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The most frequent type of SSR motif within each di-, tri-, and tetranucleotide repeats was further identified for all the species.
Their relative abundance and density [number of simple sequence repeats (SSRs)/Mbp of the genome] and the most frequent type of SSR motif within each di-, tri-, and tetranucleotide repeats were determined (Tables S1 and S2).
The five copies of MTCM1 motif within each repeat show a striking periodicity of approximately every 54 bp (Fig. 7).
Using a PWM, the most likely location of the motif within each sequence can be calculated [ 13].
We created 5 bp bins of the absolute distance from the peakMax, and counted the number of peaks with a top scoring motif within each bin.
Previous work in the model plant Arabidopsis has shown that chitin binds to a single lysin motif within each plant receptor.
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Our analysis ultimately shows how only a small subset of motifs, within each motif class, originates the statistical signature that helped unravel these structures in E. coli's transcriptional network.
Sequence motifs within each segment that were conserved across the nine species were identified using MEME (Bailey et al. 2006).
This motif occurs 16 times on the t KIR haplotype, once every ∼5 kb on average and with typically three motifs within each KIR gene.
For each sub-set, a second iteration of pattern finding was performed to determine if conserved motifs within each sub-set existed.
Groups 1, 2, 3, 4, 6 and 7, which share specific motifs within each group, are considered to be hydrophilic or "typical" LEA proteins.
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