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)

mir-10 microRNA precursor family   (Rfam: RF00104)

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
(.RU.().R.)
Y(GU(R))
(A()U)
(C()N)
(.N.)
A(C(C))
100.0
100.0
100.0
100.0
100.0
100.0
(.RU.().R.)
(.RU.().R.)

% of positive sequence with ORB





Deep neural network:

5-fold cross-validation: 99.7 %
(± 0.129 %)
Decision tree:

5-fold cross-validation: 80.8 %
(± 9.12 %)
D-ORB structure
D-ORB structure decision tree:

5-fold cross-validation: 87.4 %
(± 11.2 %)
of AY866066.1/468-537
AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
((((.((((.((..(((((.(.(((...(((((...).))))..)))).).))))..).))))).)))).
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890

abstract shape: ()

Number of sequences
Structure ORBs (out of 20) (%)
1 (.RU.().R.)
 19 95.0
>AY866140.1/97-172
CUGUAUAUACCCCGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUUUAGGGGAAUAUGUAGU
......................(..(........................)..)......................
>AC095014.1/143527-143452
CCACGUCUACCCUGUAGAUCCGAAUUUGUUUUAUACUAGCUUUAAGGACAAAUUCGGUUCUAGAGAGGUUUGUGUG
......................(..(........................)..)......................
>AY866139.1/146-221
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUCUAGGGGAAUAUGUAGU
......................(..(........................)..)......................
>AY866146.1/472-546
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCGUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
......................(..(.......................)..)......................
>AY866056.1/508-579
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUAAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
.......................(....(................).)........................
>AL645782.2/32556-32631
CUAUAUAUACCCUGUAGAUCCGGAUUUGUGUAAACAGACGCACAGUCACAAAUUCGUAUCUAGGGGAGUAUGUAGU
......................(..(........................)..)......................
>U77364.1/4186-4260
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUACCCACAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
......................(..(.......................)..)......................
>AY866143.1/135-210
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACACAUUCGUAUCUAGGGGAAUAUGUAGU
......................(..(........................)..)......................
>U92575.1/1530-1608
CUAUAUCUACCCUGUAGAUCCGGAUUUGUGUAAAAAUCAUUAAAGCAAUCACAAAUUCGCUUCUAGGGGAGUAUAUAGU
................(....(...................................).)...................
>AF480571.1/6-77
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUGAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
.......................(....(................).)........................
>AL645798.2/23515-23586
CUAUAUAUACCCUGUAGAUCCGAAUUUGUGUGAAUAUACAGUCGCAAAUUCGUGUCUUGGGGAAUAUGUAGU
......................(..(....................)..)......................
>AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...............(...(.............................)...)................
>AC122451.3/49344-49273
UGACAUAAACCCGUAGAUCCGAUCUUGUGGUGAAGUGGACCGCGCAAGCUCGUUUCUAUGGGUCUGUGGCAG
.......................(....(................).)........................
>AY866067.1/466-535
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAGUCUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...............(...(.............................)...)................
>Z68760.4/2906-2832
GUCCGUCUACCCGUAGCUCCUAUCCAUGUUACUGGUCAAAAAGUGAACAUGGAAGCAGGUACAGGUGCACGGCGA
....................(...(.........................)..).....................
>AY866144.1/478-552
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCAUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
......................(..(.......................)..)......................
>AF480538.1/6-75
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUAUCUAUAGGUAUGUGUCUG
...............(...(.............................)...)................
>AY866065.1/465-534
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUGUCUAUAGGUAUGUGUCUU
...............(...(.............................)...)................
>Z36753.2/18689-18616
GCUCGUCUACCCUGUAGAUCGAGCUGUGUGUUUGAAACAAUCAUACACGAGCUAGACUACAAGGUGCACGAACA
........................(..(...................).)........................
2 (.RU.().R.)
Y(GU(R))
 17 85.0
>AY866067.1/466-535
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAGUCUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...........(..((...(.............................)...))..)............
>AY866139.1/146-221
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUCUAGGGGAAUAUGUAGU
............(..(......(..(........................)..)......).).............
>AY866144.1/478-552
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCAUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
............(..(......(..(.......................)..)......).).............
>AL645782.2/32556-32631
CUAUAUAUACCCUGUAGAUCCGGAUUUGUGUAAACAGACGCACAGUCACAAAUUCGUAUCUAGGGGAGUAUGUAGU
............(..(......(..(........................)..)......))..............
>AY866140.1/97-172
CUGUAUAUACCCCGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUUUAGGGGAAUAUGUAGU
............(..(......(..(........................)..)......).).............
>AY866056.1/508-579
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUAAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
...........(..(........(....(................).)........)..)............
>AC095014.1/143527-143452
CCACGUCUACCCUGUAGAUCCGAAUUUGUUUUAUACUAGCUUUAAGGACAAAUUCGGUUCUAGAGAGGUUUGUGUG
............(..(......(..(........................)..)......)..)............
>AL645798.2/23515-23586
CUAUAUAUACCCUGUAGAUCCGAAUUUGUGUGAAUAUACAGUCGCAAAUUCGUGUCUUGGGGAAUAUGUAGU
............(..(...........(...(..........).)...........).).............
>AF480538.1/6-75
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUAUCUAUAGGUAUGUGUCUG
...........(..((...(.............................)...))..)............
>AY866146.1/472-546
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCGUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
............(..(......(..(.......................)..)......))..............
>U92575.1/1530-1608
CUAUAUCUACCCUGUAGAUCCGGAUUUGUGUAAAAAUCAUUAAAGCAAUCACAAAUUCGCUUCUAGGGGAGUAUAUAGU
............(..((....(...................................).)...))..............
>Z68760.4/2906-2832
GUCCGUCUACCCGUAGCUCCUAUCCAUGUUACUGGUCAAAAAGUGAACAUGGAAGCAGGUACAGGUGCACGGCGA
...........(..(.....(...(.........................)..).....)..)............
>Z36753.2/18689-18616
GCUCGUCUACCCUGUAGAUCGAGCUGUGUGUUUGAAACAAUCAUACACGAGCUAGACUACAAGGUGCACGAACA
............(..(........(..(...................).).......)..).............
>U77364.1/4186-4260
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUACCCACAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
............(..(......(..(.......................)..)......).).............
>AY866143.1/135-210
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACACAUUCGUAUCUAGGGGAAUAUGUAGU
............(..(......(..(........................)..)......).).............
>AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...........(..((...(.............................)...))..)............
>AY866065.1/465-534
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUGUCUAUAGGUAUGUGUCUU
...........(..((...(.............................)...))..)............
3 (.RU.().R.)
Y(GU(R))
(A()U)
 14 70.0
>AY866146.1/472-546
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCGUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(......(..(.......................)..)......)).....).)......
>AF480538.1/6-75
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUAUCUAUAGGUAUGUGUCUG
...(.(.....(..((...(.............................)...))..).....).)....
>AY866065.1/465-534
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUGUCUAUAGGUAUGUGUCUU
...(.(.....(..((...(.............................)...))..).....).)....
>AY866143.1/135-210
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACACAUUCGUAUCUAGGGGAAUAUGUAGU
.....(.(....(..(......(..(........................)..)......).)....).)......
>AY866140.1/97-172
CUGUAUAUACCCCGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUUUAGGGGAAUAUGUAGU
.....(.(....(..(......(..(........................)..)......).)....).)......
>AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...(.(.....(..((...(.............................)...))..).....).)....
>AY866139.1/146-221
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUCUAGGGGAAUAUGUAGU
.....(.(....(..(......(..(........................)..)......).)....).)......
>AY866067.1/466-535
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAGUCUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...(.(.....(..((...(.............................)...))..).....).)....
>Z36753.2/18689-18616
GCUCGUCUACCCUGUAGAUCGAGCUGUGUGUUUGAAACAAUCAUACACGAGCUAGACUACAAGGUGCACGAACA
.......(.(..(..(........(..(...................).).......)..)..).)........
>AL645782.2/32556-32631
CUAUAUAUACCCUGUAGAUCCGGAUUUGUGUAAACAGACGCACAGUCACAAAUUCGUAUCUAGGGGAGUAUGUAGU
.....(.(....(..(......(..(........................)..)......)).....).)......
>AY866144.1/478-552
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCAUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(......(..(.......................)..)......).)....).)......
>AY866056.1/508-579
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUAAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
...(.(.....(..(........(....(................).)........)..).....).)....
>AC095014.1/143527-143452
CCACGUCUACCCUGUAGAUCCGAAUUUGUUUUAUACUAGCUUUAAGGACAAAUUCGGUUCUAGAGAGGUUUGUGUG
.......(.(..(..(......(..(........................)..)......)..)...).)......
>U77364.1/4186-4260
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUACCCACAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(......(..(.......................)..)......).)....).)......
4 (.RU.().R.)
Y(GU(R))
(A()U)
(C()N)
 12 60.0
>AY866140.1/97-172
CUGUAUAUACCCCGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUUUAGGGGAAUAUGUAGU
.....(.(....(..(..(.(.(..(........................)..).).)..).)....).)......
>AY866144.1/478-552
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCAUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(..(.(.(..(.......................)..).).)..).)....).)......
>AL645782.2/32556-32631
CUAUAUAUACCCUGUAGAUCCGGAUUUGUGUAAACAGACGCACAGUCACAAAUUCGUAUCUAGGGGAGUAUGUAGU
.....(.(....(..(..(.(.(..(........................)..).).)..)).....).)......
>AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...(.(.....(..(.......(.(...(..(......).)...).).......)..).....).)....
>U77364.1/4186-4260
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUACCCACAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(..(.(.(..(.......................)..).).)..).)....).)......
>AY866065.1/465-534
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUGUCUAUAGGUAUGUGUCUU
...(.(.....(..(.......(.(...(..(....)...)...).).......)..).....).)....
>AY866067.1/466-535
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAGUCUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...(.(.....(..(.......(.(...(..(.....)..)...).).......)..).....).)....
>AY866143.1/135-210
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACACAUUCGUAUCUAGGGGAAUAUGUAGU
.....(.(....(..(..(.(.(..(........................)..).).)..).)....).)......
>AY866139.1/146-221
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUCUAGGGGAAUAUGUAGU
.....(.(....(..(..(.(.(..(........................)..).).)..).)....).)......
>AF480538.1/6-75
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUAUCUAUAGGUAUGUGUCUG
...(.(.....(..(.......(.(...(..(....)...)...).).......)..).....).)....
>AY866056.1/508-579
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUAAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
...(.(.....(..(...(.(..(....(................).)..).)...)..).....).)....
>AY866146.1/472-546
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCGUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(..(.(.(..(.......................)..).).)..)).....).)......
5 (.RU.().R.)
Y(GU(R))
(A()U)
(C()N)
(.N.)
 12 60.0
>AY866065.1/465-534
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUGUCUAUAGGUAUGUGUCUU
...(.(.....(..(.......(.(...(..((..))...)...).).......)..).....).)....
>AF480538.1/6-75
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUAUCUAUAGGUAUGUGUCUG
...(.(.....(..(.......(.(...(..((..))...)...).).......)..).....).)....
>AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...(.(.....(..(.......(.(...(..((..)..).)...).).......)..).....).)....
>AY866144.1/478-552
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCAUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(..(.(.(..(........(....).........)..).).)..).)....).)......
>AY866056.1/508-579
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUAAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
...(.(.....(..(...(.(..(....(......(..)......).)..).)...)..).....).)....
>AY866146.1/472-546
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCGUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(..(.(.(..(........(....).........)..).).)..)).....).)......
>AY866139.1/146-221
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUCUAGGGGAAUAUGUAGU
.....(.(....(..(..(.(.(..(........(.....).........)..).).)..).)....).)......
>U77364.1/4186-4260
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUACCCACAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
.....(.(....(..(..(.(.(..(........(....).........)..).).)..).)....).)......
>AY866140.1/97-172
CUGUAUAUACCCCGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUUUAGGGGAAUAUGUAGU
.....(.(....(..(..(.(.(..(........(.....).........)..).).)..).)....).)......
>AY866067.1/466-535
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAGUCUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...(.(.....(..(.......(.(...(..((..).)..)...).).......)..).....).)....
>AL645782.2/32556-32631
CUAUAUAUACCCUGUAGAUCCGGAUUUGUGUAAACAGACGCACAGUCACAAAUUCGUAUCUAGGGGAGUAUGUAGU
.....(.(....(..(..(.(.(..(........(.....).........)..).).)..)).....).)......
>AY866143.1/135-210
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACACAUUCGUAUCUAGGGGAAUAUGUAGU
.....(.(....(..(..(.(.(..(........(.....).........)..).).)..).)....).)......
6 (.RU.().R.)
Y(GU(R))
(A()U)
(C()N)
(.N.)
A(C(C))
 8 40.0
>AY866067.1/466-535
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAGUCUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...(.(..(.((..(.......(.(...(..((..).)..)...).).......)..)).)..).)....
>AY866065.1/465-534
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUGUCUAUAGGUAUGUGUCUU
...(.(..(.((..(.......(.(...(..((..))...)...).).......)..)).)..).)....
>AF480538.1/6-75
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUAUCUAUAGGUAUGUGUCUG
...(.(..(.((..(.......(.(...(..((..))...)...).).......)..)).)..).)....
>AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...(.(..(.((..(.......(.(...(..((..)..).)...).).......)..)).)..).)....
>AY866143.1/135-210
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACACAUUCGUAUCUAGGGGAAUAUGUAGU
.....(.((.(.(..(..(.(.(..(........(.....).........)..).).)..).).).)).)......
>AY866056.1/508-579
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUAAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
...(.(..(.((..(...(.(..(....(......(..)......).)..).)...)..)).)..).)....
>AY866140.1/97-172
CUGUAUAUACCCCGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUUUAGGGGAAUAUGUAGU
.....(.((.(.(..(..(.(.(..(........(.....).........)..).).)..).).)).).)......
>AY866139.1/146-221
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUCUAGGGGAAUAUGUAGU
.....(.((.(.(..(..(.(.(..(........(.....).........)..).).)..).).)).).)......

>AY866140.1/97-172
CUGUAUAUACCCCGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUUUAGGGGAAUAUGUAGU
......................(..(........................)..)......................
............(..(......(..(........................)..)......).).............
.....(.(....(..(......(..(........................)..)......).)....).)......
.....(.(....(..(..(.(.(..(........................)..).).)..).)....).)......
.....(.(....(..(..(.(.(..(........(.....).........)..).).)..).)....).)......
.....(.((.(.(..(..(.(.(..(........(.....).........)..).).)..).).)).).)......
>AY866139.1/146-221
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACAAAUUCGUAUCUAGGGGAAUAUGUAGU
......................(..(........................)..)......................
............(..(......(..(........................)..)......).).............
.....(.(....(..(......(..(........................)..)......).)....).)......
.....(.(....(..(..(.(.(..(........................)..).).)..).)....).)......
.....(.(....(..(..(.(.(..(........(.....).........)..).).)..).)....).)......
.....(.((.(.(..(..(.(.(..(........(.....).........)..).).)..).).)).).)......
>AY866056.1/508-579
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUAAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
.......................(....(................).)........................
...........(..(........(....(................).)........)..)............
...(.(.....(..(........(....(................).)........)..).....).)....
...(.(.....(..(...(.(..(....(................).)..).)...)..).....).)....
...(.(.....(..(...(.(..(....(......(..)......).)..).)...)..).....).)....
...(.(..(.((..(...(.(..(....(......(..)......).)..).)...)..)).)..).)....
>AY866143.1/135-210
CUGUAUAUACCCUGUAGAUCCGAAUUUGUGUAAGGAAUUUUGUGGUCACACAUUCGUAUCUAGGGGAAUAUGUAGU
......................(..(........................)..)......................
............(..(......(..(........................)..)......).).............
.....(.(....(..(......(..(........................)..)......).)....).)......
.....(.(....(..(..(.(.(..(........................)..).).)..).)....).)......
.....(.(....(..(..(.(.(..(........(.....).........)..).).)..).)....).)......
.....(.((.(.(..(..(.(.(..(........(.....).........)..).).)..).).).)).)......
>AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...............(...(.............................)...)................
...........(..((...(.............................)...))..)............
...(.(.....(..((...(.............................)...))..).....).)....
...(.(.....(..(.......(.(...(..(......).)...).).......)..).....).)....
...(.(.....(..(.......(.(...(..((..)..).)...).).......)..).....).)....
...(.(..(.((..(.......(.(...(..((..)..).)...).).......)..)).)..).)....
>AY866067.1/466-535
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAGUCUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
...............(...(.............................)...)................
...........(..((...(.............................)...))..)............
...(.(.....(..((...(.............................)...))..).....).)....
...(.(.....(..(.......(.(...(..(.....)..)...).).......)..).....).)....
...(.(.....(..(.......(.(...(..((..).)..)...).).......)..).....).)....
...(.(..(.((..(.......(.(...(..((..).)..)...).).......)..)).)..).)....
>AF480538.1/6-75
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUAUCUAUAGGUAUGUGUCUG
...............(...(.............................)...)................
...........(..((...(.............................)...))..)............
...(.(.....(..((...(.............................)...))..).....).)....
...(.(.....(..(.......(.(...(..(....)...)...).).......)..).....).)....
...(.(.....(..(.......(.(...(..((..))...)...).).......)..).....).)....
...(.(..(.((..(.......(.(...(..((..))...)...).).......)..)).)..).)....
>AY866065.1/465-534
UGCCACAAACCCGUAGAUCCGAACUUGUGGUAUUAGUCCGCACAAGCUUGUGUCUAUAGGUAUGUGUCUU
...............(...(.............................)...)................
...........(..((...(.............................)...))..)............
...(.(.....(..((...(.............................)...))..).....).)....
...(.(.....(..(.......(.(...(..(....)...)...).).......)..).....).)....
...(.(.....(..(.......(.(...(..((..))...)...).).......)..).....).)....
...(.(..(.((..(.......(.(...(..((..))...)...).).......)..)).)..).)....
>AY866146.1/472-546
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCGUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
......................(..(.......................)..)......................
............(..(......(..(.......................)..)......))..............
.....(.(....(..(......(..(.......................)..)......)).....).)......
.....(.(....(..(..(.(.(..(.......................)..).).)..)).....).)......
.....(.(....(..(..(.(.(..(........(....).........)..).).)..)).....).)......
>AL645782.2/32556-32631
CUAUAUAUACCCUGUAGAUCCGGAUUUGUGUAAACAGACGCACAGUCACAAAUUCGUAUCUAGGGGAGUAUGUAGU
......................(..(........................)..)......................
............(..(......(..(........................)..)......))..............
.....(.(....(..(......(..(........................)..)......)).....).)......
.....(.(....(..(..(.(.(..(........................)..).).)..)).....).)......
.....(.(....(..(..(.(.(..(........(.....).........)..).).)..)).....).)......
>U77364.1/4186-4260
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUACCCACAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
......................(..(.......................)..)......................
............(..(......(..(.......................)..)......).).............
.....(.(....(..(......(..(.......................)..)......).)....).)......
.....(.(....(..(..(.(.(..(.......................)..).).)..).)....).)......
.....(.(....(..(..(.(.(..(........(....).........)..).).)..).)....).)......
>AY866144.1/478-552
CUAUAUAUACCCUGUAGAACCGAAUUUGUGUGGUAUCCAUAUAGUCACAGAUUCGAUUCUAGGGGAAUAUAUGGU
......................(..(.......................)..)......................
............(..(......(..(.......................)..)......).).............
.....(.(....(..(......(..(.......................)..)......).)....).)......
.....(.(....(..(..(.(.(..(.......................)..).).)..).)....).)......
.....(.(....(..(..(.(.(..(........(....).........)..).).)..).)....).)......
>AC095014.1/143527-143452
CCACGUCUACCCUGUAGAUCCGAAUUUGUUUUAUACUAGCUUUAAGGACAAAUUCGGUUCUAGAGAGGUUUGUGUG
......................(..(........................)..)......................
............(..(......(..(........................)..)......)..)............
.......(.(..(..(......(..(........................)..)......)..)...).)......
>Z36753.2/18689-18616
GCUCGUCUACCCUGUAGAUCGAGCUGUGUGUUUGAAACAAUCAUACACGAGCUAGACUACAAGGUGCACGAACA
........................(..(...................).)........................
............(..(........(..(...................).).......)..).............
.......(.(..(..(........(..(...................).).......)..)..).)........
>U92575.1/1530-1608
CUAUAUCUACCCUGUAGAUCCGGAUUUGUGUAAAAAUCAUUAAAGCAAUCACAAAUUCGCUUCUAGGGGAGUAUAUAGU
................(....(...................................).)...................
............(..((....(...................................).)...))..............
>AL645798.2/23515-23586
CUAUAUAUACCCUGUAGAUCCGAAUUUGUGUGAAUAUACAGUCGCAAAUUCGUGUCUUGGGGAAUAUGUAGU
......................(..(....................)..)......................
............(..(...........(...(..........).)...........).).............
>Z68760.4/2906-2832
GUCCGUCUACCCGUAGCUCCUAUCCAUGUUACUGGUCAAAAAGUGAACAUGGAAGCAGGUACAGGUGCACGGCGA
....................(...(.........................)..).....................
...........(..(.....(...(.........................)..).....)..)............
>AF480571.1/6-77
UGGCAUAAACCCGUAGAUCCGAUCUUGUGGUGAAGUGGACCGCACAAGCUCGCUUCUAUGGGUCUGUGUCAG
.......................(....(................).)........................
>AC122451.3/49344-49273
UGACAUAAACCCGUAGAUCCGAUCUUGUGGUGAAGUGGACCGCGCAAGCUCGUUUCUAUGGGUCUGUGGCAG
.......................(....(................).)........................

ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio
1 (.RU.().R.) < 0.001 9.9
AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
2 Y(GU(R)) < 0.001 26.1
AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
3 (A()U) < 0.001 3.55
AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
4 (C()N) < 0.001 5.24
AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
5 A(C(C)) < 0.001 3.5
AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
6 (.N.) < 0.001 1.32
AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio

NCM p-value NCM frequency
(per structure per nucleotide) 		Means
ratio
1 (.RU.().R.) < 0.001 9.9
AY866066.1/468-537
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
UGCCACAAACCCGUAGAUCCGAACUUGUGGUGUUAAUGUGCACAAGCUUGUGUCUAUAGGUAUGUGUCUG
.........1.........2.........3.........4.........5.........6.........7
1234567890123456789012345678901234567890123456789012345678901234567890
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).