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 9 Internal loop

Column numbers: 48-85, 112-116 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    UUU--------------------------CAGAGA--G*U---A    4

    
    UUA--------------------------AAGAGA--G*U---A    3

    
    UUU--------------------------UAGAGA--G*U---A    3

    
    UAA--------------------------CAGAGA--G*U---A    2

    
    UAU--------------------------CAGAGA--G*A---A    2

    
    UCU--------------------------CAGAGA--A*U---A    2

    
    UUA--------------------------UAGAGA--G*C---A    2

    
    UUUGUCGGUAGCAGCGAAAAUGCCGACGCCAGAGA--G*U---A    1

    
    AUA--------------------------CAGAGAAUU*AAGAU    1

    
    GUAGGC-----------------------GAGAGA--G*C---C    1

    
    UAC--------------------------CAGAGAA-G*C-CUA    1

    
    GUA--------------------------AAGAGAU-A*U--UC    1

    
    UCA--------------------------GAGAGG--A*U-CUA    1

    
    GGA--------------------------AAGAGA--A*U--AC    1

    
    UAU--------------------------CAGAGA--G*U--AA    1

    
    AAA--------------------------GAGAGU--G*C---U    1

    
    AUA--------------------------CAGAGA--G*U---U    1

    
    AUU--------------------------CAGAGA--A*U---U    1

    
    CCA--------------------------AAGCGA--G*U---G    1

    
    CCA--------------------------GAGAGA--A*U---U    1

    
    CCC--------------------------CAGAGA--G*C---G    1

    
    CUU--------------------------CAGGGA--A*U---G    1

    
    CUU--------------------------CAGGGA--G*U---G    1

    
    CUU--------------------------UAGGAA--G*C---G    1

    
    GUG--------------------------AAGAGA--G*U---C    1

    
    GUU--------------------------GAGAGA--G*U---C    1

    
    UAU--------------------------CAGAGA--U*A---A    1

    
    UCA--------------------------AAGAGA--G*U---A    1

    
    UCA--------------------------CAGAGA--G*C---A    1

    
    UCC--------------------------UAGAGA--G*U---A    1

    
    UCU--------------------------AAGAGA--G*C---A    1

    
    UUA--------------------------CAGAGA--G*U---A    1

    
    UUA--------------------------CAGAGA--G*U---G    1

    
    UUA--------------------------CAGCGA--G*C---A    1

    
    UUA--------------------------UAGAGA--G*U---A    1

    
    UU---------------------------CAGAGA--G*U---A    1

    
    Omitted sequenced and counts

    
    UCA--------------------------CAGAGA--G*U----    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 IL_64048.1

Basepair signature:
cWW-L-cWW-L-L-tWH-R-L-R

63.83 -121.30 6 4

2

Motif group IL_15218.1

Basepair signature:
cWW-L-cWW-L-L-R-L-R-L-R-L

2.13 -168.61 6 4

3

Motif group IL_58960.1

Basepair signature:
cWW-L-cWW-L-tWW-L-R-L

2.13 -187.27 5 3

4

Motif group IL_53787.1

Basepair signature:
cWW-L-cWW-L-L-R-L-R-L-R-L-R

0.00 -109.72 8 6

Pseudoknot

5

Motif group IL_80209.1

Basepair signature:
cWW-cHW-L-cWW-L-L-R-L-R-L

0.00 -168.74 7 5

6

Motif group IL_32056.1

Basepair signature:
cWW-L-cWW-L-L-tWH-R-L-R-L

0.00 -173.07 7 4

7

Motif group IL_43140.1

Basepair signature:
cWW-L-cWW-cWH-L-L

0.00 -179.25 8 6

8

Motif group IL_84665.1

Basepair signature:
cWW-L-cSW-cWW-L-L-R-L-R-L-R-L

0.00 -179.85 7 5

9

Motif group IL_85498.1

Basepair signature:
cWW-L-R-L-cWW-L-L-R-L-R

0.00 -182.39 8 6

10

Motif group IL_87290.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L

0.00 -184.58 14 11

Kink-turn related

11

Motif group IL_54896.1

Basepair signature:
cWW-L-R-L-cWW-L-L-R-L-R

0.00 -184.58 8 6

12

Motif group IL_19852.1

Basepair signature:
cWW-tWH-cWW-cWH-cWH-cWH

0.00 -192.85 10 6

Part of G-quadruplex

13

Motif group IL_19897.3

Basepair signature:
cWW-L-cWW-L-L-tWH-R-L

0.00 -197.94 8 5

14

Motif group IL_18354.1

Basepair signature:
cWW-L-cWW-L-L-R-L-R-L-R

0.00 -200.53 9 6

15

Motif group IL_17973.1

Basepair signature:
cWW-cWW-L-cWW-L-L-R-L-R-L-R-L-R-L-R

0.00 -204.23 15 12

16

Motif group IL_88974.1

Basepair signature:
cWW-L-R-L-cWW-L-L-R-L-R

0.00 -205.57 8 5

17

Motif group IL_82968.1

Basepair signature:
cWW-L-cWW-L-L-R-L-R-L

0.00 -214.14 9 5

18

Motif group IL_53596.1

Basepair signature:
cWW-L-cWW-L-L-R-L

0.00 -215.00 8 5

19

Motif group IL_21173.1

Basepair signature:
cWW-L-cWW-L-L-R-L-R-L

0.00 -215.71 9 5

20

Motif group IL_69271.3

Basepair signature:
cWW-cWW-L-R-L-cWW-L-L-R

0.00 -216.97 8 6

21

Motif group IL_04650.2

Basepair signature:
cWW-cWW-L-cWW-L-R-L-L-cSH

0.00 -220.40 9 7

22

Motif group IL_88072.1

Basepair signature:
cWW-L-R-L-cWW-L-L-R-L-R-L

0.00 -224.34 8 5

23

Motif group IL_55917.1

Basepair signature:
cWW-L-cWW-L-L-R

0.00 -224.91 9 6

24

Motif group IL_30730.1

Basepair signature:
cWW-cSH-L-R-L-cWW-L-R

0.00 -225.82 7 6

25

Motif group IL_33711.1

Basepair signature:
cWW-cSH-cWW-L-L-R-L

0.00 -226.80 8 5

Minor groove platform

26

Motif group IL_46112.1

Basepair signature:
cWW-L-cWW-L-L-R-L

0.00 -233.92 10 6

27

Motif group IL_60657.1

Basepair signature:
cWW-cWW-L-R-L-cWW-L-L-R-L-R-L-R

0.00 -237.33 10 8

28

Motif group IL_06029.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-L-R-L-R-L-R-L

0.00 -240.75 16 13

Kink-turn

29

Motif group IL_04332.3

Basepair signature:
cWW-L-R-L-cWW-L-L-R-L-R-L

0.00 -245.03 11 9

30

Motif group IL_09570.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-L-R

0.00 -256.87 10 7

31

Motif group IL_30441.1

Basepair signature:
cWW-cSH-tSW-tHW-cWW-L-L-R-L-L-R

0.00 -263.66 9 7

32

Motif group IL_27393.10

Basepair signature:
cWW-L-cWW-L-L-R-L-R

0.00 -267.67 9 5

33

Motif group IL_38969.1

Basepair signature:
cWW-L-R-L-cWW-L-L

0.00 -272.04 10 8

Reverse kink-turn related

34

Motif group IL_19516.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-cWW-L-L-L-R-L-R

0.00 -274.12 15 11

Pseudoknot

35

Motif group IL_96303.1

Basepair signature:
cWW-cSH-tSW-tHW-cWW-L-L-R-L-R

0.00 -280.62 9 7

36

Motif group IL_13394.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L-R

0.00 -281.26 16 14

37

Motif group IL_64842.1

Basepair signature:
cWW-L-tWH-L-cWW-L-cSH

0.00 -281.32 9 6

38

Motif group IL_74184.1

Basepair signature:
cWW-L-tHS-L-cWW-L-L-L

0.00 -281.77 10 7

39

Motif group IL_95811.1

Basepair signature:
cWW-L-cWW-L-cWW-L-R-L

0.00 -285.35 9 6

Vitamin B12 Aptamer

40

Motif group IL_54050.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-L

0.00 -288.57 11 10

41

Motif group IL_82706.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -288.82 8 7

42

Motif group IL_37603.1

Basepair signature:
cWW-L-cWW-L-cWW-L-L

0.00 -289.92 9 7

43

Motif group IL_86136.1

Basepair signature:
cWW-tSH-L-cWW-L-L-R-L

0.00 -290.36 8 5

44

Motif group IL_74957.1

Basepair signature:
cWW-L-cHW-L-cWW-L

0.00 -291.61 7 5

cWH basepair with bulged bases

45

Motif group IL_42218.2

Basepair signature:
cWW-L-R-cHW-cWW-L-L-L-R-L

0.00 -292.44 12 9

46

Motif group IL_73002.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-cWW-L-L-R

0.00 -294.39 14 12

47

Motif group IL_81731.1

Basepair signature:
cWW-cWW-L-R-L-R-L-cWW-L-tWW-L-R-L

0.00 -295.92 9 7

48

Motif group IL_64403.1

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW-L-L-R

0.00 -297.33 11 9

49

Motif group IL_16665.1

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW

0.00 -299.54 10 9

50

Motif group IL_81392.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-L-R-L

0.00 -300.11 14 12

51

Motif group IL_05472.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-cWW-L

0.00 -303.56 12 10

52

Motif group IL_51191.1

Basepair signature:
cWW-L-R-L-cWW-L-L

0.00 -305.43 8 6

53

Motif group IL_15991.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L-cWW-L-L

0.00 -305.88 17 15

54

Motif group IL_97697.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-L

0.00 -305.98 10 7

Reverse turn

55

Motif group IL_46086.1

Basepair signature:
cWW-L-cWW-L-L-R

0.00 -318.57 7 5

56

Motif group IL_13358.1

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW-L-L

0.00 -319.24 11 8

57

Motif group IL_47087.1

Basepair signature:
cWW-L-cWW-L-cWW-tWH-L-L

0.00 -319.27 10 7

Kink-turn related

58

Motif group IL_26598.1

Basepair signature:
cWW-L-cWW-L-L-R-L-R

0.00 -323.56 9 5

59

Motif group IL_33623.1

Basepair signature:
cWW-L-tHH-L-R-L-cWW-L-R

0.00 -324.04 8 6

60

Motif group IL_89312.1

Basepair signature:
cWW-tSH-L-cWS-cWW-L

0.00 -324.10 8 6

61

Motif group IL_24499.1

Basepair signature:
cWW-cWS-L-R-L-R-cWW-L-cSH-L

0.00 -324.90 9 6

62

Motif group IL_80412.1

Basepair signature:
cWW-tSW-L-cWW-L-L-R-L

0.00 -326.12 11 9

63

Motif group IL_41853.1

Basepair signature:
cWW-L-tHH-L-tHS-L-cWW-L-L

0.00 -326.46 8 6

64

Motif group IL_25412.1

Basepair signature:
cWW-L-cWW-L-L

0.00 -328.39 9 6

Major groove intercalation

65

Motif group IL_82426.6

Basepair signature:
cWW-cHW-R-L-cHW-cHW-cHW-L-cWW-R

0.00 -331.55 10 8

66

Motif group IL_43467.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-cWW-L-L-R-L

0.00 -332.09 15 12

Pseudoknot

67

Motif group IL_91592.1

Basepair signature:
cWW-L-tHH-L-cWW-L-L

0.00 -332.39 8 5

68

Motif group IL_85222.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-L

0.00 -338.48 12 9

69

Motif group IL_54177.4

Basepair signature:
cWW-cSW-tWH-L-R-L-R-tHS-cWW

0.00 -339.57 12 10

70

Motif group IL_04307.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-cWW-L-L-R

0.00 -340.09 11 10

71

Motif group IL_91636.1

Basepair signature:
cWW-tSH-L-R-L-cWW-L-L

0.00 -347.31 11 8

72

Motif group IL_31915.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-R-L-cWW

0.00 -348.84 14 11

73

Motif group IL_41203.4

Basepair signature:
cWW-L-cWW-L-L-R-cSH

0.00 -350.31 6 4

SSU/LSU pseudoknot

74

Motif group IL_78472.1

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW-L-L

0.00 -354.12 10 7

75

Motif group IL_80298.1

Basepair signature:
cWW-L-cWW-L-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L-R

0.00 -354.58 17 16

76

Motif group IL_34739.3

Basepair signature:
cWW-tWW-tWW-L-R-L-R-L-cWW-L-L-R-L-R-L-R-L-R

0.00 -356.39 16 14

77

Motif group IL_88017.1

Basepair signature:
cWW-L-cWW-L-L-R-L

0.00 -363.06 9 6

78

Motif group IL_88082.1

Basepair signature:
cWW-L-tSS-L-cWW-L

0.00 -366.94 9 6

79

Motif group IL_28304.1

Basepair signature:
cWW-R-L-R-L-R-L-R-L-L-L-cWW-cWW

0.00 -373.95 12 11

80

Motif group IL_74746.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-R-L-R-cWW

0.00 -376.64 11 10

81

Motif group IL_45896.1

Basepair signature:
cWW-cWW-cWW

0.00 -378.38 14 14

82

Motif group IL_76460.1

Basepair signature:
cWW-cWW-L-tHS-L-R-L-cWW-L-L-R-L-L-R-L-R-L-R

0.00 -378.77 14 12

83

Motif group IL_50715.3

Basepair signature:
cWW-tSH-tHH-L-R-L-R-L-tWW-L-cWW-L-L-L-R-L

0.00 -379.57 16 14

84

Motif group IL_33141.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-L

0.00 -381.83 10 8

85

Motif group IL_07173.1

Basepair signature:
cWW-L-R-L-cWW-L

0.00 -383.53 10 6

86

Motif group IL_85630.1

Basepair signature:
cWW-tSH-L-R-L-R-L-cWW-L-cWW-L

0.00 -384.68 11 10

87

Motif group IL_74051.1

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

0.00 -386.72 9 7

Kink-turn

88

Motif group IL_77278.1

Basepair signature:
cWW-tWW-L-tWW-cWW-L

0.00 -388.12 10 9

89

Motif group IL_90346.1

Basepair signature:
cWW-L-R-L-cWW-L-L

0.00 -389.02 9 6

90

Motif group IL_38186.6

Basepair signature:
cWW-L-cWW-L-L-R

0.00 -389.28 6 4

91

Motif group IL_78349.3

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW-L-L

0.00 -390.27 10 8

92

Motif group IL_69145.3

Basepair signature:
cWW-L-cWW-L-R-L-R-R

0.00 -391.99 9 7

Pseudoknot

93

Motif group IL_43622.1

Basepair signature:
cWW-cWW-L-cWW-L

0.00 -393.57 7 5

94

Motif group IL_31084.1

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW-L

0.00 -393.87 10 9

95

Motif group IL_59258.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L-cWW

0.00 -394.31 9 7

96

Motif group IL_99380.1

Basepair signature:
cWW-L-cWW-L-L-R

0.00 -394.71 7 5

97

Motif group IL_60448.1

Basepair signature:
cWW-L-cWW-L-R-L-tWH-L-tHS-L-R-L-cWW-L-R

0.00 -396.69 14 12

98

Motif group IL_56317.1

Basepair signature:
cWW-L-R-L-R-L-cWW

0.00 -397.60 11 9

99

Motif group IL_49971.1

Basepair signature:
cWW-cWH-cWW-cWW-L-L-R

0.00 -400.08 10 7

100

Motif group IL_04073.1

Basepair signature:
cWW-L-R-L-tSH-L-R-cWW-L-R-R-L-cWW-L

0.00 -403.32 13 13

101

Motif group IL_20245.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-R-L-R-L-cWW-L-L-R-L

0.00 -403.46 17 15

102

Motif group IL_85652.1

Basepair signature:
cWW-tSH-L-R-L-R-L-cWW-L

0.00 -405.27 10 9

103

Motif group IL_45444.1

Basepair signature:
cWW-L-R-L-R-L-cWW

0.00 -407.99 9 6

104

Motif group IL_44874.1

Basepair signature:
cWW-tSH-tHW-L-cWW-L-L

0.00 -408.48 10 8

tSH-tHW

105

Motif group IL_69229.3

Basepair signature:
cWW-L-tSH-L-tHS-cWW-cWW

0.00 -410.57 8 7

Kink-turn

106

Motif group IL_49612.1

Basepair signature:
cWW-L-R-L-R-L-cWW-L

0.00 -411.83 8 6

107

Motif group IL_82683.2

Basepair signature:
cWW-L-R-L-cWW-L

0.00 -416.27 10 7

108

Motif group IL_76758.2

Basepair signature:
cWW-L-R-L-cWW-L-L

0.00 -417.86 8 7

Intercalated tWH

109

Motif group IL_87211.1

Basepair signature:
cWW-cSW-L-cWW-L

0.00 -419.66 7 6

110

Motif group IL_42778.1

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW

0.00 -420.93 10 9

111

Motif group IL_36729.1

Basepair signature:
cWW-cWW-L-R-L-R-L-R-tWH-R-L-R-L-cWW

0.00 -422.55 13 11

112

Motif group IL_31561.1

Basepair signature:
cWW-L-R-tWH-tWH-L-R-L-cWW

0.00 -427.54 12 9

113

Motif group IL_77870.1

Basepair signature:
cWW-L-R-L-tHS-L-cWW-L-cWW

0.00 -427.74 10 8

114

Motif group IL_98347.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -428.93 8 5

115

Motif group IL_09908.1

Basepair signature:
cWW-L-tHH-L-R-L-cWW-L

0.00 -431.35 9 6

Reverse kink-turn

116

Motif group IL_21630.1

Basepair signature:
cWW-L-R-L-R-L-R-cSH-R-tWH-R-cWW-cWW

0.00 -434.72 13 11

117

Motif group IL_42231.1

Basepair signature:
cWW-L-R-L-cWW-L-cWW-cSS-L

0.00 -436.88 11 10

118

Motif group IL_25186.4

Basepair signature:
cWW-L-R-L-R-L-R-cWW

0.00 -439.38 9 8

119

Motif group IL_61286.1

Basepair signature:
cWW-L-R-L-R-L-tWH-L-tHS-cWW

0.00 -440.43 11 8

8x6 Sarcin-Ricin with inserted A; G-bulge

120

Motif group IL_70376.1

Basepair signature:
cWW-L-cWW-L

0.00 -441.98 8 6

121

Motif group IL_54737.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L-R-L-R

0.00 -443.75 17 16

122

Motif group IL_47108.1

Basepair signature:
cWW-L-R-L-tHH-L-cWW

0.00 -444.36 7 7

123

Motif group IL_59049.1

Basepair signature:
cWW-cWW-L-R-L-R-L-R-L-R-L-cWW-L

0.00 -445.32 13 11

124

Motif group IL_91698.1

Basepair signature:
cWW-tWW-L-R-L-R-L-R-L-tHW-R-L-cWW

0.00 -445.62 12 10

125

Motif group IL_44438.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-cWW

0.00 -445.81 11 10

126

Motif group IL_96332.5

Basepair signature:
cWW-cWW-L-R-L-cWW-L

0.00 -446.80 8 5

127

Motif group IL_93889.1

Basepair signature:
cWW-R-tSH-L-cSH-L-L-R-L-R-L-R-L-R-L-R-L-L

0.00 -456.61 14 13

128

Motif group IL_59302.1

Basepair signature:
cWW-L-R-L-cWW-L

0.00 -457.93 7 6

129

Motif group IL_70627.3

Basepair signature:
cWW-L-R-tHW-cWW

0.00 -458.18 9 8

UAA/GAN related

130

Motif group IL_18487.1

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW-cWW

0.00 -460.62 10 8

131

Motif group IL_73789.1

Basepair signature:
cWW-L-R-L-cWW-L

0.00 -461.80 10 7

132

Motif group IL_20463.1

Basepair signature:
cWW-tSH-tHW-cSH-tHH-cWH-L-R-cWW-L-L-R

0.00 -462.16 12 11

7x11 Sarcin-Ricin with pseudoknotted region; G-bulge

133

Motif group IL_69000.1

Basepair signature:
cWW-L-cWW-L-cWW-L

0.00 -463.47 10 7

134

Motif group IL_22854.4

Basepair signature:
cWW-tSH-cWW-tHW-R-L-cWW-L-L-R

0.00 -463.72 10 8

135

Motif group IL_12566.4

Basepair signature:
cWW-L-tHS-L-cWW-L

0.00 -463.80 8 5

136

Motif group IL_21667.1

Basepair signature:
cWW-tSH-L-R-L-cWW

0.00 -465.96 8 8

137

Motif group IL_04736.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-cWW

0.00 -466.42 11 10

138

Motif group IL_34737.1

Basepair signature:
cWW-L-cHW-L-cWW-L

0.00 -469.30 11 8

139

Motif group IL_15107.1

Basepair signature:
cWW-R-L-R-L-R-L-R-L-R-L-R-L-L-L-cWW

0.00 -470.05 14 12

140

Motif group IL_16458.4

Basepair signature:
cWW-L-R-L-R-cSH-tWH-tHS-cWW

0.00 -471.41 10 8

Sarcin-Ricin target in LSU H95; G-bulge

141

Motif group IL_88116.2

Basepair signature:
cWW-tSH-L-R-L-R-L-R-cWW-cWW

0.00 -471.86 10 9

142

Motif group IL_58350.1

Basepair signature:
cWW-L-R-tWH-tWH-L-R-L-cWW-L

0.00 -473.57 11 9

143

Motif group IL_92634.2

Basepair signature:
cWW-L-cWW-L-L

0.00 -477.16 9 5

144

Motif group IL_11344.2

Basepair signature:
cWW-cSS-L-cWW

0.00 -493.93 10 7

180 degree turn

145

Motif group IL_21001.1

Basepair signature:
cWW-L-R-tHW-L-cWW

0.00 -493.98 10 9

146

Motif group IL_43547.1

Basepair signature:
cWW-tSH-tHH-cSH-tWH-tHS-R-L-cWW-L-cWW

0.00 -496.41 12 10

10x8 Sarcin-Ricin; G-bulge

147

Motif group IL_33886.1

Basepair signature:
cWW-L-cWW-L-R-L-R-cWW

0.00 -500.64 10 8

Kink-turn with embedded cWW pair

148

Motif group IL_04638.3

Basepair signature:
cWW-tSH-tHW-tHS-cSH-cWW-L

0.00 -509.42 7 6

tSH-tHS-tHW

149

Motif group IL_05192.4

Basepair signature:
cWW-L-R-L-R-L-cWW-L

0.00 -513.10 9 8

150

Motif group IL_54041.2

Basepair signature:
cWW-L-R-L-R-tWH-L-cWW

0.00 -519.78 10 7

tHW-tHW cross-strand stack

151

Motif group IL_73700.1

Basepair signature:
cWW-L-R-L-cWW-L-cWW-tHS-cWW

0.00 -526.08 13 11

152

Motif group IL_37752.1

Basepair signature:
cWW-L-R-L-R-tHW-R-L-cWW

0.00 -530.37 11 9

153

Motif group IL_19668.1

Basepair signature:
cWW-cWW-L-cWW-L

0.00 -532.29 7 5

Isolated non-canonical cWW pair

154

Motif group IL_70670.1

Basepair signature:
cWW-R-L-R-L-R-L-R-L-R-L-R-tWH-L-R-L

0.00 -533.55 14 11

9x9 Sarcin-Ricin with pseudoknotted region; G-bulge

155

Motif group IL_20047.1

Basepair signature:
cWW-tSH-tWH-cSH-cHW-cWH-cWW-cWW

0.00 -535.05 10 9

156

Motif group IL_29826.1

Basepair signature:
cWW-tSH-tHH-L-R-L-R-cSH-R-R-L-R-L-R-L-R-L-R-L-cWW

0.00 -539.15 20 20

157

Motif group IL_83149.1

Basepair signature:
cWW-tSH-tHH-L-R-L-R-L-R-L-R-L-R-L-R-L-cWW-L-cWW

0.00 -541.84 20 19

158

Motif group IL_22829.2

Basepair signature:
cWW-L-tHS-L-R-L-cWW-L

0.00 -549.18 8 7

159

Motif group IL_49714.1

Basepair signature:
cWW-L-cWW-L-L

0.00 -555.29 9 6

Major groove intercalation

160

Motif group IL_68405.1

Basepair signature:
cWW-cSS-L-tWH-tHW-cWW-cWW

0.00 -560.79 11 8

Kink-turn related

161

Motif group IL_81522.2

Basepair signature:
cWW-L-L-cWW

0.00 -580.58 8 5

Major groove minor groove platform with intercalation; mini C-loop

162

Motif group IL_75294.1

Basepair signature:
cWW-L-R-L-R-L-cWW

0.00 -586.89 8 6

163

Motif group IL_99498.1

Basepair signature:
cWW-L-R-tHW-cWW

0.00 -590.73 11 9

164

Motif group IL_70801.1

Basepair signature:
cWW-cWW-L-R-tWW-L-R-L-cWW

0.00 -592.37 11 9

165

Motif group IL_52743.1

Basepair signature:
cWW-tSW-L-cSW-L-cWW-L

0.00 -592.83 6 5

166

Motif group IL_10389.1

Basepair signature:
cWW-L-cWW-L-cWW

0.00 -596.06 9 6

167

Motif group IL_38394.1

Basepair signature:
cWW-tWH-cWW-L-L-R-L

0.00 -599.86 6 3

168

Motif group IL_70923.9

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

0.00 -600.55 7 6

Kink-turn

169

Motif group IL_47972.1

Basepair signature:
cWW-L-R-L-cWW-L

0.00 -600.58 9 7

170

Motif group IL_29471.1

Basepair signature:
cWW-cWW-L-tHS-L-cWW

0.00 -605.27 8 6

171

Motif group IL_09129.2

Basepair signature:
cWW-L-R-tWH-L-R-L-tWW-cWW

0.00 -608.30 10 9

172

Motif group IL_09044.1

Basepair signature:
cWW-tSH-tHH-L-tHS-cWW

0.00 -609.02 10 8

173

Motif group IL_64900.1

Basepair signature:
cWW-cWW-tSS-tSH-L-tHS-R-cWW-L

0.00 -609.33 11 8

Kink-turn

174

Motif group IL_49867.1

Basepair signature:
cWW-cWW-L-R-L-R-tHW-R-L-L-cWW

0.00 -609.86 13 10

175

Motif group IL_94351.1

Basepair signature:
cWW-L-R-L-R-L-tHS-cWW

0.00 -611.47 10 8

176

Motif group IL_70335.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -621.88 10 8

177

Motif group IL_84694.2

Basepair signature:
cWW-L-R-tSH-tHW-tHH-tHS-cWW-cWW

0.00 -630.00 11 10

tSH-tHW-tHH-tHS

178

Motif group IL_51265.3

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

0.00 -630.58 7 6

Kink-turn from U4

179

Motif group IL_01038.1

Basepair signature:
cWW-tWH-L-R-tHS-cWW

0.00 -633.03 10 8

UAA/GAN with extra stack

180

Motif group IL_11415.1

Basepair signature:
cWW-L-R-L-cWW-L

0.00 -639.16 8 8

181

Motif group IL_58126.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-R-L-cWW

0.00 -640.24 12 10

182

Motif group IL_25463.1

Basepair signature:
cWW-L-cWW-L-L

0.00 -642.83 8 6

183

Motif group IL_29346.2

Basepair signature:
cWW-L-cWW-L-L

0.00 -646.70 7 5

Left turn

184

Motif group IL_23038.1

Basepair signature:
cWW-L-R-tWH-L-R-L-cWW-cWW

0.00 -651.74 11 11

185

Motif group IL_29357.1

Basepair signature:
cWW-L-R-L-R-cWH-tHW-cSH-cWW-L-L-cWW-R-R

0.00 -656.64 14 12

186

Motif group IL_68243.1

Basepair signature:
cWW-L-cWW-cWW-R-L-tHS-cWW

0.00 -665.96 12 10

187

Motif group IL_99692.2

Basepair signature:
cWW-tSS-tSH-L-R-R-L-cWW-L-L

0.00 -667.68 7 6

Kink-turn

188

Motif group IL_95727.1

Basepair signature:
cWW-L-tSH-L-tHW-tHS-R-cWW-L

0.00 -671.89 10 7

Kink-turn

189

Motif group IL_49061.1

Basepair signature:
cWW-L-R-L-cWW-L

0.00 -674.52 7 6

190

Motif group IL_80231.1

Basepair signature:
cWW-L-R-L-R-L-R-tHS-cWW

0.00 -680.12 8 7

Other IL

191

Motif group IL_41756.4

Basepair signature:
cWW-tSH-tHH-cSH-tWH-tHS-cWW-L

0.00 -682.33 11 10

8x6 Sarcin-Ricin with inserted Y; G-bulge

192

Motif group IL_89047.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-cWH-L-cWW

0.00 -683.09 12 11

193

Motif group IL_67623.1

Basepair signature:
cWW-tSW-cSW-L-cSW-L-R-L-cWW-cWW

0.00 -684.50 12 10

Minor groove platform related

194

Motif group IL_34470.3

Basepair signature:
cWW-cSH-cWW-tHH-tWH-tHS-cWW-tSH-R-cWW-L

0.00 -684.81 11 10

9x8 Sarcin-Ricin with GA cWW pair; G-bulge

195

Motif group IL_70411.2

Basepair signature:
cWW-tSH-L-tHH-L-cWW

0.00 -690.29 8 8

196

Motif group IL_82292.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-cWW

0.00 -690.57 9 9

197

Motif group IL_47074.2

Basepair signature:
cWW-L-cWW-L

0.00 -692.06 7 5

198

Motif group IL_14177.2

Basepair signature:
cWW-L-R-L-cWW

0.00 -700.61 7 6

199

Motif group IL_57741.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-L-cWW-L-cWW

0.00 -701.18 12 11

200

Motif group IL_01176.1

Basepair signature:
cWW-L-R-L-R-L-R-L-cWW

0.00 -703.20 12 10

201

Motif group IL_34822.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-cWW

0.00 -707.81 11 9

202

Motif group IL_74367.1

Basepair signature:
cWW-L-R-L-R-L-R-cWW

0.00 -709.98 11 9

203

Motif group IL_29198.2

Basepair signature:
cWW-cWW-L-R-cSH-R-tWH-tHS-cWW

0.00 -711.59 11 9

7x7 Sarcin-Ricin with intercalated A; G-bulge

204

Motif group IL_21200.1

Basepair signature:
cWW-tSH-tHW-L-cWW-L

0.00 -713.96 7 6

tSH-tHW

205

Motif group IL_82741.2

Basepair signature:
cWW-L-cWW-L-L

0.00 -717.64 9 7

206

Motif group IL_06300.1

Basepair signature:
cWW-L-R-L-R-L-cWW

0.00 -721.37 9 8

207

Motif group IL_26685.1

Basepair signature:
cWW-L-cWW-L

0.00 -725.73 8 5

Multiple bulged bases

208

Motif group IL_89984.3

Basepair signature:
cWW-L-R-L-cWW

0.00 -731.31 9 7

209

Motif group IL_31558.1

Basepair signature:
cWW-L-tHS-L-R-cWW

0.00 -735.26 9 7

210

Motif group IL_62012.1

Basepair signature:
cWW-cWW-L-R-L-cWW

0.00 -742.35 9 7

Decoding loop related

211

Motif group IL_67780.1

Basepair signature:
cWW-cSH-L-R-L-L-R-L

0.00 -744.98 10 8

212

Motif group IL_65653.1

Basepair signature:
cWW-tSW-tHW-tWW-tWH-cSH-L-L-tHS-L-cWW-L

0.00 -751.34 11 10

213

Motif group IL_18472.4

Basepair signature:
cWW-tSW-R-L-R-L-R-cWW

0.00 -751.69 12 9

214

Motif group IL_16218.2

Basepair signature:
cWW-L-R-L-R-L-cWW

0.00 -766.41 12 9

215

Motif group IL_95570.1

Basepair signature:
cWW-cWH-R-L-cWW

0.00 -792.62 8 7

216

Motif group IL_76319.5

Basepair signature:
cWW-L-R-L-cWW

0.00 -795.62 9 7

217

Motif group IL_66798.2

Basepair signature:
cWW-L-R-L-R-tHS-cWW

0.00 -800.03 8 8

AAA cross-strand stack

218

Motif group IL_07171.1

Basepair signature:
cWW-L-cWW-L

0.00 -804.49 8 6

Bulged stacked bases

219

Motif group IL_11399.2

Basepair signature:
cWW-cHW-L-R-L-cWW

0.00 -814.92 9 7

220

Motif group IL_53581.1

Basepair signature:
cWW-tWW-L-tWH-cSS-tSS-tWH-cSS-tWH-R-tSS-R-L-L-cWW-L-cWW

0.00 -820.31 17 16

Kink-turn related

221

Motif group IL_71598.1

Basepair signature:
cWW-tSH-L-cWW-L

0.00 -840.81 9 7

222

Motif group IL_42314.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -841.45 8 7

223

Motif group IL_64858.3

Basepair signature:
cWW-cHW-cWH-R-L-cWH-cHW-cHW-cWH-cWH-cHW-L-cWW-L-R-cWW-L-cWW

0.00 -878.33 19 18

224

Motif group IL_66663.1

Basepair signature:
cWW-L-tHS-tSW-tWH-cWH-cWW-L-cWW

0.00 -890.82 14 13

225

Motif group IL_00881.1

Basepair signature:
cWW-L-cWW-L

0.00 -899.46 8 6

226

Motif group IL_20031.1

Basepair signature:
cWW-L-cWW-L

0.00 -922.06 9 6

227

Motif group IL_94967.1

Basepair signature:
cWW-L-cWW-L

0.00 -928.83 10 7

228

Motif group IL_14368.1

Basepair signature:
cWW-L-cWW-cSH

0.00 -950.27 8 6

Major groove platform with intercalated tWH

229

Motif group IL_19102.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -961.80 9 7

230

Motif group IL_61476.2

Basepair signature:
cWW-tSH-L-cWW-L

0.00 -988.24 7 6

231

Motif group IL_15698.3

Basepair signature:
cWW-L-R-L-cWW

0.00 -990.91 8 6

232

Motif group IL_22551.4

Basepair signature:
cWW-L-cWW-L

0.00 -1006.78 8 6

233

Motif group IL_48444.6

Basepair signature:
cWW-L-R-cWW-cWW

0.00 -1017.54 8 7

234

Motif group IL_46387.1

Basepair signature:
cWW-cWW-L-cWW-L

0.00 -1023.97 9 6

235

Motif group IL_89021.2

Basepair signature:
cWW-L-R-L-R-tHS-cWW

0.00 -1033.47 8 8

UAA/GAN

236

Motif group IL_26728.3

Basepair signature:
cWW-cSH-R-cSH-cWW-cWW

0.00 -1044.57 11 9

237

Motif group IL_55516.2

Basepair signature:
cWW-cWW-cSH-cWW

0.00 -1058.96 8 6

238

Motif group IL_61341.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -1060.83 8 6

239

Motif group IL_90351.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -1062.39 8 7

240

Motif group IL_68909.1

Basepair signature:
cWW-L-R-L-R-L-cWW

0.00 -1109.03 9 7

241

Motif group IL_64231.5

Basepair signature:
cWW-cWW-L-R-L-cWW

0.00 -1113.08 9 7

242

Motif group IL_51387.2

Basepair signature:
cWW-cSH-cWW-cWW

0.00 -1117.39 8 7

243

Motif group IL_66635.5

Basepair signature:
cWW-L-cWW

0.00 -1190.69 7 6

Major groove intercalation

244

Motif group IL_73355.1

Basepair signature:
cWW-L-cWW-L

0.00 -1211.39 9 6

245

Motif group IL_79895.1

Basepair signature:
cWW-L-cWW-L

0.00 -1226.69 10 7

246

Motif group IL_92446.2

Basepair signature:
cWW-cWW-R-L-L

0.00 -1246.39 10 9

247

Motif group IL_76709.2

Basepair signature:
cWW-L-cWW-L

0.00 -1267.31 8 6

248

Motif group IL_99358.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -1297.97 8 7

249

Motif group IL_31531.3

Basepair signature:
cWW-L-R-L-cWW

0.00 -1343.20 8 7

Decoding loop related

250

Motif group IL_44325.1

Basepair signature:
cWW-cWH-cWW-L

0.00 -1398.99 9 7

251

Motif group IL_69440.3

Basepair signature:
cWW-L-R-cSH-cWW

0.00 -1399.67 7 6

252

Motif group IL_28788.1

Basepair signature:
cWW-L-R-cWW

0.00 -1412.09 9 6

253

Motif group IL_66997.2

Basepair signature:
cWW-L-R-L-cWW-L

0.00 -1449.37 10 7

254

Motif group IL_57881.1

Basepair signature:
cWW-L-cWW

0.00 -1471.45 11 7

Multiple bulged bases

255

Motif group IL_73452.2

Basepair signature:
cWW-L-cWW

0.00 -1569.03 9 6

256

Motif group IL_80398.1

Basepair signature:
cWW-L-cSW-L-R-cWW

0.00 -1599.57 9 8

Minor groove platform

257

Motif group IL_15052.4

Basepair signature:
cWW-L-cWW-L

0.00 -1619.74 8 5

Minor groove platform

258

Motif group IL_08770.1

Basepair signature:
cWW-L-R-cWW

0.00 -1659.69 8 7

259

Motif group IL_95583.2

Basepair signature:
cWW-L-cWW

0.00 -1663.02 8 5

Minor groove platform, major groove intercalation

260

Motif group IL_68140.4

Basepair signature:
cWW-cSH-cWW

0.00 -1682.13 8 5

Major groove minor groove platform; mini C-loop

261

Motif group IL_48076.6

Basepair signature:
cWW-cSH-cWW

0.00 -1705.43 7 6

Major groove platform

262

Motif group IL_51454.3

Basepair signature:
cWW-cSH-cWW

0.00 -1733.53 7 6

Minor groove platform

263

Motif group IL_61249.1

Basepair signature:
cWW-L-R-L-R-tHS-cWW-cWW-tSH-tHS-cWW-cWW

0.00 -3763.78 13 12

264

Motif group IL_43858.1

Basepair signature:
cWW-tSH-cSH-tWH-cSH-cHW-cWH-cWW-cWW

0.00 -3814.55 13 12

265

Motif group IL_31504.1

Basepair signature:
cWW-cWW-cWS-tSH-L-tWH-cWW-tSS-tSH-L-R-L

0.00 -4087.63 12 11

266

Motif group IL_79846.1

Basepair signature:
cWW-R-L-L-tWH-cWW-L-L-L-R-L-R-cSH-L-L

0.00 -4305.84 11 9

267

Motif group IL_13874.1

Basepair signature:
cWW-cWH-tHS-cWW-cSH-cWH-cHW-cWW

0.00 -4409.27 10 9

268

Motif group IL_03350.1

Basepair signature:
cWW-tWH-cWW-L-L-cWW-L-L-L

0.00 -4433.32 10 8

Reverse kink-turn related

269

Motif group IL_29223.1

Basepair signature:
cWW-L-R-L-cWW-cWW-cWW

0.00 -4468.37 10 9

270

Motif group IL_65594.1

Basepair signature:
cWW-L-R-tSW-tHH-cSH-tWH-tHS-cWW

0.00 -4499.13 10 8

8x7 Sarcin-Ricin; G-bulge

271

Motif group IL_84409.1

Basepair signature:
cWW-tSS-L-cWH-L-cSH-cHW-tWH-cSS-tWH-tSW-cWS-R-L-R-cSH-R-cWW-L

0.00 -4524.43 16 16

272

Motif group IL_04600.1

Basepair signature:
cWW-cWW-L-R-L-R-L-R-cWW-cWW

0.00 -4533.19 10 9

273

Motif group IL_02349.4

Basepair signature:
cWW-tSH-tWH-cSH-tWH-tHS-cWW

0.00 -4547.22 11 9

8x6 Sarcin-Ricin with bulged A; G-bulge

274

Motif group IL_55953.3

Basepair signature:
cWW-tSH-tHS-R-L-L-R-cWW

0.00 -4563.15 12 10

275

Motif group IL_04021.2

Basepair signature:
cWW-L-R-tSH-tSH-tHS-cWW-cWW

0.00 -4563.49 11 10

Triple sheared with non-canonical cWW

276

Motif group IL_04346.10

Basepair signature:
cWW-cWW-tSH-tHH-cSH-tWH-tHS-cWW

0.00 -4567.81 10 8

8x7 Sarcin-Ricin; G-bulge

277

Motif group IL_24254.1

Basepair signature:
cWW-cWW-tHH-cSH-tWH-tHS-cWW

0.00 -4629.13 10 8

7x6 Sarcin-Ricin with UU cWW pair; G-bulge

278

Motif group IL_59724.1

Basepair signature:
cWW-L-R-L-R-cSH-tWH-tHS-R-L-cWW

0.00 -4644.69 12 10

8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge

279

Motif group IL_94910.1

Basepair signature:
cWW-tSS-tSH-L-R-R-L-cWW-L

0.00 -4648.59 10 8

Kink-turn

280

Motif group IL_17765.1

Basepair signature:
cWW-tWH-cHW-L-tSS-cSS-cWW-R-L

0.00 -4656.34 9 7

281

Motif group IL_44624.1

Basepair signature:
cWW-tWH-cWW-L-cWW-tSS-cSS-cWW-L

0.00 -4659.71 10 7

282

Motif group IL_77045.1

Basepair signature:
cWW-L-tSW-L-tHW-cWW-L

0.00 -4684.13 8 7

Kink-turn

283

Motif group IL_75283.2

Basepair signature:
cWW-tSS-L-R-L-tHS-L-cWW-L-tWH-tWH-L-L-R

0.00 -4690.10 11 9

284

Motif group IL_65851.3

Basepair signature:
cWW-cWW-cWW-cWW-R-tHW-tSH-tHS-L

0.00 -4694.03 13 10

285

Motif group IL_73759.1

Basepair signature:
cWW-cSH-tHS-cWH-cHW-cWW

0.00 -4697.73 10 8

Part of G-quadruplex

286

Motif group IL_12745.1

Basepair signature:
cWW-tWH-tWH-tHW-tHW-cWW

0.00 -4716.06 12 9

tWH-tWH-tHW-tHW

287

Motif group IL_06691.1

Basepair signature:
cWW-cWS-L-R-L-R-cWW-L

0.00 -4730.79 10 8

288

Motif group IL_80926.1

Basepair signature:
cWW-cWW-tSH-tHS-L-cWW

0.00 -4734.15 10 8

289

Motif group IL_85879.1

Basepair signature:
cWW-L-R-tHW-tHW-L-R-L-R-cWW-cWW

0.00 -4749.13 13 11

290

Motif group IL_60797.1

Basepair signature:
cWW-cWW-tSH-tHW-tHW-L-R-L-cWW-cWW

0.00 -4762.70 15 13

291

Motif group IL_80604.6

Basepair signature:
cWW-cWW-tWH-tWH-tHW-tHW-cWW

0.00 -4788.11 11 9

292

Motif group IL_56455.6

Basepair signature:
cWW-tSH-tHW-L-R-L-R-L-R-tWH-tHS-cWW

0.00 -4857.75 13 11

Bacterial 5S Loop E

293

Motif group IL_28026.3

Basepair signature:
cWW-tSH-tWH-cWH-L-tHW-tSS-tHH-cWW

0.00 -4909.73 9 9

294

Motif group IL_37015.1

Basepair signature:
cWW-tSS-tSS-tHH-L-tHS-L-R-cWW-L

0.00 -4935.28 10 8

Kink-turn

295

Motif group IL_61242.1

Basepair signature:
cWW-cWW-L-R-L-R-cWW

0.00 -4936.02 11 9

296

Motif group IL_81516.2

Basepair signature:
cWW-cWS-tSH-L-tWH-cWW-tSS-tSH-L-R-L

0.00 -4937.23 10 7

297

Motif group IL_19048.1

Basepair signature:
cWW-L-R-L-R-L-cSH-L-R-cWW-cWW

0.00 -4943.47 12 11

298

Motif group IL_89099.1

Basepair signature:
cWW-L-R-L-R-L-R-L-R-cWW

0.00 -4958.81 12 9

Other IL

299

Motif group IL_32016.1

Basepair signature:
cWW-tSH-tSH-tSS-tHS-L-R-cWW

0.00 -4964.43 9 8

Kink-turn

300

Motif group IL_86012.1

Basepair signature:
cWW-tHS-tWH-cWH-cWW-L-L-cWW

0.00 -4966.75 10 10

301

Motif group IL_47346.2

Basepair signature:
cWW-tSH-L-R-tHH-tHS-cWW

0.00 -4979.77 9 7

tSH-tSH-tHH-tHS

302

Motif group IL_26307.2

Basepair signature:
cWW-tSH-tHH-cSH-tWH-tHS-cWW

0.00 -4982.53 9 8

7x6 Sarcin-Ricin; G-bulge

303

Motif group IL_17069.5

Basepair signature:
cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

0.00 -4984.87 11 10

Kink-turn related

304

Motif group IL_46174.3

Basepair signature:
cWW-cSS-tSS-tSH-L-cWW-tHW-cWW

0.00 -5005.17 9 8

Kink-turn with non-sequential stacking

305

Motif group IL_00555.1

Basepair signature:
cWW-cWS-cWW-L-R

0.00 -5027.79 10 6

306

Motif group IL_97631.1

Basepair signature:
cWW-L-R-L-R-L-tHS-cWW

0.00 -5036.96 10 7

Triple sheared related

307

Motif group IL_69986.1

Basepair signature:
cWW-cHW-L-R-L-R-cWH-cWW

0.00 -5042.51 10 10

308

Motif group IL_71294.3

Basepair signature:
cWW-L-R-L-R-L-R-L-R-cWW

0.00 -5069.34 9 8

Double sheared; A in syn; two near cWW pairs

309

Motif group IL_57188.5

Basepair signature:
cWW-tWW-L-tWW-cWW-cSH

0.00 -5094.90 8 7

Kink-turn related

310

Motif group IL_01488.3

Basepair signature:
cWW-tSS-tSH-L-R-tHS-L-cWW

0.00 -5112.95 7 6

Kink-turn

311

Motif group IL_70096.1

Basepair signature:
cWW-L-cWW-cWW

0.00 -5150.03 10 8

Kink-turn related

312

Motif group IL_88269.4

Basepair signature:
cWW-tWW-cSH-tWH-tHS-cWW

0.00 -5162.81 8 8

6x5 Sarcin-Ricin; G-bulge

313

Motif group IL_69543.3

Basepair signature:
cWW-tSH-L-R-tSS-tHS-L-R-cWW

0.00 -5174.21 10 9

314

Motif group IL_00981.1

Basepair signature:
cWW-tWH-tHH-tHS-cWW

0.00 -5352.04 9 8

UAA/GAN with tHH

315

Motif group IL_96788.1

Basepair signature:
cWW-tHW-tHS-cWW-cWW

0.00 -5454.75 11 8

316

Motif group IL_76308.6

Basepair signature:
cWW-tSH-tHW-tHS-cWW-cWW

0.00 -5561.62 10 8

tSH-tWH-tHS-cWW

317

Motif group IL_07469.2

Basepair signature:
cWW-tSH-cWW-cSH-R-cWW

0.00 -5632.18 7 7

318

Motif group IL_49767.8

Basepair signature:
cWW-cWW-tWH-L-tHS-cWW

0.00 -5689.32 9 9

UAA/GAN with extra cWW

319

Motif group IL_42032.1

Basepair signature:
cWW-cSH-cWW-tWH-L-cWW-L-L

0.00 -5739.74 8 6

320

Motif group IL_12697.1

Basepair signature:
cWW-cWW-L-R-tHS-cWW

0.00 -5841.12 9 8

321

Motif group IL_87284.1

Basepair signature:
cWW-tSH-tHW-tWH-tHS-cWW

0.00 -5851.86 9 9

tSH-tHW-tWH-tHS

322

Motif group IL_63519.1

Basepair signature:
cWW-cWW-L-R-cSH-cWW

0.00 -5857.24 11 8

323

Motif group IL_85536.2

Basepair signature:
cWW-tSH-L-R-tHS-cWW-cWW

0.00 -5923.77 10 9

324

Motif group IL_65718.4

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

0.00 -5966.73 11 7

325

Motif group IL_91920.1

Basepair signature:
cWW-cWW-tHH-cWW

0.00 -5986.03 9 7

326

Motif group IL_53448.1

Basepair signature:
cWW-tWH-cSH-cWW

0.00 -6052.83 8 7

Receptor of 11-nt loop-receptor motif

327

Motif group IL_22564.1

Basepair signature:
cWW-L-R-L-R-L-cWW

0.00 -6109.40 10 8

328

Motif group IL_62654.1

Basepair signature:
cWW-tSH-tHH-tHS-cWW

0.00 -6184.04 10 8

tSH-tHH-tHS

329

Motif group IL_67767.4

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

0.00 -6218.42 8 7

Receptor of 11-nt loop-receptor motif

330

Motif group IL_96236.1

Basepair signature:
cWW-tWW-cWW-L-cWW

0.00 -6315.56 11 10

331

Motif group IL_97273.1

Basepair signature:
cWW-tSH-cWW-L-cWW-L

0.00 -6359.21 10 7

332

Motif group IL_24134.1

Basepair signature:
cWW-tSS-L-R-L-tHS-L-cWW-L-L

0.00 -6561.70 9 6

Kink-turn

333

Motif group IL_06136.2

Basepair signature:
cWW-tHS-cWW-tHS-tSH-tSH-cWW

0.00 -6594.94 11 9

Quadruple sheared

334

Motif group IL_01994.1

Basepair signature:
cWW-cWH-tHS-cWW-cSH-cWW

0.00 -6600.87 10 7

335

Motif group IL_26222.2

Basepair signature:
cWW-cWS-cSH-tWH-R-L-R-cWW

0.00 -7028.93 10 6

C-loop with bulged stacked A's

336

Motif group IL_94684.1

Basepair signature:
cWW-tWH-R-L-cWW-L-L

0.00 -7095.90 6 6

337

Motif group IL_38634.5

Basepair signature:
cWW-cWH-L-R-cWW

0.00 -7129.68 10 8

cWH basepair and non-canonical AC

338

Motif group IL_58103.11

Basepair signature:
cWW-cSH-cWS-L-tSW-R-R-cWW

0.00 -7159.03 11 9

Symmetric double minor groove platform

339

Motif group IL_33323.1

Basepair signature:
cWW-L-R-L-cWW-L-L

0.00 -7181.51 7 5

340

Motif group IL_38507.2

Basepair signature:
cWW-tWH-L-tHS-cWW

0.00 -7196.25 8 7

UAA/GAN

341

Motif group IL_22373.1

Basepair signature:
cWW-L-R-cSH-cSH-cWW

0.00 -7303.44 11 8

8-nt loop receptor

342

Motif group IL_28564.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -7308.74 9 8

343

Motif group IL_13404.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -7327.31 10 8

Tandem non-canonical cWW pairs

344

Motif group IL_61440.1

Basepair signature:
cWW-tSH-tHS-tWS-cWW

0.00 -7339.50 9 8

Triple sheared

345

Motif group IL_25573.1

Basepair signature:
cWW-tSW-L-cWW-L-L

0.00 -7362.25 10 6

346

Motif group IL_68574.4

Basepair signature:
cWW-tHH-tHS-cWW

0.00 -7473.10 8 7

347

Motif group IL_96759.1

Basepair signature:
cWW-tSH-tWW-cWW

0.00 -7701.53 9 8

348

Motif group IL_10484.1

Basepair signature:
cWW-tSH-tHS-cWW

0.00 -7782.84 8 7

Double sheared

349

Motif group IL_17948.2

Basepair signature:
cWW-L-R-tSH-tHS-cWW

0.00 -7803.61 9 8

Double sheared with non-canonical cWW

350

Motif group IL_61299.4

Basepair signature:
cWW-L-R-L-cWW-L-L

0.00 -8066.63 7 6

351

Motif group IL_38862.4

Basepair signature:
cWW-cSH-R-tWH-tHS-cWW

0.00 -8135.08 8 8

5x5 Sarcin-Ricin with intercalated A; G-bulge

352

Motif group IL_17136.7

Basepair signature:
cWW-tSH-tHW-tHS-cWW

0.00 -8307.84 9 9

tSH-tWH-tHS

353

Motif group IL_07039.3

Basepair signature:
cWW-L-cWW

0.00 -8346.72 8 7

Major groove platform

354

Motif group IL_78800.1

Basepair signature:
cWW-cSH-L-cWW

0.00 -8369.81 10 9

355

Motif group IL_02203.1

Basepair signature:
cWW-cSW-cWW-cWW

0.00 -8433.08 11 9

356

Motif group IL_43644.1

Basepair signature:
cWW-cWW-L-R-cWW

0.00 -8442.88 12 9

Other IL

357

Motif group IL_49751.4

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

0.00 -8451.26 9 8

Triple non-canonical cWW pairs

358

Motif group IL_99646.2

Basepair signature:
cWW-tWH-tHS-cWW

0.00 -8459.04 8 7

tSH-tHW

359

Motif group IL_04785.1

Basepair signature:
cWW-L-R-L-R-cWW

0.00 -8502.88 9 7

360

Motif group IL_63596.11

Basepair signature:
cWW-cWS-cSH-tWH-cWW-L

0.00 -8718.47 8 6

C-loop

361

Motif group IL_84251.1

Basepair signature:
cWW-L-tHS-cWW

0.00 -8765.81 9 7

362

Motif group IL_50730.2

Basepair signature:
cWW-tSH-tHS-tHS-cWW

0.00 -8946.99 8 8

Triple sheared

363

Motif group IL_77658.1

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -9016.48 9 8

Tandem non-canonical cWW pairs

364

Motif group IL_77691.5

Basepair signature:
cWW-tSH-L-R-L-cWW

0.00 -9080.83 7 7

UAA/GAN related

365

Motif group IL_23774.1

Basepair signature:
cWW-L-R-L-tHS-cWW

0.00 -9368.11 8 7

UAA/GAN variation

366

Motif group IL_58112.2

Basepair signature:
cWW-cWW-L-R-cWW

0.00 -9413.40 10 7

367

Motif group IL_61438.4

Basepair signature:
cWW-L-cWW

0.00 -9466.36 9 7

368

Motif group IL_41344.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -9486.10 8 7

369

Motif group IL_09990.4

Basepair signature:
cWW-L-R-L-cWW

0.00 -9526.57 11 8

370

Motif group IL_51479.1

Basepair signature:
cWW-L-R-L-cWW

0.00 -9572.81 10 8

371

Motif group IL_09705.15

Basepair signature:
cWW-tSH-tHS-cWW

0.00 -9618.23 8 8

Double sheared

372

Motif group IL_06549.2

Basepair signature:
cWW-cWW

0.00 -9657.39 9 7

373

Motif group IL_85033.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -9812.99 9 8

Tandem non-canonical cWW pairs

374

Motif group IL_25872.4

Basepair signature:
cWW-cWW-cWH-cWW

0.00 -9834.90 10 8

375

Motif group IL_00225.13

Basepair signature:
cWW-L-cWW

0.00 -9999.00 7 7

Single bulged G

376

Motif group IL_02555.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 6 6

Major groove platform with intercalation

377

Motif group IL_03109.3

Basepair signature:
cWW-cWS-tWH-cWW-L

0.00 -9999.00 8 5

C-loop

378

Motif group IL_07785.1

Basepair signature:
cWW-cWW-cWW

0.00 -9999.00 9 7

Isolated non-canonical cWW pair

379

Motif group IL_10167.6

Basepair signature:
cWW-cHW-cWW

0.00 -9999.00 8 8

Isolated cWH basepair

380

Motif group IL_10569.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 8 7

381

Motif group IL_10796.1

Basepair signature:
cWW-L-R-cWW

0.00 -9999.00 9 8

382

Motif group IL_14688.1

Basepair signature:
cWW-cWW-cWW

0.00 -9999.00 9 7

Isolated non-canonical cWW pair

383

Motif group IL_16386.4

Basepair signature:
cWW-L-cWW

0.00 -9999.00 9 7

384

Motif group IL_26793.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 8 7

Single stack bend

385

Motif group IL_28037.2

Basepair signature:
cWW-cWW-cWW

0.00 -9999.00 8 8

Isolated non-canonical cWW pair

386

Motif group IL_31462.6

Basepair signature:
cWW-L-cWW

0.00 -9999.00 7 7

Single bulged A

387

Motif group IL_31737.3

Basepair signature:
cWW-L-cWW

0.00 -9999.00 8 7

Stack and bulge

388

Motif group IL_33761.2

Basepair signature:
cWW-L-cWW

0.00 -9999.00 9 6

389

Motif group IL_36516.3

Basepair signature:
cWW-cWW-cSH-cWW-L

0.00 -9999.00 8 7

390

Motif group IL_42626.2

Basepair signature:
cWW-cWW

0.00 -9999.00 7 5

391

Motif group IL_42771.1

Basepair signature:
cWW-cWW

0.00 -9999.00 8 7

Multiple bulged bases

392

Motif group IL_42997.3

Basepair signature:
cWW-L-R-cWW

0.00 -9999.00 8 8

Isolated cWS basepair

393

Motif group IL_44465.1

Basepair signature:
cWW-L-R-cWW

0.00 -9999.00 8 7

Isolated non-canonical cWW contact

394

Motif group IL_47078.3

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

0.00 -9999.00 9 6

Minor groove platform

395

Motif group IL_50694.7

Basepair signature:
cWW-tSH-cWW-L

0.00 -9999.00 7 6

Major groove platform; stack outside cWW

396

Motif group IL_56987.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 9 6

397

Motif group IL_57744.1

Basepair signature:
cWW-cWW-cWW

0.00 -9999.00 8 8

Isolated non-canonical cWW pair

398

Motif group IL_59877.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 8 7

399

Motif group IL_61258.15

Basepair signature:
cWW-L-cWW

0.00 -9999.00 8 7

Single bulged C

400

Motif group IL_63775.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 10 7

401

Motif group IL_67095.2

Basepair signature:
cWW-tWW-cWW

0.00 -9999.00 8 7

Isolated tWW turn

402

Motif group IL_81831.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 7 6

Intercalated cWS

403

Motif group IL_82107.4

Basepair signature:
cWW-cWW

0.00 -9999.00 7 6

Multiple bulged bases

404

Motif group IL_83150.2

Basepair signature:
cWW-tHH-cWW-L-L

0.00 -9999.00 9 6

405

Motif group IL_83389.2

Basepair signature:
cWW-cWW

0.00 -9999.00 10 7

406

Motif group IL_84476.1

Basepair signature:
cWW-cWW

0.00 -9999.00 9 6

Multiple bulged bases

407

Motif group IL_85599.2

Basepair signature:
cWW-tHS-cWW

0.00 -9999.00 7 7

Isolated tHS basepair with bulges

408

Motif group IL_87907.2

Basepair signature:
cWW-cWW-cWW

0.00 -9999.00 8 7

Isolated non-canonical cWW pair

409

Motif group IL_89505.4

Basepair signature:
cWW-L-cWW

0.00 -9999.00 7 7

Single bulged U

410

Motif group IL_90729.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 8 7

Single stack bend

411

Motif group IL_96371.1

Basepair signature:
cWW-tHH-cWW

0.00 -9999.00 8 7

Coloring options: