RNA 3D Hub

JAR3D Query RF03087-3.98 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 6 4-way junction loop

Column numbers: 87-112, 186-188, 251-256, 298-346 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    GGAAUGAAGCU--------------C*G-C*G-A-AG*U-GAAAGUAA--------------------------------------C   17

    
    CGGAAAAUG----------------A*U-U*C-G-AG*C-AAGAUUAA--------------------------------------G   11

    
    GGAAUAAAGCU--------------C*G-C*G-A-AG*U-GAAAGUAA--------------------------------------C    6

    
    GGAAGCUGU----------------G*U-U*A-GAA-*A-ACACAGAA--------------------------------------C    6

    
    CGUGCUAAAUCGCU-----------C*G-G*G-A-AU*A-AAGACGUU--------------------------------------G    5

    
    UGAAUUG------------------A*U-U*G-A-AG*C-AACAAAGU--------------------------------------G    4

    
    UUAAA--------------------C*GAG*U-ACGA*U-GAAUU--A--------------------------------------A    4

    
    CGGAAAGCCA---------------C*G-U*G-A-AG*C-AACGGCAAA-------------------------------------G    3

    
    UUGAAUGUAG---------------A*U-U*A-A-AG*C-AAAUACAAG-------------------------------------A    3

    
    AGUAAUUUC----------------C*G-G*G-G-AG*C-AACAAAAA--------------------------------------U    3

    
    CUGAAUG------------------A*UUG*U-U-CU*G-AGUAUCAAG-------------------------------------G    3

    
    UGAAUGCAG----------------A*U-U*A-U-AG*C-AAGUGCAA--------------------------------------G    3

    
    UGGUAACG-----------------A*U-U*G-A-AG*C-AACAAUGC--------------------------------------C    3

    
    UGGUGACG-----------------A*U-U*G-A-AG*C-AACAAUGC--------------------------------------C    3

    
    UACAUAAUUCC--------------C*-UU*G-U---*--UAAGAAGAUUGAGGGUGU----------------------------A    2

    
    UCUUAAUAACUACU-----------A*U-U*A-G-CA*G-UAGAGAGA--------------------------------------A    2

    
    GUGUGACGGAA--------------C*G-U*G-G-AG*C-AACUUCAGGG------------------------------------C    2

    
    CGAAAAGUGCU--------------C*G-C*G-A-AU*A-GAAAGUAAA-------------------------------------G    2

    
    AACCUCUAAUU--------------C*GA-*--UCAG*U-GCGUGGGU--------------------------------------U    2

    
    CGGAACGCCA---------------C*G-U*G-A-AG*C-AACGGCAAA-------------------------------------G    2

    
    CGUGAUUCAG---------------A*U-U*G-G-AG*C-AACUGAAGG-------------------------------------G    2

    
    GGUAGUACUC---------------A*U-G*G-A-AG*C-AACAGUAAA-------------------------------------C    2

    
    GCUAAACAAGG--------------C*G-U*G-A-AU*A--AACUUAA--------------------------------------C    2

    
    GGAAUAUUC----------------A*U-G*G-A-AG*C-AACAACAAA-------------------------------------C    2

    
    UGGAUGUCG----------------G*C-U*A-UACU*U-AAAGACAA--------------------------------------G    2

    
    ACAACCGGA----------------G*U-U*G-G-AG*C-AAUCGAAG--------------------------------------U    2

    
    AGUAGUUUC----------------U*A-G*G-G-AG*C-AACAAAAA--------------------------------------U    2

    
    GGUACUUUC----------------A*U-G*G-G-AG*C-AACAAAAA--------------------------------------C    2

    
    UGAAUAGUG----------------G*U-U*G-UAAG*C--AAAACAU--------------------------------------G    2

    
    UGAAAUGGU----------------C*G-U*G-A-A-*U-AAAUCAAA--------------------------------------G    2

    
    UGAAUAGUG----------------G*U-U*U-A-AG*C-AAAA-CAU--------------------------------------G    2

    
    UGGUGAUG-----------------A*U-U*G-A-AG*C-AACAACGC--------------------------------------C    2

    
    GGUAAUG------------------A*U-U*G-A-AG*C-AACAAUUC--------------------------------------U    2

    
    UCAAGG-------------------A*U-U*G-A-AG*C-AACCGAGCA-------------------------------------G    2

    
    UGAAAUGGU----------------C*G-U*G-A-A-*--AAAUCAAA--------------------------------------G    2

    
    UUAAACCC------------------*A-G*U-ACGA*U-GAA--UUA--------------------------------------A    2

    
    CGCA---------------------C*G-U*G-GAUG*CAAAGCG--A--------------------------------------G    2

    
    GAUUA--------------------A*U-U*G-A-AG*C-AACAAU----------------------------------------C    2

    
    ACCUAUAAAUAAUACUCACAUUCCUG*U-G*G-A-AA*G-AAAAGGAUG------------------------------------GU    1

    
    UCUAGUCACAUAUGACAAAUUAG--A*UUU*A-CAAG*C-AAGUAAGUG-------------------------------------G    1

    
    ACCCACCUGCGGGUAAGAAU-----A*AAA*G-CCAC*A--AUGGUUCU-----------------------------------GGG    1

    
    CUAAGGGCGACCGAAAGUCCUAA--A*UAC*G---AC*G-UGUGAAGAU-------------------------------------G    1

    
    CUCCUAAUCAAGACGCCCCCUG---C*G-C*C-AACG*C-GCCGGCCGG-------------------------------------G    1

    
    UAGGGUUAAUCUCGUAAAGCGG---C*AAA*C-U-AC*G-UGCCGUGGG-------------------------------------G    1

    
    UCUACCAUUGUUAUGGGAAGCAG--A*U-U*U-A-CG*C-AAGUGUGUG-------------------------------------G    1

    
    CCUUCGCUUUCGAGCGUACUACG--C*GCU*U-U--G*C-UGUUAG-AG-------------------------------------G    1

    
    UACAUAAUUCU--------------C*AAU*U-C-AU*G-AAAGAAGAUUGAGAGUGU----------------------------A    1

    
    ACCGCUCGAAGAGAGUGGUCUAG--A*U-G*C-U-GC*U-----AGAGG-------------------------------------U    1

    
    UACAUAAUUCC--------------U*AAU*U-C-A-*--UAAGAAUAUUGAGGGUGU----------------------------A    1

    
    AUCUGCCUUAAGAC--------UCUC*G-G*G-A-AU*A-AAGAAGCA-------------------------------------UU    1

    
    UCUUAAUAACUACU-----------A*UUU*GAG-CA*G-UAGAGAGA--------------------------------------A    1

    
    UCUUGUU------------------C*G-U*A-AAAU*A-AAAUGUAGGGAAAGAG------------------------------A    1

    
    UGGACAUGAAAAGGU----------C*-GU*G-GAGA*C-AAACCUAA--------------------------------------G    1

    
    ACCUAUCAAAGC-------------A*U-U*A-AACU*A-GUGUGUGUG------------------------------------GU    1

    
    CCGUGCUAAAUCGCU----------C*G-G*G-A-AU*A-AAGACGUU--------------------------------------G    1

    
    UGGUAAUAAAUCCU-----------G*U-C*G-G-GG*C-UUGGGUAAA-------------------------------------G    1

    
    CGUACUAAAUCGCU-----------C*G-G*G-A-AU*A-AAGACGUU--------------------------------------G    1

    
    GGGAUAAGUCGAU------------A*U-G*G-ACUA*U-AAUCGCAA--------------------------------------A    1

    
    UCAAAAAGACU--------------C*G-G*G-A-AU*A-AAGUCUAAAC----------------------------------G-G    1

    
    CCUGUAAGUC---------------A*U-U*G-AUAG*U-UUCUGCCA-------------------------------------GG    1

    
    CCUGUAAGUC---------------A*U-U*G-AUAG*U-UUCUGCCAG-------------------------------------G    1

    
    CGAAAGACGCU--------------C*G-C*G-A-AC*G-GAAAGUAAA-------------------------------------G    1

    
    CGGAACAGCUG--------------A*U-U*G-A-AG*C-AACAGAGAA-------------------------------------G    1

    
    CGGAACUGCCU--------------A*U-A*--AAAG*C-AAUGGAGAA-------------------------------------G    1

    
    CUGAAUG------------------A*UUG*U-U-CU*U-AGGAGUAUCAAG----------------------------------G    1

    
    UGAAUAGGCU---------------A*U-U*A-GGAG*C-AAAGCCUAA-------------------------------------G    1

    
    ACUCAAGGGAU--------------A*U-U*C-GGAG*C-AAGGGAG---------------------------------------U    1

    
    AGUAAAUUG----------------U*AAC*G-GUAG*C-GAGAAUAA--------------------------------------U    1

    
    AUCUAUAAAUCGAC-----------A*A-A*U-GACC*G------UU-------------------------------------GGU    1

    
    CGGAACGCCG---------------C*G-U*G-A-AG*C-AACAGCAAA-------------------------------------G    1

    
    CGGAGCGCCG---------------C*G-U*G-A-AG*C-AACGGCAAA-------------------------------------G    1

    
    CGGAUAGGGCU--------------C*G-C*G-A-A-*A-GAAAGUAAA-------------------------------------G    1

    
    GGAAUAAAGCU--------------C*-GC*G-A-AG*U-GAAAGUAA--------------------------------------C    1

    
    GUGUGACGGAA--------------C*G-U*G-G-A-*A-ACUCCAGAG-------------------------------------C    1

    
    UCUCAAGGGAC--------------A*U-U*C-GGAG*C-AAGGGAG---------------------------------------A    1

    
    UGGAAUUCUU---------------A*U-G*G-G-AG*C-AACAGAAAA-------------------------------------G    1

    
    UGGUAAGUC----------------A*UGU*G-G-AG*CAAAACGAGA--------------------------------------G    1

    
    UUAGAUGUGU---------------A*U-U*A-U-AG*U-AAAUGCAAG-------------------------------------A    1

    
    UUGAACGAUG---------------C*G-U*G-U-UC*G-AAUAUCAAG-------------------------------------G    1

    
    UUGAACGUAG---------------A*U-U*A-A-AG*C-AAAUACAAG-------------------------------------A    1

    
    AGUAGUUCC----------------C*G-C*G-GAAG*C-AACGAAAA--------------------------------------U    1

    
    AGUAGUUCC----------------C*G-C*G-GGAG*C-AACGAAAA--------------------------------------U    1

    
    AUCUAUAAAUCGAC------------*-AA*U-GACC*G-----UUGA--------------------------------------U    1

    
    CGUAUAUCG----------------A*U-U*A-UAGU*U-AAAGAUAA--------------------------------------G    1

    
    CUGUAAGUC----------------A*U-U*G-AUAG*U-UUCUGCCA--------------------------------------G    1

    
    GAGAAAACG----------------A*U-U*G-G-AG*C-AACAAUGCU-------------------------------------U    1

    
    GCUAAACAAGG--------------C*G-U*G-A-AU*A-AACU-UAA--------------------------------------C    1

    
    GCUAGACAAGG--------------C*G-U*G-A-AU*A--AACUUAA--------------------------------------C    1

    
    UGAACAACA----------------G*C-C*G-AUAA*G-AAUGUUAA--------------------------------------G    1

    
    UGAAUAUCG----------------G*C-U*A-UAUU*U-AAAGAUAA--------------------------------------G    1

    
    UGAAUGUCG----------------G*C-U*A-UACU*U-AAGGACAA--------------------------------------G    1

    
    UGGAUAUCG----------------C*G-U*A-UACC*U-AAAGAUAA--------------------------------------G    1

    
    UGUAUAACG----------------A*U-U*G-AAAG*C-GAAGUCAC--------------------------------------G    1

    
    AGUAAUUUC----------------C*G-G*--GGAG*C-AACAAAAA--------------------------------------U    1

    
    CCAAGAAA------------------*A-C*G-U-AU*A-AACCGCUUU------------------------------------GG    1

    
    CCCAAGGGAU---------------A*U-U*C-GUAG*C-AAGGGG----------------------------------------G    1

    
    CGAACGCUA----------------G*C-U*C-U-AG*C-GAAAGCAA--------------------------------------G    1

    
    CGCAUUCCG----------------U*A-U*G-A-AG*C-AACGGACG--------------------------------------G    1

    
    CGGAAAAUG----------------A*U-U*C-A-AG*C-AAGAUUAA--------------------------------------G    1

    
    CGUAAGGUC----------------G*CGU*G-U-AG*C-AAAC-CAA--------------------------------------G    1

    
    CGUACAGCG----------------A*U-U*A-U-AG*C-AAAGCUAA--------------------------------------G    1

    
    CGUAGAAUG----------------A*U-U*C-U-AG*C-AAGAUUAA--------------------------------------G    1

    
    CUGAAUG------------------A*U-U*U-CUUC*G-AGUAUCAAG-------------------------------------G    1

    
    GGUAUAUCA----------------A*U-U*G-A-AG*C-AACGAUAA--------------------------------------C    1

    
    GGUAUGUUG----------------A*U-U*G-G-AG*C-AACGACAA--------------------------------------C    1

    
    GUCACUUG-----------------A*U-U*G-A-AG*C-AACAGAAAA-------------------------------------C    1

    
    UAAAUGCAA----------------A*U-U*A-U-AG*C-AAAUGCAA--------------------------------------G    1

    
    UGAACAUUU----------------A*U-A*G-A-AG*C-AACAAUAA--------------------------------------G    1

    
    UGAACGUUG----------------A*U-U*G-U-AG*C-AAUAACAA--------------------------------------A    1

    
    UGAAUAGUC----------------A*U-G*G-A-AG*C-GACACUAA--------------------------------------G    1

    
    UGAAUGCAA----------------A*U-U*G-U-AA*U-AAGUGCAA--------------------------------------G    1

    
    UGAAUGCAA----------------A*U-U*G-U-AG*C-AAGUGCAA--------------------------------------G    1

    
    UGAAUGCAG----------------A*U-U*A-U-AG*C-AAAUGCAA--------------------------------------G    1

    
    UGAAUGCAG----------------A*U-U*G-U-AG*C-AAGUGCAA--------------------------------------G    1

    
    UGAAUGUAG----------------A*U-U*A-U-AG*C-AAAUACAA--------------------------------------G    1

    
    UGAAUGUAU----------------C*G-U*G-A-AG*C-AACUACAA--------------------------------------G    1

    
    UGGAUAAAU----------------C*G-U*G-G-AG*C-AACUUUAA--------------------------------------G    1

    
    UGUACAUAG----------------C*G-U*A-G-AG*C-GAUUAUAA--------------------------------------A    1

    
    UGUAUGUGG----------------C*G-U*A-A-AU*A-AAUCACAA--------------------------------------G    1

    
    AAAAGAGAA-----------------*A-C*G-U-AU*A-AACCGCUU--------------------------------------U    1

    
    GGUUAUAUG----------------A*U-U*G-G-AG*C-AAUACA-C--------------------------------------C    1

    
    UACAUAAUUCC--------------C*-UU*G-U---*--UAAGAAGA--------------------------------------U    1

    
    UCUCGUU------------------C*GUG*A-AGAU*A-GAAAGAG---------------------------------------A    1

    
    UGGUAAUG-----------------A*U-U*G-G-AG*C-AACAAUAC--------------------------------------C    1

    
    UGGUAAUG-----------------A*U-U*G-G-AG*C-AACAAUGC--------------------------------------C    1

    
    UGGUGACG-----------------A*C-U*G-G-AG*C-AACAAUGC--------------------------------------C    1

    
    UGGUGACG-----------------A*U-U*G-G-AG*C-AACAAUGC--------------------------------------C    1

    
    UGGUGAUG-----------------A*U-U*G-A-AU*C-AACAACGC--------------------------------------C    1

    
    AGUAACG------------------A*U-U*G-A-AG*C-AACAAUGC--------------------------------------U    1

    
    CUUUAAAUAC---------------C*GA-*--UCAG*U-----GCGUA-------------------------------------G    1

    
    GCCAUAAUAAU---------------*-AG*U-U-CC*G-----CUAGG-------------------------------------C    1

    
    GGAAGUG------------------A*U-U*G-G-AG*C-AACAAAAU--------------------------------------C    1

    
    UCAGAAG------------------A*U-U*A-G-AG*C-AAUUAAAG--------------------------------------G    1

    
    UCGAGG-------------------A*U-U*G-A-AG*C-AACCGAGCA-------------------------------------G    1

    
    UGGGAACU-----------------C*G-U*G-A-AG*C-AAAA-GAA--------------------------------------G    1

    
    UUAAGUA------------------A*U-U*G-A-AG*C-AACAAAGA--------------------------------------G    1

    
    UUAGAGU------------------A*U-U*G-A-AG*C-AAUAGUUA--------------------------------------G    1

    
    GCGAACG------------------A*U-U*G-A-AG*C-AACGGUG---------------------------------------C    1

    
    UUAAACCC------------------*-AG*U-ACGA*U-GAA--UUA--------------------------------------A    1

    
    UUAUAA-------------------U*A-A*A-UAAG*C-AAAU-UUA--------------------------------------G    1

    
    CCAAUA-------------------A*U-U*G-A-AG*C-AAUAAUG---------------------------------------G    1

    
    CUAUAA-------------------U*A-A*--UGAG*C-AAAU-UUA--------------------------------------G    1

    
    UGAAUUU------------------G*U-U*A-G-G-*--AGAUAAGU--------------------------------------G    1

    
    CUUAAAAUC-----------------*-GU*C---AG*U--ACGGU----------------------------------------G    1

    
    UCAUG--------------------C*G-U*G-AUAU*U-AAAUGA----------------------------------------G    1

    
    -CGCA--------------------C*G-U*G-G-AU*A-AAGCGAGU---------------------------------------    1

    
    CACA---------------------C*G-U*G-G-AU*A-AAGCGAGU---------------------------------------    1

    
    Omitted sequenced and counts

    
    UACAUAAUUCC--------------C*--U*U-----*--UAAGAAGAUUGAGGGUGU----------------------------A   10

    
    CGGAAGACG-----------------*---*------*--ACGGACUAAUCACCCCUGUGUCAA----------------------G    3

    
    UACAUAAUUCC--------------C*--U*G-U---*--AAAGAAGAUUGAGGGUGU----------------------------A    3

    
    UACAUAAUUCC--------------C*--U*U-----*--UAAGAAGAUUGAGGGCGU----------------------------A    3

    
    UACAUAAUUCC--------------C*--U*G-U---*--UAAGAAGAUUGAGGGUGU----------------------------A    2

    
    UAUAUAAUUCC--------------C*--U*G-U---*--AAAGAAGAUUGAGGGUGU----------------------------A    2

    
    UCAUUAAAUCC--------------A*--G*C-U-AC*G-GAUUGGUAG-------------------------------------A    2

    
    UGAAUAGUG----------------A*--C*G-AAAG*C-AAAACUAA--------------------------------------A    2

    
    GGUACCUCU----------------G*C--*--GAAG*C-AACGGGAA--------------------------------------C    2

    
    UUAGAGC------------------A*U--*--U-AA*U-UAUUAAAAAGAUGAAGCUUAAAGGUUACGGAAAGUACCAAUAGUUAG    1

    
    UUGUGCUCUCAAAAGGAGUUAUGUGA*U--*--AGAG*CUUACAGUUC-------------------------------------AA    1

    
    CCAUAA-------------------G*A--*------*--CCACCGUGUAUUCGCCUUUAAUUAGACGCUAUG-------------G    1

    
    CGGCUUUCGGCAGUGGAAGCUGC--C*--C*G-A-AU*A-GAAAAUGC--------------------------------------A    1

    
    CACCUAAUCAAGACGCCCCCU----G*C--*C-A-AC*G-CCGGCCG-G-------------------------------------G    1

    
    CGGAAGACGA----------------*---*------*--ACGGACUAAUCACCCCUGUGUCAA----------------------G    1

    
    UACAUAAUUCC--------------C*--U*C-C-A-*--UAAGAAGAUUGAGGGUGU----------------------------A    1

    
    UACAUAAUUCC--------------C*--U*U-C-A-*--UAAGAAUAUUGAGGGUGU----------------------------A    1

    
    UACAUAAAUCC--------------C*--U*G-U---*--UAAGAAGAUUGAGGGCGU----------------------------A    1

    
    UGCAUAAAUCC--------------C*--U*G-U---*--AAAGAAGAUUGAGGGUGU----------------------------A    1

    
    UGCAUAAUUCC--------------C*--U*G-U---*--UAAGAAGA----------------------------UUGAGGGUGUA    1

    
    ACGUAAUUCU---------------C*--U*G-U---*--UAAGAAGAUUGAGAGUG-----------------------------U    1

    
    -ACAUAAAUCC--------------C*--U*U-----*--UAAGAAGAUUGAGGGUGU-----------------------------    1

    
    CUCUAAAUCGAU--------------*--A*--GCAG*U-UUGUGCGUG-------------------------------------G    1

    
    CUUGUUAAGACC-------------U*--U*G-G-AG*U-CAGGCUGA--------------------------------------G    1

    
    UUUAUAAAUAC--------------A*--G*U-GUGG*C-UCUGGAUA--------------------------------------G    1

    
    CGUAUAAUG----------------C*--C*A-AUAA*A-AAAAUUAA--------------------------------------G    1

    
    GCGUAAAUCU---------------C*--U*U-UGCG*C-AAGAGUG---------------------------------------C    1

    
    CUCAAUGC-----------------A*--U*G-A-AG*C-AAGCAAGGA-------------------------------------G    1

    
    GGUAUUUUC----------------A*--C*G-A-AG*C-AACAAAAA--------------------------------------C    1

    
    UCUUGAUGA----------------A*--A*C-UCUC*G--AGCGGAG--------------------------------------A    1

    
    UGAAGAGCA----------------U*G--*--UAGC*A-AAUGCUAA--------------------------------------G    1

    
    UGAAUAACA----------------G*C--*--UAGC*A-AAUGUUAA--------------------------------------G    1

    
    UGAAUGUUG----------------A*--U*G-U-AG*C-AAUAACAA--------------------------------------A    1

    
    CAAGAGA-------------------*--A*U-CCGG*C-ACCGCUUU--------------------------------------G    1

    
    CCAAAUAA------------------*--G*UUACGG*C-GCUU-UG---------------------------------------G    1

    
    CCAAAUAAGG----------------*---*--G-A-*A-ACCGCUUU-------------------------------------GG    1

    
    CUGAAUGAUG----------------*--C*G----C*G-UAUCAAG---------------------------------------G    1

    
    CCACAAGA------------------*--G*A-U-UC*G-----CUGU-------------------------------------GG    1

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

Motif group J4_61885.6

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

0.00 -301.90 15 12

2

Motif group J4_12209.1

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

0.00 -415.25 17 13

RNase P junction

3

Motif group J4_01665.1

Basepair signature:
cWW-tWH-F-tWH-cWW-tSS-F-tHW-tSS-cWW-cWW

0.00 -442.12 16 13

4

Motif group J4_70672.1

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

0.00 -455.02 22 18

5

Motif group J4_80682.1

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

0.00 -460.61 18 14

tRNA junction

6

Motif group J4_98739.1

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

0.00 -502.47 20 16

7

Motif group J4_94519.1

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

0.00 -512.22 16 12

tRNA junction

8

Motif group J4_45801.6

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

0.00 -515.49 17 13

9

Motif group J4_19572.1

Basepair signature:
cWW-F-cSW-F-F-tWH-cWW-F-cHW-F-cWW-F-tWS-F-cWW-F-F-F-cSH-tWH-cWW-F-F-F

0.00 -526.76 19 15

RNase P junction

10

Motif group J4_57327.1

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

0.00 -585.19 21 17

11

Motif group J4_65285.1

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

0.00 -688.70 16 13

tRNA junction

12

Motif group J4_40477.1

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

0.00 -692.77 17 13

tRNA junction

13

Motif group J4_59845.1

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

0.00 -698.45 16 14

14

Motif group J4_91813.1

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

0.00 -698.54 19 14

15

Motif group J4_13620.1

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

0.00 -722.59 21 17

16

Motif group J4_47701.1

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

0.00 -728.15 18 16

17

Motif group J4_16596.1

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

0.00 -733.43 18 15

Cobalamin riboswitch junction

18

Motif group J4_11418.1

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

0.00 -734.42 19 15

19

Motif group J4_80390.1

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

0.00 -748.56 18 14

tRNA junction

20

Motif group J4_63658.1

Basepair signature:
cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tSW-F-cSH-F-F

0.00 -755.12 17 13

21

Motif group J4_07509.2

Basepair signature:
cWW-tSW-F-F-tHS-F-cWW-F-cWW-F-F-tHS-F-cWW

0.00 -756.17 19 16

22

Motif group J4_12410.1

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

0.00 -775.69 18 15

23

Motif group J4_88771.1

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

0.00 -778.52 17 14

24

Motif group J4_61477.5

Basepair signature:
cWW-tSW-F-tHS-tHS-F-cWW-cWW-F-tHS-cWW

0.00 -796.05 19 16

25

Motif group J4_59634.1

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

0.00 -819.53 20 16

26

Motif group J4_54165.1

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

0.00 -847.93 19 16

27

Motif group J4_70449.28

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

0.00 -854.24 15 13

tRNA junction

28

Motif group J4_44058.1

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

0.00 -855.53 20 15

29

Motif group J4_36296.3

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

0.00 -855.73 16 13

tRNA junction

30

Motif group J4_10571.1

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

0.00 -887.08 19 15

31

Motif group J4_15241.1

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

0.00 -893.50 20 18

32

Motif group J4_04930.6

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

0.00 -895.18 18 15

33

Motif group J4_71729.5

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

0.00 -913.85 18 14

34

Motif group J4_69051.6

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

0.00 -921.17 21 19

35

Motif group J4_10313.5

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

0.00 -950.77 19 16

36

Motif group J4_36540.1

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

0.00 -951.53 20 17

37

Motif group J4_77044.4

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

0.00 -954.68 19 15

38

Motif group J4_89787.1

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

0.00 -1007.17 22 19

39

Motif group J4_93343.1

Basepair signature:
cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

0.00 -1018.47 17 13

40

Motif group J4_99897.1

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

0.00 -1046.98 18 16

41

Motif group J4_28426.1

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

0.00 -1077.90 21 18

SAM-I/IV riboswitch junction

42

Motif group J4_60168.1

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

0.00 -1078.39 19 15

43

Motif group J4_24220.1

Basepair signature:
cWW-F-F-tWS-F-F-cWW-tHS-cWW-cWW

0.00 -1097.82 18 15

44

Motif group J4_35578.3

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

0.00 -1105.43 21 19

45

Motif group J4_87855.1

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

0.00 -1118.88 22 18

46

Motif group J4_40439.2

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

0.00 -1121.07 20 16

SAM-I riboswitch junction

47

Motif group J4_97085.2

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

0.00 -1130.53 19 16

48

Motif group J4_95838.1

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

0.00 -1142.60 19 16

49

Motif group J4_26776.1

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

0.00 -1151.43 21 18

50

Motif group J4_28473.1

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

0.00 -1185.31 21 17

51

Motif group J4_75852.1

Basepair signature:
cWW-tSW-cSS-cWW-F-cSH-cWW-cWW-F-F

0.00 -1213.68 23 20

52

Motif group J4_47842.1

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

0.00 -1233.93 19 14

53

Motif group J4_04237.1

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

0.00 -1318.72 35 32

54

Motif group J4_72305.5

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

0.00 -1369.05 18 15

tRNA junction

55

Motif group J4_48692.1

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

0.00 -1384.45 20 15

56

Motif group J4_64571.5

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

0.00 -1592.35 20 17

57

Motif group J4_57344.1

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

0.00 -1622.22 20 17

58

Motif group J4_69073.1

Basepair signature:
cWW-cHS-cWW-cWS-cHW-cWW-cWW

0.00 -1967.87 20 16

59

Motif group J4_47478.1

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

0.00 -1967.87 20 16

60

Motif group J4_07491.2

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

0.00 -1970.50 18 15

Purine riboswitch junction

61

Motif group J4_65052.1

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

0.00 -2023.56 21 18

62

Motif group J4_63076.1

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

0.00 -2051.15 20 17

class I ligase product junction

63

Motif group J4_65356.1

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

0.00 -2260.61 22 18

64

Motif group J4_45582.1

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

0.00 -2287.64 22 18

65

Motif group J4_46448.1

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

0.00 -2714.74 22 20

66

Motif group J4_24280.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -2899.22 20 18

67

Motif group J4_00691.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -2942.51 20 18

68

Motif group J4_43687.2

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

0.00 -3017.56 20 16

69

Motif group J4_76096.5

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -3193.61 20 19

Coloring options: