Table 2 Comparison of the three de novo assemblies to the Nipponbare reference (IRGSP-1.0)
|  | Unaligned reference bases | Unaligned assembly bases | Average ID | SNPs and small indels | Indels > 5 bp | Inversions | Relocations | Translocations |
|---|---|---|---|---|---|---|---|---|
Nipponbare | 3.14% | 0.31% | 99.94% | 57,459 | 3,445 | 131 | 252 | 617 |
IR64 | 11.08% | 8.94% | 98.91% | 2,917,780 | 80,631 | 1,004 | 1,721 | 7,060 |
DJ123 | 9.85% | 8.55% | 98.93% | 2,933,257 | 80,346 | 1,007 | 1,615 | 6,683 |