Figure 10
From: EVEREST: automatic identification and classification of protein domains in all protein sequences
A schematic representation of the repeat removal process. A. Two copies of the protein are shown. Colored area indicates a repeat region. Blue marks the first repeat unit, orange marks the last and green the rest. The diagonal lines mark the alignment that matches the repeat region to itself. The first repeat unit starts with the first aligned position and ends just before the position it aligns to. The last repeat unit ends with the last position aligned and begins right after the position it aligns to. B. The representation of the new sequence, after all but the first and last repeat units are "spliced out". For an extreme example, protein [Swiss-Prot:P08519] that contains 38 units of the Kringle domain, is reduced from 4548 amino acids to 467 amino acids following this step.