Table 1 Intersection between EDTA’s annotations and ground-truth annotations reveals EDTA’s tendency to misclassify nonLTR elements. Columns 2–7 show the percent of nonLTR elements annotated by EDTA in each of the six categories, including missed elements. The last column reports the percent of the genome occupied by nonLTR elements for each species
Species | NonLTR | Unknown | DNA | Helitron | LTR | Missed | Genome |
|---|---|---|---|---|---|---|---|
Zebrafish | 2% | 0% | 80% | 8% | 6% | 4% | 7% |
Zebra finch | 0% | 0% | 60% | 12% | 9% | 19% | 4% |
Mouse | 0% | 0% | 48% | 10% | 20% | 22% | 28% |
Chicken | 0% | 0% | 57% | 5% | 25% | 14% | 7% |
Rice | 1% | 0% | 36% | 33% | 10% | 20% | 2% |
Fruit fly | 52% | 0% | 16% | 1% | 21% | 10% | 5% |