Hi, I used liftOver with mm9ToHg19.over.chains to convert a set of mm9 regions (total 110Mbp) to hg19 coordinates. After conversion, only about 30% of the regions were convertible and the rest was unmapped with the message "(partially) deleted in new". The regions were mostly on coding sequences. Considering that mouse and human are quite similar on the nucleotide level in the coding regions, it is surprising to me that such a low percentage was convertible. Do you have any idea why?
Thanks, Elizabeth _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
