Table VI. Performance of the best classifier of AtSubP on the complete Arabidopsis proteome retrieved from TAIR at various cutoff scores.

Data used were a total of 27,379 protein sequences retrieved from TAIR release 9. The higher the cutoff score, the better the prediction confidence level.

Subcellular Location	Predictions at Threshold
	>0.0	0.1	0.2	0.3	0.4	0.5	0.6	0.7	0.8	0.9	1.0
Chloroplast	2,897	2,554	2,263	1,944	1,708	1,478	1,281	1,080	911	773	607
Cytoplasm	2,650	2,496	2,326	2,174	2,042	1,883	1,727	1,557	1,414	1,253	1,046
Golgi apparatus	359	337	312	287	264	250	218	192	164	139	83
Mitochondrion	3,163	2,825	2,518	2,218	1,954	1,718	1,477	1,282	1,119	953	732
Extracellular	2,572	2,383	2,177	1,976	1,767	1,619	1,473	1,333	1,205	1,082	883
Nucleus	8,547	8,053	7,553	7,100	6,643	6,224	5,817	5,428	5,060	4,664	4,120
Cell membrane	1,461	1,425	1,377	1,319	1,244	1,161	1,046	938	830	695	511
Total	21,649	20,073	18,526	17,018	15,622	14,333	13,039	11,810	10,703	9,559	7,982