I really need help with one question. In our lab we found a new chromosome break, in our case two genes rearrange within the same chromosome. This was discovered using sanger sequencing and FISH. Since our rearrange is new in literature I need to predict the effect of this change, so I was wondering if you know any software that do this prediction with this type of data! I normally use softwares and pipelines to predict the effect of point mutations, but I never saw anything to do this with gene and chromosome break.
I appreciate any help!