Fig. 1

Extraction of HML-2 insertional polymorphisms. a Scheme for estimating HML-2 insertional polymorphisms. Deletion and loss variant types were selected from the DGV and collated using the hg19 reference genome data. The primers used for genomic PCR are shown by arrows. Letters indicate nucleotides in the TSDs. b Display of the UCSC Genome Browser around the region of 195,654,396–195,655,363 on chromosome 3. Red and blue bars denote gain and loss regions, respectively. The deletional variant of esv2668264 indicates the presence of a preintegration allele at this LTR site. The other deletional forms in the area displayed could not be assigned strictly as preintegration alleles