I prefer to think of the scanner as quantum entangling your actual molecules which are then phased into another dimension, displacing the energy pattern which can then be sent while confined in the anular confinement beam and then snapping back at destination when the quantum linked energy returns from whence it came.
Problems arise with energy leakage in every case which means that a percentge of you matter cannot be rephased back so the transporters have to add in a percentage of replicated matter when reforming individuals. Most transporter mishaps occur because of this replicated matter. If too much of the pattern leaks, or if the qunatum links get messed up, you end up with a dead person barring some external factor such as the Enemy Within.
Problems arise with energy leakage in every case which means that a percentge of you matter cannot be rephased back so the transporters have to add in a percentage of replicated matter when reforming individuals. Most transporter mishaps occur because of this replicated matter. If too much of the pattern leaks, or if the qunatum links get messed up, you end up with a dead person barring some external factor such as the Enemy Within.