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  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.