Table 4. Results of combined predictions in discrimination of G⁺¹-dependent 3′ss from G⁺¹-independent 3′ss.

Combined toolspredictions	Number of values	Sensitivityb		Specificityb		Sensitivityc		Specificityc
	exceeding cut-offa	(N = 30)	95% confidence interval	(N = 30)	95% confidence interval	(N = 30)	95% confidence interval	(N = 30)	95% confidence interval
A) Py25, ME s.d., ME p.d.	2	95%	0.72–1.00	90%	0.54–0.99	93%	0.64–1.00	94%	0.68–1.00
B) Py25, ME s.d., PSSM s.d.	2	90%	0.67–0.98	70%	0.35–0.92	93%	0.64–1.00	94%	0.68–1.00
C) Py25, ME p.d., PSSM s.d.	2	89%	0.65–0.98	70%	0.35–0.92	93%	0.64–1.00	94%	0.68–1.00

^aEach combined prediction was considered positive if two or more of the three predicted values exceeded the herein proposed cut-off values of the individual tools. ^bThe sensitivity and specificity was calculated using Fu-mut set of G⁺¹ mutations, containing artificially mutated PPTs. ^cThe sensitivity and specificity calculated using combined sets: test set and borderline set of G⁺¹ mutations. Py25 = number of pyrimidines in the 25 nucleotides upstream from splice site; ME s.d. = difference between wild type and mutant sequence scores predicted by MaxEnt program; ME p.d. = difference between wild type and mutant sequence percentiles predicted by MaxEnt program; PSSM s.d.: accordingly.