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Fig. 1 | Mobile DNA

Fig. 1

From: The UCSC repeat browser allows discovery and visualization of evolutionary conflict across repeat families

Fig. 1

Building the UCSC Repeat Browser. a Workflow for building the UCSC Repeat Browser. Repeats are annotated on the human genome by the program RepeatMasker using a database of input sequences and repeat models from RepBase and Dfam. These genomic annotations are then mapped to representative consensuses of every repeat family (consensuses are taken directly from Dfam or built from RepeatMasker output). Genomic data (brown bars all shades) such as gene annotations or user-generated data can be “lifted” from the human genome to the Repeat Browser. b Mapping of individual L1PA5 instances to the consensus. A majority of L1PA5 sequences in the human genome only contain the 3′ end as evidenced by the coverage per base (mapping coverage) and alignments of individual instances (mapping alignments of 500 randomly selected elements)

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ISSN: 1759-8753