Flowchart of the overall procedure for analyzing conserved regions between rat and human. Raw WGS reads were filtered from low-quality data and contaminants, masked with known mammalian repetitive elements using the program RepeatMasker. The resulting sequences were used to search against several human genome databases. Potential repetitive elements were identified through comparison between genomic matches and transcripts matches. The final match results were analyzed further through integration with other information from the human genome.