Figure 3

EvoPrinterHD repeat finder algorithm identifies repetitive elements within the input DNA. The repeat finder algorithm superimposes the three highest scoring eBLAT input reference DNA to reference genome alignments to reveal those sequences within the input DNA that are repeated within the input DNA itself and/or elsewhere in the reference genome. Single-copy repeat sequences, identified just once in the second or third highest scoring eBLATs but not in both, are highlighted by blue-colored bases. Multiple (≥ 3 copies) repeats are highlighted with red-colored bases. Shown is a 1,958 bp genomic fragment that flanks the 3' end of the Caenorhabditis elegans egl-26 gene (+5,290 to +7,248 bp from the start of transcription) that was initially part of a 20 kb input DNA repeat finder readout. Note, the single copy repeat (blue-colored) sequences that flank the multi-copy repeat sequences (red-colored) indicate that one of the repeat copies located elsewhere in the reference genome is more homologous to the input DNA repeat sequence than with its other repeat family members.