Transition | 0/1 | 12-oxophytodienoate reductase 3 (EC 1.3.1.42) (12-oxophytodienoate-10,11-reductase 3) (OPDA-reductase 3) (LeOPR3) |
| Scaffold_3798 | 6068 | C | T | 82 | 2356.77 | CDS | Transition | 1/1 | 12-oxophytodienoate reductase 3 (EC 1.3.1.42) (12-oxophytodienoate-10,11-reductase 3) (OPDA-reductase 3) (LeOPR3) |
| Scaffold_3800 | 53433 | G | A | 55 | 217.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3801 | 8038 | A | G | 250 | 1012.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_3801 | 8042 | A | G | 250 | 99.77 | noncoding | Transition | 0/1 | Unannotated |