RNA 3D Hub

JAR3D Query RF03087-CCF-3.98 completed
Run on Motif Atlas Version using the Rfam secondary structure. Run with the CaCoFold secondary structure.

Rfam family RF03087 maps to these 30 chains: 9ISV|1|A, 9J3R|1|A, 9J3R|1|B, 9J3R|1|C, 9J3R|1|D, 9J3T|1|A, 9J3T|1|B, 9J3T|1|C, 9J3T|1|D, 9J3T|1|E, 9J3T|1|F, 9J3T|1|G, 9J3T|1|H, 9MM6|1|A, 9MM6|1|E, 9MM6|1|I, 9MM6|1|M, 9MM6|1|Q, 9MM6|1|U, 9MM6|1|Y, 9MM6|1|c, 9MME|1|U, 9MME|1|Y, 9MME|1|c, 9MME|1|g, 9MME|1|k, 9MME|1|o, 9MME|1|s, 9MME|1|w, 9MMG|1|c See more about them at RNA 3D Hub by filtering on the chain or the Rfam family.

Loop 1 Internal loop

Column numbers: 29-44, 72-73 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    G-UGA--------AGA*GC  108

    
    G-UGC--------AGA*GC   32

    
    G-UGU--------AGA*GC   23

    
    G-UGU--------AUG*UC    8

    
    C-UGA--------AGA*GG    7

    
    G-UGC--------ACU*UC    5

    
    G-UGG--------AGA*GC    4

    
    G-UGA--------AGU*GC    3

    
    G-UGU--------AU-*UC    3

    
    U-UGG--------AAA*GG    2

    
    UCUGU--------AA-*GA    2

    
    C-UGU--------AA-*AG    2

    
    G-UAA--------CC-*GC    2

    
    G-UGU--------AG-*GC    2

    
    A-UGC--------ACA*UU    1

    
    A-UGU--------AUG*GU    1

    
    G-UGA--------AUA*AC    1

    
    G-UGA--------AUA*UC    1

    
    G-UGC--------AUA*UC    1

    
    G-UGC--------AUG*GC    1

    
    G-UGC--------CAA*UC    1

    
    G-UGG--------AUA*CC    1

    
    G-UGU--------AUA*GC    1

    
    G-UGU--------AUA*UC    1

    
    G-UGU--------AUG*GC    1

    
    G-UUA--------AGA*GC    1

    
    G-UUG--------AAG*UC    1

    
    UCUGU--------AA-*GG    1

    
    Omitted sequenced and counts

    
    A-UGA--------ACA*-U    8

    
    G-UGA--------AUA*-C    7

    
    G-UGUGAGAAAUCGAA*-C    5

    
    G-UGA--------AAA*-C    5

    
    G-UGC--------AUA*-C    4

    
    A-UGA--------AAA*G-    3

    
    A-UGU--------AUA*-U    3

    
    G-UGUGCGAAAGCGAA*-C    2

    
    G-UCA--------UAA*-C    2

    
    G-UGA--------ACA*-C    2

    
    G-UGA--------AUG*-C    2

    
    G-UGC--------AGA*-C    2

    
    G-UGU--------AGA*-C    2

    
    G-UGU--------AUA*-C    2

    
    G-UUA--------UAA*-C    2

    
    U-UGG--------AAA*-G    2

    
    A-UGA--------AA-*-U    2

    
    G-UGG--------AU-*-C    2

    
    A-UGA--------AAG*-U    1

    
    A-UGA--------CAG*-U    1

    
    A-UGC--------ACA*-U    1

    
    G-UGA--------AGA*-C    1

    
    G-UGC--------ACA*-C    1

    
    G-UGC--------ACU*-C    1

    
    G-UGC--------UAA*-C    1

    
    G-UGU--------AAA*-C    1

    
    G-UUA--------AAA*-C    1

    
    G-UUA--------GAA*-C    1

    
    G-UUA--------UUA*-C    1

    
    U-UGA--------UAA*-G    1

    
    U-UUG--------UAA*-A    1

    
    A-UAA--------UU-*-U    1

    
    G-UGA--------AG-*-C    1

    
    G-UGG--------AG-*-C    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_53596.1

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

2.76 -24.77 5 3

2

Motif group IL_38186.6

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

1.38 -26.56 3 2

3

Motif group IL_46086.1

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

1.38 -35.40 7 4

4

Motif group IL_33711.1

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

0.46 -49.68 6 4

Minor groove platform

5

Motif group IL_27393.10

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

0.46 -76.02 7 5

6

Motif group IL_21173.1

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

0.00 -36.42 4 3

7

Motif group IL_51191.1

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

0.00 -39.99 8 4

8

Motif group IL_25412.1

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

0.00 -41.99 8 4

Major groove intercalation

9

Motif group IL_82706.1

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

0.00 -56.44 8 5

10

Motif group IL_55917.1

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

0.00 -56.60 8 5

11

Motif group IL_99380.1

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

0.00 -56.65 6 3

12

Motif group IL_37603.1

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

0.00 -58.74 8 5

13

Motif group IL_26598.1

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

0.00 -71.96 5 4

14

Motif group IL_74957.1

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

0.00 -72.18 7 4

cWH basepair with bulged bases

15

Motif group IL_82968.1

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

0.00 -76.79 6 4

16

Motif group IL_58960.1

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

0.00 -78.22 7 4

17

Motif group IL_74184.1

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

0.00 -78.61 7 5

18

Motif group IL_90346.1

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

0.00 -78.91 6 3

19

Motif group IL_41203.4

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

0.00 -83.67 6 4

SSU/LSU pseudoknot

20

Motif group IL_95811.1

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

0.00 -84.23 7 5

Vitamin B12 Aptamer

21

Motif group IL_64842.1

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

0.00 -84.83 8 6

22

Motif group IL_43140.1

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

0.00 -85.52 9 6

23

Motif group IL_86136.1

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

0.00 -85.54 7 5

24

Motif group IL_87211.1

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

0.00 -88.06 7 4

25

Motif group IL_07173.1

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

0.00 -88.45 6 4

26

Motif group IL_19897.3

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

0.00 -88.65 8 5

27

Motif group IL_64048.1

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

0.00 -91.66 7 4

28

Motif group IL_92634.2

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

0.00 -92.20 7 3

29

Motif group IL_46112.1

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

0.00 -93.57 9 6

30

Motif group IL_88017.1

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

0.00 -96.26 5 5

31

Motif group IL_70376.1

Basepair signature:
cWW-L-cWW-L

0.00 -96.62 6 4

32

Motif group IL_18354.1

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

0.00 -97.84 7 5

33

Motif group IL_85498.1

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

0.00 -100.74 7 6

34

Motif group IL_09570.1

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

0.00 -101.36 8 7

35

Motif group IL_88974.1

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

0.00 -101.39 8 6

36

Motif group IL_88082.1

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

0.00 -101.66 4 4

37

Motif group IL_54896.1

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

0.00 -102.15 7 6

38

Motif group IL_26685.1

Basepair signature:
cWW-L-cWW-L

0.00 -102.92 5 2

Multiple bulged bases

39

Motif group IL_85222.1

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

0.00 -103.96 8 7

40

Motif group IL_30730.1

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

0.00 -104.73 9 5

41

Motif group IL_24499.1

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

0.00 -105.88 9 5

42

Motif group IL_25573.1

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

0.00 -109.01 5 4

43

Motif group IL_49714.1

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

0.00 -110.00 5 5

Major groove intercalation

44

Motif group IL_91636.1

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

0.00 -110.94 5 4

45

Motif group IL_47087.1

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

0.00 -111.33 5 5

Kink-turn related

46

Motif group IL_38969.1

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

0.00 -111.52 10 7

Reverse kink-turn related

47

Motif group IL_43622.1

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

0.00 -111.97 5 2

48

Motif group IL_41853.1

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

0.00 -113.17 7 5

49

Motif group IL_91592.1

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

0.00 -114.28 7 5

50

Motif group IL_14177.2

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

0.00 -114.56 7 4

51

Motif group IL_80412.1

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

0.00 -116.21 10 8

52

Motif group IL_56317.1

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

0.00 -121.55 6 5

53

Motif group IL_94684.1

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

0.00 -121.75 6 3

54

Motif group IL_49612.1

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

0.00 -122.10 6 5

55

Motif group IL_11344.2

Basepair signature:
cWW-cSS-L-cWW

0.00 -122.70 7 4

180 degree turn

56

Motif group IL_15218.1

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

0.00 -123.93 9 6

57

Motif group IL_04650.2

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

0.00 -123.97 10 6

58

Motif group IL_59302.1

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

0.00 -125.05 6 4

59

Motif group IL_98347.1

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

0.00 -126.21 5 4

60

Motif group IL_25463.1

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

0.00 -126.68 7 4

61

Motif group IL_69271.3

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

0.00 -128.49 9 6

62

Motif group IL_69145.3

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

0.00 -128.60 7 5

Pseudoknot

63

Motif group IL_29346.2

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

0.00 -133.45 4 3

Left turn

64

Motif group IL_69000.1

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

0.00 -134.16 5 4

65

Motif group IL_61299.4

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

0.00 -135.22 5 3

66

Motif group IL_05192.4

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

0.00 -137.85 7 4

67

Motif group IL_12566.4

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

0.00 -138.22 4 3

68

Motif group IL_88072.1

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

0.00 -138.85 9 7

69

Motif group IL_33623.1

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

0.00 -138.89 8 6

70

Motif group IL_81522.2

Basepair signature:
cWW-L-L-cWW

0.00 -140.27 5 3

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

71

Motif group IL_34737.1

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

0.00 -142.60 8 5

72

Motif group IL_76758.2

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

0.00 -142.87 8 5

Intercalated tWH

73

Motif group IL_70096.1

Basepair signature:
cWW-L-cWW-cWW

0.00 -142.92 8 5

Kink-turn related

74

Motif group IL_80209.1

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

0.00 -144.02 8 7

75

Motif group IL_73789.1

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

0.00 -144.27 7 4

76

Motif group IL_07171.1

Basepair signature:
cWW-L-cWW-L

0.00 -144.75 7 4

Bulged stacked bases

77

Motif group IL_31084.1

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

0.00 -145.95 9 6

78

Motif group IL_45444.1

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

0.00 -147.35 7 4

79

Motif group IL_47108.1

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

0.00 -149.07 7 4

80

Motif group IL_89312.1

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

0.00 -154.35 8 6

81

Motif group IL_97697.1

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

0.00 -156.65 9 6

Reverse turn

82

Motif group IL_73452.2

Basepair signature:
cWW-L-cWW

0.00 -158.29 5 3

83

Motif group IL_78472.1

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

0.00 -159.82 7 7

84

Motif group IL_53787.1

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

0.00 -160.19 11 7

Pseudoknot

85

Motif group IL_18472.4

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

0.00 -161.56 6 5

86

Motif group IL_89984.3

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

0.00 -162.29 5 4

87

Motif group IL_13358.1

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

0.00 -164.91 10 8

88

Motif group IL_94967.1

Basepair signature:
cWW-L-cWW-L

0.00 -166.28 5 4

89

Motif group IL_74051.1

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

0.00 -166.81 6 5

Kink-turn

90

Motif group IL_19668.1

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

0.00 -167.58 6 3

Isolated non-canonical cWW pair

91

Motif group IL_42778.1

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

0.00 -167.89 8 7

92

Motif group IL_33141.1

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

0.00 -168.18 9 6

93

Motif group IL_28788.1

Basepair signature:
cWW-L-R-cWW

0.00 -169.23 7 4

94

Motif group IL_47074.2

Basepair signature:
cWW-L-cWW-L

0.00 -169.39 5 3

95

Motif group IL_03350.1

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

0.00 -172.69 10 7

Reverse kink-turn related

96

Motif group IL_84665.1

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

0.00 -174.89 11 8

97

Motif group IL_59258.1

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

0.00 -175.59 6 5

98

Motif group IL_44874.1

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

0.00 -175.70 8 5

tSH-tHW

99

Motif group IL_47972.1

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

0.00 -175.90 7 4

100

Motif group IL_70335.1

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

0.00 -176.64 8 6

101

Motif group IL_85652.1

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

0.00 -177.31 9 6

102

Motif group IL_64403.1

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

0.00 -177.83 10 7

103

Motif group IL_82683.2

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

0.00 -178.13 8 5

104

Motif group IL_16665.1

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

0.00 -178.84 10 9

105

Motif group IL_54050.1

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

0.00 -179.51 12 9

106

Motif group IL_20031.1

Basepair signature:
cWW-L-cWW-L

0.00 -181.13 5 4

107

Motif group IL_00881.1

Basepair signature:
cWW-L-cWW-L

0.00 -183.70 6 3

108

Motif group IL_22829.2

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

0.00 -186.50 6 5

109

Motif group IL_29471.1

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

0.00 -186.83 5 3

110

Motif group IL_14368.1

Basepair signature:
cWW-L-cWW-cSH

0.00 -187.57 6 3

Major groove platform with intercalated tWH

111

Motif group IL_77870.1

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

0.00 -187.99 8 5

112

Motif group IL_96332.5

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

0.00 -188.48 6 5

113

Motif group IL_00555.1

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

0.00 -190.52 5 2

114

Motif group IL_25186.4

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

0.00 -191.24 7 5

115

Motif group IL_11415.1

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

0.00 -191.42 7 5

116

Motif group IL_95570.1

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

0.00 -193.10 6 4

117

Motif group IL_97273.1

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

0.00 -193.13 5 4

118

Motif group IL_99498.1

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

0.00 -193.69 8 6

119

Motif group IL_44438.1

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

0.00 -193.74 8 7

120

Motif group IL_70627.3

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

0.00 -193.83 7 6

UAA/GAN related

121

Motif group IL_33323.1

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

0.00 -193.96 6 3

122

Motif group IL_21001.1

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

0.00 -194.54 8 6

123

Motif group IL_09908.1

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

0.00 -194.88 8 5

Reverse kink-turn

124

Motif group IL_85630.1

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

0.00 -195.78 11 9

125

Motif group IL_44325.1

Basepair signature:
cWW-cWH-cWW-L

0.00 -195.95 6 5

126

Motif group IL_57881.1

Basepair signature:
cWW-L-cWW

0.00 -195.98 8 5

Multiple bulged bases

127

Motif group IL_60657.1

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

0.00 -197.66 11 9

128

Motif group IL_10389.1

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

0.00 -198.84 5 4

129

Motif group IL_78349.3

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

0.00 -199.35 8 7

130

Motif group IL_66635.5

Basepair signature:
cWW-L-cWW

0.00 -202.06 4 3

Major groove intercalation

131

Motif group IL_54041.2

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

0.00 -203.87 6 5

tHW-tHW cross-strand stack

132

Motif group IL_69440.3

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

0.00 -204.44 6 3

133

Motif group IL_54177.4

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

0.00 -204.57 10 9

134

Motif group IL_82741.2

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

0.00 -206.12 8 4

135

Motif group IL_52743.1

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

0.00 -206.45 4 3

136

Motif group IL_69229.3

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

0.00 -206.61 7 6

Kink-turn

137

Motif group IL_32056.1

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

0.00 -208.20 6 5

138

Motif group IL_74746.1

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

0.00 -209.56 12 9

139

Motif group IL_21667.1

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

0.00 -209.74 8 6

140

Motif group IL_42314.1

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

0.00 -211.74 5 4

141

Motif group IL_77278.1

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

0.00 -212.59 10 8

142

Motif group IL_31915.1

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

0.00 -213.16 10 10

143

Motif group IL_56987.1

Basepair signature:
cWW-L-cWW

0.00 -215.68 4 3

144

Motif group IL_15052.4

Basepair signature:
cWW-L-cWW-L

0.00 -216.12 4 3

Minor groove platform

145

Motif group IL_84476.1

Basepair signature:
cWW-cWW

0.00 -218.85 5 3

Multiple bulged bases

146

Motif group IL_42626.2

Basepair signature:
cWW-cWW

0.00 -219.88 5 2

147

Motif group IL_81831.1

Basepair signature:
cWW-L-cWW

0.00 -220.64 5 3

Intercalated cWS

148

Motif group IL_66997.2

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

0.00 -222.33 5 4

149

Motif group IL_76319.5

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

0.00 -223.29 7 4

150

Motif group IL_75294.1

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

0.00 -223.45 6 4

151

Motif group IL_01994.1

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

0.00 -223.58 5 4

152

Motif group IL_31561.1

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

0.00 -226.30 9 8

153

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 -227.06 13 12

Kink-turn related

154

Motif group IL_68140.4

Basepair signature:
cWW-cSH-cWW

0.00 -227.10 4 3

Major groove minor groove platform; mini C-loop

155

Motif group IL_47078.3

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

0.00 -228.67 6 4

Minor groove platform

156

Motif group IL_31558.1

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

0.00 -229.12 6 4

157

Motif group IL_49061.1

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

0.00 -229.80 4 3

158

Motif group IL_33761.2

Basepair signature:
cWW-L-cWW

0.00 -230.56 5 3

159

Motif group IL_67623.1

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

0.00 -230.74 10 9

Minor groove platform related

160

Motif group IL_05472.1

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

0.00 -232.85 11 9

161

Motif group IL_73759.1

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

0.00 -233.84 7 6

Part of G-quadruplex

162

Motif group IL_73002.1

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

0.00 -233.89 13 12

163

Motif group IL_18487.1

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

0.00 -234.14 7 7

164

Motif group IL_04638.3

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

0.00 -235.08 7 7

tSH-tHS-tHW

165

Motif group IL_20047.1

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

0.00 -235.74 9 8

166

Motif group IL_22551.4

Basepair signature:
cWW-L-cWW-L

0.00 -235.90 5 4

167

Motif group IL_94351.1

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

0.00 -237.08 7 6

168

Motif group IL_06549.2

Basepair signature:
cWW-cWW

0.00 -238.04 6 4

169

Motif group IL_16458.4

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

0.00 -239.46 9 7

Sarcin-Ricin target in LSU H95; G-bulge

170

Motif group IL_82426.6

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

0.00 -239.98 10 8

171

Motif group IL_04307.1

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

0.00 -241.81 14 11

172

Motif group IL_73355.1

Basepair signature:
cWW-L-cWW-L

0.00 -242.30 6 3

173

Motif group IL_61286.1

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

0.00 -242.63 11 8

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

174

Motif group IL_26728.3

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

0.00 -242.79 7 6

175

Motif group IL_81392.1

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

0.00 -244.25 16 13

176

Motif group IL_91698.1

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

0.00 -246.13 10 9

177

Motif group IL_37752.1

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

0.00 -246.73 11 9

178

Motif group IL_02555.1

Basepair signature:
cWW-L-cWW

0.00 -247.16 5 3

Major groove platform with intercalation

179

Motif group IL_22854.4

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

0.00 -248.07 8 7

180

Motif group IL_09044.1

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

0.00 -249.87 8 6

181

Motif group IL_06300.1

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

0.00 -250.82 7 5

182

Motif group IL_79895.1

Basepair signature:
cWW-L-cWW-L

0.00 -251.43 5 4

183

Motif group IL_81731.1

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

0.00 -253.60 9 9

184

Motif group IL_04736.1

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

0.00 -253.76 10 9

185

Motif group IL_28304.1

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

0.00 -256.52 13 11

186

Motif group IL_33886.1

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

0.00 -257.23 9 6

Kink-turn with embedded cWW pair

187

Motif group IL_01038.1

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

0.00 -258.98 6 5

UAA/GAN with extra stack

188

Motif group IL_51265.3

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

0.00 -259.27 7 5

Kink-turn from U4

189

Motif group IL_68405.1

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

0.00 -261.05 9 7

Kink-turn related

190

Motif group IL_17973.1

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

0.00 -261.60 14 13

191

Motif group IL_95583.2

Basepair signature:
cWW-L-cWW

0.00 -263.03 4 3

Minor groove platform, major groove intercalation

192

Motif group IL_16218.2

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

0.00 -263.78 6 5

193

Motif group IL_88116.2

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

0.00 -265.82 8 8

194

Motif group IL_29223.1

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

0.00 -266.00 9 6

195

Motif group IL_76709.2

Basepair signature:
cWW-L-cWW-L

0.00 -267.73 4 3

196

Motif group IL_43467.1

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

0.00 -268.20 14 13

Pseudoknot

197

Motif group IL_53448.1

Basepair signature:
cWW-tWH-cSH-cWW

0.00 -268.46 7 4

Receptor of 11-nt loop-receptor motif

198

Motif group IL_91920.1

Basepair signature:
cWW-cWW-tHH-cWW

0.00 -269.16 5 4

199

Motif group IL_42231.1

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

0.00 -269.39 11 10

200

Motif group IL_59049.1

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

0.00 -272.59 11 11

201

Motif group IL_62012.1

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

0.00 -273.77 6 5

Decoding loop related

202

Motif group IL_11399.2

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

0.00 -273.98 6 5

203

Motif group IL_70411.2

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

0.00 -274.47 7 5

204

Motif group IL_70923.9

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

0.00 -274.86 6 6

Kink-turn

205

Motif group IL_71598.1

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

0.00 -276.88 5 4

206

Motif group IL_61242.1

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

0.00 -277.00 8 6

207

Motif group IL_08770.1

Basepair signature:
cWW-L-R-cWW

0.00 -278.18 5 4

208

Motif group IL_04073.1

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

0.00 -278.57 14 12

209

Motif group IL_70801.1

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

0.00 -278.75 11 8

210

Motif group IL_58350.1

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

0.00 -280.85 10 9

211

Motif group IL_01176.1

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

0.00 -281.35 11 7

212

Motif group IL_07039.3

Basepair signature:
cWW-L-cWW

0.00 -281.99 6 4

Major groove platform

213

Motif group IL_06029.1

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

0.00 -283.83 15 14

Kink-turn

214

Motif group IL_42032.1

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

0.00 -284.68 5 5

215

Motif group IL_74367.1

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

0.00 -285.49 7 7

216

Motif group IL_48076.6

Basepair signature:
cWW-cSH-cWW

0.00 -286.19 4 3

Major groove platform

217

Motif group IL_80231.1

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

0.00 -286.47 6 5

Other IL

218

Motif group IL_21200.1

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

0.00 -287.29 8 5

tSH-tHW

219

Motif group IL_97631.1

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

0.00 -288.40 7 5

Triple sheared related

220

Motif group IL_30441.1

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

0.00 -288.44 11 9

221

Motif group IL_36729.1

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

0.00 -288.45 11 11

222

Motif group IL_23038.1

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

0.00 -292.42 10 8

223

Motif group IL_96303.1

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

0.00 -294.36 11 9

224

Motif group IL_65718.4

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

0.00 -296.07 5 4

225

Motif group IL_60448.1

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

0.00 -297.84 13 13

226

Motif group IL_19102.1

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

0.00 -298.74 7 5

227

Motif group IL_61341.1

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

0.00 -300.04 6 3

228

Motif group IL_09129.2

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

0.00 -300.74 10 8

229

Motif group IL_55516.2

Basepair signature:
cWW-cWW-cSH-cWW

0.00 -301.22 3 3

230

Motif group IL_82292.1

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

0.00 -301.91 8 7

231

Motif group IL_21630.1

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

0.00 -303.24 12 11

232

Motif group IL_66798.2

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

0.00 -304.84 7 5

AAA cross-strand stack

233

Motif group IL_15698.3

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

0.00 -306.70 5 4

234

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 -307.01 13 11

235

Motif group IL_82107.4

Basepair signature:
cWW-cWW

0.00 -307.27 5 3

Multiple bulged bases

236

Motif group IL_88269.4

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

0.00 -307.92 8 6

6x5 Sarcin-Ricin; G-bulge

237

Motif group IL_61438.4

Basepair signature:
cWW-L-cWW

0.00 -309.33 6 4

238

Motif group IL_90351.1

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

0.00 -310.26 5 4

239

Motif group IL_19516.1

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

0.00 -310.68 12 12

Pseudoknot

240

Motif group IL_00981.1

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

0.00 -312.27 5 4

UAA/GAN with tHH

241

Motif group IL_57188.5

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

0.00 -312.61 9 5

Kink-turn related

242

Motif group IL_61476.2

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

0.00 -312.64 6 3

243

Motif group IL_64900.1

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

0.00 -315.85 10 8

Kink-turn

244

Motif group IL_58126.1

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

0.00 -317.21 10 8

245

Motif group IL_31737.3

Basepair signature:
cWW-L-cWW

0.00 -319.89 5 4

Stack and bulge

246

Motif group IL_73700.1

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

0.00 -320.42 11 10

247

Motif group IL_49971.1

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

0.00 -325.05 9 6

248

Motif group IL_46387.1

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

0.00 -325.75 5 4

249

Motif group IL_99358.1

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

0.00 -326.65 5 4

250

Motif group IL_55953.3

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

0.00 -326.80 8 7

251

Motif group IL_51454.3

Basepair signature:
cWW-cSH-cWW

0.00 -327.91 5 4

Minor groove platform

252

Motif group IL_67780.1

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

0.00 -328.45 10 7

253

Motif group IL_34822.1

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

0.00 -330.00 9 6

254

Motif group IL_49867.1

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

0.00 -332.06 12 10

255

Motif group IL_41756.4

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

0.00 -333.24 9 8

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

256

Motif group IL_80926.1

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

0.00 -333.29 6 6

257

Motif group IL_20463.1

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

0.00 -333.54 12 10

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

258

Motif group IL_90729.1

Basepair signature:
cWW-L-cWW

0.00 -333.81 5 4

Single stack bend

259

Motif group IL_63519.1

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

0.00 -336.08 7 6

260

Motif group IL_50694.7

Basepair signature:
cWW-tSH-cWW-L

0.00 -336.73 4 3

Major groove platform; stack outside cWW

261

Motif group IL_24254.1

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

0.00 -338.74 10 7

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

262

Motif group IL_71294.3

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

0.00 -338.78 7 6

Double sheared; A in syn; two near cWW pairs

263

Motif group IL_68243.1

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

0.00 -339.24 11 9

264

Motif group IL_43547.1

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

0.00 -340.17 12 11

10x8 Sarcin-Ricin; G-bulge

265

Motif group IL_48444.6

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

0.00 -340.71 6 4

266

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 -342.44 16 16

267

Motif group IL_04600.1

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

0.00 -343.67 9 7

268

Motif group IL_28564.1

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

0.00 -344.54 6 5

269

Motif group IL_12745.1

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

0.00 -345.84 8 7

tWH-tWH-tHW-tHW

270

Motif group IL_45896.1

Basepair signature:
cWW-cWW-cWW

0.00 -346.33 17 14

271

Motif group IL_13874.1

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

0.00 -348.05 9 7

272

Motif group IL_84694.2

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

0.00 -349.90 11 10

tSH-tHW-tHH-tHS

273

Motif group IL_44465.1

Basepair signature:
cWW-L-R-cWW

0.00 -350.94 4 4

Isolated non-canonical cWW contact

274

Motif group IL_31531.3

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

0.00 -351.59 5 4

Decoding loop related

275

Motif group IL_59877.1

Basepair signature:
cWW-L-cWW

0.00 -351.78 5 4

276

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 -352.21 15 14

277

Motif group IL_51387.2

Basepair signature:
cWW-cSH-cWW-cWW

0.00 -352.83 6 4

278

Motif group IL_02349.4

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

0.00 -353.05 8 8

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

279

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 -356.44 13 11

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

280

Motif group IL_12697.1

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

0.00 -359.55 7 6

281

Motif group IL_96759.1

Basepair signature:
cWW-tSH-tWW-cWW

0.00 -361.54 8 5

282

Motif group IL_47346.2

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

0.00 -362.20 7 7

tSH-tSH-tHH-tHS

283

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 -363.10 17 16

284

Motif group IL_26793.1

Basepair signature:
cWW-L-cWW

0.00 -365.72 5 4

Single stack bend

285

Motif group IL_04021.2

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

0.00 -366.76 8 7

Triple sheared with non-canonical cWW

286

Motif group IL_92446.2

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

0.00 -369.60 6 5

287

Motif group IL_07785.1

Basepair signature:
cWW-cWW-cWW

0.00 -369.72 4 3

Isolated non-canonical cWW pair

288

Motif group IL_29198.2

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

0.00 -371.73 10 7

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

289

Motif group IL_38634.5

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

0.00 -372.81 6 5

cWH basepair and non-canonical AC

290

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 -374.94 16 13

291

Motif group IL_62654.1

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

0.00 -375.81 7 7

tSH-tHH-tHS

292

Motif group IL_83389.2

Basepair signature:
cWW-cWW

0.00 -377.30 7 4

293

Motif group IL_16386.4

Basepair signature:
cWW-L-cWW

0.00 -379.38 7 4

294

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 -383.78 18 16

295

Motif group IL_26307.2

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

0.00 -384.06 7 7

7x6 Sarcin-Ricin; G-bulge

296

Motif group IL_99692.2

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

0.00 -387.08 9 7

Kink-turn

297

Motif group IL_14688.1

Basepair signature:
cWW-cWW-cWW

0.00 -390.09 6 4

Isolated non-canonical cWW pair

298

Motif group IL_34470.3

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

0.00 -393.34 10 10

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

299

Motif group IL_65594.1

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

0.00 -393.40 10 9

8x7 Sarcin-Ricin; G-bulge

300

Motif group IL_31462.6

Basepair signature:
cWW-L-cWW

0.00 -394.04 5 4

Single bulged A

301

Motif group IL_43858.1

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

0.00 -400.01 11 9

302

Motif group IL_67767.4

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

0.00 -400.89 7 4

Receptor of 11-nt loop-receptor motif

303

Motif group IL_68574.4

Basepair signature:
cWW-tHH-tHS-cWW

0.00 -401.29 6 5

304

Motif group IL_68909.1

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

0.00 -401.94 5 4

305

Motif group IL_64231.5

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

0.00 -403.26 5 4

306

Motif group IL_57744.1

Basepair signature:
cWW-cWW-cWW

0.00 -405.94 4 4

Isolated non-canonical cWW pair

307

Motif group IL_38507.2

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

0.00 -407.58 7 4

UAA/GAN

308

Motif group IL_00225.13

Basepair signature:
cWW-L-cWW

0.00 -407.69 5 4

Single bulged G

309

Motif group IL_29357.1

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

0.00 -409.67 13 11

310

Motif group IL_59724.1

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

0.00 -411.43 11 9

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

311

Motif group IL_04346.10

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

0.00 -411.67 8 8

8x7 Sarcin-Ricin; G-bulge

312

Motif group IL_96371.1

Basepair signature:
cWW-tHH-cWW

0.00 -412.08 8 4

313

Motif group IL_89505.4

Basepair signature:
cWW-L-cWW

0.00 -412.15 5 4

Single bulged U

314

Motif group IL_95727.1

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

0.00 -412.16 10 10

Kink-turn

315

Motif group IL_89047.1

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

0.00 -414.49 11 10

316

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 -416.52 19 17

317

Motif group IL_65653.1

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

0.00 -418.70 10 10

318

Motif group IL_49767.8

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

0.00 -418.97 7 7

UAA/GAN with extra cWW

319

Motif group IL_41344.1

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

0.00 -421.70 5 4

320

Motif group IL_32016.1

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

0.00 -421.99 9 7

Kink-turn

321

Motif group IL_61258.15

Basepair signature:
cWW-L-cWW

0.00 -424.36 6 5

Single bulged C

322

Motif group IL_57741.1

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

0.00 -428.57 11 10

323

Motif group IL_80604.6

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

0.00 -428.85 9 9

324

Motif group IL_65851.3

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

0.00 -430.66 9 8

325

Motif group IL_10484.1

Basepair signature:
cWW-tSH-tHS-cWW

0.00 -431.03 6 5

Double sheared

326

Motif group IL_13404.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -431.16 8 5

Tandem non-canonical cWW pairs

327

Motif group IL_80398.1

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

0.00 -434.00 7 5

Minor groove platform

328

Motif group IL_85536.2

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

0.00 -434.46 7 5

329

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 -437.07 20 18

330

Motif group IL_85879.1

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

0.00 -442.91 12 11

331

Motif group IL_19048.1

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

0.00 -443.01 11 9

332

Motif group IL_10796.1

Basepair signature:
cWW-L-R-cWW

0.00 -444.38 7 6

333

Motif group IL_61249.1

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

0.00 -444.77 14 13

334

Motif group IL_89021.2

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

0.00 -445.66 7 5

UAA/GAN

335

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 -449.24 16 15

336

Motif group IL_04785.1

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

0.00 -450.61 8 5

337

Motif group IL_09990.4

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

0.00 -453.53 7 5

338

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 -453.66 18 17

339

Motif group IL_36516.3

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

0.00 -453.66 5 4

340

Motif group IL_77045.1

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

0.00 -453.94 10 6

Kink-turn

341

Motif group IL_04332.3

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

0.00 -456.17 15 14

342

Motif group IL_94910.1

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

0.00 -457.66 7 7

Kink-turn

343

Motif group IL_79846.1

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

0.00 -459.70 11 10

344

Motif group IL_99646.2

Basepair signature:
cWW-tWH-tHS-cWW

0.00 -468.13 7 4

tSH-tHW

345

Motif group IL_84251.1

Basepair signature:
cWW-L-tHS-cWW

0.00 -472.00 7 4

346

Motif group IL_28026.3

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

0.00 -472.05 8 8

347

Motif group IL_66663.1

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

0.00 -473.61 13 12

348

Motif group IL_69543.3

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

0.00 -474.88 9 7

349

Motif group IL_58103.11

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

0.00 -475.90 8 7

Symmetric double minor groove platform

350

Motif group IL_51479.1

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

0.00 -476.67 6 5

351

Motif group IL_38394.1

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

0.00 -484.15 5 2

352

Motif group IL_42218.2

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

0.00 -485.13 15 14

353

Motif group IL_67095.2

Basepair signature:
cWW-tWW-cWW

0.00 -493.17 8 4

Isolated tWW turn

354

Motif group IL_42997.3

Basepair signature:
cWW-L-R-cWW

0.00 -498.58 5 5

Isolated cWS basepair

355

Motif group IL_87907.2

Basepair signature:
cWW-cWW-cWW

0.00 -501.69 6 4

Isolated non-canonical cWW pair

356

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 -502.95 21 20

357

Motif group IL_85599.2

Basepair signature:
cWW-tHS-cWW

0.00 -506.06 7 4

Isolated tHS basepair with bulges

358

Motif group IL_31504.1

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

0.00 -506.36 12 12

359

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 -511.94 22 21

360

Motif group IL_77691.5

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

0.00 -513.26 6 4

UAA/GAN related

361

Motif group IL_58112.2

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

0.00 -519.44 6 5

362

Motif group IL_37015.1

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

0.00 -524.00 9 9

Kink-turn

363

Motif group IL_23774.1

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

0.00 -526.35 5 4

UAA/GAN variation

364

Motif group IL_01488.3

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

0.00 -533.00 9 9

Kink-turn

365

Motif group IL_10167.6

Basepair signature:
cWW-cHW-cWW

0.00 -540.53 6 5

Isolated cWH basepair

366

Motif group IL_09705.15

Basepair signature:
cWW-tSH-tHS-cWW

0.00 -540.73 5 4

Double sheared

367

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 -542.90 15 15

Kink-turn related

368

Motif group IL_17948.2

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

0.00 -543.76 7 5

Double sheared with non-canonical cWW

369

Motif group IL_60797.1

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

0.00 -549.71 14 13

370

Motif group IL_17069.5

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

0.00 -555.24 11 10

Kink-turn related

371

Motif group IL_49751.4

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

0.00 -562.61 7 5

Triple non-canonical cWW pairs

372

Motif group IL_77658.1

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -572.71 7 5

Tandem non-canonical cWW pairs

373

Motif group IL_25872.4

Basepair signature:
cWW-cWW-cWH-cWW

0.00 -574.64 6 5

374

Motif group IL_85033.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -587.06 5 5

Tandem non-canonical cWW pairs

375

Motif group IL_38862.4

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

0.00 -602.91 7 6

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

376

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 -639.74 19 18

377

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 -4531.87 17 16

378

Motif group IL_75283.2

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

0.00 -4709.36 11 10

379

Motif group IL_56455.6

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

0.00 -4958.37 13 11

Bacterial 5S Loop E

380

Motif group IL_89099.1

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

0.00 -5018.87 7 6

Other IL

381

Motif group IL_86012.1

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

0.00 -5045.33 10 9

382

Motif group IL_69986.1

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

0.00 -5092.27 7 6

383

Motif group IL_06691.1

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

0.00 -5225.91 8 6

384

Motif group IL_19852.1

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

0.00 -5257.69 9 6

Part of G-quadruplex

385

Motif group IL_81516.2

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

0.00 -5270.54 9 9

386

Motif group IL_46174.3

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

0.00 -5303.31 10 7

Kink-turn with non-sequential stacking

387

Motif group IL_17765.1

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

0.00 -5308.26 9 6

388

Motif group IL_44624.1

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

0.00 -5322.32 9 7

389

Motif group IL_96788.1

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

0.00 -5540.00 9 7

390

Motif group IL_07469.2

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

0.00 -5606.63 7 5

391

Motif group IL_76308.6

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

0.00 -5639.82 8 6

tSH-tWH-tHS-cWW

392

Motif group IL_87284.1

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

0.00 -5937.32 9 6

tSH-tHW-tWH-tHS

393

Motif group IL_22564.1

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

0.00 -6202.67 7 6

394

Motif group IL_96236.1

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

0.00 -6278.68 10 7

395

Motif group IL_06136.2

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

0.00 -6678.38 7 6

Quadruple sheared

396

Motif group IL_24134.1

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

0.00 -6842.05 7 5

Kink-turn

397

Motif group IL_26222.2

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

0.00 -6988.10 6 4

C-loop with bulged stacked A's

398

Motif group IL_22373.1

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

0.00 -7262.65 6 5

8-nt loop receptor

399

Motif group IL_61440.1

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

0.00 -7436.82 7 5

Triple sheared

400

Motif group IL_78800.1

Basepair signature:
cWW-cSH-L-cWW

0.00 -8052.21 7 6

401

Motif group IL_63596.11

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

0.00 -8333.82 5 4

C-loop

402

Motif group IL_02203.1

Basepair signature:
cWW-cSW-cWW-cWW

0.00 -8341.07 8 6

403

Motif group IL_43644.1

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

0.00 -8385.49 9 7

Other IL

404

Motif group IL_17136.7

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

0.00 -8394.95 7 6

tSH-tWH-tHS

405

Motif group IL_50730.2

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

0.00 -9072.40 6 6

Triple sheared

406

Motif group IL_03109.3

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

0.00 -9999.00 5 3

C-loop

407

Motif group IL_10569.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 6 4

408

Motif group IL_28037.2

Basepair signature:
cWW-cWW-cWW

0.00 -9999.00 6 5

Isolated non-canonical cWW pair

409

Motif group IL_42771.1

Basepair signature:
cWW-cWW

0.00 -9999.00 6 4

Multiple bulged bases

410

Motif group IL_63775.1

Basepair signature:
cWW-L-cWW

0.00 -9999.00 8 5

411

Motif group IL_83150.2

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

0.00 -9999.00 3 3

Coloring options: