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)

CRISPR RNA direct repeat element (Rfam: RF01317)

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

(.N.().YNN.)
(.R.)
(U()NR)
(U()A)
((R)G)C

100.0
100.0
100.0
100.0
100.0

(.N.().YNN.)
(.R.)

% 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 %
(± 0.101 %)

Decision tree:

5-fold cross-validation: 92.1 %
(± 6.98 %)

D-ORB structure

D-ORB structure decision tree:

5-fold cross-validation: 98.3 %
(± 3.31 %)

of AF316504.1/2339-2366

AF316504.1/2339-2366

AUUCACUGCUGAACAAGCAGCUUAGAAA
.(.(.(.((.(...)).).)....)..)
.........1.........2........
1234567890123456789012345678

abstract shape: `()`

					Number of sequences
	Structure	ORBs			(out of 32)	(%)
1		(.N.().YNN.)			32	100.0
>CR543861.1/2372998-2373025 CUUCACUACCGCACAGGUAGCUUAGAAA ...(.(.............)....)... >CP000744.1/1205223-1205250 GUUAACUGCCGUGUAGGCAGCUAAGAAA ...(.(.............)....)... >AF530480.1/2088-2115 GUUCACUGCCGCAUAGGCAGCUUAGAAA ...(.(.............)....)... >CP000510.1/2545108-2545081 GUUUACUGCCGCACAGGCAGCUUAGGAA ...(.(.............)....)... >BX571865.1/44187-44214 GUGCACUGCCGUACAGGCAGCUUAGAAA ...(.(.............)....)... >CP000749.1/3991340-3991313 GUUCACCGCCGAACAGGCGGCUUAGGUU ...(.(.............)....)... >AE004439.1/2082067-2082094 GUUAACUGCCGUAUAGGCAGCUUAGAAA ...(.(.............)....)... >AACK01000014.1/16402-16429 CUUCACUGCCGUAUAGGCAGCUUAGAAA ...(.(.............)....)... >AAZW01000025.1/63827-63854 GUGUCCUGCCGCAUAGGCAGCUAAGAAA ...(.(.............)....)... >CP000468.1/897888-897915 GUUCACUGCCGUACAGGCAGUCUUCAAA ...(.(.............)....)... >CP000308.1/1471576-1471603 GUUCACUGUUGUACAGGCAGCUUAGAAG ...(.(.............)....)... >CP001157.1/550062-550089 CUUCACUGCCGUGUAGGCAGCUCAGAAA ...(.(.............)....)... >CR378681.1/97619-97592 GUUCACUGCCGCACAGGCAGCUUAGAGA ...(.(.............)....)... >AAOH01000006.1/219609-219636 GUUCACUGCCACACAGGCAGCUUAGAAA ...(.(.............)....)... >BX950851.1/4136202-4136229 GUUCACUGCCGUAUAGGCAGUUUAGAAA ...(.(.............)....)... >AASE01000005.1/56884-56911 GUUCACUGCCGGACAGGCAGCUUAGAAU ...(.(.............)....)... >CP000542.1/1609263-1609236 GUUCACUGCCGGAUAGGCAGCUCAGAAA ...(.(.............)....)... >AATN01000170.1/14109-14082 GUUCACUGCCAUAUAGGCAGCUUAGAAA ...(.(.............)....)... >AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA ...(.(.............)....)... >CR628339.1/43303-43276 GUUCACUGCCGUACAGGCAGCUUAGAAG ...(.(.............)....)... >BX936398.1/2964997-2964970 AUUCACUGCCGCACAGGCAGCUUAGAAA ...(.(.............)....)... >CP000753.1/3865826-3865799 GUUCACCGCCGCACAGGCGGCUUAGAAA ...(.(.............)....)... >AANE01000001.1/559890-559863 GUUCACUGCCGAACAGGCAGCUUAGAAA ...(.(.............)....)... >CP000653.1/1535727-1535754 GUUCACUGCCGCACAGGCAGUUUAGAAA ...(.(.............)....)... >AAQW01000001.1/3290233-3290206 GUUCACUGCCGUAUAGGCAGCAAAAAAU ..(..(.............)...).... >AAKV01000024.1/25336-25309 GUUCACUGCCGUAUAGGCAGCUAAGAAA ...(.(.............)....)... >CP000503.1/3947718-3947745 GUUCUCUGCCGCACAGGCAGCUUAGAAA ...(.(.............)....)... >CP000308.1/2201251-2201224 GUUCACUGCUGCACAGGCAGCUUAGAAA ...(.(.............)....)... >CP000127.1/3128418-3128445 GUUCACCGCCGCACAGGCGGUUUAGAAA ...(.(.............)....)... >AAQF01000183.1/1633-1660 GUUCACUGCCGGACAGGCAGCACAGAAA ...(.(.............)....)... >CP000720.1/3351663-3351636 GUUCACUGCCGCACAGGCAGCUUAUAUA ..(..(.............)...).... >CP000884.1/1357751-1357778 GUUCGCUGCCGCGUAGGCAGCUCAGAAA ...(.(.............)....)...
2		(.N.().YNN.) (.R.)			32	100.0
>CR543861.1/2372998-2373025 CUUCACUACCGCACAGGUAGCUUAGAAA ...(.(....(...)....)....)... >AAKV01000024.1/25336-25309 GUUCACUGCCGUAUAGGCAGCUAAGAAA ...(.(....(...)....)....)... >CP000753.1/3865826-3865799 GUUCACCGCCGCACAGGCGGCUUAGAAA ...(.(....(...)....)....)... >CR378681.1/97619-97592 GUUCACUGCCGCACAGGCAGCUUAGAGA ...(.(....(...)....)....)... >CP000510.1/2545108-2545081 GUUUACUGCCGCACAGGCAGCUUAGGAA ...(.(....(...)....)....)... >CP000744.1/1205223-1205250 GUUAACUGCCGUGUAGGCAGCUAAGAAA ...(.(....(...)....)....)... >CP000884.1/1357751-1357778 GUUCGCUGCCGCGUAGGCAGCUCAGAAA ...(.(....(...)....)....)... >CP000468.1/897888-897915 GUUCACUGCCGUACAGGCAGUCUUCAAA ...(.(....(...)....)....)... >BX936398.1/2964997-2964970 AUUCACUGCCGCACAGGCAGCUUAGAAA ...(.(....(...)....)....)... >AACK01000014.1/16402-16429 CUUCACUGCCGUAUAGGCAGCUUAGAAA ...(.(....(...)....)....)... >CP000653.1/1535727-1535754 GUUCACUGCCGCACAGGCAGUUUAGAAA ...(.(....(...)....)....)... >BX571865.1/44187-44214 GUGCACUGCCGUACAGGCAGCUUAGAAA ...(.(....(...)....)....)... >AF530480.1/2088-2115 GUUCACUGCCGCAUAGGCAGCUUAGAAA ...(.(....(...)....)....)... >CP000749.1/3991340-3991313 GUUCACCGCCGAACAGGCGGCUUAGGUU ...(.(....(...)....)....)... >CP000308.1/2201251-2201224 GUUCACUGCUGCACAGGCAGCUUAGAAA ...(.(....(...)....)....)... >CP000127.1/3128418-3128445 GUUCACCGCCGCACAGGCGGUUUAGAAA ...(.(....(...)....)....)... >CP000308.1/1471576-1471603 GUUCACUGUUGUACAGGCAGCUUAGAAG ...(.(....(...)....)....)... >BX950851.1/4136202-4136229 GUUCACUGCCGUAUAGGCAGUUUAGAAA ...(.(....(...)....)....)... >AE004439.1/2082067-2082094 GUUAACUGCCGUAUAGGCAGCUUAGAAA ...(.(....(...)....)....)... >AAZW01000025.1/63827-63854 GUGUCCUGCCGCAUAGGCAGCUAAGAAA ...(.(....(...)....)....)... >AAQW01000001.1/3290233-3290206 GUUCACUGCCGUAUAGGCAGCAAAAAAU ..(..(....(...)....)...).... >AATN01000170.1/14109-14082 GUUCACUGCCAUAUAGGCAGCUUAGAAA ...(.(....(...)....)....)... >AAQF01000183.1/1633-1660 GUUCACUGCCGGACAGGCAGCACAGAAA ...(.(....(...)....)....)... >CP000542.1/1609263-1609236 GUUCACUGCCGGAUAGGCAGCUCAGAAA ...(.(....(...)....)....)... >AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA ...(.(....(...)....)....)... >AASE01000005.1/56884-56911 GUUCACUGCCGGACAGGCAGCUUAGAAU ...(.(....(...)....)....)... >CP001157.1/550062-550089 CUUCACUGCCGUGUAGGCAGCUCAGAAA ...(.(....(...)....)....)... >CP000720.1/3351663-3351636 GUUCACUGCCGCACAGGCAGCUUAUAUA ..(..(....(...)....)...).... >AANE01000001.1/559890-559863 GUUCACUGCCGAACAGGCAGCUUAGAAA ...(.(....(...)....)....)... >CP000503.1/3947718-3947745 GUUCUCUGCCGCACAGGCAGCUUAGAAA ...(.(....(...)....)....)... >AAOH01000006.1/219609-219636 GUUCACUGCCACACAGGCAGCUUAGAAA ...(.(....(...)....)....)... >CR628339.1/43303-43276 GUUCACUGCCGUACAGGCAGCUUAGAAG ...(.(....(...)....)....)...
3		(.N.().YNN.) (.R.) (U()NR)			28	87.5
>CP000653.1/1535727-1535754 GUUCACUGCCGCACAGGCAGUUUAGAAA .(.(.(....(...)....)....)..) >CP001157.1/550062-550089 CUUCACUGCCGUGUAGGCAGCUCAGAAA .(.(.(....(...)....)....)..) >AE004439.1/2082067-2082094 GUUAACUGCCGUAUAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >CP000510.1/2545108-2545081 GUUUACUGCCGCACAGGCAGCUUAGGAA .(.(.(....(...)....)....)..) >AAOH01000006.1/219609-219636 GUUCACUGCCACACAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >AAQF01000183.1/1633-1660 GUUCACUGCCGGACAGGCAGCACAGAAA .(.(.(....(...)....)....)..) >AF530480.1/2088-2115 GUUCACUGCCGCAUAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >CP000468.1/897888-897915 GUUCACUGCCGUACAGGCAGUCUUCAAA .(.(.(....(...)....)....)..) >AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA .(.(.(....(...)....)....)..) >AASE01000005.1/56884-56911 GUUCACUGCCGGACAGGCAGCUUAGAAU .(.(.(....(...)....)....)..) >CP000127.1/3128418-3128445 GUUCACCGCCGCACAGGCGGUUUAGAAA .(.(.(....(...)....)....)..) >AATN01000170.1/14109-14082 GUUCACUGCCAUAUAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >AANE01000001.1/559890-559863 GUUCACUGCCGAACAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >AACK01000014.1/16402-16429 CUUCACUGCCGUAUAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >CP000720.1/3351663-3351636 GUUCACUGCCGCACAGGCAGCUUAUAUA (.(..(....(...)....)...)..). >AAQW01000001.1/3290233-3290206 GUUCACUGCCGUAUAGGCAGCAAAAAAU (.(..(....(...)....)...)..). >CP000884.1/1357751-1357778 GUUCGCUGCCGCGUAGGCAGCUCAGAAA .(.(.(....(...)....)....)..) >AAKV01000024.1/25336-25309 GUUCACUGCCGUAUAGGCAGCUAAGAAA .(.(.(....(...)....)....)..) >CP000542.1/1609263-1609236 GUUCACUGCCGGAUAGGCAGCUCAGAAA .(.(.(....(...)....)....)..) >CR543861.1/2372998-2373025 CUUCACUACCGCACAGGUAGCUUAGAAA .(.(.(....(...)....)....)..) >CR628339.1/43303-43276 GUUCACUGCCGUACAGGCAGCUUAGAAG .(.(.(....(...)....)....)..) >CP000753.1/3865826-3865799 GUUCACCGCCGCACAGGCGGCUUAGAAA .(.(.(....(...)....)....)..) >CP000308.1/2201251-2201224 GUUCACUGCUGCACAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >CP000503.1/3947718-3947745 GUUCUCUGCCGCACAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >CR378681.1/97619-97592 GUUCACUGCCGCACAGGCAGCUUAGAGA .(.(.(....(...)....)....)..) >BX936398.1/2964997-2964970 AUUCACUGCCGCACAGGCAGCUUAGAAA .(.(.(....(...)....)....)..) >BX950851.1/4136202-4136229 GUUCACUGCCGUAUAGGCAGUUUAGAAA .(.(.(....(...)....)....)..) >CP000744.1/1205223-1205250 GUUAACUGCCGUGUAGGCAGCUAAGAAA .(.(.(....(...)....)....)..)
4		(.N.().YNN.) (.R.) (U()NR) (U()A)			25	78.1
>AF530480.1/2088-2115 GUUCACUGCCGCAUAGGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >BX950851.1/4136202-4136229 GUUCACUGCCGUAUAGGCAGUUUAGAAA .(.(.(.(..(...)..).)....)..) >CP000884.1/1357751-1357778 GUUCGCUGCCGCGUAGGCAGCUCAGAAA .(.(.(.(..(...)..).)....)..) >CP000510.1/2545108-2545081 GUUUACUGCCGCACAGGCAGCUUAGGAA .(.(.(.(..(...)..).)....)..) >CP000468.1/897888-897915 GUUCACUGCCGUACAGGCAGUCUUCAAA .(.(.(.(..(...)..).)....)..) >CP001157.1/550062-550089 CUUCACUGCCGUGUAGGCAGCUCAGAAA .(.(.(.(..(...)..).)....)..) >CP000503.1/3947718-3947745 GUUCUCUGCCGCACAGGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >AAQW01000001.1/3290233-3290206 GUUCACUGCCGUAUAGGCAGCAAAAAAU (.(..(.(..(...)..).)...)..). >CP000720.1/3351663-3351636 GUUCACUGCCGCACAGGCAGCUUAUAUA (.(..(.(..(...)..).)...)..). >AATN01000170.1/14109-14082 GUUCACUGCCAUAUAGGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >AASE01000005.1/56884-56911 GUUCACUGCCGGACAGGCAGCUUAGAAU .(.(.(.(..(...)..).)....)..) >CR628339.1/43303-43276 GUUCACUGCCGUACAGGCAGCUUAGAAG .(.(.(.(..(...)..).)....)..) >AAKV01000024.1/25336-25309 GUUCACUGCCGUAUAGGCAGCUAAGAAA .(.(.(.(..(...)..).)....)..) >AE004439.1/2082067-2082094 GUUAACUGCCGUAUAGGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >CR378681.1/97619-97592 GUUCACUGCCGCACAGGCAGCUUAGAGA .(.(.(.(..(...)..).)....)..) >CR543861.1/2372998-2373025 CUUCACUACCGCACAGGUAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >CP000542.1/1609263-1609236 GUUCACUGCCGGAUAGGCAGCUCAGAAA .(.(.(.(..(...)..).)....)..) >AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >AANE01000001.1/559890-559863 GUUCACUGCCGAACAGGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >BX936398.1/2964997-2964970 AUUCACUGCCGCACAGGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >AAOH01000006.1/219609-219636 GUUCACUGCCACACAGGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >CP000744.1/1205223-1205250 GUUAACUGCCGUGUAGGCAGCUAAGAAA .(.(.(.(..(...)..).)....)..) >AAQF01000183.1/1633-1660 GUUCACUGCCGGACAGGCAGCACAGAAA .(.(.(.(..(...)..).)....)..) >AACK01000014.1/16402-16429 CUUCACUGCCGUAUAGGCAGCUUAGAAA .(.(.(.(..(...)..).)....)..) >CP000653.1/1535727-1535754 GUUCACUGCCGCACAGGCAGUUUAGAAA .(.(.(.(..(...)..).)....)..)
5		(.N.().YNN.) (.R.) (U()NR) (U()A) ((R)G)C			24	75.0
>AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..) >CP000468.1/897888-897915 GUUCACUGCCGUACAGGCAGUCUUCAAA .(.(.(.((.(...)).).)....)..) >AAOH01000006.1/219609-219636 GUUCACUGCCACACAGGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..) >BX936398.1/2964997-2964970 AUUCACUGCCGCACAGGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..) >CR378681.1/97619-97592 GUUCACUGCCGCACAGGCAGCUUAGAGA .(.(.(.((.(...)).).)....)..) >CP000653.1/1535727-1535754 GUUCACUGCCGCACAGGCAGUUUAGAAA .(.(.(.((.(...)).).)....)..) >BX950851.1/4136202-4136229 GUUCACUGCCGUAUAGGCAGUUUAGAAA .(.(.(.((.(...)).).)....)..) >CP000510.1/2545108-2545081 GUUUACUGCCGCACAGGCAGCUUAGGAA .(.(.(.((.(...)).).)....)..) >AANE01000001.1/559890-559863 GUUCACUGCCGAACAGGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..) >AAQF01000183.1/1633-1660 GUUCACUGCCGGACAGGCAGCACAGAAA .(.(.(.((.(...)).).)....)..) >CP000720.1/3351663-3351636 GUUCACUGCCGCACAGGCAGCUUAUAUA (.(..(.((.(...)).).)...)..). >AASE01000005.1/56884-56911 GUUCACUGCCGGACAGGCAGCUUAGAAU .(.(.(.((.(...)).).)....)..) >AAQW01000001.1/3290233-3290206 GUUCACUGCCGUAUAGGCAGCAAAAAAU (.(..(.((.(...)).).)...)..). >AAKV01000024.1/25336-25309 GUUCACUGCCGUAUAGGCAGCUAAGAAA .(.(.(.((.(...)).).)....)..) >CR628339.1/43303-43276 GUUCACUGCCGUACAGGCAGCUUAGAAG .(.(.(.((.(...)).).)....)..) >CP000884.1/1357751-1357778 GUUCGCUGCCGCGUAGGCAGCUCAGAAA .(.(.(.((.(...)).).)....)..) >CP001157.1/550062-550089 CUUCACUGCCGUGUAGGCAGCUCAGAAA .(.(.(.((.(...)).).)....)..) >AE004439.1/2082067-2082094 GUUAACUGCCGUAUAGGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..) >CP000744.1/1205223-1205250 GUUAACUGCCGUGUAGGCAGCUAAGAAA .(.(.(.((.(...)).).)....)..) >CP000542.1/1609263-1609236 GUUCACUGCCGGAUAGGCAGCUCAGAAA .(.(.(.((.(...)).).)....)..) >AACK01000014.1/16402-16429 CUUCACUGCCGUAUAGGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..) >AF530480.1/2088-2115 GUUCACUGCCGCAUAGGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..) >CP000503.1/3947718-3947745 GUUCUCUGCCGCACAGGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..) >AATN01000170.1/14109-14082 GUUCACUGCCAUAUAGGCAGCUUAGAAA .(.(.(.((.(...)).).)....)..)

>CP000744.1/1205223-1205250 GUUAACUGCCGUGUAGGCAGCUAAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AF530480.1/2088-2115 GUUCACUGCCGCAUAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CP000510.1/2545108-2545081 GUUUACUGCCGCACAGGCAGCUUAGGAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AE004439.1/2082067-2082094 GUUAACUGCCGUAUAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AACK01000014.1/16402-16429 CUUCACUGCCGUAUAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CP000468.1/897888-897915 GUUCACUGCCGUACAGGCAGUCUUCAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CP001157.1/550062-550089 CUUCACUGCCGUGUAGGCAGCUCAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CR378681.1/97619-97592 GUUCACUGCCGCACAGGCAGCUUAGAGA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AAOH01000006.1/219609-219636 GUUCACUGCCACACAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >BX950851.1/4136202-4136229 GUUCACUGCCGUAUAGGCAGUUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AASE01000005.1/56884-56911 GUUCACUGCCGGACAGGCAGCUUAGAAU ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CP000542.1/1609263-1609236 GUUCACUGCCGGAUAGGCAGCUCAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AATN01000170.1/14109-14082 GUUCACUGCCAUAUAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CR628339.1/43303-43276 GUUCACUGCCGUACAGGCAGCUUAGAAG ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >BX936398.1/2964997-2964970 AUUCACUGCCGCACAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AANE01000001.1/559890-559863 GUUCACUGCCGAACAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CP000653.1/1535727-1535754 GUUCACUGCCGCACAGGCAGUUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AAQW01000001.1/3290233-3290206 GUUCACUGCCGUAUAGGCAGCAAAAAAU ..(..(.............)...).... ..(..(....(...)....)...).... (.(..(....(...)....)...)..). (.(..(.(..(...)..).)...)..). (.(..(.((.(...)).).)...)..). >AAKV01000024.1/25336-25309 GUUCACUGCCGUAUAGGCAGCUAAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CP000503.1/3947718-3947745 GUUCUCUGCCGCACAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >AAQF01000183.1/1633-1660 GUUCACUGCCGGACAGGCAGCACAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CP000720.1/3351663-3351636 GUUCACUGCCGCACAGGCAGCUUAUAUA ..(..(.............)...).... ..(..(....(...)....)...).... (.(..(....(...)....)...)..). (.(..(.(..(...)..).)...)..). (.(..(.((.(...)).).)...)..). >CP000884.1/1357751-1357778 GUUCGCUGCCGCGUAGGCAGCUCAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) .(.(.(.((.(...)).).)....)..) >CR543861.1/2372998-2373025 CUUCACUACCGCACAGGUAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) .(.(.(.(..(...)..).)....)..) >CP000753.1/3865826-3865799 GUUCACCGCCGCACAGGCGGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) >CP000308.1/2201251-2201224 GUUCACUGCUGCACAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) >CP000127.1/3128418-3128445 GUUCACCGCCGCACAGGCGGUUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... .(.(.(....(...)....)....)..) >BX571865.1/44187-44214 GUGCACUGCCGUACAGGCAGCUUAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... >CP000749.1/3991340-3991313 GUUCACCGCCGAACAGGCGGCUUAGGUU ...(.(.............)....)... ...(.(....(...)....)....)... >AAZW01000025.1/63827-63854 GUGUCCUGCCGCAUAGGCAGCUAAGAAA ...(.(.............)....)... ...(.(....(...)....)....)... >CP000308.1/1471576-1471603 GUUCACUGUUGUACAGGCAGCUUAGAAG ...(.(.............)....)... ...(.(....(...)....)....)...

	ORB			p-value	ORB frequency (per structure per nucleotide)	Means ratio
1	(.N.().YNN.)			< 0.001		40.4

AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA .........1.........2........ 1234567890123456789012345678
2	(.R.)			< 0.001		4.29

AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA .........1.........2........ 1234567890123456789012345678
3	(U()NR)			< 0.001		14.3

AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA .........1.........2........ 1234567890123456789012345678
4	(U()A)			< 0.001		25.2

AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA .........1.........2........ 1234567890123456789012345678
5	((R)G)C			< 0.001		6.24

AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA .........1.........2........ 1234567890123456789012345678
	ORB			p-value	ORB frequency (per structure per nucleotide)	Means ratio

	NCM			p-value	NCM frequency (per structure per nucleotide)	Means ratio
1	(.N.().YNN.)			< 0.001		40.4

AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA AUUCACUGCUGAACAAGCAGCUUAGAAA .........1.........2........ 1234567890123456789012345678
2	.GYNYN.			< 0.001		38.2

AF316504.1/2339-2366 AUUCACUGCUGAACAAGCAGCUUAGAAA .........1.........2........ 1234567890123456789012345678
	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).