Table 2 The number of SNPs on individual chromosomes detected between each accession and Nipponbare
From: SNP-based analysis of genetic diversity in anther-derived rice by whole genome sequencing
| Â | Dongjin | Hwayeong | HY-04 | HY-08 | BLB | |||||
|---|---|---|---|---|---|---|---|---|---|---|
| Â | # of SNPs | SNP/100Â kb | # of SNPs | SNP/100Â kb | # of SNPs | SNP/100Â kb | # of SNPs | SNP/100Â kb | # of SNPs | SNP/100Â kb |
Chromosome 1 | 4,126 | (9.16) | 5,318 | (11.81) | 30,700 | (68.16) | 23,902 | (53.07) | 10,242 | (22.74) |
Chromosome 2 | 4,805 | (13.06) | 7,143 | (19.41) | 9,399 | (25.55) | 7,875 | (21.40) | 9,369 | (25.46) |
Chromosome 3 | 1,990 | (5.33) | 4,318 | (11.57) | 12,532 | (33.59) | 12,688 | (34.00) | 8,152 | (21.85) |
Chromosome 4 | 14,197 | (39.37) | 14,637 | (40.59) | 14,110 | (39.13) | 14,505 | (40.22) | 11,252 | (31.20) |
Chromosome 5 | 9,615 | (31.97) | 4,943 | (16.44) | 3,782 | (12.58) | 3,782 | (12.58) | 5,041 | (16.76) |
Chromosome 6 | 7,441 | (23.16) | 4,263 | (13.27) | 7,881 | (24.53) | 3,880 | (12.08) | 7,158 | (22.28) |
Chromosome 7 | 18,667 | (61.49) | 18,025 | (59.38) | 20,982 | (69.12) | 18,548 | (61.10) | 12,143 | (40.00) |
Chromosome 8 | 9,663 | (33.87) | 70,295 | (246.39) | 69,329 | (243.00) | 71,301 | (249.92) | 66,592 | (233.41) |
Chromosome 9 | 3,093 | (12.94) | 5,864 | (24.54) | 14,166 | (59.28) | 14,583 | (61.03) | 5,743 | (24.03) |
Chromosome 10 | 9,799 | (41.34) | 8,752 | (36.92) | 22,221 | (93.75) | 8,704 | (36.72) | 12,149 | (51.25) |
Chromosome 11 | 39,285 | (125.83) | 63,387 | (203.04) | 62,336 | (199.67) | 63,652 | (203.88) | 59,631 | (191.00) |
Chromosome 12 | 48,280 | (174.43) | 15,917 | (57.51) | 16,092 | (58.14) | 16,572 | (59.87) | 9,246 | (33.40) |
total | 170,961 | (47.66)a | 222,862 | (61.74) | 283,530 | (77.21) | 259,992 | (70.49) | 216,718 | (59.45) |