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Table 4
IRE experiment results
True Positive	RefSeq ID	Location by PatSearch	RSmatch			Rsearch			stemloc

			Location	Score	Rank	Location	Score	Rank	Location	Score	Rank

x	NM_000032^a	13–35	-	-	-	-	-	-	-	-	-
x	NM_014585	203–229	202–231	21	1	202–231	34.11	1	202–226	13.021	5
x	NM_003234	3479–3511	3484–3506	19	2	3480–3510	31.42	2	3486–3503	15.936	2
x	NM_003234	3883–3913	3887–3909	17	3	3876–3925	27.80	6	3889–3906	10.914	7
x	NM_003234	3950–3976	3952–3974	17	3	3952–3974	25.50	10	3954–3971	10.476	9
x	NM_003234	3996–4024	3999–4021	17	3	3999–4022	28.53	4	4042–4048	1.149	25
x	NM_000146	19–41	20–40	16	6	7–51	27.84	5	17–41	8.574	12
	NM_032484	2353–2376	2358–2373	13	7	2355–2377	22.26	11	2354–2375	16.411	1
x	NM_003234	3429–3461	3434–3456	13	7	3433–3458	26.40	8	3436–3453	6.218	15
	NM_018992	2182–2205	2186–2202	12	9	2186–2202	18.43	19	2186–2202	11.459	6
	NM_003449	2160–2180	2163–2178	11	10	2160–2180	26.27	9	2161–2181	13.198	4
	NM_002081	3449–3469	3452–3467	11	10	3446–3472	20.47	17	3450–3470	8.290	14
	NM_173649	1371–1398	1431–1446	7	12	1372–1398	18.83	18	1376–1396	8.493	13
	NM_033337	1202–1226	1253–1257	5	13	1202–1227	21.52	14	1202–1227	4.540	18
	NM_001234	1106–1130	1157–1161	5	13	1106–1131	21.52	15	1106–11331	4.540	19
	NM_153706	174–194	108–119	5	13	171–198	17.49	20	219–234	4.400	20
	NM_003607	6892–6914	6851–6854	4	16	6892–6914	21.98	12	6930–6950	10.827	8
	NM_002086	82–102	126–129	4	16	94–117	16.48	22	101–125	2.833	22
	NM_012256	2594–2617	2571–2574	4	16	2536–2570	20.76	16	2590–2606	1.770	24
x	NM_001098	1–23	17–19	3	19	1–23	30.67	3	3–20	14.185	3
	NM_006731	4439–4465	4487–4489	3	19	4442–4462	21.65	13	4443–4460	9.920	10
	NM_003672	2556–2576	2592–2594	3	19	2547–2587	26.44	7	2558–2574	9.049	11
	NM_018234	2038–2058	2176–2178	3	19	2035–2061	14.11	24	2046–2058	4.986	16
	NM_024076	1799–1822	1816–1818	3	19	1800–1821	15.00	23	1832–1850	4.876	17
	NM_000877	3274–3294	3336–3338	3	19	3275–3293	13.81	25	3302–3321	3.182	21
	NM_003675	2–27	27–31	3	19	1–29	16.74	21	21–31	1.980	23
	NM_032323	1924–1944	1990–1992	3	19	1925–1943	12.43	26	1928–1948	0.678	26

^aNM_000032 is used as the query structure for RSmatch, Rsearch, and stemloc. Thus there is no value (shown as "-").
Liu et al. BMC Bioinformatics 2005 6:89 doi:10.1186/1471-2105-6-89

Table 4