Figure 1

Median piRNA coverage of RTE loci. Theoretical piRNA coverage levels (see Methods sections) are shown as colours indicating the median log2 values for all loci of belonging to a given RTE family. Only RTE families with at least a 1000 annotated loci and a median value above zero in any library are shown (albeit very low levels are not visible in this representation). For each RTE family, the superfamily it belongs to and the number of loci (in thousands) is listed. Families of internal LTR sequences are suffixed by '-int' in their superfamily. Three sets of columns are shown (All/Superfamily/Family), each set containing the three libraries (MIWI2 early, MILI early and MILI late). The left column set (All) shows coverage of all mapped piRNA reads. The middle column set (Superfamily) shows coverage of piRNAs exclusively mapping to this superfamily of RTE, and the right column set (Family) the coverage of piRNAs exclusively mapping to the particular RTE family.