Webserver for Aligning structural RNAs

Results

You can download the results in the following formats: fasta clustal stockholm col
The consensus is based on:
CMfinder   FoldalignM   LaRA   MASTR   RNAalifold   RNAforester   RNASampler  

T-coffee consensus alignment

BAD AVG GOOD
hsa-mir-220c     GGC---AU----UGUAACA--CU--GGGACCACACAGGGCUGUUGUGAAGACUCAGUGAG
hsa-mir-484      CUC---GCGGCCCUGCAGCCUCGUCAG----GCUCAGUCCCCUCCCG------AUAAACC
hsa-mir-565      CAG---UGGCGCAAUGG-AUAACGCGUC---UGACUACGGAUCAGA-------AGAUUCU
hsa-mir-566      AAU---UAGCUAGGCGUGGUG----GCGGGCGC----CUGUGAUCCCAA--CUACUCAGG
hsa-mir-596      AAG---CGAGCACGGCCUCUCCGAAGC----CUGCCCGGCUCCUCGG------GAACCUG
hsa-mir-604      GGA---GAGCAUCGUGCUUGACCUUCCACGCUCUCGUGUCCACUAGC------AGGCAGG
hsa-mir-608      CCA---CUGGGCC---AAGGUGG--GCCA--GGGGUGGUGUUGGGACAGCUCCGUUUAAA
hsa-mir-611      GGA---UUAGCCUUCGCGGGGCAAAAU----GGUGAGAGCGUUGAGG------GGAGUUC
hsa-mir-637      C-----UAAGGUGUUGG-CUCGGGCUCC---CCACUGCAGUUACCCU------CCCCUCG
hsa-mir-646      GAGAUCAGGAGUCU--GC-------CAGUGGAGUCAGCACACCUGCU------UUUCACC
hsa-mir-648      AGA---UGAUCACAGACACCU----CCAAGUGUGCAGGGCACUGGUG------GGGGCCG
hsa-mir-658      GGU---UGCCGUGGUUGCGGG----CCCUGCCCGCCCGCCAGCUCGC------UGACAGC
hsa-mir-744      GCA---CACUGG--GUUGGGCAA--GGUGCGGGGCUAGGGCUA--ACAGCAGU---CUUA
hsa-mir-921      AGA---AAA---GGGCAGUG-CC--ACAACUAGUGAGGGACAGAACCAGGA-----UUCA
hsa-mir-922      GGA---UGGCGUUUUCCCUCUCCCUGU----CCUG--GACUGGGGUC------AGACUGU
hsa-mir-941-1    CAC---A---CCCGGCUGUGUGG--ACAUGUGCCCAGGGCCCGGGACAGCGCCACGGAAG
hsa-mir-941-2    CGC---A---CCCGGCUGUGUGC--ACAUGUGCCCAGGGCCCGGGACAGCGCCACGGAAG
hsa-mir-941-3    CGC---A---CCCGGCUGUGUGC--ACAUGUGCCCAGGGCCCGGGACAGCGCCACGGAAG
CONS STRUCTURE   ............................................................

hsa-mir-220c     CUCAUCCCCACAC---AGCCUUCAGCACAGGGCCUGGCUC-A-GGGCAGAUG-CUCAG
hsa-mir-484      CCUAAAUAG-GGACUUUCCCGGGGGGUGACCCUG--GCUUUU-UUGGCGAAAACCCCC
hsa-mir-565      AGGUUCGACUCC-UGGCUGGCUCGCGAUGUCUGUUUUGC-CACACUUGACCCA-UGUA
hsa-mir-566      AGGCUGGGGCAGC-AGAAUCGCUUGAACCCGGGAGGCGAA-GGUUGCAGUGAG--CCA
hsa-mir-596      CCUCCCGCAUGG-CA-GCUGCUGCCCUUCGGAGGCCGACCC-GACCCAUCCCU-GGGU
hsa-mir-604      UUUUCUGACACAG-GCUGCGGAAUUCAGGACAGUGCAU-------CAUGGAGAAACAU
hsa-mir-608      AAGGCAUCUCCAA-GAGCUUCCAUCAAAGGCUGCCUCU-U--GGUGCAGCA---CAGG
hsa-mir-611      CAGACGGAGAUGCGA-GGACCCCUCGGGGUCUGACCCACACC-GCGCUUAUC--UCCU
hsa-mir-637      GCGUUACUGAGC-ACUGGGGGCUUUCGGGCUCUGCGUCUGCACAGAUACUUCG-AGUC
hsa-mir-646      UGUGAUCCCAGGA-GAGGAAGCAGCUGCCUCUGAGGCCUC-AGGCUCAGUGGCCUAUC
hsa-mir-648      GGGCAGGCCCAGC-GAAAGUGCAGGACCUGGCACUUAGUC--GGAAGUGAGG-GUGCA
hsa-mir-658      ACGACUCAGGGCG-GAGGGAAGUAGGUCCGUUGGUCGGUC-GGGAACGAGGC--UCAG
hsa-mir-744      CUGAAGGUUUCCU-GGAAACCACGCACAUGCUGUUGCCAC-UAACCU-CA-A-CCUUA
hsa-mir-921      GACUCAGGUCCAU-GGGCCUGGAUCACUGGCUAAUUCUGU--GGGUCAGGGCUGGAGG
hsa-mir-922      GCCCCGAGGAGAAG-CAGCAGAGAAUAGGACUACGUCA-UGGGCAUUUCGUCCACUUA
hsa-mir-941-1    AGGACGCACCCGG-CUGUGUGCACAUGUGCCCAGGGCC-C--GGGACA-----GCGCC
hsa-mir-941-2    AGGACGCACCCGG-CUGUGUGCACAUGUGCCCAGGGCC-C--GGGACA-----GCGCC
hsa-mir-941-3    AGGACGCACCCGG-CUGUGUGCACAUGUGCCCAGGGCC-C--GGGACA-----GCGCC
CONS STRUCTURE   ..........................................................




 
 Consensus 


 CPU time:
 0.00
 

Average sequence ID:
 0.25817361894
 

Average free energy:
 0.0
 

Average covariation:
 0.0
 

Average basepair probability:
 0.0
 

Canonical basepairs:
 NA
 

Sequence and structure consensus for Consensus 
VRAaucWDRSSYCKKCWGUKUSSwhRCAWGYGSUCWGGGCHYKKGACarcrcyABDYWMGAGKWHRSASMSRRsGWRKGUGCAUMWRUGS
CYRRKKCCUYcWGRGWYWGWDMWSYSYM

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The alignment colored using colorrna.pl of the Vienna package 

Cluster tree of the methods Tree

Table