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The motif sequence exactly matched amino acids 236 243 of the S. aureus GapC protein.
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Notably, seven "AUUUA" motif sequences exactly clustered and overlapped within the T55 region (Fig 6B, left panel).
The N-terminal Golgi binding sequence exactly matches the ALPS motif.
Motif sequence is highlighted in red and CpG in blue.
Karvelis, T. et al. Rapid characterization of CRISPR-Cas9 protospacer adjacent motif sequence elements.
Then, using the PWM of the TF, JASPAR employs the modified Needleman-Wunsch algorithm to align the motif sequence with the target sequence in that the input sequence is scanned to check whether or not the motif is enriched.
SOX3 motif sequence was enriched in its target genes with the median relative enrichment score of 0.95.
Cyanobacterial STKs are divergent in this motif with only 152 (53.3%) sequences exactly conserved in this domain, but 94.4% of them contain at least one Gly.
Proveniences of selected motif sequences.
The non-redundant protein sequences and environmental protein sequences from BLAST database were downloaded (07.02.2009) from NCBI FTP site and searched for sequences exactly matching the derived pattern without paying attention to the sequences surrounding the conserved motifs (as long as their length falls in the range specified in the pattern).
cristata sequences exactly corresponds to TU 115 (see also [15]).
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