Identification of retroposed copies (RPCs) for HMG genes. HMG mRNA sequences (in gray) were soft-masked and used in BLAST searches against the Human Genome Build #26 chromosome files (in blue). HMG parental genes were first identified (see Methods), and splice junction positions in the mRNA sequences were defined from these alignments (black arrowheads) and were subsequently used as guides for identifying RPCs (in red). RPC endpoints were adjusted by conducting a BLAST2SEQ comparison against the corresponding HMG gene, as well as with less-stringent parameters (see Methods) against the HMG mRNA. Horizontal dashed lines represent gaps in the alignment, and vertical dashed lines represent the splice positions in the mRNA–RPC alignment.
