| Variant ID: vg0301154594 (JBrowse) | Variation Type: INDEL |
| Chromosome: chr03 | Position: 1154594 |
| Reference Allele: A | Alternative Allele: AC |
| Primary Allele: AC | Secondary Allele: A |
Inferred Ancestral Allele : A (evidence from allele frequency in Oryza rufipogon: A: 1.00, others allele: 0.00, population size: 295. )
TAGCGCCTTCGTATTTCGTATATAGCTCATCATCTCTCTTAAATTAGTCAGTGCAGTGTGAGGGGGAACAGTTTAAGAAAAAAGAACGAAGCAGCAACGT[A/AC]
CCCAAAAAAAATATTCTTTCTAGGTTGATGGTTTTTTCTTGCTTCGATTTGCTTTGCCTTTTTCTCTTGTGCTTAATTATAATTAAGTTTTCTTAGCTGC
GCAGCTAAGAAAACTTAATTATAATTAAGCACAAGAGAAAAAGGCAAAGCAAATCGAAGCAAGAAAAAACCATCAACCTAGAAAGAATATTTTTTTTGGG[T/GT]
ACGTTGCTGCTTCGTTCTTTTTTCTTAAACTGTTCCCCCTCACACTGCACTGACTAATTTAAGAGAGATGATGAGCTATATACGAAATACGAAGGCGCTA
| Populations | Population Size | Frequency of AC(primary allele) | Frequency of A(secondary allele) | Frequency of N | Frequency of DEL | Frequency of others Allele |
|---|---|---|---|---|---|---|
| All | 4726 | 60.30% | 39.60% | 0.08% | 0.00% | NA |
| All Indica | 2759 | 97.00% | 2.90% | 0.11% | 0.00% | NA |
| All Japonica | 1512 | 0.90% | 99.10% | 0.00% | 0.00% | NA |
| Aus | 269 | 24.50% | 75.50% | 0.00% | 0.00% | NA |
| Indica I | 595 | 98.00% | 1.80% | 0.17% | 0.00% | NA |
| Indica II | 465 | 94.20% | 5.80% | 0.00% | 0.00% | NA |
| Indica III | 913 | 99.20% | 0.80% | 0.00% | 0.00% | NA |
| Indica Intermediate | 786 | 95.30% | 4.50% | 0.25% | 0.00% | NA |
| Temperate Japonica | 767 | 0.40% | 99.60% | 0.00% | 0.00% | NA |
| Tropical Japonica | 504 | 1.00% | 99.00% | 0.00% | 0.00% | NA |
| Japonica Intermediate | 241 | 2.10% | 97.90% | 0.00% | 0.00% | NA |
| VI/Aromatic | 96 | 51.00% | 47.90% | 1.04% | 0.00% | NA |
| Intermediate | 90 | 50.00% | 50.00% | 0.00% | 0.00% | NA |