Transposable elements, mobile DNA sequences present in virtually all organisms, have previously been thought to be inactive in mammals. However, current studies have revealed the first evidence of recent piggyBac and hAT activity in Myotis lucifugus. The objective of this study was to further characterize the abundance and diversity of five transposable elements in various Myotis bats. The five elements were confirmed present in 10 species (M. ciliolabrum, M. californicus, M. velifer, M. yumanesis, M. lucifugus, M. thysanodes, M. volans, M. austroriparius, and M. keaysi) spanning the new world clade of Myotis using PCR. Preliminary sequence data focusing on the transposase region was collected and analyzed for two of the elements; hAT3 data set contained 1200 bp and piggyBac1 contained 942 bp. The older hAT3 element had a mean sequence diversity of 1.88%; whereas the younger piggyBac1 element had little diversity (0.01%). A small number of polymorphic sites within the sequence of a single individual suggested multiple copy types of the hAT3 element; these polymorphic sites were not evident in the piggyBac1 element. These preliminary results support the hypothesis that the piggyBac element is a relatively young transposon and a recent addition to the Myotis genome.