RNA 3D Hub

JAR3D Query RF03064-3.48 completed
Run on Motif Atlas Version using the Rfam secondary structure. Run with the CaCoFold secondary structure.

Rfam family RF03064 maps to one chain: 8IAZ|1|E See more about it at RNA 3D Hub by filtering on the chain or the Rfam family.

Loop 5 Hairpin loop

Column numbers: 71-113 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    ----------------AC-------------------------   39

    
    A---------------UAUUUAUA------------------U   32

    
    ----------------GUGAUUA--------------------   30

    
    G---------------AUUUCGG------------------UC   24

    
    ----------------UU-------------------------   24

    
    ----------------UC-------------------------   19

    
    U---------------AUUUAU--------------------A   17

    
    ----------------AU-------------------------   17

    
    U---------------GUUUA--------------------CA   14

    
    A---------------AGUAAACU------------------U   13

    
    G---------------AUUUCGGU------------------C   13

    
    U-----------------------------------------A   13

    
    G---------------AAUUUAUU------------------C   10

    
    ----------------AA-------------------------   10

    
    U---------------CUUAUG--------------------A    9

    
    ----------------UUCU-----------------------    9

    
    ----------------UA-------------------------    9

    
    U---------------GUUUAU--------------------A    8

    
    ----------------UAU------------------------    8

    
    U-----------------G-----------------------A    8

    
    UUA-------------AUUUUAU-----------------UAA    7

    
    AG--------------AGUUAU-------------------CU    7

    
    G---------------AAUUGAUU------------------C    7

    
    U---------------CAUUUGUA------------------A    7

    
    ----------------GUUAGU---------------------    7

    
    A---------------U-------------------------U    7

    
    G---------------GCUUGC--------------------C    6

    
    U---------------AUUCAU--------------------A    6

    
    C---------------AAA-----------------------G    6

    
    C---------------AA------------------------G    6

    
    U---------------A-------------------------A    6

    
    ----------------CC-------------------------    6

    
    ----------------GC-------------------------    6

    
    UGAA------------AUAUU------------------UUCA    5

    
    G---------------AAGAAUUU------------------C    5

    
    C---------------CUUCGG--------------------G    5

    
    U---------------CUUUUG--------------------A    5

    
    G---------------UUUAU---------------------C    5

    
    ----------------GUAAUU---------------------    5

    
    ----------------AAA------------------------    5

    
    A----------------U------------------------U    5

    
    UUAA------------UUUAUU-----------------UUAA    4

    
    G---------------GAUUUAUC------------------C    4

    
    GA--------------UCUCGG-------------------UC    4

    
    U---------------AGUAAU--------------------A    4

    
    UGC-------------UU----------------------GCA    4

    
    U---------------AUUAU---------------------A    4

    
    U---------------GUUUA---------------------U    4

    
    ----------------GUUUUA---------------------    4

    
    U---------------AUAA----------------------A    4

    
    ----------------UUUAU----------------------    4

    
    ----------------UUUUU----------------------    4

    
    ----------------UUUU-----------------------    4

    
    U------------------AU---------------------A    4

    
    ----------------UUU------------------------    4

    
    A-----------------------------------------U    4

    
    UAAUGAUG--------AUUAUU-------------CAUUUUUA    3

    
    C--AUGAG--------CUUUG--------------CUCAU--G    3

    
    UAAAG-----------UCUUUG----------------CUUUA    3

    
    --UAUAU---------UUCAUG--------------AUA---U    3

    
    ACA-------------UUUCAAG----------------GUGU    3

    
    CC--------------ACUCCCCGU----------------GG    3

    
    C---------------UGUUUAAUA-----------------G    3

    
    UU--------------AAUUUAUU------------------A    3

    
    G---------------GAUUUGUU------------------C    3

    
    G------------G--AUGUAU-------C------------C    3

    
    GA--------------AGAAUU-------------------UC    3

    
    U---------------UACUUGUA------------------A    3

    
    G---------------AUUUAUU-------------------C    3

    
    GU--------------UGCUUG--------------------C    3

    
    U-C-------------UUCG--------------------GGA    3

    
    C---------------AGAAAU--------------------G    3

    
    C---------------CUUCUG--------------------G    3

    
    C---------------GCUUAC--------------------G    3

    
    C---------------UUUCAA--------------------G    3

    
    G---------------AGAAAU--------------------C    3

    
    G---------------AGUCAU--------------------C    3

    
    G---------------UUUCGA--------------------C    3

    
    U---------------GCCUGC--------------------A    3

    
    C---------------ACUUG---------------------C    3

    
    C---------------CGAAA---------------------G    3

    
    U---------------CUUAC---------------------A    3

    
    ----------------GCAAGU---------------------    3

    
    ----------------UUUUC----------------------    3

    
    C---------------UAU-----------------------G    3

    
    ----------------UACG-----------------------    3

    
    ----------------UAUU-----------------------    3

    
    ----------------UUUA-----------------------    3

    
    ----------------UGU------------------------    3

    
    ----------------UUA------------------------    3

    
    ----------------CA-------------------------    3

    
    ----------------GU-------------------------    3

    
    CUGAAUUU--------UCAAUGA------------ACUUUCAG    2

    
    UUUAUAUC--------AUGAUGU------------GAUAUAAA    2

    
    UAAGAAU---------AAUUAUUC------------AUUUUUA    2

    
    UAAUGAUG--------AUUAUU-------------CAUUCUUA    2

    
    UUUACAU---------UUCAAG--------------GUGUA--    2

    
    A---GACG--------AAUG---------------CGUCUUU-    2

    
    ----UAUA--------CGUUAUGA-----------UAU-----    2

    
    U---------------UUUUAUUUCUU-------------GCA    2

    
    ACAU------------UUCAAG--------------A---UGU    2

    
    UG-----A--------GGUUUACU-----------U-----CA    2

    
    UCA-------------ACUUUGU-----------------UGA    2

    
    UGAA------------GUAUU------------------UUCA    2

    
    CAU-------------AGUUU-------------------AUG    2

    
    UU--------------AAUUUUAU------------------A    2

    
    UUA-------------UUUGAU-------------------AA    2

    
    A---------------AGUUUACU------------------U    2

    
    A---------------GAUUUAUU------------------U    2

    
    A---------------GGUUUACU------------------U    2

    
    AAC-------------UUCG--------------------GUU    2

    
    AGC-------------UCCG--------------------GCU    2

    
    C---------------UGUUUACA------------------G    2

    
    CC--------------UGCUUC-------------------GG    2

    
    G---------------AUCUCGUU------------------C    2

    
    G---------------AUUUCGAU------------------C    2

    
    G---------------AUUUCGG------------------UU    2

    
    G---------------AUUUUGGU------------------C    2

    
    G---------------GAUGUAUC------------------C    2

    
    G---------------GAUUUAUU------------------C    2

    
    G---------------UAUUUACU------------------C    2

    
    UGA-------------CUUG--------------------UCA    2

    
    UUGC------------CA---------------------GCAA    2

    
    AG--------------AUUAU--------------------CU    2

    
    G---------------ACUUACU-------------------C    2

    
    A---------------AGUUAU--------------------U    2

    
    C---------------CCUUUG--------------------G    2

    
    G---------------ACUUAC--------------------C    2

    
    G---------------GGACAU--------------------C    2

    
    G---------------UUUC-GA-------------------C    2

    
    U---------------CGGUAU--------------------A    2

    
    U---------------GCUUAC--------------------A    2

    
    U---------------GCUUG--------------------CA    2

    
    U---------------GCUUGC--------------------A    2

    
    U---------------GUUUAC--------------------A    2

    
    A------------G--AAAC----------------------U    2

    
    C---------------UUUCG---------------------G    2

    
    G---------------CUAAA---------------------C    2

    
    U---------------AUAAC---------------------C    2

    
    U---------------CUUCG---------------------G    2

    
    U---------------UAUAC---------------------A    2

    
    U---------------UUCAU---------------------G    2

    
    ----------------GGAAGU---------------------    2

    
    ----------------UUUCAU---------------------    2

    
    A---------------AUGA----------------------U    2

    
    A---------------GAAA----------------------U    2

    
    C-----------------UCCG--------------------G    2

    
    C---------------GCAA----------------------G    2

    
    G---------------GAAA----------------------C    2

    
    -----------------AUAC---------------------A    2

    
    ----------------AGUUU----------------------    2

    
    ----------------CUAAU----------------------    2

    
    ----------------GAAGU----------------------    2

    
    ----------------GGUUU----------------------    2

    
    ----------------GUAAU----------------------    2

    
    ----------------GUUUA----------------------    2

    
    ----------------UUAUU----------------------    2

    
    ----------------UUUGA----------------------    2

    
    U---------------AUU-----------------------A    2

    
    -----------------GUAU----------------------    2

    
    ----------------GGAA-----------------------    2

    
    ----------------GUAA-----------------------    2

    
    ----------------UAUG-----------------------    2

    
    ----------------UUAA-----------------------    2

    
    ----------------UUAU-----------------------    2

    
    ----------------UUGU-----------------------    2

    
    G---------------AA------------------------C    2

    
    U----------------UU-----------------------A    2

    
    U---------------CA------------------------A    2

    
    U---------------UU------------------------A    2

    
    ----------------AUA------------------------    2

    
    ----------------CGG------------------------    2

    
    ----------------UAG------------------------    2

    
    A---------------A-------------------------U    2

    
    U---------------G-------------------------A    2

    
    ----------------AG-------------------------    2

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

    
    AACGAAGAUAUUUG--AGUCU--------CAAAUAUUAACGUU    1

    
    AACGAAGAUAUUUG--AGUCU--------CAAGUAUUAACGUU    1

    
    AACGAAUAUGUUUG--AGUCU--------CAAAUAUCAACGUU    1

    
    AACGUUAAUAUUUG--AGUCU--------CAAAUAUUAACGUU    1

    
    AAUGAAGAUAUUU---AAAUCCC-------AAAUAUUGACAUU    1

    
    C---UA-GCAUCCUUUGAAAG------AAAGGAUGUAUAAAUG    1

    
    CGAAGAUAUUUG----AGUCU----------CAAAUAUUGACG    1

    
    ACAAUGAACU------UCUACGA----------AGUUCAUUGU    1

    
    ACAAUGAACU------UCUGCGA----------AGUUCAUUGU    1

    
    AUAAUGAACU------UCUACGA----------AGUUCAUUAU    1

    
    GCUGAAUUU-------UCAAC------------GAAUUUUCGG    1

    
    UAUAUUAU--------UUUGAGAU-----------AUAAUAUA    1

    
    UAUAUUAU--------UUUGAGAU-----------AUGAUAUA    1

    
    UAUAUUGU--------UUUGAGAU-----------AUAAUAUA    1

    
    C--UGAAUUU------UCAAC------------GAAUUUUCAG    1

    
    CU--GAAUUU------UCAAC------------GAAUUUUCAG    1

    
    CUGAAUUU--------UCAAUGA------------AUUUUCAG    1

    
    CUUAAUUUUC------AAU--------------GAAUUUUCAG    1

    
    UUGAAUUUU-------CAACG-------------AAUUUUCAA    1

    
    CAAACAAGC-------GUAA--------------GCGAGUAAG    1

    
    CAAACGAGC-------GUAA--------------GCGAGUAAG    1

    
    CGAAUAAGC-------GCAA--------------GCGAGCGAG    1

    
    GCUGAUUU--------UUCAAC-------------GAAUUUUC    1

    
    UAAGAAUG--------AUUAUU-------------CAUUUUUA    1

    
    UAAGAAUG--------AUUAUU-------------CAUUUUUG    1

    
    UAAUAACGG-------GUAA--------------CCAAUGUUA    1

    
    UAAUAAUGA-------GAAA--------------UCUAAGUUA    1

    
    UAAUGAUGA-------GAAA--------------UCAAAGUUA    1

    
    UAGCAAUG--------AGCAAU-------------CAUCGUUA    1

    
    UCAGAAU---------AAUUAUUC-----------A-UUUUUA    1

    
    UCUAUAGA--------UGUAAA-------------UUUAUGGA    1

    
    UGAACGAGC-------GUAA--------------GUGAGUGAA    1

    
    UGAUAUUG--------GGUAUU-------------UGGUGUCA    1

    
    A-CUUAGUU-------GUUAU-------------AACUUAG-U    1

    
    GUAACAAU--------GAGUA--------------AUUGUUGU    1

    
    GUAACAAU--------GAGUG--------------AUUGUUGU    1

    
    G-AAUGAA--------AAUAUA-------------UUCAUU-U    1

    
    G-AUAUU---------CAGUAUUU------------GGUGU-C    1

    
    GAUAUUGA--------GUAU---------------UUGGUAUU    1

    
    UAGCAGAG--------AGAUCAA------------C---GUUA    1

    
    UGAAUUUU--------CAAC---------------GAAUUUUC    1

    
    UUUACAU---------UUCAAA--------------GUGUAAA    1

    
    UUUACAU---------UUCAAA--------------GUGUGAA    1

    
    UUUAUAC---------CUCAGA--------------GUAUAAA    1

    
    UUUAUAUC--------UCAU---------------GAUAUAAA    1

    
    UUUGCAU---------UUUAAA--------------GUGUGAA    1

    
    G-AAUUUU--------CAAC---------------GAAUUUUC    1

    
    UAACAUU---------GAGUA---------------AACGUUA    1

    
    UAAG---A--------UACAUAGA-----------U--ACAAA    1

    
    UGAAUUA---------UAUAA---------------UGAUGAA    1

    
    UUUAUGC---------UACAA---------------GCAUGAA    1

    
    -UUAUAU---------UGGAAG--------------AUAUGA-    1

    
    UAAUA-----------CAAAGUGA-----------UA---UUA    1

    
    UAAUG-----------CAAAGUGA--------------UAUUG    1

    
    UAAUGCAA--------AGUGAUA-----------------UUG    1

    
    UAUAGAU---------UUGU----------------AUCUAUA    1

    
    UUUACAU---------UUCAAG--------------GUGU--A    1

    
    CAUGAG----------CAAAG----------------UCCAUG    1

    
    CAUGAGC---------AAA-----------------GCUCAUG    1

    
    UUUUCUU---------CAA-----------------GAGAUGA    1

    
    ----UAUA--------AUUGAUGA-----------UAUA----    1

    
    ACG--AAA--------ACAU---------------UUUU--GU    1

    
    U--AAAGC--------CUUU---------------GCUUU--A    1

    
    U--ACAC---------UUCACA--------------GUGU--A    1

    
    UAAAGU----------UUUU-----------------ACCUUA    1

    
    UACA--U---------UUCAAA--------------G--UGUA    1

    
    UACAC-----------UUCAAA----------------GUGUA    1

    
    UACAU-----------UUUAAA----------------GUGUG    1

    
    UAUA------------UUUGAGGA---------------UAUA    1

    
    UGCA------------UUUUAAAG---------------UGUA    1

    
    UUUUUU----------CUUC-----------------AAAAAA    1

    
    U--CAAA---------GUAU----------------UUUCA-A    1

    
    U-UAU-----------AUCUCG----------------AUACA    1

    
    UAA----A--------AUUAUACU----------------UUA    1

    
    UAAAG-----------UCUUA-----------------CUUUA    1

    
    UAAAG-----------UUUUA-----------------CUUUA    1

    
    UAUGC-----------UGUGA-----------------GUGUA    1

    
    UG---GAG--------UGAAU--------------CUCC---A    1

    
    UGA-AA----------UAUU-----------------UUCUCA    1

    
    UUA-------------UUUUAAUUU---------------UAA    1

    
    UUAAU-----------UUAAA-----------------AUUAA    1

    
    UUAAU-----------UUUGU-----------------GUUGA    1

    
    UUUUC-----------UUCAA-----------------GAAAU    1

    
    ---AUAU---------UUCAAG--------------GUA---U    1

    
    ---AUAU---------UUUAAG--------------GUG---U    1

    
    -ACGCU----------UCGA-----------------AGUGU-    1

    
    A---------GACG--AAUG---------CGUC---------U    1

    
    A---GACG--------AAUA---------------CGUC---U    1

    
    A---GACG--------AAUA---------------CGUCU---    1

    
    A---GACG--------AAUA---------------UGUC---U    1

    
    A---GAUG--------AAUA---------------CAUC---U    1

    
    A---GGCG--------AAUA---------------CGUCU---    1

    
    A---UAU---------CUUAUA--------------AUA---U    1

    
    AAA-------------UAAAUUCA----------------UUU    1

    
    ACAC------------UUUAAU-----------------GUGU    1

    
    AGAC------------CGAUAC-----------------GUCU    1

    
    AGGCG-----------AAUA------------------CGUUU    1

    
    AUAU------------UUCAUG-----------------AUAU    1

    
    AUAU------------UUUAAG-----------------GUAU    1

    
    AUAU------------UUUAUA-----------------AUAU    1

    
    AUAUC-----------UCAC------------------GGUAU    1

    
    AUAUC-----------UCAC---------------G---GUAU    1

    
    AUAUC-----------UCAG------------------GAUAU    1

    
    AUAUC-----------UUAG------------------GAUAU    1

    
    AUAUU-----------UUAU------------------GAUAU    1

    
    AUUC------------UUCAAA-----------------GAAU    1

    
    GC---AU---------UUUAAA--------------GU---GU    1

    
    GCAU------------UUCAAU-----------------GUGU    1

    
    U-----GA--------GGUUUACU-----------UU-----A    1

    
    UG-----A--------AGUUUGCU----------------UCA    1

    
    UG-----A--------GAUUUACU-----------U-----CA    1

    
    UG-----A--------GGUUUCCU-----------U-----CA    1

    
    UGA-------------GAUUUACC----------------UCA    1

    
    UGA-------------GGUUUGCU----------------UCA    1

    
    UUA-------------AUUUUUAU----------------UAA    1

    
    UUG-------------AGUUAUUU----------------UAA    1

    
    UUGA------------UUUAUU-----------------UUAA    1

    
    UUGG------------CUUAGU-----------------UUAA    1

    
    AUA---U---------AUCAA---------------G---UAU    1

    
    C--CAU----------CCCAG----------------AUG--G    1

    
    CAA-------------UAUUAU-----------------GUUG    1

    
    CUCA------------CGGUA------------------UAAG    1

    
    UAAG------------AUUUU------------------CUUA    1

    
    UCG-------------ACUUUGU-----------------UGA    1

    
    UCGU------------AGUUU------------------ACGA    1

    
    UGA-------------AGUAUUU-----------------UCA    1

    
    UGG-------------AGUAUUU-----------------UCA    1

    
    UGGA------------CUUGG------------------UUCA    1

    
    UUA-------------ACUGUGU-----------------UAA    1

    
    UUAA------------CUUUG------------------UUGA    1

    
    UUAA------------UUCCA------------------UUAA    1

    
    AA--------------UACAUUUA-----------------UU    1

    
    AAU--A----------GAUU-----------------U--AUU    1

    
    AAUA------------AACC-------------------UAUU    1

    
    AC--------------UCUGUAUA-----------------GU    1

    
    ACGG------------GAAU-------------------CCGU    1

    
    ACU-------------AUUUUAU-----------------A-G    1

    
    AUA-------------UUAAGA------------------UAU    1

    
    AUA-------------UUUCAUGA------------------U    1

    
    AUG-------------UUUUAGGA------------------U    1

    
    CU--------------AUUUAAUU-----------------GG    1

    
    GUA-------------UUUUAAAG------------------U    1

    
    UAA-------------UUUGAU------------------UUA    1

    
    UG--------------AGUUUUCU-----------------CA    1

    
    UGUA------------GAAA-------------------UACA    1

    
    UUA-------------AUUGUGUU------------------A    1

    
    UUA-------------AUUUUAU-----------------U-A    1

    
    UUAG------------GAAC-------------------CUAU    1

    
    AGA-------------UUUAUUAU-------------------    1

    
    AGU-------------AAUUU-------------------ACU    1

    
    AU--------------AUUUUGU------------------AU    1

    
    C---------------GAUAAAUU-----------------UG    1

    
    C---------------GGCAAGGCA-----------------G    1

    
    GAG-------------AGUAU-------------------CUC    1

    
    UAAG------------AUA--------------------CAUA    1

    
    UGAG------------AAAC--------------------UCU    1

    
    A---------------AAUUUAUU------------------U    1

    
    A---------------AGUGAACU------------------C    1

    
    A---------------AGUUUAUU------------------U    1

    
    A---------------GAUUCAUU------------------U    1

    
    A---------------GCUCCGGC------------------U    1

    
    A---------------GGCUUGCU------------------U    1

    
    A---------------GGGUUG-------------CU-----U    1

    
    A---------------GUUUUAUC------------------U    1

    
    A---------------UAGUAAUA------------------U    1

    
    A---------------UAUGAUGA------------------U    1

    
    A---------------UAUUCAUA------------------U    1

    
    A---------------UAUUUGUA------------------U    1

    
    AA--------------UUUCGA-------------------UU    1

    
    AAC-------------CUUG--------------------GUU    1

    
    AAC-------------GCAG--------------------GUU    1

    
    AC--------------AGUAAU-------------------GU    1

    
    AG--------------AACCAU-------------------CU    1

    
    AG--------------AGUCAU-------------------CU    1

    
    AG--------------AGUUAU-C------------------U    1

    
    C---------------UGUCUACA------------------G    1

    
    C---------------UGUUUACC------------------G    1

    
    CGC-------------GCGA--------------------GCG    1

    
    G---------------AACUAAUU------------------C    1

    
    G---------------AAGUUAUU------------------U    1

    
    G---------------AAUCAUUU------------------U    1

    
    G---------------AAUGUAAA------------------C    1

    
    G---------------AAUUUAGU------------------C    1

    
    G---------------AAUUUAUU------------------U    1

    
    G---------------AGCUUGCU------------------C    1

    
    G---------------AGUGUAAA------------------C    1

    
    G---------------AUUUUUGU------------------C    1

    
    G---------------CAGAAUUU------------------C    1

    
    G---------------GAGGUAUC------------------C    1

    
    G---------------GAUUAAUU------------------C    1

    
    G---------------GCUUUAGU------------------C    1

    
    G---------------GCUUUAUU------------------C    1

    
    G---------------GGUUUAUU------------------C    1

    
    G---------------UAUUUAUG------------------C    1

    
    G---------------UAUUUAUU------------------C    1

    
    GA--------------AAAAU-------------------UUC    1

    
    GA--------------UCUCAG-------------------UC    1

    
    GA--------------UUUGUG-------------------UC    1

    
    GAC-------------GUUU--------------------GUC    1

    
    GAU-------------UUCG--------------------GUC    1

    
    GG--------------AGACAU-------------------CC    1

    
    GG--------------AGAUAU-------------------CC    1

    
    GG--------------AGUUAU-------------------CC    1

    
    U---------------AAAGUUAU------------------A    1

    
    U---------------AAUAAUUU------------------A    1

    
    U---------------AUAAUGAU------------------A    1

    
    U---------------AUUUUAUA------------------A    1

    
    U---------------GAACUUUC------------------A    1

    
    U---------------GACUUGUC------------------A    1

    
    U---------------GAUUUAUC------------------A    1

    
    U---------------GAUUUGUC------------------A    1

    
    U---------------GUUUCAAU------------------A    1

    
    U---------------UACUUUUA------------------A    1

    
    U---------------UAGUAAUA------------------A    1

    
    U---------------UAUUUAUA------------------A    1

    
    U---------------UGUUUACA------------------A    1

    
    UC--------------ACUUGU-------------------GA    1

    
    UC--------------AGUGAU-------------------GG    1

    
    UG--------------AGUAAU-------------------CA    1

    
    UU--------------UAAUUU-------------------AA    1

    
    UU--------------UGAUUG-------------------AA    1

    
    UUA-------------CUCG--------------------UAA    1

    
    UUC-------------GAAA--------------------GGA    1

    
    ----------------ACUACGGU------------------U    1

    
    A----------------GUGUACA------------------A    1

    
    A---------------AGUAAU-U------------------G    1

    
    A---------------AUUUA-UU------------------U    1

    
    AU--------------AUGAU--------------------AU    1

    
    C---------------ACUUAGU-------------------G    1

    
    C---------------UUAUAA-------------------GA    1

    
    G---------------AAUUACU-------------------U    1

    
    G---------------AAUUAU------------------U-C    1

    
    G---------------AAUUAUU-------------------C    1

    
    G---------------AAUUUAU-------------------U    1

    
    G---------------CUU-CGGC------------------A    1

    
    GC--------------UGCCU--------------------GC    1

    
    GU--------------UGCCUG--------------------C    1

    
    U---------------ACUUGGU-------------------A    1

    
    U---------------ACUUUGU-------------------A    1

    
    U---------------CUUUUAG-------------------A    1

    
    U---------------GUUUUAU-------------------A    1

    
    UC--------------CUUGU--------------------GA    1

    
    UC--------------UUUUA--------------------GA    1

    
    UG--------------UUUUA--------------------CA    1

    
    UU--------------AAUAAU--------------------A    1

    
    UU--------------CUUA--------------------GAA    1

    
    UUC-------------UUA---------------------GAA    1

    
    A---------------UUUUUU--------------------U    1

    
    C---------------ACUUGC--------------------G    1

    
    C---------------AGUAAU--------------------G    1

    
    C---------------CGCAAG--------------------G    1

    
    C---------------CUUCGA--------------------G    1

    
    C---------------CUUUGG--------------------G    1

    
    C---------------UUAACA--------------------G    1

    
    C---------------UUUCGG--------------------G    1

    
    C---------------UUUUUU--------------------G    1

    
    G---------------AAAAUU--------------------C    1

    
    G---------------AGAAGU--------------------C    1

    
    G---------------AGCAAU--------------------C    1

    
    G---------------AGUAAU--------------------C    1

    
    G---------------AUAAAU--------------------C    1

    
    G---------------AUUAUU--------------------C    1

    
    G---------------AUUUAU--------------------C    1

    
    G---------------AUUUCG--------------------G    1

    
    G---------------GCUUGU--------------------C    1

    
    G---------------GGAAUC--------------------C    1

    
    G---------------GGCAAU--------------------C    1

    
    G---------------UAAAAA--------------------C    1

    
    G---------------UGAGAA--------------------C    1

    
    G---------------UGCUUG--------------------C    1

    
    G---------------UUUCAA--------------------U    1

    
    G---------------UUUCGG--------------------C    1

    
    G---------------UUUGGA--------------------C    1

    
    G---------------UUUUGA--------------------C    1

    
    U----------------------------------GUUUAC-A    1

    
    U---------------AAUAUU--------------------A    1

    
    U---------------AGAAA-U-------------------A    1

    
    U---------------AGAAAU--------------------A    1

    
    U---------------AGCAAC--------------------A    1

    
    U---------------AUAUAU--------------------A    1

    
    U---------------CAUUUG--------------------C    1

    
    U---------------CC-UUGC-------------------A    1

    
    U---------------CUUAG--------------------AA    1

    
    U---------------CUUAGG--------------------A    1

    
    U---------------CUUAGG--------------------G    1

    
    U---------------GCUUAC--------------------G    1

    
    U---------------GCUUCC--------------------A    1

    
    U---------------GUUUGC--------------------A    1

    
    U---------------UUUUAU--------------------A    1

    
    UA--------------CUUGU---------------------A    1

    
    UGC-------------CU----------------------GCA    1

    
    -----------------GCAAUAA-------------------    1

    
    -----------------GUAGUAU-------------------    1

    
    ----------------AGCUUGG--------------------    1

    
    ----------------AGGAAU--------------------C    1

    
    ----------------AGGUAGU--------------------    1

    
    ----------------AGUAGUU--------------------    1

    
    ----------------AGUGGUU--------------------    1

    
    ----------------AUUUAU--------------------U    1

    
    ----------------CUUUAU--------------------A    1

    
    ----------------GGAUAGA--------------------    1

    
    ----------------GUUUUUA--------------------    1

    
    ----------------UGAAAA--------------------U    1

    
    A-----------------UUUAU-------------------A    1

    
    A---------------AACAU---------------------U    1

    
    A---------------UAUUA---------------------U    1

    
    A---------------UUUGUA---------------------    1

    
    A---------------UUUUU-U--------------------    1

    
    C---------------AAUAU---------------------G    1

    
    C---------------AUUUG---------------------G    1

    
    C---------------AUUUU---------------------G    1

    
    C---------------CUUCG---------------------G    1

    
    C---------------CUUGU---------------------G    1

    
    C---------------GUUUA---------------------C    1

    
    C---------------UUAGG---------------------A    1

    
    C-C-------------UUUG----------------------G    1

    
    G---------------AGUGA---------------------U    1

    
    G---------------AUUUC---------------------C    1

    
    G---------------CUUGC---------------------C    1

    
    G---------------GCUUG---------------------C    1

    
    U---------------AGAAAU---------------------    1

    
    U---------------AUAAC---------------------A    1

    
    U---------------AUUAC---------------------A    1

    
    U---------------CUUUG---------------------A    1

    
    U---------------G-AAAA--------------------A    1

    
    U---------------GCUAA---------------------A    1

    
    U---------------GUGAA---------------------A    1

    
    U---------------GUUAU---------------------A    1

    
    U---------------GUUUU---------------------U    1

    
    U---------------UAGAU---------------------U    1

    
    U---------------UAUAU---------------------A    1

    
    U---------------UGUAU---------------------A    1

    
    U---------------UUAAA---------------------A    1

    
    U---------------UUUAG---------------------A    1

    
    U---------------UUUAU---------------------G    1

    
    UC--------------CUUG----------------------U    1

    
    ----------------AAAUAA---------------------    1

    
    ----------------AGCAAU---------------------    1

    
    ----------------AGGAAU---------------------    1

    
    ----------------AUAAGU---------------------    1

    
    ----------------CCAAGU---------------------    1

    
    ----------------CCUUGA---------------------    1

    
    ----------------CGAAGU---------------------    1

    
    ----------------CUUUAU---------------------    1

    
    ----------------GAACAC---------------------    1

    
    ----------------GAGAGC---------------------    1

    
    ----------------GAUAGU---------------------    1

    
    ----------------GCAAUG---------------------    1

    
    ----------------GCAAUU---------------------    1

    
    ----------------GUAAGU---------------------    1

    
    ----------------GUUAUU---------------------    1

    
    ----------------GUUUCA---------------------    1

    
    ----------------GUUUCG---------------------    1

    
    ----------------GUUUGC---------------------    1

    
    ----------------UUAUU---------------------U    1

    
    ----------------UUUAUU---------------------    1

    
    ----------------UUUUAA---------------------    1

    
    ----------------UUUUUU---------------------    1

    
    A---------------CUUU----------------------U    1

    
    A---------------GUAA----------------------U    1

    
    C---------------AAUU----------------------G    1

    
    C---------------GCUUA----------------------    1

    
    C---------------GUAA----------------------G    1

    
    C---------------UUUU----------------------A    1

    
    G----------------CAAA---------------------C    1

    
    G----------------CUUUU---------------------    1

    
    G---------------UUGA----------------------C    1

    
    U----------------UUAU---------------------A    1

    
    U---------------AGCAG----------------------    1

    
    U---------------AUCA----------------------A    1

    
    U---------------AUUU----------------------A    1

    
    U---------------CAGU----------------------A    1

    
    U---------------GA-AA---------------------A    1

    
    U---------------UACC----------------------A    1

    
    U---------------UUUU----------------------A    1

    
    ----------------AUUUU----------------------    1

    
    ----------------CAACA----------------------    1

    
    ----------------CGAAA----------------------    1

    
    ----------------CUUGU----------------------    1

    
    ----------------CUUUA----------------------    1

    
    ----------------GAAAU----------------------    1

    
    ----------------GAUCA----------------------    1

    
    ----------------GCAAC----------------------    1

    
    ----------------GCAAU----------------------    1

    
    ----------------UAUAU----------------------    1

    
    ----------------UCAUA----------------------    1

    
    ----------------UUAGA----------------------    1

    
    ----------------UUGUU----------------------    1

    
    ----------------UUUUA----------------------    1

    
    C---------------UUC-----------------------G    1

    
    C---------------UUU-----------------------A    1

    
    C---------------UUU-----------------------G    1

    
    G---------------AAA-----------------------U    1

    
    G---------------GAA-----------------------U    1

    
    U------------------AGU--------------------A    1

    
    U------------------UAA--------------------A    1

    
    U---------------AAU-----------------------A    1

    
    U---------------AU---A--------------------A    1

    
    U---------------UAA-----------------------A    1

    
    U---------------UU-U----------------------A    1

    
    ----------------AU-UU----------------------    1

    
    ----------------AUCU-----------------------    1

    
    ----------------CAAG-----------------------    1

    
    ----------------CUUG-----------------------    1

    
    ----------------GCAA-----------------------    1

    
    ----------------GUUA-----------------------    1

    
    ----------------UAAC-----------------------    1

    
    ----------------UAAU-----------------------    1

    
    ----------------UCAA-----------------------    1

    
    ----------------UCAU-----------------------    1

    
    A---------------UU------------------------U    1

    
    C---------------UU------------------------G    1

    
    U---------------AU------------------------A    1

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

    
    ------------------UAU----------------------    1

    
    ------------------UUA----------------------    1

    
    ----------------ACU------------------------    1

    
    ----------------AGU------------------------    1

    
    ----------------AUU------------------------    1

    
    ----------------GG------------------------U    1

    
    C---------------A-------------------------G    1

    
    ------------------UA-----------------------    1

    
    -----------------U------------------------U    1

    
    ----------------CU-------------------------    1

    
    ----------------GA-------------------------    1

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

    
    Omitted sequenced and counts

    
    -------------------------------------------  151

    
    ----------------C--------------------------   30

    
    ----------------A--------------------------   14

    
    ----------------U--------------------------    8

    
    ----------------G--------------------------    2

    
    G---------------AUUUCKG------------------UC    1
Click on headings to reorder table
# Matching motif group Acceptance Rate Mean Cutoff Score Full Edit Distance Interior Edit Distance Basepair Diagram and most common annotation
1

Motif group HL_69353.6

Basepair signature:
cWW-s35-s55

14.99 -1860.73 4 4

Mini UNCG

2

Motif group HL_99402.3

Basepair signature:
cWW-s33-s35-cSH-cSH-s35-s35-s35-s35

14.66 -854.46 6 5

Pseudoknot with intercalation

3

Motif group HL_37407.1

Basepair signature:
cWW-s35-tSH-s35-s35

8.90 -649.99 5 4

4

Motif group HL_59297.1

Basepair signature:
cWW-s35-s33-F-F

8.81 -1806.81 6 5

5

Motif group HL_91131.1

Basepair signature:
cWW-s35-cWW-s35-s35-s35-s35

8.73 -1397.04 6 5

tRNA anticodon loop

6

Motif group HL_22447.1

Basepair signature:
cWW-s35-s53-s55

8.07 -978.57 4 3

7

Motif group HL_98252.1

Basepair signature:
cWW-s55-s55-tWW-s35-s53-s35-s55-s53

7.58 -1391.40 7 6

8

Motif group HL_46546.1

Basepair signature:
cWW-s33-F-s35

7.17 -1840.52 5 4

9

Motif group HL_94651.1

Basepair signature:
cWW-s35-s55-tSS-s35-s55

6.84 -1362.17 6 4

10

Motif group HL_33172.1

Basepair signature:
cWW-s35-s55-tSW-s55-F

6.43 -1762.62 7 5

11

Motif group HL_28085.1

Basepair signature:
cWW-s35-s55-s35-s35-F

6.43 -2075.05 6 5

Other HL

12

Motif group HL_55046.1

Basepair signature:
cWW-s35-s35-s55

6.34 -1926.40 5 4

13

Motif group HL_61984.1

Basepair signature:
cWW-s35-s55

6.34 -2010.49 5 4

14

Motif group HL_32255.1

Basepair signature:
cWW-s35-s55-cWW-s33-cWW-F-cSS-s53-s55-s35

6.26 -1275.01 7 5

15

Motif group HL_23219.1

Basepair signature:
cWW-s35-s55-tSW-cSH-s55-cWH-s35-s53-s55

6.26 -2139.66 6 4

16

Motif group HL_18808.1

Basepair signature:
cWW-s55-cWS-s35

6.10 -9999.00 7 6

tRNA D-loop

17

Motif group HL_06569.1

Basepair signature:
cWW-s35-tSH-s35-s55-s35

5.60 -843.42 4 3

18

Motif group HL_61092.1

Basepair signature:
cWW-s55-cWS-s35-F-F

5.60 -1375.90 6 5

tRNA D-loop

19

Motif group HL_54035.5

Basepair signature:
cWW-s35-cWW-s35-s55-s35-s35-s35

5.60 -1614.76 5 4

20

Motif group HL_80105.3

Basepair signature:
cWW-s35-s35-s35-s35-s35

5.60 -2384.36 5 4

21

Motif group HL_97049.1

Basepair signature:
cWW-s55-cWS-s35-cSH

5.52 -1813.54 7 6

22

Motif group HL_94386.1

Basepair signature:
cWW-s35-F-F-s35

5.52 -2954.51 4 3

23

Motif group HL_98557.4

Basepair signature:
cWW-s35-s55

5.02 -1886.27 4 4

24

Motif group HL_36982.3

Basepair signature:
cWW-s35-s55

4.94 -1857.29 4 3

Mini UNCG

25

Motif group HL_02906.1

Basepair signature:
cWW-s35-s33-s35-s55-s35

4.86 -2102.37 5 3

26

Motif group HL_93573.1

Basepair signature:
cWW-s35-s33-s35

4.78 -2265.34 6 4

27

Motif group HL_88225.1

Basepair signature:
cWW-s55-cWS-s35-s35

4.53 -289.37 6 5

tRNA D-loop

28

Motif group HL_33507.2

Basepair signature:
cWW-s35-F-s55

4.45 -2022.05 5 4

29

Motif group HL_15968.1

Basepair signature:
cWW-s35-s55-s33-s35-s53-F

4.20 -1875.53 7 6

30

Motif group HL_18722.1

Basepair signature:
cWW-s35-F

4.20 -2020.69 5 4

Mini UNCG

31

Motif group HL_05667.1

Basepair signature:
cWW-s55

4.12 -2045.54 5 4

32

Motif group HL_57052.2

Basepair signature:
cWW-s35

3.95 -2036.15 4 3

Mini UNCG

33

Motif group HL_93551.1

Basepair signature:
cWW-s35-s53-F-s35-s35-s55

3.95 -2743.76 6 4

34

Motif group HL_34135.1

Basepair signature:
cWW-s35-s55-cWW-s35-tSH-s35-s35-s35

3.79 -262.61 6 5

tRNA anticodon loop with synthetase

35

Motif group HL_99223.1

Basepair signature:
cWW-s33-s55-s35

3.79 -2023.97 4 4

36

Motif group HL_03847.1

Basepair signature:
cWW-s35-s35-s35-s35-s35-s35-s35-s35

3.79 -2912.93 8 6

37

Motif group HL_69677.1

Basepair signature:
cWW-s35-s33-F

3.71 -2765.83 6 4

38

Motif group HL_93229.1

Basepair signature:
cWW-s35-cWW-s35-s55-s35

3.62 -601.94 6 4

39

Motif group HL_46142.7

Basepair signature:
cWW-s35-s35-s35-s35-s35-s35

3.54 -3916.79 4 3

Pseudoknot geometry

40

Motif group HL_33612.1

Basepair signature:
cWW-s35-s55-cWH-F-F-s55

3.46 -665.90 6 4

41

Motif group HL_53987.3

Basepair signature:
cWW-s35-cWS-s35

3.46 -1195.34 5 4

UNCG related

42

Motif group HL_26055.5

Basepair signature:
cWW-s35-s35-s35-s35-s35

3.46 -2981.72 4 3

Purine riboswitch

43

Motif group HL_06920.1

Basepair signature:
cWW-F-s35-s35-s35-s35

3.46 -3106.44 5 4

Pseudoknot geometry

44

Motif group HL_56387.1

Basepair signature:
cWW-s35-cWH-s35-s53-s55

3.38 -769.31 5 4

45

Motif group HL_96283.1

Basepair signature:
cWW-s35-s55

3.38 -2461.53 5 4

Mini UNCG with extended bulge

46

Motif group HL_68304.6

Basepair signature:
cWW-s35-s55-tSH-s35-s35-s35

3.29 -742.48 5 4

GNRA

47

Motif group HL_18495.1

Basepair signature:
cWW-s35-cWW-cSH-s35-s35-s35

3.13 -176.53 6 5

48

Motif group HL_43613.3

Basepair signature:
cWW-s35-s55-tWH-s35-tWH-s53-s35

3.13 -205.11 7 6

49

Motif group HL_56089.1

Basepair signature:
cWW-s55-cWW-s35-F-F-s35

3.13 -1366.92 6 5

50

Motif group HL_73235.1

Basepair signature:
cWW-s35-s55-s35-F-s55

3.13 -2057.96 7 6

51

Motif group HL_96776.2

Basepair signature:
cWW-s35-cSW-s35-s35-F

3.05 -790.80 5 3

52

Motif group HL_35888.1

Basepair signature:
cWW-s35-s55-s33-F-s35-s35

3.05 -2842.37 6 5

53

Motif group HL_44911.1

Basepair signature:
cWW-s35-s55-s33-F-F-F

3.05 -2843.36 6 5

54

Motif group HL_70970.1

Basepair signature:
cWW-F-F-s35

2.97 -2244.93 4 4

55

Motif group HL_01187.1

Basepair signature:
cWW-s35-s55-s35-s35-s55-s35

2.97 -2581.06 6 4

56

Motif group HL_95237.1

Basepair signature:
cWW-s33-s35-s35

2.88 -2019.27 5 4

57

Motif group HL_94352.4

Basepair signature:
cWW-s35-s55-F-F

2.88 -2403.25 5 4

58

Motif group HL_73793.2

Basepair signature:
cWW-s35-tWH-s35-tWH-s33-s35-s35-s35-s35

2.80 -270.54 5 4

T-loop related

59

Motif group HL_22515.1

Basepair signature:
cWW-s35-s55-s33-F

2.80 -2606.63 5 5

60

Motif group HL_62604.1

Basepair signature:
cWW-s35-s55-s53-s53-s35

2.72 -2957.76 5 4

61

Motif group HL_86880.4

Basepair signature:
cWW-s33-s35-s35-s35

2.72 -2960.63 4 3

Pseudoknot geometry with 3' bulge

62

Motif group HL_81327.2

Basepair signature:
cWW-s55-cWS-s35

2.64 -396.46 6 5

tRNA D-loop

63

Motif group HL_36207.1

Basepair signature:
cWW-s35-s55-tSW-s35-s35-s35-s33-s55

2.64 -1587.37 7 5

64

Motif group HL_26501.1

Basepair signature:
cWW-s35-s55-s35-s35-F-F

2.64 -2315.10 7 6

65

Motif group HL_24403.1

Basepair signature:
cWW-s33-s35-s35-s35

2.64 -3532.85 6 5

66

Motif group HL_44730.2

Basepair signature:
cWW-s35-s55-s35

2.55 -1587.76 5 4

67

Motif group HL_05692.1

Basepair signature:
cWW-s35-s55

2.47 -2464.38 5 4

68

Motif group HL_27335.1

Basepair signature:
cWW-s35-cWW-s35-s35

2.39 -419.81 6 5

69

Motif group HL_68493.4

Basepair signature:
cWW-s35-s55-tWH-s35-s55-s35-s35

2.31 -1784.45 5 3.5

T-loop with 2 stacked bulged bases

70

Motif group HL_02361.5

Basepair signature:
cWW-s35-tSH-s35-s35-s35

2.22 -880.23 4 3

GNRA

71

Motif group HL_53760.2

Basepair signature:
cWW-s35-bif-s33-s35-tSH-s35-s35-s35-s35

2.14 -228.36 5 4

72

Motif group HL_28567.3

Basepair signature:
cWW-s35-s55-s35-s35

2.14 -2829.59 5 4

73

Motif group HL_82678.2

Basepair signature:
cWW-s35-s55-s35-F-F

2.14 -2972.46 5 3

74

Motif group HL_75091.3

Basepair signature:
cWW-s35-cSH-s35-s35-s35-s35-s35

2.06 -190.35 6 5

75

Motif group HL_32527.2

Basepair signature:
cWW-s35-s55-tSH-s35-s35

2.06 -922.69 5 4

GNRA related

76

Motif group HL_79272.2

Basepair signature:
cWW-s35-s55-s33-s35

2.06 -3257.52 4 3

77

Motif group HL_73051.1

Basepair signature:
cWW-s35-cWW-s33-cWH-s35-cWH-s53-s35-s35-s35

1.98 -1267.96 7 6

G-quadruplex fragment

78

Motif group HL_23481.4

Basepair signature:
cWW-s35-tSH-s33-s35-F-s35

1.98 -1602.58 5 4

79

Motif group HL_40469.1

Basepair signature:
cWW-s35-s55-F

1.98 -2424.31 6 4

80

Motif group HL_38646.2

Basepair signature:
cWW-s35-s55-s35-s35-s35-s35

1.98 -2605.32 5 4

T-loop related

81

Motif group HL_30541.1

Basepair signature:
cWW-s35-F-F

1.98 -3238.18 5 4

82

Motif group HL_16898.2

Basepair signature:
cWW-s35-s55-tSW-s35-s55

1.89 -874.32 5 4

UNCG

83

Motif group HL_01472.3

Basepair signature:
cWW-s35-tSW-F-s55-s53

1.81 -559.77 6 4

84

Motif group HL_49196.2

Basepair signature:
cWW-s35-cWW-s33-s55-s35

1.81 -565.83 5 4

85

Motif group HL_96487.1

Basepair signature:
cWW-s35-s55-s35

1.81 -2129.06 5 4

tRNA D-loop

86

Motif group HL_09712.1

Basepair signature:
cWW-s35-s55-F

1.81 -2141.29 6 5

87

Motif group HL_17899.1

Basepair signature:
cWW-s35-s35-s35-tSW-s35-s35-s35

1.73 -269.39 6 5

88

Motif group HL_43074.14

Basepair signature:
cWW-s35-s55-tSH-s33-s35-s35-s35

1.73 -711.00 4 3

GNRA

89

Motif group HL_14859.1

Basepair signature:
cWW-s35-s55-F-F-F

1.73 -3825.37 6 5

90

Motif group HL_63285.1

Basepair signature:
cWW-s35-tSH-s35-tSH-s35-s35-F-s35

1.65 -243.26 6 5

T-loop related

91

Motif group HL_69818.1

Basepair signature:
cWW-s35-tSW-s35-s55

1.65 -947.56 5 4

92

Motif group HL_05832.1

Basepair signature:
cWW-s35-cWW-s35-s55-tSW-s35-s55-s35

1.57 -269.87 7 6

93

Motif group HL_52240.1

Basepair signature:
cWW-s35-s55-s35

1.57 -3237.41 5 4

94

Motif group HL_57204.1

Basepair signature:
cWW-s33-F-F-s35

1.57 -3263.78 5 5

Mini UNCG related

95

Motif group HL_79299.9

Basepair signature:
cWW-s35-s55-tSW-s35-s53-s55

1.48 -845.38 4 3

UNCG

96

Motif group HL_01181.4

Basepair signature:
cWW-s35-tWH-s33-s35-s35-s35-s35

1.48 -1378.55 6 5

97

Motif group HL_87219.4

Basepair signature:
cWW-s35-s55-s35-tSH-s35-s35-s35-s35-s35-s35

1.48 -1402.84 6 5

98

Motif group HL_98995.6

Basepair signature:
cWW-s35-s35-s35-s35

1.48 -3144.37 4 4

Ribsomal LSU H95

99

Motif group HL_18218.2

Basepair signature:
cWW-s35-bif-F-F-s35

1.40 -620.77 5 4

100

Motif group HL_12053.1

Basepair signature:
cWW-s35-tSH-s35-s55-s35

1.40 -884.64 6 5

101

Motif group HL_60914.1

Basepair signature:
cWW-F-F

1.40 -1610.16 6 5

102

Motif group HL_96854.1

Basepair signature:
cWW-s35-s55-s35-s33-s35

1.40 -2720.37 7 6

103

Motif group HL_01008.4

Basepair signature:
cWW-s35-s55-s35-F

1.40 -3017.27 4 3

104

Motif group HL_25660.1

Basepair signature:
cWW-s35-s55-tSH-s35-F-s35

1.32 -863.45 6 4

105

Motif group HL_41207.1

Basepair signature:
cWW-s35-cSW-s35-s53-tWH-s35-s55-s35-s53-s33-s35

1.32 -1009.81 6 5

106

Motif group HL_32458.2

Basepair signature:
cWW-s35-s55-s35-cWW-s33-s35-s35-s35

1.32 -1479.21 7 5

107

Motif group HL_68742.1

Basepair signature:
cWW-s33-s35-s35-s35-s35-s35

1.32 -2328.42 7 5

tRNA anticodon loop

108

Motif group HL_68478.1

Basepair signature:
cWW-F-s35

1.32 -2506.10 5 4

109

Motif group HL_34974.1

Basepair signature:
cWW-s35-s55-tSW-s55-s55

1.24 -777.88 5 4

UNCG variation

110

Motif group HL_77081.1

Basepair signature:
cWW-s35-s55-cSW-s35-s55-s35

1.24 -897.15 6 5

UNCG variation

111

Motif group HL_83225.1

Basepair signature:
cWW-s35-s55-s35

1.24 -903.19 5 4

112

Motif group HL_84050.1

Basepair signature:
cWW-s35-s55-cSH-s55

1.24 -1869.53 6 4

Other HL

113

Motif group HL_91503.2

Basepair signature:
cWW-s35-s33-s35-s55-s33-s35

1.24 -2178.48 7 6

114

Motif group HL_12703.2

Basepair signature:
cWW-s35-s55-s35-s35

1.24 -2246.00 5 3

115

Motif group HL_62869.2

Basepair signature:
cWW-s35-s55-s35

1.24 -2653.30 6 4

116

Motif group HL_04891.1

Basepair signature:
cWW-s35-s55-tSH-s35-s35-s35

1.15 -768.74 5 4

117

Motif group HL_03427.1

Basepair signature:
cWW-s55-s35-s35-s33

1.15 -2070.64 7 5

118

Motif group HL_93727.3

Basepair signature:
cWW-s35-s55-tSH-s35-s35-s35-s35-s35

1.15 -2420.41 5 4

GNRA with tandem sheared

119

Motif group HL_60357.1

Basepair signature:
cWW-s33-s35-s35

1.15 -3246.36 5 4

120

Motif group HL_53189.1

Basepair signature:
cWW-s35-s55-s35-s53

1.15 -3428.12 5 4

121

Motif group HL_27747.3

Basepair signature:
cWW-s35-s55-tSW-s35-s53-s55-cSH

1.15 -5055.86 5 4

122

Motif group HL_86769.2

Basepair signature:
cWW-s35-s55-s35-cSS-s35-cSH-s55

1.07 -525.28 6 4

123

Motif group HL_44781.1

Basepair signature:
cWW-s33-s35-cWH-s53-s35-s35

1.07 -942.30 5 4

124

Motif group HL_15942.4

Basepair signature:
cWW-s35

1.07 -1871.87 5 3

125

Motif group HL_46463.1

Basepair signature:
cWW-F-F

1.07 -1880.25 5 4

126

Motif group HL_36552.1

Basepair signature:
cWW-s35-s33-F-s55-F

1.07 -2375.71 7 5

127

Motif group HL_78724.1

Basepair signature:
cWW-s53-s35-s35-s35

1.07 -2501.29 7 5

128

Motif group HL_27757.1

Basepair signature:
cWW-s35-s55-s33-s55-F

1.07 -3021.43 7 5

129

Motif group HL_24625.1

Basepair signature:
cWW-s35-s53-s55

1.07 -3455.43 6 5

130

Motif group HL_50374.1

Basepair signature:
cWW-s35-s55-s35

0.99 -873.88 5 4

131

Motif group HL_67052.1

Basepair signature:
cWW-s35-s55-bif-s35-s35-s35-s35-s35

0.99 -1469.73 6 5

132

Motif group HL_35010.1

Basepair signature:
cWW-s33-tHH-s53-s35-s35-cSH-s35-s35

0.99 -1623.06 7 5

133

Motif group HL_59445.1

Basepair signature:
cWW-s35-s55-F-s35-s35

0.99 -3780.38 6 4

134

Motif group HL_06048.1

Basepair signature:
cWW-s35-s55-s35-cSS-s35-cSS-s55-s35-s35

0.91 -248.99 8 6

135

Motif group HL_00996.1

Basepair signature:
cWW-s35-cWW-s35-s55-s35

0.91 -937.56 5 4

136

Motif group HL_43610.4

Basepair signature:
cWW-s35-cWW-s35-s55-s33-F-s35

0.91 -1095.18 6 5

137

Motif group HL_88858.1

Basepair signature:
cWW-s35-s55-bif-s35-tSW-s55-s35

0.91 -1124.47 7 5

138

Motif group HL_49194.1

Basepair signature:
cWW-s35-s55-s35-s35-s35

0.91 -2381.82 6 5

139

Motif group HL_32617.1

Basepair signature:
cWW-s35-cSH

0.91 -2625.15 4 4

tRNA D-loop

140

Motif group HL_14286.1

Basepair signature:
cWW-s33-F-F-s35

0.91 -3259.94 5 4

141

Motif group HL_67205.1

Basepair signature:
cWW-F-F-s53

0.91 -3803.56 5 4

142

Motif group HL_60140.1

Basepair signature:
cWW-s35-bif-s35-s35-s35

0.82 -521.33 6 5

143

Motif group HL_69774.3

Basepair signature:
cWW-s33-tSW-s35-s35-s35

0.82 -906.77 5 4

Fab BL3-6 binding hairpin with tSW

144

Motif group HL_72066.1

Basepair signature:
cWW-s55-tWH-s33-F-s35-s35-s35

0.82 -1129.83 6 5

145

Motif group HL_41285.1

Basepair signature:
cWW-F-s35

0.82 -3252.64 5 5

146

Motif group HL_16845.5

Basepair signature:
cWW-s33-tHH-s53-s35-s35

0.74 -744.07 5 4

147

Motif group HL_66703.1

Basepair signature:
cWW-s35-s55-tSH-s35-s35-s53-s35

0.74 -1462.87 7 5

148

Motif group HL_41851.1

Basepair signature:
cWW-s35-s55-cWW-s35-s33-s55-s35-s35-s35

0.74 -1661.03 7 5

149

Motif group HL_51033.1

Basepair signature:
cWW-s35-s55-s35-s35-s55-s35

0.74 -2808.48 5 4

150

Motif group HL_39334.4

Basepair signature:
cWW-s35-s55-tSW-s33-s35-s33-cWS-s35-s55

0.74 -3521.98 6 5

151

Motif group HL_05018.4

Basepair signature:
cWW-s35-cSW-s35-s35-s35-s35-s35

0.66 -1585.56 6 5

152

Motif group HL_02733.4

Basepair signature:
cWW-s35-s55-s35-s35

0.66 -2012.76 5 4

153

Motif group HL_25183.1

Basepair signature:
cWW-s35

0.66 -2155.17 6 4

154

Motif group HL_38513.1

Basepair signature:
cWW-s53-F-s35-s35-s35-s35-s35

0.66 -2832.76 7 6

Pseudoknot geometry

155

Motif group HL_78457.3

Basepair signature:
cWW-s35-tWH-s55-tSH-s35-s35-s35

0.58 -207.50 6 5

156

Motif group HL_06645.1

Basepair signature:
cWW-s35-cWW-F-F-s35

0.58 -568.45 6 5

157

Motif group HL_43527.1

Basepair signature:
cWW-cSH-s35-s35-s35-s35

0.58 -752.50 5 4

158

Motif group HL_80705.1

Basepair signature:
cWW-s35-s55-tWW-s35-s35-s53-s55

0.58 -1095.23 7 6

Pseudoknot

159

Motif group HL_56500.1

Basepair signature:
cWW-s35-cWW-s35-s55-s55-cSH-s35

0.58 -1957.24 7 6

160

Motif group HL_90961.1

Basepair signature:
cWW-s35-s55-tSW-s55

0.58 -2158.91 6 4

161

Motif group HL_46771.1

Basepair signature:
cWW-s35-cSW-tSS-cSS-s55-s35

0.58 -2425.95 6 6

162

Motif group HL_53499.1

Basepair signature:
cWW-s55-F

0.58 -2766.28 8 6

163

Motif group HL_30937.1

Basepair signature:
cWW-s35-s35-s35-s35

0.58 -3150.03 5 4

164

Motif group HL_08002.5

Basepair signature:
cWW-s35-tWH-F-F-s35-s35

0.49 -266.88 5 4

T-loop with unstacked turn

165

Motif group HL_42733.3

Basepair signature:
cWW-s35-s35-tSH-s35-s35-s35-s35

0.49 -315.84 5 4

GNRA with extra near cWW

166

Motif group HL_27359.1

Basepair signature:
cWW-s55-cWS-s35-s55

0.49 -381.37 7 6

tRNA D-loop

167

Motif group HL_50537.2

Basepair signature:
cWW-s35-bif-F-F-s35-s35

0.49 -1353.08 6 5

tRNA anticodon loop with synthetase

168

Motif group HL_69941.1

Basepair signature:
cWW-s35-s55-s35

0.49 -1871.61 5 4

169

Motif group HL_35188.1

Basepair signature:
cWW-s55-s35-s33-F

0.49 -2216.24 8 7

tRNA D-loop

170

Motif group HL_80171.1

Basepair signature:
cWW-s53-s35-s35-s33

0.49 -3437.08 5 4

171

Motif group HL_50622.6

Basepair signature:
cWW-s35-s35-s35-s35-s35-s35-s35-s35-s35

0.49 -3653.57 7 5

172

Motif group HL_35894.3

Basepair signature:
cWW-s35-cSW-s33-F-s35

0.41 -770.80 4 4

173

Motif group HL_73266.3

Basepair signature:
cWW-s35-cWW-s35-cSW-cSH-s55-s35-s35-s35

0.41 -1179.12 6 5

174

Motif group HL_31286.3

Basepair signature:
cWW-s35-s55-tWH-s33-s35-s35-s35-s35-s35-s35

0.41 -1517.83 6 5

175

Motif group HL_58912.1

Basepair signature:
cWW-s35-s55-F

0.41 -1884.30 5 4

176

Motif group HL_98248.1

Basepair signature:
cWW-s35-s33-s55-s55-tHW-s55-s35-s35-s35-cSH-s35

0.41 -2047.49 7 6

177

Motif group HL_97733.1

Basepair signature:
cWW-s35-s55-s35-s35-s35-cSH-s55

0.41 -2199.91 8 6

178

Motif group HL_53037.1

Basepair signature:
cWW-F-s35-s35-F-s55

0.41 -2560.78 7 6

Pseudoknot

179

Motif group HL_32512.6

Basepair signature:
cWW-s35-s35-s35-s35-s35

0.41 -3169.12 5 4

Pseudoknot geometry

180

Motif group HL_69459.1

Basepair signature:
cWW

0.41 -4676.55 6 4

181

Motif group HL_17956.1

Basepair signature:
cWW-s35-tSH-s33-s55-tHS-s33-F-s35-s35

0.33 -226.80 7 6

182

Motif group HL_67044.1

Basepair signature:
cWW-s35-cWW-s35-s33-F-s35

0.33 -1669.94 6 5

183

Motif group HL_86378.1

Basepair signature:
cWW-s35-s55-cSH

0.33 -2305.92 7 5

184

Motif group HL_36095.1

Basepair signature:
cWW-s53-s55-s33-F-F-s55

0.33 -2353.06 7 5

185

Motif group HL_19239.1

Basepair signature:
cWW-s55-s35-F-F-F-F

0.33 -2423.21 8 6

tRNA D-loop

186

Motif group HL_50959.1

Basepair signature:
cWW-s33-s35-s35-s35

0.33 -2711.46 5 4

187

Motif group HL_81820.1

Basepair signature:
cWW-s35-tSH-s55-tHW-s35-tHW-s33-s35-cSH-s35-s35-s35-s35-s35

0.25 -165.37 7 6

188

Motif group HL_43488.1

Basepair signature:
cWW-s35-s33-s35-cWW-s35-s55-s35-F-F-F-s35

0.25 -1366.08 8 7

189

Motif group HL_68529.1

Basepair signature:
cWW-s35-s55

0.25 -1901.27 5 4

Mini UNCG

190

Motif group HL_51090.1

Basepair signature:
cWW-s55-cWS-s35-F

0.25 -1996.40 8 6

tRNA D-loop

191

Motif group HL_26772.1

Basepair signature:
cWW-s35-s55-tSH-s55-s33-s35-F-s35-s35-s35-s35

0.25 -2423.80 7 6

192

Motif group HL_98885.3

Basepair signature:
cWW-F-s35-s35-s35-s35-s35-s35-s35

0.25 -2553.50 8 6

Pseudoknot geometry

193

Motif group HL_22576.1

Basepair signature:
cWW-s35-s55-s55-F-s55-s35-F-s35

0.25 -2556.28 8 6

194

Motif group HL_35491.2

Basepair signature:
cWW-s33-s35-s55-s35-s35

0.25 -2906.28 6 5

195

Motif group HL_46891.2

Basepair signature:
cWW-s35-s35-s35-s35-s35-s35

0.25 -3146.83 5 4

196

Motif group HL_76360.1

Basepair signature:
cWW-F-F-F

0.25 -3250.13 5 4

197

Motif group HL_20891.1

Basepair signature:
cWW-s35-s53-s33-F-s55-s35-s53-s55

0.25 -3635.21 8 6

198

Motif group HL_17926.4

Basepair signature:
cWW-s35-s35-s35-s35-s35-s35-s35

0.25 -3838.30 6 4

199

Motif group HL_37694.1

Basepair signature:
cWW-s35-cWW-s35-tSH-s35-s35-s35-F-s35

0.16 -212.23 6 5

T-loop related

200

Motif group HL_19958.1

Basepair signature:
cWW-s35-cWW-s35-s55-cWS-s35-s35-s35

0.16 -217.72 7 6

201

Motif group HL_20743.2

Basepair signature:
cWW-s35-s55-s35-cSS-s35-s55-s35

0.16 -253.01 5 4

202

Motif group HL_78061.2

Basepair signature:
cWW-s35-s55-tWH-s35-s55-s35-s35-s35-s33

0.16 -915.87 7 6

T-loop with 3 stacked bulged bases

203

Motif group HL_90620.1

Basepair signature:
cWW-s35-s55-cWW-s35-s35-cSW-cSH-s53-s35-s35-s35-s35

0.16 -966.74 8 7

204

Motif group HL_04171.2

Basepair signature:
cWW-s35-s55-cWW-s35-s55-s35-cSS-s35-cSS-s55-s35-s35

0.16 -1188.79 6 6

205

Motif group HL_86843.1

Basepair signature:
cWW-s35-tSH-s55-s35-s35-s35

0.16 -1194.68 8 6

206

Motif group HL_37846.1

Basepair signature:
cWW-s35-tWW-s35-s35-s53-s55

0.16 -1207.47 8 6

Pseudoknot

207

Motif group HL_66171.2

Basepair signature:
cWW-s35-s55-s33-s35

0.16 -1431.14 7 5

208

Motif group HL_67216.4

Basepair signature:
cWW-s35-s55-tSH-s35-s55-s35-s35

0.16 -1566.82 5 4

209

Motif group HL_36421.4

Basepair signature:
cWW-s35-tSH-s33-s35-s35-s35-s35

0.16 -1851.70 5 4

210

Motif group HL_89082.1

Basepair signature:
cWW-s35-cWW-s35-s35-s35-F-s35-s35-s35

0.16 -1867.74 9 8

211

Motif group HL_24323.1

Basepair signature:
cWW-s33-tWW-s55-s35-s35-s35-s35-s35-s35

0.16 -2028.81 7 6

212

Motif group HL_58200.1

Basepair signature:
cWW-s35-s35-s55

0.16 -2100.94 7 6

213

Motif group HL_49816.1

Basepair signature:
cWW-s33-s55-s33

0.16 -2215.59 6 5

214

Motif group HL_83704.1

Basepair signature:
cWW-s35-s55-s35-s35-cSS-s35-F

0.16 -2534.29 7 6

215

Motif group HL_90197.1

Basepair signature:
cWW-s55-s35

0.16 -2603.05 5 4

216

Motif group HL_92681.4

Basepair signature:
cWW-s35-s35-s35-s35-s35

0.16 -2996.83 5 4

GNRA variation

217

Motif group HL_18785.1

Basepair signature:
cWW-s35-s35

0.16 -3023.16 6 5

218

Motif group HL_07579.1

Basepair signature:
cWW-s35-s55-cWW-s35-s35-s35-s35-s35-s35-s35-s35-s35-s35

0.16 -3322.99 11 10

219

Motif group HL_03603.1

Basepair signature:
cWW-s35-s35-F-s35-s35-s35-s35-s35-s35-s35-s35-s35

0.16 -4431.38 10 9

Pseudoknot geometry

220

Motif group HL_49992.1

Basepair signature:
cWW-s35-cWW-s35-tWH-s35-tWH-s33-s35-s35-s35-s35-s35

0.08 -216.48 7 6

221

Motif group HL_90642.4

Basepair signature:
cWW-s35-tWH-s35-s55-s35-s35

0.08 -230.40 7 5

222

Motif group HL_76406.3

Basepair signature:
cWW-s35-s33-s53-s53-cWH-s55-s35

0.08 -235.26 7 6

223

Motif group HL_30819.1

Basepair signature:
cWW-s35-cSH-s35-tSS-s55-s33-s53-s55

0.08 -240.90 7 6

Anticodon loop related

224

Motif group HL_55511.1

Basepair signature:
cWW-s55-cWS-s35-s53

0.08 -417.69 6.5 5

tRNA D-loop

225

Motif group HL_49213.1

Basepair signature:
cWW-s35-tSH-s55-s33-tHW-s35-s35-s35-s35

0.08 -1097.71 7 6

226

Motif group HL_41778.1

Basepair signature:
cWW-s55-cWS-s35-s35-tSW

0.08 -1127.20 7 6

227

Motif group HL_23537.2

Basepair signature:
cWW-s35-tWH-s35-s35-s33-s35-s35

0.08 -1148.23 7 6

T-loop with unstacked turn

228

Motif group HL_10751.2

Basepair signature:
cWW-s55-cWS-s35-F-s33

0.08 -1198.49 8 6

tRNA D-loop

229

Motif group HL_08748.1

Basepair signature:
cWW-s35-cWW-s35-tSH-s33-s35-s35-F-s35-s35

0.08 -1214.64 6 5

Anticodon loop related

230

Motif group HL_33239.14

Basepair signature:
cWW-s35-tWH-s35-s55-s35-s35-s35

0.08 -1217.24 5 4

T-loop with 2 stacked bulged bases

231

Motif group HL_07432.1

Basepair signature:
cWW-s35-s55-cWS-s35-cSH-s35-s35

0.08 -1395.50 10 9

232

Motif group HL_67265.4

Basepair signature:
cWW-s33-s35-s55-tHW-s35-s35-s35-s35-s35-s35-s35

0.08 -1402.16 7 5

233

Motif group HL_49223.1

Basepair signature:
cWW-s33-tHH-s53-s35-s35-s35-s35

0.08 -1542.50 7 6

234

Motif group HL_14725.1

Basepair signature:
cWW-s35-cWW-s33-s53-s35-s35-s35-s35

0.08 -1732.82 7 5

235

Motif group HL_48636.1

Basepair signature:
cWW-s53-F-cWH-s55

0.08 -2211.22 7 6

236

Motif group HL_08510.1

Basepair signature:
cWW-s35-cSH-s53-s53-F-s55

0.08 -2440.27 6 5

237

Motif group HL_44769.1

Basepair signature:
cWW-s35-s33-s35-s35-s35

0.08 -2731.59 7 6

Pseudoknot geometry

238

Motif group HL_94032.1

Basepair signature:
cWW-cSH-s35-s35-s35-s35-s35-s35-s35

0.08 -2987.55 8 6.5

239

Motif group HL_30596.1

Basepair signature:
cWW-s35-s55-F-F-s35-F

0.08 -3340.50 8 7

240

Motif group HL_29487.1

Basepair signature:
cWW-s35-F-s35-s55

0.08 -3509.09 5 4

Mini UNCG

241

Motif group HL_72714.2

Basepair signature:
cWW-s35-s55-cWW-cWH-s53-s35-s35-s35-s35-s35-s35-s35

0.00 -161.35 8 6

242

Motif group HL_42671.1

Basepair signature:
cWW-s33-F-s35-tSS-s55-s33-s35

0.00 -172.92 9 8

243

Motif group HL_92304.3

Basepair signature:
cWW-s35-s55-cSW-s35-tSH-s35-s35-s35-s35-s35

0.00 -178.04 7 6

244

Motif group HL_17086.2

Basepair signature:
cWW-s35-cWW-s35-s55-s35-tSH-s35-tSH-s35-s35-s35-s35-s35-s35-s35

0.00 -178.23 8 7

245

Motif group HL_58446.1

Basepair signature:
cWW-s35-s35-tSW-s35-s53-F-F-s35-s35-s35

0.00 -212.95 10 8

246

Motif group HL_08602.1

Basepair signature:
cWW-cSS-s35-s35-s35-s35-s35-cSS-s35-s55

0.00 -217.87 9 8

247

Motif group HL_56677.4

Basepair signature:
cWW-s35-s55-tSH-tWH-s35-tSH-s55-s33-s35-s55-tHW-s35-tHW-s33-tSW-s35-s35-s35-cWH-s53-s35-s35

0.00 -247.23 10 9

248

Motif group HL_92488.1

Basepair signature:
cWW-s35-cWW-s35-s55-s55-s35-s35-cSS-s35-cSS-s35-F-s35

0.00 -293.55 11 10

249

Motif group HL_06137.1

Basepair signature:
cWW-s35-s55-cWH-s33-s33-cHW-cWH-s35-cHW-cWH-cWH-s35-cWH-s33-s55-s55-cHW-s33-cWH-s53-s35-s33-cWH-s53-s35-s33-s55

0.00 -485.84 17 15

G-quadruplex

250

Motif group HL_01925.1

Basepair signature:
cWW-s35-tSH-s33-s35-s35-s35-cHW-cWH-s35-cHW-cWH-s53-s33-cWH-cHW-cWH-s35-cWH-s53-s33-cHW-cWH-tSH-s35-cWH-s53-s33-cHW-s35-s33-s35

0.00 -545.73 20 19

G-quadruplex

251

Motif group HL_79564.1

Basepair signature:
cWW-s35-tSH-s33-s35-s35-s35-cHW-cWH-tSH-s35-cHW-cWH-s53-s33-cWH-cHW-cWH-s35-cWH-s53-s33-cHW-cWH-tSH-s35-cWH-s53-s33-s33-cHW-s35-s33-s35

0.00 -598.79 22 21

G-quadruplex

252

Motif group HL_22443.1

Basepair signature:
cWW-s33-s35-s55-tWH-s35-tWH-s35-s55-s35-s35-s35-F

0.00 -854.28 9 8

253

Motif group HL_86109.1

Basepair signature:
cWW-s35-s55-s35-s35-s35-s35-tWH-s35-s55-s35

0.00 -865.55 9 8

254

Motif group HL_19870.4

Basepair signature:
cWW-s35-s55-tSH-s33-tHH-s53-s53-tWW-s35-s35-s35-s35-s35

0.00 -888.25 9 8

255

Motif group HL_81205.2

Basepair signature:
cWW-s35-s55-cWW-s35-s35-tWH-s35-tWH-s35-s55-s35-s35-s35-F-F-s35

0.00 -902.78 10 9

256

Motif group HL_93650.1

Basepair signature:
cWW-s35-s55-s35-s35-s35-s35-s35-s35-s35-tWH-s35-s55-s35

0.00 -919.01 10 9

257

Motif group HL_30585.1

Basepair signature:
cWW-s35-s55-s35-s35-s35-cSS-s35-cSW-s35-s55-s35-s35-s35-s35-s35

0.00 -958.42 12 10

258

Motif group HL_74088.1

Basepair signature:
cWW-s35-s55-cWH-s33-s33-cHW-cWH-s53-s35-cHW-cWH-s53-cWH-s35-cWH-s33-tSW-s55-s55-cHW-s33-cWH-s35-s33-cWH-F-s35-s33-s55-F

0.00 -986.04 17 15

G-quadruplex

259

Motif group HL_46465.1

Basepair signature:
cWW-s33-cHW-s55-s35-cWH-s53-s35-cHW-cWH-s53-s35-cWH-s35-cWH-s53-tWW-F-s55-cWH-s35-cWH-s35-tWW-s35-tHH-s53-s35-s53-tSW-s55-s55-s33-cSH-s35-s35

0.00 -1102.06 17 17

260

Motif group HL_85984.1

Basepair signature:
cWW-s35-s55-cWW-s35-s55-cWW-s35-s35-F-s35-s35

0.00 -1125.17 10 9

261

Motif group HL_98870.1

Basepair signature:
cWW-s35-s55-tSH-s33-s33-s55-s55-tWW-s35-F-s35-s53-s55-s35-s35

0.00 -1151.95 11 10

262

Motif group HL_12710.1

Basepair signature:
cWW-s35-cSH-s55-cWW-s35-s35-s35-s55-tSH-s35-s35-s35-s35-s35-s35-s35-s35

0.00 -1178.16 11 9

263

Motif group HL_19398.1

Basepair signature:
cWW-s35-tSH-s35-s55-cWS-s35-cSH-s35

0.00 -1296.78 8 7

264

Motif group HL_02483.1

Basepair signature:
cWW-s55-tWH-cSH-s33-s35-s35-s35

0.00 -1394.69 8 7

265

Motif group HL_72419.1

Basepair signature:
cWW-s35-tSH-s33-tHH-s53-s35-s33-s35-s35-s35

0.00 -1412.74 8 7

266

Motif group HL_20714.1

Basepair signature:
cWW-s35-cWW-s35-tWH-s33-s35-s35-s35-s35-s35-s35-s35

0.00 -1416.46 9 8

267

Motif group HL_70505.1

Basepair signature:
cWW-s35-cWW-s35-tWW-s35-s35-s35-F-s55-s35

0.00 -1416.77 8 7

268

Motif group HL_12571.1

Basepair signature:
cWW-s35-s55-tSH-s35-s55-cWS-s35-tSW-s35-s33-F-F-s35

0.00 -1447.35 10 9

tRNA D-loop

269

Motif group HL_70682.1

Basepair signature:
cWW-s35-tWH-s53-s33-s35-s55-s35

0.00 -1540.58 7 6

270

Motif group HL_60326.1

Basepair signature:
cWW-s35-cWW-s35-s55-tWH-s35-s33-s35-s35

0.00 -1567.84 9 8

271

Motif group HL_08291.1

Basepair signature:
cWW-s35-s55-tWH-s33-s35-s35-s35-s35-s35-s35-F

0.00 -1728.69 8 7

272

Motif group HL_31581.4

Basepair signature:
cWW-s35-s55-s35-s55-s35

0.00 -1743.46 8 7

273

Motif group HL_96423.1

Basepair signature:
cWW-s35-s55-tSH-s33-s35-s35-s35-s35-F-s35

0.00 -1847.29 8 7

274

Motif group HL_20751.1

Basepair signature:
cWW-tHW-F-s35-s35-s35-s35-s35-s35-s35-s55

0.00 -1850.49 11 9

275

Motif group HL_48810.1

Basepair signature:
cWW-s55-s35-s35-F

0.00 -1860.58 7 6

tRNA D-loop

276

Motif group HL_48376.3

Basepair signature:
cWW-s35-s55-tSH-s33-s35-s35-s35-s35-s35-s35

0.00 -1893.62 7 5

277

Motif group HL_05123.1

Basepair signature:
cWW-s35-cWW-s35-s35-s35-s35-s35-s35

0.00 -1919.42 7 6

278

Motif group HL_59710.7

Basepair signature:
cWW-s35-bif-s35-s35-s35-s35-s35-s35

0.00 -1920.65 5 4

tRNA anticodon loop

279

Motif group HL_23090.1

Basepair signature:
cWW-s35-s55-tSH-s33-s33-s35-s35-s35-s35

0.00 -1928.95 7 5

280

Motif group HL_52657.1

Basepair signature:
cWW-s35-s55-tSH-s33-s35-tSH-s33-s55-bif-s35-s35-s35-F-s35-s35-s35-s35-s35

0.00 -1964.73 12 11

281

Motif group HL_10536.1

Basepair signature:
cWW-s35-cWW-s35-s55-s35-s35-s33-F-s35

0.00 -1996.81 7 5

282

Motif group HL_12870.1

Basepair signature:
cWW-tHW-F-s35-s35-s35-s35-s35-s53-s35-s35-s35

0.00 -2343.50 9 8

283

Motif group HL_94607.1

Basepair signature:
cWW-s35-s55-s35-F-s53

0.00 -2361.86 8 6

284

Motif group HL_28843.1

Basepair signature:
cWW-s35-s55-tSH-s33-s33-s55-tHW-s35-s35-s35-s35-s35-s35-s35-s35-cSH-s35-s35

0.00 -2397.68 11 10

Pseudoknot geometry with G-bulge

285

Motif group HL_93436.1

Basepair signature:
cWW-s35-F-s35-s35

0.00 -2476.11 6 5

T-loop with 2 stacked bulged bases

286

Motif group HL_02811.1

Basepair signature:
cWW-F-F

0.00 -2484.27 7 5

287

Motif group HL_82782.1

Basepair signature:
cWW-s55-s35-tSH-s33-s55-tHS-s33-F-s55-F-s35-s35-F-s35-s35-s35-s35

0.00 -2628.81 14 13

288

Motif group HL_58539.1

Basepair signature:
cWW-s53-s55-tWS-tHW-F-F-s55-s33-s35-s35-s35-s35-s35-s35

0.00 -2663.98 11 10

289

Motif group HL_19162.2

Basepair signature:
cWW-s35-s55-tSH-F-F-s35-s35-s35-s35-s35-s35-s35

0.00 -2723.18 8 7

290

Motif group HL_35978.6

Basepair signature:
cWW-s35-s55-s35-s55-s35-s35-s35

0.00 -2749.78 8 7

U1 small nuclear ribonucleoprotein A binding hairpin

291

Motif group HL_38011.1

Basepair signature:
cWW-s35-cWW-s35-F-F-s35-s35-s35-s35

0.00 -2800.14 10 9

292

Motif group HL_12773.1

Basepair signature:
cWW-s35-cWW-s35-s55-s35-s55-s33-s35-s35-s35

0.00 -2976.16 10 8

293

Motif group HL_88982.1

Basepair signature:
cWW-s35-s55-s35-s33-s35-s35

0.00 -3061.82 9 8

294

Motif group HL_63693.1

Basepair signature:
cWW-s35-s35-s35-s35-s35-s35

0.00 -3093.70 7 6

Pseudoknot geometry

295

Motif group HL_52853.1

Basepair signature:
cWW-s55-s35-s35-F

0.00 -3191.86 8 7

tRNA D-loop

296

Motif group HL_82866.1

Basepair signature:
cWW-s35-s55-cWW-s35-s55-tWW-s35-s35-s35-s33-s35-s35-s35-s35-s35-s35-s33-s55-s35

0.00 -3342.80 11 10

297

Motif group HL_51284.1

Basepair signature:
cWW-F-s35-s35-s35-s35-s35-s35

0.00 -3374.51 8 7

298

Motif group HL_59564.1

Basepair signature:
cWW-s35-s55-cSS-s35-cSS-s35-s35-s35-s35-s35-s35-s35-s35-s35-s35-s35-s35

0.00 -3431.28 15 14

299

Motif group HL_00317.1

Basepair signature:
cWW-s35-s55-cSS-s35-s35-s35-s35-s33-s35-s35-s35-s35-s35-s35-s35

0.00 -3460.62 15 14

300

Motif group HL_25466.1

Basepair signature:
cWW-s35-s55-s35-s33-F-s35-F-F

0.00 -3512.08 8 7

U1 small nuclear ribonucleoprotein A binding hairpin

301

Motif group HL_48962.1

Basepair signature:
cWW-s35-s55-s33-s55-s35-s35-s53

0.00 -3531.91 8 7

302

Motif group HL_11805.2

Basepair signature:
cWW-s35-s55-s35-s33-s53-F-s35-s35

0.00 -3582.31 7 6

303

Motif group HL_68863.1

Basepair signature:
cWW-s35-s55-s35-s35-s35-s35-s35-s35-F

0.00 -3725.90 9 8

304

Motif group HL_72451.4

Basepair signature:
cWW-s35-s55-s33-s35-s35

0.00 -3746.42 6 4

305

Motif group HL_49873.1

Basepair signature:
cWW-s35-s55-tSH-cWS-s35-cWS-s35-s35-s35

0.00 -3794.88 9 7

tRNA D-loop

306

Motif group HL_07268.1

Basepair signature:
cWW-s35-s55-s35-s35-s35-s53-s53-s35-s35

0.00 -3853.13 8 7

307

Motif group HL_93221.1

Basepair signature:
cWW-s35-s35-s35-s35-s35-F-F-s35-s35-s35

0.00 -4196.06 10 8

308

Motif group HL_42211.1

Basepair signature:
cWW-s35-s55-s35-s35-s55-F-F-F-F-s35

0.00 -4239.38 10 9

309

Motif group HL_90257.1

Basepair signature:
cWW-s35-s55-tSH-s33-s33-s55-s35-s35-s35-s35-s35-F-F-s35-s35

0.00 -4274.98 13 12

Pseudoknot geometry with G-bulge

310

Motif group HL_58733.1

Basepair signature:
cWW-s55-s33-s35-s55-s35-F-F-F-F-s35-s35

0.00 -4627.66 11 9

Coloring options: