RNAP position in function of reaction time during a simulation of the <i>MRA</i>:

Abstract

<p>We can see the kinetic behavior of the RNAP during the <i>MRA</i> for sequence D167: the evolution in time of the position of the enzyme in the DNA strand. Each region represents the space occupied by the enzyme during transcription, and the colors indicate the binding order to the DNA strand. Note that there is no overlap between the regions. Points where the regions touch each other indicate the occurrence of a collision between the molecules. The colored regions represent the space occupied by the enzymes during the reaction. Sites where molecules take longer dwell time to continue transcription and backtracking sites are easy to identify. The collisions between the molecules usually occur at the pause candidate sites.</p