Time series: theory and methods
Time series: theory and methods
Fundamentals of statistical signal processing: estimation theory
Fundamentals of statistical signal processing: estimation theory
SAS System for Forecasting Time Series
SAS System for Forecasting Time Series
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A decoding algorithm that mechanistically models the progressive alignments that arise as the mRNA moves past the rRNA tail during translation elongation is tested. Each of these alignments provides an opportunity for hybridization between the single-stranded, 3′ -terminal nucleotides of the 16S rRNA and the spatially accessible window of mRNA sequence, from which a free energy value can be calculated. Using this algorithm, we show that a periodic energetic pattern of frequency 1/3 is revealed. This periodic signal exists in the majority of coding regions of eubacterial genes, but not in the noncoding regions encoding the 16S and 23S rRNAs. Signal analysis reveals that the population of coding regions of each bacterial species has a mean phase that is correlated in a statistically significant way with species (G+C) content. These results suggest that the periodic signal could function as a synchronization signal for the maintenance of reading frame and that codon usage provides a mechanism for manipulation of signal phase.