| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_3731 | 29741 | G | A | 250 | 384.77 | noncoding | Transition | 0/1 | Photosystem I assembly protein Ycf4 |
| Scaffold_3145 | 1895 | G | A | 54 | 46.77 | noncoding | Transition | 0/1 | Photosystem I P700 chlorophyll a apoprotein A1 (EC 1.97.1.12) (PSI-A) (PsaA) |
| Scaffold_3723 | 50966 | T | C | 73 | 2415.77 | noncoding | Transition | 1/1 | Photosystem I P700 chlorophyll a apoprotein A1 (EC 1.97.1.12) (PSI-A) (PsaA) |
| Scaffold_2747 | 41548 | C | T | 113 | 371.77 | noncoding | Transition | 0/1 | Photosystem I P700 chlorophyll a apoprotein A2 (EC 1.97.1.12) (PSI-B) (PsaB) |
| Scaffold_2853 | 33010 | C | T | 94 | 3438.77 | noncoding | Transition | 1/1 | Photosystem I P700 chlorophyll a apoprotein A2 (EC 1.97.1.12) (PSI-B) (PsaB) |
| Scaffold_3771 | 1636 | A | G | 248 | 8609.77 | noncoding | Transition | 1/1 | Photosystem I P700 chlorophyll a apoprotein A2 (EC 1.97.1.12) (PSI-B) (PsaB) |
| Scaffold_2748 | 18931 | A | G | 250 | 7274.77 | exon | Transition | 1/1 | Photosystem II CP43 reaction center protein (PSII 43 kDa protein) (Protein CP-43) |
| Scaffold_2748 | 18943 | A | G | 250 | 7576.77 | exon | Transition | 1/1 | Photosystem II CP43 reaction center protein (PSII 43 kDa protein) (Protein CP-43) |
| Scaffold_2748 | 19006 | T | C | 186 | 5428.77 | exon | Transition | 0/1 | Photosystem II CP43 reaction center protein (PSII 43 kDa protein) (Protein CP-43) |
| Scaffold_2748 | 19015 | T | C | 57 | 1051.77 | exon | Transition | 0/1 | Photosystem II CP43 reaction center protein (PSII 43 kDa protein) (Protein CP-43) |
| Scaffold_2748 | 19072 | C | T | 45 | 72.77 | exon | Transition | 0/1 | Photosystem II CP43 reaction center protein (PSII 43 kDa protein) (Protein CP-43) |
| Scaffold_2767 | 4857 | G | A | 250 | 4794.77 | noncoding | Transition | 1/1 | Photosystem II CP43 reaction center protein (PSII 43 kDa protein) (Protein CP-43) |
| Scaffold_2787 | 35052 | G | A | 250 | 8693.77 | noncoding | Transition | 1/1 | Photosystem II CP43 reaction center protein (PSII 43 kDa protein) (Protein CP-43) |
| Scaffold_2917 | 48469 | C | T | 71 | 1797.77 | noncoding | Transition | 1/1 | Photosystem II CP47 reaction center protein (PSII 47 kDa protein) (Protein CP-47) |
| Scaffold_3540 | 27045 | G | A | 249 | 9895.77 | noncoding | Transition | 1/1 | Photosystem II CP47 reaction center protein (PSII 47 kDa protein) (Protein CP-47) |
| Scaffold_3663 | 45390 | A | G | 48 | 1537.77 | noncoding | Transition | 1/1 | Photosystem II CP47 reaction center protein (PSII 47 kDa protein) (Protein CP-47) |
| Scaffold_2791 | 43079 | A | G | 250 | 9119.77 | noncoding | Transition | 1/1 | Photosystem II D2 protein (PSII D2 protein) (EC 1.10.3.9) (Photosystem Q(A) protein) |
| Scaffold_591 | 50319 | G | A | 175 | 1874.77 | CDS | Transition | 0/1 | Photosystem II protein D1 (PSII D1 protein) (EC 1.10.3.9) (32 kDa thylakoid membrane protein) (Photosystem II Q(B) protein) |
| Scaffold_591 | 50325 | T | C | 250 | 8290.77 | CDS | Transition | 1/1 | Photosystem II protein D1 (PSII D1 protein) (EC 1.10.3.9) (32 kDa thylakoid membrane protein) (Photosystem II Q(B) protein) |
| Scaffold_591 | 50361 | A | G | 244 | 8060.77 | CDS | Transition | 1/1 | Photosystem II protein D1 (PSII D1 protein) (EC 1.10.3.9) (32 kDa thylakoid membrane protein) (Photosystem II Q(B) protein) |