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One approach would be to take the frequency of all 50-mers across the genome (those not matching TEs), and you could then map those to the genome to identify the location/depth of the repeats. Both steps could be accomplished with Vmatch or Tallymer. -
repeats
I am trying to find a repeat regions (not Transposons). Is there a way i can find a 50 bp region repeating across the genome ?. Need to find the number of times that 50 bp is repeating in the genome.
I have tried GEM-mappability and Uniqueome, but GEM-mappability didnt work. Current version of GEM-tools do not have this feature. Uniqueome gives a score and it depends on the sequencing data. But i dont have any sequence data.
-Alaguraj.V
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The first FDA-approved CRISPR-based therapy marked the transition of therapeutic gene editing from a dream to reality1. CRISPR technologies have streamlined gene editing, and CRISPR screens have become an important approach for identifying genes involved in disease processes2. This technique introduces targeted mutations across numerous genes, enabling large-scale identification of gene functions, interactions, and pathways3. Identifying the full range...08-27-2024, 04:44 AM
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