RNA 3D Hub

JAR3D Query RF00230-3.98 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 10 Hairpin loop

Column numbers: 172-210 - This loop does not map to nucleotides in a 3D structure with xyz coordinates. 
    Scored sequences and counts

    
    UGAC--GAAUUA-----------------UUACUUGUGA    2

    
    CGAA--AUCGGUCGUUGUCGAUUGACGAUCCGCAGGUAG    1

    
    UGAA--CAAUUUAUCUUUUAUAAAGAAG-AUUUAAGUAG    1

    
    AUUA--GCAGUAUUUGUAUUUAUACU---AUACGUGAAA    1

    
    CGUA--GUAAAGAUAGUAUUUAU------CUUUAUGAAG    1

    
    UGAA--GUCAUCUGCAUUAGUAG------AUUUUAGUAA    1

    
    GAAA--UUGAAUCUUGUAU----------UCAAGAGUAG    1

    
    UGAA--GUUACUUUAAAAA----------GUUUUAGUAA    1

    
    CGAA--GUUAUCUUAAUG-----------AUUUUAGUAG    1

    
    CGUA--AUGCUUUUU--------------AUGCAUGAAG    1

    
    GAGA--AAUCCUGUU--------------AAGGAAUUAA    1

    
    UGAAC-GGCAUAUA---------------CGCUUAGUAG    1

    
    UGAA--AAGGAAUU---------------UCCUUAGUAG    1

    
    UGAAC-GGAAUAG----------------UUCUCAUUAG    1

    
    GGAAC-GUUUU------------------UUACUAGUAA    1

    
    UGAA--AGAUAA-----------------CAACCAUUAA    1

    
    UGAA--AGGAUU-----------------UUCUUAGUAG    1

    
    UGAA--CAAUUA-----------------UUUUCAGUAG    1

    
    UGAAC-GUGA-------------------UUAAUAGUAG    1

    
    CGAAACG----------------------UAAGAAGUAG    1

    
    UGAAA-U----------------------UUUACAGUAG    1

    
    UGAAG-C----------------------GUUUGUCUAG    1

    
    AGAA--U----------------------UUGAAAUUAU    1

    
    CGAA--U----------------------GUUGCAGUAA    1

    
    CGCC--A----------------------ACUUUUGGAG    1

    
    UGAA--C----------------------AUUGUAGUAG    1

    
    AAGA-------------------------UUUAAAUCUU    1

    
    AGAA-------------------------ACUUUAGUAU    1

    
    UGAA-------------------------AUAAUAGUAG    1

    
    UGAA-------------------------CUCAAAGUAG    1

    
    UGAA--------------------------AUCAAGUAG    1

    
    UGAA--------------------------CUGAAGUAG    1

    
    UGAA---------------------------AACAGUAA    1

    
    UGAA---------------------------UUUAGUAU    1

    
    AAAA----------------------------AAAUAAA    1

    
    ------A----------------------AAAGAACAA-    1

    
    GAAA-----------------------------CAAUGA    1

    
    -----------------------------ACAACUGUA-    1

    
    AGGA------------------------------UAAUG    1

    
    CAAU------------------------------AUGAG    1

    
    --------------------------------CAAGAA-    1

    
    AUAA---------------------------------AA    1

    
    UGAA---------------------------------AG    1

    
    UUAU---------------------------------UA    1

    
    UAAA----------------------------------A    1

    
    -------------------------------------AA    1

    
    Omitted sequenced and counts

    
    ---------------------------------------    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

10.64 -5323.08 9 9

2

Motif group HL_50006.2

Basepair signature:
cWW-F-F

8.51 -5695.84 9 9

3

Motif group HL_38901.2

Basepair signature:
cWW-F-cSH

8.51 -7931.12 10 9

tRNA D-loop

4

Motif group HL_75660.5

Basepair signature:
cWW-F

8.51 -8355.22 9 8

5

Motif group HL_73183.1

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

6.38 -1120.67 9 8

Pseudoknot geometry with G-bulge

6

Motif group HL_04783.2

Basepair signature:
cWW-F-F-F

6.38 -5078.92 9 8

7

Motif group HL_82710.2

Basepair signature:
cWW-F-F-F

6.38 -7493.82 10 9

8

Motif group HL_57176.2

Basepair signature:
cWW-F-F-F

6.38 -8343.71 9 9

Pseudoknot geometry with 3' bulge

9

Motif group HL_80709.3

Basepair signature:
cWW-F-F-F

6.38 -8599.06 10 9

10

Motif group HL_56334.1

Basepair signature:
cWW-F

6.38 -8617.01 10 9

Mini UNCG

11

Motif group HL_47732.1

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

4.26 -2645.15 9 8

12

Motif group HL_48417.5

Basepair signature:
cWW-F-F

4.26 -4585.71 8 7

13

Motif group HL_86870.2

Basepair signature:
cWW-F-F-F

4.26 -5152.13 10 9

14

Motif group HL_59843.1

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

4.26 -5571.57 10 9

15

Motif group HL_57875.1

Basepair signature:
cWW-F-F

4.26 -7465.77 9 9

16

Motif group HL_46501.1

Basepair signature:
cWW-cWS

4.26 -7725.74 11 10

17

Motif group HL_69752.2

Basepair signature:
cWW-F

4.26 -8370.24 10 9

18

Motif group HL_70782.2

Basepair signature:
cWW-F

4.26 -8384.59 10 10

19

Motif group HL_48778.2

Basepair signature:
cWW-F

4.26 -8414.57 10 9

Mini UNCG

20

Motif group HL_29966.1

Basepair signature:
cWW-F-F-F

4.26 -8595.27 10 9

21

Motif group HL_32346.4

Basepair signature:
cWW-F

4.26 -8615.91 10 10

22

Motif group HL_52953.3

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

4.26 -8803.61 10 9

23

Motif group HL_68257.1

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

2.13 -755.11 8 7

24

Motif group HL_36335.1

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

2.13 -1391.01 9 7

25

Motif group HL_04171.7

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

2.13 -1849.65 9 8

26

Motif group HL_38649.1

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

2.13 -2090.90 9 7

27

Motif group HL_20743.5

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

2.13 -2117.97 8 8

28

Motif group HL_88558.1

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

2.13 -2199.41 8 8

29

Motif group HL_64690.6

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

2.13 -2613.34 8 7

30

Motif group HL_04641.1

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

2.13 -2927.91 10 9

31

Motif group HL_45175.1

Basepair signature:
cWW-cWS-F-F

2.13 -2981.45 8 7

tRNA D-loop

32

Motif group HL_25847.2

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

2.13 -3193.13 9 8

33

Motif group HL_80599.2

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

2.13 -3207.69 9 8

34

Motif group HL_38046.1

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

2.13 -3805.32 9 9

35

Motif group HL_50779.4

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

2.13 -3846.57 9 8

36

Motif group HL_20781.1

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

2.13 -4231.92 9 8

37

Motif group HL_37824.7

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

2.13 -4685.11 8 8

GNRA

38

Motif group HL_80922.2

Basepair signature:
cWW-tSH-F

2.13 -5078.77 10 8

39

Motif group HL_07886.3

Basepair signature:
cWW-F-F-F

2.13 -5099.85 9 8

40

Motif group HL_97917.2

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

2.13 -5237.99 9 8

41

Motif group HL_13963.3

Basepair signature:
cWW-F-F

2.13 -5284.04 10 9

42

Motif group HL_93535.1

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

2.13 -5325.30 9 8

43

Motif group HL_47787.2

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

2.13 -5668.32 9 8

44

Motif group HL_62934.1

Basepair signature:
cWW-tSH-F

2.13 -5793.01 10 9

45

Motif group HL_87954.2

Basepair signature:
cWW-tSW-F

2.13 -5796.84 9 9

46

Motif group HL_80241.1

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

2.13 -6220.54 8 7

47

Motif group HL_56676.1

Basepair signature:
cWW-F-F

2.13 -6460.76 10 10

48

Motif group HL_13189.1

Basepair signature:
cWW-F-F

2.13 -7284.57 11 10

49

Motif group HL_65794.5

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

2.13 -8127.76 10 9

Pseudoknot geometry

50

Motif group HL_38168.1

Basepair signature:
cWW-F

2.13 -8377.10 10 10

51

Motif group HL_65313.1

Basepair signature:
cWW-F-F-F

2.13 -8617.08 11 10

52

Motif group HL_86883.1

Basepair signature:
cWW-F-F-F

2.13 -8644.35 11 10

53

Motif group HL_22135.1

Basepair signature:
cWW-F-F

2.13 -8871.69 12 11

54

Motif group HL_76094.1

Basepair signature:
cWW-cWS-F-F

2.13 -9527.04 11 10

55

Motif group HL_07583.1

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

0.00 -292.75 9 8

56

Motif group HL_51921.1

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

0.00 -307.97 11 10

57

Motif group HL_91641.1

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

0.00 -357.62 12 11

58

Motif group HL_14757.1

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

0.00 -405.70 11 10

59

Motif group HL_81205.3

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

0.00 -487.52 10 10

60

Motif group HL_84847.1

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

0.00 -509.45 11 10

61

Motif group HL_74055.2

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

0.00 -521.28 10 8

62

Motif group HL_98870.1

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

0.00 -547.46 10 9

63

Motif group HL_73247.1

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

0.00 -551.15 10 9

Pseudoknot geometry

64

Motif group HL_41902.1

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

0.00 -602.83 10 10

65

Motif group HL_02581.1

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

0.00 -651.59 10 9

tRNA D-loop

66

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 -672.98 12 11

67

Motif group HL_05304.3

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

0.00 -679.60 10 8

68

Motif group HL_70658.1

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

0.00 -685.22 9 8

69

Motif group HL_86109.1

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

0.00 -873.67 9 8

70

Motif group HL_41543.1

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

0.00 -891.18 10 9

71

Motif group HL_91939.2

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

0.00 -912.74 8 7

72

Motif group HL_10456.1

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

0.00 -925.49 13 12

73

Motif group HL_74379.3

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

0.00 -933.47 10 8

74

Motif group HL_92488.1

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

0.00 -939.76 12 11

75

Motif group HL_67079.1

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

0.00 -976.62 9 8

76

Motif group HL_93438.2

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

0.00 -1027.19 8 7

77

Motif group HL_90620.1

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

0.00 -1048.51 10 8

78

Motif group HL_11542.1

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

0.00 -1076.47 10 9

79

Motif group HL_23509.1

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

0.00 -1083.93 9 8

80

Motif group HL_60266.1

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

0.00 -1085.03 9 7

81

Motif group HL_08602.1

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

0.00 -1103.35 9 9

82

Motif group HL_68767.1

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

0.00 -1120.85 9 7

tRNA D-loop

83

Motif group HL_02483.1

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

0.00 -1164.54 10 8

84

Motif group HL_06226.4

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

0.00 -1267.63 9 8

85

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 -1270.45 13 12

86

Motif group HL_45785.1

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

0.00 -1270.69 12 11

87

Motif group HL_02887.3

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

0.00 -1282.72 10 9

T-loop with 3 stacked bulged bases

88

Motif group HL_81545.2

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

0.00 -1306.18 9 8

89

Motif group HL_13971.1

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

0.00 -1328.80 11 10

90

Motif group HL_99769.3

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

0.00 -1346.39 9 8

91

Motif group HL_07903.1

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

0.00 -1356.44 11 10

92

Motif group HL_18423.1

Basepair signature:
cWW-tSH-tHS-F

0.00 -1394.76 8 8

93

Motif group HL_66482.1

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

0.00 -1411.62 12 11

94

Motif group HL_40252.4

Basepair signature:
cWW-tSH-cWS-F

0.00 -1421.73 9 8

95

Motif group HL_50860.2

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

0.00 -1427.32 9 8

96

Motif group HL_53504.3

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

0.00 -1439.24 8 7

97

Motif group HL_01962.2

Basepair signature:
cWW-tWH-tWH-F

0.00 -1447.49 9 8

98

Motif group HL_16991.1

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

0.00 -1469.66 9 9

G-quadruplex fragment

99

Motif group HL_66853.7

Basepair signature:
cWW-cWS-F-cSH

0.00 -1481.81 8 7

100

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 -1498.90 13 12

101

Motif group HL_98864.1

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

0.00 -1547.58 10 9

T-loop with unstacked turn

102

Motif group HL_53454.2

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

0.00 -1585.32 8 7

103

Motif group HL_20751.2

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

0.00 -1591.49 10 9

104

Motif group HL_18978.1

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

0.00 -1616.87 10 9

105

Motif group HL_75293.5

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

0.00 -1632.29 8 7

106

Motif group HL_20167.2

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

0.00 -1643.52 8 7

107

Motif group HL_64292.1

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

0.00 -1654.73 11 10

108

Motif group HL_49941.1

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

0.00 -1672.22 9 8

tRNA D-loop

109

Motif group HL_63355.1

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

0.00 -1690.37 11 10

110

Motif group HL_85434.1

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

0.00 -1692.28 11 9

111

Motif group HL_89881.5

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

0.00 -1702.36 10 9

112

Motif group HL_86012.1

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

0.00 -1756.40 11 10

T-loop with unstacked turn

113

Motif group HL_93616.2

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

0.00 -1799.42 9 8

tRNA D-loop

114

Motif group HL_33074.4

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

0.00 -1803.46 11 9

U1 small nuclear ribonucleoprotein A binding hairpin

115

Motif group HL_16398.2

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

0.00 -1840.57 9 8

116

Motif group HL_61996.2

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

0.00 -1842.39 9 7

117

Motif group HL_88364.2

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

0.00 -1870.10 11 10

118

Motif group HL_04642.1

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

0.00 -1884.07 9 8

tRNA D-loop

119

Motif group HL_87463.1

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

0.00 -1886.23 10 9

120

Motif group HL_57863.1

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

0.00 -1909.69 9 8

G-quadruplex fragment

121

Motif group HL_83808.4

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

0.00 -1924.12 11 9

Pseudoknot

122

Motif group HL_98252.1

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

0.00 -1955.20 10 8

123

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 -1965.74 27 27

124

Motif group HL_60293.1

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

0.00 -1968.72 15 14

G-quadruplex

125

Motif group HL_23010.1

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

0.00 -1972.97 9 8

126

Motif group HL_41464.2

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

0.00 -2021.44 9 8

127

Motif group HL_97756.2

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

0.00 -2029.57 11 10

128

Motif group HL_86769.4

Basepair signature:
cWW-cWW-cSH-F

0.00 -2042.87 9 8

129

Motif group HL_26934.1

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

0.00 -2071.82 10 9

130

Motif group HL_28252.8

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

0.00 -2077.37 8 7

T-loop with 2 stacked bulged bases

131

Motif group HL_31581.6

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

0.00 -2170.82 10 9

132

Motif group HL_69139.1

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

0.00 -2172.16 8 7

133

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 -2229.88 16 15

G-quadruplex

134

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 -2231.16 15 14

G-quadruplex

135

Motif group HL_77082.1

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

0.00 -2251.29 9 8

Pseudoknot geometry

136

Motif group HL_77436.5

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

0.00 -2253.62 8 7

T-loop related

137

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 -2276.40 11 9

138

Motif group HL_81312.1

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

0.00 -2323.88 8 7

139

Motif group HL_73266.9

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

0.00 -2351.19 9 8

140

Motif group HL_85461.1

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

0.00 -2359.51 13 11

141

Motif group HL_84299.4

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

0.00 -2450.22 9 7

142

Motif group HL_07480.2

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

0.00 -2475.44 9 8

143

Motif group HL_01255.1

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

0.00 -2479.39 10 9

144

Motif group HL_50851.1

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

0.00 -2570.07 10 10

G-quadruplex fragment

145

Motif group HL_87553.1

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

0.00 -2570.94 9 8

146

Motif group HL_78284.1

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

0.00 -2592.62 10 8

147

Motif group HL_06059.6

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

0.00 -2659.26 8 7

tRNA anticodon loop

148

Motif group HL_35677.3

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

0.00 -2691.62 8 7

149

Motif group HL_04725.1

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

0.00 -2739.30 10 8

150

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 -2742.18 14 12

151

Motif group HL_58224.1

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

0.00 -2795.83 9 8

152

Motif group HL_01609.3

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

0.00 -2805.35 9 8

T-loop with 2 bulged bases not stacked

153

Motif group HL_29129.3

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

0.00 -2847.78 10 9

154

Motif group HL_67407.5

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

0.00 -2976.22 9 8

155

Motif group HL_15802.1

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

0.00 -3041.99 9 9

156

Motif group HL_34964.1

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

0.00 -3048.67 9 8

157

Motif group HL_28075.1

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

0.00 -3055.85 8 8

158

Motif group HL_18565.1

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

0.00 -3066.35 9 9

159

Motif group HL_15118.1

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

0.00 -3080.68 11 9

160

Motif group HL_94376.1

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

0.00 -3110.05 9 8

Pseudoknot geometry

161

Motif group HL_23115.1

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

0.00 -3116.79 9 9

tRNA D-loop

162

Motif group HL_55436.1

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

0.00 -3127.29 10 8

163

Motif group HL_73255.1

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

0.00 -3130.50 9 8

164

Motif group HL_91503.7

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

0.00 -3140.41 9 8

165

Motif group HL_19210.3

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

0.00 -3147.93 9 8

166

Motif group HL_68572.1

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

0.00 -3153.79 9 9

167

Motif group HL_97733.1

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

0.00 -3156.82 11 10

168

Motif group HL_55305.1

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

0.00 -3203.98 10 9

169

Motif group HL_88205.2

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

0.00 -3232.80 9 8

170

Motif group HL_80411.1

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

0.00 -3262.53 9 9

tRNA D-loop

171

Motif group HL_81538.2

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

0.00 -3262.67 8 8

GNRA with tandem sheared

172

Motif group HL_29762.1

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

0.00 -3291.68 9 9

173

Motif group HL_25061.1

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

0.00 -3329.27 9 8

174

Motif group HL_78347.4

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

0.00 -3352.55 10 8

175

Motif group HL_32735.2

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

0.00 -3412.29 8 7

176

Motif group HL_04259.3

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

0.00 -3460.24 9 9

GNRA with extra cWW

177

Motif group HL_93135.1

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

0.00 -3471.67 10 9

Pseudoknot

178

Motif group HL_29958.1

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

0.00 -3525.22 11 10

179

Motif group HL_85367.2

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

0.00 -3605.84 9 8

180

Motif group HL_72628.1

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

0.00 -3652.84 9 8

181

Motif group HL_80008.1

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

0.00 -3672.54 10 9

182

Motif group HL_33983.1

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

0.00 -3722.89 10 9

183

Motif group HL_70751.1

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

0.00 -3765.04 9 7

184

Motif group HL_13529.1

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

0.00 -3835.07 9 8

185

Motif group HL_36684.4

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

0.00 -3887.96 8 7

186

Motif group HL_89567.2

Basepair signature:
cWW-F-F-F

0.00 -3936.89 9 8

187

Motif group HL_50418.1

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

0.00 -3969.95 9 8

188

Motif group HL_83632.1

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

0.00 -4010.47 9 8

tRNA anticodon loop

189

Motif group HL_38808.1

Basepair signature:
cWW-cWW

0.00 -4010.84 8 7

190

Motif group HL_24792.1

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

0.00 -4063.52 10 9

191

Motif group HL_25967.2

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

0.00 -4121.35 9 9

192

Motif group HL_37369.2

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

0.00 -4207.73 10 9

193

Motif group HL_42046.2

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

0.00 -4213.59 9 7

194

Motif group HL_50537.6

Basepair signature:
cWW-F-F-F

0.00 -4239.74 9 8

tRNA anticodon loop with synthetase

195

Motif group HL_08510.1

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

0.00 -4276.29 10 9

196

Motif group HL_27670.2

Basepair signature:
cWW-tWH-F-F

0.00 -4346.15 9 8

T-loop with unstacked turn

197

Motif group HL_10453.3

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

0.00 -4360.19 9 8

tRNA anticodon loop

198

Motif group HL_10540.1

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

0.00 -4441.04 9 9

199

Motif group HL_20811.4

Basepair signature:
cWW-cWS-F

0.00 -4573.04 8 7

tRNA D-loop

200

Motif group HL_37344.1

Basepair signature:
cWW-F-F

0.00 -4584.41 10 9

201

Motif group HL_21372.1

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

0.00 -4588.71 9 9

202

Motif group HL_93383.1

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

0.00 -4629.51 10 9

203

Motif group HL_74292.1

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

0.00 -4778.05 10 8

204

Motif group HL_22584.6

Basepair signature:
cWW-tSW-F

0.00 -4829.22 10 9

Fab BL3-6 binding hairpin with tSW

205

Motif group HL_99748.1

Basepair signature:
cWW-F-F-cSH

0.00 -4899.24 10 8

Other HL

206

Motif group HL_20535.2

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

0.00 -5002.35 9 8

207

Motif group HL_56131.2

Basepair signature:
cWW-F-F

0.00 -5055.38 10 9

208

Motif group HL_30068.2

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

0.00 -5113.42 9 8

209

Motif group HL_47854.1

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

0.00 -5166.13 10 9

210

Motif group HL_78197.1

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

0.00 -5209.96 9 8

211

Motif group HL_93324.4

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

0.00 -5263.74 8 7

Pseudoknot geometry

212

Motif group HL_59330.1

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

0.00 -5270.91 11 10

213

Motif group HL_58539.1

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

0.00 -5291.78 11 10

214

Motif group HL_31585.4

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

0.00 -5292.68 8 8

Purine riboswitch

215

Motif group HL_02817.2

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

0.00 -5305.73 8 8

216

Motif group HL_99867.1

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

0.00 -5316.97 8 7

217

Motif group HL_49922.4

Basepair signature:
cWW-F-F-F

0.00 -5364.15 10 9

218

Motif group HL_00914.1

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

0.00 -5590.24 10 8

219

Motif group HL_34617.5

Basepair signature:
cWW-tSW-F

0.00 -5611.11 9 9

UNCG

220

Motif group HL_08100.1

Basepair signature:
cWW-F-F-F

0.00 -5650.72 10 8

221

Motif group HL_89893.1

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

0.00 -5774.39 11 10

222

Motif group HL_80362.1

Basepair signature:
cWW-F-F-F

0.00 -5802.53 11 10

223

Motif group HL_42998.2

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

0.00 -6115.42 9 8

224

Motif group HL_12870.1

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

0.00 -6248.49 10 9

225

Motif group HL_27483.1

Basepair signature:
cWW-F

0.00 -6414.43 10 9

226

Motif group HL_15574.1

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

0.00 -6606.29 10 9

227

Motif group HL_97983.1

Basepair signature:
cWW-F-F

0.00 -6697.39 10 8

228

Motif group HL_71391.1

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

0.00 -6725.20 11 10

229

Motif group HL_85993.1

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

0.00 -6727.49 10 8

230

Motif group HL_22622.1

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

0.00 -6923.49 9 8

231

Motif group HL_09452.1

Basepair signature:
cWW-F-F-F

0.00 -6944.54 9 8

232

Motif group HL_77600.2

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

0.00 -6951.89 8 7

233

Motif group HL_51447.1

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

0.00 -7118.56 10 9

234

Motif group HL_50318.1

Basepair signature:
cWW-cSH-F-F

0.00 -7251.25 9 8

235

Motif group HL_99040.1

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

0.00 -7381.37 11 11

236

Motif group HL_30680.3

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

0.00 -7462.44 9 8

Pseudoknot geometry

237

Motif group HL_66103.1

Basepair signature:
cWW-F-F

0.00 -7462.53 10 9

238

Motif group HL_43517.1

Basepair signature:
cWW-F-F-F

0.00 -7496.06 10 9

239

Motif group HL_67667.2

Basepair signature:
cWW-F-F

0.00 -7507.79 10 10

240

Motif group HL_89199.2

Basepair signature:
cWW-F-F-F

0.00 -7600.39 11 11

Mini UNCG

241

Motif group HL_39243.1

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

0.00 -7674.04 10 9

242

Motif group HL_32392.1

Basepair signature:
cWW-F-F

0.00 -7759.14 10 10

243

Motif group HL_55195.3

Basepair signature:
cWW-F

0.00 -8655.48 10 10

244

Motif group HL_28791.1

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

0.00 -8829.15 11 10

245

Motif group HL_78677.1

Basepair signature:
cWW-F-F

0.00 -9066.33 12 10

246

Motif group HL_26631.1

Basepair signature:
cWW-F-F-F

0.00 -9072.57 11 11

247

Motif group HL_35941.1

Basepair signature:
cWW-F

0.00 -9102.47 12 11

248

Motif group HL_60914.1

Basepair signature:
cWW-F

0.00 -9118.86 12 11

249

Motif group HL_59735.5

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

0.00 -9207.94 9 9

250

Motif group HL_94980.1

Basepair signature:
cWW-F-F

0.00 -9531.72 12 11

251

Motif group HL_81100.2

Basepair signature:
cWW

0.00 -9642.75 10 10

252

Motif group HL_07951.3

Basepair signature:
cWW-F-F

0.00 -9999.00 9 8

tRNA D-loop

253

Motif group HL_09260.2

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

0.00 -9999.00 9 8

tRNA D-loop

Coloring options: