RNA 3D Hub

JAR3D Query RF00230-CCF-3.98 completed
Run on Motif Atlas Version using the Rfam secondary structure. Run with the CaCoFold secondary structure.

Rfam family RF00230 maps to these 12 chains: 4LCK|1|C, 4LCK|1|F, 4TZP|1|C, 4TZP|1|F, 4TZV|1|C, 4TZW|1|C, 4TZZ|1|C, 4TZZ|1|F, 4TZZ|1|I, 4TZZ|1|L, 6PMO|1|A, 6POM|1|A See more about them at RNA 3D Hub by filtering on the chain or the Rfam family.

Loop 18 Hairpin loop

Column numbers: 529-545 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    UC-----AUUU-----A    2

    
    U------AAAU-----A    2

    
    A-------GAC-----C    2

    
    G-------UCU-----C    2

    
    -------UAAC------    2

    
    UAUUAACAUUACAUAUA    1

    
    GUGUAA-AUAA--ACUC    1

    
    AACA---AUGA-CCGUU    1

    
    AA-----AUUAAACCUU    1

    
    AACU---AUAG--CCUU    1

    
    AU-----AAUACUCUUU    1

    
    GAGA---AGCA--UCUC    1

    
    AA-----GCAA-UGCUU    1

    
    AAC----AUAA--GCUU    1

    
    AGU----UUAA--CCUU    1

    
    AUAA---AAGA---UUU    1

    
    GA-----AACA-GAUUC    1

    
    GA-----AUAA-UACUC    1

    
    GU-----AUAA-UACUC    1

    
    GUAAAU-AUAA-----C    1

    
    GC-----GCAA--GCCU    1

    
    GU-----AAAA---CUC    1

    
    GA-----CUUA----AC    1

    
    GC-----AAAA----CC    1

    
    GC-----AUAA----AC    1

    
    GU-----AUGG----AC    1

    
    UA-----AAUU----UA    1

    
    UA-----AUUA----AU    1

    
    A------UUAA----UA    1

    
    AU-----AUAA-----U    1

    
    AU-----AUAU-----U    1

    
    A------AUCU-----U    1

    
    U------AACG-----U    1

    
    U------GUCC-----C    1

    
    U------UGUC-----C    1

    
    U------UUUU-----A    1

    
    A-------AUA-----U    1

    
    A-------AUU-----U    1

    
    U-------ACC-----A    1

    
    U-------CAA-----A    1

    
    U-------UAA-----A    1

    
    -------AUCG------    1

    
    -------GGAA------    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_70782.2

Basepair signature:
cWW-F

33.33 -1633.98 4 3

2

Motif group HL_53890.2

Basepair signature:
cWW-F-F-F

31.25 -337.15 4 2

3

Motif group HL_48417.5

Basepair signature:
cWW-F-F

29.17 -96.01 3 2

4

Motif group HL_48778.2

Basepair signature:
cWW-F

27.08 -1668.58 3 2

Mini UNCG

5

Motif group HL_56334.1

Basepair signature:
cWW-F

25.00 -3356.80 3.5 2.5

Mini UNCG

6

Motif group HL_86870.2

Basepair signature:
cWW-F-F-F

22.92 -153.80 4 3

7

Motif group HL_56131.2

Basepair signature:
cWW-F-F

22.92 -331.92 4 3

8

Motif group HL_75660.5

Basepair signature:
cWW-F

22.92 -1648.46 3 2

9

Motif group HL_69752.2

Basepair signature:
cWW-F

22.92 -1656.38 5 3

10

Motif group HL_32346.4

Basepair signature:
cWW-F

22.92 -3375.09 3.5 2.5

11

Motif group HL_57875.1

Basepair signature:
cWW-F-F

20.83 -590.03 4 3

12

Motif group HL_38901.2

Basepair signature:
cWW-F-cSH

20.83 -832.26 4 3

tRNA D-loop

13

Motif group HL_43517.1

Basepair signature:
cWW-F-F-F

16.67 -596.24 4 3

14

Motif group HL_13189.1

Basepair signature:
cWW-F-F

16.67 -596.49 4 3

15

Motif group HL_50006.2

Basepair signature:
cWW-F-F

14.58 -325.54 4 3

16

Motif group HL_82710.2

Basepair signature:
cWW-F-F-F

14.58 -593.25 4 3

17

Motif group HL_38168.1

Basepair signature:
cWW-F

14.58 -1637.95 5 3

18

Motif group HL_80709.3

Basepair signature:
cWW-F-F-F

14.58 -4256.83 4 3

19

Motif group HL_93535.1

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

12.50 -381.28 4 3

20

Motif group HL_46501.1

Basepair signature:
cWW-cWS

12.50 -833.51 4.5 3

21

Motif group HL_32392.1

Basepair signature:
cWW-F-F

12.50 -857.39 4 4

22

Motif group HL_39243.1

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

12.50 -2513.81 4 4

23

Motif group HL_04783.2

Basepair signature:
cWW-F-F-F

10.42 -127.63 4 3

24

Motif group HL_20535.2

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

10.42 -128.24 5 4

25

Motif group HL_99748.1

Basepair signature:
cWW-F-F-cSH

10.42 -280.41 6 5

Other HL

26

Motif group HL_78677.1

Basepair signature:
cWW-F-F

10.42 -3621.35 5 4

27

Motif group HL_35941.1

Basepair signature:
cWW-F

10.42 -3631.63 6 4

28

Motif group HL_29966.1

Basepair signature:
cWW-F-F-F

10.42 -4230.25 5 3

29

Motif group HL_65313.1

Basepair signature:
cWW-F-F-F

10.42 -4254.51 6 4

30

Motif group HL_07886.3

Basepair signature:
cWW-F-F-F

8.33 -162.67 4 3

31

Motif group HL_50318.1

Basepair signature:
cWW-cSH-F-F

8.33 -599.53 6 4

32

Motif group HL_10453.3

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

8.33 -883.42 4 3

tRNA anticodon loop

33

Motif group HL_02817.2

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

8.33 -1014.51 5 4

34

Motif group HL_57176.2

Basepair signature:
cWW-F-F-F

8.33 -2520.14 3 3

Pseudoknot geometry with 3' bulge

35

Motif group HL_81545.2

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

6.25 -112.13 5 5

36

Motif group HL_67079.1

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

6.25 -116.94 6 6

37

Motif group HL_37824.7

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

6.25 -238.44 3 2

GNRA

38

Motif group HL_49922.4

Basepair signature:
cWW-F-F-F

6.25 -388.47 4 3

39

Motif group HL_08100.1

Basepair signature:
cWW-F-F-F

6.25 -395.08 5 3

40

Motif group HL_22135.1

Basepair signature:
cWW-F-F

6.25 -3640.56 5 4

41

Motif group HL_60914.1

Basepair signature:
cWW-F

6.25 -3658.82 6 4

42

Motif group HL_26631.1

Basepair signature:
cWW-F-F-F

6.25 -4507.73 5.5 3.5

43

Motif group HL_81100.2

Basepair signature:
cWW

6.25 -4673.56 5 4

44

Motif group HL_76094.1

Basepair signature:
cWW-cWS-F-F

6.25 -5160.23 5 3

45

Motif group HL_93438.2

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

4.17 -100.72 6 4

46

Motif group HL_02887.3

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

4.17 -101.80 6 5

T-loop with 3 stacked bulged bases

47

Motif group HL_50537.6

Basepair signature:
cWW-F-F-F

4.17 -133.16 5 5

tRNA anticodon loop with synthetase

48

Motif group HL_78347.4

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

4.17 -136.25 5 3

49

Motif group HL_80922.2

Basepair signature:
cWW-tSH-F

4.17 -142.08 4 3

50

Motif group HL_64690.6

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

4.17 -143.07 5 4

51

Motif group HL_87553.1

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

4.17 -149.76 4 3.5

52

Motif group HL_73266.9

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

4.17 -154.73 5 5

53

Motif group HL_77082.1

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

4.17 -155.14 5 4

Pseudoknot geometry

54

Motif group HL_37344.1

Basepair signature:
cWW-F-F

4.17 -345.02 6 4

55

Motif group HL_97917.2

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

4.17 -350.90 5 4

56

Motif group HL_87954.2

Basepair signature:
cWW-tSW-F

4.17 -398.03 4 3

57

Motif group HL_47787.2

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

4.17 -410.43 4 3

58

Motif group HL_59843.1

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

4.17 -413.50 5 3.5

59

Motif group HL_34617.5

Basepair signature:
cWW-tSW-F

4.17 -446.07 4 3

UNCG

60

Motif group HL_56676.1

Basepair signature:
cWW-F-F

4.17 -455.57 5 3

61

Motif group HL_25967.2

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

4.17 -975.68 4.5 4

62

Motif group HL_55305.1

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

4.17 -2927.01 7 6

63

Motif group HL_50418.1

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

4.17 -4020.33 7 5

64

Motif group HL_59735.5

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

4.17 -4056.64 5 3

65

Motif group HL_86883.1

Basepair signature:
cWW-F-F-F

4.17 -4265.39 4 3

66

Motif group HL_52953.3

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

4.17 -5338.12 4 3

67

Motif group HL_13529.1

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

2.08 -107.17 4 3

68

Motif group HL_68257.1

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

2.08 -110.38 7 6

69

Motif group HL_50860.2

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

2.08 -119.04 5 5

70

Motif group HL_86769.4

Basepair signature:
cWW-cWW-cSH-F

2.08 -125.54 5 4

71

Motif group HL_61996.2

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

2.08 -128.72 5 4

72

Motif group HL_18565.1

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

2.08 -128.90 6 5

73

Motif group HL_23509.1

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

2.08 -131.40 7 6.5

74

Motif group HL_75293.5

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

2.08 -132.41 6 5

75

Motif group HL_01962.2

Basepair signature:
cWW-tWH-tWH-F

2.08 -138.85 7 5

76

Motif group HL_25847.2

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

2.08 -140.07 6 6

77

Motif group HL_04171.7

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

2.08 -147.77 6 6

78

Motif group HL_60266.1

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

2.08 -149.21 7 6

79

Motif group HL_07583.1

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

2.08 -152.81 8 7

80

Motif group HL_77436.5

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

2.08 -157.30 4 3

T-loop related

81

Motif group HL_73255.1

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

2.08 -157.51 6 5

82

Motif group HL_28075.1

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

2.08 -159.09 5 4

83

Motif group HL_28252.8

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

2.08 -162.32 4 4

T-loop with 2 stacked bulged bases

84

Motif group HL_53504.3

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

2.08 -166.30 6 5

85

Motif group HL_04259.3

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

2.08 -197.19 4 4

GNRA with extra cWW

86

Motif group HL_47854.1

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

2.08 -305.01 5 4

87

Motif group HL_62934.1

Basepair signature:
cWW-tSH-F

2.08 -390.51 5 3

88

Motif group HL_30068.2

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

2.08 -392.36 4 3

89

Motif group HL_71391.1

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

2.08 -449.20 5 3

90

Motif group HL_91939.2

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

2.08 -572.54 7 6

91

Motif group HL_66103.1

Basepair signature:
cWW-F-F

2.08 -588.88 5 3

92

Motif group HL_15802.1

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

2.08 -638.22 6 6

93

Motif group HL_34964.1

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

2.08 -720.99 7 6

94

Motif group HL_27670.2

Basepair signature:
cWW-tWH-F-F

2.08 -940.37 4 3

T-loop with unstacked turn

95

Motif group HL_93616.2

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

2.08 -1076.30 8 6

tRNA D-loop

96

Motif group HL_15574.1

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

2.08 -1260.69 4.5 4

97

Motif group HL_31585.4

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

2.08 -1261.94 4 3

Purine riboswitch

98

Motif group HL_72628.1

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

2.08 -1495.64 6 5

99

Motif group HL_38046.1

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

2.08 -2040.01 5 5

100

Motif group HL_85367.2

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

2.08 -2109.08 5.5 4

101

Motif group HL_83632.1

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

2.08 -2174.25 5 4

tRNA anticodon loop

102

Motif group HL_38808.1

Basepair signature:
cWW-cWW

2.08 -2324.60 6 4

103

Motif group HL_38649.1

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

2.08 -2329.27 7 6

104

Motif group HL_81312.1

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

2.08 -2841.93 7 6

105

Motif group HL_35677.3

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

2.08 -2866.13 6 5

106

Motif group HL_47732.1

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

2.08 -3243.68 8 6

107

Motif group HL_22622.1

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

2.08 -3284.82 6 4

108

Motif group HL_80362.1

Basepair signature:
cWW-F-F-F

2.08 -3337.04 6 5

109

Motif group HL_55195.3

Basepair signature:
cWW-F

2.08 -3424.60 4 3

110

Motif group HL_42998.2

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

2.08 -3578.30 5 4

111

Motif group HL_94980.1

Basepair signature:
cWW-F-F

2.08 -3869.22 5 4

112

Motif group HL_20781.1

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

2.08 -3893.08 8 6

113

Motif group HL_67667.2

Basepair signature:
cWW-F-F

2.08 -4062.68 6 4

114

Motif group HL_09260.2

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

2.08 -9999.00 8 7

tRNA D-loop

115

Motif group HL_98864.1

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

0.00 -102.31 6 5

T-loop with unstacked turn

116

Motif group HL_57863.1

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

0.00 -104.79 6 5

G-quadruplex fragment

117

Motif group HL_86012.1

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

0.00 -107.55 6 5

T-loop with unstacked turn

118

Motif group HL_83808.4

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

0.00 -108.95 7 5

Pseudoknot

119

Motif group HL_66853.7

Basepair signature:
cWW-cWS-F-cSH

0.00 -116.75 6 5

120

Motif group HL_20167.2

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

0.00 -118.64 5 4

121

Motif group HL_26934.1

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

0.00 -120.75 5 4

122

Motif group HL_98252.1

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

0.00 -120.85 7 6

123

Motif group HL_04642.1

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

0.00 -121.61 7 6

tRNA D-loop

124

Motif group HL_20743.5

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

0.00 -125.54 5 4

125

Motif group HL_41543.1

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

0.00 -129.91 8 7

126

Motif group HL_18423.1

Basepair signature:
cWW-tSH-tHS-F

0.00 -130.13 7 6

127

Motif group HL_74379.3

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

0.00 -135.12 8 7

128

Motif group HL_90620.1

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

0.00 -142.66 7 6

129

Motif group HL_36335.1

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

0.00 -145.26 7 6

130

Motif group HL_41464.2

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

0.00 -145.77 6 5

131

Motif group HL_49941.1

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

0.00 -149.53 7.5 6

tRNA D-loop

132

Motif group HL_41902.1

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

0.00 -150.13 9 7.5

133

Motif group HL_20811.4

Basepair signature:
cWW-cWS-F

0.00 -150.73 5 4

tRNA D-loop

134

Motif group HL_84299.4

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

0.00 -151.70 5 4

135

Motif group HL_70658.1

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

0.00 -152.09 7 7

136

Motif group HL_16991.1

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

0.00 -152.24 8 8

G-quadruplex fragment

137

Motif group HL_45175.1

Basepair signature:
cWW-cWS-F-F

0.00 -154.80 6 5

tRNA D-loop

138

Motif group HL_01609.3

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

0.00 -159.85 4 4

T-loop with 2 bulged bases not stacked

139

Motif group HL_89567.2

Basepair signature:
cWW-F-F-F

0.00 -168.65 5 4

140

Motif group HL_10540.1

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

0.00 -168.72 6 4

141

Motif group HL_08602.1

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

0.00 -169.30 9 8

142

Motif group HL_40252.4

Basepair signature:
cWW-tSH-cWS-F

0.00 -171.46 7 6

143

Motif group HL_86109.1

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

0.00 -177.67 9 8

144

Motif group HL_84847.1

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

0.00 -191.88 9 8

145

Motif group HL_81538.2

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

0.00 -193.98 4 3

GNRA with tandem sheared

146

Motif group HL_81205.3

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

0.00 -197.98 9 8

147

Motif group HL_74055.2

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

0.00 -202.75 10 9

148

Motif group HL_42046.2

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

0.00 -204.00 5.5 4

149

Motif group HL_68767.1

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

0.00 -211.47 8 7

tRNA D-loop

150

Motif group HL_73247.1

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

0.00 -231.24 11 9

Pseudoknot geometry

151

Motif group HL_98870.1

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

0.00 -246.88 11 9

152

Motif group HL_13971.1

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

0.00 -249.42 10 9

153

Motif group HL_91641.1

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

0.00 -259.61 11.5 11

154

Motif group HL_14757.1

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

0.00 -268.89 12 11

155

Motif group HL_51921.1

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

0.00 -330.88 14 14

156

Motif group HL_21372.1

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

0.00 -347.75 6 5

157

Motif group HL_22584.6

Basepair signature:
cWW-tSW-F

0.00 -364.80 5 3

Fab BL3-6 binding hairpin with tSW

158

Motif group HL_13963.3

Basepair signature:
cWW-F-F

0.00 -372.86 5 4

159

Motif group HL_88205.2

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

0.00 -389.55 6 5

160

Motif group HL_92488.1

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

0.00 -393.21 11 10

161

Motif group HL_27483.1

Basepair signature:
cWW-F

0.00 -403.87 5 4

162

Motif group HL_97756.2

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

0.00 -409.90 10 9

163

Motif group HL_89893.1

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

0.00 -470.48 6 4

164

Motif group HL_89881.5

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

0.00 -530.78 7 6

165

Motif group HL_02483.1

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

0.00 -547.45 8 7

166

Motif group HL_45785.1

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

0.00 -551.73 8 7

167

Motif group HL_18978.1

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

0.00 -558.73 8 6

168

Motif group HL_87463.1

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

0.00 -561.94 6 5.5

169

Motif group HL_06226.4

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

0.00 -564.46 7 6

170

Motif group HL_05304.3

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

0.00 -573.23 7 7

171

Motif group HL_58224.1

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

0.00 -603.15 7 6

172

Motif group HL_07480.2

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

0.00 -615.20 8 7

173

Motif group HL_04641.1

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

0.00 -615.39 7 5

174

Motif group HL_02581.1

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

0.00 -624.81 11 9.5

tRNA D-loop

175

Motif group HL_23010.1

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

0.00 -627.39 8 7

176

Motif group HL_53454.2

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

0.00 -722.85 7 5

177

Motif group HL_25061.1

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

0.00 -731.15 7 5

178

Motif group HL_06059.6

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

0.00 -813.85 5 4

tRNA anticodon loop

179

Motif group HL_33983.1

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

0.00 -819.73 6.5 5

180

Motif group HL_37369.2

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

0.00 -983.84 5 4

181

Motif group HL_00914.1

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

0.00 -1083.74 6 4.5

182

Motif group HL_85434.1

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

0.00 -1084.36 7 6

183

Motif group HL_29129.3

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

0.00 -1232.72 7 6

184

Motif group HL_80599.2

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

0.00 -1390.71 6 4.5

185

Motif group HL_80008.1

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

0.00 -1498.64 7 5

186

Motif group HL_32735.2

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

0.00 -1514.81 5 4

187

Motif group HL_99769.3

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

0.00 -1530.11 7 6

188

Motif group HL_11542.1

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

0.00 -1653.71 10 8.5

189

Motif group HL_97733.1

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

0.00 -1856.90 8 6

190

Motif group HL_10456.1

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

0.00 -1886.50 13 12

191

Motif group HL_66482.1

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

0.00 -1916.44 13 12

192

Motif group HL_59330.1

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

0.00 -1933.70 7 5

193

Motif group HL_33074.4

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

0.00 -2150.21 8 7

U1 small nuclear ribonucleoprotein A binding hairpin

194

Motif group HL_93383.1

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

0.00 -2198.24 6 5

195

Motif group HL_20751.2

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

0.00 -2205.09 9 8.5

196

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 -2223.05 13 12

197

Motif group HL_23115.1

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

0.00 -2321.09 8 7

tRNA D-loop

198

Motif group HL_91503.7

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

0.00 -2412.26 7 6

199

Motif group HL_88558.1

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

0.00 -2416.60 8 7

200

Motif group HL_29762.1

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

0.00 -2428.52 7 6

201

Motif group HL_80411.1

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

0.00 -2429.92 8 7

tRNA D-loop

202

Motif group HL_55436.1

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

0.00 -2432.67 6 5

203

Motif group HL_85993.1

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

0.00 -2461.20 6 4.5

204

Motif group HL_08510.1

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

0.00 -2506.11 6 5

205

Motif group HL_93135.1

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

0.00 -2554.66 7 6

Pseudoknot

206

Motif group HL_67407.5

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

0.00 -2728.67 7 6

207

Motif group HL_73183.1

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

0.00 -2748.43 10 9

Pseudoknot geometry with G-bulge

208

Motif group HL_30680.3

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

0.00 -2773.54 5 3

Pseudoknot geometry

209

Motif group HL_65794.5

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

0.00 -2775.38 4 3

Pseudoknot geometry

210

Motif group HL_69139.1

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

0.00 -2786.96 7 6

211

Motif group HL_19210.3

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

0.00 -2871.62 6 5

212

Motif group HL_50851.1

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

0.00 -2912.12 9 8

G-quadruplex fragment

213

Motif group HL_93324.4

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

0.00 -2975.21 4.5 3

Pseudoknot geometry

214

Motif group HL_01255.1

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

0.00 -3016.25 8 7

215

Motif group HL_78197.1

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

0.00 -3018.82 4 4

216

Motif group HL_50779.4

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

0.00 -3029.15 6 5

217

Motif group HL_04725.1

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

0.00 -3102.42 7 7

218

Motif group HL_51447.1

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

0.00 -3133.91 6 4

219

Motif group HL_16398.2

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

0.00 -3143.89 8 7

220

Motif group HL_07903.1

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

0.00 -3244.23 9 9

221

Motif group HL_31581.6

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

0.00 -3244.59 8 7

222

Motif group HL_63355.1

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

0.00 -3293.98 9 8

223

Motif group HL_64292.1

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

0.00 -3355.16 11 10

224

Motif group HL_29958.1

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

0.00 -3400.55 10 9

225

Motif group HL_15118.1

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

0.00 -3466.80 8 7

226

Motif group HL_74292.1

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

0.00 -3467.42 7 6

227

Motif group HL_24792.1

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

0.00 -3481.53 7 6

228

Motif group HL_94376.1

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

0.00 -3515.78 7 6

Pseudoknot geometry

229

Motif group HL_88364.2

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

0.00 -3518.86 11 10

230

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 -3524.33 15 14

231

Motif group HL_77600.2

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

0.00 -3610.59 5 4

232

Motif group HL_89199.2

Basepair signature:
cWW-F-F-F

0.00 -3764.75 5 4

Mini UNCG

233

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 -3813.72 15 14

234

Motif group HL_70751.1

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

0.00 -3830.69 7 6

235

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 -3837.08 12 11

236

Motif group HL_99867.1

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

0.00 -3850.52 6 5

237

Motif group HL_78284.1

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

0.00 -3854.75 8 7

238

Motif group HL_12870.1

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

0.00 -3884.14 9 8

239

Motif group HL_85461.1

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

0.00 -3932.03 14 13

240

Motif group HL_36684.4

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

0.00 -3939.86 6 5

241

Motif group HL_60293.1

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

0.00 -3970.27 17 16

G-quadruplex

242

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 -3982.20 18 17

G-quadruplex

243

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 -4014.11 20 19

G-quadruplex

244

Motif group HL_09452.1

Basepair signature:
cWW-F-F-F

0.00 -4017.54 6 5

245

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 -4059.19 18 17.5

246

Motif group HL_68572.1

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

0.00 -4126.57 9 8

247

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 -4461.62 33 33

248

Motif group HL_99040.1

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

0.00 -4497.36 6 4.5

249

Motif group HL_80241.1

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

0.00 -4552.53 5.5 5

250

Motif group HL_97983.1

Basepair signature:
cWW-F-F

0.00 -4925.56 7 5.5

251

Motif group HL_28791.1

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

0.00 -5380.19 6 4

252

Motif group HL_58539.1

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

0.00 -6554.68 11 10

253

Motif group HL_07951.3

Basepair signature:
cWW-F-F

0.00 -9999.00 6 5

tRNA D-loop

Coloring options: