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)

Small nucleolar RNA SNORA43   (Rfam: RF00416)

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
((R)U)U
R(AN)Y
R(YN)C
(()NR)
(()(R)R)N
90.5
100.0
81.0
100.0
85.7
((R)U)U
R(AN)Y
R(YN)C
(()NR)

% of positive sequence with ORB





Deep neural network:

5-fold cross-validation: 99.7 %
(± 0.0763 %)
Decision tree:

5-fold cross-validation: 81.7 %
(± 11.5 %)
D-ORB structure
D-ORB structure decision tree:

5-fold cross-validation: 86 %
(± 4.57 %)
of JN899077.1/13-146
JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
(((((((((((....)))))((((((((((((((..)))))))).....).))))).))))))..(((((((((((((((((((((((((((((((..)..)))))))))))))))).)))))))))..)))))
...................................................................................................1..................................
.........1.........2.........3.........4.........5.........6.........7.........8.........9.........0.........1.........2.........3....
12345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234

abstract shape: (()())()

Number of sequences
Structure ORBs (out of 21) (%)
1 ((R)U)U
 17 81.0
>AAWR02025983.1/2331-2464
GAUGCUGGACCUGCCAGCACCACAGACGCAGCUGCUCUGCUGCACCUGUGACGUCAGGGCAAAGAGCAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
..............................................................................((....................................).)...............
>EU094030.1/2-136
GGUGCCCCUCGAGGCGUUGCAGAUGUGGCUGCGGUGCCCCAUUUGUGUCAUGAGGUGGCAGAGAGGAUAAGGCUAUGUCUACGCUCCGUGUUCAAAAAUUUGUGAGCACGCAGAAUGAUUAAUAGCCUGACAGUU
.............................................................................((......................................).)...............
>JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
..............................................................................((....................................).)...............
>AC096587.1/25864-25727
GCUAUCCUGGACUUGCCAGCCCCAUAGACACAGUUGCUGUGCUGUGCCUGUACUAUUGGAGCAAAGAAAAAGUGGCUAUUUCUAUGCUCAGUGUUCACAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
................................................................................((......................................).)...............
>AAPE02038825.1/6643-6777
CGGGUGCUGGACCUGCGGCACCACAGACGCGGCUGCCGUGCUGCACCUGUGACGCCAGGGCACAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCUGACAUUC
...............................................................................((....................................).)...............
>AAFC03061596.1/7185-7318
GAUGCCGGAUUUGCCGGCACCACGGGUGCGGCCGCCCUGCUGCGCCUGUGCCGUUGGGGCAGAGAGAAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCAUGGGCACUAAGAAUGGUUUGUAGCCAAACAUCA
..............................................................................((....................................).)...............
>AANG01778266.1/91-226
CAGACGCCGGGCCUCCCGGCACCACAGACACAGCUGCUCUGCUGCACCUGUGACGUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCGUGGGCACUAAGAAUGGUUUGUAGCCGAACAUGC
................................................................................((....................................).)...............
>AK090585.1/1147-1282
GCUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
..............................................................................((......................................).)...............
>AANU01102204.1/7007-7140
GCUGUCCUGGACCUGUCGGCACCAGACAGUUGCUCUGCCGUGCCUGUGACCUCGGGGCAAAGAGGAAGUGGCGAUUUCUACACUCAGUGCCCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUGA
............................................................................((......................................).)...............
>AJ609446.1/1-136
CGUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
..............................................................................((......................................).)...............
>AALT01661828.1/1748-1607
AGUGCCCUGCGGAUGCUGAGCUGAGCGCCUCAGACAUGGCUGCCCGGAUGCAUCUGUGACAACAGGGCACACAGUAAGUGGCUAUUUCUACGCUCAGUGUCCAGACCCAUGGGCACUAAGAAUGGUUUGUAGCCUCACAUUG
......................................................................................((....................................).)...............
>ABDC01507407.1/1127-990
GCUGCACUGGUCCUGCCAGCACCACAGGUGUGGCUGCUCUGCUGCACCUGUGACAUCGGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCCGAAACCAGUGAACACUAAGAAUGGUUUGUAGCCUGACAUUU
................................................................................((......................................).)...............
>AL732311.13/48731-48593
GCUGUCCUAGAUCAGCACCACAGGCAUGGCACAGCUGCUCAGCUGAGCCUGUGACAUUGGGGCAAAGAGCAAGUGGCUGUUUCUACGCUCAGUGCUCAGAAGCCCGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
.................................................................................((......................................).)...............
>AAQR03116487.1/1257-1120
ACUGUACUGGACCUGCCAGCACCACAGGUGUGGCUGUGCUGCUGUGCCUGUAACAUCAGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCAGAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
................................................................................((......................................).)...............
>FJ915971.1/1-134
GCUGUCCUGGACCUGUCGGCACCAGACAGUUGCUCUGCCGUGCCUGUGACCUCGGGGCAAAAAGGAAGUGGCGAUUUCUACACUCAGUGCCCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUGA
............................................................................((......................................).)...............
>AACN010843946.1/504-369
CAGGUGCUGGACCUACUAGCACCACAGAUACAGCUGCUUUGCUGCACCUGGGAUGUCAGGGCAAAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCAAACAUGC
................................................................................((....................................).)...............
>AC026161.4/89260-89123
GCUGUCCUGGACCUGCCAGCUGCACAGAUGCAGAUGCUCUGCUAUGCCUGUAACAUCGGGGCGAAGUGAAAGUGGCUAUUUCUACACUCAGUUUUCAGAAAACAGUGAACAACAAGAAUGGAUAAUAGCCUGACAUUU
....................................................(...(.................................).).............................................
2 ((R)U)U
R(AN)Y
 16 76.2
>EU094030.1/2-136
GGUGCCCCUCGAGGCGUUGCAGAUGUGGCUGCGGUGCCCCAUUUGUGUCAUGAGGUGGCAGAGAGGAUAAGGCUAUGUCUACGCUCCGUGUUCAAAAAUUUGUGAGCACGCAGAAUGAUUAAUAGCCUGACAGUU
.............................................................................((.................(..).................).)...............
>AJ609446.1/1-136
CGUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
..............................................................................((................(..)..................).)...............
>AANU01102204.1/7007-7140
GCUGUCCUGGACCUGUCGGCACCAGACAGUUGCUCUGCCGUGCCUGUGACCUCGGGGCAAAGAGGAAGUGGCGAUUUCUACACUCAGUGCCCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUGA
............................................................................((................(..)..................).)...............
>AK090585.1/1147-1282
GCUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
..............................................................................((................(..)..................).)...............
>AACN010843946.1/504-369
CAGGUGCUGGACCUACUAGCACCACAGAUACAGCUGCUUUGCUGCACCUGGGAUGUCAGGGCAAAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCAAACAUGC
................................................................................((...............(..).................).)...............
>AAWR02025983.1/2331-2464
GAUGCUGGACCUGCCAGCACCACAGACGCAGCUGCUCUGCUGCACCUGUGACGUCAGGGCAAAGAGCAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
..............................................................................((...............(..).................).)...............
>AC096587.1/25864-25727
GCUAUCCUGGACUUGCCAGCCCCAUAGACACAGUUGCUGUGCUGUGCCUGUACUAUUGGAGCAAAGAAAAAGUGGCUAUUUCUAUGCUCAGUGUUCACAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
................................................................................((.................(..).................).)...............
>ABDC01507407.1/1127-990
GCUGCACUGGUCCUGCCAGCACCACAGGUGUGGCUGCUCUGCUGCACCUGUGACAUCGGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCCGAAACCAGUGAACACUAAGAAUGGUUUGUAGCCUGACAUUU
................................................................................((................(..)..................).)...............
>AAQR03116487.1/1257-1120
ACUGUACUGGACCUGCCAGCACCACAGGUGUGGCUGUGCUGCUGUGCCUGUAACAUCAGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCAGAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
................................................................................((.................(..).................).)...............
>FJ915971.1/1-134
GCUGUCCUGGACCUGUCGGCACCAGACAGUUGCUCUGCCGUGCCUGUGACCUCGGGGCAAAAAGGAAGUGGCGAUUUCUACACUCAGUGCCCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUGA
............................................................................((................(..)..................).)...............
>AAPE02038825.1/6643-6777
CGGGUGCUGGACCUGCGGCACCACAGACGCGGCUGCCGUGCUGCACCUGUGACGCCAGGGCACAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCUGACAUUC
...............................................................................((...............(..).................).)...............
>AANG01778266.1/91-226
CAGACGCCGGGCCUCCCGGCACCACAGACACAGCUGCUCUGCUGCACCUGUGACGUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCGUGGGCACUAAGAAUGGUUUGUAGCCGAACAUGC
................................................................................((................(..)................).)...............
>AAFC03061596.1/7185-7318
GAUGCCGGAUUUGCCGGCACCACGGGUGCGGCCGCCCUGCUGCGCCUGUGCCGUUGGGGCAGAGAGAAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCAUGGGCACUAAGAAUGGUUUGUAGCCAAACAUCA
..............................................................................((................(..)................).)...............
>JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
..............................................................................((...............(..).................).)...............
>AL732311.13/48731-48593
GCUGUCCUAGAUCAGCACCACAGGCAUGGCACAGCUGCUCAGCUGAGCCUGUGACAUUGGGGCAAAGAGCAAGUGGCUGUUUCUACGCUCAGUGCUCAGAAGCCCGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
.................................................................................((................(..)..................).)...............
>AALT01661828.1/1748-1607
AGUGCCCUGCGGAUGCUGAGCUGAGCGCCUCAGACAUGGCUGCCCGGAUGCAUCUGUGACAACAGGGCACACAGUAAGUGGCUAUUUCUACGCUCAGUGUCCAGACCCAUGGGCACUAAGAAUGGUUUGUAGCCUCACAUUG
......................................................................................((...............(..).................).)...............
3 ((R)U)U
R(AN)Y
R(YN)C
 14 66.7
>AANG01778266.1/91-226
CAGACGCCGGGCCUCCCGGCACCACAGACACAGCUGCUCUGCUGCACCUGUGACGUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCGUGGGCACUAAGAAUGGUUUGUAGCCGAACAUGC
...................................(..).........................................((................(..)................).)...............
>JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
.................................(..).........................................((...............(..).................).)...............
>AC096587.1/25864-25727
GCUAUCCUGGACUUGCCAGCCCCAUAGACACAGUUGCUGUGCUGUGCCUGUACUAUUGGAGCAAAGAAAAAGUGGCUAUUUCUAUGCUCAGUGUUCACAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
......................................(..)......................................((.................(..).................).)...............
>AANU01102204.1/7007-7140
GCUGUCCUGGACCUGUCGGCACCAGACAGUUGCUCUGCCGUGCCUGUGACCUCGGGGCAAAGAGGAAGUGGCGAUUUCUACACUCAGUGCCCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUGA
..................(..)......................................................((................(..)..................).)...............
>AAWR02025983.1/2331-2464
GAUGCUGGACCUGCCAGCACCACAGACGCAGCUGCUCUGCUGCACCUGUGACGUCAGGGCAAAGAGCAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
.................................(..).........................................((...............(..).................).)...............
>AL732311.13/48731-48593
GCUGUCCUAGAUCAGCACCACAGGCAUGGCACAGCUGCUCAGCUGAGCCUGUGACAUUGGGGCAAAGAGCAAGUGGCUGUUUCUACGCUCAGUGCUCAGAAGCCCGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
....................................(..).........................................((................(..)..................).)...............
>AAPE02038825.1/6643-6777
CGGGUGCUGGACCUGCGGCACCACAGACGCGGCUGCCGUGCUGCACCUGUGACGCCAGGGCACAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCUGACAUUC
.....................................(..)......................................((...............(..).................).)...............
>AAFC03061596.1/7185-7318
GAUGCCGGAUUUGCCGGCACCACGGGUGCGGCCGCCCUGCUGCGCCUGUGCCGUUGGGGCAGAGAGAAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCAUGGGCACUAAGAAUGGUUUGUAGCCAAACAUCA
.................................(..).........................................((................(..)................).)...............
>AAQR03116487.1/1257-1120
ACUGUACUGGACCUGCCAGCACCACAGGUGUGGCUGUGCUGCUGUGCCUGUAACAUCAGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCAGAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
...................................(..).........................................((.................(..).................).)...............
>FJ915971.1/1-134
GCUGUCCUGGACCUGUCGGCACCAGACAGUUGCUCUGCCGUGCCUGUGACCUCGGGGCAAAAAGGAAGUGGCGAUUUCUACACUCAGUGCCCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUGA
..................(..)......................................................((................(..)..................).)...............
>ABDC01507407.1/1127-990
GCUGCACUGGUCCUGCCAGCACCACAGGUGUGGCUGCUCUGCUGCACCUGUGACAUCGGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCCGAAACCAGUGAACACUAAGAAUGGUUUGUAGCCUGACAUUU
...................................(..).........................................((................(..)..................).)...............
>AJ609446.1/1-136
CGUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
.................................(..).........................................((................(..)..................).)...............
>AK090585.1/1147-1282
GCUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
.................................(..).........................................((................(..)..................).)...............
>AALT01661828.1/1748-1607
AGUGCCCUGCGGAUGCUGAGCUGAGCGCCUCAGACAUGGCUGCCCGGAUGCAUCUGUGACAACAGGGCACACAGUAAGUGGCUAUUUCUACGCUCAGUGUCCAGACCCAUGGGCACUAAGAAUGGUUUGUAGCCUCACAUUG
.........................................(..).........................................((...............(..).................).)...............
4 ((R)U)U
R(AN)Y
R(YN)C
(()NR)
 11 52.4
>AAFC03061596.1/7185-7318
GAUGCCGGAUUUGCCGGCACCACGGGUGCGGCCGCCCUGCUGCGCCUGUGCCGUUGGGGCAGAGAGAAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCAUGGGCACUAAGAAUGGUUUGUAGCCAAACAUCA
.................................(..).................................((......((................(..)................).)......)..).....
>AJ609446.1/1-136
CGUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
.................................(..).................................((......((................(..)..................).)......)..).....
>JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
.................................(..)................................((.......((...............(..).................).).......)..)....
>AAWR02025983.1/2331-2464
GAUGCUGGACCUGCCAGCACCACAGACGCAGCUGCUCUGCUGCACCUGUGACGUCAGGGCAAAGAGCAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
.................................(..).................................((......((...............(..).................).)......)..).....
>ABDC01507407.1/1127-990
GCUGCACUGGUCCUGCCAGCACCACAGGUGUGGCUGCUCUGCUGCACCUGUGACAUCGGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCCGAAACCAGUGAACACUAAGAAUGGUUUGUAGCCUGACAUUU
...................................(..).................................((......((................(..)..................).)......)..).....
>AAPE02038825.1/6643-6777
CGGGUGCUGGACCUGCGGCACCACAGACGCGGCUGCCGUGCUGCACCUGUGACGCCAGGGCACAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCUGACAUUC
.....................................(..)..............................((......((...............(..).................).)......)..).....
>AANG01778266.1/91-226
CAGACGCCGGGCCUCCCGGCACCACAGACACAGCUGCUCUGCUGCACCUGUGACGUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCGUGGGCACUAAGAAUGGUUUGUAGCCGAACAUGC
...................................(..)................................((.......((................(..)................).).......)..)....
>AAQR03116487.1/1257-1120
ACUGUACUGGACCUGCCAGCACCACAGGUGUGGCUGUGCUGCUGUGCCUGUAACAUCAGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCAGAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
...................................(..).................................((......((.................(..).................).)......)..).....
>AK090585.1/1147-1282
GCUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
.................................(..).................................((......((................(..)..................).)......)..).....
>AL732311.13/48731-48593
GCUGUCCUAGAUCAGCACCACAGGCAUGGCACAGCUGCUCAGCUGAGCCUGUGACAUUGGGGCAAAGAGCAAGUGGCUGUUUCUACGCUCAGUGCUCAGAAGCCCGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
....................................(..).................................((......((................(..)..................).)......)..).....
>AC096587.1/25864-25727
GCUAUCCUGGACUUGCCAGCCCCAUAGACACAGUUGCUGUGCUGUGCCUGUACUAUUGGAGCAAAGAAAAAGUGGCUAUUUCUAUGCUCAGUGUUCACAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
......................................(..)..............................((......((.................(..).................).)......)..).....
5 ((R)U)U
R(AN)Y
R(YN)C
(()NR)
(()(R)R)N
 7 33.3
>AAWR02025983.1/2331-2464
GAUGCUGGACCUGCCAGCACCACAGACGCAGCUGCUCUGCUGCACCUGUGACGUCAGGGCAAAGAGCAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
..........((......).(............(..)............).)..................((......((...............(..).................).)......)..).....
>AAQR03116487.1/1257-1120
ACUGUACUGGACCUGCCAGCACCACAGGUGUGGCUGUGCUGCUGUGCCUGUAACAUCAGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCAGAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
......((...............)(..........(..)...................).)...........((......((.................(..).................).)......)..).....
>JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
.....((............)(............(..)..................).)...........((.......((...............(..).................).).......)..)....
>AAPE02038825.1/6643-6777
CGGGUGCUGGACCUGCGGCACCACAGACGCGGCUGCCGUGCUGCACCUGUGACGCCAGGGCACAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCUGACAUUC
......((......)(.....................(..)................).)...........((......((...............(..).................).)......)..).....
>AC096587.1/25864-25727
GCUAUCCUGGACUUGCCAGCCCCAUAGACACAGUUGCUGUGCUGUGCCUGUACUAUUGGAGCAAAGAAAAAGUGGCUAUUUCUAUGCUCAGUGUUCACAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
.......((...........).(...............(..)...............).)............((......((.................(..).................).)......)..).....
>AL732311.13/48731-48593
GCUGUCCUAGAUCAGCACCACAGGCAUGGCACAGCUGCUCAGCUGAGCCUGUGACAUUGGGGCAAAGAGCAAGUGGCUGUUUCUACGCUCAGUGCUCAGAAGCCCGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
..((........)(......................(..).......................).).......((......((................(..)..................).)......)..).....
>ABDC01507407.1/1127-990
GCUGCACUGGUCCUGCCAGCACCACAGGUGUGGCUGCUCUGCUGCACCUGUGACAUCGGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCCGAAACCAGUGAACACUAAGAAUGGUUUGUAGCCUGACAUUU
.........((..........)(............(..)............).)..................((......((................(..)..................).)......)..).....

>AAWR02025983.1/2331-2464
GAUGCUGGACCUGCCAGCACCACAGACGCAGCUGCUCUGCUGCACCUGUGACGUCAGGGCAAAGAGCAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
..............................................................................((....................................).)...............
..............................................................................((...............(..).................).)...............
.................................(..).........................................((...............(..).................).)...............
.................................(..).................................((......((...............(..).................).)......)..).....
..........((......).(............(..)............).)..................((......((...............(..).................).)......)..).....
>JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
..............................................................................((....................................).)...............
..............................................................................((...............(..).................).)...............
.................................(..).........................................((...............(..).................).)...............
.................................(..)................................((.......((...............(..).................).).......)..)....
.....((............)(............(..)..................).)...........((.......((...............(..).................).).......)..)....
>AC096587.1/25864-25727
GCUAUCCUGGACUUGCCAGCCCCAUAGACACAGUUGCUGUGCUGUGCCUGUACUAUUGGAGCAAAGAAAAAGUGGCUAUUUCUAUGCUCAGUGUUCACAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
................................................................................((......................................).)...............
................................................................................((.................(..).................).)...............
......................................(..)......................................((.................(..).................).)...............
......................................(..)..............................((......((.................(..).................).)......)..).....
.......((...........).(...............(..)...............).)............((......((.................(..).................).)......)..).....
>AAPE02038825.1/6643-6777
CGGGUGCUGGACCUGCGGCACCACAGACGCGGCUGCCGUGCUGCACCUGUGACGCCAGGGCACAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCUGACAUUC
...............................................................................((....................................).)...............
...............................................................................((...............(..).................).)...............
.....................................(..)......................................((...............(..).................).)...............
.....................................(..)..............................((......((...............(..).................).)......)..).....
......((......)(.....................(..)................).)...........((......((...............(..).................).)......)..).....
>ABDC01507407.1/1127-990
GCUGCACUGGUCCUGCCAGCACCACAGGUGUGGCUGCUCUGCUGCACCUGUGACAUCGGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCCGAAACCAGUGAACACUAAGAAUGGUUUGUAGCCUGACAUUU
................................................................................((......................................).)...............
................................................................................((................(..)..................).)...............
...................................(..).........................................((................(..)..................).)...............
...................................(..).................................((......((................(..)..................).)......)..).....
.........((..........)(............(..)............).)..................((......((................(..)..................).)......)..).....
>AL732311.13/48731-48593
GCUGUCCUAGAUCAGCACCACAGGCAUGGCACAGCUGCUCAGCUGAGCCUGUGACAUUGGGGCAAAGAGCAAGUGGCUGUUUCUACGCUCAGUGCUCAGAAGCCCGUGAGCACUAAGAAUGGUUUGUAGCCUGACAUUU
.................................................................................((......................................).)...............
.................................................................................((................(..)..................).)...............
....................................(..).........................................((................(..)..................).)...............
....................................(..).................................((......((................(..)..................).)......)..).....
..((........)(......................(..).......................).).......((......((................(..)..................).)......)..).....
>AAQR03116487.1/1257-1120
ACUGUACUGGACCUGCCAGCACCACAGGUGUGGCUGUGCUGCUGUGCCUGUAACAUCAGGGCAAAGAGAAAGUGGCUAUUUCUACGCUCAGUGUUCAGAAACCAGUGAGCACUAAGAAUGGUUUAUAGCCUGACAUUU
................................................................................((......................................).)...............
................................................................................((.................(..).................).)...............
...................................(..).........................................((.................(..).................).)...............
...................................(..).................................((......((.................(..).................).)......)..).....
......((...............)(..........(..)...................).)...........((......((.................(..).................).)......)..).....
>AAFC03061596.1/7185-7318
GAUGCCGGAUUUGCCGGCACCACGGGUGCGGCCGCCCUGCUGCGCCUGUGCCGUUGGGGCAGAGAGAAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCAUGGGCACUAAGAAUGGUUUGUAGCCAAACAUCA
..............................................................................((....................................).)...............
..............................................................................((................(..)................).)...............
.................................(..).........................................((................(..)................).)...............
.................................(..).................................((......((................(..)................).)......)..).....
>AANG01778266.1/91-226
CAGACGCCGGGCCUCCCGGCACCACAGACACAGCUGCUCUGCUGCACCUGUGACGUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUCAGUGCUCAGAACCGUGGGCACUAAGAAUGGUUUGUAGCCGAACAUGC
................................................................................((....................................).)...............
................................................................................((................(..)................).)...............
...................................(..).........................................((................(..)................).)...............
...................................(..)................................((.......((................(..)................).).......)..)....
>AK090585.1/1147-1282
GCUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
..............................................................................((......................................).)...............
..............................................................................((................(..)..................).)...............
.................................(..).........................................((................(..)..................).)...............
.................................(..).................................((......((................(..)..................).)......)..).....
>AJ609446.1/1-136
CGUGUCCUGGACCUGUUGGCACCACAGACAGUUGCUCUGCUGUGCCUGUGGCCUCGGGGCAAAGAGAAAGUGGCGAUUUCUACACUCAGUGCUCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUUA
..............................................................................((......................................).)...............
..............................................................................((................(..)..................).)...............
.................................(..).........................................((................(..)..................).)...............
.................................(..).................................((......((................(..)..................).)......)..).....
>AANU01102204.1/7007-7140
GCUGUCCUGGACCUGUCGGCACCAGACAGUUGCUCUGCCGUGCCUGUGACCUCGGGGCAAAGAGGAAGUGGCGAUUUCUACACUCAGUGCCCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUGA
............................................................................((......................................).)...............
............................................................................((................(..)..................).)...............
..................(..)......................................................((................(..)..................).)...............
>AALT01661828.1/1748-1607
AGUGCCCUGCGGAUGCUGAGCUGAGCGCCUCAGACAUGGCUGCCCGGAUGCAUCUGUGACAACAGGGCACACAGUAAGUGGCUAUUUCUACGCUCAGUGUCCAGACCCAUGGGCACUAAGAAUGGUUUGUAGCCUCACAUUG
......................................................................................((....................................).)...............
......................................................................................((...............(..).................).)...............
.........................................(..).........................................((...............(..).................).)...............
>FJ915971.1/1-134
GCUGUCCUGGACCUGUCGGCACCAGACAGUUGCUCUGCCGUGCCUGUGACCUCGGGGCAAAAAGGAAGUGGCGAUUUCUACACUCAGUGCCCGGGAACCAGUGGGCACUGAGAAUGGUUUAUGGCCUGACAUGA
............................................................................((......................................).)...............
............................................................................((................(..)..................).)...............
..................(..)......................................................((................(..)..................).)...............
>EU094030.1/2-136
GGUGCCCCUCGAGGCGUUGCAGAUGUGGCUGCGGUGCCCCAUUUGUGUCAUGAGGUGGCAGAGAGGAUAAGGCUAUGUCUACGCUCCGUGUUCAAAAAUUUGUGAGCACGCAGAAUGAUUAAUAGCCUGACAGUU
.............................................................................((......................................).)...............
.............................................................................((.................(..).................).)...............
>AACN010843946.1/504-369
CAGGUGCUGGACCUACUAGCACCACAGAUACAGCUGCUUUGCUGCACCUGGGAUGUCAGGGCAAAGAGGAAGUGGCUAUUUCUACGCUCAGUGCUCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCAAACAUGC
................................................................................((....................................).)...............
................................................................................((...............(..).................).)...............
>AC026161.4/89260-89123
GCUGUCCUGGACCUGCCAGCUGCACAGAUGCAGAUGCUCUGCUAUGCCUGUAACAUCGGGGCGAAGUGAAAGUGGCUAUUUCUACACUCAGUUUUCAGAAAACAGUGAACAACAAGAAUGGAUAAUAGCCUGACAUUU
....................................................(...(.................................).).............................................

ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio
1 ((R)U)U < 0.001 10.2
JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
...................................................................................................1..................................
.........1.........2.........3.........4.........5.........6.........7.........8.........9.........0.........1.........2.........3....
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2 R(AN)Y < 0.001 3.24
JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
...................................................................................................1..................................
.........1.........2.........3.........4.........5.........6.........7.........8.........9.........0.........1.........2.........3....
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3 R(YN)C < 0.001 3.81
JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
...................................................................................................1..................................
.........1.........2.........3.........4.........5.........6.........7.........8.........9.........0.........1.........2.........3....
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4 (()NR) < 0.001 2.47
JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
...................................................................................................1..................................
.........1.........2.........3.........4.........5.........6.........7.........8.........9.........0.........1.........2.........3....
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5 (()(R)R)N 0.00747 1.69
JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
...................................................................................................1..................................
.........1.........2.........3.........4.........5.........6.........7.........8.........9.........0.........1.........2.........3....
12345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234
ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio

NCM p-value NCM frequency
(per structure per nucleotide) 		Means
ratio
1 (Y()UU) < 0.001 7.25
JN899077.1/13-146
GAUGCCGGACCUGCCGGCACCAUGGCUGCAGCUGCUCUGCUGCACCUGUGACCUUGGGGCAAAGAGGAAGCGGCUAUUUCUACGCUUAGUGCCCAGAACAGUGGGCACUAAGAAUGGUUUGUAGCCGGACAUUG
...................................................................................................1..................................
.........1.........2.........3.........4.........5.........6.........7.........8.........9.........0.........1.........2.........3....
12345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234567890123456789012345678901234
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).