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 29 Internal loop

Column numbers: 511-522, 571-620 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    G---UUAG---G*CAAAC--------------------------------------------C   23

    
    G---UUAG---G*UAAAC--------------------------------------------C   11

    
    ----AAAG---A*AAACUA--------------------------------------------   10

    
    U---GAU----G*CUA----------------------------------------------A    9

    
    U---AA-----G*UUACU--------------------------------------------G    8

    
    ----GUA----G*CGAA----------------------------------------------    8

    
    G---UUAG---G*CAGUC--------------------------------------------C    7

    
    C---GG-----G*CA-----------------------------------------------G    5

    
    U---AAGU---U*AUUACU-------------------------------------------A    4

    
    ----AAGGG--G*UGACAG--------------------------------------------    4

    
    G---UUAG---G*CACAC--------------------------------------------C    4

    
    G---UUAG---G*CAGAC--------------------------------------------C    4

    
    U---AGAC---C*GUUAG--------------------------------------------G    4

    
    ----AAAC---C*GUAAG---------------------------------------------    4

    
    G---GUA----G*CGAA---------------------------------------------C    4

    
    ----AAGGGA-U*ACGACAG-------------------------------------------    3

    
    U---AGAG---G*CAAUC--------------------------------------------G    3

    
    U---AUU----G*CUUCC--------------------------------------------G    3

    
    ----UCAG---G*CUCAA---------------------------------------------    3

    
    U---UGU----G*CAA----------------------------------------------A    3

    
    ----GAU----G*CU------------------------------------------------    3

    
    C---AAGCG--A*UAAAGCCAAU---------------------------------------G    2

    
    ----GAAAC--C*GCGAACUUA-----------------------------------------    2

    
    ----GAUG---C*GAGGUAAGUA----------------------------------------    2

    
    U---AGAC---C*GAGCCAAU-----------------------------------------G    2

    
    ----AAGGGA-U*ACAAUAG-------------------------------------------    2

    
    ----GAAACC-U*GAACUUA-------------------------------------------    2

    
    A---AAGC---U*AUUAC--------------------------------------------U    2

    
    A---UAAG---G*CAAAC--------------------------------------------U    2

    
    A---UAAG---G*CAGAC--------------------------------------------U    2

    
    G---UUAG---A*UAAAC--------------------------------------------C    2

    
    U---AAAC---C*GUUAG--------------------------------------------G    2

    
    ----UGAU---G*CUAUAU--------------------------------------------    2

    
    G---AAUA---U*GGAU---------------------------------------------A    2

    
    ----AAAC---C*GUUAG---------------------------------------------    2

    
    ----AAGG---G*GACAG---------------------------------------------    2

    
    A---GU-----C*GCAGC--------------------------------------------U    2

    
    G---CGA----G*CAAA---------------------------------------------C    2

    
    G---GGA----G*CGAA---------------------------------------------C    2

    
    U---A--A---G*CCAAU--------------------------------------------G    2

    
    U---AA-----G*CCAAU--------------------------------------------G    2

    
    U---AU-----G*CCUCU--------------------------------------------A    2

    
    ------AA---G*CCAAAG--------------------------------------------    2

    
    ----GCAA---G*CAAA----------------------------------------------    2

    
    ----UGAU---G*CUAA----------------------------------------------    2

    
    U---GAU----G*CUA----------------------------------------------G    2

    
    ----A------G*CCAAAA--------------------------------------------    2

    
    ----CAA----G*CAAA----------------------------------------------    2

    
    ----CGA----G*CAAA----------------------------------------------    2

    
    ----CUA----G*CAAA----------------------------------------------    2

    
    ----C------G*CGUAG---------------------------------------------    2

    
    A---UAAG---G*CAGUCUCUAAAGUAAAUAUUUCUAUC------AGAGGAUAGGAAUAU--U    1

    
    ----AAUG---C*GA-------------GAGCGAUCGGGAUCAUGAGCGCCCGAUC-CUUUA-    1

    
    C---AGACA--G*GUGUGAAAACUU-------------------------------------G    1

    
    UA--GACA---G*UGUGAAAAACUU-------------------------------------G    1

    
    A---UG-----C*GAAUUGUAUAAG-------------------------------------U    1

    
    C---AGUGAA-U*GAACCAAA-----------------------------------------G    1

    
    G---CAAGGC-C*GAACCAAC-----------------------------------------C    1

    
    G---GUAGGC-C*GAACUGAA-----------------------------------------C    1

    
    G---GUAUGA-U*GGAACCGU-----------------------------------------A    1

    
    ----GAUG---C*GAGUUAAGUA----------------------------------------    1

    
    ----GAUG---C*GAGUUAGGUA----------------------------------------    1

    
    ----GUAGGC-C*GAACUGAA------------------------------------------    1

    
    C---AGA----C*GAAAAACUU----------------------------------------G    1

    
    G---AAAGUG-U*AAAUAC-------------------------------------------C    1

    
    U---AGA----C*GAAAAACUU----------------------------------------G    1

    
    ----AAACGG-C*GGUACGC-------------------------------------------    1

    
    ----AAGGGG-U*AUGACGG-------------------------------------------    1

    
    ----AGAUGGUC*GGACAA--------------------------------------------    1

    
    ----GAAACC-U*GAACUU-------------------------------------------A    1

    
    A---ACAC---C*GGAGAAA------------------------------------------G    1

    
    C---GGGCC--C*GAAGCA-------------------------------------------G    1

    
    ----AAAGA--C*GAAACUA-------------------------------------------    1

    
    ----AGAUG--G*CGGACAA-------------------------------------------    1

    
    ----UGAAG--U*ACAAAUC-------------------------------------------    1

    
    A---AGGA---U*ACAACC-------------------------------------------G    1

    
    A---U--G---C*GAGUUAAG-----------------------------------------U    1

    
    A---UG-----C*GAGAUAAG-----------------------------------------U    1

    
    A---UG-----C*GAGGUAAG-----------------------------------------U    1

    
    C----------U*AAUGCUGAUU---------------------------------------G    1

    
    C---AGAC---U*AUUAAG-------------------------------------------G    1

    
    ----AAGGG--G*UGACGG--------------------------------------------    1

    
    ----AAUG---U*AGAAACG-------------------------------------------    1

    
    ----GAAUA--U*GGGAUA--------------------------------------------    1

    
    A---U--G--CC*GAUAAG-------------------------------------------U    1

    
    C---AAAC---C*GUAAG--------------------------------------------G    1

    
    C---AAAC---C*GUUAG--------------------------------------------G    1

    
    G---AAAC---C*AACUU--------------------------------------------A    1

    
    G---AAGA---U*AAGCC--------------------------------------------C    1

    
    G---AAUA---U*AGGAU--------------------------------------------A    1

    
    G---AAUA---U*GGGAU--------------------------------------------A    1

    
    G---UAAG---G*UAAAC--------------------------------------------C    1

    
    G---UUAG---A*UAGAC--------------------------------------------C    1

    
    G---UUAG---U*AAAAC--------------------------------------------C    1

    
    G---UUAG---U*GAAGG--------------------------------------------C    1

    
    U---AAGU---G*UUACU--------------------------------------------A    1

    
    U---AUG----C*GACACA-------------------------------------------G    1

    
    U---GAUG---U*GACUA--------------------------------------------A    1

    
    U---UGC----C*GAUACA-------------------------------------------A    1

    
    ----AAGG---G*CAACCG--------------------------------------------    1

    
    ----AGGGC--U*AAGUA---------------------------------------------    1

    
    A---A-AG---A*AAACU--------------------------------------------A    1

    
    A---AAC----C*GUUUA--------------------------------------------G    1

    
    A---AAU----C*GCAAA--------------------------------------------U    1

    
    A---AGC----C*GAAAC--------------------------------------------U    1

    
    U---A-UU---G*CUUCU--------------------------------------------G    1

    
    U---AGUA---A*UGAA---------------------------------------------A    1

    
    U---UCAA---U*AGAA---------------------------------------------G    1

    
    ----AAAC---C*GUCAG---------------------------------------------    1

    
    ----CGAG---G*CUGAC---------------------------------------------    1

    
    ----GAAA---U*AGGA---------------------------------------------A    1

    
    ----GGAA---C*GAUGG---------------------------------------------    1

    
    ----UUAG---G*CAGAC---------------------------------------------    1

    
    A---AA-----C*GUAAA--------------------------------------------U    1

    
    A---AA-----U*AUUAC--------------------------------------------U    1

    
    A---AAC----C*G-UAA--------------------------------------------G    1

    
    A---G--G---C*GAUUG--------------------------------------------U    1

    
    A---GG-----C*GAUUG--------------------------------------------U    1

    
    A---UA-----C*GUCAC--------------------------------------------U    1

    
    A---UA-----C*GUCCC--------------------------------------------U    1

    
    A---UG-----C*GAUUG--------------------------------------------U    1

    
    AUGCC------U*AA---------G-------------------------------------U    1

    
    C---AA-----G*CCAAU--------------------------------------------G    1

    
    C---CAAU---G*UAU----------------------------------------------G    1

    
    G---AUA----G*CAAC---------------------------------------------C    1

    
    G---CAA----G*CAAC---------------------------------------------C    1

    
    G---UA-----G*CAAGC--------------------------------------------C    1

    
    U---AU-----U*ACAAU--------------------------------------------G    1

    
    ----GGUA---G*CAAA----------------------------------------------    1

    
    ----UGAU---U*AUAU----------------------------------------------    1

    
    A---UGGG---U*AU-----------------------------------------------U    1

    
    G---G------A*AACAA--------------------------------------------U    1

    
    U---UG-----G*CAGC---------------------------------------------G    1

    
    ----AG-----A*UUAAU---------------------------------------------    1

    
    ----AGA----G*CAAA----------------------------------------------    1

    
    ----AUAA---G*CUC-----------------------------------------------    1

    
    ----AUAU---G*CUA-----------------------------------------------    1

    
    ----CAA----G*CAAC----------------------------------------------    1

    
    A---UAAG---G*C------------------------------------------------U    1

    
    ----A------G*CCAAC---------------------------------------------    1

    
    ----U------G*CGUAG---------------------------------------------    1

    
    C---G--G---G*CA-----------------------------------------------G    1

    
    U---A------A*UAG----------------------------------------------G    1

    
    U---UG-----U*A---A--------------------------------------------A    1

    
    ----GAA----G*CU------------------------------------------------    1

    
    U---AA-----G*U------------------------------------------------G    1

    
    Omitted sequenced and counts

    
    ------------*--------------------------------------------------    5

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

    
    ----AU-----G*C-------------------------------------------------    1

    
    ----UG-----G*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_18487.1

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

18.09 -142.83 8 6

2

Motif group IL_90346.1

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

7.80 -157.73 6 5

3

Motif group IL_11344.2

Basepair signature:
cWW-cSS-L-cWW

7.09 -188.78 6 5

180 degree turn

4

Motif group IL_89021.2

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

7.09 -263.83 6 5

UAA/GAN

5

Motif group IL_38507.2

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

6.74 -268.20 6 4

UAA/GAN

6

Motif group IL_61440.1

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

5.67 -289.66 7 5

Triple sheared

7

Motif group IL_38862.4

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

5.67 -419.46 5 4.5

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

8

Motif group IL_17136.7

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

5.32 -353.50 5 4

tSH-tWH-tHS

9

Motif group IL_99498.1

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

4.96 -139.31 7 5

10

Motif group IL_82292.1

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

4.61 -136.02 7 5

11

Motif group IL_99646.2

Basepair signature:
cWW-tWH-tHS-cWW

4.61 -431.25 6 4

tSH-tHW

12

Motif group IL_84251.1

Basepair signature:
cWW-L-tHS-cWW

4.26 -437.07 7 5

13

Motif group IL_05192.4

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

3.90 -187.92 6 4

14

Motif group IL_70096.1

Basepair signature:
cWW-L-cWW-cWW

3.90 -247.37 7 5

Kink-turn related

15

Motif group IL_21001.1

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

3.55 -170.08 8 5

16

Motif group IL_48444.6

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

3.55 -302.62 6 5

17

Motif group IL_47108.1

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

3.19 -164.50 7 5

18

Motif group IL_34737.1

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

3.19 -165.49 7 5

19

Motif group IL_68909.1

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

3.19 -282.54 6 4

20

Motif group IL_17948.2

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

3.19 -299.45 5 4

Double sheared with non-canonical cWW

21

Motif group IL_96236.1

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

3.19 -640.51 8 6

22

Motif group IL_62654.1

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

2.84 -202.57 8 5

tSH-tHH-tHS

23

Motif group IL_66798.2

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

2.84 -230.50 6 5

AAA cross-strand stack

24

Motif group IL_50730.2

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

2.84 -377.77 5 4

Triple sheared

25

Motif group IL_96332.5

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

2.48 -170.10 7 5

26

Motif group IL_85536.2

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

2.48 -190.59 7 5

27

Motif group IL_10484.1

Basepair signature:
cWW-tSH-tHS-cWW

2.48 -379.57 6 4

Double sheared

28

Motif group IL_07785.1

Basepair signature:
cWW-cWW-cWW

2.48 -625.79 6 5

Isolated non-canonical cWW pair

29

Motif group IL_49751.4

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

2.13 -304.45 6 4

Triple non-canonical cWW pairs

30

Motif group IL_23774.1

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

2.13 -380.32 6 5

UAA/GAN variation

31

Motif group IL_56317.1

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

1.77 -142.22 8 6

32

Motif group IL_45444.1

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

1.77 -173.36 7 6

33

Motif group IL_16218.2

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

1.77 -178.07 7 5

34

Motif group IL_12697.1

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

1.77 -192.13 8 6

35

Motif group IL_75294.1

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

1.77 -237.07 6 5

36

Motif group IL_58112.2

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

1.77 -438.75 6 4

37

Motif group IL_80926.1

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

1.42 -167.16 7 5

38

Motif group IL_49767.8

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

1.42 -189.24 6 4

UAA/GAN with extra cWW

39

Motif group IL_49612.1

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

1.42 -190.12 7 6

40

Motif group IL_38634.5

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

1.42 -327.46 8 6

cWH basepair and non-canonical AC

41

Motif group IL_77691.5

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

1.42 -392.73 5 4

UAA/GAN related

42

Motif group IL_80398.1

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

1.42 -676.86 7 5

Minor groove platform

43

Motif group IL_25463.1

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

1.42 -1182.43 7 6

44

Motif group IL_70411.2

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

1.06 -172.64 7 4

45

Motif group IL_74367.1

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

1.06 -193.22 7 5

46

Motif group IL_76758.2

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

1.06 -195.84 7 5

Intercalated tWH

47

Motif group IL_91920.1

Basepair signature:
cWW-cWW-tHH-cWW

1.06 -289.57 7 5

48

Motif group IL_42778.1

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

0.71 -131.61 8 6

49

Motif group IL_59258.1

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

0.71 -134.17 8 6

50

Motif group IL_25186.4

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

0.71 -137.92 7 5

51

Motif group IL_80231.1

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

0.71 -188.21 8 5

Other IL

52

Motif group IL_31558.1

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

0.71 -228.88 7 5

53

Motif group IL_98347.1

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

0.71 -259.47 7 5

54

Motif group IL_26728.3

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

0.71 -299.14 8 6

55

Motif group IL_14177.2

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

0.71 -320.07 6 6

56

Motif group IL_06691.1

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

0.71 -805.23 7 5

57

Motif group IL_07469.2

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

0.71 -1781.48 7 5

58

Motif group IL_22564.1

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

0.71 -2927.21 8 6

59

Motif group IL_26222.2

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

0.71 -4918.38 7 5

C-loop with bulged stacked A's

60

Motif group IL_85222.1

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

0.35 -123.22 8 6

61

Motif group IL_70627.3

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

0.35 -144.42 6.5 5

UAA/GAN related

62

Motif group IL_31561.1

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

0.35 -147.62 9 6

63

Motif group IL_44874.1

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

0.35 -153.74 7 5

tSH-tHW

64

Motif group IL_04736.1

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

0.35 -156.51 9 7

65

Motif group IL_94351.1

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

0.35 -158.96 8 7

66

Motif group IL_33141.1

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

0.35 -171.23 9 7

67

Motif group IL_69145.3

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

0.35 -171.60 8 5

Pseudoknot

68

Motif group IL_01038.1

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

0.35 -174.02 8 5

UAA/GAN with extra stack

69

Motif group IL_71294.3

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

0.35 -174.90 7 5

Double sheared; A in syn; two near cWW pairs

70

Motif group IL_09908.1

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

0.35 -178.69 7 5

Reverse kink-turn

71

Motif group IL_97631.1

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

0.35 -180.75 8 6

Triple sheared related

72

Motif group IL_29471.1

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

0.35 -182.73 8 6

73

Motif group IL_33623.1

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

0.35 -184.00 8 6

74

Motif group IL_88269.4

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

0.35 -185.68 7 5

6x5 Sarcin-Ricin; G-bulge

75

Motif group IL_82683.2

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

0.35 -191.63 7 5

76

Motif group IL_69986.1

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

0.35 -196.10 8 6

77

Motif group IL_21200.1

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

0.35 -207.04 6 4

tSH-tHW

78

Motif group IL_76308.6

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

0.35 -212.51 7 5

tSH-tWH-tHS-cWW

79

Motif group IL_51265.3

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

0.35 -242.42 7 6

Kink-turn from U4

80

Motif group IL_59302.1

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

0.35 -268.85 8 5

81

Motif group IL_63519.1

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

0.35 -271.24 7 5

82

Motif group IL_12566.4

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

0.35 -282.56 7 5

83

Motif group IL_10389.1

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

0.35 -305.88 7 6

84

Motif group IL_15698.3

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

0.35 -435.67 6 5

85

Motif group IL_90351.1

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

0.35 -439.78 6 5

86

Motif group IL_55516.2

Basepair signature:
cWW-cWW-cSH-cWW

0.35 -453.65 6 5

87

Motif group IL_92446.2

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

0.35 -467.98 6 4

88

Motif group IL_41344.1

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

0.35 -531.95 6 5

89

Motif group IL_31531.3

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

0.35 -612.50 6 5

Decoding loop related

90

Motif group IL_08770.1

Basepair signature:
cWW-L-R-cWW

0.35 -650.86 7 5

91

Motif group IL_14688.1

Basepair signature:
cWW-cWW-cWW

0.35 -662.92 7 5

Isolated non-canonical cWW pair

92

Motif group IL_87907.2

Basepair signature:
cWW-cWW-cWW

0.35 -750.06 6 5

Isolated non-canonical cWW pair

93

Motif group IL_57744.1

Basepair signature:
cWW-cWW-cWW

0.35 -904.51 5 5

Isolated non-canonical cWW pair

94

Motif group IL_96371.1

Basepair signature:
cWW-tHH-cWW

0.35 -905.57 8 6

95

Motif group IL_67095.2

Basepair signature:
cWW-tWW-cWW

0.35 -954.97 6 5

Isolated tWW turn

96

Motif group IL_85599.2

Basepair signature:
cWW-tHS-cWW

0.35 -981.41 7 6

Isolated tHS basepair with bulges

97

Motif group IL_31737.3

Basepair signature:
cWW-L-cWW

0.35 -1267.11 6 5

Stack and bulge

98

Motif group IL_83389.2

Basepair signature:
cWW-cWW

0.35 -1841.57 6 5

99

Motif group IL_82107.4

Basepair signature:
cWW-cWW

0.35 -1868.53 6 5

Multiple bulged bases

100

Motif group IL_06549.2

Basepair signature:
cWW-cWW

0.35 -1872.56 6 4

101

Motif group IL_03109.3

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

0.35 -9999.00 6 6

C-loop

102

Motif group IL_59877.1

Basepair signature:
cWW-L-cWW

0.35 -9999.00 8 7

103

Motif group IL_85652.1

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

0.00 -131.24 8 5

104

Motif group IL_21667.1

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

0.00 -133.08 8 5

105

Motif group IL_68405.1

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

0.00 -140.09 7 6

Kink-turn related

106

Motif group IL_33886.1

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

0.00 -142.59 8 5

Kink-turn with embedded cWW pair

107

Motif group IL_31084.1

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

0.00 -144.07 8 5

108

Motif group IL_44438.1

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

0.00 -146.52 9 6

109

Motif group IL_70801.1

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

0.00 -150.68 8 6

110

Motif group IL_78349.3

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

0.00 -150.95 8 6

111

Motif group IL_97697.1

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

0.00 -151.40 9 7

Reverse turn

112

Motif group IL_91636.1

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

0.00 -152.94 8 6

113

Motif group IL_88116.2

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

0.00 -153.98 8 6

114

Motif group IL_77278.1

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

0.00 -155.00 9 7

115

Motif group IL_61286.1

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

0.00 -155.14 8 6

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

116

Motif group IL_01176.1

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

0.00 -157.37 8 6

117

Motif group IL_09129.2

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

0.00 -160.13 8 6

118

Motif group IL_78472.1

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

0.00 -165.89 10 8

119

Motif group IL_54041.2

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

0.00 -167.73 7 6

tHW-tHW cross-strand stack

120

Motif group IL_29223.1

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

0.00 -167.96 9 6

121

Motif group IL_34822.1

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

0.00 -168.33 7 5

122

Motif group IL_20047.1

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

0.00 -169.24 9 7

123

Motif group IL_77870.1

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

0.00 -169.59 8 6

124

Motif group IL_16665.1

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

0.00 -171.79 10 7

125

Motif group IL_16458.4

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

0.00 -172.44 8 6

Sarcin-Ricin target in LSU H95; G-bulge

126

Motif group IL_09570.1

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

0.00 -172.52 9 7

127

Motif group IL_49867.1

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

0.00 -176.10 9 7

128

Motif group IL_80412.1

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

0.00 -176.78 9 7

129

Motif group IL_09044.1

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

0.00 -177.13 7 6

130

Motif group IL_12745.1

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

0.00 -179.61 8 6

tWH-tWH-tHW-tHW

131

Motif group IL_73759.1

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

0.00 -181.08 9 7

Part of G-quadruplex

132

Motif group IL_29198.2

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

0.00 -181.52 8 6

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

133

Motif group IL_55953.3

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

0.00 -182.99 8 6

134

Motif group IL_58350.1

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

0.00 -185.70 10 7

135

Motif group IL_22829.2

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

0.00 -186.50 8 5

136

Motif group IL_85630.1

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

0.00 -186.58 9 8

137

Motif group IL_58126.1

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

0.00 -188.59 9 7

138

Motif group IL_74746.1

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

0.00 -190.89 10 8

139

Motif group IL_69229.3

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

0.00 -191.66 8 6

Kink-turn

140

Motif group IL_23038.1

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

0.00 -193.00 9 7

141

Motif group IL_61242.1

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

0.00 -193.95 8 6

142

Motif group IL_04600.1

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

0.00 -195.34 10 7

143

Motif group IL_64842.1

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

0.00 -195.34 7 6

144

Motif group IL_00981.1

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

0.00 -195.95 7 5

UAA/GAN with tHH

145

Motif group IL_68243.1

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

0.00 -196.78 9 8

146

Motif group IL_47346.2

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

0.00 -198.01 8 5

tSH-tSH-tHH-tHS

147

Motif group IL_41756.4

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

0.00 -199.00 9 6

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

148

Motif group IL_24254.1

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

0.00 -200.09 9 6

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

149

Motif group IL_54177.4

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

0.00 -200.66 10 9

150

Motif group IL_89099.1

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

0.00 -202.32 8 5

Other IL

151

Motif group IL_82706.1

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

0.00 -206.93 9 7

152

Motif group IL_37603.1

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

0.00 -209.49 8 7

153

Motif group IL_13358.1

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

0.00 -209.71 11 9

154

Motif group IL_41853.1

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

0.00 -211.76 9 7

155

Motif group IL_04021.2

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

0.00 -212.67 7 6

Triple sheared with non-canonical cWW

156

Motif group IL_26307.2

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

0.00 -212.75 7 6

7x6 Sarcin-Ricin; G-bulge

157

Motif group IL_51191.1

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

0.00 -213.60 8 7

158

Motif group IL_06300.1

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

0.00 -214.63 7 5

159

Motif group IL_31915.1

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

0.00 -215.19 11 9

160

Motif group IL_96788.1

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

0.00 -215.53 7 6

161

Motif group IL_59049.1

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

0.00 -215.92 11 9

162

Motif group IL_37752.1

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

0.00 -216.48 10 8

163

Motif group IL_73002.1

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

0.00 -218.07 12 11

164

Motif group IL_42231.1

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

0.00 -218.27 11 8

165

Motif group IL_02349.4

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

0.00 -219.80 9 6.5

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

166

Motif group IL_87284.1

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

0.00 -220.23 7 5

tSH-tHW-tWH-tHS

167

Motif group IL_24499.1

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

0.00 -220.25 9 6

168

Motif group IL_32016.1

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

0.00 -220.79 8 6

Kink-turn

169

Motif group IL_18472.4

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

0.00 -225.48 7 5

170

Motif group IL_65594.1

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

0.00 -225.93 9 7

8x7 Sarcin-Ricin; G-bulge

171

Motif group IL_04307.1

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

0.00 -226.12 11 8

172

Motif group IL_69271.3

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

0.00 -226.36 10 8

173

Motif group IL_84694.2

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

0.00 -226.84 10 8

tSH-tHW-tHH-tHS

174

Motif group IL_64403.1

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

0.00 -228.29 11 9

175

Motif group IL_43622.1

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

0.00 -229.25 7 5

176

Motif group IL_74051.1

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

0.00 -229.45 9 7

Kink-turn

177

Motif group IL_88082.1

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

0.00 -229.62 9 6

178

Motif group IL_80604.6

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

0.00 -230.47 9 6

179

Motif group IL_91592.1

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

0.00 -230.49 8 6

180

Motif group IL_43858.1

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

0.00 -230.54 10 8

181

Motif group IL_69543.3

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

0.00 -232.12 8 6

182

Motif group IL_89312.1

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

0.00 -232.18 9 7

183

Motif group IL_04346.10

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

0.00 -232.40 8 7

8x7 Sarcin-Ricin; G-bulge

184

Motif group IL_04638.3

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

0.00 -232.52 8 6

tSH-tHS-tHW

185

Motif group IL_43467.1

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

0.00 -232.89 12 11

Pseudoknot

186

Motif group IL_81392.1

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

0.00 -233.46 14 13

187

Motif group IL_22854.4

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

0.00 -233.72 9 7

188

Motif group IL_62012.1

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

0.00 -233.84 8 5

Decoding loop related

189

Motif group IL_34470.3

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

0.00 -235.22 10 8

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

190

Motif group IL_86136.1

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

0.00 -236.60 8 7

191

Motif group IL_28304.1

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

0.00 -237.58 12 9

192

Motif group IL_73789.1

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

0.00 -237.97 7 6

193

Motif group IL_95811.1

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

0.00 -238.07 9 8

Vitamin B12 Aptamer

194

Motif group IL_36729.1

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

0.00 -238.34 11 9

195

Motif group IL_05472.1

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

0.00 -238.75 12 9

196

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 -240.38 12 11

197

Motif group IL_21630.1

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

0.00 -241.52 11 9

198

Motif group IL_70923.9

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

0.00 -242.55 6 6

Kink-turn

199

Motif group IL_65851.3

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

0.00 -243.40 9 7

200

Motif group IL_43547.1

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

0.00 -243.62 11 9

10x8 Sarcin-Ricin; G-bulge

201

Motif group IL_07173.1

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

0.00 -244.27 8 6

202

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 -245.83 13 12

Kink-turn related

203

Motif group IL_69000.1

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

0.00 -247.58 9 6

204

Motif group IL_64900.1

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

0.00 -249.14 9 7

Kink-turn

205

Motif group IL_85498.1

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

0.00 -250.73 10 8

206

Motif group IL_04073.1

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

0.00 -250.80 14 11

207

Motif group IL_54896.1

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

0.00 -251.93 10 8

208

Motif group IL_11415.1

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

0.00 -252.05 8 6

209

Motif group IL_59724.1

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

0.00 -252.72 9 7

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

210

Motif group IL_71598.1

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

0.00 -255.51 7 5

211

Motif group IL_13874.1

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

0.00 -256.12 10 8

212

Motif group IL_38969.1

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

0.00 -258.16 10 9

Reverse kink-turn related

213

Motif group IL_74184.1

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

0.00 -259.26 10 8

214

Motif group IL_06136.2

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

0.00 -261.14 7 6

Quadruple sheared

215

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 -261.65 12 9

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

216

Motif group IL_91698.1

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

0.00 -263.29 11 9

217

Motif group IL_95727.1

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

0.00 -264.79 9 8

Kink-turn

218

Motif group IL_88974.1

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

0.00 -266.89 10 9

219

Motif group IL_11399.2

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

0.00 -267.56 7 5

220

Motif group IL_19048.1

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

0.00 -269.54 9 7

221

Motif group IL_67780.1

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

0.00 -270.67 8 5

222

Motif group IL_06029.1

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

0.00 -271.96 15 13

Kink-turn

223

Motif group IL_89047.1

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

0.00 -274.43 12 10

224

Motif group IL_60657.1

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

0.00 -276.87 12 11

225

Motif group IL_57188.5

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

0.00 -277.12 7 5

Kink-turn related

226

Motif group IL_70335.1

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

0.00 -281.01 8 6

227

Motif group IL_80209.1

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

0.00 -282.00 11 9

228

Motif group IL_57741.1

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

0.00 -287.86 12 10

229

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 -290.82 13 12

230

Motif group IL_28026.3

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

0.00 -291.05 9 7

231

Motif group IL_61249.1

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

0.00 -292.20 13 11

232

Motif group IL_94910.1

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

0.00 -295.02 8 6

Kink-turn

233

Motif group IL_17973.1

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

0.00 -295.71 15 13

234

Motif group IL_84665.1

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

0.00 -297.90 12 10

235

Motif group IL_99692.2

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

0.00 -302.31 8 7

Kink-turn

236

Motif group IL_29357.1

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

0.00 -305.70 12 11

237

Motif group IL_81731.1

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

0.00 -306.98 12 9

238

Motif group IL_60448.1

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

0.00 -309.30 14 12

239

Motif group IL_01488.3

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

0.00 -315.76 7 6

Kink-turn

240

Motif group IL_67623.1

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

0.00 -316.61 9 7

Minor groove platform related

241

Motif group IL_30730.1

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

0.00 -317.35 9 7

242

Motif group IL_85879.1

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

0.00 -317.46 12 9

243

Motif group IL_19516.1

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

0.00 -318.57 14 12

Pseudoknot

244

Motif group IL_47972.1

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

0.00 -320.97 7 6

245

Motif group IL_19668.1

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

0.00 -324.95 7 5

Isolated non-canonical cWW pair

246

Motif group IL_17069.5

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

0.00 -325.04 10 8

Kink-turn related

247

Motif group IL_65718.4

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

0.00 -325.45 8 6

248

Motif group IL_56455.6

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

0.00 -329.30 10 8

Bacterial 5S Loop E

249

Motif group IL_66663.1

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

0.00 -333.61 12 10

250

Motif group IL_73700.1

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

0.00 -341.31 12 10

251

Motif group IL_64231.5

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

0.00 -343.84 5 4

252

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 -344.78 15 14

253

Motif group IL_67767.4

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

0.00 -351.52 6 5

Receptor of 11-nt loop-receptor motif

254

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 -356.94 17 15

255

Motif group IL_53448.1

Basepair signature:
cWW-tWH-cSH-cWW

0.00 -360.66 6 5

Receptor of 11-nt loop-receptor motif

256

Motif group IL_74957.1

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

0.00 -363.32 8 7

cWH basepair with bulged bases

257

Motif group IL_54050.1

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

0.00 -364.23 11 9

258

Motif group IL_60797.1

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

0.00 -371.94 13 11

259

Motif group IL_68574.4

Basepair signature:
cWW-tHH-tHS-cWW

0.00 -380.70 6 5

260

Motif group IL_89984.3

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

0.00 -385.37 7 5

261

Motif group IL_20463.1

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

0.00 -385.93 11 9

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

262

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 -403.30 16 15

263

Motif group IL_49061.1

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

0.00 -403.71 7 5

264

Motif group IL_88072.1

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

0.00 -404.87 11 8

265

Motif group IL_09705.15

Basepair signature:
cWW-tSH-tHS-cWW

0.00 -406.40 5 4

Double sheared

266

Motif group IL_61476.2

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

0.00 -407.35 6 5

267

Motif group IL_13404.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -407.62 6 5

Tandem non-canonical cWW pairs

268

Motif group IL_28564.1

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

0.00 -416.00 7 5

269

Motif group IL_46387.1

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

0.00 -423.92 7 5

270

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 -425.71 16 15

271

Motif group IL_76319.5

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

0.00 -426.00 7.5 6

272

Motif group IL_97273.1

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

0.00 -427.32 8 6

273

Motif group IL_42314.1

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

0.00 -433.78 8 6

274

Motif group IL_33323.1

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

0.00 -447.37 7 5

275

Motif group IL_04785.1

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

0.00 -451.98 7 5

276

Motif group IL_82426.6

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

0.00 -457.97 12 9

277

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 -461.65 20 18

278

Motif group IL_37015.1

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

0.00 -464.91 8 7

Kink-turn

279

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 -467.50 19 17

280

Motif group IL_04332.3

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

0.00 -471.08 11 9

281

Motif group IL_43644.1

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

0.00 -472.54 8 6

Other IL

282

Motif group IL_02203.1

Basepair signature:
cWW-cSW-cWW-cWW

0.00 -473.37 8 6

283

Motif group IL_51387.2

Basepair signature:
cWW-cSH-cWW-cWW

0.00 -474.72 6 5

284

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 -475.79 21 19

285

Motif group IL_65653.1

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

0.00 -487.01 12 10

286

Motif group IL_19102.1

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

0.00 -490.53 7 5

287

Motif group IL_66997.2

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

0.00 -498.75 7 4

288

Motif group IL_85033.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -508.29 6 4

Tandem non-canonical cWW pairs

289

Motif group IL_99358.1

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

0.00 -509.56 6.5 5

290

Motif group IL_03350.1

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

0.00 -511.41 8 7

Reverse kink-turn related

291

Motif group IL_51479.1

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

0.00 -527.66 6 5

292

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 -533.76 16 15

293

Motif group IL_69440.3

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

0.00 -534.41 6 5

294

Motif group IL_42218.2

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

0.00 -538.54 11 9

295

Motif group IL_30441.1

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

0.00 -540.13 14 12

296

Motif group IL_77658.1

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -540.30 6 5

Tandem non-canonical cWW pairs

297

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 -542.07 17 14

Kink-turn related

298

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 -545.08 19 18.5

299

Motif group IL_96303.1

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

0.00 -547.60 14 12

300

Motif group IL_25872.4

Basepair signature:
cWW-cWW-cWH-cWW

0.00 -548.63 6 5

301

Motif group IL_61341.1

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

0.00 -549.60 7 5

302

Motif group IL_28788.1

Basepair signature:
cWW-L-R-cWW

0.00 -552.49 8 6

303

Motif group IL_81522.2

Basepair signature:
cWW-L-L-cWW

0.00 -603.38 7 5

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

304

Motif group IL_09990.4

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

0.00 -649.24 7 6

305

Motif group IL_77045.1

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

0.00 -697.44 9 6

Kink-turn

306

Motif group IL_36516.3

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

0.00 -700.93 6.5 5

307

Motif group IL_96759.1

Basepair signature:
cWW-tSH-tWW-cWW

0.00 -745.22 6 5

308

Motif group IL_61299.4

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

0.00 -869.18 7 6

309

Motif group IL_31504.1

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

0.00 -879.82 14 12

310

Motif group IL_58103.11

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

0.00 -891.85 7 5

Symmetric double minor groove platform

311

Motif group IL_79846.1

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

0.00 -903.01 15 13

312

Motif group IL_52743.1

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

0.00 -936.38 8 6

313

Motif group IL_42997.3

Basepair signature:
cWW-L-R-cWW

0.00 -944.90 6 5

Isolated cWS basepair

314

Motif group IL_10167.6

Basepair signature:
cWW-cHW-cWW

0.00 -962.62 6 6

Isolated cWH basepair

315

Motif group IL_44465.1

Basepair signature:
cWW-L-R-cWW

0.00 -962.88 6 6

Isolated non-canonical cWW contact

316

Motif group IL_95570.1

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

0.00 -1096.20 8 6

317

Motif group IL_78800.1

Basepair signature:
cWW-cSH-L-cWW

0.00 -1105.05 8 6

318

Motif group IL_00555.1

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

0.00 -1117.04 8 6

319

Motif group IL_47087.1

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

0.00 -1162.84 9 7

Kink-turn related

320

Motif group IL_44325.1

Basepair signature:
cWW-cWH-cWW-L

0.00 -1172.95 8 6

321

Motif group IL_82741.2

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

0.00 -1184.59 6 5

322

Motif group IL_57881.1

Basepair signature:
cWW-L-cWW

0.00 -1190.01 7 6

Multiple bulged bases

323

Motif group IL_84476.1

Basepair signature:
cWW-cWW

0.00 -1335.39 6 6

Multiple bulged bases

324

Motif group IL_10796.1

Basepair signature:
cWW-L-R-cWW

0.00 -1393.02 8 7

325

Motif group IL_61438.4

Basepair signature:
cWW-L-cWW

0.00 -1420.17 8 6

326

Motif group IL_28037.2

Basepair signature:
cWW-cWW-cWW

0.00 -1430.00 6 6

Isolated non-canonical cWW pair

327

Motif group IL_46174.3

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

0.00 -1532.71 8 6

Kink-turn with non-sequential stacking

328

Motif group IL_01994.1

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

0.00 -1588.11 7 6

329

Motif group IL_86012.1

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

0.00 -1971.42 11 9

330

Motif group IL_22373.1

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

0.00 -1978.64 9 6

8-nt loop receptor

331

Motif group IL_47078.3

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

0.00 -2026.33 8 6

Minor groove platform

332

Motif group IL_94684.1

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

0.00 -2045.71 8 6

333

Motif group IL_25573.1

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

0.00 -2053.77 8 6

334

Motif group IL_42771.1

Basepair signature:
cWW-cWW

0.00 -2392.26 7 7

Multiple bulged bases

335

Motif group IL_04650.2

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

0.00 -2548.72 11 9

336

Motif group IL_53787.1

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

0.00 -2610.66 13 12

Pseudoknot

337

Motif group IL_42032.1

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

0.00 -2639.67 9 6

338

Motif group IL_21173.1

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

0.00 -2727.08 10 8

339

Motif group IL_55917.1

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

0.00 -2895.25 10 9

340

Motif group IL_15218.1

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

0.00 -2895.58 11 10

341

Motif group IL_53596.1

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

0.00 -2930.59 10 8

342

Motif group IL_82968.1

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

0.00 -2933.41 10 9

343

Motif group IL_27393.10

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

0.00 -3000.60 8 8

344

Motif group IL_18354.1

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

0.00 -3081.27 11 9

345

Motif group IL_33711.1

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

0.00 -3112.36 9 8

Minor groove platform

346

Motif group IL_88017.1

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

0.00 -3116.02 8 7

347

Motif group IL_46112.1

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

0.00 -3129.55 10 9

348

Motif group IL_26598.1

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

0.00 -3201.18 9 7

349

Motif group IL_25412.1

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

0.00 -3349.01 9 7.5

Major groove intercalation

350

Motif group IL_99380.1

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

0.00 -3407.33 9 7

351

Motif group IL_19897.3

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

0.00 -3523.46 9 8

352

Motif group IL_63596.11

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

0.00 -3532.02 7 5

C-loop

353

Motif group IL_46086.1

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

0.00 -3560.95 7 6

354

Motif group IL_92634.2

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

0.00 -3657.02 7 6

355

Motif group IL_87211.1

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

0.00 -3758.96 8 6

356

Motif group IL_64048.1

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

0.00 -3808.38 10 9

357

Motif group IL_70376.1

Basepair signature:
cWW-L-cWW-L

0.00 -3876.15 8 7

358

Motif group IL_32056.1

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

0.00 -3922.77 12 10

359

Motif group IL_38186.6

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

0.00 -4037.38 8 7

360

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 -4120.90 16 14

361

Motif group IL_41203.4

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

0.00 -4218.78 8 8

SSU/LSU pseudoknot

362

Motif group IL_26685.1

Basepair signature:
cWW-L-cWW-L

0.00 -4269.48 8 6

Multiple bulged bases

363

Motif group IL_75283.2

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

0.00 -4276.48 12 11

364

Motif group IL_83150.2

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

0.00 -4317.61 7 5

365

Motif group IL_07039.3

Basepair signature:
cWW-L-cWW

0.00 -4387.71 7 7

Major groove platform

366

Motif group IL_58960.1

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

0.00 -4413.43 10 8

367

Motif group IL_43140.1

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

0.00 -4425.44 13 10

368

Motif group IL_49971.1

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

0.00 -4528.07 10 8

369

Motif group IL_17765.1

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

0.00 -4593.78 10 9

370

Motif group IL_44624.1

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

0.00 -4596.54 10 9

371

Motif group IL_19852.1

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

0.00 -4641.07 13 11

Part of G-quadruplex

372

Motif group IL_07171.1

Basepair signature:
cWW-L-cWW-L

0.00 -4732.23 9 7

Bulged stacked bases

373

Motif group IL_81516.2

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

0.00 -4772.14 13 11

374

Motif group IL_14368.1

Basepair signature:
cWW-L-cWW-cSH

0.00 -5003.56 7 6

Major groove platform with intercalated tWH

375

Motif group IL_49714.1

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

0.00 -5128.40 8 7

Major groove intercalation

376

Motif group IL_00881.1

Basepair signature:
cWW-L-cWW-L

0.00 -5188.47 7 6

377

Motif group IL_29346.2

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

0.00 -5189.35 8 7

Left turn

378

Motif group IL_47074.2

Basepair signature:
cWW-L-cWW-L

0.00 -5205.41 7 6

379

Motif group IL_66635.5

Basepair signature:
cWW-L-cWW

0.00 -5213.91 7 6

Major groove intercalation

380

Motif group IL_73452.2

Basepair signature:
cWW-L-cWW

0.00 -5216.35 7.5 6

381

Motif group IL_20031.1

Basepair signature:
cWW-L-cWW-L

0.00 -5219.33 8 7

382

Motif group IL_73355.1

Basepair signature:
cWW-L-cWW-L

0.00 -5221.59 7 6

383

Motif group IL_79895.1

Basepair signature:
cWW-L-cWW-L

0.00 -5226.23 8 7

384

Motif group IL_76709.2

Basepair signature:
cWW-L-cWW-L

0.00 -5229.05 7 6

385

Motif group IL_94967.1

Basepair signature:
cWW-L-cWW-L

0.00 -5229.79 9 7

386

Motif group IL_22551.4

Basepair signature:
cWW-L-cWW-L

0.00 -5238.13 7 6

387

Motif group IL_95583.2

Basepair signature:
cWW-L-cWW

0.00 -5266.00 6 6

Minor groove platform, major groove intercalation

388

Motif group IL_48076.6

Basepair signature:
cWW-cSH-cWW

0.00 -5283.32 7 6

Major groove platform

389

Motif group IL_51454.3

Basepair signature:
cWW-cSH-cWW

0.00 -5295.59 6 6

Minor groove platform

390

Motif group IL_15052.4

Basepair signature:
cWW-L-cWW-L

0.00 -5345.84 6 6

Minor groove platform

391

Motif group IL_68140.4

Basepair signature:
cWW-cSH-cWW

0.00 -5347.75 6 5

Major groove minor groove platform; mini C-loop

392

Motif group IL_81831.1

Basepair signature:
cWW-L-cWW

0.00 -5449.97 7 6

Intercalated cWS

393

Motif group IL_56987.1

Basepair signature:
cWW-L-cWW

0.00 -5482.92 7 6

394

Motif group IL_33761.2

Basepair signature:
cWW-L-cWW

0.00 -5485.14 7 7

395

Motif group IL_90729.1

Basepair signature:
cWW-L-cWW

0.00 -5504.18 7 6.5

Single stack bend

396

Motif group IL_02555.1

Basepair signature:
cWW-L-cWW

0.00 -5509.27 7 6

Major groove platform with intercalation

397

Motif group IL_26793.1

Basepair signature:
cWW-L-cWW

0.00 -5635.11 7 7

Single stack bend

398

Motif group IL_31462.6

Basepair signature:
cWW-L-cWW

0.00 -5653.80 7 7

Single bulged A

399

Motif group IL_16386.4

Basepair signature:
cWW-L-cWW

0.00 -5665.00 9 7

400

Motif group IL_61258.15

Basepair signature:
cWW-L-cWW

0.00 -5685.68 7 7

Single bulged C

401

Motif group IL_00225.13

Basepair signature:
cWW-L-cWW

0.00 -5687.65 7 7

Single bulged G

402

Motif group IL_89505.4

Basepair signature:
cWW-L-cWW

0.00 -5698.49 7 7

Single bulged U

403

Motif group IL_50694.7

Basepair signature:
cWW-tSH-cWW-L

0.00 -5700.49 6 6

Major groove platform; stack outside cWW

404

Motif group IL_24134.1

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

0.00 -5711.40 8 6

Kink-turn

405

Motif group IL_42626.2

Basepair signature:
cWW-cWW

0.00 -5742.33 7 6

406

Motif group IL_10569.1

Basepair signature:
cWW-L-cWW

0.00 -5788.30 7 7

407

Motif group IL_63775.1

Basepair signature:
cWW-L-cWW

0.00 -5799.27 9 7

408

Motif group IL_38394.1

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

0.00 -6375.90 9 8

409

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 -9999.00 18 16

410

Motif group IL_45896.1

Basepair signature:
cWW-cWW-cWW

0.00 -9999.00 14 12

411

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 -9999.00 19 18

Coloring options: