JAR3D on RF03087

Rfam family RF03087 maps to these 30 chains: 9ISV|1|A, 9J3R|1|A, 9J3R|1|B, 9J3R|1|C, 9J3R|1|D, 9J3T|1|A, 9J3T|1|B, 9J3T|1|C, 9J3T|1|D, 9J3T|1|E, 9J3T|1|F, 9J3T|1|G, 9J3T|1|H, 9MM6|1|A, 9MM6|1|E, 9MM6|1|I, 9MM6|1|M, 9MM6|1|Q, 9MM6|1|U, 9MM6|1|Y, 9MM6|1|c, 9MME|1|U, 9MME|1|Y, 9MME|1|c, 9MME|1|g, 9MME|1|k, 9MME|1|o, 9MME|1|s, 9MME|1|w, 9MMG|1|c See more about them at RNA 3D Hub by filtering on the chain or the Rfam family.

Loop 26 Hairpin loop

Column numbers: 541-560 - View nucleotides in PDB file(s)

    Scored sequences and counts

    
    A----UUGGCGU-------U   20

    
    UAU--GUAGCA------GUA   13

    
    UGC--GUAGCA------GUA   12

    
    G---GGUGAUAG-------C   10

    
    GG--UUUGAGAC------CC    6

    
    GU---GUGGCA-------AC    6

    
    C----GUGAGAA-------A    6

    
    U----GGGGAC--------A    6

    
    GGU--GUGAGAG-----ACU    5

    
    AG--CGUGAGAAA-----CU    4

    
    GGU--GUGAAAG-----ACU    4

    
    G---CGUCGAAAA------C    4

    
    G----CUGGUGA-------C    4

    
    G----GUGGAAG-------C    4

    
    C----CCGCAA--------G    4

    
    U----GUGGUA--------G    4

    
    AAG--GCGGAAAA----CUU    3

    
    AGG--CUGAUUA-----CCU    3

    
    AUU--AGGGAU------AAU    3

    
    CC--UGUGGUG-------GG    3

    
    GU---GUGGCA-------GC    3

    
    A-----GGGAUGC------U    3

    
    G----CUGGUAA-------C    3

    
    G----GUGGUG--------C    3

    
    AG--CCUGAGAAA-----CU    2

    
    UGC--GUAGCA------GCA    2

    
    UGC--GUAGCG------GUA    2

    
    GU---GUGAGAG------AC    2

    
    CU---UUGGCA-------AG    2

    
    G---CUUGGCCG-------C    2

    
    G---GGUGGAAG-------C    2

    
    G---UGUGGCAG-------C    2

    
    GC---UUGGCC-------GC    2

    
    A----UUGGCAU-------U    2

    
    A----UUGGCUU-------U    2

    
    C---UUUGCGG--------G    2

    
    G----CUGGUUA-------C    2

    
    G----UUGGUGA-------C    2

    
    G----UUGGUUA-------C    2

    
    U----GUGAGAG-------A    2

    
    A----GUGGAA--------U    2

    
    A----GUGGUG--------U    2

    
    C----GUAGCA--------G    2

    
    G----GUGGAA--------C    2

    
    G----UGGGAG--------C    2

    
    AGU-UAUGGGAAUA---GCU    1

    
    G----GUGGAAUGUUACAGA    1

    
    GUG-GGAGAUGAA----CGC    1

    
    AUCUAGGGAUA------GAU    1

    
    CGC--AUGAGAAC----GCG    1

    
    AG--CGUGAGAGA-----CU    1

    
    AGU--GUGAGAA-----GCU    1

    
    AGU--GUGAGAG-----ACU    1

    
    G----GUGGAAUGU---UAC    1

    
    GAG-CUGGUAA------CUC    1

    
    GG--CGUAGGAAA-----CC    1

    
    GG--CGUCGAAAA-----CC    1

    
    GG--CGUGAGAGA-----CC    1

    
    GGU--GUGAGAG-----ACC    1

    
    GGU--GUGAGAG-----GCU    1

    
    GGU-GUGAGAG------ACU    1

    
    GUU--GUGGCAU-----AAC    1

    
    GUU--GUGGCAU-----GAC    1

    
    UA--CCUGAAGAA-----UA    1

    
    UAU-UAUGGUG------AUA    1

    
    UG--CGUGAGAAA-----CA    1

    
    -AG--CUGGUGC-----UUG    1

    
    AG--GGUGAGAG------CU    1

    
    AGU--GUGAGA------GCU    1

    
    GAU--GUGGUA------GUC    1

    
    GGC--GUGGUU------GUU    1

    
    GUC--AGAGAU------GAU    1

    
    UA---GUGGGAGC-----UA    1

    
    UAU--GGGGAC------AUA    1

    
    UAU--GGGGGC------AUA    1

    
    UGG--GUGGAA------CCA    1

    
    UGU--GUAGCA------ACA    1

    
    A--UAGAGGUAU-------U    1

    
    AA---UUGGUAA------CU    1

    
    C--CCGUGGAAC-------G    1

    
    G---CCUGAGAAA------C    1

    
    G---CGUAGAAAA------C    1

    
    G---CGUCGAAAC------C    1

    
    G---CGUGAGAGA------C    1

    
    G--AAUGAGAGA-------C    1

    
    GU---GUGAGAGA------C    1

    
    U---CGUCGAAA------AC    1

    
    -----UUGGUACCCU-----    1

    
    A---GGUGAUAG-------C    1

    
    A---UGUGGUAG-------U    1

    
    AU---GUGGCA-------AU    1

    
    AU---UUGGCG-------AU    1

    
    C---UGUGGCAA-------G    1

    
    CU---GUGACA-------AG    1

    
    G----UGUGGCAG------C    1

    
    G---CGUGGCAA-------C    1

    
    G---CUUGAUAA-------C    1

    
    G---GGUGGUAG-------C    1

    
    G---UGUGGCAA-------C    1

    
    G---UUUGAGAC-------C    1

    
    G---UUUGGUAC-------C    1

    
    G--GGUGAUAG--------C    1

    
    G-U--GUGGCA------G-C    1

    
    GC---GUGGCA-------GC    1

    
    GG---GUGACA-------CC    1

    
    GG---GUGGAA-------CC    1

    
    GG---GUGGUG-------CC    1

    
    GU---AGGGAU-------AU    1

    
    GU---GUGGAA-------AC    1

    
    UC---GUAGCU-------GA    1

    
    A-----GGGGUGC------U    1

    
    A----CUAACGA-------C    1

    
    A----CUGGUAA-------U    1

    
    A----UUGGUCG-------U    1

    
    A---UGUGGUG--------U    1

    
    AG---GUGGUG--------C    1

    
    C----CUGAGAA-------A    1

    
    C----CUGCAAA-------G    1

    
    C----GUGAUAG-------C    1

    
    C----GUUGCAG-------G    1

    
    C----UUGGUAA-------C    1

    
    C---GUUGCAG--------G    1

    
    C---UUUGCAG--------G    1

    
    G----CUGGUGC-------U    1

    
    G----GUGGAAU-------U    1

    
    U----CCGCAAG-------A    1

    
    U----GUAGCAA-------G    1

    
    U----GUGAGAA-------A    1

    
    U----GUGAGAA-------G    1

    
    U----GUGGGAA-------A    1

    
    U----UUGGUAC-------U    1

    
    U---GUGAGAG--------A    1

    
    U---UGUGGUG--------A    1

    
    ----GGUGGAAG--------    1

    
    A-----GGGAUA-------U    1

    
    C----AGGGAU--------G    1

    
    C----GUGGCU--------G    1

    
    C----GUGGUA--------A    1

    
    G----AUGGUG--------C    1

    
    G----GUGACA--------C    1

    
    G----GUGAGA--------C    1

    
    G----GUGGCA--------C    1

    
    G----UGGGUG--------C    1

    
    U----AGGGAU--------A    1

    
    U----AUGGGG--------A    1

    
    U----GUAGCA--------G    1

    
    U----GUGGCA--------A    1

    
    U----UUGGCA--------G    1

    
    -----CUGGUAA--------    1

    
    ----UUUGGCA---------    1

    
    A-----GGGAU--------G    1

    
    -----UUGGCA---------    1

    
    Omitted sequenced and counts

    
    --------------------    5

Click on headings to reorder table

#	Matching motif group	Acceptance Rate	Mean Cutoff Score	Full Edit Distance	Interior Edit Distance	Basepair Diagram and most common annotation
1	Motif group HL_25061.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	24.91	-37.93	5	4
2	Motif group HL_75293.5 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	17.19	-57.87	5	4
3	Motif group HL_66853.7 View motif instance in 3D Basepair signature: cWW-cWS-F-cSH	17.19	-68.27	5	4
4	Motif group HL_93135.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	17.19	-78.93	7	5	Pseudoknot
5	Motif group HL_06059.6 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	16.84	-108.17	4	3	tRNA anticodon loop
6	Motif group HL_29129.3 View motif instance in 3D Basepair signature: cWW-tWH-F-F-F-F	16.49	-47.17	5	4
7	Motif group HL_38808.1 View motif instance in 3D Basepair signature: cWW-cWW	14.74	-92.98	6	4
8	Motif group HL_87463.1 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F-F	14.04	-56.13	5	4
9	Motif group HL_16991.1 View motif instance in 3D Basepair signature: cWW-cWH-cWH-F-cWH-F	12.98	-43.96	7	5	G-quadruplex fragment
10	Motif group HL_50537.6 View motif instance in 3D Basepair signature: cWW-F-F-F	12.28	-107.10	5	4	tRNA anticodon loop with synthetase
11	Motif group HL_33983.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	12.28	-120.22	6	5
12	Motif group HL_81538.2 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F-F	10.88	-120.15	4	3	GNRA with tandem sheared
13	Motif group HL_80599.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	10.53	-112.23	6	5
14	Motif group HL_97733.1 View motif instance in 3D Basepair signature: cWW-F-F-F-cSH-F	10.18	-64.75	7	5
15	Motif group HL_08510.1 View motif instance in 3D Basepair signature: cWW-F-F-cSH-F-F	10.18	-310.60	6	5
16	Motif group HL_99867.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	9.47	-2042.81	5	4
17	Motif group HL_05304.3 View motif instance in 3D Basepair signature: cWW-cWW-F-F-tSH-F-F-F-F-F	8.07	-78.40	7	6
18	Motif group HL_18565.1 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F	7.72	-75.30	6	4
19	Motif group HL_83632.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	7.72	-149.38	5	4	tRNA anticodon loop
20	Motif group HL_45175.1 View motif instance in 3D Basepair signature: cWW-cWS-F-F	6.67	-80.35	5	4	tRNA D-loop
21	Motif group HL_50860.2 View motif instance in 3D Basepair signature: cWW-F-cWH-F-F-F-F	6.67	-91.40	5	4
22	Motif group HL_85367.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	5.96	-89.68	5	4
23	Motif group HL_88205.2 View motif instance in 3D Basepair signature: cWW-cWS-tSW-F-F	5.96	-90.75	5	4
24	Motif group HL_84299.4 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	5.61	-99.10	5	4
25	Motif group HL_09452.1 View motif instance in 3D Basepair signature: cWW-F-F-F	5.61	-380.05	5	4
26	Motif group HL_53454.2 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F-F-F	5.26	-71.83	5	4
27	Motif group HL_22622.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	5.26	-390.54	6	4
28	Motif group HL_31585.4 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	4.91	-183.91	4	4	Purine riboswitch
29	Motif group HL_20167.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	4.56	-109.34	5	4
30	Motif group HL_04259.3 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	4.56	-192.84	5	4	GNRA with extra cWW
31	Motif group HL_93438.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	3.86	-90.64	6	5
32	Motif group HL_04642.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	3.51	-55.06	6	5	tRNA D-loop
33	Motif group HL_86769.4 View motif instance in 3D Basepair signature: cWW-cWW-cSH-F	3.51	-121.51	5	4
34	Motif group HL_21372.1 View motif instance in 3D Basepair signature: cWW-F-cSH-F-F	3.51	-180.04	6	4
35	Motif group HL_36684.4 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F	3.51	-2022.74	5	4
36	Motif group HL_78197.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	3.16	-125.13	5	3
37	Motif group HL_99769.3 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F	2.81	-57.40	5	4
38	Motif group HL_58224.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	2.81	-63.25	6	5
39	Motif group HL_18978.1 View motif instance in 3D Basepair signature: cWW-F-F-tHW-F-F-F	2.81	-71.98	6	5
40	Motif group HL_15802.1 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F	2.81	-84.25	6	5
41	Motif group HL_78347.4 View motif instance in 3D Basepair signature: cWW-F-F-F-F	2.81	-149.11	5	4
42	Motif group HL_97917.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F	2.81	-181.84	5	5
43	Motif group HL_97983.1 View motif instance in 3D Basepair signature: cWW-F-F	2.81	-475.78	7	6
44	Motif group HL_01609.3 View motif instance in 3D Basepair signature: cWW-tWH-F-F-F	2.46	-124.10	4	3	T-loop with 2 bulged bases not stacked
45	Motif group HL_55305.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	2.46	-167.97	7	6
46	Motif group HL_77600.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	2.46	-354.52	4	4
47	Motif group HL_31581.6 View motif instance in 3D Basepair signature: cWW-cHS-F-F-F-cWW-F-F-F	2.46	-871.62	7	6
48	Motif group HL_41543.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	2.11	-57.73	6	5
49	Motif group HL_67079.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	2.11	-66.41	6	5
50	Motif group HL_57863.1 View motif instance in 3D Basepair signature: cWW-F-F-cWH-cWH-F	2.11	-68.11	6	5	G-quadruplex fragment
51	Motif group HL_80008.1 View motif instance in 3D Basepair signature: cWW-F-F-F-cSH-F	2.11	-108.49	6	5
52	Motif group HL_20743.5 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F	2.11	-127.95	6	5
53	Motif group HL_73266.9 View motif instance in 3D Basepair signature: cWW-F-F-cSW-cSH-F	2.11	-137.61	5	5
54	Motif group HL_56131.2 View motif instance in 3D Basepair signature: cWW-F-F	2.11	-180.96	5	4
55	Motif group HL_89567.2 View motif instance in 3D Basepair signature: cWW-F-F-F	2.11	-194.81	6	4
56	Motif group HL_00914.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	2.11	-272.94	6	5
57	Motif group HL_34964.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	1.75	-80.50	6	5
58	Motif group HL_77082.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	1.75	-137.41	5	4	Pseudoknot geometry
59	Motif group HL_10453.3 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	1.75	-140.64	5	4	tRNA anticodon loop
60	Motif group HL_87553.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	1.75	-164.09	5	4
61	Motif group HL_80362.1 View motif instance in 3D Basepair signature: cWW-F-F-F	1.75	-325.04	7	5
62	Motif group HL_78284.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F-F	1.75	-2505.40	7	6
63	Motif group HL_41464.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	1.40	-100.78	5	4
64	Motif group HL_80241.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	1.40	-1497.60	6	5
65	Motif group HL_50418.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F	1.40	-2085.01	6	5
66	Motif group HL_93383.1 View motif instance in 3D Basepair signature: cWW-cSH-F-F-F-F-F-F	1.40	-2792.58	6	5
67	Motif group HL_07951.3 View motif instance in 3D Basepair signature: cWW-F-F	1.40	-9999.00	6	4	tRNA D-loop
68	Motif group HL_61996.2 View motif instance in 3D Basepair signature: cWW-tWH-F-F-F	1.05	-84.10	5	4
69	Motif group HL_86012.1 View motif instance in 3D Basepair signature: cWW-tWH-F-F-F-F	1.05	-84.32	6	5	T-loop with unstacked turn
70	Motif group HL_93324.4 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	1.05	-159.71	4	3	Pseudoknot geometry
71	Motif group HL_99748.1 View motif instance in 3D Basepair signature: cWW-F-F-cSH	1.05	-233.71	7	6	Other HL
72	Motif group HL_50006.2 View motif instance in 3D Basepair signature: cWW-F-F	1.05	-259.69	5	4
73	Motif group HL_02887.3 View motif instance in 3D Basepair signature: cWW-tWH-F-F-F-F-F-F	0.70	-87.01	7	6	T-loop with 3 stacked bulged bases
74	Motif group HL_26934.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	0.70	-127.38	6	5
75	Motif group HL_55436.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.70	-147.25	5	4
76	Motif group HL_28075.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.70	-175.10	6	4
77	Motif group HL_30680.3 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.70	-322.74	5	3	Pseudoknot geometry
78	Motif group HL_42998.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	0.70	-1425.22	6	5
79	Motif group HL_98864.1 View motif instance in 3D Basepair signature: cWW-tWH-F-F-F-F-F-F	0.35	-72.73	6	5	T-loop with unstacked turn
80	Motif group HL_23010.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	0.35	-78.25	7	6
81	Motif group HL_40252.4 View motif instance in 3D Basepair signature: cWW-tSH-cWS-F	0.35	-87.84	6	5
82	Motif group HL_70658.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F	0.35	-89.36	7	6
83	Motif group HL_01962.2 View motif instance in 3D Basepair signature: cWW-tWH-tWH-F	0.35	-111.26	7	5
84	Motif group HL_36335.1 View motif instance in 3D Basepair signature: cWW-F-F-cSS-cSS-F	0.35	-111.73	7	6
85	Motif group HL_64690.6 View motif instance in 3D Basepair signature: cWW-cSW-F-F-F-F	0.35	-121.65	5	5
86	Motif group HL_77436.5 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.35	-134.20	4	3	T-loop related
87	Motif group HL_72628.1 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F-F	0.35	-134.28	7	6
88	Motif group HL_20535.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.35	-138.40	5	4
89	Motif group HL_19210.3 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.35	-179.63	6	5
90	Motif group HL_48417.5 View motif instance in 3D Basepair signature: cWW-F-F	0.35	-181.53	5	4
91	Motif group HL_42046.2 View motif instance in 3D Basepair signature: cWW-tSS-F-F-F	0.35	-213.89	6	4
92	Motif group HL_50318.1 View motif instance in 3D Basepair signature: cWW-cSH-F-F	0.35	-518.04	7	5
93	Motif group HL_50779.4 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	0.35	-932.44	6	5
94	Motif group HL_59330.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.35	-1044.27	6	5
95	Motif group HL_74292.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.35	-1848.18	6	5
96	Motif group HL_68572.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	0.35	-3652.02	7	6
97	Motif group HL_06226.4 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	0.00	-73.35	6	5
98	Motif group HL_49941.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-77.81	6	5	tRNA D-loop
99	Motif group HL_02483.1 View motif instance in 3D Basepair signature: cWW-tWH-F-cSH-F-F-F	0.00	-83.24	8	6
100	Motif group HL_86109.1 View motif instance in 3D Basepair signature: cWW-F-tWH-F-F-F-F-F-F-F	0.00	-84.77	7	6
101	Motif group HL_89881.5 View motif instance in 3D Basepair signature: cWW-tHW-F-F-F-F-F-F	0.00	-84.96	6	5
102	Motif group HL_41902.1 View motif instance in 3D Basepair signature: cWW-cWW-cWH-F-F-F-F-F	0.00	-86.31	8	6
103	Motif group HL_68257.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.00	-86.53	7	6
104	Motif group HL_91503.7 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	0.00	-86.79	5	5
105	Motif group HL_04641.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-87.91	7	6
106	Motif group HL_74379.3 View motif instance in 3D Basepair signature: cWW-F-F-cSS-cSS-F-F-F	0.00	-88.31	8	7
107	Motif group HL_29762.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-90.04	7	6
108	Motif group HL_69139.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.00	-94.38	7	6
109	Motif group HL_23115.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-95.68	7	6	tRNA D-loop
110	Motif group HL_45785.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-cSH-F-F	0.00	-96.48	8	7
111	Motif group HL_98252.1 View motif instance in 3D Basepair signature: cWW-tWW-F-F-F-F	0.00	-97.38	9	7
112	Motif group HL_83808.4 View motif instance in 3D Basepair signature: cWW-tWW-F-F-F	0.00	-98.48	7	6	Pseudoknot
113	Motif group HL_91939.2 View motif instance in 3D Basepair signature: cWW-tSH-tHH-tWW-F-F-F	0.00	-100.00	7	6
114	Motif group HL_07583.1 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F-F-F-F-F	0.00	-102.19	8	7
115	Motif group HL_60266.1 View motif instance in 3D Basepair signature: cWW-cWW-tWH-F-F-F-F	0.00	-104.00	7	6
116	Motif group HL_85434.1 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F-F-F	0.00	-104.46	7	6
117	Motif group HL_90620.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-cSW-cSH-F	0.00	-104.54	8	6
118	Motif group HL_18423.1 View motif instance in 3D Basepair signature: cWW-tSH-tHS-F	0.00	-106.53	7	6
119	Motif group HL_80411.1 View motif instance in 3D Basepair signature: cWW-F-cSH-F-F-F-F	0.00	-109.24	7	6	tRNA D-loop
120	Motif group HL_07480.2 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F	0.00	-109.27	7	6
121	Motif group HL_93616.2 View motif instance in 3D Basepair signature: cWW-cWS-F-F-F-F	0.00	-109.32	7	5	tRNA D-loop
122	Motif group HL_73255.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	0.00	-109.34	7	6
123	Motif group HL_81545.2 View motif instance in 3D Basepair signature: cWW-tWH-F-F-F-F	0.00	-115.65	6	5
124	Motif group HL_11542.1 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F-F-F-F	0.00	-121.05	8	7
125	Motif group HL_20751.2 View motif instance in 3D Basepair signature: cWW-tHW-F-F-F-F-F-F-F-F-F	0.00	-121.89	7	6
126	Motif group HL_68767.1 View motif instance in 3D Basepair signature: cWW-cWS-tSH-cWS-F	0.00	-122.30	7	6	tRNA D-loop
127	Motif group HL_04171.7 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F-F-F	0.00	-122.46	7	6
128	Motif group HL_35677.3 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F	0.00	-122.86	6	5
129	Motif group HL_28252.8 View motif instance in 3D Basepair signature: cWW-tWH-F-F-F-F-F	0.00	-123.64	4	3	T-loop with 2 stacked bulged bases
130	Motif group HL_81205.3 View motif instance in 3D Basepair signature: cWW-cWW-tWH-F-tWH-F-F-F-F-F	0.00	-126.66	8	7
131	Motif group HL_08602.1 View motif instance in 3D Basepair signature: cWW-cSS-F-cSS-F-F-F-F-F	0.00	-126.81	9	8
132	Motif group HL_23509.1 View motif instance in 3D Basepair signature: cSH-F-F-F-F-F-F-F-F-F	0.00	-130.53	8	8
133	Motif group HL_25847.2 View motif instance in 3D Basepair signature: cWW-F-cSH-tHW-F-F-F	0.00	-131.58	7	7
134	Motif group HL_84847.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-tWW-F-F-F-F-F-F	0.00	-134.24	9	8
135	Motif group HL_88558.1 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F-F-F-F-F	0.00	-135.35	8	7
136	Motif group HL_53504.3 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F-F-F-F	0.00	-139.56	7	6
137	Motif group HL_98870.1 View motif instance in 3D Basepair signature: cWW-tSH-tWW-F-F-F-F-F	0.00	-145.89	8	7
138	Motif group HL_67407.5 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.00	-156.34	6	5
139	Motif group HL_73247.1 View motif instance in 3D Basepair signature: cWW-F-tWH-F-F-F-F-F-F-F-F-F-F	0.00	-159.80	9	8	Pseudoknot geometry
140	Motif group HL_20811.4 View motif instance in 3D Basepair signature: cWW-cWS-F	0.00	-163.30	5	4	tRNA D-loop
141	Motif group HL_02581.1 View motif instance in 3D Basepair signature: cWW-tSH-cWS-tSW-F-F-F	0.00	-168.13	9	7	tRNA D-loop
142	Motif group HL_74055.2 View motif instance in 3D Basepair signature: cWW-tWH-cWH-tSH-tHW-tHW-tSW	0.00	-168.79	9	8
143	Motif group HL_38649.1 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F-F-F-F	0.00	-169.45	7	6
144	Motif group HL_33074.4 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.00	-170.29	8	7	U1 small nuclear ribonucleoprotein A binding hairpin
145	Motif group HL_38046.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	0.00	-172.81	8	6
146	Motif group HL_10540.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-175.05	6	5
147	Motif group HL_01255.1 View motif instance in 3D Basepair signature: F-F-F-F-F-F-F-F	0.00	-176.76	8	7
148	Motif group HL_91641.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-cSW-F-F-F-F	0.00	-177.37	10	9
149	Motif group HL_32735.2 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F-F-F	0.00	-177.46	6	5
150	Motif group HL_13971.1 View motif instance in 3D Basepair signature: cWW-cWS-F-tSW-F-tSH-tSH-cWW-F-F	0.00	-180.73	9	8
151	Motif group HL_13963.3 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-185.34	5	4
152	Motif group HL_81312.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F	0.00	-186.67	8	7
153	Motif group HL_27670.2 View motif instance in 3D Basepair signature: cWW-tWH-F-F	0.00	-190.32	5	4	T-loop with unstacked turn
154	Motif group HL_80922.2 View motif instance in 3D Basepair signature: cWW-tSH-F	0.00	-197.41	5	5
155	Motif group HL_13529.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-202.69	6	6
156	Motif group HL_04783.2 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-204.19	5	4
157	Motif group HL_37344.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-207.76	6	5
158	Motif group HL_16398.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	0.00	-208.32	8	7
159	Motif group HL_25967.2 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F	0.00	-220.15	6	5
160	Motif group HL_07886.3 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-229.92	5	4
161	Motif group HL_10456.1 View motif instance in 3D Basepair signature: cWW-F-cWW-tWW-F-tHW-F-F-F-F-F-F-F	0.00	-230.23	11	10
162	Motif group HL_89346.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F	0.00	-231.28	12	11
163	Motif group HL_29958.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.00	-231.38	8	7
164	Motif group HL_86870.2 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-247.32	6	5
165	Motif group HL_47732.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F	0.00	-247.97	9	7
166	Motif group HL_73183.1 View motif instance in 3D Basepair signature: cWW-tSH-tHW-F-F-F-F-F-F-F-F-F	0.00	-256.18	9	8	Pseudoknot geometry with G-bulge
167	Motif group HL_20781.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.00	-268.95	9	7
168	Motif group HL_66482.1 View motif instance in 3D Basepair signature: cWW-cWW-tWW-F-F-tWH-F-F-F-F-F-F-F-F	0.00	-270.42	11	10
169	Motif group HL_14757.1 View motif instance in 3D Basepair signature: cWW-cWW-F-F-tSW-tWW-cWW-tHW-tSW-F-cWH-F	0.00	-271.91	12	11
170	Motif group HL_51921.1 View motif instance in 3D Basepair signature: cWW-tSH-tSS-tHS-F-F-F-F-F-F-F-F-F-F-F	0.00	-273.89	13	12
171	Motif group HL_47854.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-274.26	7	6
172	Motif group HL_37369.2 View motif instance in 3D Basepair signature: cWW-tSH-F-F-F	0.00	-282.60	5	4
173	Motif group HL_30068.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-283.84	5	4
174	Motif group HL_93535.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-284.55	6	5
175	Motif group HL_53890.2 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-286.00	5	4
176	Motif group HL_49922.4 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-311.78	5	5
177	Motif group HL_92488.1 View motif instance in 3D Basepair signature: cWW-cWW-F-cSS-F-F-F-F-F-F	0.00	-312.58	10	10
178	Motif group HL_97756.2 View motif instance in 3D Basepair signature: cWW-cSH-cWS-F-tSW-cSW-F-cWW-F-F-F	0.00	-317.04	9	8
179	Motif group HL_02817.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-318.24	7	6
180	Motif group HL_64292.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F	0.00	-320.61	10	9
181	Motif group HL_37824.7 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-344.78	4	4	GNRA
182	Motif group HL_47787.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-348.14	6	5
183	Motif group HL_08100.1 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-351.52	6	4
184	Motif group HL_87954.2 View motif instance in 3D Basepair signature: cWW-tSW-F	0.00	-370.23	5	4
185	Motif group HL_59843.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-372.52	6	5
186	Motif group HL_62934.1 View motif instance in 3D Basepair signature: cWW-tSH-F	0.00	-378.48	7	5
187	Motif group HL_15574.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-382.30	6	5
188	Motif group HL_27483.1 View motif instance in 3D Basepair signature: cWW-F	0.00	-401.93	6	5
189	Motif group HL_22584.6 View motif instance in 3D Basepair signature: cWW-tSW-F	0.00	-414.57	6	5	Fab BL3-6 binding hairpin with tSW
190	Motif group HL_89893.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-437.35	6	5
191	Motif group HL_71391.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-438.92	5	4
192	Motif group HL_34617.5 View motif instance in 3D Basepair signature: cWW-tSW-F	0.00	-451.75	5	4	UNCG
193	Motif group HL_56676.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-461.34	5	4
194	Motif group HL_39243.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-497.67	6	5
195	Motif group HL_66103.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-546.66	6	5
196	Motif group HL_13189.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-585.59	6	5
197	Motif group HL_57875.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-592.30	5	4
198	Motif group HL_82710.2 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-596.09	5	5
199	Motif group HL_43517.1 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-597.29	6	5
200	Motif group HL_50851.1 View motif instance in 3D Basepair signature: cWW-cWH-cWH-cWH-cWH-F	0.00	-781.32	8	7	G-quadruplex fragment
201	Motif group HL_04725.1 View motif instance in 3D Basepair signature: cWW-cWS-cWW-cWW-cWS	0.00	-866.06	8	7
202	Motif group HL_07903.1 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F-F-F-F-F-F	0.00	-914.90	8	8
203	Motif group HL_63355.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F-F-F	0.00	-916.67	7	7
204	Motif group HL_15118.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F	0.00	-928.44	8	7
205	Motif group HL_94376.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F	0.00	-936.98	6	5	Pseudoknot geometry
206	Motif group HL_24792.1 View motif instance in 3D Basepair signature: cWW-cWS-F-F-F	0.00	-1079.53	7	6
207	Motif group HL_85993.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-1340.61	6	5
208	Motif group HL_65794.5 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-1782.73	5	4	Pseudoknot geometry
209	Motif group HL_46501.1 View motif instance in 3D Basepair signature: cWW-cWS	0.00	-1819.68	6	5
210	Motif group HL_38901.2 View motif instance in 3D Basepair signature: cWW-F-cSH	0.00	-1825.15	5	5	tRNA D-loop
211	Motif group HL_32392.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-1842.87	6	5
212	Motif group HL_70751.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F	0.00	-2010.82	8	6
213	Motif group HL_58539.1 View motif instance in 3D Basepair signature: cWW-tWS-F-tHW-F-F-F-F-F-F-F-F	0.00	-2366.43	10	9
214	Motif group HL_51447.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-2742.93	6	5
215	Motif group HL_59564.1 View motif instance in 3D Basepair signature: cWW-F-cSS-F-cSS-F-F-F-F-F-F-F-F-F-F-F-F	0.00	-2828.14	15	13
216	Motif group HL_88364.2 View motif instance in 3D Basepair signature: cWW-cWW-F-F-F-F-F-F-F-F-F-F-F	0.00	-3145.27	9	8
217	Motif group HL_67667.2 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-3155.61	6	5
218	Motif group HL_00317.1 View motif instance in 3D Basepair signature: cWW-F-cSS-F-F-F-F-F-F-F-F-F-F-F-F-F-F	0.00	-3469.20	15	13
219	Motif group HL_99324.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F	0.00	-3486.25	11	10
220	Motif group HL_57176.2 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-3533.82	5	4	Pseudoknot geometry with 3' bulge
221	Motif group HL_70782.2 View motif instance in 3D Basepair signature: cWW-F	0.00	-3536.90	5	5
222	Motif group HL_38168.1 View motif instance in 3D Basepair signature: cWW-F	0.00	-3550.56	6	5
223	Motif group HL_69752.2 View motif instance in 3D Basepair signature: cWW-F	0.00	-3558.68	6	5
224	Motif group HL_75660.5 View motif instance in 3D Basepair signature: cWW-F	0.00	-3560.51	5	4
225	Motif group HL_99040.1 View motif instance in 3D Basepair signature: F-F-F-F-F-F	0.00	-3562.39	6	5
226	Motif group HL_59735.5 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F	0.00	-3599.99	6	5
227	Motif group HL_48778.2 View motif instance in 3D Basepair signature: cWW-F	0.00	-3627.88	5	5	Mini UNCG
228	Motif group HL_89199.2 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-3761.24	6	5	Mini UNCG
229	Motif group HL_85461.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F-F-F-F-F	0.00	-3954.39	12	12
230	Motif group HL_60293.1 View motif instance in 3D Basepair signature: cWW-cWH-F-cWH-cHW-cHW-cWH-cHW-cWH-F-cWH-cWH-cWH-F	0.00	-3987.30	14	14	G-quadruplex
231	Motif group HL_21400.1 View motif instance in 3D Basepair signature: cWW-tWH-tSW-cWW-cWH-cHW-cWH-cWH-cHW-cWH-cHW-cWH-cWH-cWH-cWH-cWH	0.00	-3992.27	15	14	G-quadruplex
232	Motif group HL_12758.3 View motif instance in 3D Basepair signature: cWW-tSH-F-cHW-F-F-cWH-cHW-cWH-cHW-cWH-cWH-F-tSH-F-cHW-F-cWH-cWH	0.00	-4030.51	17	16	G-quadruplex
233	Motif group HL_35354.1 View motif instance in 3D Basepair signature: cWW-cWH-cHW-F-cWH-cHW-F-F-tHH-cWH-tWW-cWH-F-tWW-cWH-F-cWH	0.00	-4033.43	16	15
234	Motif group HL_56334.1 View motif instance in 3D Basepair signature: cWW-F	0.00	-4252.63	5	4	Mini UNCG
235	Motif group HL_52953.3 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-4267.58	5	4
236	Motif group HL_28791.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-4270.93	6	6
237	Motif group HL_55195.3 View motif instance in 3D Basepair signature: cWW-F	0.00	-4272.30	5	4
238	Motif group HL_32346.4 View motif instance in 3D Basepair signature: cWW-F	0.00	-4281.16	5	5
239	Motif group HL_65313.1 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-4286.08	7	6
240	Motif group HL_80709.3 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-4291.73	5	5
241	Motif group HL_29966.1 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-4297.89	8	6
242	Motif group HL_86883.1 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-4308.81	7	6
243	Motif group HL_73916.1 View motif instance in 3D Basepair signature: cWW-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F	0.00	-4451.74	30	30
244	Motif group HL_12870.1 View motif instance in 3D Basepair signature: cWW-tHW-F-F-F-F-F-F-F-F-F	0.00	-5674.13	7	7
245	Motif group HL_78677.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-6159.90	6	5
246	Motif group HL_60914.1 View motif instance in 3D Basepair signature: cWW-F	0.00	-6165.83	6	5
247	Motif group HL_35941.1 View motif instance in 3D Basepair signature: cWW-F	0.00	-6168.25	7	6
248	Motif group HL_26631.1 View motif instance in 3D Basepair signature: cWW-F-F-F	0.00	-6201.23	7	6
249	Motif group HL_22135.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-6207.41	7	6
250	Motif group HL_81100.2 View motif instance in 3D Basepair signature: cWW	0.00	-8862.66	6	5
251	Motif group HL_94980.1 View motif instance in 3D Basepair signature: cWW-F-F	0.00	-8973.99	7	6
252	Motif group HL_76094.1 View motif instance in 3D Basepair signature: cWW-cWS-F-F	0.00	-9999.00	8	6
253	Motif group HL_09260.2 View motif instance in 3D Basepair signature: cWW-F-F-F-F	0.00	-9999.00	7	6	tRNA D-loop