Table 1.

AUC and elapsed time for 200 queries in the ASTRAL 95% data set.

						95% confidence interval
Method	Platform	Restarts	Elapsed time	AUC	Standard error	lower	upper
SHEBA	CPU	-	25 h 22 m	0.931	0.004	0.924	0.938
SA Tableau Search	CPU	4096	142 h 42 m	0.930	0.004	0.923	0.937
SA Tableau Search	GTX 285	4096	4 h 11 m	0.930	0.004	0.923	0.937
SA Tableau Search	Tesla C1060	4096	5 h 40 m	0.930	0.004	0.923	0.937
SA Tableau Search	CPU	128	4 h 18 m	0.921	0.004	0.913	0.929
SA Tableau Search	GTX 285	128	0 h 08 m	0.920	0.004	0.912	0.927
SA Tableau Search	Tesla C1060	128	0 h 11 m	0.920	0.004	0.912	0.927
QP Tableau Search	CPU	-	157 h 51 m	0.914	0.004	0.906	0.922
LOCK2	CPU	-	208 h 09 m	0.912	0.004	0.904	0.920
TableauSearch	CPU	-	1 h 11 m	0.858	0.005	0.848	0.867
TOPS	CPU	-	1 h 11 m	0.855	0.005	0.845	0.864
VAST	CPU	-	14 h 26 m	0.855	0.005	0.846	0.865
IR Tableau	CPU	-	0 h 01 m	0.854	0.005	0.844	0.864
YAKUSA	CPU	-	4 h 14 m	0.827	0.005	0.816	0.837

Area under the ROC curve (AUC) and elapsed time for different methods on the 200 query set against the ASTRAL SCOP 95% sequence identity non-redundant database. The table is sorted by AUC descending.

In the Platform column, either a GPU card is described, or CPU, which is a single core of an AMD Quad Core Opteron (2.3 GHz, 32 GB RAM) running Linux.

SARF2 is not present in this table, as it is unable to process a data set this large, and DaliLite is not present as it exceeds the CPU time limit.