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)

XIST RNA A repeat (Rfam: RF02162)

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

(ANCG)
((U)NU)N
G(AYA)Y
((G)G)C
U(N(G))

98.1
100.0
96.2
86.5
100.0

(ANCG)
((U)NU)N

% of positive sequence with ORB

Job*

Email*

Sequence(s)*

Obtain

One structure matching the consensus structure ORBs
Several structures containing instances of most discriminative ORBs

Up to structures per sequence

Position offset nucleotides

Job*

Email*

Wildtype sequence*

Mutant sequences

All SNPs
Submit mutant sequences

Use the mutation generator

Deep neural network:

5-fold cross-validation: 99.9 %
(± 0.0763 %)

Decision tree:

5-fold cross-validation: 95.7 %
(± 3.22 %)

D-ORB structure

D-ORB structure decision tree:

5-fold cross-validation: 97.7 %
(± 2.35 %)

of FJ156095.1/1519-1484

FJ156095.1/1519-1484

UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU
(.((.(....)).))((((...))(((..))))..)
.........1.........2.........3......
123456789012345678901234567890123456

abstract shape: `()()`

					Number of sequences
	Structure	ORBs			(out of 52)	(%)
1		(ANCG)			51	98.1
>EU086094.1/497-529 UGGUCCAUCGGGACCUCGGAUACCUGCGUUUAG .....(....)...................... >L10730.1/44-76 UUGCCCAUCGGGGCCACGGAUACCUGUGUGUCC .....(....)...................... >M97168.1/608-642 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUUUUU .....(....)........................ >AF104906.5/650-686 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAAUUUUU .....(....).......................... >L10734.1/371-408 UUGCCCAUCGGGGCUGUGGAUACCUGCUUUAAAUUUUU .....(....)........................... >AF138745.1/1968-1936 AUGCCCAACGGGGCCUCGGAUACCUGCUGUUAU .....(....)...................... >AAIY01358820.1/951-987 UUGCCCAUCGGGGCCUCGGAUACCGGCUCUGAUUUUU .....(....).......................... >AANG01523518.1/1387-1422 UUGCCCAUCGGGGCCUUGGAUACCUGCUUUAUUUAU .....(....)......................... >AAPY01379542.1/1953-1917 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUAAUUUUU .....(....).......................... >CU855548.6/128407-128372 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAUUAUU .....(....)......................... >ABRT010581361.1/119-87 UCACCCAUCGGGGUCACGGAUACCUGCUUUUAU .....(....)...................... >AJ421479.1/106796-106828 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUUG .....(....)...................... >AJ310130.1/12382-12417 UUGCCCAUCGGGGCCUUGGAUACCUGCUUAAUUUUU .....(....)......................... >M97168.1/560-591 UGGCCCAUCGGGGUGACGGAUAUCUGCUUUUU .....(....)..................... >AADA01036560.1/1221-1185 UGGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU .....(....).......................... >U50910.1/1530-1566 UGGCCCAUCGGGGCCCCGGAUACCUGCUCUGAUUUUU .....(....).......................... >AF104906.5/487-523 UUGCCCAUCGGGGCCACGGAUACCUGCUUUUAAUUUU .....(....).......................... >M97168.1/368-404 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAUUAUU .....(....).......................... >ABRN01131313.1/617-581 UGGCCCAUCGGGGCCUUGGAUACCUGCUUUGAUUUUU .....(....).......................... >AGCE01104057.1/2893-2927 UUGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUU .....(....)........................ >U29341.1/1642-1673 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUU .....(....)..................... >AAHX01111727.1/40962-40998 AUGCCCAACGGGGCCUCGGAUACCUGCUUUAAUUUUU .....(....).......................... >FJ361197.1/331-367 UGCCCAUCGGGGCUGUGGAUACCUGCUUUAAAUUUUU ....(....)........................... >AALT01486907.1/919-954 UUGCCCAUCGGGGCCUCGGAUACCUGCUCGCUUUUU .....(....)......................... >AF104906.5/693-729 UUGCCCAUCGGGGCCUCGGAUACCUACUUUAAUUUUU .....(....).......................... >M97168.1/698-734 CUGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU .....(....).......................... >FJ156095.1/1619-1583 UGGCCCAUCGGGGCUGCGGAUACCUGGUUUCAUUAUU .....(....).......................... >ABRP01195257.1/1801-1762 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUCACUAUUUUU .....(....)............................. >AANN01200569.1/1569-1605 UUGCCCAUCGGGGCCACGGAUACCUGCUUAGAUUUUU .....(....).......................... >FJ156095.1/1573-1535 UUGCCCAACGGGGCUGUGGAUAGCUGCUUUUUAAUUCUU .....(....)............................ >ABRR01407567.1/1407-1373 UGGCCCAUCGGGGCAACGGAUACCUGCUUUUUUUA .....(....)........................ >FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .....(....)......................... >FJ156095.1/1324-1288 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU .....(....).......................... >ABGA01241178.1/1628-1596 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAU .....(....)...................... >AF104906.5/536-567 UAGCCCAUCGGGGCCUCGGAUACCUGCUGUGU .....(....)..................... >L04961.1/549-585 CGGUCCAUCGGGACCUCGGAUACCUGCGUUUAGUCUU .....(....).......................... >AAKN02029935.1/42514-42550 UUGCCCAUCGGGGCCUCGGAUACCUGCCCUAAUUUUU .....(....).......................... >AF104906.5/587-622 UGGCCCAUCGGGGCAAUGGAUACCUGCCUCUUUUUU .....(....)......................... >CU855548.6/128656-128618 UUGCCCAACGGGGCCGUGGAUACCUGCCUUUUAAUUCUU .....(....)............................ >AF104906.5/735-771 UUGCCCAUCGGGACCGCGGACACCUGCUUAGAUUUUU .....(....).......................... >AF104906.5/358-389 UUGCCCAUCGCGGCUGUGGAUACCUGGUUUUA .....(....)..................... >FJ156095.1/1280-1244 UUGCCCAUCGGGGCCUCGGAUACCUGCUCUAAUUUUU .....(....).......................... >AJ310127.1/13329-13364 UUGCCCACCGGGGCCGUGGAUACCUGCUUCAUUUUU .....(....)......................... >FJ156095.1/1368-1332 UGGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU .....(....).......................... >AJ310129.1/9034-9068 UGGUCCAUCGGGACCUCGGAUACCUGCUAGUUUAG .....(....)........................ >AF104906.5/437-474 UUACCCAACGGGGUCAUGGAUACCUGCCUUUUAUUUUA .....(....)........................... >ABDC01412462.1/1593-1561 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUAU .....(....)...................... >AAPE02004049.1/4919-4953 UGGCCCACCGGGGCCUAGGAUACCUGCUUUUUUUU .....(....)........................ >AAVX01126796.1/700-665 AUGCCCAUCGGGGCCUCGGAAUCUGUACUUCUUUUA .....(....)......................... >AANU01175104.1/38293-38330 UCGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUUUUU .....(....)........................... >AAGV020511993.1/1505-1469 UUGCCCAACGAGGCCUCAGAUACCUGCUUUAAUUUUU .....(....)..........................
2		(ANCG) ((U)NU)N			47	90.4
>U29341.1/1642-1673 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUU .....(....)....((...........)..) >EU086094.1/497-529 UGGUCCAUCGGGACCUCGGAUACCUGCGUUUAG .....(....)....((...........)..). >M97168.1/608-642 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUUUUU .....(....)......((............)..) >M97168.1/560-591 UGGCCCAUCGGGGUGACGGAUAUCUGCUUUUU .....(....)....((...........)..) >AGCE01104057.1/2893-2927 UUGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUU .....(....)......((............)..) >AF104906.5/487-523 UUGCCCAUCGGGGCCACGGAUACCUGCUUUUAAUUUU .....(....)......(.(.............)..) >AJ310130.1/12382-12417 UUGCCCAUCGGGGCCUUGGAUACCUGCUUAAUUUUU .....(....)......((.............)..) >AF104906.5/693-729 UUGCCCAUCGGGGCCUCGGAUACCUACUUUAAUUUUU .....(....)......((.............)..). >L04961.1/549-585 CGGUCCAUCGGGACCUCGGAUACCUGCGUUUAGUCUU .....(....)......((..............)..) >ABGA01241178.1/1628-1596 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAU .....(....)....((...........)..). >AANG01523518.1/1387-1422 UUGCCCAUCGGGGCCUUGGAUACCUGCUUUAUUUAU .....(....).....((.............)..). >FJ156095.1/1573-1535 UUGCCCAACGGGGCUGUGGAUAGCUGCUUUUUAAUUCUU .....(....).......(..(.............)..) >AJ310129.1/9034-9068 UGGUCCAUCGGGACCUCGGAUACCUGCUAGUUUAG .....(....)......((...........)..). >AF104906.5/650-686 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAAUUUUU .....(....)......((.............)..). >AAKN02029935.1/42514-42550 UUGCCCAUCGGGGCCUCGGAUACCUGCCCUAAUUUUU .....(....)......((.............)..). >AANN01200569.1/1569-1605 UUGCCCAUCGGGGCCACGGAUACCUGCUUAGAUUUUU .....(....)......(.(.............)..) >AJ310127.1/13329-13364 UUGCCCACCGGGGCCGUGGAUACCUGCUUCAUUUUU .....(....)......((.............)..) >AJ421479.1/106796-106828 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUUG .....(....).....((...........)..) >FJ361197.1/331-367 UGCCCAUCGGGGCUGUGGAUACCUGCUUUAAAUUUUU ....(....)......(.(.............)..). >FJ156095.1/1619-1583 UGGCCCAUCGGGGCUGCGGAUACCUGGUUUCAUUAUU .....(....)......(.(.............)..) >M97168.1/698-734 CUGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU .....(....)......(.(.............)..) >AAPE02004049.1/4919-4953 UGGCCCACCGGGGCCUAGGAUACCUGCUUUUUUUU .....(....).....((.............)..) >AF104906.5/437-474 UUACCCAACGGGGUCAUGGAUACCUGCCUUUUAUUUUA .....(....)......(.(.............)..). >AAHX01111727.1/40962-40998 AUGCCCAACGGGGCCUCGGAUACCUGCUUUAAUUUUU .....(....)......((.............)..). >FJ156095.1/1280-1244 UUGCCCAUCGGGGCCUCGGAUACCUGCUCUAAUUUUU .....(....)......((.............)..). >FJ156095.1/1368-1332 UGGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU .....(....)......(.(.............)..) >AAPY01379542.1/1953-1917 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUAAUUUUU .....(....)......((.............)..). >CU855548.6/128656-128618 UUGCCCAACGGGGCCGUGGAUACCUGCCUUUUAAUUCUU .....(....)....((...........)..)....... >AF104906.5/587-622 UGGCCCAUCGGGGCAAUGGAUACCUGCCUCUUUUUU .....(....)......((.............)..) >CU855548.6/128407-128372 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAUUAUU .....(....)......((.............)..) >AF104906.5/358-389 UUGCCCAUCGCGGCUGUGGAUACCUGGUUUUA .....(....)....((...........)..) >AAVX01126796.1/700-665 AUGCCCAUCGGGGCCUCGGAAUCUGUACUUCUUUUA .....(....)......((.............)..) >M97168.1/368-404 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAUUAUU .....(....)......(.(.............)..) >AAGV020511993.1/1505-1469 UUGCCCAACGAGGCCUCAGAUACCUGCUUUAAUUUUU .....(....)......((.............)..). >ABRT010581361.1/119-87 UCACCCAUCGGGGUCACGGAUACCUGCUUUUAU .....(....)....((...........)..). >FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .....(....)......((.............)..) >ABRN01131313.1/617-581 UGGCCCAUCGGGGCCUUGGAUACCUGCUUUGAUUUUU .....(....)......(.(.............)..) >AF104906.5/735-771 UUGCCCAUCGGGACCGCGGACACCUGCUUAGAUUUUU .....(....)......(..(............)..) >ABDC01412462.1/1593-1561 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUAU .....(....)....((...........)..). >AADA01036560.1/1221-1185 UGGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU .....(....)......(.(.............)..) >L10734.1/371-408 UUGCCCAUCGGGGCUGUGGAUACCUGCUUUAAAUUUUU .....(....)......(..(.............)..) >AALT01486907.1/919-954 UUGCCCAUCGGGGCCUCGGAUACCUGCUCGCUUUUU .....(....)......((.............)..) >U50910.1/1530-1566 UGGCCCAUCGGGGCCCCGGAUACCUGCUCUGAUUUUU .....(....)......(.(.............)..) >AAIY01358820.1/951-987 UUGCCCAUCGGGGCCUCGGAUACCGGCUCUGAUUUUU .....(....)......(.(.............)..) >AANU01175104.1/38293-38330 UCGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUUUUU .....(....)......(.(.............)..). >FJ156095.1/1324-1288 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU .....(....)......((..............)..) >ABRR01407567.1/1407-1373 UGGCCCAUCGGGGCAACGGAUACCUGCUUUUUUUA .....(....)......((............)..)
3		(ANCG) ((U)NU)N G(AYA)Y			39	75.0
>AAPE02004049.1/4919-4953 UGGCCCACCGGGGCCUAGGAUACCUGCUUUUUUUU .....(....)....((.(...)........)..) >AF104906.5/358-389 UUGCCCAUCGCGGCUGUGGAUACCUGGUUUUA .....(....)....((.(...).....)..) >AANG01523518.1/1387-1422 UUGCCCAUCGGGGCCUUGGAUACCUGCUUUAUUUAU .....(....)....((.(...)........)..). >M97168.1/560-591 UGGCCCAUCGGGGUGACGGAUAUCUGCUUUUU .....(....)....((.(...).....)..) >EU086094.1/497-529 UGGUCCAUCGGGACCUCGGAUACCUGCGUUUAG .....(....)....((.(...).....)..). >ABGA01241178.1/1628-1596 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAU .....(....)....((.(...).....)..). >ABRT010581361.1/119-87 UCACCCAUCGGGGUCACGGAUACCUGCUUUUAU .....(....)....((.(...).....)..). >AF104906.5/587-622 UGGCCCAUCGGGGCAAUGGAUACCUGCCUCUUUUUU .....(....)....((.(...)........)..). >AJ310130.1/12382-12417 UUGCCCAUCGGGGCCUUGGAUACCUGCUUAAUUUUU .....(....)....((.(...).........)..) >AJ421479.1/106796-106828 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUUG .....(....)...((..(...)......)..) >L10734.1/371-408 UUGCCCAUCGGGGCUGUGGAUACCUGCUUUAAAUUUUU .....(....)...((..(...)..........)..). >FJ156095.1/1280-1244 UUGCCCAUCGGGGCCUCGGAUACCUGCUCUAAUUUUU .....(....)....((.(...).........)..). >AF104906.5/487-523 UUGCCCAUCGGGGCCACGGAUACCUGCUUUUAAUUUU .....(....)....((.(...)..........)..) >AAPY01379542.1/1953-1917 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUAAUUUUU .....(....)....((.(...).........)..). >AANU01175104.1/38293-38330 UCGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUUUUU .....(....)....((.(...)...........)..) >FJ156095.1/1324-1288 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU .....(....)....((.(...)..........)..) >AF104906.5/693-729 UUGCCCAUCGGGGCCUCGGAUACCUACUUUAAUUUUU .....(....)....((.(...)....)..)...... >FJ361197.1/331-367 UGCCCAUCGGGGCUGUGGAUACCUGCUUUAAAUUUUU ....(....)...((..(...)..........)..). >AALT01486907.1/919-954 UUGCCCAUCGGGGCCUCGGAUACCUGCUCGCUUUUU .....(....)....((.(...).........)..) >M97168.1/608-642 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUUUUU .....(....)....((.(...)........)..) >L04961.1/549-585 CGGUCCAUCGGGACCUCGGAUACCUGCGUUUAGUCUU .....(....)...((..(...).....)..)..... >AADA01036560.1/1221-1185 UGGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU .....(....)....((.(...).........)..). >ABRN01131313.1/617-581 UGGCCCAUCGGGGCCUUGGAUACCUGCUUUGAUUUUU .....(....)....((.(...)..........)..) >FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .....(....)....((.(...).........)..) >ABRR01407567.1/1407-1373 UGGCCCAUCGGGGCAACGGAUACCUGCUUUUUUUA .....(....)...((..(...).......)..). >FJ156095.1/1619-1583 UGGCCCAUCGGGGCUGCGGAUACCUGGUUUCAUUAUU .....(....)...((..(...)..........)..) >U29341.1/1642-1673 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUU .....(....)....((.(...).....)..) >AJ310127.1/13329-13364 UUGCCCACCGGGGCCGUGGAUACCUGCUUCAUUUUU .....(....)....((.(...)........)..). >CU855548.6/128656-128618 UUGCCCAACGGGGCCGUGGAUACCUGCCUUUUAAUUCUU .....(....)....((.(...).....)..)....... >ABDC01412462.1/1593-1561 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUAU .....(....)....((.(...).....)..). >U50910.1/1530-1566 UGGCCCAUCGGGGCCCCGGAUACCUGCUCUGAUUUUU .....(....)....((.(...)....)..)...... >AAHX01111727.1/40962-40998 AUGCCCAACGGGGCCUCGGAUACCUGCUUUAAUUUUU .....(....)....((.(...).........)..). >AF104906.5/650-686 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAAUUUUU .....(....)....((.(...).........)..). >AANN01200569.1/1569-1605 UUGCCCAUCGGGGCCACGGAUACCUGCUUAGAUUUUU .....(....)....((.(...)..........)..) >M97168.1/368-404 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAUUAUU .....(....)....((.(...)..........)..) >FJ156095.1/1368-1332 UGGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU .....(....)....((.(...)..........)..) >AGCE01104057.1/2893-2927 UUGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUU .....(....)....((.(...)........)..) >AAKN02029935.1/42514-42550 UUGCCCAUCGGGGCCUCGGAUACCUGCCCUAAUUUUU .....(....)....((.(...)..........)..) >CU855548.6/128407-128372 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAUUAUU .....(....)....((.(...).........)..)
4		(ANCG) ((U)NU)N G(AYA)Y ((G)G)C			28	53.8
>AANN01200569.1/1569-1605 UUGCCCAUCGGGGCCACGGAUACCUGCUUAGAUUUUU ..((.(....)).).((.(...)..........)..) >ABDC01412462.1/1593-1561 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUAU ..((.(....)).).((.(...).....)..). >AF104906.5/587-622 UGGCCCAUCGGGGCAAUGGAUACCUGCCUCUUUUUU ..((.(....)).).((.(...)........)..). >FJ156095.1/1324-1288 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU ..((.(....)).).((.(...)..........)..) >M97168.1/368-404 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAUUAUU ..((.(....)).).((.(...)..........)..) >CU855548.6/128407-128372 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAUUAUU ..((.(....)).).((.(...).........)..) >AANU01175104.1/38293-38330 UCGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUUUUU ..((.(....)).).((.(...)...........)..) >AGCE01104057.1/2893-2927 UUGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUU ..((.(....)).).((.(...)........)..) >AAPY01379542.1/1953-1917 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUAAUUUUU ..((.(....)).).((.(...).........)..). >AAKN02029935.1/42514-42550 UUGCCCAUCGGGGCCUCGGAUACCUGCCCUAAUUUUU ..((.(....)).).((.(...)..........)..) >AJ310130.1/12382-12417 UUGCCCAUCGGGGCCUUGGAUACCUGCUUAAUUUUU ..((.(....)).).((.(...).........)..) >AALT01486907.1/919-954 UUGCCCAUCGGGGCCUCGGAUACCUGCUCGCUUUUU ..((.(....)).).((.(...).........)..) >AF104906.5/487-523 UUGCCCAUCGGGGCCACGGAUACCUGCUUUUAAUUUU ..((.(....)).).((.(...)..........)..) >AF104906.5/358-389 UUGCCCAUCGCGGCUGUGGAUACCUGGUUUUA ..((.(....)).).((.(...).....)..) >AADA01036560.1/1221-1185 UGGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU ..((.(....)).).((.(...).........)..). >CU855548.6/128656-128618 UUGCCCAACGGGGCCGUGGAUACCUGCCUUUUAAUUCUU ..((.(....)).).((.(...).....)..)....... >ABGA01241178.1/1628-1596 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAU ..((.(....)).).((.(...).....)..). >ABRN01131313.1/617-581 UGGCCCAUCGGGGCCUUGGAUACCUGCUUUGAUUUUU ..((.(....)).).((.(...)..........)..) >M97168.1/608-642 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUUUUU ..((.(....)).).((.(...)........)..) >U29341.1/1642-1673 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUU ..((.(....)).).((.(...).....)..) >AAHX01111727.1/40962-40998 AUGCCCAACGGGGCCUCGGAUACCUGCUUUAAUUUUU ..((.(....)).).((.(...).........)..). >FJ156095.1/1280-1244 UUGCCCAUCGGGGCCUCGGAUACCUGCUCUAAUUUUU ..((.(....)).).((.(...).........)..). >FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU ..((.(....)).).((.(...).........)..) >AJ310127.1/13329-13364 UUGCCCACCGGGGCCGUGGAUACCUGCUUCAUUUUU ..((.(....)).).((.(...)........)..). >AAPE02004049.1/4919-4953 UGGCCCACCGGGGCCUAGGAUACCUGCUUUUUUUU ..((.(....)).).((.(...)........)..) >AANG01523518.1/1387-1422 UUGCCCAUCGGGGCCUUGGAUACCUGCUUUAUUUAU ..((.(....)).).((.(...)........)..). >FJ156095.1/1368-1332 UGGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU ..((.(....)).).((.(...)..........)..) >AF104906.5/650-686 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAAUUUUU ..((.(....)).).((.(...).........)..).
5		(ANCG) ((U)NU)N G(AYA)Y ((G)G)C U(N(G))			21	40.4
>FJ156095.1/1324-1288 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU (.((.(....)).))((.(...)..........)..) >ABGA01241178.1/1628-1596 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAU (.((.(....)).))((.(...).....)..). >AGCE01104057.1/2893-2927 UUGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUU (.((.(....)).))((.(...)........)..) >FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU (.((.(....)).))((.(...).........)..) >AF104906.5/587-622 UGGCCCAUCGGGGCAAUGGAUACCUGCCUCUUUUUU (.((.(....)).))((.(...)........)..). >AANU01175104.1/38293-38330 UCGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUUUUU (.((.(....)).))((.(...)...........)..) >AJ310127.1/13329-13364 UUGCCCACCGGGGCCGUGGAUACCUGCUUCAUUUUU (.((.(....)).))((.(...)........)..). >AANN01200569.1/1569-1605 UUGCCCAUCGGGGCCACGGAUACCUGCUUAGAUUUUU (.((.(....)).))((.(...)..........)..) >AAKN02029935.1/42514-42550 UUGCCCAUCGGGGCCUCGGAUACCUGCCCUAAUUUUU (.((.(....)).))((.(...)..........)..) >AF104906.5/650-686 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAAUUUUU (.((.(....)).))((.(...).........)..). >AJ310130.1/12382-12417 UUGCCCAUCGGGGCCUUGGAUACCUGCUUAAUUUUU (.((.(....)).))((.(...).........)..) >AADA01036560.1/1221-1185 UGGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU (.((.(....)).))((.(...).........)..). >M97168.1/368-404 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAUUAUU (.((.(....)).))((.(...)..........)..) >AF104906.5/487-523 UUGCCCAUCGGGGCCACGGAUACCUGCUUUUAAUUUU (.((.(....)).))((.(...)..........)..) >AANG01523518.1/1387-1422 UUGCCCAUCGGGGCCUUGGAUACCUGCUUUAUUUAU (.((.(....)).))((.(...)........)..). >AF104906.5/358-389 UUGCCCAUCGCGGCUGUGGAUACCUGGUUUUA (.((.(....)).))((.(...).....)..) >AALT01486907.1/919-954 UUGCCCAUCGGGGCCUCGGAUACCUGCUCGCUUUUU (.((.(....)).))((.(...).........)..) >CU855548.6/128407-128372 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAUUAUU (.((.(....)).))((.(...).........)..) >U29341.1/1642-1673 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUU (.((.(....)).))((.(...).....)..) >CU855548.6/128656-128618 UUGCCCAACGGGGCCGUGGAUACCUGCCUUUUAAUUCUU (.((.(....)).))((.(...).....)..)....... >FJ156095.1/1280-1244 UUGCCCAUCGGGGCCUCGGAUACCUGCUCUAAUUUUU (.((.(....)).))((.(...).........)..).

>AF104906.5/650-686 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAAUUUUU .....(....).......................... .....(....)......((.............)..). .....(....)....((.(...).........)..). ..((.(....)).).((.(...).........)..). (.((.(....)).))((.(...).........)..). >AANG01523518.1/1387-1422 UUGCCCAUCGGGGCCUUGGAUACCUGCUUUAUUUAU .....(....)......................... .....(....).....((.............)..). .....(....)....((.(...)........)..). ..((.(....)).).((.(...)........)..). (.((.(....)).))((.(...)........)..). >CU855548.6/128407-128372 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUAUUAUU .....(....)......................... .....(....)......((.............)..) .....(....)....((.(...).........)..) ..((.(....)).).((.(...).........)..) (.((.(....)).))((.(...).........)..) >AJ310130.1/12382-12417 UUGCCCAUCGGGGCCUUGGAUACCUGCUUAAUUUUU .....(....)......................... .....(....)......((.............)..) .....(....)....((.(...).........)..) ..((.(....)).).((.(...).........)..) (.((.(....)).))((.(...).........)..) >AADA01036560.1/1221-1185 UGGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU .....(....).......................... .....(....)......(.(.............)..) .....(....)....((.(...).........)..). ..((.(....)).).((.(...).........)..). (.((.(....)).))((.(...).........)..). >AF104906.5/487-523 UUGCCCAUCGGGGCCACGGAUACCUGCUUUUAAUUUU .....(....).......................... .....(....)......(.(.............)..) .....(....)....((.(...)..........)..) ..((.(....)).).((.(...)..........)..) (.((.(....)).))((.(...)..........)..) >M97168.1/368-404 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAUUAUU .....(....).......................... .....(....)......(.(.............)..) .....(....)....((.(...)..........)..) ..((.(....)).).((.(...)..........)..) (.((.(....)).))((.(...)..........)..) >AGCE01104057.1/2893-2927 UUGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUU .....(....)........................ .....(....)......((............)..) .....(....)....((.(...)........)..) ..((.(....)).).((.(...)........)..) (.((.(....)).))((.(...)........)..) >U29341.1/1642-1673 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUU .....(....)..................... .....(....)....((...........)..) .....(....)....((.(...).....)..) ..((.(....)).).((.(...).....)..) (.((.(....)).))((.(...).....)..) >AALT01486907.1/919-954 UUGCCCAUCGGGGCCUCGGAUACCUGCUCGCUUUUU .....(....)......................... .....(....)......((.............)..) .....(....)....((.(...).........)..) ..((.(....)).).((.(...).........)..) (.((.(....)).))((.(...).........)..) >AANN01200569.1/1569-1605 UUGCCCAUCGGGGCCACGGAUACCUGCUUAGAUUUUU .....(....).......................... .....(....)......(.(.............)..) .....(....)....((.(...)..........)..) ..((.(....)).).((.(...)..........)..) (.((.(....)).))((.(...)..........)..) >FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .....(....)......................... .....(....)......((.............)..) .....(....)....((.(...).........)..) ..((.(....)).).((.(...).........)..) (.((.(....)).))((.(...).........)..) >FJ156095.1/1324-1288 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU .....(....).......................... .....(....)......((..............)..) .....(....)....((.(...)..........)..) ..((.(....)).).((.(...)..........)..) (.((.(....)).))((.(...)..........)..) >ABGA01241178.1/1628-1596 UUGCCCAUCGGGGCUGCGGAUACCUGGUUUUAU .....(....)...................... .....(....)....((...........)..). .....(....)....((.(...).....)..). ..((.(....)).).((.(...).....)..). (.((.(....)).))((.(...).....)..). >AAKN02029935.1/42514-42550 UUGCCCAUCGGGGCCUCGGAUACCUGCCCUAAUUUUU .....(....).......................... .....(....)......((.............)..). .....(....)....((.(...)..........)..) ..((.(....)).).((.(...)..........)..) (.((.(....)).))((.(...)..........)..) >AF104906.5/587-622 UGGCCCAUCGGGGCAAUGGAUACCUGCCUCUUUUUU .....(....)......................... .....(....)......((.............)..) .....(....)....((.(...)........)..). ..((.(....)).).((.(...)........)..). (.((.(....)).))((.(...)........)..). >CU855548.6/128656-128618 UUGCCCAACGGGGCCGUGGAUACCUGCCUUUUAAUUCUU .....(....)............................ .....(....)....((...........)..)....... .....(....)....((.(...).....)..)....... ..((.(....)).).((.(...).....)..)....... (.((.(....)).))((.(...).....)..)....... >AF104906.5/358-389 UUGCCCAUCGCGGCUGUGGAUACCUGGUUUUA .....(....)..................... .....(....)....((...........)..) .....(....)....((.(...).....)..) ..((.(....)).).((.(...).....)..) (.((.(....)).))((.(...).....)..) >FJ156095.1/1280-1244 UUGCCCAUCGGGGCCUCGGAUACCUGCUCUAAUUUUU .....(....).......................... .....(....)......((.............)..). .....(....)....((.(...).........)..). ..((.(....)).).((.(...).........)..). (.((.(....)).))((.(...).........)..). >AJ310127.1/13329-13364 UUGCCCACCGGGGCCGUGGAUACCUGCUUCAUUUUU .....(....)......................... .....(....)......((.............)..) .....(....)....((.(...)........)..). ..((.(....)).).((.(...)........)..). (.((.(....)).))((.(...)........)..). >AANU01175104.1/38293-38330 UCGCCCAUCGGGGCCGCGGAUACCUGCUUUUUAUUUUU .....(....)........................... .....(....)......(.(.............)..). .....(....)....((.(...)...........)..) ..((.(....)).).((.(...)...........)..) (.((.(....)).))((.(...)...........)..) >M97168.1/608-642 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUUUUU .....(....)........................ .....(....)......((............)..) .....(....)....((.(...)........)..) ..((.(....)).).((.(...)........)..) >AAPY01379542.1/1953-1917 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUAAUUUUU .....(....).......................... .....(....)......((.............)..). .....(....)....((.(...).........)..). ..((.(....)).).((.(...).........)..). >ABRN01131313.1/617-581 UGGCCCAUCGGGGCCUUGGAUACCUGCUUUGAUUUUU .....(....).......................... .....(....)......(.(.............)..) .....(....)....((.(...)..........)..) ..((.(....)).).((.(...)..........)..) >AAHX01111727.1/40962-40998 AUGCCCAACGGGGCCUCGGAUACCUGCUUUAAUUUUU .....(....).......................... .....(....)......((.............)..). .....(....)....((.(...).........)..). ..((.(....)).).((.(...).........)..). >FJ156095.1/1368-1332 UGGCCCAUCGGGGCCUCGGAUACCUGCUUUUAUUAUU .....(....).......................... .....(....)......(.(.............)..) .....(....)....((.(...)..........)..) ..((.(....)).).((.(...)..........)..) >ABDC01412462.1/1593-1561 UGGCCCAUCGGGGCUUCGGAUACCUGCUUUUAU .....(....)...................... .....(....)....((...........)..). .....(....)....((.(...).....)..). ..((.(....)).).((.(...).....)..). >AAPE02004049.1/4919-4953 UGGCCCACCGGGGCCUAGGAUACCUGCUUUUUUUU .....(....)........................ .....(....).....((.............)..) .....(....)....((.(...)........)..) ..((.(....)).).((.(...)........)..) >EU086094.1/497-529 UGGUCCAUCGGGACCUCGGAUACCUGCGUUUAG .....(....)...................... .....(....)....((...........)..). .....(....)....((.(...).....)..). >L10734.1/371-408 UUGCCCAUCGGGGCUGUGGAUACCUGCUUUAAAUUUUU .....(....)........................... .....(....)......(..(.............)..) .....(....)...((..(...)..........)..). >ABRT010581361.1/119-87 UCACCCAUCGGGGUCACGGAUACCUGCUUUUAU .....(....)...................... .....(....)....((...........)..). .....(....)....((.(...).....)..). >AJ421479.1/106796-106828 UAGCCCAUCGGGGCCAUGGAUACCUGCUUUUUG .....(....)...................... .....(....).....((...........)..) .....(....)...((..(...)......)..) >M97168.1/560-591 UGGCCCAUCGGGGUGACGGAUAUCUGCUUUUU .....(....)..................... .....(....)....((...........)..) .....(....)....((.(...).....)..) >U50910.1/1530-1566 UGGCCCAUCGGGGCCCCGGAUACCUGCUCUGAUUUUU .....(....).......................... .....(....)......(.(.............)..) .....(....)....((.(...)....)..)...... >FJ361197.1/331-367 UGCCCAUCGGGGCUGUGGAUACCUGCUUUAAAUUUUU ....(....)........................... ....(....)......(.(.............)..). ....(....)...((..(...)..........)..). >AF104906.5/693-729 UUGCCCAUCGGGGCCUCGGAUACCUACUUUAAUUUUU .....(....).......................... .....(....)......((.............)..). .....(....)....((.(...)....)..)...... >FJ156095.1/1619-1583 UGGCCCAUCGGGGCUGCGGAUACCUGGUUUCAUUAUU .....(....).......................... .....(....)......(.(.............)..) .....(....)...((..(...)..........)..) >ABRR01407567.1/1407-1373 UGGCCCAUCGGGGCAACGGAUACCUGCUUUUUUUA .....(....)........................ .....(....)......((............)..) .....(....)...((..(...).......)..). >L04961.1/549-585 CGGUCCAUCGGGACCUCGGAUACCUGCGUUUAGUCUU .....(....).......................... .....(....)......((..............)..) .....(....)...((..(...).....)..)..... >AAIY01358820.1/951-987 UUGCCCAUCGGGGCCUCGGAUACCGGCUCUGAUUUUU .....(....).......................... .....(....)......(.(.............)..) >M97168.1/698-734 CUGCCCAUCGGGGCCGCGGAUACCUGCUUUGAUUUUU .....(....).......................... .....(....)......(.(.............)..) >FJ156095.1/1573-1535 UUGCCCAACGGGGCUGUGGAUAGCUGCUUUUUAAUUCUU .....(....)............................ .....(....).......(..(.............)..) >AF104906.5/735-771 UUGCCCAUCGGGACCGCGGACACCUGCUUAGAUUUUU .....(....).......................... .....(....)......(..(............)..) >AJ310129.1/9034-9068 UGGUCCAUCGGGACCUCGGAUACCUGCUAGUUUAG .....(....)........................ .....(....)......((...........)..). >AF104906.5/437-474 UUACCCAACGGGGUCAUGGAUACCUGCCUUUUAUUUUA .....(....)........................... .....(....)......(.(.............)..). >AAVX01126796.1/700-665 AUGCCCAUCGGGGCCUCGGAAUCUGUACUUCUUUUA .....(....)......................... .....(....)......((.............)..) >AAGV020511993.1/1505-1469 UUGCCCAACGAGGCCUCAGAUACCUGCUUUAAUUUUU .....(....).......................... .....(....)......((.............)..). >L10730.1/44-76 UUGCCCAUCGGGGCCACGGAUACCUGUGUGUCC .....(....)...................... >AF138745.1/1968-1936 AUGCCCAACGGGGCCUCGGAUACCUGCUGUUAU .....(....)...................... >ABRP01195257.1/1801-1762 UUGCCCAUCGGGGCCUCGGAUACCUGCUUUCACUAUUUUU .....(....)............................. >AF104906.5/536-567 UAGCCCAUCGGGGCCUCGGAUACCUGCUGUGU .....(....).....................

	ORB			p-value	ORB frequency (per structure per nucleotide)	Means ratio
1	(ANCG)			< 0.001		286

FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .........1.........2.........3...... 123456789012345678901234567890123456
2	((U)NU)N			< 0.001		10.2

FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .........1.........2.........3...... 123456789012345678901234567890123456
3	G(AYA)Y			< 0.001		98.7

FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .........1.........2.........3...... 123456789012345678901234567890123456
4	U(N(G))			< 0.001		4.31

FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .........1.........2.........3...... 123456789012345678901234567890123456
5	((G)G)C			< 0.001		1.52

FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .........1.........2.........3...... 123456789012345678901234567890123456
	ORB			p-value	ORB frequency (per structure per nucleotide)	Means ratio

	NCM			p-value	NCM frequency (per structure per nucleotide)	Means ratio
1	(ANCG)			< 0.001		286

FJ156095.1/1519-1484 UUGCCUAUCGGGGCCGUGGAUACCUGCUUUUUUUUU .........1.........2.........3...... 123456789012345678901234567890123456
	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).