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-17 microRNA precursor family   (Rfam: RF00051)

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(R(U))
C(A(R))
(A()NN)
(.UNNNN.)
((N)CU)A
(U()U)
N(Y(A))
100.0
100.0
100.0
100.0
100.0
100.0
100.0
G(R(U))
C(A(R))
(.UNNNN.)

% of positive sequence with ORB





Deep neural network:

5-fold cross-validation: 99.8 %
(± 0.0731 %)
Decision tree:

5-fold cross-validation: 95.4 %
(± 6.67 %)
D-ORB structure
D-ORB structure decision tree:

5-fold cross-validation: 96.6 %
(± 6.64 %)
of AY866359.1/938-1020
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
(((.((.((((((.(((((((((((((((.(.(((..(.......)))..)).)))))))))))))))..)))))))).))).
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123

abstract shape: ()

Number of sequences
Structure ORBs (out of 16) (%)
1 G(R(U))
 16 100.0
>CR390304.1/91-169
CUCUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUCACUAAUCUACUGCAUUAUAAGCACUUAAAGUACUGCUAG
..............................(.(...............)).............................
>AY866365.1/502-582
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGCAAGCACUUCUUACAUUACCAUGG
..............................(.(...............))...............................
>AF480549.1/1-81
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGUAAGCACUUCUUACAUUACCAUGG
..............................(.(...............))...............................
>AY866311.1/905-983
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
..............................(.(...............)).............................
>AY866341.1/221-303
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
..............................(.(................).)...............................
>AY866316.1/888-966
CUUUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
..............................(.(...............)).............................
>AY866310.1/634-712
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUCAUGAGCACUUAAAGUACUGCUAG
..............................(.(...............)).............................
>AY866334.1/211-294
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
..............................(.(................)..)...............................
>AY866339.1/221-304
CCCUGCUGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
..............................(.(................)..)...............................
>AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
>AY866360.1/935-1017
UCCUAGCAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
>AY866362.1/366-448
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUUACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
>AY866363.1/941-1023
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
>AY866365.1/896-978
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUAUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
>AY866313.1/472-553
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUACGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
..............................(.(................))...............................
>AY866316.1/431-512
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUAUGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
..............................(.(................))...............................
2 G(R(U))
C(A(R))
 16 100.0
>AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
............................(.(.(.................)).).............................
>AY866341.1/221-303
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
............................(.(.(................).).).............................
>CR390304.1/91-169
CUCUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUCACUAAUCUACUGCAUUAUAAGCACUUAAAGUACUGCUAG
............................(.(.(...............)).)...........................
>AY866362.1/366-448
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUUACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............................(.(.(.................)).).............................
>AY866310.1/634-712
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUCAUGAGCACUUAAAGUACUGCUAG
............................(.(.(...............)).)...........................
>AY866334.1/211-294
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
............................(.(.(................)..).).............................
>AY866316.1/431-512
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUAUGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
............................(.(.(................)).).............................
>AY866365.1/502-582
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGCAAGCACUUCUUACAUUACCAUGG
............................(.(.(...............)).).............................
>AY866339.1/221-304
CCCUGCUGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
............................(.(.(................)..).).............................
>AY866365.1/896-978
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUAUGGGCACUUCCAGUACUCUUGGAU
............................(.(.(.................)).).............................
>AY866311.1/905-983
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
............................(.(.(...............)).)...........................
>AF480549.1/1-81
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGUAAGCACUUCUUACAUUACCAUGG
............................(.(.(...............)).).............................
>AY866360.1/935-1017
UCCUAGCAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............................(.(.(.................)).).............................
>AY866316.1/888-966
CUUUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
............................(.(.(...............)).)...........................
>AY866313.1/472-553
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUACGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
............................(.(.(................)).).............................
>AY866363.1/941-1023
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............................(.(.(.................)).).............................
3 G(R(U))
C(A(R))
(A()NN)
 16 100.0
>AY866365.1/896-978
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUAUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(.................)).).............)..)............
>AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(.................)).).............)..)............
>AY866311.1/905-983
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
............(.(.............(.(.(...............)).).............)..)..........
>AY866316.1/888-966
CUUUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
............(.(.............(.(.(...............)).).............)..)..........
>AY866360.1/935-1017
UCCUAGCAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(.................)).).............)..)............
>AY866362.1/366-448
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUUACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(.................)).).............)..)............
>AY866310.1/634-712
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUCAUGAGCACUUAAAGUACUGCUAG
............(.(.............(.(.(...............)).).............)..)..........
>AY866316.1/431-512
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUAUGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
............(.(.............(.(.(................)).).............)..)............
>AY866339.1/221-304
CCCUGCUGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
............(.(.............(.(.(................)..).).............)..)............
>AY866341.1/221-303
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
............(.(.............(.(.(................).).).............)..)............
>CR390304.1/91-169
CUCUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUCACUAAUCUACUGCAUUAUAAGCACUUAAAGUACUGCUAG
............(.(.............(.(.(...............)).).............)..)..........
>AF480549.1/1-81
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGUAAGCACUUCUUACAUUACCAUGG
............(.(.............(.(.(...............)).).............)..)............
>AY866334.1/211-294
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
............(.(.............(.(.(................)..).).............)..)............
>AY866365.1/502-582
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGCAAGCACUUCUUACAUUACCAUGG
............(.(.............(.(.(...............)).).............)..)............
>AY866313.1/472-553
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUACGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
............(.(.............(.(.(................)).).............)..)............
>AY866363.1/941-1023
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(.................)).).............)..)............
4 G(R(U))
C(A(R))
(A()NN)
(.UNNNN.)
 15 93.8
>AY866365.1/502-582
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGCAAGCACUUCUUACAUUACCAUGG
............(.(.............(.(.(....(.....)....)).).............)..)............
>AY866365.1/896-978
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUAUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(....(.......)....)).).............)..)............
>CR390304.1/91-169
CUCUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUCACUAAUCUACUGCAUUAUAAGCACUUAAAGUACUGCUAG
............(.(.............(.(.(....(.....)....)).).............)..)..........
>AY866311.1/905-983
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
............(.(.............(.(.(....(.....)....)).).............)..)..........
>AF480549.1/1-81
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGUAAGCACUUCUUACAUUACCAUGG
............(.(.............(.(.(....(.....)....)).).............)..)............
>AY866339.1/221-304
CCCUGCUGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
............(.(.............(.(.(....(......)....)..).).............)..)............
>AY866360.1/935-1017
UCCUAGCAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(....(.......)....)).).............)..)............
>AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(....(.......)....)).).............)..)............
>AY866310.1/634-712
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUCAUGAGCACUUAAAGUACUGCUAG
............(.(.............(.(.(....(.....)....)).).............)..)..........
>AY866334.1/211-294
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
............(.(.............(.(.(....(......)....)..).).............)..)............
>AY866316.1/431-512
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUAUGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
............(.(.............(.(.(....(......)....)).).............)..)............
>AY866362.1/366-448
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUUACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(....(.......)....)).).............)..)............
>AY866316.1/888-966
CUUUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
............(.(.............(.(.(....(.....)....)).).............)..)..........
>AY866313.1/472-553
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUACGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
............(.(.............(.(.(....(......)....)).).............)..)............
>AY866363.1/941-1023
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.(....(.......)....)).).............)..)............
5 G(R(U))
C(A(R))
(A()NN)
(.UNNNN.)
((N)CU)A
 11 68.8
>AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.((...(.......).)..)).).............)..)............
>AY866362.1/366-448
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUUACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.((...(.......).)..)).).............)..)............
>AY866316.1/888-966
CUUUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
............(.(.............(.(.((...(.....).)..)).).............)..)..........
>AF480549.1/1-81
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGUAAGCACUUCUUACAUUACCAUGG
............(.(.............(.(.((...(.....).)..)).).............)..)............
>AY866360.1/935-1017
UCCUAGCAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.((...(.......).)..)).).............)..)............
>AY866365.1/896-978
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUAUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.((...(.......).)..)).).............)..)............
>AY866316.1/431-512
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUAUGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
............(.(.............(.(.((...(......).)..)).).............)..)............
>AY866313.1/472-553
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUACGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
............(.(.............(.(.((...(......).)..)).).............)..)............
>AY866363.1/941-1023
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
............(.(.............(.(.((...(.......).)..)).).............)..)............
>AY866365.1/502-582
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGCAAGCACUUCUUACAUUACCAUGG
............(.(.............(.(.((...(.....).)..)).).............)..)............
>CR390304.1/91-169
CUCUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUCACUAAUCUACUGCAUUAUAAGCACUUAAAGUACUGCUAG
............(.(.............(.(.((...(.....).)..)).).............)..)..........
6 G(R(U))
C(A(R))
(A()NN)
(.UNNNN.)
((N)CU)A
(U()U)
 9 56.2
>AY866316.1/888-966
CUUUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
...(.(......(.(.............(.(.((...(.....).)..)).).............)..)......).).
>AY866365.1/502-582
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGCAAGCACUUCUUACAUUACCAUGG
.(.(........(.(.............(.(.((...(.....).)..)).).............)..)........).).
>CR390304.1/91-169
CUCUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUCACUAAUCUACUGCAUUAUAAGCACUUAAAGUACUGCUAG
...(.(......(.(.............(.(.((...(.....).)..)).).............)..)......).).
>AY866363.1/941-1023
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
>AY866362.1/366-448
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUUACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
>AY866360.1/935-1017
UCCUAGCAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
>AY866365.1/896-978
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUAUGGGCACUUCCAGUACUCUUGGAU
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
>AF480549.1/1-81
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGUAAGCACUUCUUACAUUACCAUGG
.(.(........(.(.............(.(.((...(.....).)..)).).............)..)........).).
>AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
7 G(R(U))
C(A(R))
(A()NN)
(.UNNNN.)
((N)CU)A
(U()U)
N(Y(A))
 7 43.8
>AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>AY866363.1/941-1023
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>AY866360.1/935-1017
UCCUAGCAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>AF480549.1/1-81
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGUAAGCACUUCUUACAUUACCAUGG
.(.(..(.(...(.(.............(.(.((...(.....).)..)).).............)..)...).)..).).
>AY866365.1/896-978
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUAUGGGCACUUCCAGUACUCUUGGAU
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>AY866365.1/502-582
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGCAAGCACUUCUUACAUUACCAUGG
.(.(..(.(...(.(.............(.(.((...(.....).)..)).).............)..)...).)..).).
>AY866362.1/366-448
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUUACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...

>AY866365.1/502-582
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGCAAGCACUUCUUACAUUACCAUGG
..............................(.(...............))...............................
............................(.(.(...............)).).............................
............(.(.............(.(.(...............)).).............)..)............
............(.(.............(.(.(....(.....)....)).).............)..)............
............(.(.............(.(.((...(.....).)..)).).............)..)............
.(.(........(.(.............(.(.((...(.....).)..)).).............)..)........).).
.(.(..(.(...(.(.............(.(.((...(.....).)..)).).............)..)...).)..).).
>AF480549.1/1-81
CCUUGGCCAUGUAAAAGUGCUUACAGUGCAGGUAGCUUUUUGAGAUCUACUGCAAUGUAAGCACUUCUUACAUUACCAUGG
..............................(.(...............))...............................
............................(.(.(...............)).).............................
............(.(.............(.(.(...............)).).............)..)............
............(.(.............(.(.(....(.....)....)).).............)..)............
............(.(.............(.(.((...(.....).)..)).).............)..)............
.(.(........(.(.............(.(.((...(.....).)..)).).............)..)........).).
.(.(..(.(...(.(.............(.(.((...(.....).)..)).).............)..)...).)..).).
>AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
............................(.(.(.................)).).............................
............(.(.............(.(.(.................)).).............)..)............
............(.(.............(.(.(....(.......)....)).).............)..)............
............(.(.............(.(.((...(.......).)..)).).............)..)............
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>AY866360.1/935-1017
UCCUAGCAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
............................(.(.(.................)).).............................
............(.(.............(.(.(.................)).).............)..)............
............(.(.............(.(.(....(.......)....)).).............)..)............
............(.(.............(.(.((...(.......).)..)).).............)..)............
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>AY866362.1/366-448
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUUACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
............................(.(.(.................)).).............................
............(.(.............(.(.(.................)).).............)..)............
............(.(.............(.(.(....(.......)....)).).............)..)............
............(.(.............(.(.((...(.......).)..)).).............)..)............
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>AY866363.1/941-1023
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUGUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
............................(.(.(.................)).).............................
............(.(.............(.(.(.................)).).............)..)............
............(.(.............(.(.(....(.......)....)).).............)..)............
............(.(.............(.(.((...(.......).)..)).).............)..)............
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>AY866365.1/896-978
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAGUAUGGGCACUUCCAGUACUCUUGGAU
..............................(.(................).)...............................
............................(.(.(.................)).).............................
............(.(.............(.(.(.................)).).............)..)............
............(.(.............(.(.(....(.......)....)).).............)..)............
............(.(.............(.(.((...(.......).)..)).).............)..)............
..(.(.......(.(.............(.(.((...(.......).)..)).).............)..)......).)...
..(.((.(....(.(.............(.(.((...(.......).)..)).).............)..)....))).)...
>CR390304.1/91-169
CUCUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUCACUAAUCUACUGCAUUAUAAGCACUUAAAGUACUGCUAG
..............................(.(...............)).............................
............................(.(.(...............)).)...........................
............(.(.............(.(.(...............)).).............)..)..........
............(.(.............(.(.(....(.....)....)).).............)..)..........
............(.(.............(.(.((...(.....).)..)).).............)..)..........
...(.(......(.(.............(.(.((...(.....).)..)).).............)..)......).).
>AY866316.1/888-966
CUUUUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
..............................(.(...............)).............................
............................(.(.(...............)).)...........................
............(.(.............(.(.(...............)).).............)..)..........
............(.(.............(.(.(....(.....)....)).).............)..)..........
............(.(.............(.(.((...(.....).)..)).).............)..)..........
...(.(......(.(.............(.(.((...(.....).)..)).).............)..)......).).
>AY866313.1/472-553
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUACGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
..............................(.(................))...............................
............................(.(.(................)).).............................
............(.(.............(.(.(................)).).............)..)............
............(.(.............(.(.(....(......)....)).).............)..)............
............(.(.............(.(.((...(......).)..)).).............)..)............
>AY866316.1/431-512
UCAGAAUAAUGUCAAAGUGCUUACAGUGCAGGUAGUGAUAUGUGCAUCUACUGCAGUGAAGGCACUUGUAGCAUUAUGGUGA
..............................(.(................))...............................
............................(.(.(................)).).............................
............(.(.............(.(.(................)).).............)..)............
............(.(.............(.(.(....(......)....)).).............)..)............
............(.(.............(.(.((...(......).)..)).).............)..)............
>AY866311.1/905-983
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUUAUGAGCACUUAAAGUACUGCUAG
..............................(.(...............)).............................
............................(.(.(...............)).)...........................
............(.(.............(.(.(...............)).).............)..)..........
............(.(.............(.(.(....(.....)....)).).............)..)..........
>AY866310.1/634-712
CUUCUGUAGCACUAAAGUGCUUAUAGUGCAGGUAGUGUUUAGUUAUCUACUGCAUCAUGAGCACUUAAAGUACUGCUAG
..............................(.(...............)).............................
............................(.(.(...............)).)...........................
............(.(.............(.(.(...............)).).............)..)..........
............(.(.............(.(.(....(.....)....)).).............)..)..........
>AY866334.1/211-294
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
..............................(.(................)..)...............................
............................(.(.(................)..).).............................
............(.(.............(.(.(................)..).).............)..)............
............(.(.............(.(.(....(......)....)..).).............)..)............
>AY866339.1/221-304
CCCUGCUGGGGCUAAAGUGCUGACAGUGCAGAUAGUGGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
..............................(.(................)..)...............................
............................(.(.(................)..).).............................
............(.(.............(.(.(................)..).).............)..)............
............(.(.............(.(.(....(......)....)..).).............)..)............
>AY866341.1/221-303
CCCUGCCGGGGCUAAAGUGCUGACAGUGCAGAUAGUGUCCUCUCCGUGCUACCGCACUGUGGGUACUUGCUGCUCCAGCAGGG
..............................(.(................).)...............................
............................(.(.(................).).).............................
............(.(.............(.(.(................).).).............)..)............

ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio
1 G(R(U)) < 0.001 10.1
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123
2 C(A(R)) < 0.001 5.49
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123
3 (A()NN) < 0.001 8.39
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123
4 ((N)CU)A < 0.001 5.12
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123
5 (.UNNNN.) < 0.001 3.98
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123
6 N(Y(A)) < 0.001 5.36
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123
7 (U()U) < 0.001 2.64
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123
ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio

NCM p-value NCM frequency
(per structure per nucleotide) 		Means
ratio
1 G(R(U)) < 0.001 10.1
AY866359.1/938-1020
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
UCCUAGUAGUACCAAAGUGCUCAUAGUGCAGGUAGUUUUGGCAUGACUCUACUGUAAUAUGGGCACUUCCAGUACUCUUGGAU
.........1.........2.........3.........4.........5.........6.........7.........8...
12345678901234567890123456789012345678901234567890123456789012345678901234567890123
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).