I'm sorry if this question is too naive but maybe you can advise me the right way to solve a problem.
I have a 50 kb region on chromosome 6 (length 171,115,067 bp). It turned out to be, that this region completely overlaps with one specific site (5 kb). However, there are about 250 such specific sites across the entire chr 6.
How can I calculate chances that such overlap between my 50 kb region and one of such 5 kb sites happens just randomly? Is there any simple formula? Or I need to generate randomly 10 or 100 thousands of 50 kb regions from chr 6 and then calculate how many times such randomly generated regions overlap with the 5 kb sites?
And if the later way is the right one is there any tool that could generate such sequences from the given human chromosome?