I am working with 454 reads with 1x coverage. In order to find centromeric repetition, I was thinking about assembling reads and then trying to recognize repetitive regions. However, I am not sure how much sense it makes to assembly reads with such coverage.
Any help will be appreciated. Thanks.
EDIT: Thank you very much for the answers. I decided to reformulate problem. I have 454 reads with 1x coverage from Cardamine rivularis and my aim is to find centromeric repetition. Therefore there are two basic approches - looking for repetition in raw reads and looking for repetition in assembly (use of this is ambiguous with this coverage).
I have also had idea to use centromeric repeats from other species as reference sequences and try to map reads on them. In case that repeat from Cardamine would be similiar (what is not probable:), this could work.
I will postpone checking answer untill I will try:) Comments and discussion still more than welcome and thanks a lot for answers and comments discussed so far.