I have a list of ChIP regions and I would like to know
1) which of them overlap with RepeatMask table that I took through UCSC?
chr1 10000 10468 + Simple_repeat chr1 10468 11447 - Satellite chr1 11503 11675 - LINE chr1 11677 11780 - DNA chr1 15264 15355 - SINE chr1 16712 16749 + Simple_repeat
2) how much overlap do you consider to say that one given region is located in repetitive regions?
Thanks in advance chip