I have been trying to map UCE loci to a reference genome using the ./CURE GeneRegion command and it keeps failing. The program runs without problem, but none of the UCEs map to exons. I am using an ant genome that I downloaded from NCBI as a reference and I am using a published ant UCE bait set. This result seems unexpected to me and I am wondering if others have had this problem.
I have been trying to map UCE loci to a reference genome using the ./CURE GeneRegion command and it keeps failing. The program runs without problem, but none of the UCEs map to exons. I am using an ant genome that I downloaded from NCBI as a reference and I am using a published ant UCE bait set. This result seems unexpected to me and I am wondering if others have had this problem.