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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
B
A
D
A
V
G
G
OOD
mir-101-1
A
C
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G
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A
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A
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G
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A
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mir-101-2
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U
A
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A
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A
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A
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A
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G
A
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G
U
A
U
A
U
C
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A
mir-105-1
A
A
C
-
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-
C
U
G
A
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U
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U
G
C
A
U
C
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U
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U
C
A
A
A
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A
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U
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C
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U
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C
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C
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A
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mir-105-2
C
U
U
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-
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C
U
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U
G
C
A
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-
U
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A
C
U
C
C
U
G
U
G
G
U
G
G
C
U
G
C
U
U
A
U
mir-138-1
C
U
G
G
-
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-
C
A
U
G
G
U
G
U
G
G
U
G
G
G
G
-
-
C
A
G
-
C
U
G
G
U
G
U
U
G
U
G
A
A
U
C
A
G
G
C
C
G
U
U
G
C
C
A
A
U
C
A
G
mir-146a
C
C
-
G
-
-
-
A
-
U
G
U
G
-
U
A
U
C
C
-
-
U
C
A
G
C
U
U
U
G
A
G
A
A
C
U
G
A
A
U
U
C
C
A
U
G
G
G
U
U
G
U
G
U
C
A
G
U
G
U
mir-190
C
U
U
U
-
-
-
U
C
U
G
C
A
-
G
G
C
C
U
-
-
C
U
G
U
G
U
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G
A
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A
U
G
U
U
U
G
A
U
A
U
A
U
U
A
G
G
U
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G
-
U
U
A
U
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U
A
A
mir-190b
C
U
C
U
-
-
-
C
C
U
G
C
C
-
U
G
C
U
U
-
-
C
U
G
U
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U
-
G
A
U
A
U
G
U
U
U
G
A
U
A
U
U
G
G
G
U
U
-
G
U
U
U
A
A
U
U
A
G
G
mir-200a
C
C
C
U
-
-
C
C
C
G
G
G
C
C
-
C
C
U
G
-
-
U
G
A
G
C
A
-
-
U
C
U
U
A
C
C
G
G
A
C
A
G
U
G
C
U
G
G
A
U
U
U
C
C
C
A
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C
U
U
mir-200b
C
C
A
G
-
-
-
C
-
U
C
G
G
G
C
A
G
-
-
C
C
G
U
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G
G
C
-
C
A
U
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U
U
A
C
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G
G
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C
A
G
C
A
U
U
G
G
A
U
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G
A
G
U
C
A
G
G
mir-208b
C
C
C
C
A
C
C
-
U
C
C
U
U
-
C
U
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U
C
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U
C
A
-
G
G
G
A
A
G
C
U
U
U
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U
G
C
U
C
G
A
A
U
U
A
U
G
U
U
U
C
U
G
A
U
C
-
C
mir-429
C
C
A
C
A
C
C
A
C
C
G
C
C
G
G
C
-
-
C
G
-
A
U
G
G
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-
G
C
G
U
C
U
U
A
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C
A
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A
C
A
U
G
G
U
U
A
G
A
C
C
U
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G
C
C
C
U
C
mir-489
U
G
C
U
-
-
-
G
U
U
G
G
U
G
G
C
A
G
C
U
U
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A
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U
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U
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A
C
G
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C
A
U
U
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C
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A
A
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C
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U
mir-545
G
C
C
-
-
-
-
U
G
G
C
A
C
A
U
U
A
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U
-
-
A
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G
C
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C
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C
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A
A
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U
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U
A
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U
A
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A
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A
U
mir-567
G
A
A
G
A
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G
-
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G
A
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U
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C
U
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U
A
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mir-9-1
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mir-9-2
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U
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A
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C
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A
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A
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U
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A
U
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A
U
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mir-9-3
C
U
A
A
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G
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-
G
A
G
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C
C
C
G
U
U
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CONS STRUCTURE
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mir-101-1
A
A
A
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G
U
A
C
A
G
U
A
C
U
G
U
G
A
U
A
A
C
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-
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A
U
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G
C
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G
C
C
A
U
C
U
U
A
C
C
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U
C
C
A
mir-101-2
A
A
G
G
U
A
C
-
A
G
U
A
C
U
G
U
G
A
U
A
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C
U
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A
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A
A
U
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G
U
G
G
U
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G
C
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C
A
U
-
-
-
C
A
C
A
U
mir-105-1
G
C
A
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C
A
C
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G
A
U
G
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U
U
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A
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C
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U
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G
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U
A
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C
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A
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U
mir-105-2
G
C
A
C
C
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C
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A
U
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U
U
U
G
A
G
C
A
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A
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C
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A
C
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U
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U
G
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A
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A
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mir-138-1
A
G
A
A
C
G
G
C
U
A
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U
U
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A
C
A
A
C
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C
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C
A
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G
C
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C
C
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C
A
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U
A
C
A
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G
G
C
A
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G
C
mir-146a
C
A
G
A
C
C
U
C
U
G
A
A
A
U
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C
A
G
U
U
C
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C
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C
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G
A
U
A
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C
U
C
U
G
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C
A
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C
G
U
G
G
mir-190
U
C
C
A
A
C
U
A
-
U
A
U
A
U
C
A
A
A
C
A
U
A
U
U
C
C
U
A
C
A
G
U
G
U
C
U
U
G
-
C
C
C
U
G
U
C
U
C
C
G
G
mir-190b
A
A
C
C
A
A
C
U
A
A
A
U
G
U
C
A
A
A
C
A
U
A
U
U
C
U
U
A
C
A
G
C
A
G
C
A
G
G
-
U
G
-
A
U
U
C
A
G
C
A
C
mir-200a
G
A
C
U
C
U
A
A
C
A
C
U
G
U
C
U
G
G
U
A
A
C
G
A
U
G
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U
U
C
A
A
A
G
G
U
G
A
-
C
C
C
G
C
C
-
G
C
U
C
G
mir-200b
U
C
U
C
U
A
A
U
A
C
U
G
C
C
U
G
G
U
A
A
U
G
A
U
G
A
-
C
G
G
C
G
G
A
G
C
C
C
-
U
G
C
A
C
G
C
A
G
C
G
A
mir-208b
G
A
A
U
A
U
A
A
G
A
C
G
A
A
C
A
A
A
A
G
G
U
U
U
G
U
C
U
G
A
G
G
G
C
A
G
A
-
G
-
U
G
-
-
-
C
U
U
C
C
G
mir-429
U
G
U
C
U
A
A
U
A
C
U
G
U
C
U
G
G
U
A
A
A
A
C
C
G
U
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C
C
A
U
C
C
G
C
U
G
C
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C
U
-
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G
A
U
-
C
A
C
C
mir-489
U
A
G
G
A
G
U
G
A
C
A
U
C
A
C
A
U
A
U
A
C
G
G
C
A
G
C
U
A
A
A
C
U
G
C
U
A
C
-
-
A
U
G
-
G
G
A
-
C
A
A
mir-545
G
A
C
U
C
A
U
C
A
G
C
A
A
A
C
A
U
U
U
A
U
U
G
U
G
U
G
C
C
U
G
C
U
A
A
A
G
U
-
G
-
A
G
C
U
C
C
A
C
A
G
mir-567
U
A
U
U
U
U
G
U
A
C
U
G
G
A
A
G
A
A
C
A
U
G
C
-
A
A
A
A
C
U
A
A
A
A
A
A
A
A
A
A
A
A
A
G
U
-
U
A
U
U
G
mir-9-1
U
C
U
U
C
A
U
A
A
A
G
C
U
A
G
A
U
A
A
C
C
G
A
A
A
G
U
A
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A
A
A
U
A
A
C
C
-
C
-
C
-
A
U
A
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C
A
C
U
G
mir-9-2
C
U
-
U
C
A
U
A
A
A
G
C
U
A
G
A
U
A
A
C
C
G
A
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G
U
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A
C
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C
C
U
-
U
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C
A
A
G
A
U
C
G
C
C
G
mir-9-3
C
C
G
U
C
A
U
A
A
A
G
C
U
A
G
A
U
A
A
C
C
G
A
A
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A
G
U
A
G
A
A
A
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A
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C
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CONS STRUCTURE
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Consensus
CPU time:
0.00
Average sequence ID:
0.257365473582
Average free energy:
-15.6611111111
Average covariation:
0.945046439628
Average basepair probability:
0.800187938144
Canonical basepairs:
NA
Sequence and structure consensus for Consensus
CYMKrmsMYKRGKgYSCSYYgSKDKSKYYWURUDUYUGDAMMYSKRUGRWKKYURWUYRKKMMYCAWMAAUGUWSRRAHAYGUWVRKMMR RMGRMWACmYYMWBRCHACMG
............................(((((((((((((...((((((............))))))...)))))))))))))...... .....................
The alignment colored using colorrna.pl of the Vienna package
Cluster tree of the methods
Table
WAR
