| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_524 | 5121 | T | C | 35 | 131.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_526 | 6425 | A | G | 23 | 31.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_527 | 63988 | T | C | 22 | 305.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_535 | 47140 | T | C | 10 | 42.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_537 | 6296 | C | T | 10 | 30.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_550 | 4101 | T | C | 17 | 80.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_551 | 46776 | A | G | 21 | 34.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_553 | 33453 | C | T | 24 | 111.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_554 | 1778 | A | G | 18 | 49.77 | CDS | Transition | 0/1 | Pentatricopeptide repeat-containing protein At5g04810, chloroplastic (Maize PPR4 homolog) (AtPPR4) |
| Scaffold_557 | 52518 | T | C | 23 | 62.77 | CDS | Transition | 0/1 | EIN3-binding F-box protein 1 (F-box/LRR-repeat protein 6) |
| Scaffold_562 | 49983 | G | A | 32 | 484.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_562 | 50027 | C | T | 55 | 358.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_566 | 4513 | T | C | 48 | 33.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_568 | 4234 | G | A | 12 | 252.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_570 | 49678 | C | T | 19 | 49.77 | exon | Transition | 0/1 | Probable galactinol--sucrose galactosyltransferase 6 (EC 2.4.1.82) (Protein DARK INDUCIBLE 10) (Raffinose synthase 6) |
| Scaffold_570 | 51379 | C | T | 66 | 1104.77 | CDS | Transition | 0/1 | Probable galactinol--sucrose galactosyltransferase 6 (EC 2.4.1.82) (Protein DARK INDUCIBLE 10) (Raffinose synthase 6) |
| Scaffold_575 | 66638 | T | C | 115 | 425.77 | CDS | Transition | 0/1 | Puromycin-sensitive aminopeptidase (PSA) (EC 3.4.11.14) (Cytosol alanyl aminopeptidase) (AAP-S) (Meiotic prophase aminopeptidase 1) |
| Scaffold_575 | 66679 | G | A | 193 | 421.77 | CDS | Transition | 0/1 | Puromycin-sensitive aminopeptidase (PSA) (EC 3.4.11.14) (Cytosol alanyl aminopeptidase) (AAP-S) (Meiotic prophase aminopeptidase 1) |
| Scaffold_575 | 66707 | C | T | 183 | 231.77 | CDS | Transition | 0/1 | Puromycin-sensitive aminopeptidase (PSA) (EC 3.4.11.14) (Cytosol alanyl aminopeptidase) (AAP-S) (Meiotic prophase aminopeptidase 1) |
| Scaffold_575 | 66722 | C | T | 22 | 45.77 | CDS | Transition | 0/1 | Puromycin-sensitive aminopeptidase (PSA) (EC 3.4.11.14) (Cytosol alanyl aminopeptidase) (AAP-S) (Meiotic prophase aminopeptidase 1) |