RNAstructure Predict a Secondary Structure Common to Three or More Sequences Results

RNAstructure multilign Results
(Predict low free energy secondary structures common to three or more sequences using progressive iterations of Dynalign.)

Alignment:

Predict31.fasta UUCUAUUCUCCUCCUUUGGA--GAU--GG-AAG-ACUUAUGCUUUGAGUCACGU-CUU-CUCUC--UCAAAAGAAUCUUAUAAAAAUGCAACCCCCACCG-GAAAG-CUGGC-G-U-CC-CGAA-AGAG-C-AAGCGAUCU-G-CGGAG-GAG-A-CCACAACG-G-CCC-CAAGAAAAGAGCCAAAGAAAAAAAACCCACG--A-GAUCAC-UCCGUU-UUGAA-CCU-CAAACA------G-AG-UUCGAAAACUA
Predict32.fasta C-----------------AA---UUUCU--G-A--GUCCAUGCUUUCACAACC--U-C--ACG---UUCUCUUAAAAAGUAACCUCCUAGGUAUUGAG-GCC---C-CUCAA-G-CUGG-CGACCCGCA-C-CAGGAAGCG-A-AGA-G-C-C-G-CC----GA-G-GAGGCAGAAGAAAAAAAGAU------------GCCGGGAGCAACCUCAGGCACCUGAU-C-U-GGAGAU------U-GG-AUCAGUU----
Predict33.fasta U------------GCAAACCAAAGA--CAAUUAACU----CGAUCCUCG---AGCUAAGUGCCUGAGG-UUGCCCUCGGCAUCUUUUUUUCUUCUG---C-C---UCUUCGGCGGCUCUUCGUU-UC-CUGGUGCGGGUCGCCAGUUUGAA-GGGCCACAA-GACAGA-G-GAGGUUGCGUUUUUAAGAGAAGAUGGGCAG---------------GUG-AAGCAUG-GACUCAGAAAUUAUGUUCAUGCU-UUGCA-

Download alignment file multilign/multilign.ali

Structures derived from sequence 1:

Download All Structures: PDF PS CT

Download Individual Structures:

Structure 1: PDF SVG PS JPEG PNG CT

Structure 2: PDF SVG PS JPEG PNG CT

Structure 3: PDF SVG PS JPEG PNG CT

Structure 4: PDF SVG PS JPEG PNG CT

Structure 5: PDF SVG PS JPEG PNG CT

Structure 6: PDF SVG PS JPEG PNG CT

Structure 7: PDF SVG PS JPEG PNG CT

Structure 8: PDF SVG PS JPEG PNG CT

Structure 9: PDF SVG PS JPEG PNG CT

Structure 10: PDF SVG PS JPEG PNG CT

Structure 11: PDF SVG PS JPEG PNG CT

Structure 12: PDF SVG PS JPEG PNG CT

Structure 13: PDF SVG PS JPEG PNG CT

Structure 14: PDF SVG PS JPEG PNG CT

Structure 15: PDF SVG PS JPEG PNG CT

Structure 16: PDF SVG PS JPEG PNG CT

Structure 17: PDF SVG PS JPEG PNG CT

Structure 18: PDF SVG PS JPEG PNG CT

Structure 19: PDF SVG PS JPEG PNG CT

Structure 20: PDF SVG PS JPEG PNG CT

Structures derived from sequence 2:

Download All Structures: PDF PS CT

Download Individual Structures:

Structure 1: PDF SVG PS JPEG PNG CT

Structure 2: PDF SVG PS JPEG PNG CT

Structure 3: PDF SVG PS JPEG PNG CT

Structure 4: PDF SVG PS JPEG PNG CT

Structure 5: PDF SVG PS JPEG PNG CT

Structure 6: PDF SVG PS JPEG PNG CT

Structure 7: PDF SVG PS JPEG PNG CT

Structure 8: PDF SVG PS JPEG PNG CT

Structure 9: PDF SVG PS JPEG PNG CT

Structure 10: PDF SVG PS JPEG PNG CT

Structure 11: PDF SVG PS JPEG PNG CT

Structure 12: PDF SVG PS JPEG PNG CT

Structure 13: PDF SVG PS JPEG PNG CT

Structure 14: PDF SVG PS JPEG PNG CT

Structure 15: PDF SVG PS JPEG PNG CT

Structure 16: PDF SVG PS JPEG PNG CT

Structure 17: PDF SVG PS JPEG PNG CT

Structure 18: PDF SVG PS JPEG PNG CT

Structure 19: PDF SVG PS JPEG PNG CT

Structure 20: PDF SVG PS JPEG PNG CT

Structures derived from sequence 3:

Download All Structures: PDF PS CT

Download Individual Structures:

Structure 1: PDF SVG PS JPEG PNG CT

Structure 2: PDF SVG PS JPEG PNG CT

Structure 3: PDF SVG PS JPEG PNG CT

Structure 4: PDF SVG PS JPEG PNG CT

Structure 5: PDF SVG PS JPEG PNG CT

Structure 6: PDF SVG PS JPEG PNG CT

Structure 7: PDF SVG PS JPEG PNG CT

Structure 8: PDF SVG PS JPEG PNG CT

Structure 9: PDF SVG PS JPEG PNG CT

Structure 10: PDF SVG PS JPEG PNG CT

Structure 11: PDF SVG PS JPEG PNG CT

Structure 12: PDF SVG PS JPEG PNG CT

Structure 13: PDF SVG PS JPEG PNG CT

Structure 14: PDF SVG PS JPEG PNG CT

Structure 15: PDF SVG PS JPEG PNG CT

Structure 16: PDF SVG PS JPEG PNG CT

Structure 17: PDF SVG PS JPEG PNG CT

Structure 18: PDF SVG PS JPEG PNG CT

Structure 19: PDF SVG PS JPEG PNG CT

Structure 20: PDF SVG PS JPEG PNG CT

Command Line:
multilign-smp multilign.config

RNAstructure TurboFold Results
(Calculate the conserved structures of three or more unaligned sequences using iteratively refined partition functions.)

Alignment:

LETRA_AG_1_rep=OL774864.1_n=1_LETRA_AG_from_1_genomes__representative=OL774864.1    UUCUAUUCUCCUCCUUUGGAGAUGGAAGACUUAUGCUUUGAGUCACGUCUUCUCUCUCAA
LETRA_AG_2_rep=OL774865.1_n=1_LETRA_AG_from_1_genomes__representative=OL774865.1    CAAUUUCUGAGUCC---------AUGCUUUCACAACCU-------CACGUUCUCUUAAAA
LETRA_AG_3_rep=FJ554526.1_n=1_LETRA_AG_from_1_genomes__representative=FJ554526.1    UGCAAACCAAAGAC---------AAUUAACUCGAUCCUCGAGCUAAGUGCCUGAGGUUGC

LETRA_AG_1_rep=OL774864.1_n=1_LETRA_AG_from_1_genomes__representative=OL774864.1    A---AGAAUCUUAUAAAAAUGCAACCCCCACCGGAAA--GC---UGGCGUCCCGAAAGAG
LETRA_AG_2_rep=OL774865.1_n=1_LETRA_AG_from_1_genomes__representative=OL774865.1    A---GUAACCUCCUAGGUAUUGAGGCCCCU----CAA--GC---UGGCGACCCGCACCAG
LETRA_AG_3_rep=FJ554526.1_n=1_LETRA_AG_from_1_genomes__representative=FJ554526.1    CCUCGGCAUCUUUU-UUUCUUCUGCCUCUU----CGGCGGCUCUUCGUUUCCUGGUGCGG

LETRA_AG_1_rep=OL774864.1_n=1_LETRA_AG_from_1_genomes__representative=OL774864.1    CAAGCGA---UCUGCGGAGGAGACCACAACGGCCCCAAGAAAAGAGCCAAAGAAAAA--A
LETRA_AG_2_rep=OL774865.1_n=1_LETRA_AG_from_1_genomes__representative=OL774865.1    GAAGCGAAGAGCCGCCGAGGAGG-----------------------CAGAAGAAAAA--A
LETRA_AG_3_rep=FJ554526.1_n=1_LETRA_AG_from_1_genomes__representative=FJ554526.1    GUCGCCAGUUU-----GAAGGGC-----------------------CACAAGACAGAGGA

LETRA_AG_1_rep=OL774864.1_n=1_LETRA_AG_from_1_genomes__representative=OL774864.1    AACCCA---CGAGAUCAC--UCC--GUU--------UUGAACCUCAAACAGAGUU--CGA
LETRA_AG_2_rep=OL774865.1_n=1_LETRA_AG_from_1_genomes__representative=OL774865.1    AGAUGC---CGGGAGCAACCUCAGGCAC--------CUGAUCUGGAGAUU-------GGA
LETRA_AG_3_rep=FJ554526.1_n=1_LETRA_AG_from_1_genomes__representative=FJ554526.1    GGUUGCGUUUUUAAGAGAAGAUGGGCAGGUGAAGCAUGGACUCAGAAAUUAUGUUCAUGC

LETRA_AG_1_rep=OL774864.1_n=1_LETRA_AG_from_1_genomes__representative=OL774864.1    AAACUA
LETRA_AG_2_rep=OL774865.1_n=1_LETRA_AG_from_1_genomes__representative=OL774865.1    UCAGUU
LETRA_AG_3_rep=FJ554526.1_n=1_LETRA_AG_from_1_genomes__representative=FJ554526.1    UUUGCA

RNAstructure

Web Servers for RNA Secondary Structure Prediction

RNAstructure Predict a Secondary Structure Common to Three or More Sequences Results

RNAstructure multilign Results
(Predict low free energy secondary structures common to three or more sequences using progressive iterations of Dynalign.)

Alignment:

Download alignment file multilign/multilign.ali

Structures derived from sequence 1:

Structures derived from sequence 2:

Structures derived from sequence 3:

RNAstructure TurboFold Results
(Calculate the conserved structures of three or more unaligned sequences using iteratively refined partition functions.)

Alignment:

Download alignment file TurboFold/TurboFold.aln

Structures derived from sequence 1:

Structures derived from sequence 2:

Structures derived from sequence 3:

RNAstructure

Web Servers for RNA Secondary Structure Prediction

RNAstructure Predict a Secondary Structure Common to Three or More Sequences Results

RNAstructure multilign Results(Predict low free energy secondary structures common to three or more sequences using progressive iterations of Dynalign.)

Alignment:

Download alignment file multilign/multilign.ali

Structures derived from sequence 1:

Structures derived from sequence 2:

Structures derived from sequence 3:

RNAstructure TurboFold Results(Calculate the conserved structures of three or more unaligned sequences using iteratively refined partition functions.)

Alignment:

Download alignment file TurboFold/TurboFold.aln

Structures derived from sequence 1:

Structures derived from sequence 2:

Structures derived from sequence 3:

RNAstructure multilign Results
(Predict low free energy secondary structures common to three or more sequences using progressive iterations of Dynalign.)

RNAstructure TurboFold Results
(Calculate the conserved structures of three or more unaligned sequences using iteratively refined partition functions.)