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Our approach first performs bounding box alignment to adapt proposals to potential object boundaries, and then diversifies the proposals via multi-thresholding superpixel merging.

Single particle EM data (i ) Representative class averages used in the 3D reconstruction after 10 iterations of multi-reference alignment and refinement box size shown.

In each alignment a TATA box was identified on genomic DNA 47 and 45 bp upstream of the 5'end of UCP2A and UCP2B, respectively.

An alignment of MADS-box proteins (Type I and Type II) from different plants is shown in Figure  1.

Even though AluSg/x-1110454 was mapped to the left arm of the uniform sequence of Alu in our multiple sequencing alignments, its B box was severely mutated.

(A ) Multiple-sequence alignment of T-box DBDs from C. elegans, the protist C. owczarzaki CoBra and mouse Eomes, and TBX3.

In a positive prediction, the alignment of the boxes, linker and some flanking regions was required to have a good quality (see below).

The cre sites of the genes that were activated in this study (ilvB opuE and ycbP) were not included in the Weight Matrix generation nor cre alignment as cre boxes that are responsible for gene expression activation may need additional (upstream) sequences, as shown for instance for ackA[ 23].