Table 1. Overlap between genome features and repetitive regions.
| Genome Feature | Fraction of Genome | Fraction of RepeatMasker annotations | Fraction of P-clouds annotations | Fraction of Novel P-clouds annotations |
| Known Genes (transcribed unit) | 37.48% | 32.47% | 36.02% | 41.42% |
| Segmental Duplications | 5.22% | 5.33% | 5.75% | 6.02% |
| Duplicated Regions (WSSD) | 3.53% | 3.16% | 3.87% | 4.63% |
| Known Genes (exons) | 1.12% | 0.05% | 0.56% | 1.29% |
| Simple Repeats | 1.91% | 3.00% | 2.36% | 1.06% |
| CpG Islands | 0.74% | 0.07% | 0.26% | 0.56% |
| Pseudogenes | 0.19% | 0.07% | 0.16% | 0.28% |
| Total Size: | 2.85 Gbp | 1.39 Gbp | 2.02 Gbp | 0.84 Gbp |
Total repetitive sequence detected by either RepeatMasker or P-clouds was 2.23 Gbp (out of a total 2.85 Gbp sequence in the ungapped assembly).