I had a repeat masker bed file that I used to extract particular sections from a genome I am working with, using Bedtools. However, my output file (.fa) named the individual segments "unspecified" and then a number, so I can not relate the genes back to their coordinates from the repeat masker file. How can edit the output file to correlate with the original bed file? Or is there a way I can redo this so that it will give me a more specific output? Thank you