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. 2014 Jun 2;15:166. doi: 10.1186/1471-2105-15-166

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Copyright © 2014 Wong et al.; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Segmentation by DSSP and by quality score for an example alignment. We show the seed alignment of PF05134.8 (T2SL, type II secretion system protein L). Below the alignment, two segmentations are presented. Red and green segment in the upper line are assigned labels “H, B, E, G, I, T, S” the DSSP [40] file for the structure 1 W97 (chain L) and together represent the respective fold-relevant part. In the lower line, the segmentation is based on alignment quality giving rise to black (fold-relevant) and grey (remnant) segments.