Nucleotide sequence statistical analysis of pauses in RNA elongation by Escherichia coli RNA polymerase.

A convenient motif-searching program has been developed, based on a double correlation algorithm, for analysis of the pulse character of Escherichia coli transcription. Activity in the zone of minimal pause formation (-1,2 bp) is precisely determined. Oligonucleotides (di-, tri- and tetranucleotides) are randomized by their pause-generating activity.