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## Methods  ###Plant Genome Survey and motif extraction.  the The  TAIR10 Arabidopsis thaliana genome build \cite{eyer_Muller_Ploetz_et_al__2007} and the IRGSP 1.0 Japanese Rice Genome survey orfs were surveyed from TAIR and Missouri State MSU.edu Rice Genome Annotation Project  site \cite{rtz_Tanaka_Wu_Zhou_et_al__2013}. In order to capture transcription initiation motifs, the Gene description GFF files were used to extract the 25 bases before and 18 bases after the start codon.  ###Chloroplast survey and motif extraction.