RNA 3D Hub

JAR3D Query RF03022-3.98 completed
Run on Motif Atlas Version using the Rfam secondary structure. Run with the CaCoFold secondary structure.

Rfam family RF03022 maps to these 9 chains: 8UB7|1|I, 8UB8|1|I, 8UB9|1|I, 8UBA|1|I, 8UBB|1|I, 8UBC|1|I, 8UBD|1|I, 8UBE|1|I, 8UBF|1|I See more about them at RNA 3D Hub by filtering on the chain or the Rfam family.

Loop 5 Hairpin loop

Column numbers: 42-62 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    ------UUUAC----------   35

    
    C-----AAUAG---------G    6

    
    ------UUAC-----------    4

    
    CU----AUUUAG-------GG    3

    
    ------AUCCACAUG------    3

    
    UU----UACA---------AG    3

    
    C-----AAAAC---------G    3

    
    U-----AAUCA---------G    3

    
    CU----GAAAAACA-----GG    2

    
    UA----AAAUCU-------UA    2

    
    UAU---GCAA--------AUG    2

    
    UA----GAAA---------UA    2

    
    C-----CAAG----------G    2

    
    ------AUAU-----------    2

    
    ------UGG------------    2

    
    -UUUCGGUUAU----CGAAGG    1

    
    U---UGCAGCAU---CGAAUG    1

    
    UUA---CCUUUAU-----UGG    1

    
    C-UG--AAUAU------CAGG    1

    
    CAG---CACAA-------CUG    1

    
    CU----ACUUAG-------GG    1

    
    CU----AUAUAG-------GG    1

    
    UU----AAAAAA-------AG    1

    
    ------GUCAACAUG------    1

    
    C-----UUUUCUU-------G    1

    
    CU----AUUAU--------AG    1

    
    U-----CAAACCU-------A    1

    
    U-----CAGUUUU-------G    1

    
    U-----GCAAAA-------AG    1

    
    U-----UCAACAU-------G    1

    
    U-----UCAGCAU-------G    1

    
    UA----CCUAG--------UG    1

    
    C-----UUCAUG--------G    1

    
    C-----UUUAAC--------G    1

    
    CC----AAAC---------GG    1

    
    CU----UCAU---------GG    1

    
    GU----AAAU---------AU    1

    
    U-----GAAAGU--------G    1

    
    U-----UAAAUU--------A    1

    
    ------AGGUCGG--------    1

    
    ------CAAUAGA--------    1

    
    ------UACCUGU--------    1

    
    C-----GACAA---------G    1

    
    U-----AAAGU---------G    1

    
    U-----ACAGA---------G    1

    
    U-----ACAGU---------G    1

    
    U-----CUAGA---------G    1

    
    U-----CUUGU---------G    1

    
    ------CACUUA---------    1

    
    ------UUACAU---------    1

    
    U-----GUGA----------G    1

    
    U-----UUAA----------G    1

    
    ------UAUA-----------    1

    
    ------UUUA-----------    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_46501.1

Basepair signature:
cWW-cWS

38.94 -398.79 3 3

2

Motif group HL_70782.2

Basepair signature:
cWW-F

38.94 -637.44 3 3

3

Motif group HL_56334.1

Basepair signature:
cWW-F

38.94 -753.39 3 2

Mini UNCG

4

Motif group HL_69752.2

Basepair signature:
cWW-F

35.40 -833.84 3 3

5

Motif group HL_43517.1

Basepair signature:
cWW-F-F-F

30.97 -286.18 4 3

6

Motif group HL_59735.5

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

15.04 -2141.63 4 3

7

Motif group HL_53890.2

Basepair signature:
cWW-F-F-F

13.27 -100.93 3 3

8

Motif group HL_93535.1

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

12.39 -323.26 4 3

9

Motif group HL_13529.1

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

11.50 -97.99 3 3

10

Motif group HL_39243.1

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

11.50 -3703.63 5 3

11

Motif group HL_38808.1

Basepair signature:
cWW-cWW

10.62 -3120.47 5 4

12

Motif group HL_48417.5

Basepair signature:
cWW-F-F

9.73 -76.39 2 2

13

Motif group HL_87954.2

Basepair signature:
cWW-tSW-F

8.85 -215.93 4 2

14

Motif group HL_57875.1

Basepair signature:
cWW-F-F

8.85 -292.95 3 2

15

Motif group HL_87553.1

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

7.96 -118.87 5 4

16

Motif group HL_77436.5

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

7.96 -123.28 4 3

T-loop related

17

Motif group HL_78677.1

Basepair signature:
cWW-F-F

7.96 -1707.49 4 3

18

Motif group HL_07886.3

Basepair signature:
cWW-F-F-F

7.08 -103.60 3 2

19

Motif group HL_13189.1

Basepair signature:
cWW-F-F

7.08 -306.45 3 3

20

Motif group HL_48778.2

Basepair signature:
cWW-F

7.08 -682.43 3 2

Mini UNCG

21

Motif group HL_32346.4

Basepair signature:
cWW-F

7.08 -785.46 3 2

22

Motif group HL_57176.2

Basepair signature:
cWW-F-F-F

7.08 -1404.06 3 2

Pseudoknot geometry with 3' bulge

23

Motif group HL_56131.2

Basepair signature:
cWW-F-F

6.19 -84.27 3 3

24

Motif group HL_20167.2

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

6.19 -100.19 5 4

25

Motif group HL_01609.3

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

6.19 -130.90 4 3

T-loop with 2 bulged bases not stacked

26

Motif group HL_50006.2

Basepair signature:
cWW-F-F

6.19 -173.02 4 2

27

Motif group HL_97917.2

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

6.19 -268.63 4 3

28

Motif group HL_38168.1

Basepair signature:
cWW-F

6.19 -831.06 4 2

29

Motif group HL_30680.3

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

6.19 -1773.38 4 3

Pseudoknot geometry

30

Motif group HL_04783.2

Basepair signature:
cWW-F-F-F

5.31 -88.95 3 3

31

Motif group HL_77082.1

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

5.31 -297.29 4 3

Pseudoknot geometry

32

Motif group HL_50318.1

Basepair signature:
cWW-cSH-F-F

5.31 -320.04 5 3

33

Motif group HL_89893.1

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

5.31 -397.32 5 4

34

Motif group HL_15574.1

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

5.31 -1246.75 5 4

35

Motif group HL_04259.3

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

4.42 -158.49 5 3

GNRA with extra cWW

36

Motif group HL_98864.1

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

4.42 -175.58 6 4

T-loop with unstacked turn

37

Motif group HL_98252.1

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

4.42 -229.56 7 5

38

Motif group HL_20535.2

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

4.42 -268.36 4 3

39

Motif group HL_75660.5

Basepair signature:
cWW-F

4.42 -851.62 2 3

40

Motif group HL_81545.2

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

3.54 -114.41 5 4

41

Motif group HL_78347.4

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

3.54 -123.06 4 3

42

Motif group HL_04171.7

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

3.54 -149.26 7 6

43

Motif group HL_30068.2

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

3.54 -315.78 4 2

44

Motif group HL_81538.2

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

3.54 -341.11 4 3

GNRA with tandem sheared

45

Motif group HL_47854.1

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

3.54 -419.40 6 4

46

Motif group HL_59843.1

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

3.54 -439.03 5 4

47

Motif group HL_31585.4

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

3.54 -1044.41 3 3

Purine riboswitch

48

Motif group HL_80008.1

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

3.54 -2470.04 6 4

49

Motif group HL_94980.1

Basepair signature:
cWW-F-F

3.54 -3033.80 4 4

50

Motif group HL_93324.4

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

3.54 -4243.66 3 2

Pseudoknot geometry

51

Motif group HL_26934.1

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

2.65 -91.95 5 4

52

Motif group HL_93438.2

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

2.65 -93.40 5 4

53

Motif group HL_41464.2

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

2.65 -127.44 5 4

54

Motif group HL_86769.4

Basepair signature:
cWW-cWW-cSH-F

2.65 -129.65 6 5

55

Motif group HL_49922.4

Basepair signature:
cWW-F-F-F

2.65 -140.27 3 2

56

Motif group HL_08100.1

Basepair signature:
cWW-F-F-F

2.65 -209.41 3 3

57

Motif group HL_22584.6

Basepair signature:
cWW-tSW-F

2.65 -234.28 4 3

Fab BL3-6 binding hairpin with tSW

58

Motif group HL_62934.1

Basepair signature:
cWW-tSH-F

2.65 -239.18 5 4

59

Motif group HL_50537.6

Basepair signature:
cWW-F-F-F

2.65 -252.34 4 4

tRNA anticodon loop with synthetase

60

Motif group HL_64690.6

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

2.65 -252.42 4 3

61

Motif group HL_34617.5

Basepair signature:
cWW-tSW-F

2.65 -275.28 3 2

UNCG

62

Motif group HL_37344.1

Basepair signature:
cWW-F-F

2.65 -284.86 4 3

63

Motif group HL_25967.2

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

2.65 -658.95 4 3

64

Motif group HL_27670.2

Basepair signature:
cWW-tWH-F-F

2.65 -864.45 4 3

T-loop with unstacked turn

65

Motif group HL_02817.2

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

2.65 -1000.82 4 3

66

Motif group HL_85993.1

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

2.65 -1469.78 7 5

67

Motif group HL_69139.1

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

2.65 -3001.63 6 5

68

Motif group HL_52953.3

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

2.65 -4215.54 3 3

69

Motif group HL_80922.2

Basepair signature:
cWW-tSH-F

1.77 -109.00 4 3

70

Motif group HL_13963.3

Basepair signature:
cWW-F-F

1.77 -114.01 5 3

71

Motif group HL_86870.2

Basepair signature:
cWW-F-F-F

1.77 -122.57 3 3

72

Motif group HL_25847.2

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

1.77 -128.87 6 5

73

Motif group HL_37824.7

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

1.77 -182.95 2 2

GNRA

74

Motif group HL_57863.1

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

1.77 -202.63 7 6

G-quadruplex fragment

75

Motif group HL_66103.1

Basepair signature:
cWW-F-F

1.77 -308.11 5 3

76

Motif group HL_21372.1

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

1.77 -345.40 5 4

77

Motif group HL_99748.1

Basepair signature:
cWW-F-F-cSH

1.77 -374.83 5 4

Other HL

78

Motif group HL_56676.1

Basepair signature:
cWW-F-F

1.77 -560.72 3 3

79

Motif group HL_87463.1

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

1.77 -577.64 6 4

80

Motif group HL_80599.2

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

1.77 -880.36 5 4

81

Motif group HL_10453.3

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

1.77 -885.40 4 3

tRNA anticodon loop

82

Motif group HL_55195.3

Basepair signature:
cWW-F

1.77 -965.55 3 2

83

Motif group HL_60914.1

Basepair signature:
cWW-F

1.77 -1932.95 4 4

84

Motif group HL_85367.2

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

1.77 -2810.72 4 4

85

Motif group HL_50779.4

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

1.77 -3091.47 7 5

86

Motif group HL_80362.1

Basepair signature:
cWW-F-F-F

1.77 -3270.12 6 4

87

Motif group HL_08510.1

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

1.77 -3561.64 6 4

88

Motif group HL_65794.5

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

1.77 -3826.79 4 3

Pseudoknot geometry

89

Motif group HL_78197.1

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

1.77 -4061.48 5 3

90

Motif group HL_73266.9

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

0.88 -116.68 5 4

91

Motif group HL_28075.1

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

0.88 -121.93 4 3

92

Motif group HL_10540.1

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

0.88 -134.38 6 4

93

Motif group HL_18423.1

Basepair signature:
cWW-tSH-tHS-F

0.88 -137.70 7 6

94

Motif group HL_36335.1

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

0.88 -152.38 7 6

95

Motif group HL_89567.2

Basepair signature:
cWW-F-F-F

0.88 -157.37 6 4

96

Motif group HL_53504.3

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

0.88 -182.87 7 6

97

Motif group HL_66853.7

Basepair signature:
cWW-cWS-F-cSH

0.88 -218.29 6 5

98

Motif group HL_73255.1

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

0.88 -287.13 6 5

99

Motif group HL_82710.2

Basepair signature:
cWW-F-F-F

0.88 -332.86 4 4

100

Motif group HL_71391.1

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

0.88 -340.76 4 3

101

Motif group HL_37369.2

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

0.88 -739.17 4 3

102

Motif group HL_00914.1

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

0.88 -1066.41 5 4

103

Motif group HL_77600.2

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

0.88 -3524.35 5 4

104

Motif group HL_09452.1

Basepair signature:
cWW-F-F-F

0.88 -3922.31 5 3

105

Motif group HL_86012.1

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

0.00 -87.93 6 4

T-loop with unstacked turn

106

Motif group HL_83808.4

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

0.00 -99.52 6 5

Pseudoknot

107

Motif group HL_20743.5

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

0.00 -100.94 5 4

108

Motif group HL_50860.2

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

0.00 -101.55 6 4

109

Motif group HL_02887.3

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

0.00 -108.84 6 5

T-loop with 3 stacked bulged bases

110

Motif group HL_61996.2

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

0.00 -115.01 5 4

111

Motif group HL_67079.1

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

0.00 -124.18 7 5

112

Motif group HL_41543.1

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

0.00 -130.37 7 6

113

Motif group HL_20811.4

Basepair signature:
cWW-cWS-F

0.00 -135.40 4 3

tRNA D-loop

114

Motif group HL_28252.8

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

0.00 -138.52 5 3

T-loop with 2 stacked bulged bases

115

Motif group HL_01962.2

Basepair signature:
cWW-tWH-tWH-F

0.00 -144.12 6 5

116

Motif group HL_42046.2

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

0.00 -145.63 4 3

117

Motif group HL_74379.3

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

0.00 -145.84 8 6

118

Motif group HL_60266.1

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

0.00 -152.28 8 6

119

Motif group HL_90620.1

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

0.00 -154.56 8 7

120

Motif group HL_70658.1

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

0.00 -157.01 8 6

121

Motif group HL_49941.1

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

0.00 -158.68 7 6

tRNA D-loop

122

Motif group HL_41902.1

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

0.00 -160.93 9 8

123

Motif group HL_07583.1

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

0.00 -170.52 8 6

124

Motif group HL_40252.4

Basepair signature:
cWW-tSH-cWS-F

0.00 -189.32 7 6

125

Motif group HL_86109.1

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

0.00 -191.16 9 8

126

Motif group HL_08602.1

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

0.00 -195.86 9 8

127

Motif group HL_84847.1

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

0.00 -204.53 10 8

128

Motif group HL_81205.3

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

0.00 -214.37 9 8

129

Motif group HL_74055.2

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

0.00 -221.80 9 9

130

Motif group HL_18565.1

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

0.00 -222.04 6 5

131

Motif group HL_68257.1

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

0.00 -226.67 7 6

132

Motif group HL_04642.1

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

0.00 -228.16 7 6

tRNA D-loop

133

Motif group HL_68767.1

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

0.00 -234.12 9 7

tRNA D-loop

134

Motif group HL_23509.1

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

0.00 -237.83 8 7

135

Motif group HL_13971.1

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

0.00 -240.73 9 8

136

Motif group HL_73247.1

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

0.00 -247.52 10 9

Pseudoknot geometry

137

Motif group HL_75293.5

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

0.00 -248.45 6 4

138

Motif group HL_98870.1

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

0.00 -254.75 10 9

139

Motif group HL_84299.4

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

0.00 -255.21 5 3

140

Motif group HL_16991.1

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

0.00 -256.58 9 7

G-quadruplex fragment

141

Motif group HL_88205.2

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

0.00 -272.09 6 5

142

Motif group HL_45175.1

Basepair signature:
cWW-cWS-F-F

0.00 -274.91 6 5

tRNA D-loop

143

Motif group HL_91641.1

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

0.00 -274.95 12 11

144

Motif group HL_14757.1

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

0.00 -292.78 12 11

145

Motif group HL_27483.1

Basepair signature:
cWW-F

0.00 -337.45 4 4

146

Motif group HL_97756.2

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

0.00 -388.67 10 8

147

Motif group HL_51921.1

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

0.00 -417.43 15 14

148

Motif group HL_38901.2

Basepair signature:
cWW-F-cSH

0.00 -420.20 3 3

tRNA D-loop

149

Motif group HL_32392.1

Basepair signature:
cWW-F-F

0.00 -428.45 4 3

150

Motif group HL_47787.2

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

0.00 -430.88 4 3

151

Motif group HL_92488.1

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

0.00 -431.13 12 10

152

Motif group HL_18978.1

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

0.00 -477.35 6 5

153

Motif group HL_06226.4

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

0.00 -519.42 7 6

154

Motif group HL_91939.2

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

0.00 -522.29 7 6

155

Motif group HL_15802.1

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

0.00 -539.66 6 5

156

Motif group HL_89881.5

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

0.00 -551.51 6 5

157

Motif group HL_07480.2

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

0.00 -565.34 8 7

158

Motif group HL_45785.1

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

0.00 -567.49 7 6

159

Motif group HL_02483.1

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

0.00 -572.36 7 7

160

Motif group HL_02581.1

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

0.00 -583.38 10 9

tRNA D-loop

161

Motif group HL_05304.3

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

0.00 -619.60 8 6

162

Motif group HL_58224.1

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

0.00 -629.33 7 6

163

Motif group HL_04641.1

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

0.00 -647.49 7 6

164

Motif group HL_34964.1

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

0.00 -658.29 7 5

165

Motif group HL_23010.1

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

0.00 -668.21 7 7

166

Motif group HL_25061.1

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

0.00 -743.18 6 4

167

Motif group HL_53454.2

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

0.00 -748.09 6 5

168

Motif group HL_33983.1

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

0.00 -753.37 6 4

169

Motif group HL_06059.6

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

0.00 -816.37 4 3

tRNA anticodon loop

170

Motif group HL_32735.2

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

0.00 -961.56 5 3

171

Motif group HL_59330.1

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

0.00 -1127.76 5 4

172

Motif group HL_89199.2

Basepair signature:
cWW-F-F-F

0.00 -1388.57 4 3

Mini UNCG

173

Motif group HL_29966.1

Basepair signature:
cWW-F-F-F

0.00 -1536.04 5 4

174

Motif group HL_65313.1

Basepair signature:
cWW-F-F-F

0.00 -1537.79 4 4

175

Motif group HL_80709.3

Basepair signature:
cWW-F-F-F

0.00 -1549.48 4 3

176

Motif group HL_86883.1

Basepair signature:
cWW-F-F-F

0.00 -1554.27 5 3

177

Motif group HL_93383.1

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

0.00 -1576.98 6 5

178

Motif group HL_51447.1

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

0.00 -1676.96 6 4

179

Motif group HL_35941.1

Basepair signature:
cWW-F

0.00 -1719.64 4 4

180

Motif group HL_93616.2

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

0.00 -1774.27 7 7

tRNA D-loop

181

Motif group HL_85434.1

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

0.00 -1814.49 7 5

182

Motif group HL_22135.1

Basepair signature:
cWW-F-F

0.00 -1917.08 4 4

183

Motif group HL_29129.3

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

0.00 -2031.23 6 5

184

Motif group HL_10456.1

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

0.00 -2041.93 13 12

185

Motif group HL_66482.1

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

0.00 -2042.01 12 12

186

Motif group HL_99769.3

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

0.00 -2214.38 6 5

187

Motif group HL_11542.1

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

0.00 -2354.27 10 9

188

Motif group HL_20751.2

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

0.00 -2396.90 10 8

189

Motif group HL_97733.1

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

0.00 -2482.62 7 6

190

Motif group HL_72628.1

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

0.00 -2496.34 6 5

191

Motif group HL_26631.1

Basepair signature:
cWW-F-F-F

0.00 -2502.64 5 4

192

Motif group HL_23115.1

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

0.00 -2505.28 8 7

tRNA D-loop

193

Motif group HL_91503.7

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

0.00 -2594.42 7 5

194

Motif group HL_33074.4

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

0.00 -2606.72 8 6

U1 small nuclear ribonucleoprotein A binding hairpin

195

Motif group HL_88558.1

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

0.00 -2617.40 7 7

196

Motif group HL_29762.1

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

0.00 -2622.81 7 5

197

Motif group HL_80411.1

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

0.00 -2629.73 8 7

tRNA D-loop

198

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 -2681.92 13 13

199

Motif group HL_93135.1

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

0.00 -2762.88 7 5

Pseudoknot

200

Motif group HL_38046.1

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

0.00 -2803.43 6 4

201

Motif group HL_83632.1

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

0.00 -2946.31 5 3

tRNA anticodon loop

202

Motif group HL_35677.3

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

0.00 -3092.59 5 4

203

Motif group HL_67407.5

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

0.00 -3318.53 7 6

204

Motif group HL_50851.1

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

0.00 -3331.67 10 8

G-quadruplex fragment

205

Motif group HL_73183.1

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

0.00 -3341.34 11 9

Pseudoknot geometry with G-bulge

206

Motif group HL_81312.1

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

0.00 -3460.37 7 6

207

Motif group HL_22622.1

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

0.00 -3465.19 5 4

208

Motif group HL_19210.3

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

0.00 -3484.73 6 4

209

Motif group HL_99040.1

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

0.00 -3537.67 4 4

210

Motif group HL_04725.1

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

0.00 -3558.98 7 6

211

Motif group HL_38649.1

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

0.00 -3573.35 7 6

212

Motif group HL_55305.1

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

0.00 -3573.79 7 6

213

Motif group HL_01255.1

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

0.00 -3670.86 8 7

214

Motif group HL_81100.2

Basepair signature:
cWW

0.00 -3707.14 4 3

215

Motif group HL_55436.1

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

0.00 -3707.42 6 5

216

Motif group HL_12870.1

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

0.00 -3725.03 9 7

217

Motif group HL_31581.6

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

0.00 -3725.34 8 6

218

Motif group HL_07903.1

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

0.00 -3729.59 10 8

219

Motif group HL_63355.1

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

0.00 -3775.81 10 8

220

Motif group HL_16398.2

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

0.00 -3836.80 9 7

221

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 -3881.93 16 14

222

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 -3900.68 11 11

223

Motif group HL_85461.1

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

0.00 -3944.12 14 13

224

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 -3954.25 16 14

225

Motif group HL_47732.1

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

0.00 -3957.52 8 7

226

Motif group HL_76094.1

Basepair signature:
cWW-cWS-F-F

0.00 -3975.28 5 4

227

Motif group HL_15118.1

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

0.00 -3984.96 8 6

228

Motif group HL_60293.1

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

0.00 -3987.06 17 16

G-quadruplex

229

Motif group HL_24792.1

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

0.00 -3990.84 7 5

230

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 -4023.77 19 17

G-quadruplex

231

Motif group HL_94376.1

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

0.00 -4042.69 8 6

Pseudoknot geometry

232

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 -4061.81 19 18

233

Motif group HL_64292.1

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

0.00 -4066.20 11 11

234

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 -4069.14 20 19

G-quadruplex

235

Motif group HL_29958.1

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

0.00 -4136.78 10 8

236

Motif group HL_28791.1

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

0.00 -4273.13 6 5

237

Motif group HL_67667.2

Basepair signature:
cWW-F-F

0.00 -4351.77 4 4

238

Motif group HL_80241.1

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

0.00 -4464.44 5 4

239

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 -4564.50 33 33

240

Motif group HL_74292.1

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

0.00 -4653.63 8 6

241

Motif group HL_70751.1

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

0.00 -4674.24 7 6

242

Motif group HL_88364.2

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

0.00 -4729.00 11 9

243

Motif group HL_20781.1

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

0.00 -4748.34 7 6

244

Motif group HL_36684.4

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

0.00 -4806.79 6 5

245

Motif group HL_78284.1

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

0.00 -4889.73 7 6

246

Motif group HL_42998.2

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

0.00 -4905.03 5 4

247

Motif group HL_50418.1

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

0.00 -4906.07 7 5

248

Motif group HL_99867.1

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

0.00 -5151.64 6 4

249

Motif group HL_68572.1

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

0.00 -5570.11 9 8

250

Motif group HL_97983.1

Basepair signature:
cWW-F-F

0.00 -5700.81 7 6

251

Motif group HL_58539.1

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

0.00 -5808.04 11 9

252

Motif group HL_07951.3

Basepair signature:
cWW-F-F

0.00 -9999.00 6 5

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: