I recently found that the prediction result show in Diana-tools didn't make sense.Just like the figure below, some of the predicted miRNA target site didn't match to the chromosome position.And most of these unmatched result is"Not conserved".But those"Not conserved" target site only account for a small portion of the overall result.What is the possible reason for this situation?
1) The position of the miRNA target site that is listed is not the position in the genome but in the transcript itself.
2) Most miRNA targets are not conserved in closely related species. Nothing suspicious about this fact, it just reflects the poor conservation of the 3'UTR. The idea behind checking for conservation is that if the function of a miRNA-mRNA pair is very important, it might be evolutionary conserved.
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