Table 4.

Percentage of correctly identified sites using different options in BioProspector

	L
crp	Options	400	500	600	700	800
	5:6:5	47	53	65	41	0
	4:6:4	29	41	24	29	0
	6:6:6	41	53	0	0	6*
	5:(5-6):5	41	35	0	6*	0
	5:(6-7):5	47	0	0	0	0
	5:(5-7):5	47	0	0	0	0
	L
abf1	Options	600	700	800	900
	4:5:4	56	44	50	33
	5:5:4	39	0	0	6*
	5:5:5	28	0	0	6*
	4:(4-5):4	78	56	0	0
	4:(5-6):4	33	39	0	0
	4:(4-6):4	50	44	0	0
	L
rap1	Options	1,400	1,500	1,600	1,700	1,800
	W = 5	0	0	0	0	0
	W = 6	0	0	0	0	0
	W = 7	60	60	47	57	47
	W = 8	73	0	0	0	0
	L
reb1	Options	500	600	700
	W = 5	79	71	71
	W = 6	71	71	86
	W = 7	79	86	79
	W = 8	93	71	79

The bimodal examples (crp, abf1) use three options: first block width, gap length and second block width. The values for these options are separated by colons in the table. For example, 5:6:5 corresponds to two blocks of five positions separated by a gap of six positions. The gap ranges are denoted by a dash. For the unimodal motifs (rap1, reb1), there is only one option for the block width, denoted by W. Entries labeled with an asterisk correspond to a trial in which the correct motif was not found, but one or two sites were correctly predicted by chance, with a spurious motif.