RNA 3D Hub

JAR3D Query RF00168-3.98 completed
Run on Motif Atlas Version using the Rfam secondary structure. Run with the CaCoFold secondary structure.

Rfam family RF00168 maps to these 16 chains: 3D0U|1|A, 3D0X|1|A, 3DIG|1|X, 3DIL|1|A, 3DIM|1|A, 3DIO|1|X, 3DIQ|1|A, 3DIR|1|A, 3DIS|1|A, 3DIX|1|A, 3DIY|1|A, 3DIZ|1|A, 3DJ0|1|A, 3DJ2|1|A, 4ERJ|1|A, 4ERL|1|A See more about them at RNA 3D Hub by filtering on the chain or the Rfam family.

Loop 10 Hairpin loop

Column numbers: 183-252 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    GA--AGCGUUCGCAGUCGGGCGUUUCGC---------------------------------------AAG    3

    
    GAA-UUUGUCGAAAU----------------------------------------------------UUC    3

    
    UA--UAUUUACAUU-----------------------------------------------------AAA    2

    
    GA--AACGUUCGCAGUCGGGCGUUUCAUACCCGAACACCUCAGCGCCCAAAGCGGUGAGUCGGGUCUACA    1

    
    GGG-AUUGUCCGUAGGGGCAAUCA-------------------------------------------GCA    1

    
    GU--GCCGUUCCUUUAGGGCGGUCA------------------------------------------ACA    1

    
    GA--UUCGUCCUGAUGGACGUCCA-------------------------------------------GCA    1

    
    AAG-GCUCCCCAGGC----------------------------------------------------CUU    1

    
    GA--GGUUUCCCGAGC---------------------------------------------------CUU    1

    
    UA--UAUAUUCACAUU---------------------------------------------------AAA    1

    
    UA--UUUAAUGUA------------------------------------------------------UAA    1

    
    UC--AUUUUUGAU------------------------------------------------------UAA    1

    
    AGCGGAUGUU---------------------------------------------------------GCU    1

    
    AUG-GUUAAUA--------------------------------------------------------ACC    1

    
    AUGGUUAAGA---------------------------------------------------------ACC    1

    
    UC--UUAAUUUU-------------------------------------------------------AAA    1

    
    UU--UUUCUGAU-------------------------------------------------------UAA    1

    
    UCA-AAUAAU---------------------------------------------------------CGG    1

    
    UC--UUUUUU---------------------------------------------------------AAA    1

    
    UA--UUU-AU---------------------------------------------------------CCA    1

    
    CUA-GAA------------------------------------------------------------UAG    1

    
    AA--UCA------------------------------------------------------------UUU    1

    
    CA--GCG------------------------------------------------------------CCG    1

    
    CGG-UGC-------------------------------------------------------------CG    1

    
    GA--UUU------------------------------------------------------------AUU    1

    
    UC--CUU------------------------------------------------------------GUA    1

    
    UU--AUU------------------------------------------------------------AAA    1

    
    UU--AUU------------------------------------------------------------UAA    1

    
    UU--UAA------------------------------------------------------------AAA    1

    
    UU--UUA------------------------------------------------------------AGA    1

    
    AA--UCA-------------------------------------------------------------UU    1

    
    AU--AAA-------------------------------------------------------------GU    1

    
    UU--CAA-------------------------------------------------------------UA    1

    
    UUA-ACA--------------------------------------------------------------G    1

    
    AU--GCU--------------------------------------------------------------U    1

    
    GA--CCU--------------------------------------------------------------C    1

    
    GC--UUU--------------------------------------------------------------U    1

    
    GU--AUU--------------------------------------------------------------C    1

    
    UA--AAU--------------------------------------------------------------G    1

    
    ----AUU---------------------------------------------------------------    1

    
    ----GAA---------------------------------------------------------------    1

    
    ----UUA---------------------------------------------------------------    1
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_53890.2

Basepair signature:
cWW-F-F-F

17.02 -3189.77 6 5

2

Motif group HL_20535.2

Basepair signature:
cWW-F-F-F-F

14.89 -2483.22 6 5

3

Motif group HL_48417.5

Basepair signature:
cWW-F-F

12.77 -1838.12 5 4

4

Motif group HL_50318.1

Basepair signature:
cWW-cSH-F-F

12.77 -4049.32 6 6

5

Motif group HL_70782.2

Basepair signature:
cWW-F

12.77 -5364.07 6 6

6

Motif group HL_77436.5

Basepair signature:
cWW-F-F-F-F-F

10.64 -1210.74 5 4

T-loop related

7

Motif group HL_25967.2

Basepair signature:
cWW-cWW-F-F-F

10.64 -2457.49 7 5

8

Motif group HL_50006.2

Basepair signature:
cWW-F-F

10.64 -3144.40 6 4

9

Motif group HL_56131.2

Basepair signature:
cWW-F-F

10.64 -3155.57 6 4

10

Motif group HL_57875.1

Basepair signature:
cWW-F-F

10.64 -4055.91 7 6

11

Motif group HL_57176.2

Basepair signature:
cWW-F-F-F

10.64 -5364.57 6 5

Pseudoknot geometry with 3' bulge

12

Motif group HL_28075.1

Basepair signature:
cWW-F-F-F-F-F

8.51 -1781.62 5 4

13

Motif group HL_87553.1

Basepair signature:
cWW-F-F-F-F-F

8.51 -1875.76 5 5

14

Motif group HL_86870.2

Basepair signature:
cWW-F-F-F

8.51 -1940.14 6 6

15

Motif group HL_09452.1

Basepair signature:
cWW-F-F-F

8.51 -4183.71 7 6

16

Motif group HL_38901.2

Basepair signature:
cWW-F-cSH

8.51 -5159.22 7 6

tRNA D-loop

17

Motif group HL_56334.1

Basepair signature:
cWW-F

8.51 -5609.30 6 6

Mini UNCG

18

Motif group HL_69752.2

Basepair signature:
cWW-F

8.51 -6064.85 7 6

19

Motif group HL_20167.2

Basepair signature:
cWW-F-F-F-F-F-F

6.38 -1193.32 6 5

20

Motif group HL_13529.1

Basepair signature:
cWW-F-F-F-F

6.38 -1595.85 6 5

21

Motif group HL_78347.4

Basepair signature:
cWW-F-F-F-F

6.38 -1867.47 6 5

22

Motif group HL_10453.3

Basepair signature:
cWW-F-F-F-F-F

6.38 -2184.36 6 4

tRNA anticodon loop

23

Motif group HL_93324.4

Basepair signature:
cWW-F-F-F-F-F-F

6.38 -2554.85 5 5

Pseudoknot geometry

24

Motif group HL_87954.2

Basepair signature:
cWW-tSW-F

6.38 -3245.81 7 6

25

Motif group HL_78197.1

Basepair signature:
cWW-F-F-F-F-F-F

6.38 -3625.75 5 5

26

Motif group HL_97917.2

Basepair signature:
cWW-F-F-F-F

6.38 -3782.13 6 5

27

Motif group HL_39243.1

Basepair signature:
cWW-F-F-F-F

6.38 -4690.51 6 5

28

Motif group HL_46501.1

Basepair signature:
cWW-cWS

6.38 -5169.59 7 6

29

Motif group HL_29966.1

Basepair signature:
cWW-F-F-F

6.38 -5612.57 7 6

30

Motif group HL_32346.4

Basepair signature:
cWW-F

6.38 -5624.58 6 6

31

Motif group HL_75660.5

Basepair signature:
cWW-F

6.38 -6059.43 6 6

32

Motif group HL_81100.2

Basepair signature:
cWW

6.38 -6682.86 7 6

33

Motif group HL_26934.1

Basepair signature:
cWW-F-F-F-F-F-F

4.26 -1154.52 7 5

34

Motif group HL_18565.1

Basepair signature:
cWW-cWW-F-F-F-F

4.26 -1624.41 7 6

35

Motif group HL_41464.2

Basepair signature:
cWW-F-F-F-F-F

4.26 -1639.88 7 5

36

Motif group HL_80008.1

Basepair signature:
cWW-F-F-F-cSH-F

4.26 -1781.95 8 6

37

Motif group HL_64690.6

Basepair signature:
cWW-cSW-F-F-F-F

4.26 -1860.97 6 5

38

Motif group HL_04783.2

Basepair signature:
cWW-F-F-F

4.26 -1902.28 6 5

39

Motif group HL_07886.3

Basepair signature:
cWW-F-F-F

4.26 -1935.95 6 5

40

Motif group HL_50537.6

Basepair signature:
cWW-F-F-F

4.26 -2111.26 6 5

tRNA anticodon loop with synthetase

41

Motif group HL_85367.2

Basepair signature:
cWW-F-F-F-F-F-F

4.26 -2521.43 6 5

42

Motif group HL_99748.1

Basepair signature:
cWW-F-F-cSH

4.26 -3174.82 7 5

Other HL

43

Motif group HL_02817.2

Basepair signature:
cWW-F-F-F-F

4.26 -3454.18 6 5

44

Motif group HL_31585.4

Basepair signature:
cWW-F-F-F-F-F

4.26 -3835.56 6 4

Purine riboswitch

45

Motif group HL_93535.1

Basepair signature:
cWW-F-F-F-F

4.26 -3870.78 6 6

46

Motif group HL_82710.2

Basepair signature:
cWW-F-F-F

4.26 -4098.61 7 7

47

Motif group HL_15574.1

Basepair signature:
cWW-F-F-F-F-F

4.26 -4316.06 7 6

48

Motif group HL_48778.2

Basepair signature:
cWW-F

4.26 -5399.02 5 5

Mini UNCG

49

Motif group HL_65313.1

Basepair signature:
cWW-F-F-F

4.26 -5619.50 7 6

50

Motif group HL_80709.3

Basepair signature:
cWW-F-F-F

4.26 -5621.94 7 6

51

Motif group HL_78677.1

Basepair signature:
cWW-F-F

4.26 -5871.85 8 7

52

Motif group HL_59735.5

Basepair signature:
cWW-F-F-F-F-F

4.26 -7139.08 7 5

53

Motif group HL_36335.1

Basepair signature:
cWW-F-F-cSS-cSS-F

2.13 -886.42 9 7

54

Motif group HL_01962.2

Basepair signature:
cWW-tWH-tWH-F

2.13 -1092.42 7 6

55

Motif group HL_15802.1

Basepair signature:
cWW-cWW-F-F-F

2.13 -1134.80 7 6

56

Motif group HL_34964.1

Basepair signature:
cWW-F-F-F-F-F

2.13 -1203.45 7 6

57

Motif group HL_73266.9

Basepair signature:
cWW-F-F-cSW-cSH-F

2.13 -1254.81 6 5

58

Motif group HL_01609.3

Basepair signature:
cWW-tWH-F-F-F

2.13 -1472.73 6 5

T-loop with 2 bulged bases not stacked

59

Motif group HL_73255.1

Basepair signature:
cWW-F-F-F-F-F-F

2.13 -1605.10 8 6

60

Motif group HL_75293.5

Basepair signature:
cWW-F-F-F-F-F-F-F-F

2.13 -1635.34 6 5

61

Motif group HL_25061.1

Basepair signature:
cWW-F-F-F-F

2.13 -1736.08 7 6

62

Motif group HL_84299.4

Basepair signature:
cWW-F-F-F-F-F-F

2.13 -1745.82 6 5

63

Motif group HL_80922.2

Basepair signature:
cWW-tSH-F

2.13 -1905.32 6 6

64

Motif group HL_04259.3

Basepair signature:
cWW-F-F-F-F-F-F

2.13 -1942.71 6 5

GNRA with extra cWW

65

Motif group HL_37824.7

Basepair signature:
cWW-F-F-F-F

2.13 -2020.63 6 5

GNRA

66

Motif group HL_77082.1

Basepair signature:
cWW-F-F-F-F-F-F

2.13 -2219.31 6 5

Pseudoknot geometry

67

Motif group HL_69139.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

2.13 -2226.37 7 6

68

Motif group HL_81538.2

Basepair signature:
cWW-tSH-F-F-F-F

2.13 -2309.53 5 4

GNRA with tandem sheared

69

Motif group HL_37369.2

Basepair signature:
cWW-tSH-F-F-F

2.13 -2377.80 6 5

70

Motif group HL_33983.1

Basepair signature:
cWW-F-F-F-F-F

2.13 -2500.99 7 5

71

Motif group HL_22584.6

Basepair signature:
cWW-tSW-F

2.13 -2734.72 7 6

Fab BL3-6 binding hairpin with tSW

72

Motif group HL_08510.1

Basepair signature:
cWW-F-F-cSH-F-F

2.13 -3115.55 7 6

73

Motif group HL_08100.1

Basepair signature:
cWW-F-F-F

2.13 -3126.39 6 4

74

Motif group HL_00914.1

Basepair signature:
cWW-F-F-F-F

2.13 -3637.04 7 6

75

Motif group HL_30068.2

Basepair signature:
cWW-F-F-F-F

2.13 -3889.61 6 5

76

Motif group HL_66103.1

Basepair signature:
cWW-F-F

2.13 -4059.53 7 6

77

Motif group HL_43517.1

Basepair signature:
cWW-F-F-F

2.13 -4066.75 7 5

78

Motif group HL_59330.1

Basepair signature:
cWW-F-F-F-F-F

2.13 -4143.56 7 7

79

Motif group HL_56676.1

Basepair signature:
cWW-F-F

2.13 -4370.64 7 6

80

Motif group HL_22622.1

Basepair signature:
cWW-F-F-F-F-F

2.13 -4719.66 7 6

81

Motif group HL_89199.2

Basepair signature:
cWW-F-F-F

2.13 -4956.83 7 7

Mini UNCG

82

Motif group HL_99040.1

Basepair signature:
F-F-F-F-F-F

2.13 -5266.87 7 7

83

Motif group HL_30680.3

Basepair signature:
cWW-F-F-F-F-F

2.13 -5377.08 7 6

Pseudoknot geometry

84

Motif group HL_86883.1

Basepair signature:
cWW-F-F-F

2.13 -5637.02 8 6

85

Motif group HL_65794.5

Basepair signature:
cWW-F-F-F-F

2.13 -5812.76 6 5

Pseudoknot geometry

86

Motif group HL_77600.2

Basepair signature:
cWW-F-F-F-F-F

2.13 -5861.51 6 5

87

Motif group HL_38168.1

Basepair signature:
cWW-F

2.13 -6053.67 7 6

88

Motif group HL_70658.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F

0.00 -329.10 8 7

89

Motif group HL_74055.2

Basepair signature:
cWW-tWH-cWH-tSH-tHW-tHW-tSW

0.00 -339.90 10 9

90

Motif group HL_73247.1

Basepair signature:
cWW-F-tWH-F-F-F-F-F-F-F-F-F-F

0.00 -340.99 10 9

Pseudoknot geometry

91

Motif group HL_14757.1

Basepair signature:
cWW-cWW-F-F-tSW-tWW-cWW-tHW-tSW-F-cWH-F

0.00 -341.91 12 11

92

Motif group HL_84847.1

Basepair signature:
cWW-F-F-F-F-tWW-F-F-F-F-F-F

0.00 -345.58 10 9

93

Motif group HL_74379.3

Basepair signature:
cWW-F-F-cSS-cSS-F-F-F

0.00 -349.77 8 7

94

Motif group HL_81205.3

Basepair signature:
cWW-cWW-tWH-F-tWH-F-F-F-F-F

0.00 -349.78 10 9

95

Motif group HL_02581.1

Basepair signature:
cWW-tSH-cWS-tSW-F-F-F

0.00 -352.39 10 9

tRNA D-loop

96

Motif group HL_41902.1

Basepair signature:
cWW-cWW-cWH-F-F-F-F-F

0.00 -353.79 10 9

97

Motif group HL_91641.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-cSW-F-F-F-F

0.00 -356.65 11 11

98

Motif group HL_41543.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -357.24 8 7

99

Motif group HL_98870.1

Basepair signature:
cWW-tSH-tWW-F-F-F-F-F

0.00 -357.99 10 10

100

Motif group HL_07583.1

Basepair signature:
cWW-cWW-F-F-F-F-F-F-F-F

0.00 -360.17 9 8

101

Motif group HL_91939.2

Basepair signature:
cWW-tSH-tHH-tWW-F-F-F

0.00 -363.34 8 7

102

Motif group HL_60266.1

Basepair signature:
cWW-cWW-tWH-F-F-F-F

0.00 -409.49 8 7

103

Motif group HL_92488.1

Basepair signature:
cWW-cWW-F-cSS-F-F-F-F-F-F

0.00 -616.27 11 10

104

Motif group HL_51921.1

Basepair signature:
cWW-tSH-tSS-tHS-F-F-F-F-F-F-F-F-F-F-F

0.00 -624.84 14 13

105

Motif group HL_86109.1

Basepair signature:
cWW-F-tWH-F-F-F-F-F-F-F

0.00 -626.69 9 7

106

Motif group HL_68257.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -641.42 8 7

107

Motif group HL_05304.3

Basepair signature:
cWW-cWW-F-F-tSH-F-F-F-F-F

0.00 -644.61 8 7

108

Motif group HL_90620.1

Basepair signature:
cWW-F-F-F-F-cSW-cSH-F

0.00 -727.52 8 7

109

Motif group HL_67079.1

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -741.32 7 6

110

Motif group HL_93438.2

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -768.26 7 5

111

Motif group HL_13971.1

Basepair signature:
cWW-cWS-F-tSW-F-tSH-tSH-cWW-F-F

0.00 -805.83 10 9

112

Motif group HL_08602.1

Basepair signature:
cWW-cSS-F-cSS-F-F-F-F-F

0.00 -858.20 9 8

113

Motif group HL_68767.1

Basepair signature:
cWW-cWS-tSH-cWS-F

0.00 -890.50 9 8

tRNA D-loop

114

Motif group HL_23509.1

Basepair signature:
cSH-F-F-F-F-F-F-F-F-F

0.00 -924.02 8 7

115

Motif group HL_53504.3

Basepair signature:
cWW-tSH-F-F-F-F-F-F

0.00 -927.55 8 6

116

Motif group HL_02887.3

Basepair signature:
cWW-tWH-F-F-F-F-F-F

0.00 -948.06 8 6

T-loop with 3 stacked bulged bases

117

Motif group HL_06226.4

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -965.94 8 7

118

Motif group HL_18978.1

Basepair signature:
cWW-F-F-tHW-F-F-F

0.00 -968.37 8 6

119

Motif group HL_86012.1

Basepair signature:
cWW-tWH-F-F-F-F

0.00 -976.44 7 5

T-loop with unstacked turn

120

Motif group HL_40252.4

Basepair signature:
cWW-tSH-cWS-F

0.00 -983.41 8 7

121

Motif group HL_83808.4

Basepair signature:
cWW-tWW-F-F-F

0.00 -1002.63 8 7

Pseudoknot

122

Motif group HL_10456.1

Basepair signature:
cWW-F-cWW-tWW-F-tHW-F-F-F-F-F-F-F

0.00 -1011.51 13 12

123

Motif group HL_07480.2

Basepair signature:
cWW-tSH-F-F-F

0.00 -1014.30 9 7

124

Motif group HL_49941.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -1025.74 8 6

tRNA D-loop

125

Motif group HL_11542.1

Basepair signature:
cWW-tSH-F-F-F-F-F-F

0.00 -1044.61 10 9

126

Motif group HL_81545.2

Basepair signature:
cWW-tWH-F-F-F-F

0.00 -1057.90 7 5

127

Motif group HL_18423.1

Basepair signature:
cWW-tSH-tHS-F

0.00 -1085.20 8 6

128

Motif group HL_50860.2

Basepair signature:
cWW-F-cWH-F-F-F-F

0.00 -1152.05 7 6

129

Motif group HL_61996.2

Basepair signature:
cWW-tWH-F-F-F

0.00 -1191.02 6 5

130

Motif group HL_20743.5

Basepair signature:
cWW-cWW-F-F-F-F

0.00 -1207.32 6 6

131

Motif group HL_25847.2

Basepair signature:
cWW-F-cSH-tHW-F-F-F

0.00 -1218.22 7 6

132

Motif group HL_16991.1

Basepair signature:
cWW-cWH-cWH-F-cWH-F

0.00 -1221.62 9 8

G-quadruplex fragment

133

Motif group HL_89881.5

Basepair signature:
cWW-tHW-F-F-F-F-F-F

0.00 -1223.91 7 6

134

Motif group HL_02483.1

Basepair signature:
cWW-tWH-F-cSH-F-F-F

0.00 -1227.40 9 8

135

Motif group HL_97756.2

Basepair signature:
cWW-cSH-cWS-F-tSW-cSW-F-cWW-F-F-F

0.00 -1239.30 10 9

136

Motif group HL_28252.8

Basepair signature:
cWW-tWH-F-F-F-F-F

0.00 -1240.79 5 4

T-loop with 2 stacked bulged bases

137

Motif group HL_98864.1

Basepair signature:
cWW-tWH-F-F-F-F-F-F

0.00 -1243.02 7 6

T-loop with unstacked turn

138

Motif group HL_93616.2

Basepair signature:
cWW-cWS-F-F-F-F

0.00 -1252.02 8 7

tRNA D-loop

139

Motif group HL_45785.1

Basepair signature:
cWW-F-F-F-F-cSH-F-F

0.00 -1258.03 9 7

140

Motif group HL_89346.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F

0.00 -1269.68 13 12

141

Motif group HL_99769.3

Basepair signature:
cWW-cWW-F-F-F-F

0.00 -1281.44 7 6

142

Motif group HL_85434.1

Basepair signature:
cWW-cWW-F-F-F-F-F-F

0.00 -1293.04 8 7

143

Motif group HL_87463.1

Basepair signature:
cWW-cWW-F-F-F-F-F

0.00 -1340.38 7 6

144

Motif group HL_04642.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -1353.03 8 6

tRNA D-loop

145

Motif group HL_57863.1

Basepair signature:
cWW-F-F-cWH-cWH-F

0.00 -1365.81 8 6

G-quadruplex fragment

146

Motif group HL_98252.1

Basepair signature:
cWW-tWW-F-F-F-F

0.00 -1405.04 7 6

147

Motif group HL_58224.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -1416.15 8 6

148

Motif group HL_23010.1

Basepair signature:
cWW-F-F-F-F-F-F

0.00 -1435.58 9 7

149

Motif group HL_29129.3

Basepair signature:
cWW-tWH-F-F-F-F

0.00 -1437.49 8 6

150

Motif group HL_20751.2

Basepair signature:
cWW-tHW-F-F-F-F-F-F-F-F-F

0.00 -1464.64 10 9

151

Motif group HL_04641.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -1485.90 9 7

152

Motif group HL_66853.7

Basepair signature:
cWW-cWS-F-cSH

0.00 -1486.97 7 5

153

Motif group HL_04171.7

Basepair signature:
cWW-cWW-F-F-F-F-F-F

0.00 -1507.54 7 6

154

Motif group HL_53454.2

Basepair signature:
cWW-tSH-F-F-F-F-F

0.00 -1519.01 7 6

155

Motif group HL_66482.1

Basepair signature:
cWW-cWW-tWW-F-F-tWH-F-F-F-F-F-F-F-F

0.00 -1526.90 12 11

156

Motif group HL_89567.2

Basepair signature:
cWW-F-F-F

0.00 -1533.54 7 6

157

Motif group HL_73183.1

Basepair signature:
cWW-tSH-tHW-F-F-F-F-F-F-F-F-F

0.00 -1598.90 10 10

Pseudoknot geometry with G-bulge

158

Motif group HL_45175.1

Basepair signature:
cWW-cWS-F-F

0.00 -1600.29 7 6

tRNA D-loop

159

Motif group HL_42046.2

Basepair signature:
cWW-tSS-F-F-F

0.00 -1621.39 6 5

160

Motif group HL_86769.4

Basepair signature:
cWW-cWW-cSH-F

0.00 -1653.74 6 5

161

Motif group HL_33074.4

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -1741.24 9 7

U1 small nuclear ribonucleoprotein A binding hairpin

162

Motif group HL_10540.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -1755.99 6 5

163

Motif group HL_20811.4

Basepair signature:
cWW-cWS-F

0.00 -1794.23 6 5

tRNA D-loop

164

Motif group HL_72628.1

Basepair signature:
cWW-tSH-F-F-F-F

0.00 -1806.84 7 6

165

Motif group HL_23115.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -1872.62 9 7

tRNA D-loop

166

Motif group HL_06059.6

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -1895.49 6 4

tRNA anticodon loop

167

Motif group HL_88558.1

Basepair signature:
cWW-tSH-F-F-F-F-F-F-F

0.00 -1940.32 8 7

168

Motif group HL_91503.7

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -1941.99 7 6

169

Motif group HL_64292.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -1942.60 11 10

170

Motif group HL_38649.1

Basepair signature:
cWW-tSH-F-F-F-F-F-F

0.00 -1948.44 8 7

171

Motif group HL_29762.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -1961.68 7 6

172

Motif group HL_80411.1

Basepair signature:
cWW-F-cSH-F-F-F-F

0.00 -1963.91 9 8

tRNA D-loop

173

Motif group HL_80599.2

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -1991.23 7 5

174

Motif group HL_93135.1

Basepair signature:
cWW-F-F-F-F-F-F

0.00 -2061.34 8 6

Pseudoknot

175

Motif group HL_55436.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -2065.66 7 6

176

Motif group HL_88205.2

Basepair signature:
cWW-cWS-tSW-F-F

0.00 -2082.56 6 5

177

Motif group HL_32735.2

Basepair signature:
cWW-tSH-F-F-F-F-F

0.00 -2139.96 6 5

178

Motif group HL_16398.2

Basepair signature:
cWW-F-F-F-F-F-F

0.00 -2180.75 9 8

179

Motif group HL_97733.1

Basepair signature:
cWW-F-F-F-cSH-F

0.00 -2217.48 9 7

180

Motif group HL_67407.5

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -2226.65 8 6

181

Motif group HL_59564.1

Basepair signature:
cWW-F-cSS-F-cSS-F-F-F-F-F-F-F-F-F-F-F-F

0.00 -2276.49 14 13

182

Motif group HL_81312.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F

0.00 -2287.85 8 7

183

Motif group HL_35677.3

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -2330.02 6 5

184

Motif group HL_19210.3

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -2335.13 7 6

185

Motif group HL_00317.1

Basepair signature:
cWW-F-cSS-F-F-F-F-F-F-F-F-F-F-F-F-F-F

0.00 -2337.45 14 13

186

Motif group HL_55305.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -2367.92 8 7

187

Motif group HL_01255.1

Basepair signature:
F-F-F-F-F-F-F-F

0.00 -2428.62 8 7

188

Motif group HL_38046.1

Basepair signature:
cWW-F-F-F-F-F-F

0.00 -2469.02 7 6

189

Motif group HL_83632.1

Basepair signature:
cWW-F-F-F-F-F-F

0.00 -2600.19 6 5

tRNA anticodon loop

190

Motif group HL_47732.1

Basepair signature:
cWW-F-F-F-F-F-F

0.00 -2637.02 9 8

191

Motif group HL_88364.2

Basepair signature:
cWW-cWW-F-F-F-F-F-F-F-F-F-F-F

0.00 -2692.09 10 10

192

Motif group HL_29958.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -2725.41 10 9

193

Motif group HL_07903.1

Basepair signature:
cWW-cWW-F-F-F-F-F-F-F-F-F

0.00 -2737.22 9 9

194

Motif group HL_50851.1

Basepair signature:
cWW-cWH-cWH-cWH-cWH-F

0.00 -2739.83 10 8

G-quadruplex fragment

195

Motif group HL_38808.1

Basepair signature:
cWW-cWW

0.00 -2801.78 6 5

196

Motif group HL_99324.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F-F-F-F-F-F-F

0.00 -2847.80 11 10

197

Motif group HL_27670.2

Basepair signature:
cWW-tWH-F-F

0.00 -2918.26 5 5

T-loop with unstacked turn

198

Motif group HL_04725.1

Basepair signature:
cWW-cWS-cWW-cWW-cWS

0.00 -2924.45 8 7

199

Motif group HL_60293.1

Basepair signature:
cWW-cWH-F-cWH-cHW-cHW-cWH-cHW-cWH-F-cWH-cWH-cWH-F

0.00 -2948.54 16 16

G-quadruplex

200

Motif group HL_31581.6

Basepair signature:
cWW-cHS-F-F-F-cWW-F-F-F

0.00 -3045.38 8 7

201

Motif group HL_63355.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F-F-F

0.00 -3084.19 10 9

202

Motif group HL_21372.1

Basepair signature:
cWW-F-cSH-F-F

0.00 -3087.64 7 5

203

Motif group HL_21400.1

Basepair signature:
cWW-tWH-tSW-cWW-cWH-cHW-cWH-cWH-cHW-cWH-cHW-cWH-cWH-cWH-cWH-cWH

0.00 -3107.54 17 16

G-quadruplex

204

Motif group HL_85461.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F-F-F-F-F

0.00 -3126.09 13 13

205

Motif group HL_12758.3

Basepair signature:
cWW-tSH-F-cHW-F-F-cWH-cHW-cWH-cHW-cWH-cWH-F-tSH-F-cHW-F-cWH-cWH

0.00 -3143.26 19 18

G-quadruplex

206

Motif group HL_34617.5

Basepair signature:
cWW-tSW-F

0.00 -3159.49 6 6

UNCG

207

Motif group HL_20781.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -3170.74 8 7

208

Motif group HL_13963.3

Basepair signature:
cWW-F-F

0.00 -3172.63 7 5

209

Motif group HL_73916.1

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 -3184.40 30 30

210

Motif group HL_62934.1

Basepair signature:
cWW-tSH-F

0.00 -3244.21 7 7

211

Motif group HL_49922.4

Basepair signature:
cWW-F-F-F

0.00 -3245.22 5 5

212

Motif group HL_15118.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F

0.00 -3259.62 9 7

213

Motif group HL_94376.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F

0.00 -3318.81 8 7

Pseudoknot geometry

214

Motif group HL_47854.1

Basepair signature:
cWW-F-F-F-F

0.00 -3371.00 7 6

215

Motif group HL_37344.1

Basepair signature:
cWW-F-F

0.00 -3457.10 7 5

216

Motif group HL_80362.1

Basepair signature:
cWW-F-F-F

0.00 -3482.36 8 6

217

Motif group HL_35354.1

Basepair signature:
cWW-cWH-cHW-F-cWH-cHW-F-F-tHH-cWH-tWW-cWH-F-tWW-cWH-F-cWH

0.00 -3570.28 17 16

218

Motif group HL_78284.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F-F

0.00 -3624.03 9 7

219

Motif group HL_27483.1

Basepair signature:
cWW-F

0.00 -3653.24 7 5

220

Motif group HL_89893.1

Basepair signature:
cWW-F-F-F-F

0.00 -3660.10 7 7

221

Motif group HL_71391.1

Basepair signature:
cWW-F-F-F-F

0.00 -3716.78 7 6

222

Motif group HL_50779.4

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -3717.11 8 6

223

Motif group HL_74292.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -3745.01 8 7

224

Motif group HL_47787.2

Basepair signature:
cWW-F-F-F-F

0.00 -3810.62 6 5

225

Motif group HL_68572.1

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -3864.80 10 8

226

Motif group HL_59843.1

Basepair signature:
cWW-F-F-F-F

0.00 -3917.99 6 6

227

Motif group HL_58539.1

Basepair signature:
cWW-tWS-F-tHW-F-F-F-F-F-F-F-F

0.00 -3937.72 10 9

228

Motif group HL_13189.1

Basepair signature:
cWW-F-F

0.00 -4093.68 7 6

229

Motif group HL_99867.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F

0.00 -4140.38 7 5

230

Motif group HL_24792.1

Basepair signature:
cWW-cWS-F-F-F

0.00 -4169.75 8 7

231

Motif group HL_70751.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F

0.00 -4205.66 8 6

232

Motif group HL_36684.4

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F

0.00 -4315.74 6 5

233

Motif group HL_50418.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-F

0.00 -4421.22 8 6

234

Motif group HL_93383.1

Basepair signature:
cWW-cSH-F-F-F-F-F-F

0.00 -4484.32 7 6

235

Motif group HL_42998.2

Basepair signature:
cWW-F-F-F-F-F-F

0.00 -5064.41 6 6

236

Motif group HL_32392.1

Basepair signature:
cWW-F-F

0.00 -5200.73 7 6

237

Motif group HL_85993.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -5295.98 7 6

238

Motif group HL_67667.2

Basepair signature:
cWW-F-F

0.00 -5410.81 7 6

239

Motif group HL_97983.1

Basepair signature:
cWW-F-F

0.00 -5418.71 8 6

240

Motif group HL_51447.1

Basepair signature:
cWW-F-F-F-F-F

0.00 -5509.12 7 6

241

Motif group HL_12870.1

Basepair signature:
cWW-tHW-F-F-F-F-F-F-F-F-F

0.00 -5535.20 9 8

242

Motif group HL_80241.1

Basepair signature:
cWW-F-F-F-F-F-F-F

0.00 -5701.61 6 5

243

Motif group HL_35941.1

Basepair signature:
cWW-F

0.00 -5881.99 8 7

244

Motif group HL_26631.1

Basepair signature:
cWW-F-F-F

0.00 -5892.30 8 8

245

Motif group HL_52953.3

Basepair signature:
cWW-F-F-F-F

0.00 -6280.38 6 6

246

Motif group HL_28791.1

Basepair signature:
cWW-F-F-F-F

0.00 -6306.87 9 7

247

Motif group HL_55195.3

Basepair signature:
cWW-F

0.00 -6341.46 7 6

248

Motif group HL_22135.1

Basepair signature:
cWW-F-F

0.00 -6559.37 7 7

249

Motif group HL_60914.1

Basepair signature:
cWW-F

0.00 -6585.24 9 8

250

Motif group HL_94980.1

Basepair signature:
cWW-F-F

0.00 -6791.62 8 7

251

Motif group HL_76094.1

Basepair signature:
cWW-cWS-F-F

0.00 -8106.99 7 7

252

Motif group HL_07951.3

Basepair signature:
cWW-F-F

0.00 -9999.00 7 6

tRNA D-loop

253

Motif group HL_09260.2

Basepair signature:
cWW-F-F-F-F

0.00 -9999.00 8 7

tRNA D-loop

Coloring options: