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)

HOTAIR conserved region 2   (Rfam: RF01905)

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
G(AG(A))
((U)AA)G
U(AG(A))
(GN()YN)
Y(YN)N
(G()U)
R(RA)G
100.0
100.0
90.9
100.0
100.0
90.9
100.0
G(AG(A))
((U)AA)G
(GN()YN)
Y(YN)N
(G()U)
R(RA)G

% of positive sequence with ORB





Deep neural network:

5-fold cross-validation: 99.9 %
(± 0.0597 %)
Decision tree:

5-fold cross-validation: 86.3 %
(± 19.4 %)
D-ORB structure
D-ORB structure decision tree:

5-fold cross-validation: 99.7 %
(± 0.0598 %)
of AAPE02030940.1/7322-7390
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..((..((..(((((.(((((..))))).)))))..)).)))..(((((((..)))))......)..)
.........1.........2.........3.........4.........5.........6.........
123456789012345678901234567890123456789012345678901234567890123456789

abstract shape: ()()()

Number of sequences
Structure ORBs (out of 11) (%)
1 G(AG(A))
 11 100.0
>AAQQ01620880.1/3048-2980
GAGAUAGAUGUGAGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCACCAUAAAGAUGGAGAUGAUAAG
(..(.....................................))..........................
>AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..(.....................................))..........................
>AAIY01412966.1/1867-1934
GAGAUAGAUAUGUGUGGCCAGUCUCUGGUGCUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(....................................))..........................
>AAQR03076666.1/20792-20860
GAGAUAGAUGUGCGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGGAAAUGAUAAG
(..(.....................................))..........................
>ABRQ01001830.1/1360-1292
GAGAUAGAUGUGCAAGGCCAGUUCACUGGUCUUGUUAACAAGCCUCAUCGUAAAAAUGGAGAUGAUAAG
(..(.....................................))..........................
>AACN010527833.1/118-53
GAGAUAGAUGAGCGCGGCUGGCCCGGCCUUGUUAACAAGCGUCCUCAUAAAGAUGCAGCUGAUAAG
(..(...............................)).............................
>CAAA01172819.1/25533-25465
GAGAUAGAUGUGCGUGGUCAGAUCGCUGGUCAUGUUAACAAGCCUCGUCAUAAAGAUGGGGAUGAUAAG
(..(.....................................))..........................
>AANN01406764.1/2815-2747
GAGAUAGAUGUGCGUGGCCAGCCCGCUGGACUUGUUAACAAGCUUCAUCAUAAAGAUGAAGAUGAUAAG
(..(.....................................))..........................
>ABDC01092784.1/2249-2317
GAGAUAGAUGUGCAUGGCCAGCUAGCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(.....................................))..........................
>DQ926657.1/965-897
GAGAUAGAGGUGCUUGGCCAGCUCUCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(........................)).......................................
>ABGA01242765.1/13298-13227
GAGAUAGAGGUGUGUGGCCAGCUCUCUGGUCUUGUUAAUAACAAGCCUCGUCAUAAAGAUGGAGAUGAUAAG
(..(........................................).).........................
2 G(AG(A))
((U)AA)G
 10 90.9
>AANN01406764.1/2815-2747
GAGAUAGAUGUGCGUGGCCAGCCCGCUGGACUUGUUAACAAGCUUCAUCAUAAAGAUGAAGAUGAUAAG
(..(.....................................))...............((.....)..)
>ABGA01242765.1/13298-13227
GAGAUAGAGGUGUGUGGCCAGCUCUCUGGUCUUGUUAAUAACAAGCCUCGUCAUAAAGAUGGAGAUGAUAAG
(..(........................................).)....((...............)..)
>AACN010527833.1/118-53
GAGAUAGAUGAGCGCGGCUGGCCCGGCCUUGUUAACAAGCGUCCUCAUAAAGAUGCAGCUGAUAAG
(..(...............................))........((...............)..)
>AAIY01412966.1/1867-1934
GAGAUAGAUAUGUGUGGCCAGUCUCUGGUGCUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(....................................)).....((...............)..)
>AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..(.....................................))..((..................)..)
>ABDC01092784.1/2249-2317
GAGAUAGAUGUGCAUGGCCAGCUAGCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(.....................................))..((..................)..)
>AAQQ01620880.1/3048-2980
GAGAUAGAUGUGAGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCACCAUAAAGAUGGAGAUGAUAAG
(..(.....................................))..................((..)..)
>ABRQ01001830.1/1360-1292
GAGAUAGAUGUGCAAGGCCAGUUCACUGGUCUUGUUAACAAGCCUCAUCGUAAAAAUGGAGAUGAUAAG
(..(.....................................)).........(.(..........)..)
>AAQR03076666.1/20792-20860
GAGAUAGAUGUGCGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGGAAAUGAUAAG
(..(.....................................)).....((...............)..)
>DQ926657.1/965-897
GAGAUAGAGGUGCUUGGCCAGCUCUCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(........................)).............(..(..................)..)
3 G(AG(A))
((U)AA)G
U(AG(A))
 8 72.7
>AACN010527833.1/118-53
GAGAUAGAUGAGCGCGGCUGGCCCGGCCUUGUUAACAAGCGUCCUCAUAAAGAUGCAGCUGAUAAG
(..((..(.......................).).))........((...............)..)
>AAQQ01620880.1/3048-2980
GAGAUAGAUGUGAGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCACCAUAAAGAUGGAGAUGAUAAG
(..((..(..............................).)))..................((..)..)
>AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..((..(..............................).)))..((..................)..)
>AANN01406764.1/2815-2747
GAGAUAGAUGUGCGUGGCCAGCCCGCUGGACUUGUUAACAAGCUUCAUCAUAAAGAUGAAGAUGAUAAG
(..((..(..............................).)))...............((.....)..)
>ABGA01242765.1/13298-13227
GAGAUAGAGGUGUGUGGCCAGCUCUCUGGUCUUGUUAAUAACAAGCCUCGUCAUAAAGAUGGAGAUGAUAAG
(..((..(..............................))....).)....((...............)..)
>ABRQ01001830.1/1360-1292
GAGAUAGAUGUGCAAGGCCAGUUCACUGGUCUUGUUAACAAGCCUCAUCGUAAAAAUGGAGAUGAUAAG
(..((..(..............................).))).........(.(..........)..)
>ABDC01092784.1/2249-2317
GAGAUAGAUGUGCAUGGCCAGCUAGCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..((..(..............................).)))..((..................)..)
>AAQR03076666.1/20792-20860
GAGAUAGAUGUGCGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGGAAAUGAUAAG
(..((..(..............................).))).....((...............)..)
4 G(AG(A))
((U)AA)G
U(AG(A))
(GN()YN)
 7 63.6
>AAQR03076666.1/20792-20860
GAGAUAGAUGUGCGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGGAAAUGAUAAG
(..((..((..(......................)..)).))).....((...............)..)
>AACN010527833.1/118-53
GAGAUAGAUGAGCGCGGCUGGCCCGGCCUUGUUAACAAGCGUCCUCAUAAAGAUGCAGCUGAUAAG
(..((..((..(..............)..).).).))........((...............)..)
>ABDC01092784.1/2249-2317
GAGAUAGAUGUGCAUGGCCAGCUAGCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..((..((..(......................)..)).)))..((..................)..)
>ABRQ01001830.1/1360-1292
GAGAUAGAUGUGCAAGGCCAGUUCACUGGUCUUGUUAACAAGCCUCAUCGUAAAAAUGGAGAUGAUAAG
(..((..((..(......................)..)).))).........(.(..........)..)
>AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..((..((..(......................)..)).)))..((..................)..)
>AANN01406764.1/2815-2747
GAGAUAGAUGUGCGUGGCCAGCCCGCUGGACUUGUUAACAAGCUUCAUCAUAAAGAUGAAGAUGAUAAG
(..((..((..(......................)..)).)))...............((.....)..)
>AAQQ01620880.1/3048-2980
GAGAUAGAUGUGAGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCACCAUAAAGAUGGAGAUGAUAAG
(..((..((..(.....................)..).).)))..................((..)..)
5 G(AG(A))
((U)AA)G
U(AG(A))
(GN()YN)
Y(YN)N
 6 54.5
>ABRQ01001830.1/1360-1292
GAGAUAGAUGUGCAAGGCCAGUUCACUGGUCUUGUUAACAAGCCUCAUCGUAAAAAUGGAGAUGAUAAG
(..((..((..(.........(..).........)..)).))).........(.(..........)..)
>AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..((..((..(.........(..).........)..)).)))..((..................)..)
>AAQQ01620880.1/3048-2980
GAGAUAGAUGUGAGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCACCAUAAAGAUGGAGAUGAUAAG
(..((..((..(.........(..)........)..).).)))..................((..)..)
>AANN01406764.1/2815-2747
GAGAUAGAUGUGCGUGGCCAGCCCGCUGGACUUGUUAACAAGCUUCAUCAUAAAGAUGAAGAUGAUAAG
(..((..((..(.........(..).........)..)).)))...............((.....)..)
>ABDC01092784.1/2249-2317
GAGAUAGAUGUGCAUGGCCAGCUAGCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..((..((..(.........(..).........)..)).)))..((..................)..)
>AAQR03076666.1/20792-20860
GAGAUAGAUGUGCGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGGAAAUGAUAAG
(..((..((..(.........(..).........)..)).))).....((...............)..)
6 G(AG(A))
((U)AA)G
U(AG(A))
(GN()YN)
Y(YN)N
(G()U)
 5 45.5
>ABRQ01001830.1/1360-1292
GAGAUAGAUGUGCAAGGCCAGUUCACUGGUCUUGUUAACAAGCCUCAUCGUAAAAAUGGAGAUGAUAAG
(..((..((..(...(.(...(..)...).)...)..)).))).........(.(..........)..)
>AANN01406764.1/2815-2747
GAGAUAGAUGUGCGUGGCCAGCCCGCUGGACUUGUUAACAAGCUUCAUCAUAAAGAUGAAGAUGAUAAG
(..((..((..(..(.(....(..).....).).)..)).)))...............((.....)..)
>AAQR03076666.1/20792-20860
GAGAUAGAUGUGCGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGGAAAUGAUAAG
(..((..((..(...(.(...(..)...).)...)..)).))).....((...............)..)
>ABDC01092784.1/2249-2317
GAGAUAGAUGUGCAUGGCCAGCUAGCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..((..((..(...(.(...(..)...).)...)..)).)))..((..................)..)
>AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..((..((..(...(.(...(..)...).)...)..)).)))..((..................)..)
7 G(AG(A))
((U)AA)G
U(AG(A))
(GN()YN)
Y(YN)N
(G()U)
R(RA)G
 4 36.4
>AAQR03076666.1/20792-20860
GAGAUAGAUGUGCGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGGAAAUGAUAAG
(..((..((..(...(.(...(..)...).)...)..)).))).....((.(..)..........)..)
>ABRQ01001830.1/1360-1292
GAGAUAGAUGUGCAAGGCCAGUUCACUGGUCUUGUUAACAAGCCUCAUCGUAAAAAUGGAGAUGAUAAG
(..((..((..(...(.(...(..)...).)...)..)).))).........(.(..(..)....)..)
>AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..((..((..(...(.(...(..)...).)...)..)).)))..((....(..)..........)..)
>ABDC01092784.1/2249-2317
GAGAUAGAUGUGCAUGGCCAGCUAGCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..((..((..(...(.(...(..)...).)...)..)).)))..((....(..)..........)..)

>AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
(..(.....................................))..........................
(..(.....................................))..((..................)..)
(..((..(..............................).)))..((..................)..)
(..((..((..(......................)..)).)))..((..................)..)
(..((..((..(.........(..).........)..)).)))..((..................)..)
(..((..((..(...(.(...(..)...).)...)..)).)))..((..................)..)
(..((..((..(...(.(...(..)...).)...)..)).)))..((....(..)..........)..)
>AAQR03076666.1/20792-20860
GAGAUAGAUGUGCGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGGAAAUGAUAAG
(..(.....................................))..........................
(..(.....................................)).....((...............)..)
(..((..(..............................).))).....((...............)..)
(..((..((..(......................)..)).))).....((...............)..)
(..((..((..(.........(..).........)..)).))).....((...............)..)
(..((..((..(...(.(...(..)...).)...)..)).))).....((...............)..)
(..((..((..(...(.(...(..)...).)...)..)).))).....((.(..)..........)..)
>ABRQ01001830.1/1360-1292
GAGAUAGAUGUGCAAGGCCAGUUCACUGGUCUUGUUAACAAGCCUCAUCGUAAAAAUGGAGAUGAUAAG
(..(.....................................))..........................
(..(.....................................)).........(.(..........)..)
(..((..(..............................).))).........(.(..........)..)
(..((..((..(......................)..)).))).........(.(..........)..)
(..((..((..(.........(..).........)..)).))).........(.(..........)..)
(..((..((..(...(.(...(..)...).)...)..)).))).........(.(..........)..)
(..((..((..(...(.(...(..)...).)...)..)).))).........(.(..(..)....)..)
>ABDC01092784.1/2249-2317
GAGAUAGAUGUGCAUGGCCAGCUAGCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(.....................................))..........................
(..(.....................................))..((..................)..)
(..((..(..............................).)))..((..................)..)
(..((..((..(......................)..)).)))..((..................)..)
(..((..((..(.........(..).........)..)).)))..((..................)..)
(..((..((..(...(.(...(..)...).)...)..)).)))..((..................)..)
(..((..((..(...(.(...(..)...).)...)..)).)))..((....(..)..........)..)
>AANN01406764.1/2815-2747
GAGAUAGAUGUGCGUGGCCAGCCCGCUGGACUUGUUAACAAGCUUCAUCAUAAAGAUGAAGAUGAUAAG
(..(.....................................))..........................
(..(.....................................))...............((.....)..)
(..((..(..............................).)))...............((.....)..)
(..((..((..(......................)..)).)))...............((.....)..)
(..((..((..(.........(..).........)..)).)))...............((.....)..)
(..((..((..(..(.(....(..).....).).)..)).)))...............((.....)..)
>AAQQ01620880.1/3048-2980
GAGAUAGAUGUGAGUGGCCAGCUCGCUGGUCUUGUUAACAAGCCUCACCAUAAAGAUGGAGAUGAUAAG
(..(.....................................))..........................
(..(.....................................))..................((..)..)
(..((..(..............................).)))..................((..)..)
(..((..((..(.....................)..).).)))..................((..)..)
(..((..((..(.........(..)........)..).).)))..................((..)..)
>AACN010527833.1/118-53
GAGAUAGAUGAGCGCGGCUGGCCCGGCCUUGUUAACAAGCGUCCUCAUAAAGAUGCAGCUGAUAAG
(..(...............................)).............................
(..(...............................))........((...............)..)
(..((..(.......................).).))........((...............)..)
(..((..((..(..............)..).).).))........((...............)..)
>ABGA01242765.1/13298-13227
GAGAUAGAGGUGUGUGGCCAGCUCUCUGGUCUUGUUAAUAACAAGCCUCGUCAUAAAGAUGGAGAUGAUAAG
(..(........................................).).........................
(..(........................................).)....((...............)..)
(..((..(..............................))....).)....((...............)..)
>AAIY01412966.1/1867-1934
GAGAUAGAUAUGUGUGGCCAGUCUCUGGUGCUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(....................................))..........................
(..(....................................)).....((...............)..)
>DQ926657.1/965-897
GAGAUAGAGGUGCUUGGCCAGCUCUCUGGUCUUGUUAACAAGCCUCAUCAUAAAGAUGGAGAUGAUAAG
(..(........................)).......................................
(..(........................)).............(..(..................)..)
>CAAA01172819.1/25533-25465
GAGAUAGAUGUGCGUGGUCAGAUCGCUGGUCAUGUUAACAAGCCUCGUCAUAAAGAUGGGGAUGAUAAG
(..(.....................................))..........................

ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio
1 G(AG(A)) < 0.001 71.9
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
.........1.........2.........3.........4.........5.........6.........
123456789012345678901234567890123456789012345678901234567890123456789
2 ((U)AA)G < 0.001 24
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
.........1.........2.........3.........4.........5.........6.........
123456789012345678901234567890123456789012345678901234567890123456789
3 U(AG(A)) < 0.001 54.5
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
.........1.........2.........3.........4.........5.........6.........
123456789012345678901234567890123456789012345678901234567890123456789
4 R(RA)G < 0.001 31.5
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
.........1.........2.........3.........4.........5.........6.........
123456789012345678901234567890123456789012345678901234567890123456789
5 (GN()YN) < 0.001 1.66
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
.........1.........2.........3.........4.........5.........6.........
123456789012345678901234567890123456789012345678901234567890123456789
6 Y(YN)N < 0.001 4.1
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
.........1.........2.........3.........4.........5.........6.........
123456789012345678901234567890123456789012345678901234567890123456789
7 (G()U) < 0.001 1.26
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
.........1.........2.........3.........4.........5.........6.........
123456789012345678901234567890123456789012345678901234567890123456789
ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio

NCM p-value NCM frequency
(per structure per nucleotide) 		Means
ratio
1 (AGA()A) < 0.001 112
AAPE02030940.1/7322-7390
GAGAUAGAUGUGCUGGGCCAGCUUGCUGGUCUUGUUAACAAGCCUCGUCAUAAAGAUGAAGAUGAUAAG
.........1.........2.........3.........4.........5.........6.........
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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).