#Varna 2DMotifNtsSize
1
  • HL_67042.7
HL_67042.7
  • Basepair signature: cWW-tSH-R-R
  • History status: Exact match
  • Name: GNRA Hairpin motifs
6227
2
  • HL_72498.8
HL_72498.8
  • Basepair signature: cWW-tWH-R-R-R
  • History status: Exact match
  • Name: T-loops with two bulged bases
963
3
  • HL_39895.5
HL_39895.5
  • Basepair signature: cWW-tSW-R
  • History status: Exact match
  • Name: UNCG Hairpin motifs
635
4
  • HL_18781.2
HL_18781.2
  • Basepair signature: cWW-tSH-R-R-R-R
  • History status: Exact match
  • Name: Double sheared (tSH) with U-turn
820
5
  • HL_91226.3
HL_91226.3
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
  • Name: Kissing Hairpin motif
817
6
  • HL_52574.2
HL_52574.2
  • Basepair signature: cWW-tWH-R-R-R
  • History status: Exact match
  • Name: LSU Helix 92 (H92) A-site Loop. GNRA-like with extra stacked base.
715
7
  • HL_97270.2
HL_97270.2
  • Basepair signature: cWW-tWH-R-R-R
  • History status: Exact match
  • Name: T-loops with 1 bulged base
715
8
  • HL_74465.2
HL_74465.2
  • Basepair signature: cWW-cWW-R-tSH-R-R
  • History status: Exact match
  • Name: tRNA Anti-Codon loop
912
9
  • HL_49036.2
HL_49036.2
  • Basepair signature: cWW-tSH-R-R
  • History status: Exact match
  • Name: GNRA with one bulged base
611
10
  • HL_48039.1
HL_48039.1
  • Basepair signature: cWW-R
  • History status: Exact match
  • Name: MS2 virus RNA Hairpin
411
11
  • HL_17723.3
HL_17723.3
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 22 (H22) Hairpin Loop. Forms Pseudknot.
710
12
  • HL_75759.2
HL_75759.2
  • Basepair signature: cWW
  • History status: Exact match
  • Name: UNCG-like. cWW Closing pair. | LSU: Part of IL/3WJ between H55 and H56.
410
13
  • HL_68081.3
HL_68081.3
  • Basepair signature: cWW-R-R-tWH-R-R
  • History status: Exact match
  • Name: LSU Helix 20 Hairpin loop
810
14
  • HL_56824.2
HL_56824.2
  • Basepair signature: cWW-R-R
  • History status: Exact match
  • Name: LSU Helix 60A. LSU Helix 63A.
510
15
  • HL_46175.1
HL_46175.1
  • Basepair signature: cWW-R-tSH-R-R-R-R
  • History status: Exact match
  • Name: 16S helix 23 and 24 hairpin loops
1010
16
  • HL_80459.2
HL_80459.2
  • Basepair signature: cWW-R-R
  • History status: Exact match
610
17
  • HL_28436.3
HL_28436.3
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
  • Name: LSU Helix 96 (H96) Hairpin Loop
69
18
  • HL_87844.2
HL_87844.2
  • Basepair signature: cWW-tSH-R-R
  • History status: Exact match
  • Name: LSU Helix 11 (H11) Hairpin Loop. GNRA-like.
79
19
  • HL_24544.1
HL_24544.1
  • Basepair signature: cWW-tWH-R-tSH-R
  • History status: Exact match
  • Name: LSU Helix 53 (H53) Hairpin Loop. T-loop like.
98
20
  • HL_15603.1
HL_15603.1
  • Basepair signature: cWW-R-R-R-R-R-R-R-R-R
  • History status: Exact match
  • Name: U1A protein-binding Hairpin Loop.
128
21
  • HL_34027.2
HL_34027.2
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
  • Name: 5S Loop C - Upper part of Hairpin Loop.
68
22
  • HL_11547.2
HL_11547.2
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 80 (H80) P-site Hairpin Loop.
88
23
  • HL_82294.2
HL_82294.2
  • Basepair signature: cWW-cWW-tSH-R
  • History status: Exact match
  • Name: SSU Helix 37 (h37) Hairpin loop.
78
24
  • HL_33402.2
HL_33402.2
  • Basepair signature: cWW-tSH-R-R-R
  • History status: Exact match
  • Name: LSU Helix 13 (H13) Hairpin loop. GNRA-like.
77
25
  • HL_46489.2
HL_46489.2
  • Basepair signature: cWW-tSH-R-R-R-R-R
  • History status: Exact match
  • Name: LSU H89 Hairpin Loop
96
26
  • HL_39942.2
HL_39942.2
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 91 (H91) Hairpin Loop
86
27
  • HL_75579.2
HL_75579.2
  • Basepair signature: cWW
  • History status: Exact match
56
28
  • HL_42677.1
HL_42677.1
  • Basepair signature: cWW
  • History status: Exact match
56
29
  • HL_70420.2
HL_70420.2
  • Basepair signature: cWW-tSH-cWH-tSH-tWH-R-tHW-tHW-R-R
  • History status: Exact match
  • Name: LSU Helix 97 Hairpin loop
156
30
  • HL_39872.2
HL_39872.2
  • Basepair signature: cWW-cSW-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 99A (H99A) Hairpin Loop. Closed by cSW AA.
96
31
  • HL_11509.2
HL_11509.2
  • Basepair signature: cWW-R-R-cSH-cSH-R-R
  • History status: Exact match
  • Name: LSU Helix 6 (H6) Hairpin Loop.
106
32
  • HL_01926.3
HL_01926.3
  • Basepair signature: cWW-R-R-tSH-R
  • History status: Exact match
  • Name: LSU Helix 71 (H71) Hairpin Loop.
96
33
  • HL_18156.2
HL_18156.2
  • Basepair signature: cWW-R-R-tWH-R
  • History status: Exact match
  • Name: LSU Helix 72 (H72) Hairpin Loop
106
34
  • HL_34108.2
HL_34108.2
  • Basepair signature: cWW-R
  • History status: Exact match
  • Name: LSU Helix 37 (H37) Hairpin Loop.
66
35
  • HL_41833.2
HL_41833.2
  • Basepair signature: cWW-tSH-tHH-tWW-R-R-R
  • History status: Exact match
  • Name: LSU Helix 81 (H81) Hairpin Loop
136
36
  • HL_87136.2
HL_87136.2
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 39A Hairpin loop
86
37
  • HL_12811.2
HL_12811.2
  • Basepair signature: cWW-R-R
  • History status: Exact match
  • Name: LSU Helix 12 (H12) Hairpin Loop. GNRA-like with altered stacking
65
38
  • HL_57514.1
HL_57514.1
  • Basepair signature: cWW-R
  • History status: Exact match
  • Name: Two base, cross-stacked hairpin loop
45
39
  • HL_72273.1
HL_72273.1
  • Basepair signature: cWW-cWS-R-R
  • History status: Exact match
  • Name: tRNA D-loop
95
40
  • HL_85534.1
HL_85534.1
  • Basepair signature: cWW-tWH-tWH-R
  • History status: Exact match
  • Name: LSU Helix 65 (H65) Hairpin Loop. T-loop like.
115
41
  • HL_88311.2
HL_88311.2
  • Basepair signature: cWW-tSW-R-R
  • History status: Exact match
  • Name: LSU Helix 35 (H35) Hairpin Loop
105
42
  • HL_45018.3
HL_45018.3
  • Basepair signature: cWW-cWW-R-cSS-cSS-R
  • History status: Exact match
  • Name: Hairpin-Hairpin Interacting HL
115
43
  • HL_66174.1
HL_66174.1
  • Basepair signature: cWW-R-cSW-R-cSH
  • History status: Exact match
  • Name: cHS GU/cWS Double Platform creates Intercalation site
95
44
  • HL_78731.1
HL_78731.1
  • Basepair signature: cWW-R-R-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 7 (H7) Hairpin Loop. Forms Pseudo-knot
95
45
  • HL_06643.2
HL_06643.2
  • Basepair signature: cWW-cSH
  • History status: Exact match
  • Name: tRNA D-loop. Sec tRNA
65
46
  • HL_72543.2
HL_72543.2
  • Basepair signature: cWW-tSH-R-R-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 43 (H43) Hairpin Loop. T-loop Like.
115
47
  • HL_77235.3
HL_77235.3
  • Basepair signature: cWW-R-tSH-R
  • History status: Exact match
  • Name: LSU Helix 71 (H71) Hairpin Loop. | Double tSH (double sheared) with bulged base
84
48
  • HL_48116.2
HL_48116.2
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
  • Name: GNRA-like with 5'-stacking of first unpaired base.
64
49
  • HL_29831.1
HL_29831.1
  • Basepair signature: cWW-tSH-R-R
  • History status: Exact match
  • Name: GNRA-like with bulged base.
74
50
  • HL_62881.1
HL_62881.1
  • Basepair signature: cWW-tSH-tHW-R-tSW-R-R
  • History status: Exact match
  • Name: RNase P Structured Hairpin Loop
104
51
  • HL_61547.3
HL_61547.3
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
64
52
  • HL_62228.2
HL_62228.2
  • Basepair signature: cWW-R-tSW-R
  • History status: Exact match
  • Name: LSU Helix 35A (H35A) Hairpin Loop
74
53
  • HL_64543.1
HL_64543.1
  • Basepair signature: cWW-R-cSS-R-R-R-R
  • History status: Exact match
  • Name: SSU Helix 31 (h31) Hairpin Loop
104
54
  • HL_98523.1
HL_98523.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
  • Name: GNRA-like. Closed by tSH UC.
74
55
  • HL_18798.1
HL_18798.1
  • Basepair signature: cWW
  • History status: Exact match
  • Name: UNCG-like. cWW Closing pair.
44
56
  • HL_47784.1
HL_47784.1
  • Basepair signature: cWW-R-tHW-R-R-R-R-R-R
  • History status: Exact match
  • Name: SSU Central Pseudoknot (forms helix 2)
114
57
  • HL_80492.2
HL_80492.2
  • Basepair signature: cWW-tSH-cWS-cWS-R
  • History status: Exact match
  • Name: tRNA D-loop
133
58
  • HL_41827.1
HL_41827.1
  • Basepair signature: cWW-R-tSW-R-R
  • History status: Exact match
73
59
  • HL_74686.1
HL_74686.1
  • Basepair signature: cWW-cWW-R-R-R-R-R
  • History status: Exact match
  • Name: SSU Central Pseudoknot (forms helix 2)
103
60
  • HL_48254.1
HL_48254.1
  • Basepair signature: cWW-cWH-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 84 (H84) Hairpin Loop.
93
61
  • HL_90579.2
HL_90579.2
  • Basepair signature: cWW-tSH-R-R-R-R-R
  • History status: Exact match
103
62
  • HL_23182.1
HL_23182.1
  • Basepair signature: cWW-cWW-R-R-R
  • History status: Exact match
103
63
  • HL_19905.2
HL_19905.2
  • Basepair signature: cWW-R
  • History status: Exact match
  • Name: LSU: Part of IL/3WJ between H55 and H56.
43
64
  • HL_76036.3
HL_76036.3
  • Basepair signature: cWW-R-R
  • History status: Exact match
  • Name: LSU Helix 8 (H8) Hairpin Loop
63
65
  • HL_25124.1
HL_25124.1
  • Basepair signature: cWW-tSW-R-R
  • History status: Exact match
  • Name: tSW GA closed tetraloops
63
66
  • HL_58083.2
HL_58083.2
  • Basepair signature: cWW-tSH-R-R-R-R-R
  • History status: Exact match
113
67
  • HL_46794.2
HL_46794.2
  • Basepair signature: cWW-R-R-R-R-R-R-R-R
  • History status: Exact match
113
68
  • HL_13707.2
HL_13707.2
  • Basepair signature: cWW-tHH-cSH-R-R
  • History status: Exact match
  • Name: cSH AA Platform containing Hairpin Loop
93
69
  • HL_82253.2
HL_82253.2
  • Basepair signature: cWW
  • History status: Exact match
53
70
  • HL_42687.2
HL_42687.2
  • Basepair signature: cWW-cWW
  • History status: Exact match
63
71
  • HL_27429.3
HL_27429.3
  • Basepair signature: cWW-R-R-R-R-R-R
  • History status: Exact match
113
72
  • HL_42077.2
HL_42077.2
  • Basepair signature: cWW-tSH-R
  • History status: Exact match
  • Name: LSU Helix 28 (H28) Hairpin Loop
63
73
  • HL_78361.1
HL_78361.1
  • Basepair signature: cWW-R-cSS-R-R
  • History status: Exact match
93
74
  • HL_98833.1
HL_98833.1
  • Basepair signature: cWW-cWS-R-R-R
  • History status: Exact match
113
75
  • HL_54751.1
HL_54751.1
  • Basepair signature: cWW-cWW-R-R-R-R-R-R-R
  • History status: Exact match
123
76
  • HL_19221.2
HL_19221.2
  • Basepair signature: cWW-R-cSH
  • History status: Exact match
63
77
  • HL_08382.2
HL_08382.2
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
63
78
  • HL_32644.1
HL_32644.1
  • Basepair signature: cWW-cSH-tHW-R-R-R
  • History status: Exact match
  • Name: LSU Helix 69 (H69) Hairpin Loop
113
79
  • HL_24473.3
HL_24473.3
  • Basepair signature: cWW-tSH-cWS-tSW-R-R-R-R-R
  • History status: Exact match
  • Name: tRNA D-loop
152
80
  • HL_33451.1
HL_33451.1
  • Basepair signature: cWW-R-R-R-R-R-R-R-R
  • History status: Exact match
132
81
  • HL_76766.1
HL_76766.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
92
82
  • HL_68697.1
HL_68697.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
62
83
  • HL_77555.1
HL_77555.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
62
84
  • HL_86123.2
HL_86123.2
  • Basepair signature: cWW-R-R-R-tWH-R-R-R
  • History status: Exact match
  • Name: SSU Helix 42 (h42) Hairpin Loop. T-loop like.
102
85
  • HL_26057.1
HL_26057.1
  • Basepair signature: cWW-R
  • History status: Exact match
52
86
  • HL_24711.1
HL_24711.1
  • Basepair signature: cWW-tWH-R-R-R
  • History status: Exact match
82
87
  • HL_53753.1
HL_53753.1
  • Basepair signature: cWW-R
  • History status: Exact match
62
88
  • HL_12595.1
HL_12595.1
  • Basepair signature: cWW-cWS-R
  • History status: Exact match
102
89
  • HL_38130.2
HL_38130.2
  • Basepair signature: cWW-R-R-R-R-R-R-R-R
  • History status: Exact match
112
90
  • HL_96915.1
HL_96915.1
  • Basepair signature: cWW-R-R-R-R-R-R
  • History status: Exact match
92
91
  • HL_81752.1
HL_81752.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
92
92
  • HL_98577.1
HL_98577.1
  • Basepair signature: cWW-R-R-tHW-R-R-R-R-R-R-R
  • History status: Exact match
142
93
  • HL_57904.1
HL_57904.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
92
94
  • HL_94578.1
HL_94578.1
  • Basepair signature: cWW-cWS-R-R
  • History status: Exact match
102
95
  • HL_62967.1
HL_62967.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
52
96
  • HL_75575.1
HL_75575.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
62
97
  • HL_97512.1
HL_97512.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
  • Name: LSU Helix 8 (H8) Hairpin Loop
52
98
  • HL_65924.1
HL_65924.1
  • Basepair signature: cWW-cWW-R-R-tWH-R-tWH-R-R-R
  • History status: Exact match
142
99
  • HL_57014.1
HL_57014.1
  • Basepair signature: cWW-R-tWH-R-R-R-R-R-R
  • History status: Exact match
122
100
  • HL_99633.1
HL_99633.1
  • Basepair signature: cWW-cWW-R-tSW-R
  • History status: Exact match
92
101
  • HL_06122.1
HL_06122.1
  • Basepair signature: cWW-R-cSH-R
  • History status: Exact match
82
102
  • HL_64371.2
HL_64371.2
  • Basepair signature: cWW-tSH-R-R-R-R-R-R-R-R
  • History status: Exact match
122
103
  • HL_05361.1
HL_05361.1
  • Basepair signature: cWW-cWW-R
  • History status: Exact match
92
104
  • HL_87554.1
HL_87554.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
52
105
  • HL_84353.1
HL_84353.1
  • Basepair signature: cWW-tSH-R-R
  • History status: Exact match
62
106
  • HL_50312.1
HL_50312.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
62
107
  • HL_67692.1
HL_67692.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
62
108
  • HL_16770.1
HL_16770.1
  • Basepair signature: cWW-R-R-R-R-R-R-R
  • History status: Exact match
102
109
  • HL_45440.1
HL_45440.1
  • Basepair signature: cWW-R
  • History status: Exact match
52
110
  • HL_67367.1
HL_67367.1
  • Basepair signature: cWW-R-R-R-R-R-R
  • History status: Exact match
92
111
  • HL_06312.1
HL_06312.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
62
112
  • HL_19399.1
HL_19399.1
  • Basepair signature: cWW-R-R-R-R-R-cSW-R-R-R-R-R-R
  • History status: Exact match
172
113
  • HL_49210.1
HL_49210.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
92
114
  • HL_42553.1
HL_42553.1
  • Basepair signature: cWW-tSH-R-cWS-R-R-R
  • History status: Exact match
132
115
  • HL_60200.1
HL_60200.1
  • Basepair signature: cWW-tWH-R-R-R-R
  • History status: Exact match
102
116
  • HL_03791.1
HL_03791.1
  • Basepair signature: cWW
  • History status: Exact match
32
117
  • HL_26495.1
HL_26495.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
82
118
  • HL_23290.1
HL_23290.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
82
119
  • HL_58687.1
HL_58687.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
62
120
  • HL_42436.1
HL_42436.1
  • Basepair signature: cWW-tHW-R-R-R-R-R-R-R-R-R-R
  • History status: Exact match
  • Name: Kissing Hairpin from di-GMP-II riboswitch
162
121
  • HL_44467.1
HL_44467.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
122
122
  • HL_77692.1
HL_77692.1
  • Basepair signature: cWW-tSH-cWS-cSH-R-R
  • History status: Exact match
  • Name: tRNA D-loop
111
123
  • HL_87223.1
HL_87223.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
81
124
  • HL_19132.1
HL_19132.1
  • Basepair signature: cWW-tSH-R-tSH-R
  • History status: Exact match
81
125
  • HL_13105.1
HL_13105.1
  • Basepair signature: cWW-cWH-tWH-R-R-R
  • History status: Exact match
121
126
  • HL_66900.1
HL_66900.1
  • Basepair signature: cWW-cWW-R-R
  • History status: Exact match
81
127
  • HL_44390.1
HL_44390.1
  • Basepair signature: cWW-R-tSW-R-tWH-R-R-R
  • History status: Exact match
121
128
  • HL_75850.1
HL_75850.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
61
129
  • HL_16118.1
HL_16118.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
61
130
  • HL_38898.1
HL_38898.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
101
131
  • HL_56775.1
HL_56775.1
  • Basepair signature: cWW-cSH-R-R
  • History status: Exact match
91
132
  • HL_78507.1
HL_78507.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
71
133
  • HL_42969.1
HL_42969.1
  • Basepair signature: cWW-R-R-R-R-R-R-R
  • History status: Exact match
101
134
  • HL_00090.1
HL_00090.1
  • Basepair signature: cWW-R-R-R-R-R-R-R-R
  • History status: Exact match
121
135
  • HL_63690.1
HL_63690.1
  • Basepair signature: cWW-R-R-R-R-R-R
  • History status: Exact match
101
136
  • HL_88960.1
HL_88960.1
  • Basepair signature: cWW-R-tSW-R-R
  • History status: Exact match
81
137
  • HL_80746.1
HL_80746.1
  • Basepair signature: cWW-cSW-R
  • History status: Exact match
61
138
  • HL_10116.1
HL_10116.1
  • Basepair signature: cWW-tSH-tHS-tSS-R-R-R-cWW-R-R-R-R-R
  • History status: Exact match
  • Name: Kink-turn-like Hairpin Loop
191
139
  • HL_99779.1
HL_99779.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
71
140
  • HL_56809.1
HL_56809.1
  • Basepair signature: cWW-R
  • History status: Exact match
111
141
  • HL_99584.1
HL_99584.1
  • Basepair signature: cWW-R
  • History status: Exact match
51
142
  • HL_17008.1
HL_17008.1
  • Basepair signature: cWW-R-R-R-tSW-R-R
  • History status: Exact match
  • Name: Nova-2 KH3 domain binding hairpin
141
143
  • HL_24707.1
HL_24707.1
  • Basepair signature: cWW-cWS
  • History status: Exact match
91
144
  • HL_94697.1
HL_94697.1
  • Basepair signature: cWW-R-cHH-R-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 84 (H84) Hairpin Loop. E.coli.
111
145
  • HL_84888.1
HL_84888.1
  • Basepair signature: cWW-cWW-R-tSH-R-R
  • History status: Exact match
  • Name: T-loop like but without tWH UA
91
146
  • HL_67761.1
HL_67761.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
61
147
  • HL_93530.1
HL_93530.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
81
148
  • HL_48480.1
HL_48480.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
91
149
  • HL_66877.1
HL_66877.1
  • Basepair signature: cWW-cWW-R-cSW-R-cSH
  • History status: Exact match
  • Name: cSH GU/cWS double platform, intercalation site
111
150
  • HL_04194.1
HL_04194.1
  • Basepair signature: cWW-tSH-tSH-R
  • History status: Exact match
91
151
  • HL_49492.1
HL_49492.1
  • Basepair signature: cWW-tSH-tHW-cSH-R-R-R-R-R-R-R
  • History status: Exact match
  • Name: Forms 7-BP PseudoKnot. Has embedded sarcin-like motif
151
152
  • HL_83053.1
HL_83053.1
  • Basepair signature: cWW-cWW-tWW-R-R-R-R-R
  • History status: Exact match
  • Name: SSU Helix 43 (h43) Hairpin Loop from T.th. T-loop like.
121
153
  • HL_95049.1
HL_95049.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
  • Name: Two base, cross-stacked hairpin loop
91
154
  • HL_07915.1
HL_07915.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
91
155
  • HL_08203.1
HL_08203.1
  • Basepair signature: cWW-cWW-tWH-tHH-R
  • History status: Exact match
131
156
  • HL_55543.1
HL_55543.1
  • Basepair signature: cWW-tSH-R
  • History status: Exact match
61
157
  • HL_25197.1
HL_25197.1
  • Basepair signature: cWW-tSH-tSH-bif-R-R-R-R-R-R-R
  • History status: Exact match
171
158
  • HL_13786.1
HL_13786.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
61
159
  • HL_71607.1
HL_71607.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
71
160
  • HL_35004.1
HL_35004.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
61
161
  • HL_66880.1
HL_66880.1
  • Basepair signature: cWW-R-R-R-R-R-R-R-R
  • History status: Exact match
121
162
  • HL_17537.1
HL_17537.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
101
163
  • HL_45358.1
HL_45358.1
  • Basepair signature: cWW-R-R-R-R-tHW-R-R-R-R-R
  • History status: Exact match
  • Name: Double hairpin loop based on GGA triple
131
164
  • HL_27819.1
HL_27819.1
  • Basepair signature: cWW-cWW-tWH-R-R-R-R-R
  • History status: Exact match
131
165
  • HL_68733.1
HL_68733.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
  • Name: LSU Yeast Hairpin Loop
81
166
  • HL_30008.1
HL_30008.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
51
167
  • HL_52393.1
HL_52393.1
  • Basepair signature: cWW-tSH-tSH-R-R
  • History status: Exact match
  • Name: Double tSH (double sheared) with bulged base
91
168
  • HL_97499.1
HL_97499.1
  • Basepair signature: cWW-R
  • History status: Exact match
51
169
  • HL_58601.1
HL_58601.1
  • Basepair signature: cWW-cWH-R
  • History status: Exact match
61
170
  • HL_62970.1
HL_62970.1
  • Basepair signature: cWW-R-tSH-tSH-R-tSH-R-R
  • History status: Exact match
131
171
  • HL_82243.1
HL_82243.1
  • Basepair signature: cWW-R-R-R-R-R-R
  • History status: Exact match
101
172
  • HL_38897.1
HL_38897.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
  • Name: S8 operon binding Hairpin Loop. T-loop like with purine stacking.
81
173
  • HL_57923.1
HL_57923.1
  • Basepair signature: cWW-cWW-R-R
  • History status: Exact match
91
174
  • HL_27397.1
HL_27397.1
  • Basepair signature: cWW-cWW-R-R
  • History status: Exact match
91
175
  • HL_50059.1
HL_50059.1
  • Basepair signature: cWW-tSW-cSS-R
  • History status: Exact match
  • Name: LSU Helix 35 (H35) Hairpin Loop from Yeast
101
176
  • HL_85018.1
HL_85018.1
  • Basepair signature: cWW-R-R-R-R-R-R-R
  • History status: Exact match
101
177
  • HL_59610.1
HL_59610.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
91
178
  • HL_68435.1
HL_68435.1
  • Basepair signature: cWW-bif-R-R-R
  • History status: Exact match
91
179
  • HL_12706.1
HL_12706.1
  • Basepair signature: cWW-tSW
  • History status: Exact match
71
180
  • HL_90102.1
HL_90102.1
  • Basepair signature: cWW-tSH-tHS-R-R-R-R-R-R-R-R-R-R-R-R-R
  • History status: Exact match
  • Name: Kink-turn-like Hairpin Loop
211
181
  • HL_42345.1
HL_42345.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
81
182
  • HL_33524.1
HL_33524.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
  • Name: tRNA T-loop distorted by RS binding
91
183
  • HL_30128.1
HL_30128.1
  • Basepair signature: cWW-tSH-R-R-R-R-R
  • History status: Exact match
91
184
  • HL_37962.1
HL_37962.1
  • Basepair signature: cWW-tSH-R-R-R-R
  • History status: Exact match
91
185
  • HL_62880.1
HL_62880.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
71
186
  • HL_69403.1
HL_69403.1
  • Basepair signature: cWW-cWW-tSH-R-R-R
  • History status: Exact match
  • Name: GNRA-like
101
187
  • HL_45411.1
HL_45411.1
  • Basepair signature: cWW-tSW-R-R-R-R
  • History status: Exact match
91
188
  • HL_52109.1
HL_52109.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
61
189
  • HL_34440.1
HL_34440.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
61
190
  • HL_19452.1
HL_19452.1
  • Basepair signature: cWW-R-R-cWS-cSH-R-R
  • History status: Exact match
  • Name: tRNA D-loop
141
191
  • HL_30366.1
HL_30366.1
  • Basepair signature: cWW-tSH-tHW-tHW-cSH-R
  • History status: Exact match
  • Name: LSU Helix 10 (H10) Hairpin E.coli
111
192
  • HL_58223.1
HL_58223.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
91
193
  • HL_70912.1
HL_70912.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
81
194
  • HL_95716.1
HL_95716.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
61
195
  • HL_96994.1
HL_96994.1
  • Basepair signature: cWW-R-R-R-R-R-R-R-R
  • History status: Exact match
111
196
  • HL_93567.1
HL_93567.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
71
197
  • HL_57217.1
HL_57217.1
  • Basepair signature: cWW-R-R-R-cSH
  • History status: Exact match
  • Name: cHS platform Intercalation Site
91
198
  • HL_96192.1
HL_96192.1
  • Basepair signature: cWW-R-tWH-R-R-R
  • History status: Exact match
91
199
  • HL_82288.1
HL_82288.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
111
200
  • HL_33640.1
HL_33640.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
91
201
  • HL_20914.1
HL_20914.1
  • Basepair signature: cWW-L-R-cWW-R-R-R-R-R-R-R-R-R-R
  • History status: Exact match
171
202
  • HL_30731.1
HL_30731.1
  • Basepair signature: cWW-R
  • History status: Exact match
71
203
  • HL_47337.1
HL_47337.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
71
204
  • HL_98233.1
HL_98233.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
91
205
  • HL_59604.1
HL_59604.1
  • Basepair signature: cWW
  • History status: Exact match
51
206
  • HL_26579.1
HL_26579.1
  • Basepair signature: cWW-cWW
  • History status: Exact match
91
207
  • HL_97971.1
HL_97971.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
61
208
  • HL_24108.1
HL_24108.1
  • Basepair signature: cWW-cWW-R-R-R
  • History status: Exact match
111
209
  • HL_94145.1
HL_94145.1
  • Basepair signature: cWW-cWW-tWW-R-R-R-R
  • History status: Exact match
  • Name: SSU Helix 43 (h43) Hairpin Loop E.coli
111
210
  • HL_84289.1
HL_84289.1
  • Basepair signature: cWW-cWW-R-R-R-R-R-R
  • History status: Exact match
131
211
  • HL_10378.1
HL_10378.1
  • Basepair signature: cWW-R
  • History status: Exact match
  • Name: Double 5'-stacked purine Hairpin Loop from Eukaryal LSU
71
212
  • HL_36842.1
HL_36842.1
  • Basepair signature: cWW-R-tSH-R-R
  • History status: Exact match
81
213
  • HL_81295.1
HL_81295.1
  • Basepair signature: cWW
  • History status: Exact match
  • Name: UNCG-like. cWW Closing pair.
51
214
  • HL_35865.1
HL_35865.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
61
215
  • HL_25195.1
HL_25195.1
  • Basepair signature: cWW-cWH-R-R-R-R-R-R-R
  • History status: Exact match
141
216
  • HL_68579.1
HL_68579.1
  • Basepair signature: cWW-cWW-R
  • History status: Exact match
81
217
  • HL_78420.1
HL_78420.1
  • Basepair signature: cWW-R-R-R-R-R-R
  • History status: Exact match
111
218
  • HL_73465.1
HL_73465.1
  • Basepair signature: cWW-cSW-R-R-R-R-R-R-R
  • History status: Exact match
111
219
  • HL_44522.1
HL_44522.1
  • Basepair signature: cWW-cWS-R
  • History status: Exact match
111
220
  • HL_85753.1
HL_85753.1
  • Basepair signature: cWW-cWW-R-R-R-R
  • History status: Exact match
101
221
  • HL_35200.1
HL_35200.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
71
222
  • HL_59182.1
HL_59182.1
  • Basepair signature: cWW-cWW-R-R-R-R-R-R-R-R-R-R
  • History status: Exact match
161
223
  • HL_07315.1
HL_07315.1
  • Basepair signature: cWW-cWS-R
  • History status: Exact match
91
224
  • HL_19226.1
HL_19226.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
81
225
  • HL_63304.1
HL_63304.1
  • Basepair signature: cWW-R-R-R-R-R-R-R-R-R-R-R-R
  • History status: Exact match
151
226
  • HL_91613.1
HL_91613.1
  • Basepair signature: cWW-cWW-cWW-R-R-R
  • History status: Exact match
111
227
  • HL_25175.1
HL_25175.1
  • Basepair signature: cWW-L-R-R-cWW-R-cWW-cWW-R-R-R
  • History status: Exact match
161
228
  • HL_31969.1
HL_31969.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
61
229
  • HL_39422.1
HL_39422.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
91
230
  • HL_67000.1
HL_67000.1
  • Basepair signature: cWW-tSW-R
  • History status: Exact match
61
231
  • HL_39486.1
HL_39486.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
81
232
  • HL_34375.1
HL_34375.1
  • Basepair signature: cWW-tWH-R-R-R-R-R-R-R
  • History status: Exact match
131
233
  • HL_12984.1
HL_12984.1
  • Basepair signature: cWW-L-cWW-R-R-R-R-R
  • History status: Exact match
111
234
  • HL_53789.1
HL_53789.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
61
235
  • HL_79902.1
HL_79902.1
  • Basepair signature: cWW-tSH-tHS-R-R
  • History status: Exact match
111
236
  • HL_55272.1
HL_55272.1
  • Basepair signature: cWW-cWW-L-R-cSS-cWW
  • History status: Exact match
101
237
  • HL_99207.1
HL_99207.1
  • Basepair signature: cWW-tSS-R-R
  • History status: Exact match
  • Name: Tetrahymena LSU hairpin poorly modeled
91
238
  • HL_17468.1
HL_17468.1
  • Basepair signature: cWW-tSH-R
  • History status: Exact match
71
239
  • HL_00721.1
HL_00721.1
  • Basepair signature: cWW
  • History status: Exact match
61
240
  • HL_29084.1
HL_29084.1
  • Basepair signature: cWW-R-R-R-R-R-R
  • History status: Exact match
101
241
  • HL_01418.1
HL_01418.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
51
242
  • HL_55202.1
HL_55202.1
  • Basepair signature: cWW-cWW-R-R-R-R-R-R-R-R
  • History status: Exact match
  • Name: U2B"-U2A" binding hairpin loop
151
243
  • HL_38138.1
HL_38138.1
  • Basepair signature: cWW-R-R-R
  • History status: Exact match
101
244
  • HL_20806.1
HL_20806.1
  • Basepair signature: cWW-R-R-R-R-cHH-R-R
  • History status: Exact match
141
245
  • HL_33277.1
HL_33277.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
81
246
  • HL_65802.1
HL_65802.1
  • Basepair signature: cWW-tSH-tHH-R-R-R-R-R
  • History status: Exact match
111
247
  • HL_60203.1
HL_60203.1
  • Basepair signature: cWW-L-cWW
  • History status: Exact match
81
248
  • HL_57843.1
HL_57843.1
  • Basepair signature: cWW-tSW-R
  • History status: Exact match
71
249
  • HL_53015.1
HL_53015.1
  • Basepair signature: cWW-cSH-tSS-R-R
  • History status: Exact match
101
250
  • HL_97784.1
HL_97784.1
  • Basepair signature: cWW-R-R-R-R-R-R-R-R-R-R-R-R
  • History status: Exact match
181
251
  • HL_65071.1
HL_65071.1
  • Basepair signature: cWW-R
  • History status: Exact match
61
252
  • HL_78228.1
HL_78228.1
  • Basepair signature: cWW-R-R-R-R-cWS-R-R-R
  • History status: Exact match
121
253
  • HL_20028.1
HL_20028.1
  • Basepair signature: cWW-R-R-R-R-R
  • History status: Exact match
111
254
  • HL_85044.1
HL_85044.1
  • Basepair signature: cWW-tSH-R-R-R-R-R-R-R
  • History status: Exact match
  • Name: LSU Helix 10 (H10) Hairpin E.coli
121
255
  • HL_05113.1
HL_05113.1
  • Basepair signature: cWW-R-R-R-R
  • History status: Exact match
111
256
  • HL_66467.1
HL_66467.1
  • Basepair signature: cWW-R-R
  • History status: Exact match
61



Exact match 256;