| Variant ID: vg0914860711 (JBrowse) | Variation Type: INDEL |
| Chromosome: chr09 | Position: 14860711 |
| Reference Allele: G | Alternative Allele: GA |
| Primary Allele: G | Secondary Allele: GA |
Inferred Ancestral Allele : G (evidence from allele frequency in Oryza rufipogon: G: 1.00, others allele: 0.00, population size: 277. )
CCTTCTTATGCCATGGGGTTTTATCAACTGCCTGAAGGGATTTATCAGAAATTTGACTCTATTAGAGGAAAATATTATTGGGCTAGCAATAAGCAGGGGA[G/GA]
AAAATACCACATTGTGAGATGGATTGACCTAGCCTTCTCAAAAGAGTTTGGTGGCATTGGTCTAATTGAAACTAGAACTCTTAACACAGCTTTGCTTGCC
GGCAAGCAAAGCTGTGTTAAGAGTTCTAGTTTCAATTAGACCAATGCCACCAAACTCTTTTGAGAAGGCTAGGTCAATCCATCTCACAATGTGGTATTTT[C/TC]
TCCCCTGCTTATTGCTAGCCCAATAATATTTTCCTCTAATAGAGTCAAATTTCTGATAAATCCCTTCAGGCAGTTGATAAAACCCCATGGCATAAGAAGG
| Populations | Population Size | Frequency of G(primary allele) | Frequency of GA(secondary allele) | Frequency of N | Frequency of DEL | Frequency of others Allele |
|---|---|---|---|---|---|---|
| All | 4726 | 99.90% | 0.10% | 0.04% | 0.00% | NA |
| All Indica | 2759 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| All Japonica | 1512 | 99.70% | 0.20% | 0.13% | 0.00% | NA |
| Aus | 269 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| Indica I | 595 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| Indica II | 465 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| Indica III | 913 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| Indica Intermediate | 786 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| Temperate Japonica | 767 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| Tropical Japonica | 504 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| Japonica Intermediate | 241 | 97.90% | 1.20% | 0.83% | 0.00% | NA |
| VI/Aromatic | 96 | 100.00% | 0.00% | 0.00% | 0.00% | NA |
| Intermediate | 90 | 97.80% | 2.20% | 0.00% | 0.00% | NA |