JAR3D
Query RF02921-3.98 completed
Run on Motif Atlas Version 3.98
using the Rfam secondary structure. Run with the CaCoFold secondary structure.
RF02921 RT-14 RNA
Input Summary
00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000011111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111112
00000000011111111112222222222333333333344444444445555555555666666666677777777778888888888999999999900000000001111111111222222222233333333334444444444555555555566666666667777777777888888888899999999990
12345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234567890
..(((((((....((.......(.(((...(((((........)))))))).).....))..)))).)))..........................((((....................))))................((((((((((...(((......((............)).....))).))).).)))).))
>URS0000D6CAFC_12908/1-145
-UUAUCUUCAUAAGUC--AGAAG-UUC---ACACU-UAAG---GGUGUAGUUCCAGU-ACAUGAAG-A-AGUAU---AAGGGU-AAUUUCUCCA-UAGCU------UUAA----------AGCUAAAAAAU-AAAAAA--GGAACAUCAU---AGUUAGUA-GU---UUCU-----AU-GAAAGGU-GUG-G-UGUUGU-
>URS0000D6CCFC_12908/1-141
CUCUUGAGG-CAAGCC--AGAAG-CGG---UAUUGGUCAAGGCU-AUACCG-ACAGC-GCACCUUC-A--------AAAGGGCGCUUAA-UCCC-CGGCC------AAG-----------CGCCGAAAUAU-GAAUA---GACACCGCUG---GGCUGGUAGG----GCUU-----CC-GAACGUC-CUG-C-GGUG-UC
>URS0000D670AD_12908/1-146
CUCUUGAGA-ACCGCG--AGAAG-CGG---UCAGCCUACCG-GGCUGAUCG-ACAGU-GC-AUCUC-U---U---AAAAGGACGUUUAU-UCCU-CGGC-------UCUU-----------GCCGAAAAAC-UCAACA--GGCGGGUGCG---UUCUGGUAGCG---AUAUAC---CGUGAACGUU-CGC-C-CCCG-CC
>URS0000D6670E_12908/1-147
CU-UAUGGA-CUUUUC--AGACU-UAG---CAAGC-UACG---GCUUACUA-GCGAA-GACUAUUU-UACAUAUAGUCAGAACGUAUAG-CCCG-UCCUGG-----GACUA--------CCAGGCAAACAU-AAAAAA--GGACGCUUCC---GGUUAGUA-GC---GAAG-----GC-GAAGGGC-GGA-A-GCG----
>URS0000D69935_12908/1-147
CU-UAUGGA-CUUUUC--AGACU-UAG---CAAGC-UACG---GCUUACUA-GCGAA-GACUAUUU-UACAUAUAGUCAGAACGUAUAG-CCCG-UCCUGG-----GACUA--------CCAGGCAAACAU-AAAAAA--GGACGCUUCC---GGUUAGUA-GC---GAGA-----GC-GAAGGGC-GGA-A-GCG----
>URS0000D6714C_12908/1-146
CU-UAUGAA-CUUUUC--AGACU-UAG---CAAGC-UAUG---GCUUACUA-GCAAGGACUAUUUA-CAUAUAG-UC-AGAACGUAUAG-CCCG-UCCUGG-----GACUA--------CCAGGCAAACAU-AAAAAA--GGACGCUUCC---GGUUAGUA-GC---GAGA-----GC-GAAGGGC-GGA-A-GCG----
>URS0000D67A1E_12908/1-146
CU-UAUGAA-CUUUUC--AGACU-UAG---CAAGC-UACG---GCUUACUA-GCAAGGACUAUUUA-CAUAUAG-UC-AGAACGUAUAG-CCCG-UCCUGG-----GACUA--------CCAGGCAAACAU-AAAAAA--GGACGCUUCC---GGUUAGUA-GU---GAGA-----GC-GAAGGGC-GGA-A-GCG----
>URS0000D67F00_12908/1-146
CU-UAUGAA-CUUUUC--AGACU-UAG---CAAGC-UACG---GCUUACUA-GCAAGGACUAUUUA-CAUAUAG-UC-AGAACGUAUAG-CCCG-UCCUGG-----GACUA--------CCAGGCAAACAU-AAAAAA--GGACGCUUCC---GGUUAGUA-GC---GAGA-----GC-GAAGGGC-GGA-A-GCG----
>URS0000D6B7B8_12908/1-148
------CACAGAGUCCAGUGGGG-CAA---UAGUU-UAAG---GAC-AUUGCCGAGA-GAUAUUG------UAU-CAAAGAAGUUUAAU-UCCU-GUAACAUA---GUGAU------UAUGUUAUAAACAC-AUAAAU--AAUGAUUUUG---UUUUAGUA-GU---AAAAUG---GC-GAAAAUC-CGA-A-AUCA-UU
>URS0000D690A7_1217710/1-141
CUCUUAGAG-CGUGUC--AGAAG-CUU---AAUCCCUAAUG-GGGGUUAGG-ACAGA-AC-ACUUU-AA--------AAGGAUGCACAC-UCCU-UAG--------AUGAAAAU--------CUAAAAAAC-UAAAC---AGGCGGCAUA---GCUGAGUA-GC---AAUA-----GC-GAAAACU-UAU-G-CCGC-UU
>URS0000D6685E_1217710/1-142
CUCUUAGAG-CGUGUC--AGAAG-CUU---AAUCCCUAAUG-GGGGUUAGG-GCAGA-AC-ACUUU-AA--------AAGGAUGCACAC-UCCU-UAGAC------GAGA----------GUCUAAAAAACUUAAUUG----GCGGCAUA---GCUGAGUA-GC---AUUU----UGC-GAAAACU-UAU-G-CCGCUU-
>URS0000D6968C_12908/1-154
CAAGAGAUU-ACGGUC--AGAUA-GUA--CAAGUU-UAAG---GACUUAACUACAGA-ACAAA-------AUAUCUUGAGAGU-UUUAA-UCCU-UGUCGC-AAGAUCUA----UCUU--CGGCAAAAAACAUAAAUA--GGCAAAGUCU---AAUUAGUA-ACA--AAA-----UGU-GAGGAUU-AGA-U-UUUG-CC
>URS0000D66DA3_12908/1-146
CUCUAA----CGAGCC--AGAAU-UAA---UCUAU-UCCC---AUAGAUUA-AGAGU-GCAUUUG--UAGGGUU--C---AGC-UUUAU-UCCU-GCGAGGGUG--GUGA------CACCUUU-CAAAAAUUAAAAUG--AAGUGAGAAG---GCUUAGUAGG----GAAA-----CC-GAAAAGC-UUU-U-UUAC-UA
>URS0000D65AF3_12908/1-146
CACUACCAA-UUUGUG--AGAGU-CAU---GAUCU-GAAA---AUAUCAUG-AGAGG-GC-AAAGG-UAGUUCA-------GU-CUUAU-UCCUGUGAUCUUG---GUGA-------CAAGCUCCAAAAAU-CAAAAC--CAGUCAAGUU---GCUUAGUA-GU---GAAA-----AC-GAAAAGU-UGC-U-UGAU-UG
>URS0000D67FB1_349161/1-161
CUCCGCCUA-UGUGCC--AGAAGCGAG---UAUCU-UACG---GGAUAUCCGACAGA-GCUUUAG----G-----CAAAGGAA-UCAGGAUCCA-UGUUGCGCAUUGUUC----AAUGC-CAGCAAAAAACAUAAACA--GAUGGGCUGC---GGUAAGUAAGGAGAUUU---UCUCCUGAAAAUC-GCA-G-UCUA-UC
>URS0000D67671_1121472/1-159
CUCUGCCUGGCAAGCC--AGAAG-UCG---AAACCCCACG--GGGUUUCGU-CCAGU-GC-----G-CAG----GCAAAGGAACCCGGU-UCCU-UGUCGCGCCAGCUUGU---CUGGC-CGGCAAAAAACAUAAACA--GGUAGCGGGU---GGCAAGUA-ACCUU-GC---AAGGU-GAAAGUC-AUC-C-GCUA-CC
>URS0000D68E1D_12908/1-145
CUCUCUCUU-CAAGCC--AGAUA-CCG---GGGGUUCACG--GGCCACCGG-UCAGC-GC-CAAGA-GA------AAAAGGAGCUAUAG-CCCU-UCUC-------UUUG-----------GAGAAAAUAU-UUAU----AGGUAUGGGC---GGCCAGUA-GGUGAUGAU--UCGCC-AACCGCC-GCC-C-AUGC-CG
>URS0000D65FE8_12908/1-143
CUCUCCCUC-UAAGCC--AGAUG-CCG---GGCGUCUACG--GGCGCCCGG-AGAGU-GC-CGAGG-G-G-----AAAAGGAGCCGGAC-UCCU-UCUCC------GCAA----------GGGGAAAACAU--UAAC---AGGCGCGGAC---GACUGGUA-GGC--GUAU----GCC-GAAGGCC-GUC-C-GCAC-CG
>URS0000D67A28_12908/1-152
AUAUGGCAUAAAAUUAUCAGAUA-UGU---AAGUU-CAAG---GACUUACAUAGAGU-AUAUAUGC-CAUACAA-------GU-UUUAU-UCCC-UCCG-------UGAAAU---------CGGUAAAAAUAUAAAUA--UAAAAGCACG---UUCUAGUA-ACAAGAAAUU-CUUGU-GAAAGAG-AGU-G-CUUUUU-
>URS0000D6D087_12908/1-145
CUCUC-----GUGGUU--AGCAGUUAU---AAGCU-CAUG---GGCUUAUUUCCAGU-AC-A-----GAGAGACGUAAAGGGG-UCUAUUUCCA-UGCC-------GACAA----------GGCAAAAAAU-AUAUUA--GUUAUGUAUG--CCGAUAGUA-AUC--UUUU----GAUGAAAUUCGCAAA-A-CAUA-AC
>URS0000D6A84F_12908/1-142
--CUGU-AUAUAUACACCUGAUU-UAA---UAGUU-UAAG---GACUAUUA-AGCAUAGA--U-UA-CAGAGAA-UCAGGAGC-CUUGU-CCCG-UCC--------GAUAA-----------GGACAAAGA-GUAAAA--GGGAAGUAGA--AUCUUAGUA-AG---UUCG-----CU-GAAAGGGGUCU-A-CUUC-C-
>URS0000D68D4E_12908/1-142
--CUGU-AUAUAUACACCUGAUU-UAA---UAGUU-UAAG---GACUAUUA-AGCAUAGA--U-UA-CAGAGAA-UCAGGAGC-CUUGU-CCCG-UCC--------GAUAA-----------GGACAAAGA-GUAAAA--GGGAAGUAGA--AUCUUAGUA-AG---UUUG-----CU-GAAAGGGGUCU-A-CUUC-C-
>URS0000D6607E_12908/1-153
UUUUCUCAU-AUAGUC--AGCAU-ACG---CCGCAACACGC-GGGCGGCGU-ACCGU-AC-AGAGA-GAA----GAAAAGGGG-CAUAUUUCCC-UGCUUGCA---GCGA-------UGCGAGCAAAACAA-AAAUUU--CCAUGAAUAC---GGUUAGUA-GC---AAAA-----GC-AAAGGGC-GUAAC-GCAU-GG
>URS0000D6B53C_12908/1-143
CUCUAAUAU-UAUUUU--CGAUG-UUC---AAGUU-UAUG---GACUUGUU-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAGG-UUUAU-UCCU-UCC--------GCAAAA----------GGUAAAAAA-AGAUUA--GGUUUUAGUA-UAACCCAGUA-A----GAAA------U-GAAAGGCAUAC-U-AAAAU--
>URS0000D6C567_12908/1-144
CUCUAAUAU-UAUUUU--CGAUG-UUC---AAGUU-UAUG---GACUUGUU-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAGG-UUUAU-UCCU-UCC--------AUAAAA----------GGUAAAAAU-GUAUUA--AUUUUAGUAU-UAAUCUAGUA-GA---AAA------UC-GAAAGAA-AUA-U-UAAA-AU
>URS0000D697EC_12908/1-145
UUCUAAUAU-UAUUUU--CGAUG-UUC---AAGUU-UAUG---GACUUGUU-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAGG-UUUAU-UCCU-UCU--------AUAAAA----------GGUAAAAAAUGUAUUA--AUUUUA-GUAUUAAUCUAGUA-GA---AAA------UC-GAAAGAAAUAU---UAAA-AU
>URS0000D6BE3B_12908/1-145
CUCUAAUAU-UAUUUU--AGAUG-UAA--AAGAUU-CAAG---GAUCUUUA-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAAG-UUUAU-UCCU-UCCU-------GAAA-----------AGGUAAAAAU-GAAUAU--AAUUUUAGUAUAACUCCGGUA-G----GAAA------C-GAAAGAAAUAC-U-AAAA-U-
>URS0000D682AD_12908/1-147
CUCUAAUAU-CAUUUU--CGAUG-UAU---AGGUU-UAAG---GACCUAUG-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAAG-UUUAU-UCCU-UCC--------UAUUAAAU--------GGUAAAAAU-GAAUAG--AAUUUUAGUGCGACUCUAGUA-G----GAAA------C-GAACGAAACAC-U-AAAA-UG
>URS0000D66D7B_12908/1-150
CUCUAAUAU-CAUUUU--CGAUG-UAUUAUAGGUU-UAAG---GACCUAUG-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAAG-UUUAU-UCCU-UCC--------UAUUAAAU--------GGUAAAAAU-GAAUAG--AAUUUUAGUGCGACUCUAGUA-G----GAAA------C-GAACGAAACAC-U-AAAA-UG
>URS0000D66381_12908/1-147
CUCUAAUAU-CAUUUU--CGAUG-UAU---AGGUU-UAAG---GACCUAUG-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAAG-UUUAU-UCCU-UCC--------UAUUAAAU--------GGUAAAAAU-GAAUAG--AAUUUUAGUGCGACUCUGGUA-G----GAAA------C-GAACGAAACAC-U-AAAA-UG
>URS0000D66381_1262784/1-147
CUCUAAUAU-CAUUUU--CGAUG-UAU---AGGUU-UAAG---GACCUAUG-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAAG-UUUAU-UCCU-UCC--------UAUUAAAU--------GGUAAAAAU-GAAUAG--AAUUUUAGUGCGACUCUGGUA-G----GAAA------C-GAACGAAACAC-U-AAAA-UG
>URS0000D67D65_12908/1-147
CUCUAAUAU-CAUUUU--UGAUG-UAU--AAGGUU-UAAG---GAUCUUUG-CCAAU-AA-AGUAU-UAGAUAU-UAAAGAAG-UCUAU-UCCU-UCC--------UAUAAAUU--------GGUAAAAAU-GAAUAA--AAUUUUAGUGUAAAUCUGGUA-G----AGAA------C-GAAAGAAACAU-U-AAAA-U-
>URS0000D6D0B9_12908/1-144
CUCUAGUACAUAA--A--AGGGU-AUA---UAUUU-UAAG---GAAUAUAU-AAAUUA---AGUAU-UAG-UAU-UAAAGGAA-CUUUG-UCCA-UCCA-------GUA------------UGGUAAAUAU--AUUUA--AAAAUGCACU---UACUAGUA-AAAUUAUAU--AAUUU-GAAAGUG-AGU-G-CAUU-UU
>URS0000D66F47_12908/1-144
CUCUAAUACAUAA--A--AGAGU-AUA---UAUUU-UAAG---GAAUAUAU-AAAUUA---AGUAU-UAG-UAU-UAAAGGAA-CUUUG-UCCA-UCCA-------GUA------------UGGUAAAUAU--AUUUA--AAAAUGCACU---UACUAGUA-AAAUUAUAU--AAUUU-GAAAGUG-AGU-G-CAUU-UU
>URS0000D65B59_12908/1-144
CUCUAAUACAUAA--A--AGAGU-AUA---UAUUU-UAAG---GAAUAUAU-AAAUUA---AGUAU-UAG-UAU-UAAAGGAA-UUUUG-UCCA-UCCA-------GUA------------UGGUAAAUAU--AUUUA--AAAAUGCACU---UGCUAGUA-AAAUUAUAU--AAUUU-GAAAGUG-AGU-G-CAUU-UU
>URS0000D6D437_1262799/1-144
CUCUAAUAU-CAAUCC--AGAUG-GCU---AGUUU-UAAG---GAAGUAGU-CCAGU-GA-AAUAU-UAGAUAU-UAAAGAGG-UUUAU-UCCU-UCCUA------UUU-----------UAGGUAAAUAU-GAAUCA--UUAAAAUACA---UACCGGUAGGU---AUG------AC-GAAAGUA-UGU-A-UUUU-AA
>URS0000D6D437_12908/1-144
CUCUAAUAU-CAAUCC--AGAUG-GCU---AGUUU-UAAG---GAAGUAGU-CCAGU-GA-AAUAU-UAGAUAU-UAAAGAGG-UUUAU-UCCU-UCCUA------UUU-----------UAGGUAAAUAU-GAAUCA--UUAAAAUACA---UACCGGUAGGU---AUG------AC-GAAAGUA-UGU-A-UUUU-AA
>URS0000D69832_12908/1-144
CUCUAAUAU-CAAUCC--AGAUG-GCU---AGUUU-UAAG---GAAGUAGU-CCAGU-GA-AAUAU-UAGAUAU-UAAAGAGG-UUUAU-UCCU-UCCUA------UUU-----------UAGGUAAAUAU-GAAUAA--UUAAAAAACA---UACCGGUAGGU---AUG------AC-GAAAGUA-UGU-A-UUUU-AA
>URS0000D6CB2F_12908/1-144
CUCUAAUAU-CUUUCC--AGAUA-GCU---AUUUU-UAAG---GAAAUUGC-UCAGU-GA-AGUAU-UAGGUAU-UAAAGAGG-UUUAU-UCCU-UCCUA------UUU-----------UAGGUAAAUAU-GAAUCA--UUAAAAUACA---UACCAGUA-GG---UAAA-----CC-GAGAGUA-UGU-A-UUUU-AA
>URS0000D65A1A_12908/1-144
CUCUAAUAU-CUUUCC--AGAUA-GCU---AUUUU-UAAG---GAAAUUGC-UCAGU-GA-AGUAU-UAGGUAU-UAAAGAGC-UUUAU-UCCU-UCCUA------UUU-----------UAGGUAAAUAU-GAAUCA--UUAAAAUACA---UACCAGUA-GG---UAAA-----CC-GAGAGUA-UGU-A-UUUU-AA
>URS0000D67EF9_12908/1-157
CUCUAAUAU-UCAGUG--AGAUU-AUA---UAUUU-UAAG---GAAUGUAU-ACAGU-GCAGAUGU-UAGAUAU-UAAAGGAAACUUAU-UCCU-UCUUAAAA---GGAA-------UUUUAAGUAAAGAU-GAAUUA--GAGAUAUCUA---UAUUAGUA-AACA-AUUU---UGCU-GAAUAUA-UAG-A-UGUU-UC
>URS0000D66939_12908/1-158
CUCUUAUAUUUUUGUG--CGAUU-AUA---UAUUU-UACG---GAAUAUAU-ACAGU-GCUAAUAU-UAGAUAU-UAAAGGGAACUUAU-UCCU-UCUUAAAA---GAAA-------UUUUAAGUAAAUAU-GAAUUA--GGAACAUUUA---UAUUAGUA-AGC--AAAUUU--GCU-GAAUAUA-UAA-A-UGUU-UC
>URS0000D6CA51_12908/1-159
CUCUAAUAU-CAAGCU--AGAUU-AUA---UAUUU-UAAG---GAAUAUAU-ACAAUUGC-AGUAU-UAGAUAUGUAAAGGAAGUUUAC-UCCU-UCUUAAAA---GUAAAG-----UUUUAAGUAAAUAU-GGAAAA-GAAAACAUUUG---UAUUAGUAGGU---AAUU-----ACUGAAUAUA-CAG-A-UGUU-UU
>URS0000D68624_12908/1-147
CUCUAAUAC-UAUUUC--AGAUU-GUG---UAUUU-UACG---GAAUGCAU-ACAGC-AA-AGUAU-UAG-UAA-UAAAGAGA-UUUAU-UCCU-UCCUUU-----UCUAA--------AAAGGUAAAAAU-GAAACA--GUAUAAUAUA---UGUUAGUA-AU---UUUG-----AU-GAAUAUA-UAU-G-UUAU-AC
>URS0000D68624_1262800/1-147
CUCUAAUAC-UAUUUC--AGAUU-GUG---UAUUU-UACG---GAAUGCAU-ACAGC-AA-AGUAU-UAG-UAA-UAAAGAGA-UUUAU-UCCU-UCCUUU-----UCUAA--------AAAGGUAAAAAU-GAAACA--GUAUAAUAUA---UGUUAGUA-AU---UUUG-----AU-GAAUAUA-UAU-G-UUAU-AC
>URS0000D6BDAC_12908/1-147
CUCUAAUAC-UAUUUC--AGAUU-GUG---UAUUU-UACG---GAAUGCAU-AUAGC-AA-AGUAU-UAG-UAA-UAAAGAGA-UUUAU-UCCU-UCCUUU-----UCUAA--------AAAGGUAAAAAU-GAAACA--GUAUAAUAUA---UGUUAGUA-AU---UUUG-----AU-GAAUAUA-UAU-G-UUAU-AC
>URS0000D66AD8_12908/1-163
CUCUAAUAU-CAAUUC--GGAAU-AUA---UAUUU-UAAG---GAAUAUAU-ACAGU-AA-UAUAU-UAGAUAU-UAAAGAGA-CUUAU-UCCA-UCCGAUUUACUAAUAC---AGUAAAAAGGUAAAUAU-GAAUCA--AUAAAAUACA---UAUUAGUAGAG---CUAAAAA--CUAGAAAAUA-UGU-G-AUUU-AU
>URS0000D6CDDF_12908/1-145
CUCUAAUAU-UAUUCU--CGAUU-AUA---UAUUU-UACG---GAAUAUAU-ACAAU-GA-AGUAU-UAGAUAU-UAAAGAGA-UUUAU-UCCU-UCCUA------UAUA----------UAGGUAAAUAU-GUAUCA--GCAAAAUAUU---UUAUGGUA-G----GAAUAA----C-GAAGUUC-AGU-A-UUUU-GC
>URS0000D65D88_12908/1-143
CUCUAAUAC-AAUUUG--AGAUU-AUA---UAUUU-CAAG---GAAUGUAU-ACGGU-AAAAGUAU-UAG-UAU-UAAAGAAA-CUUAU-UCCU-UCCU-------AAUUA----------AGGUAAAAAU-AAAAUA--GAAAAAUAGG---UAUUAGUA-GA---AAAU-----UC-GAAUAUA-CUU-A-UUUU-U-
>URS0000D6622A_12908/1-144
CUCUAAUAU-CAAUUG--AGAUU-AUA---UAUUU-UAUG---GAAUAUAU-ACAGU-AA-UGUAU-UAGAUAU-UAAAGAGG-UUUGC-CCCA-UCCUA------AUU-----------UAGGUAAAUAU-GUAUCA--AUAAAAUGUG---UAUUAGUA-GA---UUUU-----UU-GAAAACA-UAC-A-UUUU-AU
>URS0000D6ACD0_12908/1-151
CUCUAAUACAUUUUCU--AGAUU-AUA---UAUUU-UACG---GAAUAUAU-ACAAU-GAAAGUAU-UAG-UAU-UAAAGAGA-UUUAU-CCCA-UCCUA------AUU-----------UAGGUAAACAU-GAAUCA--GCAUGCAACA---UAUAAGUAGGCUU-UUAU---AAGUAGAACUUA-UGU-G-GCAU-GC
>URS0000D66129_12908/1-147
CUCUAAUACAAAUUUG--AGAUU-AUG---UGUUU-UAAG---GAAUACAU-ACAGU-AAAAGUAU-UAG-UAU-UAAAGAGA-UUUAU-UCCU-UCCUA------AUA-----------UAGGUAAAAAA-GUAUCA--AUAAAAUGUG---UAUUAGUA-AA---AAAAU----UUCGAACAUA-CAC-A-UUUU-AU
>URS0000D6BDB8_12908/1-148
CUCUAAUAC-AAAUUUUGAGAUU-AUG---UGUUU-UAAG---GAAUACAU-ACAGU-AAAAGUAU-UAG-UAU-UAAAGAGA-UUUAU-UCCU-UCCUA-------AUA----------UAGGUAAAAAA-GUAUCA--AUAAAAUGUG---UAUUAGUA-AA---AAAAU----UUCGAACAUA-CAC-A-UUUU-AU
>URS0000D69EB0_12908/1-150
CUCUAAUACAAUUUUC--AGACU-AUA---UAUUU-CAAG---GAAUAUAU-ACAGC-AAAAGUAU-UAG-UAU-UAAAGAGA-UUUAU-UCCU-UCC--------AAGAAAAAAA------GGUAAAAAA-GAAUCA--AUAAAAUAGA---UAUUAGUAAAAU--AAA-----AUU-GAAUAUA-UUU-A-UUUU-AU
>URS0000D6704C_12908/1-162
CUCUAAUAC-AAAUUUUCAGAUG-UUA---UAUUU-UAAG---GAAUAUUU-CCAGU-AAAUGUAU-UAG-UCU-UAAAGAGA-UUUAU-UCCU-UCCAAAAUUGCAAAA----GCAA-CAAGGUAAAAAU-GUAUCA--GUAAAAUAGA---UAUUAGUAGAAU--UCCG----AUUUGAAUAUA-UCU-A-UUUU-AC
>URS0000D6579B_12908/1-150
CUCUAAUACAAAUUUU--AGAUU-AUA---UAUUU-UAAG---GAAUAUAU-ACAGU-AAAGGUGU-UAG-UAU-UAAAGAGA-UUUAU-UCCU-UCCUA------AUAAA---------AAGGUAAAAAA-GAAACA--AUAAAAUAAA---UGUUAGUA-AAA--AGUAU---UUU-GAAUAUA-UUU-A-UUUU-AU
>URS0000D6AC17_12908/1-143
CUCUAAUACACAUUUG--AGAUG-AUA---UAUUU-UACG---GAAUAUAU-CCAGU-AAAAGUAU-UAG-UAU-UAAAGAGA-UUUAU-UCCU-UCC--------GCAAA-----------GGUAAAAAU-GUAUCA--GUAAAAUAUA---UAUUAGUA-AA---AAUU-----UU-GAAUAUA-GGU-A-UUUU-AU
>URS0000D66584_12908/1-143
CUCUAAUACACAUUUG--AGAUG-AUA---UAUUU-UACG---GAAUAUAU-CCAGU-AAAAGUAU-UAG-UAU-UAAAGAGA-UUUAU-UCCU-UCC--------GCAAA-----------GGUAAAAAU-GUAUCA--GUAAAAUAUA---UAUUAGUA-AA---AAUU-----UU-GAAUAUA-UGU-A-UUUU-AU
>URS0000D6721B_12908/1-143
CUCUAAUACACAUUUG--AGAUG-AUA---UAUUU-UACG---GAAUAUAU-CCGGU-AAAAGUAU-UAG-UAU-UAAAGAGA-UUUAU-UCCU-UCC--------GCAAA-----------GGUAAAAAU-GUAUCA--GUAAAAUAUA---UAUUAGUA-AA---AAUU-----UU-GAAUAUA-UGU-A-UUUU-AU
>URS0000D6C541_12908/1-149
CUCUAAUAC-AAAUUG--AGAUU-AUA---UAUUU-UAAG---GAAUAUAU-ACAGU-AAUAGUAU-UAG-UAU-UAAAGAGA-CUUAU-UCCU-UCCUA------AUG-----------UAGGUAAAAAU-GAAUCA--GCAAAAUAUG---UAUUAGUA-AAAU-UUUAU--AUUU-GAAUAUA-UGU-A-UUUU-GC
>URS0000D66851_12908/1-149
CUCUAAUAC-AAAUUG--AGAUU-AUA---UAUUU-UAAG---GAAUAUAU-ACAGU-AAGUGUAU-UAG-UAU-UAAAGAGA-CUUAU-UCCU-UCCUA------AUG-----------UAGGUAAAAAU-GAAUCA--GCAAAAUAUG---UAUUAGUA-AAAU-UUUAU--AUUU-GAAUAUA-UGU-A-UUUU-GC
>URS0000D662A8_12908/1-156
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>URS0000D6A192_12908/1-142
CUCUACCAC-AUAGUC--AGAUGCCGG---CAGCC-UGAGU--GGCUGCCUCCCAGU-ACAAG--G-UAG----GUAAAGGAC-UACGU-UUCC-GCGCC------AUA-----------GGCGAAAAACU-AAAACA--GCGCACACAC---CGAUAGUA-GG---AAUAU----CC-GAAUUCC-GUG-U-GUGC---
>URS0000D6A142_12908/1-142
CUCUACCAC-AUAGUC--AGAUGCUGA---UAGCC-UAAGU--GGCUAUCUCCCAGU-ACAAG--G-UAG----GUAAAGGAC-UACGUUUCCG-CGCC-------AUA------------GGCGAAAAACUAAAACA--GCGCACACAC---CGAUAGUAGG----AAUAU----AC-GAAUUCC-GUG-U-GUGC---
>URS0000D69338_12908/1-158
CUUUGCCAUCUUCGUC--AGAAGUUGU---CAACU-CAAG---GGUUGGCAUCCAGC-ACAGUUGG-UGA-----UAAAGGGG-UCUGUUUCCU-UGCCCUGCC--AUAU------GGCGCGGCAAAAAAU-CUACGUAGCUGCGAAUGC---CGACAAUA-GG---UAAAU----CC-GAACUCC-GCAAA-GCGC-AG
>URS0000D6757A_12908/1-143
CUCUACCUUCGUGGUC--AGAUGUUAU---AAACU-CAAG---GGUUUAUAUCCAGU-ACAGAAGG---G-----UAAAGGAU-CUUGUUUCCG-UUGC-------GAUA-----------GCAAAAAAAUA---CUAUUUAGCACAAGC---CGAGAGUA-UC---GAUAUU---GA-GAAAUCC-GCA---GUGCUU-
>URS0000D6B9C4_293826/1-146
CAUUUUCAU---CGCC--AGAAG-GCA--AGAUUCCCAAG--GGAGCUUGC-ACAGU-GC--AUGG-AAAA----U-AAGGGG-UCCAUUUCCC-UGCCU------AAA-----------AGGCAAAAAAAUAUAUUG--CUAUGGAAAU---AGCUAGUAGGU---UUAUUC---UC-GAAGAGU-AUUAC-ACAU-AG
>URS0000D67851_12908/1-141
CUCUC----AUUGGCC--AGAUAUUUA---UUACU-UAAG---GGUAAUAUUUCAGU-GC-A-----GAGAGAA-UAAAGGAU-UCCAUUUCCU-UGC--------AUUUA-----------GCAAAAAAU-AUAUUUGGAUAUGAAUGC---CGGAAGUAAGA---AUAAUA---UCCGAACCAC-GCAAU-GC-----
>URS0000D6A898_12908/1-147
CUCUACUCUCACAGCC--AGAUG-UUG---CAGACUCAAG--GGUCUGCAU-CCAGC-GCAGGGAG---G----AUAAAGGAG-CCUAUCUCCU-UGCC-------GCAU-----------GGCAGAAAAGUAAAUUG--UUAUGGAUGC---CGAUAGUA-GCC--ACAA----GGC-CAAUUCC-GCAAC-ACAU-AA
>URS0000D6B9E4_12908/1-143
CUCUC-----GCGGCC--AGAUG-UUG---CAGACUCAAG--GGUCUGCAU-CCAGU-GC-G-----GAGAGAA-UAAAGGAG-UCCAUCUCCA-UGCC-------GAAA-----------GGCAAAAAAG-UAAAAUUUUUAUGGAUGC---CGACAGUA-GCC--GCAA----GGC-CAACUCC-GCAAC-ACAU-AA
>URS0000D6CF82_12908/1-141
CUCUGCCUU-CAAGUC--AGAUG-CUG---CAGACCUAAUG-GGUGUGCAG-UCAGU-AC-AGAGG-U-G-----UAAAGGAU-UCCGUCUCCU-UUGC-------UCUC-----------GCAAAAAAAAUGUAAUG-GGCAUGAAUGC---CGGUAGUA-GU---AUAA-----GC-GAAUCCC-GCAAU-GC-----
>URS0000D6CF82_1262790/1-141
CUCUGCCUU-CAAGUC--AGAUG-CUG---CAGACCUAAUG-GGUGUGCAG-UCAGU-AC-AGAGG-U-G-----UAAAGGAU-UCCGUCUCCU-UUGC-------UCUC-----------GCAAAAAAAAUGUAAUG-GGCAUGAAUGC---CGGUAGUA-GU---AUAA-----GC-GAAUCCC-GCAAU-GC-----
>URS0000D6AD79_12908/1-140
CUCUGCCUU-CAAGUC--AGAUG-CUG---CAGACCUAAUG-GGUAUGCAG-UCAGU-AC-AGAGG-U-G-----UAAAGGAU-UCCGUCUCCU-UUGC-------UCUC-----------GCAAAAAAAU-GUAAUG-GGCAUGAAUGC---CGGUAGUA-GU---AUAA-----GC-GAAUCCC-GCAAU-GC-----
>URS0000D6688C_12908/1-140
CUCUGCCUU-CAAGUC--AGAUG-CUG---CAGACCUAAUG-GGUGUGCAG-UCAGU-AC-AGAGG-U-G-----UAAAGGAU-UCCGUCUCCU-GUGC-------UCUC-----------GCAAAAAAAU-GUAAUG-GGCAUGAAUGC---CGGUAGUA-GU---AUAA-----GC-GAAUCCC-GCAAU-GC-----
>URS0000D68E6A_12908/1-140
CUCUGCCUU-CAAGUC--AGAUG-CUG---CAGACCUAAUG-GGUGUGCAG-UCAGU-AC-AGAGG-U-G-----UAAAGGAU-UCCGUCUCCU-UUGC-------UCUC-----------GCAAAAAAAU-GUAAUG-GGCAUGAAUGC---CGGUAGUA-GU---AUAA-----GC-GAAUCCC-GCAAU-GC-----
>URS0000D68E6A_742740/1-140
CUCUGCCUU-CAAGUC--AGAUG-CUG---CAGACCUAAUG-GGUGUGCAG-UCAGU-AC-AGAGG-U-G-----UAAAGGAU-UCCGUCUCCU-UUGC-------UCUC-----------GCAAAAAAAU-GUAAUG-GGCAUGAAUGC---CGGUAGUA-GU---AUAA-----GC-GAAUCCC-GCAAU-GC-----
>URS0000D6C164_12908/1-145
CUCUGCCUU-CAAGUC--AGAUG-CUG---CAGACCUAAUG-GGUGUGCAG-UCAGU-AC-AGAGG-U-G-----UAAAGGAU-UCCGUCUCCU-UUGC-------UCUC-----------GCAAAAAAAU-GUAAUGGGCAUUGAAUGC---CGGUAGUA-GU---AUAA-----GC-GAAUCCC-GCAAU-GCUC-UG
>URS0000D68716_12908/1-145
CUCUACCUUCUAAGUC--AGAUG-UUG---UAUACCUACCG-GGUAUACUU-CCAGU-AC-AGAGG-U-G-----UAAAGGAU-UCCGUUUCCU-UGCU-------GUAU-----------AGCAAAAAGU-AAAUC---AUGUGACUGC---CGGCGGUA-GA---GAAAAU---UC-GAGGCUC-GCAAU-GCAC-AU
>URS0000D673CB_1198630/1-139
CUCUC-----AUUGUC--AGAAG-UGA---UAUUCUUAAG--GGAAUAUCU-CCAGU-AC-A-----GAGAGAA-UAAAGGGG-UUCAUCUCCC-UGCC-------GACAA----------GGCAAAAAACUGAAUUG--CUAUGAAAGC---AUCUAGUA-G----GACA------C-GAACGAU-GCU-ACGCAU-AG
>URS0000D6BD4C_12908/1-142
----CUCUCCAAAGUC--AGAUG-CUA---UAAUCUCAAG--GGAUUUUAG-CCAGC-AC-AGAGA-G-G----AUAAAGGGG-UCUGCUUCCG-UGCC-------GACAA----------GGCAAAAAACAAGAUGAAGCUGUGCCUGC---CGUUAGUA-G----AUCC------C-GAACGCC-GCAAA-GCAC-AG
>URS0000D68EDC_459349/1-142
UUCCAUUA--UAAUAAUCAGAAU-UUA---CUCUG-UACG---CAAAGUAA-AU-GU-AAAAAAGG-GAA---A-UCCAGAGC-UUCAU-CCAG-UUCUC------UAAAA---------GAGACAAAAAG--AAAG---UGAGUUUAUU---GCUGAGUA-GU---UAAA-----UC-AAAAAGC-AGU-A-AACU-CU
There are no chains in PDB that we map to Rfam family RF02921.
Jump to results for:
- Loop 1IL Column numbers: 5-6, 66-68
- Loop 2IL Column numbers: 9-14, 60-63
- Loop 3IL Column numbers: 15-23, 53-59
- Loop 4IL Column numbers: 23-25, 51-53
- Loop 5IL Column numbers: 27-31, 48-49
- Loop 6HL Column numbers: 35-44
- Loop 7HL Column numbers: 100-121
- Loop 8IL Column numbers: 142-143, 197-199
- Loop 9IL Column numbers: 146-147, 192-194
- Loop 10IL Column numbers: 147-148, 190-192
- Loop 11IL Column numbers: 150-154, 186-188
- Loop 12IL Column numbers: 156-163, 178-184
- Loop 13HL Column numbers: 164-177
Loop 1 Internal loop
Column numbers: 5-6, 66-68
Scored sequences and counts
AA*U-U 89
GC*G-U 8
AC*G-U 6
AU*A-C 3
CU*A-G 3
AU*U-U 2
GU*A-C 2
UA*U-A 2
AA*UUU 1
AG*U-U 1
AU*A-U 1
AU*G-G 1
CC*G-G 1
GC*G-A 1
GC*G-C 1
GG*C-C 1
UA*U-U 1
UC*G-A 1
UG*C-A 1
UG*C-U 1
UU*G-A 1
Omitted sequenced and counts
C-*--G 5
AC*G-- 2
--*--- 2
AA*--U 1
CC*G-- 1
--*U-U 1
AG*--- 1
GC*--- 1
U-*--A 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_84476.1
Basepair signature:
|
96.88 | 27.62 | 3 | 2 |
Multiple bulged bases |
| 2 |
Motif group IL_07039.3
Basepair signature:
|
95.31 | 19.20 | 2 | 1 |
Major groove platform |
| 3 |
Motif group IL_42771.1
Basepair signature:
|
92.97 | 21.60 | 1 | 1 |
Multiple bulged bases |
| 4 |
Motif group IL_73452.2
Basepair signature:
|
91.41 | 18.10 | 4 | 1 |
|
| 5 |
Motif group IL_00225.13
Basepair signature:
|
90.63 | 4.80 | 2 | 1 |
Single bulged G |
| 6 |
Motif group IL_81831.1
Basepair signature:
|
86.72 | 18.89 | 4 | 1 |
Intercalated cWS |
| 7 |
Motif group IL_66635.5
Basepair signature:
|
85.94 | 10.29 | 3 | 1 |
Major groove intercalation |
| 8 |
Motif group IL_33761.2
Basepair signature:
|
85.94 | 4.92 | 4 | 1 |
|
| 9 |
Motif group IL_26793.1
Basepair signature:
|
85.16 | 12.37 | 3 | 1 |
Single stack bend |
| 10 |
Motif group IL_16386.4
Basepair signature:
|
85.16 | 7.58 | 5 | 1 |
|
Loop 2 Internal loop
Column numbers: 9-14, 60-63
Scored sequences and counts
U-UAUU*A-AG 9
CAAUUU*AAGG 8
U-CAAG*C-AG 8
CAAUUU*AAAG 7
C-AAUU*AAAG 5
C-UAAA*UUUG 5
U-CAUU*A-AG 5
U-CAAU*A-AA 4
U-CAUU*A-AA 4
U-UAUU*A-AA 4
CACAUU*AAAG 3
CAUUUU*AAGG 3
A-CUUU*CUAU 3
C-AUAG*CAAG 3
C-UAUU*A-AG 3
CAUAA-*--AG 3
CAAAUU*AAAG 2
A-CUUU*ACUA 2
U-UAAA*UUUG 2
U-UAAG*UAGG 2
G-CGUG*C-AC 2
U-CUUU*A-AG 2
U-UAUU*A-UG 2
UAUAUA*A--U 2
CAAAUU*AAGG 1
CAAGCU*AAAG 1
CAGAGU*AUAU 1
CAUAAG*CAUG 1
CAUUUU*AAAG 1
CUACGU*AAAG 1
CUUUUU*AAGG 1
UAAAAU*UAUA 1
UCACAG*CAGG 1
UCGUGG*CAGA 1
UCUUCG*CAGU 1
UUUUUG*CUAA 1
A-UGUG*CUUU 1
C-AAAU*AAAG 1
C-AAAU*AAUG 1
C-AAAU*AGUG 1
C-AAAU*AUAG 1
CAUAGU*A-AG 1
CCAAAG*C-AG 1
G-CAAG*CACC 1
U-ACGG*CAAA 1
U-UCAG*CAGA 1
UCUAAG*C-AG 1
UUUUUU*A-AA 1
UUUUUU*A-GA 1
--CGAG*CAUU 1
--UAAU*AAAA 1
A-ACCG*C-AU 1
A-UUUG*C-AA 1
C-AUAG*C-CG 1
C-UAAG*C-CG 1
U-AUAG*C-AG 1
U-CAAG*C-CA 1
U-CAAU*A-UA 1
U-CAAU*A-UG 1
U-UAGU*G-CA 1
U-UAUU*A-UA 1
U-UGCG*C-AA 1
-AUUGG*C-A- 1
A-AUAG*C--A 1
C-AAUU*C--A 1
C-ACUG*C--G 1
--AUUG*C-A- 1
--GCAA*U-C- 1
--GCGG*C-G- 1
--GUAG*C-A- 1
--GUGG*C-A- 1
U---AG*C--A 1
U---CG*C--A 1
Omitted sequenced and counts
GGCAAG*C--- 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_11344.2
Basepair signature:
|
34.51 | -22.94 | 5 | 3 |
180 degree turn |
| 2 |
Motif group IL_10389.1
Basepair signature:
|
33.80 | -31.73 | 5 | 3 |
|
| 3 |
Motif group IL_47972.1
Basepair signature:
|
30.99 | -40.86 | 5 | 3 |
|
| 4 |
Motif group IL_49061.1
Basepair signature:
|
30.99 | -58.12 | 5 | 2 |
|
| 5 |
Motif group IL_34737.1
Basepair signature:
|
29.58 | -27.54 | 6 | 3 |
|
| 6 |
Motif group IL_14177.2
Basepair signature:
|
28.87 | -41.89 | 6 | 3 |
|
| 7 |
Motif group IL_05192.4
Basepair signature:
|
26.76 | -35.26 | 5 | 3 |
|
| 8 |
Motif group IL_44325.1
Basepair signature:
|
26.76 | -50.03 | 6 | 3 |
|
| 9 |
Motif group IL_36516.3
Basepair signature:
|
23.94 | -95.66 | 5 | 2 |
|
| 10 |
Motif group IL_57881.1
Basepair signature:
|
23.24 | -55.64 | 6 | 3 |
Multiple bulged bases |
Loop 3 Internal loop
Column numbers: 15-23, 53-59
Scored sequences and counts
CU--AGAUU*ACAAU-G 24
UC--AGAUU*ACAGU-A 10
UC--AGAUG*UCAGU-A 8
UU--CGAUG*CCAAU-A 7
UC--AGAUG*CCAGU-A 6
CC--AGAUG*CCAGU-G 4
CG--AGAUU*ACAGU-G 4
UG--AGAUU*ACAGU-A 4
UC--AGACU*GCAAGGA 3
CC--AGAUA*UCAGU-G 3
CC--AGAUU*ACAGA-G 3
CC--AGAUU*ACAGC-G 3
CG--AGAUU*ACAGA-G 3
UC--AGAAG*CCAGU-A 3
CACCUGAUU*AGCAUAG 2
CU--AGAUA*UCAAU-G 2
UC--AGAAG*CCAGC-A 2
UC--AGACU*GCGAA-G 2
UC--AGAUU*ACAGC-A 2
UG--AGAUG*CCAGU-A 2
-A--AGAGU*AAAUUA- 2
CCAGUGGGG*CGAGA-G 1
UAUCAGAUA*AGAGU-A 1
UUCGAGAUU*ACAGU-G 1
UUUCAGAUG*CCAGU-A 1
UUUCAGAUU*ACAGU-A 1
UUUGAGAUU*ACAGU-A 1
AAUCAGAAU*AU-GU-A 1
CC--AGAUU*ACAGUAG 1
CU--AGAUU*ACAAUUG 1
CA--GGAUU*ACAAU-G 1
CC--AGAAG*ACAGA-G 1
CC--AGAAG*ACAGC-G 1
CC--AGAAG*ACAGU-G 1
CC--AGAAG*CCAGU-G 1
CC--AGAAG*UCAGU-G 1
CC--AGAAU*ACAGU-G 1
CC--AGAAU*AGAGU-G 1
CC--AGAUA*UCAGC-G 1
CC--AGAUG*AGAGU-G 1
CC--AGAUG*CCAGC-G 1
CG--AGAAG*ACAGU-G 1
CU--AGGUA*UCAAU-G 1
CU--CGAUU*ACAAU-G 1
UC--AGAAG*ACAGA-A 1
UC--AGAAG*GCAGA-A 1
UC--AGACU*ACAGC-A 1
UC--AGAUA*ACAGA-A 1
UC--AGAUG*CCAGC-A 1
UC--AGAUU*AUAGC-A 1
UC--AGCAU*ACCGU-A 1
UC--GGAAU*ACAGU-A 1
UG--AGAGU*AGAGG-G 1
UG--AGAUG*CCGGU-A 1
UG--AGAUU*ACAGU-G 1
UG--AGAUU*ACGGU-A 1
UG--CGAUU*ACAGU-G 1
UU--AGAUG*CCAAU-A 1
UU--AGAUU*ACAAU-A 1
UU--AGAUU*ACAGU-A 1
UU--AGCAG*CCAGU-A 1
UU--AGGUA*UCAAA-U 1
UU--UGAUG*CCAAU-A 1
-A--AGGGU*AAAUUA- 1
UU--AGGUA*UCAA--A 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_71294.3
Basepair signature:
|
4.20 | -56.84 | 7 | 4 |
Double sheared; A in syn; two near cWW pairs |
| 2 |
Motif group IL_34822.1
Basepair signature:
|
2.10 | -52.06 | 7 | 5 |
|
| 3 |
Motif group IL_26307.2
Basepair signature:
|
1.40 | -67.91 | 6 | 5 |
7x6 Sarcin-Ricin; G-bulge |
| 4 |
Motif group IL_58126.1
Basepair signature:
|
0.70 | -27.05 | 6 | 4 |
|
| 5 |
Motif group IL_12745.1
Basepair signature:
|
0.70 | -43.82 | 8 | 5 |
tWH-tWH-tHW-tHW |
| 6 |
Motif group IL_78349.3
Basepair signature:
|
0.70 | -55.18 | 8 | 5 |
|
| 7 |
Motif group IL_23038.1
Basepair signature:
|
0.70 | -65.25 | 8 | 6 |
|
| 8 |
Motif group IL_22564.1
Basepair signature:
|
0.70 | -66.43 | 9 | 6 |
|
| 9 |
Motif group IL_57188.5
Basepair signature:
|
0.70 | -76.23 | 6 | 5 |
Kink-turn related |
| 10 |
Motif group IL_76308.6
Basepair signature:
|
0.70 | -79.16 | 8 | 4 |
tSH-tWH-tHS-cWW |
Loop 4 Internal loop
Column numbers: 23-25, 51-53
Scored sequences and counts
U-A*U-A 67
G-U*U-C 9
G-C*G-U 7
G-U*G-C 5
U-U*A-G 5
G-C*G-A 4
U-G*U-A 4
U-U*A-A 4
GCU*UCC 3
GUU*AUC 3
G-A*U-C 3
G-G*U-C 3
GUU*UUC 2
A-A*U-U 2
A-G*C-U 2
A-U*U-U 2
U-G*C-A 2
AUU*UUU 1
GCC*UCC 1
GCG*CGA 1
GGC*GUU 1
A-G*CUA 1
A-U*AUA 1
G-C*GCC 1
G-U*UUC 1
A-C*G-U 1
A-G*U-U 1
G-C*G-C 1
G-C*G-G 1
G-G*C-A 1
G-U*A-C 1
G-U*A-U 1
U-C*G-A 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_07039.3
Basepair signature:
|
87.41 | 13.89 | 2 | 1 |
Major groove platform |
| 2 |
Motif group IL_84476.1
Basepair signature:
|
86.71 | 10.21 | 4 | 2 |
Multiple bulged bases |
| 3 |
Motif group IL_42771.1
Basepair signature:
|
84.62 | 18.37 | 2 | 1 |
Multiple bulged bases |
| 4 |
Motif group IL_81831.1
Basepair signature:
|
72.73 | 11.15 | 2 | 1 |
Intercalated cWS |
| 5 |
Motif group IL_73452.2
Basepair signature:
|
69.93 | 9.41 | 4 | 1 |
|
| 6 |
Motif group IL_31737.3
Basepair signature:
|
68.53 | -0.78 | 3 | 1 |
Stack and bulge |
| 7 |
Motif group IL_00225.13
Basepair signature:
|
68.53 | -6.09 | 1 | 1 |
Single bulged G |
| 8 |
Motif group IL_66635.5
Basepair signature:
|
67.13 | 0.84 | 3 | 1 |
Major groove intercalation |
| 9 |
Motif group IL_33761.2
Basepair signature:
|
67.13 | -0.47 | 4 | 1 |
|
| 10 |
Motif group IL_26793.1
Basepair signature:
|
61.54 | 1.54 | 2 | 1 |
Single stack bend |
Loop 5 Internal loop
Column numbers: 27-31, 48-49
Scored sequences and counts
A---U*AU 74
G---C*GC 11
U---A*UA 11
G---C*AC 5
A---U*GU 4
G---U*AC 4
A---C*GU 3
C---A*UG 3
G---U*AU 3
G---U*GC 3
U---G*CA 3
G---G*CC 2
U---A*UU 2
UUAUA*UA 1
A--AA*UU 1
A--AC*GU 1
A--AG*UU 1
A--CA*UA 1
U--AA*UU 1
A---A*UU 1
A---G*CU 1
A---U*AG 1
A---U*UU 1
C---A*UA 1
C---U*GG 1
G---A*UC 1
U---C*GG 1
U---U*AA 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_07039.3
Basepair signature:
|
95.10 | 15.70 | 2 | 1 |
Major groove platform |
| 2 |
Motif group IL_84476.1
Basepair signature:
|
93.71 | 26.00 | 3 | 2 |
Multiple bulged bases |
| 3 |
Motif group IL_42771.1
Basepair signature:
|
93.01 | 21.25 | 3 | 1 |
Multiple bulged bases |
| 4 |
Motif group IL_73452.2
Basepair signature:
|
86.71 | 19.05 | 4 | 1 |
|
| 5 |
Motif group IL_66635.5
Basepair signature:
|
86.01 | 13.07 | 3 | 1 |
Major groove intercalation |
| 6 |
Motif group IL_33761.2
Basepair signature:
|
85.31 | 6.56 | 4 | 1 |
|
| 7 |
Motif group IL_00225.13
Basepair signature:
|
85.31 | 1.93 | 1 | 1 |
Single bulged G |
| 8 |
Motif group IL_81831.1
Basepair signature:
|
84.62 | 18.77 | 4 | 1 |
Intercalated cWS |
| 9 |
Motif group IL_26793.1
Basepair signature:
|
83.92 | 13.16 | 1 | 1 |
Single stack bend |
| 10 |
Motif group IL_90729.1
Basepair signature:
|
83.92 | 8.99 | 1 | 1 |
Single stack bend |
Loop 6 Hairpin loop
Column numbers: 35-44
Scored sequences and counts
U-UAAG---G 48
U-UACG---G 30
CCUAAUG-GG 9
U-CAAG---G 9
U-UAUG---G 8
C-UACG---G 4
CUCAAG--GG 3
U-UACG---A 3
CCUACCG-GG 2
GAUACG--UC 2
C-UAAGU--G 2
U-CAUG---G 2
U-UAGG---G 2
GGUCAAGGCU 1
AACACGC-GG 1
AUCAAG--GU 1
CCCAAG--GG 1
CCCACG--GG 1
CUUAAG--GG 1
UCUACG--GG 1
UUCACG--GG 1
C-UGAGU--G 1
UC-AAC--GA 1
C-CAAG---G 1
C-UAAG---G 1
C-UACG---A 1
C-UAUG---G 1
G-UACG---C 1
U-GAAA---A 1
U-UAGG---A 1
U-UCCC---A 1
--UAAC---A 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group HL_50006.2
Basepair signature:
|
71.33 | 0.24 | 3 | 2 |
|
| 2 |
Motif group HL_93535.1
Basepair signature:
|
71.33 | -19.30 | 2 | 2 |
|
| 3 |
Motif group HL_56676.1
Basepair signature:
|
70.63 | -19.75 | 2 | 2 |
|
| 4 |
Motif group HL_99040.1
Basepair signature:
|
70.63 | -69.58 | 2 | 2 |
|
| 5 |
Motif group HL_57875.1
Basepair signature:
|
50.35 | -14.22 | 2 | 2 |
|
| 6 |
Motif group HL_69752.2
Basepair signature:
|
45.45 | -19.19 | 3 | 2 |
|
| 7 |
Motif group HL_53890.2
Basepair signature:
|
38.46 | -10.51 | 2 | 2 |
|
| 8 |
Motif group HL_34617.5
Basepair signature:
|
37.76 | -19.22 | 2 | 1 |
UNCG |
| 9 |
Motif group HL_55195.3
Basepair signature:
|
34.27 | -36.91 | 2 | 2 |
|
| 10 |
Motif group HL_32392.1
Basepair signature:
|
34.27 | -37.95 | 3 | 2 |
|
Loop 7 Hairpin loop
Column numbers: 100-121
Scored sequences and counts
A------AUU-----------U 26
-------UCUC----------- 7
A------UUU-----------U 6
AAAU---GUAA-------GUUU 5
GG-----GACUA--------CC 5
-------AAUUA---------- 5
-------AAUUC---------- 5
--------UAAG---------- 5
-------UAUUAAAU------- 4
UU-----UCUAA--------AA 3
-------GACAA---------- 3
-------GCAAA---------- 3
A------AUG-----------U 3
-------GUA------------ 3
-------AUAAAA--------- 2
-------GAUAA---------- 2
C------AUA-----------G 2
-------GAAA----------- 2
-------AUA------------ 2
AUUUACUAAUAC---AGUAAAA 1
GCGCCAGCUUGU---CUGGC-C 1
AAAUUGCAAAA----GCAA-CA 1
GCGAUCUAUUUU---GGA--CC 1
GCGCAUUGUUC----AAUGC-C 1
GC-AAGAUCUA----UCUU--C 1
AAAA---GUAAAG-----UUUU 1
CUGCC--AUAU------GGCGC 1
GGGUG--GUGA------CACCU 1
CAUA---GUGAU------UAUG 1
AAAA---GAAA-------UUUU 1
AAAA---GCAA-------UUUU 1
AAAA---GGAA-------UUUU 1
AAAA---GUAA-------UUUU 1
AAAA---GUAAC------UU-U 1
AAAU---GUAA-------AUUU 1
CUUG---GUGA-------CAAG 1
UGCA---GCGA-------UGCG 1
-------AAGAAAAAAA----- 1
A------AGUAAAAG------U 1
-------AUGAAAAU------- 1
-------UAUAAAUU------- 1
-------UUAGAAUU------- 1
A------AUAAA---------A 1
C------UAAAA---------G 1
-------GAUGA---------A 1
-------GCAAAA--------- 1
-------UGAAAU--------- 1
A------UAUA----------U 1
C------GAAA----------G 1
C------GAGA----------G 1
C------GCAA----------G 1
U------UUAA----------A 1
-------ACUAU---------- 1
-------AUUUA---------- 1
-------GAAAA---------- 1
-------GAAUA---------- 1
-------UUGAA---------- 1
A-------AUA----------U 1
A------AUA-----------U 1
A------GUU-----------U 1
C------AAG-----------C 1
U------AAA-----------A 1
-------AUUU----------- 1
-------GAUA----------- 1
-------GCAU----------- 1
-------GUAU----------- 1
-------UCUU----------- 1
-------UUAA----------- 1
-------UUUG----------- 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group HL_75660.5
Basepair signature:
|
48.25 | -2100.93 | 2 | 1 |
|
| 2 |
Motif group HL_70782.2
Basepair signature:
|
45.45 | -1735.90 | 4 | 2 |
|
| 3 |
Motif group HL_53890.2
Basepair signature:
|
43.36 | -461.73 | 3 | 2 |
|
| 4 |
Motif group HL_56334.1
Basepair signature:
|
43.36 | -1735.15 | 2 | 2 |
Mini UNCG |
| 5 |
Motif group HL_48417.5
Basepair signature:
|
42.66 | -64.93 | 3 | 2 |
|
| 6 |
Motif group HL_48778.2
Basepair signature:
|
42.66 | -1747.55 | 2 | 2 |
Mini UNCG |
| 7 |
Motif group HL_32346.4
Basepair signature:
|
41.26 | -1745.28 | 2 | 2 |
|
| 8 |
Motif group HL_56131.2
Basepair signature:
|
39.16 | -440.10 | 4 | 3 |
|
| 9 |
Motif group HL_38901.2
Basepair signature:
|
37.76 | -835.23 | 3 | 2 |
tRNA D-loop |
| 10 |
Motif group HL_38168.1
Basepair signature:
|
37.06 | -2113.84 | 4 | 2 |
|
Loop 8 Internal loop
Column numbers: 142-143, 197-199
Scored sequences and counts
UA*U-A 50
CA*U-G 15
AA*U-U 13
AG*C-U 8
AU*A-U 8
UG*C-A 5
GG*C-C 4
UU*A-A 3
AG*U-U 2
GA*U-C 2
GC*G-C 2
AA*UUU 1
AG*CUU 1
CA*UAG 1
GA*UGU 1
AA*UA- 1
AC*G-U 1
AU*C-U 1
CG*C-G 1
GA*U-U 1
GG*C-U 1
GU*A-C 1
GU*AU- 1
UG*U-A 1
Omitted sequenced and counts
CA*--- 6
GA*--- 5
CG*C-- 3
-G*CUU 1
CA*--G 1
UG*C-- 1
UA*--- 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_07039.3
Basepair signature:
|
100.00 | 22.28 | 2 | 1 |
Major groove platform |
| 2 |
Motif group IL_84476.1
Basepair signature:
|
99.20 | 29.41 | 3 | 2 |
Multiple bulged bases |
| 3 |
Motif group IL_42771.1
Basepair signature:
|
99.20 | 25.70 | 3 | 1 |
Multiple bulged bases |
| 4 |
Motif group IL_33761.2
Basepair signature:
|
97.60 | 9.56 | 4 | 1 |
|
| 5 |
Motif group IL_81831.1
Basepair signature:
|
96.80 | 23.03 | 2 | 1 |
Intercalated cWS |
| 6 |
Motif group IL_66635.5
Basepair signature:
|
96.80 | 14.97 | 3 | 1 |
Major groove intercalation |
| 7 |
Motif group IL_00225.13
Basepair signature:
|
96.00 | 8.30 | 1 | 1 |
Single bulged G |
| 8 |
Motif group IL_26793.1
Basepair signature:
|
95.20 | 15.89 | 2 | 1 |
Single stack bend |
| 9 |
Motif group IL_90729.1
Basepair signature:
|
95.20 | 11.69 | 2 | 1 |
Single stack bend |
| 10 |
Motif group IL_73452.2
Basepair signature:
|
94.40 | 21.97 | 4 | 1 |
|
Loop 9 Internal loop
Column numbers: 146-147, 192-194
Scored sequences and counts
AU*A-U 29
UU*A-A 20
AC*G-U 16
AA*U-G 8
UA*U-A 8
GC*G-C 6
CU*A-G 5
AA*C-G 4
AU*G-U 4
CA*U-G 4
UG*UAG 3
AG*U-U 3
CG*C-G 3
GA*C-A 3
GC*G-U 3
GU*A-C 3
AA*A-G 2
GA*A-A 2
AA*ACG 1
AA*A-U 1
AA*U-U 1
AC*U-G 1
AU*G-A 1
CA*G-G 1
CC*A-G 1
GA*U-A 1
GU*C-C 1
UG*-AA 1
UG*-AG 1
UG*C-A 1
UU*G-A 1
Omitted sequenced and counts
CA*--G 1
CG*--A 1
UU*--A 1
A-*--U 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_07039.3
Basepair signature:
|
89.21 | 15.00 | 3 | 1 |
Major groove platform |
| 2 |
Motif group IL_84476.1
Basepair signature:
|
80.58 | 19.35 | 3 | 2 |
Multiple bulged bases |
| 3 |
Motif group IL_42771.1
Basepair signature:
|
80.58 | 14.73 | 3 | 1 |
Multiple bulged bases |
| 4 |
Motif group IL_00225.13
Basepair signature:
|
76.98 | -2.41 | 2 | 1 |
Single bulged G |
| 5 |
Motif group IL_66635.5
Basepair signature:
|
74.82 | 7.14 | 3 | 1 |
Major groove intercalation |
| 6 |
Motif group IL_33761.2
Basepair signature:
|
74.82 | 0.49 | 4 | 1 |
|
| 7 |
Motif group IL_81831.1
Basepair signature:
|
74.10 | 11.63 | 3 | 1 |
Intercalated cWS |
| 8 |
Motif group IL_73452.2
Basepair signature:
|
73.38 | 11.00 | 4 | 1 |
|
| 9 |
Motif group IL_26793.1
Basepair signature:
|
73.38 | 5.99 | 2 | 1 |
Single stack bend |
| 10 |
Motif group IL_90729.1
Basepair signature:
|
73.38 | 2.11 | 2 | 1 |
Single stack bend |
Loop 10 Internal loop
Column numbers: 147-148, 190-192
Scored sequences and counts
UA*U-A 36
CA*U-G 24
UU*A-A 9
AU*AAU 8
UG*C-A 8
AG*C-U 7
AC*G-U 4
UA*U-G 4
AU*AAC 3
GA*G-U 3
GG*C-C 3
AA*UAA 2
AG*CAC 2
AA*U-A 2
GU*A-U 2
AA*GAA 1
AA*UAC 1
AG*UAC 1
AU*AAA 1
CU*AAA 1
CU*AAU 1
UG*CAA 1
AA*U-G 1
AG*U-U 1
AU*G-U 1
CU*A-G 1
GA*U-U 1
GA*UA- 1
GC*G-C 1
UA*A-A 1
UC*G-A 1
UC*G-G 1
UG*C-C 1
UG*U-G 1
UU*G-A 1
Omitted sequenced and counts
GA*U-- 2
A-*G-U 1
AA*A-- 1
UG*C-- 1
-G*U-- 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_07039.3
Basepair signature:
|
94.89 | 25.25 | 2 | 1 |
Major groove platform |
| 2 |
Motif group IL_42771.1
Basepair signature:
|
93.43 | 30.10 | 2 | 1 |
Multiple bulged bases |
| 3 |
Motif group IL_81831.1
Basepair signature:
|
89.78 | 22.42 | 2 | 1 |
Intercalated cWS |
| 4 |
Motif group IL_66635.5
Basepair signature:
|
86.13 | 18.92 | 3 | 1 |
Major groove intercalation |
| 5 |
Motif group IL_33761.2
Basepair signature:
|
86.13 | 14.31 | 4 | 1 |
|
| 6 |
Motif group IL_73452.2
Basepair signature:
|
85.40 | 21.88 | 4 | 1 |
|
| 7 |
Motif group IL_26793.1
Basepair signature:
|
85.40 | 21.05 | 2 | 1 |
Single stack bend |
| 8 |
Motif group IL_90729.1
Basepair signature:
|
85.40 | 16.58 | 2 | 1 |
Single stack bend |
| 9 |
Motif group IL_31737.3
Basepair signature:
|
85.40 | 8.00 | 3 | 1 |
Stack and bulge |
| 10 |
Motif group IL_16386.4
Basepair signature:
|
83.21 | 9.19 | 4 | 1 |
|
Loop 11 Internal loop
Column numbers: 150-154, 186-188
Scored sequences and counts
A---U*A-U 40
C---C*C-G 19
G---U*A-U 18
G---U*A-C 17
C---G*C-G 9
GCGAC*AAC 4
G---U*AUA 3
C---A*U-G 3
U---A*U-A 3
U---U*G-A 3
A--AU*GGU 2
A---G*U-U 2
U---G*C-A 2
AUAAC*AAU 1
AUUAA*AAU 1
GUAAA*AAC 1
A-UAA*CAU 1
G--CC*GCA 1
U-UAA*A-A 1
U---U*UAA 1
A---U*A-G 1
C---C*U-G 1
C---U*C-G 1
G---G*C-C 1
G---G*C-U 1
G---U*C-C 1
G---U*G-A 1
G---U*U-C 1
U---A*U-G 1
U---G*U-U 1
U---U*C-A 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_07039.3
Basepair signature:
|
90.21 | -0.83 | 3 | 1 |
Major groove platform |
| 2 |
Motif group IL_84476.1
Basepair signature:
|
88.11 | 8.83 | 3 | 2 |
Multiple bulged bases |
| 3 |
Motif group IL_42771.1
Basepair signature:
|
72.73 | 2.11 | 3 | 1 |
Multiple bulged bases |
| 4 |
Motif group IL_00225.13
Basepair signature:
|
66.43 | -25.06 | 1 | 1 |
Single bulged G |
| 5 |
Motif group IL_31737.3
Basepair signature:
|
58.74 | -8.58 | 3 | 1 |
Stack and bulge |
| 6 |
Motif group IL_81831.1
Basepair signature:
|
55.94 | -2.14 | 4 | 1 |
Intercalated cWS |
| 7 |
Motif group IL_73452.2
Basepair signature:
|
53.85 | -0.65 | 3 | 1 |
|
| 8 |
Motif group IL_66635.5
Basepair signature:
|
53.85 | -8.39 | 2 | 1 |
Major groove intercalation |
| 9 |
Motif group IL_33761.2
Basepair signature:
|
53.15 | -14.66 | 3 | 1 |
|
| 10 |
Motif group IL_26793.1
Basepair signature:
|
52.45 | -14.16 | 2 | 1 |
Single stack bend |
Loop 12 Internal loop
Column numbers: 156-163, 178-184
Scored sequences and counts
UUAGUA-A*U-GAAUA 16
UUAGUA-C*G-GAAUA 16
GUAGUA-G*C-GAAUC 7
UUAGUAGG*CAGAAUA 6
UUAGUA-G*C-GAAGG 6
UUAGUA-G*U-GAAUA 6
CUAGUA-A*U-GAAAG 4
UGAGUA-G*C-GAAAA 4
UUAGUA-G*C-GAAAA 4
CCGGUAGG*C-GAAAG 3
AUAGUA-G*C-GAAUU 3
CUAGUA-G*C-GAAAG 3
CUAGUA-G*C-GAACG 3
UUAGUA-A*U-GAAAA 3
UUUGUA-G*C-GAAGA 3
UUAGUA-A*UCGAACA 2
UUAGUAAA*U-GAAUA 2
CCAGUA-G*C-GAGAG 2
CUGGUA-G*C-GAACG 2
UUAGUA-A*U-GAAAG 2
UUAGUA-G*U-GAAAA 2
UUAGUA-U*A-GAAUA 2
AAAGUACC*GUGAAAU 1
CUGGUAGC*GUGAACG 1
CUGGUAGU*AUGAAUG 1
GAAGUAAG*CCGAACC 1
UAAGUAAG*CUGAAAA 1
UAAGUAGG*UAGAACU 1
UUAGUAAA*UUGAAUA 1
UUAGUAAG*UAGAAUG 1
UUAGUAGA*UAGAAAA 1
UUAGUAGA*UUGAAUA 1
UUAGUAGG*CUGAAUA 1
AUAGUA-A*UGAAAUU 1
AUAGUAGG*C-GAAUU 1
CUAGUAGG*C-GAAGA 1
CUGGUAGG*C-GAACG 1
UUAGUA-A*UGGAAUA 1
UUAGUA-G*UAGAAAA 1
UUAGUAGG*C-GAAAA 1
ACAAUA-G*C-GAACU 1
ACAGUA-G*C-CAACU 1
AGAGUA-U*A-GAAAU 1
AUAGUA-A*U-GAACU 1
AUAGUA-G*C-CAAUU 1
AUAGUA-G*C-GAACU 1
AUGGUA-G*C-GAAGU 1
CAAGUA-A*U-GAAAG 1
CCAGUA-A*U-GAAAG 1
CCAGUA-G*C-AACCG 1
CCGGUA-G*C-GAAAG 1
CUGGUA-G*C-GAAAG 1
CUGGUA-G*C-GAAGG 1
GCGGUA-G*C-GAGGC 1
UGAGUA-G*C-AAAAA 1
UUAGUA-A*-GGAAUA 1
UUAGUA-A*A-GAAUA 1
UUAGUA-A*U-GAGGA 1
UUAGUA-G*C-AAAGG 1
UUAGUA-G*C-GAACG 1
UUAGUA-G*C-GAAGA 1
UUAGUA-G*C-GAAUA 1
UUAGUA-G*U-GAAAG 1
UUAGUA-U*G-GAAUA 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group IL_24254.1
Basepair signature:
|
90.91 | 49.90 | 4 | 1 |
7x6 Sarcin-Ricin with UU cWW pair; G-bulge |
| 2 |
Motif group IL_26307.2
Basepair signature:
|
83.92 | 46.27 | 3 | 1 |
7x6 Sarcin-Ricin; G-bulge |
| 3 |
Motif group IL_61286.1
Basepair signature:
|
73.43 | 17.86 | 6 | 2 |
8x6 Sarcin-Ricin with inserted A; G-bulge |
| 4 |
Motif group IL_16458.4
Basepair signature:
|
72.03 | 7.90 | 5 | 2 |
Sarcin-Ricin target in LSU H95; G-bulge |
| 5 |
Motif group IL_04346.10
Basepair signature:
|
62.24 | -0.20 | 4 | 2 |
8x7 Sarcin-Ricin; G-bulge |
| 6 |
Motif group IL_29198.2
Basepair signature:
|
39.16 | -12.29 | 5 | 3 |
7x7 Sarcin-Ricin with intercalated A; G-bulge |
| 7 |
Motif group IL_41756.4
Basepair signature:
|
25.87 | -8.09 | 6 | 3 |
8x6 Sarcin-Ricin with inserted Y; G-bulge |
| 8 |
Motif group IL_65594.1
Basepair signature:
|
23.08 | -16.15 | 5 | 3 |
8x7 Sarcin-Ricin; G-bulge |
| 9 |
Motif group IL_47346.2
Basepair signature:
|
20.98 | -33.74 | 7 | 4 |
tSH-tSH-tHH-tHS |
| 10 |
Motif group IL_02349.4
Basepair signature:
|
17.48 | -31.73 | 7 | 4 |
8x6 Sarcin-Ricin with bulged A; G-bulge |
Loop 13 Hairpin loop
Column numbers: 164-177
Scored sequences and counts
A---AAAU-----U 9
----GAAA------ 8
U---AUAA-----G 7
A---AAAAU----U 5
C---UAA------G 5
A---AAAA-----U 4
AAUUAUAU--AAUU 3
U---GAAAA----G 3
A---AAUU-----U 3
A---UAUA-----U 3
C---GAGA-----G 3
U---UUUG-----A 3
A---AAA------U 3
U---AUG------A 3
AAU-UUUAU--AUU 2
AUAUUAG---AUAU 2
G---AAUAU----C 2
GC--UAA-----GC 2
U---GAAAA----A 2
G---UAAA-----C 2
U---GAAA-----A 2
ACUUGAAACAAAGA 1
ACUUGAAACAAGGA 1
CAAGAAAUU-CUUG 1
GUGAUGAU--UCGC 1
AUAUUAA---AUAU 1
CUAAUAA---UUAG 1
GAGAUUU---UCUC 1
AAA-UAUA---UUU 1
ACA-AUUU---UGC 1
AUU-GAAA---AAU 1
AUU-UAAA---AAU 1
CCUU-GC---AAGG 1
CUU-UUAU---AAG 1
GC--AAAUUU--GC 1
AA--AGUAU---UU 1
CU--UUUUU---AG 1
G---CUAAAAA--C 1
A---AUAAUA---U 1
A---GAAAAU---U 1
AA--AAAU----UU 1
AA--GAAA----UU 1
AU--UCCG----AU 1
C---GAUAUU---G 1
C---UGUAUU---G 1
CC--ACAA----GG 1
CC--AUUG----GG 1
CC--GCAA----GG 1
G---AUAUAC---C 1
GC--GUAU----GC 1
GU--GUAU----GU 1
U---AAAAUG---G 1
U---UUAUUC---U 1
UA--AAGA----UA 1
UC--UUUU----GA 1
UU--GAAA----AA 1
AA--AAA-----UU 1
AC--UUA-----GU 1
AU--AAA-----AU 1
C---AUUU----UG 1
CA--AAA-----UG 1
G---CAUAU----C 1
G---UAAAU----C 1
U---GUUAA----A 1
----AAUAU----A 1
----GAAUAA---- 1
A---GUAA-----U 1
A---UUAA-----G 1
A---UUUU-----U 1
C---AAAA-----G 1
C---AAUA-----G 1
C---AAUU-----G 1
C---GAAG-----G 1
G---UUCG-----C 1
G---UUUG-----C 1
U---AAUU-----A 1
U---GAGA-----G 1
U---UAAA-----A 1
U---UAAA-----U 1
U---UAUU-----A 1
U---UUCU-----A 1
----GAAA-----C 1
----GCUU-----C 1
A---UUU------U 1
C---CAA------G 1
----AGAA------ 1
----AUCC------ 1
----GACA------ 1
Click on headings to reorder table
- View All Results for this Loop
| # | Matching motif group | Acceptance Rate | Mean Cutoff Score | Full Edit Distance | Interior Edit Distance | Basepair Diagram and most common annotation |
|---|---|---|---|---|---|---|
| 1 |
Motif group HL_53890.2
Basepair signature:
|
67.13 | -29.49 | 2 | 1 |
|
| 2 |
Motif group HL_50006.2
Basepair signature:
|
60.14 | -30.49 | 3 | 2 |
|
| 3 |
Motif group HL_75660.5
Basepair signature:
|
51.05 | -557.18 | 3 | 1 |
|
| 4 |
Motif group HL_57875.1
Basepair signature:
|
45.45 | -202.87 | 3 | 2 |
|
| 5 |
Motif group HL_48417.5
Basepair signature:
|
39.86 | -31.16 | 3 | 2 |
|
| 6 |
Motif group HL_04783.2
Basepair signature:
|
39.16 | -39.67 | 3 | 2 |
|
| 7 |
Motif group HL_38901.2
Basepair signature:
|
39.16 | -302.67 | 3 | 2 |
tRNA D-loop |
| 8 |
Motif group HL_82710.2
Basepair signature:
|
38.46 | -220.35 | 4 | 2 |
|
| 9 |
Motif group HL_56334.1
Basepair signature:
|
37.76 | -1091.18 | 3 | 2 |
Mini UNCG |
| 10 |
Motif group HL_38168.1
Basepair signature:
|
35.66 | -567.37 | 4 | 2 |
|