Motif HL_67042.14 Version HL_67042.14 of this group appears in releases 1.15 to 1.15

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3		4		5		6	1-6	2-4	2-5	2-6
1	HL_3Q1Q_001➜	3Q1Q	0.6771	0		B	RNase P RNA	A	29	C	30	A	31	C	32	C	33	U	34	cWW			ncSW
2	HL_4CUX_015➜	4CUX	0.6604	0		2	18S RRNA	C	569	A	570	G	571	C	572	C	573	G	574	cWW
3	HL_4BPP_015➜	4BPP	0.6123	0		A	18S RRNA	C	563	A	564	G	565	C	566	C	567	G	568	cWW
4	HL_3U5F_015➜	3U5F	0.6059	0		6	18S rRNA	C	569	A	570	G	571	C	572	C	573	G	574	cWW
5	HL_3U5F_033➜	3U5F	0.5558	0		6	18S rRNA	C	1501	G	1502	A	1503	G	1504	A	1505	G	1506	cWW		tSH
6	HL_4CUX_033➜	4CUX	0.5999	0		2	18S RRNA	C	1501	G	1502	A	1503	G	1504	A	1505	G	1506	cWW		tSH
7	HL_3AM1_002➜	3AM1	0.4687	0	Other HL	B	ASL-truncated tRNA	C	32	U	33	U	34	C	35	G	36	G	37	cWW
8	HL_4A1B_052➜	4A1B	0.5708	0		1	26S RRNA	U	2531	G	2532	C	2533	A	2534	A	2535	A	2536	cWW		tSH
9	HL_1S72_036➜	1S72	0.4795	1		0	LSU rRNA	G	1468	C	1469	A	1470	A	1471	C	1472	C	1474	cWW		ntWH
10	HL_1X8W_003➜	1X8W	0.3855	0		A	Tetrahymena ribozyme RNA	G	234	G	235	A	236	G	237	A	238	C	240	cWW		ntSH
11	HL_2OIU_005➜	2OIU	0.4198	0		Q	L1 Ribozyme RNA Ligase	C	28	G	29	A	30	A	31	A	32	G	33	cWW		ntSH	ncSW
12	HL_4IOA_005➜	4IOA	0.3619	0	Other HL	X	LSU rRNA	C	146	G	147	C	148	A	149	A	150	G	151	cWW		ntSH
13	HL_3U5H_039➜	3U5H	0.5229	0		5	25S rRNA	A	1760	C	1761	C	1762	U	1763	U	1764	U	1765	cWW
14	HL_4BPP_009➜	4BPP	0.6309	0		A	18S RRNA	U	359	U	360	A	361	G	362	G	363	G	364	cWW
15	HL_1FJG_013➜	1FJG	0.5008	0		A	SSU rRNA	C	522	A	523	G	524	C	525	C	526	G	527	cWW
16	HL_2AW7_013➜	2AW7	0.5299	0		A	16S ribosomal RNA	C	522	A	523	G	524	C	525	C	526	G	527	cWW
17	HL_4A1B_046➜	4A1B	0.4282	0		1	26S RRNA	U	2160	C	2161	A	2162	A	2163	C	2164	A	2165	cWW
18	HL_4CUX_037➜	4CUX	0.5674	0		2	18S RRNA	G	1778	U	1779	G	1780	A	1781	A	1782	C	1783	cWW
19	HL_4BPP_036➜	4BPP	0.6252	0		A	18S RRNA	G	1731	U	1732	G	1733	A	1734	A	1735	C	1736	cWW
20	HL_1VW3_027➜	1VW3	0.6318	0		A	21S ribosomal RNA	A	1384	U	1385	A	1386	A	1387	A	1388	U	1389	cWW
21	HL_1MFQ_001➜	1MFQ	0.4964	0	Other HL	A	SRP RNA	G	146	G	147	G	148	A	149	G	150	C	151	cWW
22	HL_1JID_001➜	1JID	0.4682	0	Other HL	B	HELIX 6 OF HUMAN SRP RNA	G	146	G	147	G	148	A	149	G	150	C	151	cWW
23	HL_3U5F_037➜	3U5F	0.5400	0		6	18S rRNA	G	1778	U	1779	G	1780	A	1781	A	1782	C	1783	cWW
24	HL_2AW7_032➜	2AW7	0.4706	0		A	16S ribosomal RNA	G	1515	G	1516	G	1517	A	1518	A	1519	C	1520	cWW
25	HL_1FJG_032➜	1FJG	0.5828	0		A	SSU rRNA	C	1515	G	1516	G	1517	A	1518	A	1519	G	1520	cWW
26	HL_4IOA_033➜	4IOA	0.5690	0	Other HL	X	LSU rRNA	C	1376	G	1377	A	1378	A	1379	C	1380	G	1381	cWW
27	HL_2QBG_036➜	2QBG	0.4751	0		B	23S rRNA	C	1363	G	1364	A	1365	A	1366	A	1367	G	1368	cWW		ntSH
28	HL_4NVV_033➜	4NVV	0.4577	0		A	23S Ribosomal RNA	C	1409	G	1410	A	1411	A	1412	A	1413	G	1414	cWW		ntSH
29	HL_3NPN_001➜	3NPN	0.4190	0		A	S-ADENOSYLHOMOCYSTEINE RIBOSWITCH	C	20	G	21	A	22	A	23	A	24	G	25	cWW		ntSH
30	HL_4IOA_030➜	4IOA	0.6347	0	Other HL	X	LSU rRNA	C	1235	G	1236	G	1237	A	1238	A	1239	G	1240	cWW
31	HL_2QBG_033➜	2QBG	0.5671	0		B	23S rRNA	U	1222	G	1223	U	1224	G	1225	A	1226	G	1227	cWW		ntSH
32	HL_4CUX_003➜	4CUX	0.5132	1		2	18S RRNA	G	154	U	155	A	156	A	157	U	158	C	160	cWW
33	HL_3U5F_003➜	3U5F	0.5345	1		6	18S rRNA	G	154	U	155	A	156	A	157	U	158	C	160	cWW
34	HL_1U6B_004➜	1U6B	0.4472	0	Other HL	B	197-MER	C	153	A	154	A	155	A	156	C	157	G	158	cWW
35	HL_4CUV_033➜	4CUV	0.4408	0		1	25S RRNA	G	1544	A	1545	A	1546	G	1547	C	1548	U	1549	cWW
36	HL_3U5H_033➜	3U5H	0.4607	0		5	25S rRNA	G	1544	A	1545	A	1546	G	1547	C	1548	U	1549	cWW
37	HL_3ADC_003➜	3ADC	0.3848	0		C	Selenocysteine transfer RNA	C	47\|\|\|D	G	47\|\|\|E	A	47\|\|\|F	G	47\|\|\|G	U	47\|\|\|H	G	47\|\|\|I	cWW
38	HL_1S72_033➜	1S72	0.4357	0		0	LSU rRNA	U	1326	G	1327	A	1328	A	1329	A	1330	A	1331	cWW		ntSH
39	HL_4CUV_030➜	4CUV	0.4190	0		1	25S RRNA	C	1403	G	1404	U	1405	A	1406	A	1407	G	1408	cWW		ntSH
40	HL_4A1B_029➜	4A1B	0.4636	0		1	26S RRNA	C	1429	G	1430	U	1431	G	1432	A	1433	G	1434	cWW		ntSH
41	HL_3U5H_030➜	3U5H	0.4192	0		5	25S rRNA	C	1403	G	1404	U	1405	A	1406	A	1407	G	1408	cWW		ntSH
42	HL_1FJG_024➜	1FJG	0.3889	0		A	SSU rRNA	C	1076	G	1077	U	1078	G	1079	A	1080	G	1081	cWW		ntSH
43	HL_2BTE_003➜	2BTE	0.4119	0	GNRA	B	tRNA	C	46	G	47	C	47\|\|\|A	A	47\|\|\|B	A	47\|\|\|C	G	47\|\|\|D	cWW		ntSH
44	HL_4LVZ_002➜	4LVZ	0.3573	0		A	THF riboswitch	C	58	G	59	A	60	G	61	A	62	G	63	cWW		ntSH
45	HL_1Q96_003➜	1Q96	0.3977	0		C	sarcin/ricin 28S rRNA	U	13	G	14	A	15	G	16	A	17	A	18	cWW		ntSH
46	HL_4PQV_001➜	4PQV	0.3561	0	GNRA	A	Flavivirus 3' UTR stem loop IV	C	13	G	14	A	15	A	16	A	17	G	18	cWW		ntSH
47	HL_2OIU_003➜	2OIU	0.2787	0	GNRA	P	L1 Ribozyme RNA Ligase	C	59	G	60	A	61	A	62	A	63	G	64	cWW		ntSH
48	HL_3E5C_002➜	3E5C	0.3084	0	GNRA	A	SMK box (SAM-III) Riboswitch	C	41	G	42	A	43	A	44	A	45	G	46	cWW		ntSH
49	HL_3NKB_002➜	3NKB	0.3069	0	GNRA	B	The hepatitis delta virus ribozyme	C	49	G	50	A	51	A	52	A	53	G	54	cWW		ntSH
50	HL_4IOA_014➜	4IOA	0.3140	0	GNRA	X	LSU rRNA	C	473	G	474	U	475	G	476	A	477	G	478	cWW		ntSH
51	HL_4NVV_014➜	4NVV	0.2973	0		A	23S Ribosomal RNA	C	488	G	489	U	490	G	491	A	492	G	493	cWW		ntSH
52	HL_2QBG_016➜	2QBG	0.2768	0		B	23S rRNA	C	462	G	463	U	464	G	465	A	466	G	467	cWW		ntSH
53	HL_1VW3_009➜	1VW3	0.2607	0		A	21S ribosomal RNA	C	393	G	394	U	395	A	396	A	397	G	398	cWW		ntSH
54	HL_2AW7_028➜	2AW7	0.3763	0		A	16S ribosomal RNA	C	1265	G	1266	C	1267	G	1268	A	1269	G	1270	cWW		ntSH
55	HL_4NVV_067➜	4NVV	0.3643	0		A	23S Ribosomal RNA	C	2866	G	2867	C	2868	G	2869	A	2870	G	2871	cWW		ntSH
56	HL_2QBG_065➜	2QBG	0.3064	0		B	23S rRNA	C	2594	G	2595	U	2596	G	2597	A	2598	G	2599	cWW		ntSH
57	HL_1S72_065➜	1S72	0.3253	0		0	LSU rRNA	C	2629	G	2630	U	2631	G	2632	A	2633	G	2634	cWW		ntSH
58	HL_3U5H_065➜	3U5H	0.2916	0		5	25S rRNA	C	2963	G	2964	U	2965	G	2966	A	2967	G	2968	cWW		ntSH
59	HL_1S72_017➜	1S72	0.3141	0		0	LSU rRNA	C	576	G	577	C	578	G	579	A	580	G	581	cWW		ntSH
60	HL_4A1B_010➜	4A1B	0.3212	0		1	26S RRNA	U	356	G	357	C	358	G	359	A	360	A	361	cWW		ntSH
61	HL_1S72_015➜	1S72	0.3347	0		0	LSU rRNA	U	468	G	469	U	470	G	471	A	472	A	473	cWW		ntSH
62	HL_2AW7_024➜	2AW7	0.3687	0		A	16S ribosomal RNA	U	1076	G	1077	U	1078	G	1079	A	1080	A	1081	cWW		ntSH
63	HL_3W3S_003➜	3W3S	0.3281	0	GNRA	B	Selenocysteine transfer RNA	C	47\|\|\|F	G	47\|\|\|G	C	47\|\|\|H	A	47\|\|\|I	A	47\|\|\|J	G	47\|\|\|K	cWW		ntSH
64	HL_2BTE_007➜	2BTE	0.3482	0		E	tRNA	C	46	G	47	C	47\|\|\|A	A	47\|\|\|B	A	47\|\|\|C	G	47\|\|\|D	cWW		ntSH
65	HL_4NVV_030➜	4NVV	0.3530	0		A	23S Ribosomal RNA	C	1268	G	1269	C	1270	G	1271	A	1272	G	1273	cWW		ntSH
66	HL_4CUV_065➜	4CUV	0.3363	0		1	25S RRNA	C	2963	G	2964	U	2965	G	2966	A	2967	G	2968	cWW		ntSH
67	HL_4NVV_061➜	4NVV	0.3245	0		A	23S Ribosomal RNA	C	2606	G	2607	U	2608	G	2609	A	2610	G	2611	cWW		tSH
68	HL_4A1B_064➜	4A1B	0.3365	0		1	26S RRNA	C	2951	G	2952	U	2953	G	2954	A	2955	G	2956	cWW		ntSH
69	HL_4IOA_062➜	4IOA	0.3342	0	GNRA	X	LSU rRNA	C	2573	G	2574	U	2575	G	2576	A	2577	G	2578	cWW		tSH
70	HL_4BPP_032➜	4BPP	0.2737	0		A	18S RRNA	U	1472	G	1473	G	1474	G	1475	A	1476	A	1477	cWW		ntSH
71	HL_488D_002➜	488D	0.3190	0		D	UNCLEAVED RNA SUBSTRATE	C	154	G	31\|\|\|L	U	32\|\|\|L	A	33\|\|\|L	A	34\|\|\|L	G	164	cWW		ntSH
72	HL_488D_001➜	488D	0.3190	0		B	FIRST RNA FRAGMENT OF CLEAVED SUBSTRATE	C	154	G	31\|\|\|L	U	32\|\|\|L	A	33\|\|\|L	A	34\|\|\|L	G	164	cWW		ntSH
73	HL_3SUX_002➜	3SUX	0.2204	0	GNRA	X	THF riboswitch	C	65	G	66	A	67	A	68	A	69	G	70	cWW		ntSH
74	HL_1S72_060➜	1S72	0.2468	0		0	LSU rRNA	C	2411	G	2412	A	2413	A	2414	A	2415	G	2416	cWW		ntSH
75	HL_4A1B_017➜	4A1B	0.2414	0		1	26S RRNA	C	732	G	733	A	734	A	735	A	736	G	737	cWW		ntSH
76	HL_4IOA_019➜	4IOA	0.2937	0	GNRA	X	LSU rRNA	C	640	G	641	A	642	A	643	A	644	G	645	cWW		ntSH
77	HL_4IOA_070➜	4IOA	0.3695	0	GNRA	Y	5S rRNA	C	88	G	89	C	90	A	91	G	92	G	93	cWW		ntSH
78	HL_2QBG_060➜	2QBG	0.2205	0		B	23S rRNA	C	2374	G	2375	A	2376	A	2377	A	2378	G	2379	cWW		ntSH
79	HL_4P8Z_005➜	4P8Z	0.2543	0		A	Lariat capping ribozyme	C	157	G	158	A	159	A	160	A	161	G	162	cWW		ntSH
80	HL_4P9R_006➜	4P9R	0.3012	0		A	RNA (189-MER)	C	567	G	568	A	569	A	570	A	571	G	572	cWW		ntSH
81	HL_2ZZM_003➜	2ZZM	0.3035	0	GNRA	B	RNA (84-MER)	C	47	G	47\|\|\|A	U	47\|\|\|B	A	47\|\|\|C	G	47\|\|\|D	G	47\|\|\|E	cWW		ntSH
82	HL_4IOA_046➜	4IOA	0.3576	0	GNRA	X	LSU rRNA	U	1856	G	1857	C	1858	A	1859	A	1860	G	1861	cWW		ntSH
83	HL_4CUV_016➜	4CUV	0.3273	0		1	25S RRNA	U	707	G	708	A	709	A	710	A	711	G	712	cWW		ntSH
84	HL_3U5H_016➜	3U5H	0.3240	0		5	25S rRNA	U	707	G	708	A	709	A	710	A	711	G	712	cWW		ntSH
85	HL_4NVV_045➜	4NVV	0.2673	0		A	23S Ribosomal RNA	U	1895	G	1896	C	1897	A	1898	A	1899	G	1900	cWW		ntSH
86	HL_3U5H_060➜	3U5H	0.2907	0		5	25S rRNA	U	2744	G	2745	A	2746	A	2747	A	2748	G	2749	cWW		ntSH
87	HL_4CUV_060➜	4CUV	0.3151	0		1	25S RRNA	U	2744	G	2745	A	2746	A	2747	A	2748	G	2749	cWW		ntSH
88	HL_2QBG_059➜	2QBG	0.3176	0		B	23S rRNA	U	2356	G	2357	A	2358	C	2359	G	2360	G	2361	cWW		ntSH
89	HL_4C7O_001➜	4C7O	0.3436	0	Other HL	E	SRP RNA	C	19	G	20	G	21	A	22	A	23	G	24	cWW		ntSH
90	HL_4CUX_022➜	4CUX	0.3838	0		2	18S RRNA	C	937	G	938	A	939	A	940	A	941	G	942	cWW		ntSH
91	HL_3U5F_022➜	3U5F	0.3624	0		6	18S rRNA	C	937	G	938	A	939	A	940	A	941	G	942	cWW		ntSH
92	HL_4BPP_021➜	4BPP	0.3032	0		A	18S RRNA	C	915	G	916	A	917	A	918	A	919	G	920	cWW		ntSH
93	HL_4L81_004➜	4L81	0.3438	0		A	SAM-I/IV variant riboswitch aptamer domain	C	76	G	77	A	78	G	79	A	80	G	81	cWW		ntSH
94	HL_1G1X_003➜	1G1X	0.3807	0	Other HL	E	16S RIBOSOMAL RNA	C	726	G	727	A	728	A	729	G	730	G	731	cWW		ntSH
95	HL_2AW7_016➜	2AW7	0.3533	0		A	16S ribosomal RNA	C	726	G	727	A	728	A	729	G	730	G	731	cWW		ntSH
96	HL_1FJG_016➜	1FJG	0.3954	0		A	SSU rRNA	C	726	G	727	A	728	A	729	G	730	G	731	cWW		ntSH
97	HL_1Y0Q_004➜	1Y0Q	0.3277	0		A	Group I catalytic intron	C	130	G	131	A	132	U	133	A	134	G	135	cWW		tSH
98	HL_2Y9B_002➜	2Y9B	0.2595	0		V	HOMO SAPIENS U4A SNRNA	G	850	G	851	U	852	A	853	A	854	C	855	cWW		tSH
99	HL_2AW7_020➜	2AW7	0.2262	0		A	16S ribosomal RNA	C	897	G	898	C	899	A	900	A	901	G	902	cWW		tSH
100	HL_1S72_048➜	1S72	0.2132	0		0	LSU rRNA	C	1862	G	1863	C	1864	A	1865	A	1866	G	1867	cWW		tSH
101	HL_1FJG_020➜	1FJG	0.1588	0		A	SSU rRNA	C	897	G	898	C	899	A	900	A	901	G	902	cWW		tSH
102	HL_3U5F_026➜	3U5F	0.1714	0		6	18S rRNA	C	1121	G	1122	C	1123	A	1124	A	1125	G	1126	cWW		tSH
103	HL_4BPP_025➜	4BPP	0.1995	0		A	18S RRNA	C	1094	G	1095	C	1096	A	1097	A	1098	G	1099	cWW		tSH
104	HL_4CUX_026➜	4CUX	0.2321	0		2	18S RRNA	C	1121	G	1122	C	1123	A	1124	A	1125	G	1126	cWW		ntSH
105	HL_1Y0Q_003➜	1Y0Q	0.2923	0		A	Group I catalytic intron	A	101	G	102	U	103	A	104	A	105	U	106	cWW		tSH
106	HL_4OO8_003➜	4OO8	0.2453	0		B	RNA (97-MER)	U	72	G	73	A	74	A	75	A	76	A	77	cWW		tSH
107	HL_1VW3_054➜	1VW3	0.2927	0		A	21S ribosomal RNA	U	2861	G	2862	U	2863	G	2864	A	2865	A	2866	cWW		tSH
108	HL_4CUV_036➜	4CUV	0.3443	0		1	25S RRNA	G	1634	G	1635	U	1636	A	1637	A	1638	C	1639	cWW		ntSH
109	HL_3U5H_036➜	3U5H	0.3593	0		5	25S rRNA	G	1634	G	1635	U	1636	A	1637	A	1638	C	1639	cWW		ntSH
110	HL_4A1B_035➜	4A1B	0.3258	0		1	26S RRNA	G	1658	G	1659	U	1660	A	1661	A	1662	C	1663	cWW		ntSH
111	HL_3U5F_029➜	3U5F	0.3268	0		6	18S rRNA	A	1296	G	1297	U	1298	G	1299	A	1300	U	1301	cWW		ntSH
112	HL_4BPP_028➜	4BPP	0.3590	0		A	18S RRNA	A	1268	G	1269	U	1270	G	1271	A	1272	U	1273	cWW		ntSH
113	HL_4CUV_010➜	4CUV	0.3126	0		1	25S RRNA	A	357	G	358	U	359	G	360	A	361	U	362	cWW		ntSH
114	HL_3U5H_010➜	3U5H	0.2949	0		5	25S rRNA	A	357	G	358	U	359	G	360	A	361	U	362	cWW		ntSH
115	HL_2NZ4_016➜	2NZ4	0.3013	0		S	GlmS ribozyme	G	108	G	109	U	110	G	111	A	112	C	113	cWW		ntSH
116	HL_2NZ4_012➜	2NZ4	0.2529	0		R	GlmS ribozyme	G	108	G	109	U	110	G	111	A	112	C	113	cWW		ntSH
117	HL_2HO7_004➜	2HO7	0.3451	0		B	glmS ribozyme RNA	G	113	G	114	C	115	G	116	A	117	C	118	cWW		ntSH
118	HL_4FAW_003➜	4FAW	0.3085	0		A	Group II catalytic intron D1-D4-1	G	89	G	90	C	91	G	92	A	93	C	94	cWW		ntSH
119	HL_1FJG_028➜	1FJG	0.3042	0		A	SSU rRNA	G	1265	G	1266	C	1267	A	1268	A	1269	C	1270	cWW		ntSH
120	HL_3Q1Q_003➜	3Q1Q	0.3066	0		B	RNase P RNA	G	92	G	93	U	94	G	95	A	96	C	97	cWW		ntSH
121	HL_4IOA_068➜	4IOA	0.2828	0	Other HL	X	LSU rRNA	A	2831	G	2832	C	2833	A	2834	A	2835	U	2836	cWW		ntSH
122	HL_3Q1Q_006➜	3Q1Q	0.3849	0		B	RNase P RNA	G	187	G	188	C	189	A	190	A	191	C	192	cWW		ntSH
123	HL_3Q1Q_008➜	3Q1Q	0.2677	0		B	RNase P RNA	G	284	G	285	U	286	A	287	A	288	C	289	cWW		ntSH
124	HL_2QBG_071➜	2QBG	0.2720	0		B	23S rRNA	A	2856	G	2857	C	2858	G	2859	A	2860	U	2861	cWW		tSH
125	HL_4NVV_019➜	4NVV	0.2276	0		A	23S Ribosomal RNA	G	654	G	655	A	656	A	657	A	658	C	659	cWW		ntSH
126	HL_4IOA_057➜	4IOA	0.3289	0	GNRA	X	LSU rRNA	G	2353	G	2354	A	2355	A	2356	A	2357	C	2358	cWW		tSH
127	HL_4NVV_069➜	4NVV	0.3443	0		B	5S Ribosomal RNA	G	86	G	87	C	88	G	89	A	90	C	91	cWW		ntSH
128	HL_1Y0Q_007➜	1Y0Q	0.3173	0		A	Group I catalytic intron	G	204	G	205	A	206	A	207	A	208	C	209	cWW		tSH
129	HL_4A1B_020➜	4A1B	0.2588	0		1	26S RRNA	G	869	G	870	A	871	A	872	A	873	C	874	cWW		tSH
130	HL_1FJG_003➜	1FJG	0.2569	0		A	SSU rRNA	G	158	G	159	A	160	A	161	A	162	C	163	cWW		tSH
131	HL_1S72_040➜	1S72	0.2587	0		0	LSU rRNA	G	1628	G	1629	A	1630	A	1631	A	1632	C	1633	cWW		tSH
132	HL_1X8W_001➜	1X8W	0.2621	0		A	Tetrahymena ribozyme RNA	G	149	G	150	A	151	A	152	A	153	C	154	cWW	ntSH	ntSH
133	HL_1U9S_002➜	1U9S	0.2702	0	GNRA	A	RIBONUCLEASE P	G	99	G	100	U	101	A	102	A	103	C	104	cWW		ntSH
134	HL_1U9S_004➜	1U9S	0.2391	0	GNRA	A	RIBONUCLEASE P	G	204	G	205	C	206	A	207	A	208	C	209	cWW		tSH
135	HL_2QBG_021➜	2QBG	0.2338	0		B	23S rRNA	G	629	G	630	A	631	A	632	A	633	C	634	cWW		tSH
136	HL_1UN6_004➜	1UN6	0.1899	0	GNRA	F	5S RIBOSOMAL RNA	G	82	G	83	A	84	A	85	A	86	C	94	cWW		ntSH
137	HL_4B5R_002➜	4B5R	0.2042	0		A	SAM-I riboswitch	A	49	G	50	A	51	A	52	A	53	U	54	cWW		ntSH
138	HL_3U5H_074➜	3U5H	0.2439	0		7	5S rRNA	G	88	G	89	U	90	G	91	A	92	C	93	cWW		tSH
139	HL_1MFQ_002➜	1MFQ	0.2715	0	GNRA	A	SRP RNA	G	197	G	198	A	199	A	200	A	201	C	202	cWW		tSH
140	HL_4CUV_074➜	4CUV	0.2893	0		3	5S RRNA	G	88	G	89	U	90	G	91	A	92	C	93	cWW		tSH
141	HL_1S72_070➜	1S72	0.2701	0		0	LSU rRNA	G	2876	G	2877	U	2878	A	2879	A	2880	C	2881	cWW		tSH
142	HL_3E5C_001➜	3E5C	0.2605	0	GNRA	A	SMK box (SAM-III) Riboswitch	G	18	G	19	A	20	A	21	A	22	C	23	cWW		tSH
143	HL_4A1C_006➜	4A1C	0.2293	0		3	5S RRNA	G	86	G	87	G	88	G	89	A	90	C	91	cWW		tSH
144	HL_3IAB_001➜	3IAB	0.2842	0		R	P3 domain of the RNA component of RNase MRP	G	78	G	79	A	80	A	81	A	82	C	83	cWW		tSH
145	HL_1S72_020➜	1S72	0.2563	0		0	LSU rRNA	G	690	G	691	A	692	A	693	A	694	C	695	cWW		tSH
146	HL_4L81_001➜	4L81	0.2621	0		A	SAM-I/IV variant riboswitch aptamer domain	G	13	G	14	A	15	G	16	A	17	C	18	cWW		tSH
147	HL_4FAW_006➜	4FAW	0.2301	0		A	Group II catalytic intron D1-D4-1	G	274	G	275	A	276	A	277	A	278	C	279	cWW		tSH
148	HL_3GX5_003➜	3GX5	0.2370	0		A	RNA (94-MER)	G	73	G	74	A	75	A	76	A	77	C	78	cWW		tSH
149	HL_4AOB_003➜	4AOB	0.2155	0	GNRA	A	SAM-I riboswitch	G	73	G	74	A	75	A	76	A	77	C	78	cWW		tSH
150	HL_1GID_004➜	1GID	0.2410	0		B	P4-P6 RNA RIBOZYME DOMAIN	G	149	G	150	A	151	A	152	A	153	C	154	cWW		tSH
151	HL_1GID_001➜	1GID	0.2439	0		A	P4-P6 RNA RIBOZYME DOMAIN	G	149	G	150	A	151	A	152	A	153	C	154	cWW		tSH
152	HL_4B5R_003➜	4B5R	0.2134	0		A	SAM-I riboswitch	G	73	G	74	A	75	A	76	A	77	C	78	cWW		tSH
153	HL_4L81_003➜	4L81	0.2105	0		A	SAM-I/IV variant riboswitch aptamer domain	G	57	G	58	A	59	G	60	A	61	C	62	cWW		tSH
154	HL_3GX5_002➜	3GX5	0.1635	0		A	RNA (94-MER)	A	49	G	50	A	51	A	52	A	53	U	54	cWW		tSH
155	HL_4AOB_002➜	4AOB	0.2110	0	GNRA	A	SAM-I riboswitch	A	49	A	50	A	51	A	52	A	53	U	54	cWW		tSH
156	HL_3MOJ_001➜	3MOJ	0.2620	0	GNRA	A	LSU rRNA	G	2529	G	2530	A	2531	A	2532	A	2533	C	2534	cWW		tSH
157	HL_3U5H_019➜	3U5H	0.2336	0		5	25S rRNA	G	844	G	845	A	846	A	847	A	848	C	849	cWW		tSH
158	HL_3RW6_001➜	3RW6	0.2823	0	GNRA	H	constitutive transport element(CTE)of Mason-Pfizer monkey virus RNA	G	27	G	28	A	29	A	30	A	31	C	32	cWW		tSH
159	HL_2AW7_003➜	2AW7	0.2860	0		A	16S ribosomal RNA	G	158	G	159	A	160	A	161	A	162	C	163	cWW		tSH
160	HL_3U5H_047➜	3U5H	0.2462	1		5	25S rRNA	A	2164	G	2165	A	2166	A	2167	A	2168	U	2170	cWW		tSH
161	HL_4CUV_047➜	4CUV	0.2316	1		1	25S RRNA	A	2164	G	2165	A	2166	A	2167	A	2168	U	2170	cWW		tSH
162	HL_2QBZ_001➜	2QBZ	0.2251	0		X	M-Box RNA, ykoK riboswitch aptamer	C	68	C	69	A	70	A	71	A	72	G	73	cWW		ntSH
163	HL_3Q1Q_004➜	3Q1Q	0.2071	0		B	RNase P RNA	G	135	G	136	A	137	A	138	A	139	C	140	cWW		tSH
164	HL_3T4B_001➜	3T4B	0.2471	0		A	HCV IRES pseudoknot domain plus crystallization module	G	9	G	10	A	11	A	12	A	13	C	14	cWW		ntSH
165	HL_1NBS_007➜	1NBS	0.2685	0	GNRA	B	RNase P class B	A	204	G	205	A	206	A	207	A	208	U	209	cWW	ntSH	tSH
166	HL_3V7E_006➜	3V7E	0.2217	0		D	SAM-I riboswitch	G	305	G	306	A	307	A	308	A	309	C	310	cWW		tSH
167	HL_1U6B_001➜	1U6B	0.2389	0	GNRA	B	197-MER	G	23	G	24	A	25	A	26	A	27	C	28	cWW		tSH
168	HL_3P22_007➜	3P22	0.2309	0		G	Core ENE hairpin from KSHV PAN RNA	C	17	G	18	A	19	A	20	A	21	G	22	cWW		tSH
169	HL_3P22_005➜	3P22	0.2246	0		E	Core ENE hairpin from KSHV PAN RNA	C	17	G	18	A	19	A	20	A	21	G	22	cWW		tSH
170	HL_4BW0_001➜	4BW0	0.1990	0	GNRA	A	HMKT-7	C	9	G	10	A	11	A	12	A	13	G	14	cWW		tSH
171	HL_1FJG_027➜	1FJG	0.1660	0		A	SSU rRNA	C	1165	G	1166	A	1167	A	1168	A	1169	G	1171	cWW		tSH
172	HL_1KH6_002➜	1KH6	0.1499	0	GNRA	A	JIIIabc	C	28	G	29	A	30	A	31	A	32	G	33	cWW		tSH
173	HL_2OIU_006➜	2OIU	0.1557	0		Q	L1 Ribozyme RNA Ligase	C	59	G	60	A	61	A	62	A	63	G	64	cWW		tSH
174	HL_4ENB_002➜	4ENB	0.1343	0		A	Fluoride riboswitch	U	28	G	29	A	30	A	31	A	32	A	33	cWW		tSH
175	HL_3NVI_001➜	3NVI	0.1257	0		E	RNA (24-mer)	C	9	G	10	A	11	A	12	A	13	G	14	cWW		tSH
176	HL_3UCZ_001➜	3UCZ	0.1278	0		R	RNA (92-MER)	C	31	G	32	A	33	A	34	A	35	G	36	cWW		tSH
177	HL_3IWN_001➜	3IWN	0.1281	0	GNRA	A	C-di-GMP riboswitch	C	21	G	22	A	23	A	24	A	25	G	26	cWW		ntSH
178	HL_4A1B_011➜	4A1B	0.0000	0		1	26S RRNA	U	381	G	382	A	383	A	384	A	385	A	386	cWW		tSH
179	HL_3U5H_011➜	3U5H	0.0880	0		5	25S rRNA	U	382	G	383	A	384	A	385	A	386	A	387	cWW		tSH
180	HL_1HMH_002➜	1HMH	0.1095	0		C	HAMMERHEAD RIBOZYME-RNA STRAND	C	104	G	21\|\|\|L	A	22\|\|\|L	A	23\|\|\|L	A	24\|\|\|L	G	114	cWW		tSH
181	HL_1RLG_002➜	1RLG	0.1059	0	GNRA	D	25-MER	C	9	G	10	A	11	A	12	A	13	G	14	cWW		tSH
182	HL_1G1X_001➜	1G1X	0.1412	0	GNRA	D	16S RIBOSOMAL RNA	C	590	G	591	A	592	A	593	A	594	G	649	cWW		tSH
183	HL_1S72_023➜	1S72	0.1293	0		0	LSU rRNA	C	804	G	805	A	806	A	807	A	808	G	809	cWW		tSH
184	HL_2OIU_004➜	2OIU	0.1482	0		Q	L1 Ribozyme RNA Ligase	C	10	G	11	A	12	A	13	A	14	G	15	cWW		tSH
185	HL_2OIU_001➜	2OIU	0.1351	0	GNRA	P	L1 Ribozyme RNA Ligase	C	10	G	11	A	12	A	13	A	14	G	15	cWW		tSH
186	HL_1HMH_001➜	1HMH	0.1537	0		A	HAMMERHEAD RIBOZYME-RNA STRAND	C	104	G	21\|\|\|L	A	22\|\|\|L	A	23\|\|\|L	A	24\|\|\|L	G	114	cWW		tSH
187	HL_4JF2_001➜	4JF2	0.1480	0	GNRA	A	PreQ1-II Riboswitch	C	8	G	9	A	10	A	11	A	12	G	13	cWW		tSH
188	HL_4FRG_002➜	4FRG	0.1597	0	GNRA	B	cobalamin riboswitch aptamer domain	C	46	G	47	A	48	A	49	A	50	G	51	cWW		tSH
189	HL_4LCK_004➜	4LCK	0.1440	0		B	tRNA	C	71	G	72	A	73	A	74	A	75	G	76	cWW		tSH
190	HL_4GMA_004➜	4GMA	0.1415	0		Z	Adenosylcobalamin riboswitch	C	119	G	120	A	121	A	122	A	123	G	124	cWW		tSH
191	HL_2IL9_003➜	2IL9	0.1777	0	GNRA	A	Ribosomal Binding Domain of the IRES RNA	C	6119	G	6119\|\|\|A	A	6119\|\|\|B	A	6119\|\|\|C	A	6119\|\|\|D	G	6119\|\|\|E	ncWW		tSH
192	HL_2AW7_004➜	2AW7	0.1683	0		A	16S ribosomal RNA	C	186	G	187	C	188	A	189	A	190	G	191	cWW		tSH
193	HL_4NVV_044➜	4NVV	0.1698	0		A	23S Ribosomal RNA	C	1837	G	1838	U	1839	A	1840	A	1841	G	1842	cWW		tSH
194	HL_1MZP_001➜	1MZP	0.1698	0	GNRA	B	fragment of 23S rRNA	C	25	G	26	C	27	A	28	A	29	G	30	cWW		tSH
195	HL_2EZ6_002➜	2EZ6	0.1719	0	GNRA	D	28-MER	C	11	G	12	C	13	A	14	A	15	G	16	cWW		tSH
196	HL_2EZ6_001➜	2EZ6	0.1499	0		C	28-MER	C	11	G	12	C	13	A	14	A	15	G	16	cWW		tSH
197	HL_2OIU_002➜	2OIU	0.1722	0		P	L1 Ribozyme RNA Ligase	C	28	G	29	A	30	A	31	A	32	G	33	cWW		ntSH
198	HL_1LNG_002➜	1LNG	0.1986	0		B	SRP S RNA	C	208	G	209	G	210	A	211	A	212	G	213	cWW		tSH
199	HL_3KTW_002➜	3KTW	0.1967	0	GNRA	C	SRP RNA	C	209	G	210	G	211	A	212	A	213	G	214	cWW		ntSH
200	HL_2QBG_066➜	2QBG	0.2009	0		B	23S rRNA	C	2658	G	2659	A	2660	G	2661	A	2662	G	2663	cWW		tSH
201	HL_3U5H_066➜	3U5H	0.1470	0		5	25S rRNA	C	3025	G	3026	A	3027	G	3028	A	3029	G	3030	cWW		tSH
202	HL_4IOA_063➜	4IOA	0.1635	0	GNRA	X	LSU rRNA	C	2637	G	2638	A	2639	G	2640	A	2641	G	2642	cWW		tSH
203	HL_1VW3_055➜	1VW3	0.1614	0		A	21S ribosomal RNA	C	2925	G	2926	C	2927	A	2928	A	2929	G	2930	cWW		tSH
204	HL_4NVV_062➜	4NVV	0.1774	0		A	23S Ribosomal RNA	C	2670	G	2671	A	2672	G	2673	A	2674	G	2675	cWW		tSH
205	HL_1S72_066➜	1S72	0.1570	0		0	LSU rRNA	C	2695	G	2696	A	2697	G	2698	A	2699	G	2700	cWW		tSH
206	HL_4CUV_066➜	4CUV	0.1783	0		1	25S RRNA	C	3025	G	3026	A	3027	G	3028	A	3029	G	3030	cWW		tSH
207	HL_4A1B_065➜	4A1B	0.1717	0		1	26S RRNA	C	3014	G	3015	A	3016	G	3017	A	3018	G	3019	cWW		tSH
208	HL_2XXA_002➜	2XXA	0.2318	0		G	SSRP RNA	C	47	G	48	G	49	A	50	A	51	G	52	cWW		tSH
209	HL_2PXV_001➜	2PXV	0.1844	0		B	4.5 S RNA	C	153	G	154	A	155	A	156	A	157	G	158	cWW		tSH
210	HL_1Q96_001➜	1Q96	0.1593	0	GNRA	A	sarcin/ricin 28S rRNA	U	13	G	14	A	15	G	16	A	17	A	18	cWW		tSH
211	HL_1S72_054➜	1S72	0.1307	0		0	LSU rRNA	C	2248	G	2249	G	2250	G	2251	A	2252	G	2253	cWW		tSH
212	HL_3DVZ_001➜	3DVZ	0.1490	0		A	Sarcin/Ricin Domain from E. Coli 23 S rRNA	C	2658	G	2659	A	2660	G	2661	A	2662	G	2663	cWW		tSH
213	HL_1S72_072➜	1S72	0.1633	0		9	5S rRNA	C	89	G	90	C	91	G	92	A	93	G	94	cWW		tSH
214	HL_3AM1_003➜	3AM1	0.1414	0	GNRA	B	ASL-truncated tRNA	C	45	G	46	A	47	G	48	A	49	G	50	cWW		tSH
215	HL_1VW3_049➜	1VW3	0.1563	0		A	21S ribosomal RNA	C	2641	G	2642	U	2643	A	2644	A	2645	G	2646	cWW		tSH
216	HL_1FJG_010➜	1FJG	0.1557	0		A	SSU rRNA	C	379	G	380	C	381	A	382	A	383	G	384	cWW		ntSH
217	HL_4NVV_056➜	4NVV	0.1642	0		A	23S Ribosomal RNA	C	2386	G	2387	A	2388	A	2389	A	2390	G	2391	cWW		tSH
218	HL_4CUV_011➜	4CUV	0.1211	0		1	25S RRNA	U	382	G	383	A	384	A	385	A	386	A	387	cWW		tSH
219	HL_4A1B_059➜	4A1B	0.1787	0		1	26S RRNA	C	2733	G	2734	A	2735	A	2736	A	2737	G	2738	cWW		ntSH
220	HL_3U5H_013➜	3U5H	0.1769	0		5	25S rRNA	C	599	G	600	U	601	A	602	A	603	G	604	cWW		tSH
221	HL_1S72_045➜	1S72	0.2327	1		0	LSU rRNA	C	1793	G	1794	G	1795	A	1796	A	1797	G	1799	cWW		ntSH
222	HL_4OO8_001➜	4OO8	0.2381	0		B	RNA (97-MER)	A	32	G	33	A	34	A	35	A	36	U	37	cWW		ntSH
223	HL_2AW7_022➜	2AW7	0.2297	0		A	16S ribosomal RNA	A	1012	G	1013	A	1014	G	1015	A	1016	U	1017	cWW		ntSH
224	HL_4CUV_048➜	4CUV	0.2276	0		1	25S RRNA	A	2220	G	2221	A	2222	A	2223	A	2224	U	2225	cWW		ntSH
225	HL_3U5H_048➜	3U5H	0.2538	0		5	25S rRNA	A	2220	G	2221	A	2222	A	2223	A	2224	U	2225	cWW		ntSH
226	HL_3U5F_025➜	3U5F	0.2144	0		6	18S rRNA	A	1084	G	1085	A	1086	A	1087	A	1088	U	1089	cWW		ntSH
227	HL_4BPP_024➜	4BPP	0.2073	0		A	18S RRNA	A	1056	G	1057	A	1058	A	1059	A	1060	U	1061	cWW		tSH
228	HL_4CUX_025➜	4CUX	0.2509	0		2	18S RRNA	A	1084	G	1085	A	1086	A	1087	A	1088	U	1089	cWW		ntSH
229	HL_1Y0Q_001➜	1Y0Q	0.3232	0		A	Group I catalytic intron	A	21	G	22	U	23	A	24	A	25	U	26	cWW		tSH
230	HL_4CUV_023➜	4CUV	0.2644	1		1	25S RRNA	C	1023	G	1024	A	1025	A	1026	A	1027	G	1029	cWW		ntSH
231	HL_3D0U_004➜	3D0U	0.2248	0	GNRA	A	Lysine Riboswitch RNA	C	142	G	143	A	144	A	145	A	146	G	147	cWW		tSH
232	HL_4CUV_013➜	4CUV	0.2329	0		1	25S RRNA	C	599	G	600	U	601	A	602	A	603	G	604	cWW		tSH
233	HL_2Y9B_001➜	2Y9B	0.2432	0		V	HOMO SAPIENS U4A SNRNA	U	812	G	813	A	814	A	815	A	816	A	817	cWW	ntSH	ntSH
234	HL_1FJG_019➜	1FJG	0.2333	0		A	SSU rRNA	C	862	U	863	A	864	A	865	C	866	G	867	cWW	ntSH	ntSH
235	HL_2AW7_019➜	2AW7	0.1857	0		A	16S ribosomal RNA	C	862	U	863	A	864	A	865	C	866	G	867	cWW		ntSH
236	HL_4P9R_004➜	4P9R	0.1939	0		A	RNA (189-MER)	C	317	U	318	A	319	A	320	C	321	G	322	cWW	ntSH	ntSH
237	HL_4P8Z_003➜	4P8Z	0.1833	0		A	Lariat capping ribozyme	C	99	U	100	A	101	A	102	C	103	G	104	cWW	ntSH	ntSH
238	HL_1FJG_022➜	1FJG	0.3163	0		A	SSU rRNA	U	1012	G	1013	A	1014	A	1015	A	1016	G	1017	cWW		tSH
239	HL_1FJG_007➜	1FJG	0.2642	0		A	SSU rRNA	U	296	G	297	A	298	G	299	A	300	G	301	cWW		tSH
240	HL_2AW7_007➜	2AW7	0.2251	0		A	16S ribosomal RNA	U	296	G	297	A	298	G	299	A	300	G	301	cWW		tSH
241	HL_4FNJ_001➜	4FNJ	0.2084	0		A	RNA (35-MER)	U	16	G	17	A	18	A	19	A	20	G	21	cWW		tSH
242	HL_4K27_001➜	4K27	0.2105	0	GNRA	U	Myotonic Dystrophy Type 2 RNA	U	26	G	27	A	28	A	29	A	30	G	31	cWW		tSH
243	HL_4K50_001➜	4K50	0.1728	0	GNRA	B	RNA (33-MER)	U	587	G	588	A	589	A	590	A	591	G	592	cWW		tSH
244	HL_4K50_003➜	4K50	0.1838	0		F	RNA (33-MER)	U	587	G	588	A	589	A	590	A	591	G	592	cWW		tSH
245	HL_1KXK_001➜	1KXK	0.2069	0	GNRA	A	ai5g group II Self-splicing intron	U	33	G	34	A	35	A	36	A	37	G	38	cWW		tSH
246	HL_1X8W_005➜	1X8W	0.2821	0		A	Tetrahymena ribozyme RNA	C	322	G	323	A	324	A	325	A	326	G	327	cWW		tSH
247	HL_1VW3_034➜	1VW3	0.3613	0		A	21S ribosomal RNA	U	1773	U	1774	A	1775	A	1776	C	1777	G	1778	cWW		ntSH
248	HL_3RG5_003➜	3RG5	0.2996	0		A	Selenocysteine transfer RNA	U	47\|\|\|C	U	47\|\|\|D	A	47\|\|\|E	G	47\|\|\|F	C	47\|\|\|G	G	47\|\|\|H	cWW		ntSH
249	HL_4CUV_017➜	4CUV	0.3022	0		1	25S RRNA	C	732	G	733	C	734	A	735	A	736	G	737	cWW		tSH
250	HL_2QBG_028➜	2QBG	0.3002	2		B	23S rRNA	U	955	G	956	C	957	A	959	A	960	G	962	cWW		tSH
251	HL_4NVV_026➜	4NVV	0.2222	2		A	23S Ribosomal RNA	C	1000	G	1001	A	1002	A	1004	A	1005	G	1007	cWW		tSH
252	HL_1VW3_018➜	1VW3	0.2685	2		A	21S ribosomal RNA	C	881	G	882	A	883	A	885	A	886	G	888	cWW		tSH
253	HL_4A1B_026➜	4A1B	0.3346	1		1	26S RRNA	G	1153	G	1154	U	1155	A	1156	A	1157	C	1159	cWW		ntSH
254	HL_4CUV_025➜	4CUV	0.3050	1		1	25S RRNA	G	1126	G	1127	U	1128	A	1129	A	1130	C	1132	cWW		tSH
255	HL_3U5H_025➜	3U5H	0.3005	1		5	25S rRNA	G	1126	G	1127	U	1128	A	1129	A	1130	C	1132	cWW		tSH
256	HL_1S72_028➜	1S72	0.2256	1		0	LSU rRNA	G	1054	G	1055	U	1056	A	1057	A	1058	C	1060	cWW		tSH
257	HL_4IOA_026➜	4IOA	0.2758	2	GNRA	X	LSU rRNA	A	966	G	967	C	968	A	970	A	971	U	973	cWW		tSH
258	HL_1S72_009➜	1S72	0.2393	0		0	LSU rRNA	C	252	U	253	C	254	A	255	C	256	G	257	cWW		ntSH
259	HL_3U5H_017➜	3U5H	0.2309	0		5	25S rRNA	C	732	G	733	C	734	A	735	A	736	G	737	cWW		tSH
260	HL_3CUN_001➜	3CUN	0.2338	0		C	RNA (92-MER)	C	7	G	8	A	9	A	10	A	11	G	12	cWW		tSH
261	HL_4A1B_013➜	4A1B	0.2894	0		1	26S RRNA	A	582	G	583	C	584	A	585	A	586	U	587	cWW		tSH
262	HL_4A1B_018➜	4A1B	0.2262	0		1	26S RRNA	C	757	G	758	C	759	A	760	A	761	G	762	cWW		tSH
263	HL_4NVV_015➜	4NVV	0.2010	0		A	23S Ribosomal RNA	C	513	G	514	G	515	G	516	A	517	G	518	cWW		tSH
264	HL_4IOA_015➜	4IOA	0.2707	0	GNRA	X	LSU rRNA	C	498	G	499	G	500	G	501	A	502	G	503	cWW		tSH
265	HL_4CUV_019➜	4CUV	0.4198	0		1	25S RRNA	G	844	G	845	A	846	A	847	A	848	C	849	cWW		ntSH
266	HL_1M5O_004➜	1M5O	0.5503	0		E	RNA HAIRPIN RIBOZYME	G	74	G	75	A	76	A	77	A	78	C	79	ncWS		ntSH
267	HL_4KQY_002➜	4KQY	0.4019	0	Other HL	A	SAM-I riboswitch	C	60	G	61	A	62	A	63	A	64	G	65	cWW		tSH
268	HL_2QBG_048➜	2QBG	0.6422	0		B	23S rRNA	C	1806	G	1807	A	1808	A	1809	A	1810	G	1811	cWW		tSH
269	HL_2AW7_010➜	2AW7	0.5675	0		A	16S ribosomal RNA	C	379	G	380	C	381	A	382	A	383	G	384	cWW		tSH
270	HL_2QBG_049➜	2QBG	0.6585	0		B	23S rRNA	C	1868	G	1869	C	1870	A	1871	A	1872	G	1873	cWW		tSH

3D structures

Complete motif including flanking bases

Sequence	Counts
CGAAAG	48
GGAAAC	29
CGCAAG	21
CGAGAG	13
CGUGAG	12
UGAAAG	10
CGUAAG	9
AGAAAU	9
UGAAAA	7
GGUAAC	7
CGGAAG	6
CAGCCG	5
CGCGAG	5
GGUGAC	5
AGUGAU	4
GGUAAGC	4
CUAACG	4
UGUGAA	3
CGGGAG	3
GUGAAC	3
GGCGAC	3
CGAAGG	3
GGAGAC	3
GGCAAC	3
UGCAAG	2
AGAAAGU	2
UGAGAG	2
GGGAGC	2
AGCAAU	2
AGUAAU	2
GUAAUUC	2
GAAGCU	2
UGAGAA	2
GGGGAC	1
AAAAAU	1
AGAGAU	1
CGAUAACG	1
CGAUAAGG	1
AGCUAACU	1
CUCACG	1
UGCUAACG	1
UUAGCG	1
CGGAACG	1
CGAAAUG	1
UUAACG	1
CCAAAG	1
CGUAGG	1
UCAACA	1
AUAAAU	1
GGGAAC	1
UUAGGG	1
ACCUUU	1
CUUCGG	1
UGCAAA	1
GCAACUC	1
CGAACG	1
UGUGAG	1
ACACCU	1
UGACGG	1
CGAUAG	1
CGCAGG	1
UGGGAA	1
CAAACG	1
CGAGUG	1
UGCGAA	1
AGCGAU	1

Non-Watson-Crick part of the motif

Sequence	Counts
GAAA	103
GCAA	29
GUGA	25
GAGA	21
GUAA	18
GCGA	10
GGAA	7
AGCC	5
UAAC	5
GGGA	5
GUAAG	4
UGAA	3
GAAG	3
AAGC	2
GAAAG	2
UAAUU	2
GCUAAC	2
GGAG	2
GAAAU	1
AAAA	1
GAUAAC	1
CAAA	1
UAGC	1
GGAAC	1
UCAC	1
GAUAAG	1
GAUA	1
GAGU	1
UAGG	1
CAAC	1
CCUU	1
CAACU	1
UUCG	1
UAAA	1
GAAC	1
GUAG	1
GCAG	1
CACC	1
AAAC	1
GACG	1

Release history

Release	1.15
Date	2014-06-15
Status	Updated, 1 parent

Parent motifs

Parent motif	Common motif instances	Only in HL_67042.14	Only in the parent motif
HL_67042.13 Compare	HL_2OIU_002, HL_4A1B_017, HL_2OIU_001, HL_2OIU_006, HL_4A1B_013, HL_2OIU_004, HL_4A1B_011, HL_1M5O_004, HL_2Y9B_002, HL_4A1B_018, HL_1VW3_049, HL_1KH6_002, HL_488D_002, HL_4A1C_006, HL_4B5R_002, HL_4B5R_003, HL_4ENB_002, HL_2XXA_002, HL_4A1B_010, HL_3IWN_001, HL_1S72_054, HL_4K27_001, HL_4LCK_004, HL_4FAW_003, HL_4AOB_003, HL_4IOA_068, HL_3E5C_001, HL_4NVV_056, HL_4IOA_062, HL_4IOA_063, HL_2AW7_022, HL_3W3S_003, HL_3U5H_047, HL_2OIU_003, HL_2Y9B_001, HL_4A1B_065, HL_1KXK_001, HL_1FJG_007, HL_1HMH_001, HL_3U5H_048, HL_1HMH_002, HL_2QBG_021, HL_1S72_040, HL_2EZ6_001, HL_4NVV_033, HL_4BPP_015, HL_3KTW_002, HL_1S72_045, HL_2QBG_028, HL_1S72_048, HL_1FJG_022, HL_2AW7_019, HL_1FJG_020, HL_1FJG_027, HL_4IOA_019, HL_4NVV_062, HL_2AW7_013, HL_4IOA_015, HL_1FJG_028, HL_4NVV_069, HL_2AW7_016, HL_1Q96_001, HL_1MFQ_001, HL_1MFQ_002, HL_3NKB_002, HL_1FJG_019, HL_3U5H_013, HL_1VW3_027, HL_3SUX_002, HL_1U9S_002, HL_4BPP_025, HL_4BPP_024, HL_3U5H_030, HL_4BPP_021, HL_2QBG_033, HL_3U5H_039, HL_4BPP_028, HL_3U5F_029, HL_3NVI_001, HL_1FJG_032, HL_2QBG_066, HL_3MOJ_001, HL_2EZ6_002, HL_4NVV_061, HL_2AW7_003, HL_2AW7_004, HL_3AM1_002, HL_2AW7_007, HL_3UCZ_001, HL_4KQY_002, HL_1FJG_024, HL_3GX5_002, HL_2ZZM_003, HL_4A1B_046, HL_3Q1Q_006, HL_4BPP_032, HL_4BPP_036, HL_1VW3_018, HL_3U5H_010, HL_2BTE_003, HL_1S72_020, HL_3U5H_025, HL_3GX5_003, HL_1S72_028, HL_4JF2_001, HL_1Q96_003, HL_4OO8_003, HL_4IOA_030, HL_4IOA_033, HL_2QBZ_001, HL_1FJG_003, HL_4FAW_006, HL_2QBG_049, HL_2BTE_007, HL_2QBG_016, HL_2AW7_032, HL_488D_001, HL_1VW3_009, HL_4IOA_057, HL_4NVV_019, HL_4A1B_052, HL_4AOB_002, HL_3U5F_022, HL_3ADC_003, HL_1JID_001, HL_3U5H_065, HL_1S72_015, HL_1S72_017, HL_3P22_005, HL_3RG5_003, HL_3U5H_017, HL_3U5H_016, HL_3U5H_011, HL_2HO7_004, HL_3U5F_015, HL_4NVV_014, HL_1FJG_013, HL_1FJG_010, HL_1UN6_004, HL_3RW6_001, HL_1LNG_002, HL_4IOA_026, HL_1Y0Q_007, HL_1Y0Q_004, HL_1Y0Q_003, HL_2AW7_024, HL_1Y0Q_001, HL_2QBG_059, HL_2AW7_028, HL_3U5F_025, HL_1GID_004, HL_3T4B_001, HL_4A1B_029, HL_3U5H_019, HL_4A1B_026, HL_1VW3_034, HL_1U6B_004, HL_1U6B_001, HL_4A1B_020, HL_4BPP_009, HL_1S72_009, HL_3AM1_003, HL_2PXV_001, HL_3DVZ_001, HL_4GMA_004, HL_3U5F_003, HL_2IL9_003, HL_1S72_070, HL_4NVV_026, HL_1S72_023, HL_4C7O_001, HL_2QBG_065, HL_3Q1Q_008, HL_2QBG_060, HL_3Q1Q_003, HL_3Q1Q_001, HL_1X8W_001, HL_4NVV_015, HL_1X8W_003, HL_3Q1Q_004, HL_4FNJ_001, HL_4IOA_070, HL_3P22_007, HL_4A1B_035, HL_2NZ4_016, HL_2NZ4_012, HL_1RLG_002, HL_3V7E_006, HL_3U5H_033, HL_4K50_001, HL_4K50_003, HL_3E5C_002, HL_1MZP_001, HL_2QBG_071, HL_4IOA_014, HL_1X8W_005, HL_3U5F_037, HL_3U5H_074, HL_4IOA_046, HL_4NVV_030, HL_4A1B_059, HL_1S72_072, HL_1GID_001, HL_2AW7_020, HL_4OO8_001, HL_1NBS_007, HL_3CUN_001, HL_4IOA_005, HL_2OIU_005, HL_3U5F_026, HL_3IAB_001, HL_4LVZ_002, HL_2QBG_036, HL_1U9S_004, HL_1VW3_055, HL_1VW3_054, HL_1G1X_003, HL_1S72_036, HL_3D0U_004, HL_1G1X_001, HL_1FJG_016, HL_4NVV_067, HL_4FRG_002, HL_1S72_033, HL_3U5H_066, HL_3U5H_060, HL_3U5H_036, HL_2QBG_048, HL_3U5F_033, HL_4BW0_001, HL_1S72_060, HL_1S72_065, HL_1S72_066, HL_3NPN_001, HL_2AW7_010, HL_4NVV_045, HL_4NVV_044, HL_4A1B_064	HL_4PQV_001, HL_4CUV_060, HL_4CUV_065, HL_4CUV_048, HL_4CUV_047, HL_4CUX_015, HL_4P9R_006, HL_4CUV_025, HL_4CUX_037, HL_4CUV_010, HL_4CUV_023, HL_4CUX_033, HL_4L81_001, HL_4L81_003, HL_4L81_004, HL_4CUV_011, HL_4P8Z_003, HL_4CUV_074, HL_4P8Z_005, HL_4CUV_033, HL_4CUV_030, HL_4CUV_066, HL_4CUV_036, HL_4P9R_004, HL_4CUX_026, HL_4CUX_025, HL_4CUV_013, HL_4CUX_022, HL_4CUV_016, HL_4CUV_017, HL_4CUV_019, HL_4CUX_003

Children motifs

Child motif	Common motif instances	Only in HL_67042.14	Only in the child motif
HL_67042.15 Compare	HL_2OIU_002, HL_4A1B_017, HL_2OIU_001, HL_2OIU_006, HL_4A1B_013, HL_2OIU_004, HL_4A1B_011, HL_4CUV_013, HL_1M5O_004, HL_2Y9B_002, HL_4A1B_018, HL_1VW3_049, HL_1KH6_002, HL_488D_002, HL_4A1C_006, HL_4B5R_002, HL_4B5R_003, HL_4ENB_002, HL_2XXA_002, HL_4A1B_010, HL_3IWN_001, HL_1S72_054, HL_4K27_001, HL_4LCK_004, HL_4FAW_003, HL_4CUV_025, HL_4IOA_068, HL_4CUX_037, HL_3E5C_001, HL_4NVV_056, HL_4IOA_062, HL_4IOA_063, HL_2AW7_022, HL_3NPN_001, HL_3CUN_001, HL_3W3S_003, HL_3U5H_047, HL_2OIU_003, HL_2Y9B_001, HL_4A1B_065, HL_1KXK_001, HL_1FJG_007, HL_1HMH_001, HL_3U5H_048, HL_1HMH_002, HL_2QBG_021, HL_1S72_040, HL_2EZ6_001, HL_4NVV_033, HL_4BPP_015, HL_3KTW_002, HL_1S72_045, HL_2QBG_028, HL_4CUV_030, HL_4CUV_036, HL_1FJG_022, HL_2AW7_019, HL_1FJG_020, HL_1FJG_027, HL_4IOA_019, HL_4NVV_062, HL_2AW7_013, HL_4IOA_015, HL_1FJG_028, HL_4NVV_069, HL_1S72_048, HL_1Q96_001, HL_1MFQ_001, HL_1MFQ_002, HL_3NKB_002, HL_1FJG_019, HL_3U5H_013, HL_1VW3_027, HL_3SUX_002, HL_1U9S_002, HL_4BPP_025, HL_4BPP_024, HL_3U5H_030, HL_1S72_033, HL_3U5H_036, HL_4CUV_048, HL_4CUV_047, HL_3U5H_039, HL_4BPP_028, HL_3U5F_029, HL_3NVI_001, HL_1FJG_032, HL_2QBG_066, HL_3MOJ_001, HL_2EZ6_002, HL_4NVV_061, HL_2AW7_003, HL_2AW7_004, HL_3AM1_002, HL_2AW7_007, HL_3UCZ_001, HL_4KQY_002, HL_4CUV_060, HL_1FJG_024, HL_3GX5_002, HL_2ZZM_003, HL_4A1B_046, HL_3Q1Q_006, HL_4BPP_032, HL_3U5H_011, HL_4BPP_036, HL_1VW3_018, HL_3U5H_010, HL_4P8Z_003, HL_2BTE_003, HL_1S72_020, HL_3U5H_025, HL_4P8Z_005, HL_3GX5_003, HL_1S72_028, HL_4JF2_001, HL_2AW7_016, HL_4P9R_004, HL_4IOA_030, HL_4IOA_033, HL_2QBZ_001, HL_1FJG_003, HL_4FAW_006, HL_2QBG_049, HL_2BTE_007, HL_2QBG_016, HL_2AW7_032, HL_488D_001, HL_1VW3_009, HL_4IOA_057, HL_4NVV_019, HL_4AOB_003, HL_4AOB_002, HL_4PQV_001, HL_3ADC_003, HL_1JID_001, HL_3U5H_065, HL_1S72_015, HL_1S72_017, HL_3P22_005, HL_3RG5_003, HL_3U5H_017, HL_3U5H_016, HL_4CUV_065, HL_2HO7_004, HL_3U5F_015, HL_4CUV_066, HL_4NVV_014, HL_1FJG_013, HL_1FJG_010, HL_1UN6_004, HL_3RW6_001, HL_1LNG_002, HL_4IOA_026, HL_1Y0Q_007, HL_1Y0Q_004, HL_1Y0Q_003, HL_2AW7_024, HL_1Y0Q_001, HL_2QBG_059, HL_2AW7_028, HL_3U5F_025, HL_4L81_001, HL_1GID_004, HL_4L81_003, HL_4L81_004, HL_4CUV_023, HL_4A1B_029, HL_3U5H_019, HL_4NVV_045, HL_4A1B_026, HL_1VW3_034, HL_1U6B_004, HL_1U6B_001, HL_1Q96_003, HL_4BPP_009, HL_1S72_009, HL_3AM1_003, HL_2PXV_001, HL_3DVZ_001, HL_4OO8_003, HL_4GMA_004, HL_4CUV_074, HL_3U5F_003, HL_2IL9_003, HL_1S72_070, HL_4NVV_026, HL_1S72_023, HL_4C7O_001, HL_2QBG_065, HL_4CUX_026, HL_4CUX_025, HL_3Q1Q_008, HL_4CUX_022, HL_3Q1Q_003, HL_3Q1Q_001, HL_1X8W_001, HL_4NVV_015, HL_1X8W_003, HL_3Q1Q_004, HL_4CUV_033, HL_4FNJ_001, HL_4IOA_070, HL_3P22_007, HL_4A1B_035, HL_2NZ4_016, HL_2NZ4_012, HL_1RLG_002, HL_3V7E_006, HL_3T4B_001, HL_3U5H_033, HL_4K50_001, HL_4OO8_001, HL_4K50_003, HL_3E5C_002, HL_1MZP_001, HL_2QBG_071, HL_4IOA_014, HL_1X8W_005, HL_3U5F_037, HL_3U5H_074, HL_4IOA_046, HL_4NVV_030, HL_4A1B_059, HL_1S72_072, HL_1GID_001, HL_2AW7_020, HL_4P9R_006, HL_1NBS_007, HL_4CUV_011, HL_4FRG_002, HL_4CUX_033, HL_4IOA_005, HL_2OIU_005, HL_3U5F_026, HL_3IAB_001, HL_4LVZ_002, HL_2QBG_036, HL_1U9S_004, HL_1VW3_055, HL_1VW3_054, HL_1S72_036, HL_3D0U_004, HL_4NVV_044, HL_1G1X_001, HL_1FJG_016, HL_4NVV_067, HL_3U5F_022, HL_4BPP_021, HL_3U5H_066, HL_4A1B_020, HL_3U5H_060, HL_2QBG_033, HL_2QBG_048, HL_3U5F_033, HL_4CUX_015, HL_4BW0_001, HL_1S72_060, HL_4CUX_003, HL_1S72_065, HL_1S72_066, HL_2QBG_060, HL_4CUV_010, HL_1G1X_003, HL_2AW7_010, HL_4CUV_016, HL_4CUV_017, HL_4CUV_019, HL_4A1B_064	HL_4A1B_052	HL_3J7A_019, HL_1VWW_019, HL_3J7A_030, HL_1VWW_011, HL_1VWW_010, HL_3J7A_013, HL_1VWW_012, HL_1VX6_017, HL_1VWW_037, HL_1VX6_035, HL_3J7A_034, HL_1VX6_059, HL_1VX6_032, HL_1VWW_030, HL_4PLX_001, HL_1VWW_072, HL_4PLX_003, HL_1VX6_010, HL_1VX6_071, HL_4BPP_003, HL_4UN5_003, HL_1VX2_008, HL_1VX6_064, HL_1VX2_004, HL_1VX6_029, HL_1VX6_011, HL_1VX2_022, HL_1VX2_023, HL_1VX2_025, HL_1VX2_027, HL_1VX2_029, HL_1VWW_065, HL_3J7A_007, HL_3J7A_002, HL_1VX6_025, HL_4UN3_003, HL_1VX6_020, HL_1VX6_047, HL_3J7A_022, HL_1VWW_048, HL_1VWW_064, HL_1VX6_065, HL_1VWW_040, HL_1VX2_033, HL_1VX2_014, HL_4UN5_001, HL_1VX2_012, HL_1VWW_033, HL_3J7A_021
HL_74411.1 Compare	HL_4A1B_052	HL_2OIU_002, HL_4A1B_017, HL_2OIU_001, HL_2OIU_006, HL_4A1B_013, HL_2OIU_004, HL_4A1B_011, HL_4CUV_013, HL_1M5O_004, HL_2Y9B_002, HL_4A1B_018, HL_1VW3_049, HL_1KH6_002, HL_488D_002, HL_4A1C_006, HL_4B5R_002, HL_4B5R_003, HL_4ENB_002, HL_2XXA_002, HL_4A1B_010, HL_3IWN_001, HL_1S72_054, HL_4K27_001, HL_4LCK_004, HL_4FAW_003, HL_4CUV_025, HL_4IOA_068, HL_4CUX_037, HL_3E5C_001, HL_4NVV_056, HL_4IOA_062, HL_4IOA_063, HL_2AW7_022, HL_3NPN_001, HL_3CUN_001, HL_3W3S_003, HL_3U5H_047, HL_2OIU_003, HL_2Y9B_001, HL_4A1B_065, HL_1KXK_001, HL_1FJG_007, HL_1HMH_001, HL_3U5H_048, HL_1HMH_002, HL_2QBG_021, HL_1S72_040, HL_2EZ6_001, HL_4NVV_033, HL_4BPP_015, HL_3KTW_002, HL_1S72_045, HL_2QBG_028, HL_4CUV_030, HL_4CUV_036, HL_1FJG_022, HL_2AW7_019, HL_1FJG_020, HL_1FJG_027, HL_4IOA_019, HL_4NVV_062, HL_2AW7_013, HL_4IOA_015, HL_1FJG_028, HL_4NVV_069, HL_1S72_048, HL_1Q96_001, HL_1MFQ_001, HL_1MFQ_002, HL_3NKB_002, HL_1FJG_019, HL_3U5H_013, HL_1VW3_027, HL_3SUX_002, HL_1U9S_002, HL_4BPP_025, HL_4BPP_024, HL_3U5H_030, HL_1S72_033, HL_3U5H_036, HL_4CUV_048, HL_4CUV_047, HL_3U5H_039, HL_4BPP_028, HL_3U5F_029, HL_3NVI_001, HL_1FJG_032, HL_2QBG_066, HL_3MOJ_001, HL_2EZ6_002, HL_4NVV_061, HL_2AW7_003, HL_2AW7_004, HL_3AM1_002, HL_2AW7_007, HL_3UCZ_001, HL_4KQY_002, HL_4CUV_060, HL_1FJG_024, HL_3GX5_002, HL_2ZZM_003, HL_4A1B_046, HL_3Q1Q_006, HL_4BPP_032, HL_3U5H_011, HL_4BPP_036, HL_1VW3_018, HL_3U5H_010, HL_4P8Z_003, HL_2BTE_003, HL_1S72_020, HL_3U5H_025, HL_4P8Z_005, HL_3GX5_003, HL_1S72_028, HL_4JF2_001, HL_2AW7_016, HL_4P9R_004, HL_4IOA_030, HL_4IOA_033, HL_2QBZ_001, HL_1FJG_003, HL_4FAW_006, HL_2QBG_049, HL_2BTE_007, HL_2QBG_016, HL_2AW7_032, HL_488D_001, HL_1VW3_009, HL_4IOA_057, HL_4NVV_019, HL_4AOB_003, HL_4AOB_002, HL_4PQV_001, HL_3ADC_003, HL_1JID_001, HL_3U5H_065, HL_1S72_015, HL_1S72_017, HL_3P22_005, HL_3RG5_003, HL_3U5H_017, HL_3U5H_016, HL_4CUV_065, HL_2HO7_004, HL_3U5F_015, HL_4CUV_066, HL_4NVV_014, HL_1FJG_013, HL_1FJG_010, HL_1UN6_004, HL_3RW6_001, HL_1LNG_002, HL_4IOA_026, HL_1Y0Q_007, HL_1Y0Q_004, HL_1Y0Q_003, HL_2AW7_024, HL_1Y0Q_001, HL_2QBG_059, HL_2AW7_028, HL_3U5F_025, HL_4L81_001, HL_1GID_004, HL_4L81_003, HL_4L81_004, HL_4CUV_023, HL_4A1B_029, HL_3U5H_019, HL_4NVV_045, HL_4A1B_026, HL_1VW3_034, HL_1U6B_004, HL_1U6B_001, HL_1Q96_003, HL_4BPP_009, HL_1S72_009, HL_3AM1_003, HL_2PXV_001, HL_3DVZ_001, HL_4OO8_003, HL_4GMA_004, HL_4CUV_074, HL_3U5F_003, HL_2IL9_003, HL_1S72_070, HL_4NVV_026, HL_1S72_023, HL_4C7O_001, HL_2QBG_065, HL_4CUX_026, HL_4CUX_025, HL_3Q1Q_008, HL_4CUX_022, HL_3Q1Q_003, HL_3Q1Q_001, HL_1X8W_001, HL_4NVV_015, HL_1X8W_003, HL_3Q1Q_004, HL_4CUV_033, HL_4FNJ_001, HL_4IOA_070, HL_3P22_007, HL_4A1B_035, HL_2NZ4_016, HL_2NZ4_012, HL_1RLG_002, HL_3V7E_006, HL_3T4B_001, HL_3U5H_033, HL_4K50_001, HL_4OO8_001, HL_4K50_003, HL_3E5C_002, HL_1MZP_001, HL_2QBG_071, HL_4IOA_014, HL_1X8W_005, HL_3U5F_037, HL_3U5H_074, HL_4IOA_046, HL_4NVV_030, HL_4A1B_059, HL_1S72_072, HL_1GID_001, HL_2AW7_020, HL_4P9R_006, HL_1NBS_007, HL_4CUV_011, HL_4FRG_002, HL_4CUX_033, HL_4IOA_005, HL_2OIU_005, HL_3U5F_026, HL_3IAB_001, HL_4LVZ_002, HL_2QBG_036, HL_1U9S_004, HL_1VW3_055, HL_1VW3_054, HL_1S72_036, HL_3D0U_004, HL_4NVV_044, HL_1G1X_001, HL_1FJG_016, HL_4NVV_067, HL_3U5F_022, HL_4BPP_021, HL_3U5H_066, HL_4A1B_020, HL_3U5H_060, HL_2QBG_033, HL_2QBG_048, HL_3U5F_033, HL_4CUX_015, HL_4BW0_001, HL_1S72_060, HL_4CUX_003, HL_1S72_065, HL_1S72_066, HL_2QBG_060, HL_4CUV_010, HL_1G1X_003, HL_2AW7_010, HL_4CUV_016, HL_4CUV_017, HL_4CUV_019, HL_4A1B_064	HL_2QBG_043, HL_4A1B_041, HL_4IOA_045, HL_1S72_022, HL_4AL5_001, HL_4CUV_042, HL_3D0U_003, HL_1VX6_042, HL_1VWW_043, HL_1XJR_001, HL_3U5H_042, HL_3Q1Q_010, HL_1VX6_072, HL_4BPP_030, HL_4IOA_004, HL_1S72_016

Annotations: GNRA (46)
Other HL (11)
Basepair signature: cWW-tSH-R-R
Heat map statistics: Min 0.01 | Avg 0.40 | Max 0.98

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Coloring options: Nucleotide numbers

Motif HL_67042.14 Version HL_67042.14 of this group appears in releases 1.15 to 1.15 Download Csv Json

3D structures

Complete motif including flanking bases

Non-Watson-Crick part of the motif

Release history

Parent motifs

Children motifs

Motif HL_67042.14 Version HL_67042.14 of this group appears in releases 1.15 to 1.15

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