Figure 4

Re-annotation of highly nested TEs in the diploid wheat genome. Re-annotation of repeats in a 215 Kb region of Triticum monococcum chromosome 5A^m. Numbers label elements listed in Table 1. Colour scheme follows Figure 3 (except that thin green boxes are specifically MITEs, and on the bottom tier unique genes are shown as light blue boxes). Label "18" appears twice and corresponds to element Sabrina_G1-1 annotated in [51] (Fig. 1 in this reference may be compared with this figure); REANNOTATE constructed two separate models because when run with default parameters the maximum span of a model is 40 Kb, which is exceeded by the chromosomal span of Sabrina_G1-1. Element models marked with a "*" above a horizontal bar were annotated as part of element Sabrina_F2-2 in [51], which corresponds to label "3" in this figure (see section 'Limitations and scope for development'). This figure was rendered in APOLLO from a GFF annotation file generated by REANNOTATE.