Table 3.

Classifcation of CASP9 targets as single or multi-domain

Predictor	Accuracy	Single Dom. Precision	Single Dom. Recall	Multi-Dom. Precision	Multi-Dom Recall
DOMPro	0.72	0.82	0.84	0.30	0.28
PPRODO	0.63	0.84	0.65	0.30	0.56
DoBo	0.78	0.90	0.81	0.50	0.68

Using DOMPro, PPRODO and our method DoBo, we classified all CASP9 targets as single or multi-domain. For PPRODO, predictions were based on the authors' documented procedure for predicting domain number [13]. For Dobo, any target which generated at least one boundary signal which was classified as a near/away boundary signal was considered to be multi-domain.