Classification of the predicted linkers and the low complexity regions. (A) Schematic representation of the positions of the predicted domain boundaries relative to the putative structural domains. The our classes are: correct matches at both ends (class 1), correct matches at either end (class 2), overlaps (class 4), and unmatched locations(class 3). Percentages of putative domain linkers (B) and low-complexity regions (C) in the four classes. An error window parameter, on the horizontal axis, is used to accommodate the terminal ambiguity of the assigned sequence regions. When the distance between the ends of a putative domain linker (B) or a low-complexity region (C), and the end of a putative structural domain was smaller than the error window, we considered the position of the predicted domain boundary to be correct. The error window parameter was varied from 5 to 50 residues.