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)

Iron response element II   (Rfam: RF02253)

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
(.AGNGN.)
(UC()A)
(N()N)
((A)A)N
((Y)UN)N
100.0
100.0
100.0
89.7
93.1

% of positive sequence with ORB





Deep neural network:

5-fold cross-validation: 99.9 %
(± 0.101 %)
Decision tree:

5-fold cross-validation: 98.3 %
(± 3.33 %)
D-ORB structure
D-ORB structure decision tree:

5-fold cross-validation: 98.3 %
(± 3.35 %)
of AAVX01293942.1/615-585
AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
(.(.((..((..(......)..)).)).).)
.........1.........2.........3.
1234567890123456789012345678901

abstract shape: ()

Number of sequences
Structure ORBs (out of 29) (%)
1 (.AGNGN.)
 29 100.0
>CT030428.1/3683-3713
UAUUUAUCAGUGACAGCGAUCACUAUAAAUG
............(......)...........
>ABQO010331002.1/2885-2915
ACAUUAUCGGAAGCAGUGUCUUCCAUAAUGA
............(......)...........
>BC108025.1/2966-2996
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUG
............(......)...........
>AAWZ02031527.1/19065-19095
CCGACUUCAGCUACAGUGCUAGCUAAGUUUG
............(......)...........
>ABRT010089884.1/134-104
CCGACUUCAGCUACAGUGUUGGCUAAGUUUG
............(......)...........
>DQ496099.1/33480-33510
ACAUUAUCGGGAGCAGUGUCUUCCAUAAUGU
............(......)...........
>ABJB010839612.1/1641-1672
AUGCAAUCCUCGGCAGUGUCCUGAGACUGCGU
.............(.....)............
>CAAB02011656.1/4642-4612
UCAUUAUCGGGAGCAGUGUCUCCCAUAAUGU
............(......)...........
>AANH01009495.1/10595-10625
ACGUUAUCGGGAGCAGUGUCUCCCAUAAUGC
............(......)...........
>DQ496099.1/33076-33106
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUA
............(......)...........
>AF428141.1/386-416
ACUUCAUCUUUGUCAGUGCACAAAAUGGCGC
............(......)...........
>AAEX03017890.1/298469-298439
CCGACUUCAGCUACAGUGUUAGCUAAGUUAG
............(......)...........
>ABQF01023485.1/2300-2270
UAAUUAUCGGGGACAGUGUUUCCCAUAAUUG
............(......)...........
>U87926.1/193-223
ACCUCAUCUUUGUCAGUGCACAAAAUGGCGC
............(......)...........
>CAAE01012432.1/1092-1062
CCAUUAUCGGGAGCAGUGUCUUCCAUAAUGA
............(......)...........
>AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
............(......)...........
>AC096777.1/125476-125507
GUACAAUCCUCGGCAGUGUCCUGAGACUGUAU
.............(.....)............
>AAPN01033802.1/214-244
GGAUUAUCGGAAGCAGUGACUUCCAUAAUUU
............(......)...........
>BAAF04049161.1/677-707
ACGUUAUCGGAAGCAGUGCCUUCCAUAAUUA
............(......)...........
>DQ065759.1/122-152
CCAACUUCAGCUACAGUGUUAGCUAAGUUUG
............(......)...........
>DQ496099.1/33026-33056
UAUUUAUCAGUGACAGAGUUCACUAUAAAUG
............(......)...........
>AAPY01264792.1/6848-6818
UAAUUAUCGGGAACAGCGCUUCCCAUAAUUU
............(......)...........
>ABPK01066404.1/64-34
UUUUUAUCGGGAGCAGUGCCUUCCAUAAUAA
............(......)...........
>BC002592.2/1805-1836
UAGCCAUCAGAGCCAGUGUGUUUCUAUGGUUU
.............(.....)............
>BT072252.1/999-1029
UAAUUAUCGGGAGCAGUGUCUUCCAUAAUUA
............(......)...........
>AAFR03033680.1/6556-6526
UAAUUAUCGGGGACAGCGUUUCCCAUAAUUU
............(......)...........
>DQ496099.1/33592-33622
UAAUUAUCGGGAACAGUGUUUCCCAUAAUUU
............(......)...........
>AJ851647.1/104-134
CCGACUUCAGCUACAGUGCUAGCUAAGUCGG
............(......)...........
>AANN01734046.1/1792-1822
UGAUUAUCGGGGGCAGUGUCUCCCAUAAUCC
............(......)...........
2 (.AGNGN.)
(UC()A)
 26 89.7
>U87926.1/193-223
ACCUCAUCUUUGUCAGUGCACAAAAUGGCGC
.....(..(...(......)...).).....
>AF428141.1/386-416
ACUUCAUCUUUGUCAGUGCACAAAAUGGCGC
.....(..(...(......)...).).....
>DQ496099.1/33026-33056
UAUUUAUCAGUGACAGAGUUCACUAUAAAUG
.....(..(...(......)...).).....
>DQ496099.1/33480-33510
ACAUUAUCGGGAGCAGUGUCUUCCAUAAUGU
.....(..(...(......)...).).....
>DQ496099.1/33592-33622
UAAUUAUCGGGAACAGUGUUUCCCAUAAUUU
.....(..(...(......)...).).....
>AAEX03017890.1/298469-298439
CCGACUUCAGCUACAGUGUUAGCUAAGUUAG
.....(..(...(......)...).).....
>AAFR03033680.1/6556-6526
UAAUUAUCGGGGACAGCGUUUCCCAUAAUUU
.....(..(...(......)...).).....
>ABQF01023485.1/2300-2270
UAAUUAUCGGGGACAGUGUUUCCCAUAAUUG
.....(..(...(......)...).).....
>AAPY01264792.1/6848-6818
UAAUUAUCGGGAACAGCGCUUCCCAUAAUUU
.....(..(...(......)...).).....
>AAWZ02031527.1/19065-19095
CCGACUUCAGCUACAGUGCUAGCUAAGUUUG
.....(..(...(......)...).).....
>BC108025.1/2966-2996
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUG
.....(..(...(......)...).).....
>ABRT010089884.1/134-104
CCGACUUCAGCUACAGUGUUGGCUAAGUUUG
.....(..(...(......)...).).....
>BAAF04049161.1/677-707
ACGUUAUCGGAAGCAGUGCCUUCCAUAAUUA
.....(..(...(......)...).).....
>AANH01009495.1/10595-10625
ACGUUAUCGGGAGCAGUGUCUCCCAUAAUGC
.....(..(...(......)...).).....
>CAAB02011656.1/4642-4612
UCAUUAUCGGGAGCAGUGUCUCCCAUAAUGU
.....(..(...(......)...).).....
>DQ496099.1/33076-33106
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUA
.....(..(...(......)...).).....
>ABQO010331002.1/2885-2915
ACAUUAUCGGAAGCAGUGUCUUCCAUAAUGA
.....(..(...(......)...).).....
>DQ065759.1/122-152
CCAACUUCAGCUACAGUGUUAGCUAAGUUUG
.....(..(...(......)...).).....
>ABPK01066404.1/64-34
UUUUUAUCGGGAGCAGUGCCUUCCAUAAUAA
.....(..(...(......)...).).....
>CT030428.1/3683-3713
UAUUUAUCAGUGACAGCGAUCACUAUAAAUG
.....(..(...(......)...).).....
>BT072252.1/999-1029
UAAUUAUCGGGAGCAGUGUCUUCCAUAAUUA
.....(..(...(......)...).).....
>AAPN01033802.1/214-244
GGAUUAUCGGAAGCAGUGACUUCCAUAAUUU
.....(..(...(......)...).).....
>AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
.....(..(...(......)...).).....
>CAAE01012432.1/1092-1062
CCAUUAUCGGGAGCAGUGUCUUCCAUAAUGA
.....(..(...(......)...).).....
>AANN01734046.1/1792-1822
UGAUUAUCGGGGGCAGUGUCUCCCAUAAUCC
.....(..(...(......)...).).....
>AJ851647.1/104-134
CCGACUUCAGCUACAGUGCUAGCUAAGUCGG
.....(..(...(......)...).).....
3 (.AGNGN.)
(UC()A)
(N()N)
 26 89.7
>ABQF01023485.1/2300-2270
UAAUUAUCGGGGACAGUGUUUCCCAUAAUUG
(.(..(..(...(......)...).)..).)
>ABQO010331002.1/2885-2915
ACAUUAUCGGAAGCAGUGUCUUCCAUAAUGA
(.(..(..(...(......)...).)..).)
>BAAF04049161.1/677-707
ACGUUAUCGGAAGCAGUGCCUUCCAUAAUUA
(.(..(..(...(......)...).)..).)
>AAEX03017890.1/298469-298439
CCGACUUCAGCUACAGUGUUAGCUAAGUUAG
(.(..(..(...(......)...).)..).)
>DQ496099.1/33026-33056
UAUUUAUCAGUGACAGAGUUCACUAUAAAUG
(.(..(..(...(......)...).)..).)
>U87926.1/193-223
ACCUCAUCUUUGUCAGUGCACAAAAUGGCGC
(.(..(..(...(......)...).)..).)
>BT072252.1/999-1029
UAAUUAUCGGGAGCAGUGUCUUCCAUAAUUA
(.(..(..(...(......)...).)..).)
>ABPK01066404.1/64-34
UUUUUAUCGGGAGCAGUGCCUUCCAUAAUAA
(.(..(..(...(......)...).)..).)
>DQ496099.1/33480-33510
ACAUUAUCGGGAGCAGUGUCUUCCAUAAUGU
(.(..(..(...(......)...).)..).)
>AAFR03033680.1/6556-6526
UAAUUAUCGGGGACAGCGUUUCCCAUAAUUU
(.(..(..(...(......)...).)..).)
>AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
(.(..(..(...(......)...).)..).)
>DQ065759.1/122-152
CCAACUUCAGCUACAGUGUUAGCUAAGUUUG
(.(..(..(...(......)...).)..).)
>ABRT010089884.1/134-104
CCGACUUCAGCUACAGUGUUGGCUAAGUUUG
(.(..(..(...(......)...).)..).)
>BC108025.1/2966-2996
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUG
(.(..(..(...(......)...).)..).)
>CAAB02011656.1/4642-4612
UCAUUAUCGGGAGCAGUGUCUCCCAUAAUGU
(.(..(..(...(......)...).)..).)
>AANN01734046.1/1792-1822
UGAUUAUCGGGGGCAGUGUCUCCCAUAAUCC
(.(..(..(...(......)...).)..).)
>DQ496099.1/33592-33622
UAAUUAUCGGGAACAGUGUUUCCCAUAAUUU
(.(..(..(...(......)...).)..).)
>AF428141.1/386-416
ACUUCAUCUUUGUCAGUGCACAAAAUGGCGC
(.(..(..(...(......)...).)..).)
>AJ851647.1/104-134
CCGACUUCAGCUACAGUGCUAGCUAAGUCGG
(.(..(..(...(......)...).)..).)
>AAPY01264792.1/6848-6818
UAAUUAUCGGGAACAGCGCUUCCCAUAAUUU
(.(..(..(...(......)...).)..).)
>AAWZ02031527.1/19065-19095
CCGACUUCAGCUACAGUGCUAGCUAAGUUUG
(.(..(..(...(......)...).)..).)
>CT030428.1/3683-3713
UAUUUAUCAGUGACAGCGAUCACUAUAAAUG
(.(..(..(...(......)...).)..).)
>AAPN01033802.1/214-244
GGAUUAUCGGAAGCAGUGACUUCCAUAAUUU
(.(..(..(...(......)...).)..).)
>AANH01009495.1/10595-10625
ACGUUAUCGGGAGCAGUGUCUCCCAUAAUGC
(.(..(..(...(......)...).)..).)
>DQ496099.1/33076-33106
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUA
(.(..(..(...(......)...).)..).)
>CAAE01012432.1/1092-1062
CCAUUAUCGGGAGCAGUGUCUUCCAUAAUGA
(.(..(..(...(......)...).)..).)
4 (.AGNGN.)
(UC()A)
(N()N)
((A)A)N
 19 65.5
>CAAE01012432.1/1092-1062
CCAUUAUCGGGAGCAGUGUCUUCCAUAAUGA
(.(.((..(...(......)...).)).).)
>AAPN01033802.1/214-244
GGAUUAUCGGAAGCAGUGACUUCCAUAAUUU
(.(.((..(...(......)...).)).).)
>DQ496099.1/33076-33106
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUA
(.(.((..(...(......)...).)).).)
>AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
(.(.((..(...(......)...).)).).)
>BAAF04049161.1/677-707
ACGUUAUCGGAAGCAGUGCCUUCCAUAAUUA
(.(.((..(...(......)...).)).).)
>AANN01734046.1/1792-1822
UGAUUAUCGGGGGCAGUGUCUCCCAUAAUCC
(.(.((..(...(......)...).)).).)
>AAFR03033680.1/6556-6526
UAAUUAUCGGGGACAGCGUUUCCCAUAAUUU
(.(.((..(...(......)...).)).).)
>BC108025.1/2966-2996
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUG
(.(.((..(...(......)...).)).).)
>AANH01009495.1/10595-10625
ACGUUAUCGGGAGCAGUGUCUCCCAUAAUGC
(.(.((..(...(......)...).)).).)
>BT072252.1/999-1029
UAAUUAUCGGGAGCAGUGUCUUCCAUAAUUA
(.(.((..(...(......)...).)).).)
>DQ496099.1/33026-33056
UAUUUAUCAGUGACAGAGUUCACUAUAAAUG
(.(.((..(...(......)...).)).).)
>ABQF01023485.1/2300-2270
UAAUUAUCGGGGACAGUGUUUCCCAUAAUUG
(.(.((..(...(......)...).)).).)
>DQ496099.1/33480-33510
ACAUUAUCGGGAGCAGUGUCUUCCAUAAUGU
(.(.((..(...(......)...).)).).)
>CT030428.1/3683-3713
UAUUUAUCAGUGACAGCGAUCACUAUAAAUG
(.(.((..(...(......)...).)).).)
>ABQO010331002.1/2885-2915
ACAUUAUCGGAAGCAGUGUCUUCCAUAAUGA
(.(.((..(...(......)...).)).).)
>AAPY01264792.1/6848-6818
UAAUUAUCGGGAACAGCGCUUCCCAUAAUUU
(.(.((..(...(......)...).)).).)
>CAAB02011656.1/4642-4612
UCAUUAUCGGGAGCAGUGUCUCCCAUAAUGU
(.(.((..(...(......)...).)).).)
>ABPK01066404.1/64-34
UUUUUAUCGGGAGCAGUGCCUUCCAUAAUAA
(.(.((..(...(......)...).)).).)
>DQ496099.1/33592-33622
UAAUUAUCGGGAACAGUGUUUCCCAUAAUUU
(.(.((..(...(......)...).)).).)
5 (.AGNGN.)
(UC()A)
(N()N)
((A)A)N
((Y)UN)N
 13 44.8
>AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
(.(.((..((..(......)..)).)).).)
>ABPK01066404.1/64-34
UUUUUAUCGGGAGCAGUGCCUUCCAUAAUAA
(.(.((..((..(......)..)).)).).)
>BAAF04049161.1/677-707
ACGUUAUCGGAAGCAGUGCCUUCCAUAAUUA
(.(.((..((..(......)..)).)).).)
>CAAE01012432.1/1092-1062
CCAUUAUCGGGAGCAGUGUCUUCCAUAAUGA
(.(.((..((..(......)..)).)).).)
>ABQO010331002.1/2885-2915
ACAUUAUCGGAAGCAGUGUCUUCCAUAAUGA
(.(.((..((..(......)..)).)).).)
>CAAB02011656.1/4642-4612
UCAUUAUCGGGAGCAGUGUCUCCCAUAAUGU
(.(.((..((..(......)..)).)).).)
>BT072252.1/999-1029
UAAUUAUCGGGAGCAGUGUCUUCCAUAAUUA
(.(.((..((..(......)..)).)).).)
>AANN01734046.1/1792-1822
UGAUUAUCGGGGGCAGUGUCUCCCAUAAUCC
(.(.((..((..(......)..)).)).).)
>BC108025.1/2966-2996
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUG
(.(.((..((..(......)..)).)).).)
>AAPN01033802.1/214-244
GGAUUAUCGGAAGCAGUGACUUCCAUAAUUU
(.(.((..((..(......)..)).)).).)
>DQ496099.1/33076-33106
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUA
(.(.((..((..(......)..)).)).).)
>AANH01009495.1/10595-10625
ACGUUAUCGGGAGCAGUGUCUCCCAUAAUGC
(.(.((..((..(......)..)).)).).)
>DQ496099.1/33480-33510
ACAUUAUCGGGAGCAGUGUCUUCCAUAAUGU
(.(.((..((..(......)..)).)).).)

>ABQO010331002.1/2885-2915
ACAUUAUCGGAAGCAGUGUCUUCCAUAAUGA
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>BC108025.1/2966-2996
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>DQ496099.1/33480-33510
ACAUUAUCGGGAGCAGUGUCUUCCAUAAUGU
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>CAAB02011656.1/4642-4612
UCAUUAUCGGGAGCAGUGUCUCCCAUAAUGU
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>AANH01009495.1/10595-10625
ACGUUAUCGGGAGCAGUGUCUCCCAUAAUGC
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>DQ496099.1/33076-33106
UAAUUAUCGGAAGCAGUGCCUUCCAUAAUUA
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>CAAE01012432.1/1092-1062
CCAUUAUCGGGAGCAGUGUCUUCCAUAAUGA
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>AAPN01033802.1/214-244
GGAUUAUCGGAAGCAGUGACUUCCAUAAUUU
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>BAAF04049161.1/677-707
ACGUUAUCGGAAGCAGUGCCUUCCAUAAUUA
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>ABPK01066404.1/64-34
UUUUUAUCGGGAGCAGUGCCUUCCAUAAUAA
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>BT072252.1/999-1029
UAAUUAUCGGGAGCAGUGUCUUCCAUAAUUA
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>AANN01734046.1/1792-1822
UGAUUAUCGGGGGCAGUGUCUCCCAUAAUCC
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
(.(.((..((..(......)..)).)).).)
>CT030428.1/3683-3713
UAUUUAUCAGUGACAGCGAUCACUAUAAAUG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
>ABQF01023485.1/2300-2270
UAAUUAUCGGGGACAGUGUUUCCCAUAAUUG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
>DQ496099.1/33026-33056
UAUUUAUCAGUGACAGAGUUCACUAUAAAUG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
>AAPY01264792.1/6848-6818
UAAUUAUCGGGAACAGCGCUUCCCAUAAUUU
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
>AAFR03033680.1/6556-6526
UAAUUAUCGGGGACAGCGUUUCCCAUAAUUU
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
>DQ496099.1/33592-33622
UAAUUAUCGGGAACAGUGUUUCCCAUAAUUU
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
(.(.((..(...(......)...).)).).)
>AAWZ02031527.1/19065-19095
CCGACUUCAGCUACAGUGCUAGCUAAGUUUG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
>ABRT010089884.1/134-104
CCGACUUCAGCUACAGUGUUGGCUAAGUUUG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
>AF428141.1/386-416
ACUUCAUCUUUGUCAGUGCACAAAAUGGCGC
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
>AAEX03017890.1/298469-298439
CCGACUUCAGCUACAGUGUUAGCUAAGUUAG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
>U87926.1/193-223
ACCUCAUCUUUGUCAGUGCACAAAAUGGCGC
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
>DQ065759.1/122-152
CCAACUUCAGCUACAGUGUUAGCUAAGUUUG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
>AJ851647.1/104-134
CCGACUUCAGCUACAGUGCUAGCUAAGUCGG
............(......)...........
.....(..(...(......)...).).....
(.(..(..(...(......)...).)..).)
>ABJB010839612.1/1641-1672
AUGCAAUCCUCGGCAGUGUCCUGAGACUGCGU
.............(.....)............
>AC096777.1/125476-125507
GUACAAUCCUCGGCAGUGUCCUGAGACUGUAU
.............(.....)............
>BC002592.2/1805-1836
UAGCCAUCAGAGCCAGUGUGUUUCUAUGGUUU
.............(.....)............

ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio
1 (.AGNGN.) < 0.001 113
AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
.........1.........2.........3.
1234567890123456789012345678901
2 (UC()A) < 0.001 252
AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
.........1.........2.........3.
1234567890123456789012345678901
3 (N()N) < 0.001 7.38
AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
.........1.........2.........3.
1234567890123456789012345678901
4 ((A)A)N < 0.001 3.33
AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
.........1.........2.........3.
1234567890123456789012345678901
5 ((Y)UN)N < 0.001 4.03
AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
.........1.........2.........3.
1234567890123456789012345678901
ORB p-value ORB frequency
(per structure per nucleotide) 		Means
ratio

NCM p-value NCM frequency
(per structure per nucleotide) 		Means
ratio
1 (.AGNGN.) < 0.001 113
AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
.........1.........2.........3.
1234567890123456789012345678901
2 (NYC()) < 0.001 3.32
AAVX01293942.1/615-585
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
AAGUUAUCGGGAACAGAGAUUCCCAUAAUUU
.........1.........2.........3.
1234567890123456789012345678901
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).