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There are a number of different ways to do this, and we have detailed one approach to identifying UCEs for use as genetic markers and designing baits to target them Faircloth 2017.

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2007), suggesting that their role in the biology of the genome may be cryptic.

You can identify UCEs in organismal genome sequences by aligning several genomes to each other, scanning the resulting genome alignments for areas of very high (95-100%) sequence conservation, and filtering on user-defined criteria, such as length (e.g., Bejerano et al.

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Frequently asked questions » The manuscripts listed below are the primary citations establishing UCEs as useful phylogenomic markers, markers from which we can collect empirical data, markers we can use to infer shallow-level relationships, and markers that can do all of these things across a variety of vertebrate and invertebrate lineages.

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UCEs were first described in a wonderful manuscript by Gil Bejerano et al.

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