Database
Multiple Alignment
| IDs | Aligned Sequences |
|---|---|
| Consensus structure | 5'-..........<<<<<<.......>>>>>>.<<<......<<<.<<.........>>..>>>....>>>............................. ...............<<<<<<<<<<..........>>>>>>>>>>.............-3' |
| RS013932 (Bacillus subtilis) | 5'-AAUCACAAGCAGAAGC-ACCC--GCUUCUCACCUGAUU-GAC-AC--AUGCA-UGU-AGUUGGCAGGU---------UGACCGUACAUUUUUAUUGA UACAGAUGUUCGUAGUGUGGGUGUU---UUAU---AAUGCCCACACUUUUUGUUUGCC-3' |
| RS013933 (Bacillus subtilis subsp. subtilis str. 168) | 5'-AAUCACAAGCAGAAGC-ACCC--GCUUCUCACCUGAUU-GAC-AC--AUGCA-UGU-AGUUGGCAGGU---------UGACCGUACAUUUUUAUUGA UACAGAUGUUCGUAGUGUGGGUGUU---UUAU---AAUGCCCACACUUUUUGUUUGCC-3' |
| RS013934 (Bacillus licheniformis ATCC 14580) | 5'-AUCAACAAGCAGAAGC-ACCC--GCUUCUCACCUGAUU-GAC-AC--AUUCU-UGU-AGUUGGCAGGU-----UAAACGUACAUUUCUUAUUUUUCU AUGCAAUGUUCGCAGUGUGGGUGU----UUCG----AUGCCCGCACUUUUUGUUUGCC-3' |
| RS013935 (Bacillus halodurans C-125) | 5'-CAAAGCAAGAAGGAGC-GCCC--GCUUCUCACCUGAUC-GAC-GC--ACAGC--GC-AGUUGACAGGU--------CUACAUGUAAUAAUGUCUCAU GAUGACAAACAUGAGUGUGGGCGU----CGU-----AUGCCCACACUCUUUUGUGUUG-3' |
| RS013936 (Bacillus clausii KSM-K16) | 5'-UAGAGCAAGAAGAAGC-GCCC--GCUUCUCACCUGU---ACG-AC--AUUG---GU--UGC--CAGGU----------UAGAAACCGUCAGUUUGUU AAAAUGCUGAUUAAGUGUGGGUGC----CGU-----GCGUCCACACUUUUUUCACGUU-3' |
| RS013937 (Bacillus licheniformis ATCC 14580) | 5'-AUCAACAAGCAGAAGC-ACCC--GCUUCUCACCUGAUU-GAC-AC--AUUCU-UGU-AGUUGGCAGGU-----UAAACGUACAUUUCUUAUUUUUCU AUGCAAUGUUCGCAGUGUGGGUGU----UUCG----AUGCCCGCACUUUUUGUUUGCC-3' |
| RS013938 (Bacillus cereus group.Viruses.Viruses.Viruses.Viruses) | 5'-UGGAACAAGUAGAAGC-ACCC--GCUUCUCACCUGAUG-GAC-GC--AUUC---GC-AGUUUACAGGU--------------AAAUGUAUUUCUUAC UUAAGAUUUUACAAGUGUGGGUGU----CGU-----AUGCCCGCACUUUUUUUGUCGG-3' |
| RS013939 (Bacillus phage phBC6A52) | 5'-UGGAACAAGUAGAAGC-ACCC--GCUUCUCACCUGAUG-GAC-GC--AUUC---GC-AGUUAACAGGU--------------AAAUGUAUUUCUUAC UUAAGAUUUUACAAGUGUGGGUGU----CGU-----AUGCCCGCACUUUUUUUGUUCG-3' |
| RS013940 (Bacillus anthracis str. Sterne) | 5'-UGGAACAAGUAGAAGC-ACCC--GCUUCUCACCUGAUG-GAC-GC--AUUC---GC-AGUUUACAGGU--------------AAAUGUAUUUCUUAC UUAAGAUUUUACAAGUGUGGGUGU----CGU-----AUGCCCGCACUUUUUUUGUCGG-3' |
| RS013941 (Bacillus anthracis str. 'Ames Ancestor') | 5'-UGGAACAAGUAGAAGC-ACCC--GCUUCUCACCUGAUG-GAC-GC--AUUC---GC-AGUUUACAGGU--------------AAAUGUAUUUCUUAC UUAAGAUUUUACAAGUGUGGGUGU----CGU-----AUGCCCGCACUUUUUUUGUCGG-3' |
| RS013942 (Bacillus cereus E33L) | 5'-UGGAACAAGUAGAAGC-ACCC--GCUUCUCACCUGAUG-GAC-GC--AUUC---GC-AGUUUACAGGU--------------AAAUGUAUUUCUUAC UUAAGAUUUUACAAGUGUGGGUGU----CGU-----AUGCCCGCACUUUUUUUGUCGG-3' |
| RS013943 (Bacillus thuringiensis serovar konkukian str. 97-27) | 5'-UGGAACAAGUAGAAGC-ACCC--GCUUCUCACCUGAUG-GAC-GC--AUUC---GC-AGUUUACAGGU--------------AAAUGUAUUUCUUAC UUAAGAUUUUACAAGUGUGGGUGU----CGU-----AUGCCCGCACUUUUUUUGUCGG-3' |
| RS013944 (Bacillus cereus ATCC 10987) | 5'-UGGAACAAGUAGAAGC-ACCC--GCUUCUCACCUGAUG-GAC-GC--AUUC---GC-AGUUUACAGGU--------------AAAUGUAUUUCUUAC UUAAGAUUUUACAAGUGUGGGUGU----CGU-----AUGCCCGCACUUUUUUUGUCGG-3' |
| RS013945 (Geobacillus kaustophilus HTA426) | 5'-UAACAAAAGCAGAAGCACCCC--GCUUCUCACCUGACC-GAC-GCC-A-AGACGGC-UGUUGGCAGGU-------UGUUACGGUUCGUCAAUGCGAG UGUAAGGACGUACUGCGCGGGUGCU---UUG----UGCAUCUGCGCUUUUUUUUGGGC-3' |
| RS013946 (Geobacillus stearothermophilus) | 5'-UAACGAAAGCAGAAGC-GCCC--GCUUCUCACCUGACC-GAC-GCU-AAGAA-GGC-UGUUGGCAGGU--------UGUUACGGUUCGCCAACUUUU UGUCCGAACGUCGUGCGCGGGUGCU---UUG----UGCAUCCGCGCUUUUUCGUUGAG-3' |
| RS013947 (Oceanobacillus iheyensis HTE831) | 5'-UAAGACAAGUAGAAGC-ACCC--GCUUCUCACCUGAUU-GAC-ACCGAUUAU-GGU-AGUUGACUGGU------------UCCAACCUUUUAUUUAA AUGUAUUUGGAGAUGUGUGGGUGCG---UGUA---UGUACCGACACUUUUUUAAUUGC-3' |
| RS013948 (Listeria innocua) | 5'-ACAAGAAAGAAGAAGCAACCC--GCUUCUCGCCUCGUU--AACAC--G-AAC--GU-UUU---CAGGCAAAAAAUUCAAACUUUCGUCGCGUAGCUU ACGCGAUUUUGAAUGUGCGGGAUUGC--UGAAAAGCAG-CCCGUUUUUUUAUGGCCUC-3' |
| RS013949 (Listeria monocytogenes) | 5'-ACAAGAAAGAAGAAGCAACCC--GCUUCUCGCCUCGUU--AACAC--G-AAC--GU-UUU---CAGGCAAAAAAUUCAAACUUUCGUCGCGUACGUU ACGCGAUUUUGAAUGUGCGGGAUUGC--UGAAAAGCAG-CCCGUUUUUUUAUGGCCUC-3' |
| RS013950 (Listeria ivanovii) | 5'-ACAAGAAAGAAGAAGCAACCC--GCUUCUCGCCUCG---UUA-AC--AUGGA-UGU--UUU--CAGGCAAAAAAUUCAAACUUUCGUCGCGUUACUU GCGCGACUUUGAAUGUGCGGGAUUGC--UGAAAAGCAG-CCCGUUUUUUUAUGGCCUC-3' |
| RS013951 (Listeria innocua) | 5'-ACAAGAAAGAAGAAGCAACCC--GCUUCUCGCCUCGUU--AACAC--G-AAC--GU-UUU---CAGGCAAAAAAUUCAAACUUUCGUCGCGUAACUU ACGCGAUUUUGAAUGUGCGGGAUUGC--UGAAAAGCAG-CCCGUUUUUUUAUGGCCUC-3' |
| RS013952 (Listeria monocytogenes) | 5'-ACAAGAAAGAAGAAGCAACCC--GCUUCUCGCCUCGUU--AACAC--G-AAC--GU-UUU---CAGGCAAAAAAUUCAAACUUUCGUCGCGUAGCUU ACGCGAUUUUGAAUGUGCGGGAUUGC--UGAAAAGCAG-CCCGUUUUUUUAUGGCCUC-3' |
| RS013953 (Listeria welshimeri) | 5'-ACAAGAAAGAAGAAGCAACCC--GCUUCUCGCCUCGUU--AACAC--G-AAC--GU-UUU---CAGGCAAAAAAUUCAAACUUUCGUCGCGUAACUU ACGCGAUUUUGAAUGUGCGGGAUUGCUGGAAA--GCAG-CCCGUUUUUUUAUGGCCUC-3' |
| RS013954 (Listeria monocytogenes str. 4b F2365) | 5'-ACAAGAAAGAAGAAGCAACCC--GCUUCUCGCCUCGUU--AACAC--G-AAC--GU-UUU---CAGGCAAAAAAUUCAAACUUUCGUCGCGUAACUU ACGCGAUUUUGAAUGUGCGGGAUUGC--UGAAAAGCAG-CCCGUUUUUUUAUGGCCUC-3' |
| RS013955 (Listeria monocytogenes) | 5'-ACAAGAAAGAAGAAGCAACCC--GCUUCUCGCCUCGUU--AACAC--G-AAC--GU-UUU---CAGGCAAAAAAUUCAAACUUUCGUCGCGUAGCUU ACGCGAUUUUGAAUGUGCGGGAUUGC--UGAAAAGCAG-CCCGUUUUUUUAUGGCCUC-3' |
| RS013956 (Staphylococcus aureus subsp. aureus N315) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUAGCGAC-GC--AUAAA--GC-AGUUGGCAGGU-----------UAAUCACAUUACACAUAA CUGUGUAUAAGGAAGAGCGGGUAU----UUU-----AUACCUGCUCUUCCUUUUUGCU-3' |
| RS013957 (Staphylococcus aureus subsp. aureus MW2) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUAGCGAC-GC--AUAAA--GC-AGUUGGCAGGU-----------UAAUCACAUUACACAUAA CUGUGUAUAAGGAAGAGCGGGUAU----UUU-----AUACCUGCUCUUCCUUUUUGCU-3' |
| RS013958 (Staphylococcus epidermidis ATCC 12228) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUGGCGAC-GC---UGAA--GC-AGUUGGCAGGU-----------CAAUCAUGUUACACAUUU AUUGUGUCUAAGAAGAGCGGGUA-----GUUA-----UACUCGCUCUUCUUUUUGCUU-3' |
| RS013959 (Staphylococcus aureus subsp. aureus MSSA476) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUAGCGAC-GC--AUAAA--GC-AGUUGGCAGGU-----------UAAUCACAUUACACAUAA CUGUGUAUAAGGAAGAGCGGGUAU----UUU-----AUACCUGCUCUUCCUUUUUGCU-3' |
| RS013960 (Staphylococcus aureus subsp. aureus COL) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUAGCGAC-GC--AUAAA--GC-AGUUGGCAGGU-----------UAAUCACAUUACACAUAA CUGUGUAUAAGGAAGAGCGGGUAU----UUU-----AUACCUGCUCUUCCUUUUUGCU-3' |
| RS013961 (Staphylococcus aureus subsp. aureus MRSA252) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUAGCGAC-GC--AUAAA--GC-AGUUGGCAGGU-----------UAAUCACAUUACACAUAA CUGUGUAUUAGGAAGAGCGGGUAU----UUU-----AUACCUGCUCUUCCUUUUUGCU-3' |
| RS013962 (Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305) | 5'-CGAACCAAGUAGAAGC-UCCC--GCUUCUCACCUGUUGCGAC-GCU-AUAG---GC-AGUUGGCAGGU---------CUUAUAUAUACAUGUUAAUU UCAUGUGUAGAGAAGAGCGGGUAUA---UUA----UAUACUCGCUCUUUUUGCUUGGG-3' |
| RS013963 (Staphylococcus aureus subsp. aureus Mu50) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUAGCGAC-GC--AUAAA--GC-AGUUGGCAGGU-----------UAAUCACAUUACACAUAA CUGUGUAUAAGGAAGAGCGGGUAU----UUU-----AUACCUGCUCUUCCUUUUUGCU-3' |
| RS013964 (Staphylococcus haemolyticus JCSC1435) | 5'-CGUACCAAGUAGAAAC-ACCC--GUUUCUCACCUGUAGCGAC-GC--AUCAA--GC-AGUUGGCAGGU---------UAAUCAUGUCACACAUUAUA UGUGUAUGAGAGAAGAGCGGGCAU----UCU-----AUGCUCGCUCUUUUUGCUUGGA-3' |
| RS013965 (Staphylococcus aureus) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUAGCGAC-GC--AUAAA--GC-AGUUGGCAGGU-----------UAAUCACAUUACACAUAA CUGUGUAUAAGGAAGAGCGGGUAU----UUU-----AUACCUGCUCUUCCUUUUUGCU-3' |
| RS013966 (unclassified Lambda-like viruses) | 5'-CGAACCAAGUAGAAGC-ACCC--GCUUCUCACCUGUGGCGAC-GC---UGAA--GC-AGUUGGCAGGU-----------CAAUCAUGUUACACAUUU AUUGUGUCUAAGAAGAGCGGGUA-----GUUA-----UACUCGCUCUUCUUUUUGCUU-3' |
| RS013967 (Clostridium acetobutylicum ATCC 824) | 5'-GUAUUGAAGAAGAAACUUGCC--GUUUCUCACCUU-----AC-AG--CAAAG--CU-AGU---AAGGU--------UAAAGAUAUGCAGCUUAUUUU GCUAUGUAUAUUUGAGACGGUG------AAUA-------ACCGUCUUUUUUUAUUAUA-3' |
| RS013968 (Clostridium perfringens str. 13) | 5'-GAUGUCAAGAAGAAAC-AGCC--GUUUCUCACCUU-----ACAGCU-AUUAA-UGCUAGU---UUGGU---------CAUGAAUUUUAUUACAUUUG AUUUUGGUAAUAGAGGACGGCU------UAA-------AACCGUCCUUUUUUAUUUAU-3' |
| RS013969 (Clostridium tetani E88) | 5'-AACGUUAAGAAGAAACUAGCC--GUUUCUCACCUU-----ACAGC--AUA----GCUAGU---AAGGU---------------UAUGAAAUCAGUUU AUUAUUUUGAUUAGAGGACGGC------AUUU------GCCGUCUUUUUUUAUUUUAA-3' |
| RS013970 (Thermoanaerobacter tengcongensis MB4) | 5'-GCGAAUAAGUAGAAGC-GCCC--GCUUCUCACCUU-----UC-GCC-AUAG--GGC-AGA---AAGGU---------UUCUUCUUGAAAGUCAAAAG UAAUAUGGGCGAAGAAGCGGGUG-----GAU------UAUCCGCUUUUAUUUUUUGAU-3' |
| RS013971 (Enterococcus faecalis V583) | 5'-AAAUGAAAGCAGAAGC-ACCC--GCUUCUCGCCUUA----GUUGA--GUAUA--UC--GC---UGGGC--UAGAUAAAGUAUUCCUUAUUUUUUUAA GUAAGGCAGACUGUUGGCGGGUUCUG--GAUA---GGAACCUGUUUUUUUAUUGCAUU-3' |
| RS013972 (Siphoviridae) | 5'-GAGAACAAGAAGAAGC-UCCC--GCUUCUCGCCUA-----AGUUA--AUAU---UA-CCU--CUGGGC-------------------UGAUCGAUAA UAUCUGUUGAUUAAAAGCGGGCGUU---AAC----UUUGCCCGCUUUUUUCUUGUCCU-3' |
| RS013973 (Lactobacillus plantarum WCFS1) | 5'-GAAAAAAAGCAGAAGC-ACCC--GCUUCUCGCCUUG---GUG-AC--C-AGA--GU--CAU--CGGGC--------AGAUGAACGAUGAAUUGAUUC CCAUUAACGGGGUUGAGCGGGCGUA---CUA----UGCGCCCGCUCUUUUUGUGAAUU-3' |
| RS013974 (Lactobacillus acidophilus NCFM) | 5'-GAGAACAAGAAGAAGC-ACCC--GCUUCUCGCCUA-----AG-UU--AAGUA--AA-CCU--CUAGGC-------------------UGAUCGAUAA UUUCUGUUGAUUAAAGGCGGGGUGA---UAC----UUAUCCCGCCUUUUUCUUGUCCU-3' |
| RS013975 (Lactococcus lactis subsp. lactis Il1403) | 5'-GUUGAAAAGCAGAAGC-ACCC--GCUUCUCGCCUUA----GA-GG--UUAUA--GC--CC---UGGGC-------AAACGAAUGGAAUUAUUCAAAA ACGAAUGUUUUCAUGAGCGGGGCGAG--AUUG---UCGUUCCGCUUUUGUUUUUCUUU-3' |
| RS013976 (Streptococcus.Viruses.Viruses.Viruses) | 5'-UGAGAAAAGUAGAAGUGAGA---GCUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC----------CCUAACAUGUCAAAUUCCU AUGGAAUAUUAUGUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013977 (Streptococcus.Viruses.Viruses.Viruses.Viruses.Viruses.Viruses) | 5'-UGAGAAAAGCAGAAGUGAGA---GCUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC----------CCUAACAUGUCAAAUUCCU AUGGAAUAUUAUAUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013978 (Streptococcus pyogenes MGAS8232) | 5'-UGAGAAAAGUAGAAGUGAGA---GCUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC----------CCUAACAUGUCAAAUUCCU AUGGAAUAUUAUGUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013979 (Streptococcus agalactiae 2603V/R) | 5'-UGAGAAAAGCAGAAGUGAGA---ACUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC--------CCAACAUGUCAAGAUUCCAUC UAGGAAGAUUAUAUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013980 (Streptococcus pyogenes SSI-1) | 5'-UGAGAAAAGCAGAAGUGAGA---GCUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC----------CCUAACAUGUCAAAUUCCU AUGGAAUAUUAUAUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013981 (Streptococcus agalactiae NEM316) | 5'-UGAGAAAAGCAGAAGUGAGA---ACUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC--------CCAACAUGUCAAGAUUCCAUC UAGGAAGAUUAUAUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013982 (Streptococcus pneumoniae TIGR4) | 5'-UGAGAAAAGCAGAAGUGAGA---GCUUCUCGCCUU----GUG-AC--AUUAA--GU--UGC--CUGGC-----CCUACGGAUGAAAAGUUUCGAAGA AACGCUAUCAUAACGUGCGGGCUUGUA-UAUU-UACAAGUCCGCUAUUGUUUUUCUCU-3' |
| RS013983 (Streptococcus.Viruses.Viruses.Viruses.Viruses) | 5'-UGAGAAAAGUAGAAGUGAGA---GCUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC----------CCUAACAUGUCAAAUUCCU AUGGAAUAUUAUGUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013984 (Streptococcus thermophilus LMG 18311) | 5'-UGAGAAAAGCAGAAGUGAGA---ACUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC----------CCAACAUGUCAAAUCCUUA AAGGGAUAUUAUGUGUGCGGGCUUGU--AUAU---CAAGUCCGCUUUGUUUUUCUCUA-3' |
| RS013985 (Streptococcus pyogenes MGAS10394) | 5'-UGAGAAAAGUAGAAGUGAGA---GCUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGU----------CCUAACAUGUCAAAUUCCU AUGGAAUAUUAUGUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013986 (Streptococcus thermophilus CNRZ1066) | 5'-UGAGAAAAGCAGAAGUGAGA---ACUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC----------CCAACAUGUCAAAUCCUUA AAGGGAUAUUAUGUGUGCGGGCUUGU--AUAU---CAAGUCCGCUUUGUUUUUCUCUA-3' |
| RS013987 (Streptococcus mutans UA159) | 5'-UGAGAAAAGCAGAAGUGAGA---ACUUCUCGCCUU----GCG-AC--UUAAA--GU--UGU--CUGGC--------CCAACAUGUUAAAGUUCCUGU GGAAUAUUAUGUGUAUACGGGCUUGA--UUUG--UCAGGUCCGUUUUUGUUUUUCUCA-3' |
| RS013988 (Streptococcus pneumoniae R6) | 5'-UGAGAAAAGCAGAAGUGAGA---GCUUCUCGCCUU----GUG-AC--AUUAA--GU--UGC--CUGGC-----CCUACGGAUGAAAAGUUUCGAAGA AACGCUAUCAUAACGUGCGGGCUUGUA-UAUU-UACGAGUCCGCUAUUGUUUUUCUCU-3' |
| RS013989 (Caudovirales.Viruses.Viruses.Viruses) | 5'-UGAGAAAAGUAGAAGUGAGA---GCUUCUCGCCUU----GCG-AC--UUAG---GU--UGU--CUGGC----------CCUAACAUGUCAAAUUCCU AUGGAAUAUUAUGUGUGCGGGCUUGA--UUUA--UCAAGUCCGCUUUCGUUUUUCUCU-3' |
| RS013990 (Thermotoga maritima MSB8) | 5'-AAAAGCAAGUGGAGGCCAGCCCGGCUUCCCACCCUG----GG-GC--AAGAG--GCUACC---AGGGU------------AAAUAUCCCUGAAAGAU UCAGCUUCAAGGGGAAGCGGGC---U--UUUU------GCCCGCUAUUUUUUAUGACU-3' |
References:
- Griffiths-Jones, S., Bateman, A., Marshall, M., Khanna, A., Eddy, S.R., RFam: an RNA family database, Nucleic Acids Research, 2003, 31, 1, 439-441.

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