Locus 1357

Sequence ID X_DroMel_CAF1
Location 4,066,566 – 4,066,711
Length 145
Max. P 0.999547
window2160 window2161

overview

Window 0

Location 4,066,566 – 4,066,676
Length 110
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 87.23
Mean single sequence MFE -30.03
Consensus MFE -26.20
Energy contribution -26.16
Covariance contribution -0.04
Combinations/Pair 1.17
Mean z-score -3.09
Structure conservation index 0.87
SVM decision value 3.71
SVM RNA-class probability 0.999547
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4066566 110 - 22224390
GCCAAUGCAUCAACGUUGGCAUCAACGACCUUGGUAACUUGAUUGUUAUUUCCAACAAUAUCAACGCUAGGAUCGACUAUUAAAAAAAU-------GAUUUCAAGUACAUAAGUAAC
(((((((......))))))).....(((.((((((......((((((......))))))......)))))).)))..............-------..................... ( -22.60)
>DroSec_CAF1 79415 110 - 1
GCCAAUGCAUCAACGUUGGCAUCAACGACCUUGGUAACUUGGUUGUUAUUUCCAACAAUAUCAACACUGGGGUCGACUAUAACAAAAGU-------AAUUUCAAGUUCAUAGGUGAC
(((((((......))))))).(((.((((((..((......((((((......))))))......))..)))))).(((((((.(((..-------..)))...))).)))).))). ( -32.00)
>DroSim_CAF1 78403 110 - 1
GCCAAUGCAUCAACGUUGGCAUCAACGACCUUGGUAACUUGGUUGUUAUUUCCAACAAUAUCAACACUGGGGUCGACUAUAACAAAAGU-------AAUUUCAAGUUCAUAGGUGAC
(((((((......))))))).(((.((((((..((......((((((......))))))......))..)))))).(((((((.(((..-------..)))...))).)))).))). ( -32.00)
>DroEre_CAF1 78784 110 - 1
GCCAAUGCAUCAACGUUGGCAUCAGCGACCUUGGUAAUUUGGUUGUUAUUUCCAACAAUAUCAACGCUGGGGUCGACUAUUAAAUAAGU-------UAUUUAAGGUAUAUAAGUAAC
(((((((......)))))))...((((((((..((......((((((......))))))......))..)))))).)).........((-------((((((.......)))))))) ( -33.10)
>DroYak_CAF1 78482 117 - 1
GCCAACACAUCAACGUUGGCAUCAACGACCUUGGAAAUUUGGUUGUUAUUUCCAACAAUAUCAACGCUGGGGUCGACUAUUUUAUAAUUGUAUAAAUAUUUGAAGUACAUAAGUAAA
((((((........)))))).....((((((..(.......((((((......)))))).......)..)))))).....(((((...(((((...........)))))...))))) ( -30.44)
>consensus
GCCAAUGCAUCAACGUUGGCAUCAACGACCUUGGUAACUUGGUUGUUAUUUCCAACAAUAUCAACGCUGGGGUCGACUAUUAAAAAAGU_______AAUUUCAAGUACAUAAGUAAC
(((((((......))))))).....((((((((((......((((((......))))))......)))))))))).......................................... (-26.20 = -26.16 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 4,066,599 – 4,066,711
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.27
Mean single sequence MFE -34.94
Consensus MFE -24.08
Energy contribution -23.57
Covariance contribution -0.52
Combinations/Pair 1.44
Mean z-score -2.52
Structure conservation index 0.69
SVM decision value 1.95
SVM RNA-class probability 0.983660
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4066599 112 - 22224390
-----CAGUUCCAGUAAUUUUGCUAAGGACCGGGACAUUAGCCAAUGCAUCAACGUUGGCAUCAACGACCUUGGUAACUUGAUUGUUAUUUCCAAC---AAUAUCAACGCUAGGAUCGAC
-----..(((((.((..((.....))..)).)))))....(((((((......))))))).....(((.((((((......((((((......)))---)))......)))))).))).. ( -30.40)
>DroSec_CAF1 79448 112 - 1
-----UAGCUCCAGUUAUUUGGCUAAGGACCGGGACAUUAGCCAAUGCAUCAACGUUGGCAUCAACGACCUUGGUAACUUGGUUGUUAUUUCCAAC---AAUAUCAACACUGGGGUCGAC
-----..((((((((...(((((((((........).)))))))).........(((((.(..(((((((..(....)..)))))))..).)))))---.........)))))))).... ( -36.60)
>DroSim_CAF1 78436 112 - 1
-----UAGCUCCAGUUAUUUGGCUAAGGACCGGGACAUUAGCCAAUGCAUCAACGUUGGCAUCAACGACCUUGGUAACUUGGUUGUUAUUUCCAAC---AAUAUCAACACUGGGGUCGAC
-----..((((((((...(((((((((........).)))))))).........(((((.(..(((((((..(....)..)))))))..).)))))---.........)))))))).... ( -36.60)
>DroEre_CAF1 78817 112 - 1
-----CAGCUCCAGUUAUUUUGCUAAGGACCGGGAUAUUAGCCAAUGCAUCAACGUUGGCAUCAGCGACCUUGGUAAUUUGGUUGUUAUUUCCAAC---AAUAUCAACGCUGGGGUCGAC
-----(.((((((((((..(((((((((..((.(((....(((((((......))))))))))..)).)))))))))..))((((.((((......---)))).)))))))))))).).. ( -37.00)
>DroYak_CAF1 78522 112 - 1
-----CAGCUCCAGUUAUUUGGCUAAGGACCGGGGCAUUUGCCAACACAUCAACGUUGGCAUCAACGACCUUGGAAAUUUGGUUGUUAUUUCCAAC---AAUAUCAACGCUGGGGUCGAC
-----..(((((.(((.((.....)).))).)))))...(((((((........)))))))....((((((..(.......((((((......)))---))).......)..)))))).. ( -38.44)
>DroMoj_CAF1 116261 112 - 1
UGUAACCGUUCCAGCCCUGUUGGUCAGCACAUUGGCAUCCACAGCCGCAGGCACAUCGAGACCCACAAGUUGGCCAAAGAAAUUGUUAUUUCCACUAACGAUAUU---UUUGGGA-----
..........(((((..(((.((((.((......)).......(((...))).......)))).))).)))))(((((((.(((((((.......))))))).))---)))))..----- ( -30.60)
>consensus
_____CAGCUCCAGUUAUUUGGCUAAGGACCGGGACAUUAGCCAAUGCAUCAACGUUGGCAUCAACGACCUUGGUAACUUGGUUGUUAUUUCCAAC___AAUAUCAACGCUGGGGUCGAC
.......((((((((......(((((((.....((.....(((((((......))))))).)).....)))))))......((((.((((.........)))).)))))))))))).... (-24.08 = -23.57 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:16 2006