D-ORB

The Overrepresented RNA Blocks

M.J. Dupont, F. Major
D-ORB: A Web Server to Extract Structural Features of Related But Unaligned RNA Sequences
J. Mol. Biol., 435 (2023)

lin-4 microRNA precursor   (Rfam: RF00052)

Seed sequences
All NCMs (CSV file) (all) positive sequences (all) negative sequences (random) (training) positive sequences (training) negative sequences (testing) positive sequences (testing) negative sequences 

Options
Negatives sequences: Random sequences of similar lengths
ORBs positions sequence: Best consensus structure-matching sequence
Motifs: 162,498 motifs on the alphabet ACGURYN
Rfam
D-ORB
Augmented
A(C(C))
(U()G)
(.YG.().Y.)
((A)N)C
(.RA.().YY.)
C(C(U))
(.UNNA.)
U(C(N))
U(G(A))
100.0
100.0
100.0
100.0
100.0
100.0
100.0
100.0
100.0
A(C(C))
(.YG.().Y.)
((A)N)C
(.UNNA.)

% of positive sequence with ORB





Deep neural network:

5-fold cross-validation: 99.9 %
(± 0.0299 %)
Decision tree:

5-fold cross-validation: 93.5 %
(± 10.1 %)
D-ORB structure
D-ORB structure decision tree:

5-fold cross-validation: 93.5 %
(± 9.89 %)
of U01830.1/508-577
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.(.((.(.((.((((.(((..((((.((..((.......)).)).))))..))).))).).)).).)).)
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890

abstract shape: ()

Number of sequences
Structure ORBs (out of 9) (%)
1 A(C(C))
 8 88.9
>AC006590.11/38290-38358
GCUGAUUCCCUGAGACCCUAACUUGUGACUUUUAAUACCAGUUUCACAAGUUUUGAUCUCCGGUAUUGG
..............(.(.....................................).)............
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
..............(.(....................................).)..............
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
..............(.(....................................).)..............
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
..............(.(.....................................).).............
>AC018755.3/120411-120479
UCUAGGUCCCUGAGACCCUUUAACCUGUGAGGACAUCCAGGGUCACAGGUGAGGUUCUUGGGAGCCUGG
..............(.(....................................).).............
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
..............(.(.....................................).).............
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
..............(.(....................................).)..............
>U01829.1/524-593
GCCUGUUCCCUGAGACCUCAAGUGUGAGCGUUCUGAACAUGCUUCACGCCUGGGCUCUCCGGGUACCAGG
..............(.(....................................).)..............
2 A(C(C))
(U()G)
 7 77.8
>AC018755.3/120411-120479
UCUAGGUCCCUGAGACCCUUUAACCUGUGAGGACAUCCAGGGUCACAGGUGAGGUUCUUGGGAGCCUGG
.........(.(..(.(....................................).)..).)........
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
.........(.(..(.(.....................................).)..).)........
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........(.(..(.(....................................).)...).)........
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
.........(.(..(.(.....................................).)..).)........
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
.........(.(..(.(....................................).)...).)........
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
.........(.(..(.(....................................).)...).)........
>U01829.1/524-593
GCCUGUUCCCUGAGACCUCAAGUGUGAGCGUUCUGAACAUGCUUCACGCCUGGGCUCUCCGGGUACCAGG
.........(.(..(.(....................................).)...).)........
3 A(C(C))
(U()G)
(.YG.().Y.)
 6 66.7
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
.........(.(..(.(.....(..(...................)..).....).)..).)........
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
.........(.(..(.(..........(..(.........).)..........).)...).)........
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
.........(.(..(.(.....(..(...................)..).....).)..).)........
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........(.(..(.(..........(..(.........).)..........).)...).)........
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
.........(.(..(.(..........(..(.........).)..........).)...).)........
>U01829.1/524-593
GCCUGUUCCCUGAGACCUCAAGUGUGAGCGUUCUGAACAUGCUUCACGCCUGGGCUCUCCGGGUACCAGG
.........(.(..(.(..........(...(........).)..........).)...).)........
4 A(C(C))
(U()G)
(.YG.().Y.)
((A)N)C
 6 66.7
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
....(.(..(.(..(.(..........(..(.........).)..........).)...).)..).)...
>U01829.1/524-593
GCCUGUUCCCUGAGACCUCAAGUGUGAGCGUUCUGAACAUGCUUCACGCCUGGGCUCUCCGGGUACCAGG
....(.(..(.(..(.(..........(...(........).)..........).)...).)..).)...
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
....(.(..(.(..(.(..........(..(.........).)..........).)...).)..).)...
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
.....((..(.(..(.(.....(..(...................)..).....).)..).).).)....
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
....(.(..(.(..(.(..........(..(.........).)..........).)...).)..).)...
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
.....((..(.(..(.(.....(..(...................)..).....).)..).).).)....
5 A(C(C))
(U()G)
(.YG.().Y.)
((A)N)C
(.RA.().YY.)
 6 66.7
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
....(.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)...
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
....(.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)...
>U01829.1/524-593
GCCUGUUCCCUGAGACCUCAAGUGUGAGCGUUCUGAACAUGCUUCACGCCUGGGCUCUCCGGGUACCAGG
....(.(..(.(..(.(.(..(.....(...(........).).....)..).).)...).)..).)...
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
.....((..(.(..(.(.(..((..(...................)..))..).).)..).).).)....
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
....(.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)...
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
.....((..(.(..(.(.(..((..(...................)..))..).).)..).).).)....
6 A(C(C))
(U()G)
(.YG.().Y.)
((A)N)C
(.RA.().YY.)
C(C(U))
 6 66.7
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
.(.(.((..(.(..(.(.(..((..(...................)..))..).).)..).).).)).).
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.(.((.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)).)
>U01829.1/524-593
GCCUGUUCCCUGAGACCUCAAGUGUGAGCGUUCUGAACAUGCUUCACGCCUGGGCUCUCCGGGUACCAGG
.(.((.(..(.(..(.(.(..(.....(...(........).).....)..).).)...).)..).)).)
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
.(.((.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)).)
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
.(.((.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)).)
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
.(.(.((..(.(..(.(.(..((..(...................)..))..).).)..).).).)).).
7 A(C(C))
(U()G)
(.YG.().Y.)
((A)N)C
(.RA.().YY.)
C(C(U))
(.UNNA.)
 6 66.7
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
.(.(.((..(.(..(.(.(..((..(...(...........)...)..))..).).)..).).).)).).
>U01829.1/524-593
GCCUGUUCCCUGAGACCUCAAGUGUGAGCGUUCUGAACAUGCUUCACGCCUGGGCUCUCCGGGUACCAGG
.(.((.(..(.(..(.(.(..(.....(...((....)..).).....)..).).)...).)..).)).)
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
.(.(.((..(.(..(.(.(..((..(...(...........)...)..))..).).)..).).).)).).
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.(.((.(..(.(..(.(.(..(.....(..((.......)).).....)..).).)...).)..).)).)
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
.(.((.(..(.(..(.(.(..(.....(..(.(....)..).).....)..).).)...).)..).)).)
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
.(.((.(..(.(..(.(.(..(.....(..((.......)).).....)..).).)...).)..).)).)
8 A(C(C))
(U()G)
(.YG.().Y.)
((A)N)C
(.RA.().YY.)
C(C(U))
(.UNNA.)
U(C(N))
 5 55.6
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
.(.((.(.((.(..(.(.(..(.....(..(.(....)..).).....)..).).)...).)).).)).)
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
.(.(.((.((.(..(.(.(..((..(...(...........)...)..))..).).)..).))).)).).
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
.(.((.(.((.(..(.(.(..(.....(..((.......)).).....)..).).)...).)).).)).)
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
.(.(.((.((.(..(.(.(..((..(...(...........)...)..))..).).)..).))).)).).
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.(.((.(.((.(..(.(.(..(.....(..((.......)).).....)..).).)...).)).).)).)
9 A(C(C))
(U()G)
(.YG.().Y.)
((A)N)C
(.RA.().YY.)
C(C(U))
(.UNNA.)
U(C(N))
U(G(A))
 3 33.3
>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
.(.((.(.((.(..(.(.(..(..(.((..(.(....)..).)).)..)..).).)...).)).).)).)
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.(.((.(.((.(..(.(.(..(..(.((..((.......)).)).)..)..).).)...).)).).)).)
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
.(.((.(.((.(..(.(.(..(..(.((..((.......)).)).)..)..).).)...).)).).)).)

>U01838.1/544-613
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGUACUGUAGAUGCUUCACACCUGGGCUCUCUGGGUACCAGG
..............(.(....................................).)..............
.........(.(..(.(....................................).)...).)........
.........(.(..(.(..........(..(.........).)..........).)...).)........
....(.(..(.(..(.(..........(..(.........).)..........).)...).)..).)...
....(.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)...
.(.((.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)).)
.(.((.(..(.(..(.(.(..(.....(..(.(....)..).).....)..).).)...).)..).)).)
.(.((.(.((.(..(.(.(..(.....(..(.(....)..).).....)..).).)...).)).).)).)
.(.((.(.((.(..(.(.(..(..(.((..(.(....)..).)).)..)..).).)...).)).).)).)
>U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
..............(.(....................................).)..............
.........(.(..(.(....................................).)...).)........
.........(.(..(.(..........(..(.........).)..........).)...).)........
....(.(..(.(..(.(..........(..(.........).)..........).)...).)..).)...
....(.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)...
.(.((.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)).)
.(.((.(..(.(..(.(.(..(.....(..((.......)).).....)..).).)...).)..).)).)
.(.((.(.((.(..(.(.(..(.....(..((.......)).).....)..).).)...).)).).)).)
.(.((.(.((.(..(.(.(..(..(.((..((.......)).)).)..)..).).)...).)).).)).)
>U01837.1/538-607
GCCUGCUCCCUGAGACCUCAAGUGUGAGCGCACUGUUGAUGCUUCACGCCUGGGCUCUCUGGGUACCAGG
..............(.(....................................).)..............
.........(.(..(.(....................................).)...).)........
.........(.(..(.(..........(..(.........).)..........).)...).)........
....(.(..(.(..(.(..........(..(.........).)..........).)...).)..).)...
....(.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)...
.(.((.(..(.(..(.(.(..(.....(..(.........).).....)..).).)...).)..).)).)
.(.((.(..(.(..(.(.(..(.....(..((.......)).).....)..).).)...).)..).)).)
.(.((.(.((.(..(.(.(..(.....(..((.......)).).....)..).).)...).)).).)).)
.(.((.(.((.(..(.(.(..(..(.((..((.......)).)).)..)..).).)...).)).).)).)
>AC122451.3/2004-1935
GCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGUUCUUGGGACCUAGG
..............(.(.....................................).).............
.........(.(..(.(.....................................).)..).)........
.........(.(..(.(.....(..(...................)..).....).)..).)........
.....((..(.(..(.(.....(..(...................)..).....).)..).).).)....
.....((..(.(..(.(.(..((..(...................)..))..).).)..).).).)....
.(.(.((..(.(..(.(.(..((..(...................)..))..).).)..).).).)).).
.(.(.((..(.(..(.(.(..((..(...(...........)...)..))..).).)..).).).)).).
.(.(.((.((.(..(.(.(..((..(...(...........)...)..))..).).)..).))).)).).
>AP000962.2/168508-168577
UCCUAGUCCCUGAGACCCUAACUUGUGAGGUAUUUUAGUAACAUCACAAGUCAGGCUCUUGGGACCUAGG
..............(.(.....................................).).............
.........(.(..(.(.....................................).)..).)........
.........(.(..(.(.....(..(...................)..).....).)..).)........
.....((..(.(..(.(.....(..(...................)..).....).)..).).).)....
.....((..(.(..(.(.(..((..(...................)..))..).).)..).).).)....
.(.(.((..(.(..(.(.(..((..(...................)..))..).).)..).).).)).).
.(.(.((..(.(..(.(.(..((..(...(...........)...)..))..).).)..).).).)).).
.(.(.((.((.(..(.(.(..((..(...(...........)...)..))..).).)..).))).)).).
>U01829.1/524-593
GCCUGUUCCCUGAGACCUCAAGUGUGAGCGUUCUGAACAUGCUUCACGCCUGGGCUCUCCGGGUACCAGG
..............(.(....................................).)..............
.........(.(..(.(....................................).)...).)........
.........(.(..(.(..........(...(........).)..........).)...).)........
....(.(..(.(..(.(..........(...(........).)..........).)...).)..).)...
....(.(..(.(..(.(.(..(.....(...(........).).....)..).).)...).)..).)...
.(.((.(..(.(..(.(.(..(.....(...(........).).....)..).).)...).)..).)).)
.(.((.(..(.(..(.(.(..(.....(...((....)..).).....)..).).)...).)..).)).)
>AC018755.3/120411-120479
UCUAGGUCCCUGAGACCCUUUAACCUGUGAGGACAUCCAGGGUCACAGGUGAGGUUCUUGGGAGCCUGG
..............(.(....................................).).............
.........(.(..(.(....................................).)..).)........
>AC006590.11/38290-38358
GCUGAUUCCCUGAGACCCUAACUUGUGACUUUUAAUACCAGUUUCACAAGUUUUGAUCUCCGGUAUUGG
..............(.(.....................................).)............

ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio
1 A(C(C)) < 0.001 12.7
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
2 (U()G) < 0.001 8.9
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
3 (.YG.().Y.) < 0.001 5.5
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
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4 ((A)N)C < 0.001 6.63
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
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5 U(G(A)) < 0.001 3.71
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
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6 (.RA.().YY.) < 0.001 3.29
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
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7 C(C(U)) < 0.001 3.46
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
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8 (.UNNA.) < 0.001 7.5
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
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9 U(C(N)) 0.00853 1.26
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
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ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio

NCM p-value NCM frequency
(per structure per nucleotide) 		Means
ratio
1 A(C(C)) < 0.001 12.7
U01830.1/508-577
GCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGG
.........1.........2.........3.........4.........5.........6.........7
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NCM p-value NCM frequency
(per structure per nucleotide) 		Means
ratio

Structure is visualized using R2R 1.0.6 (Zasha Weinberg).
LOGOS are generated with ggseqlogo (Omar Wagih).