Locus 2071

Sequence ID X_DroMel_CAF1
Location 5,669,496 – 5,669,611
Length 115
Max. P 0.939478
window3366 window3367

overview

Window 6

Location 5,669,496 – 5,669,611
Length 115
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.09
Mean single sequence MFE -30.40
Consensus MFE -27.15
Energy contribution -27.93
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -2.62
Structure conservation index 0.89
SVM decision value 1.28
SVM RNA-class probability 0.939478
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5669496 115 + 22224390
----GAGUUAUUUCGAAAUACUACUGAUUUAGCUGAAGAAAUUAUGCAGCG-UAGUUGUUAAAGCUGUGCUUUUCAACCUCCACUUUUAUGGCUGUGAAAUUUCUGCAGCUUAGUUACAG
----(((....)))..........(((((.(((((.(((((((.(((((((-..((((..(((((...))))).))))..)..(......))))))).))))))).))))).)))))... ( -29.40)
>DroSec_CAF1 8529 114 + 1
----AAGUUAUUUCGAAAUACUACUGAUUUAGCUGAAGAAAUUAUGCAGAGGAAGUUGUUAAAGCA--GCAUUUCAACCUCCACUUUUAUGGCUGUAAAAUUUCUGCAGCUUAGUUACAC
----....................(((((.(((((.(((((((.(((((.(((((((((....)))--)).)))).....(((......)))))))).))))))).))))).)))))... ( -29.40)
>DroSim_CAF1 9330 118 + 1
UUUCGAGUUAUUUCGAAAUACUACUGAUUUAGCUGAAGAAAUUAUGCAGAGGAAGUUGUUAAAGCU--GCUUUUCAACCUCCACUUUUAUGGCUGUGAAAUUUCUGCAGCUUAGUUACAC
(((((((....)))))))......(((((.(((((.(((((((.(((((.(((.((((..((((..--.)))).)))).))).(......).))))).))))))).))))).)))))... ( -32.40)
>consensus
____GAGUUAUUUCGAAAUACUACUGAUUUAGCUGAAGAAAUUAUGCAGAGGAAGUUGUUAAAGCU__GCUUUUCAACCUCCACUUUUAUGGCUGUGAAAUUUCUGCAGCUUAGUUACAC
........................(((((.(((((.(((((((.(((((.(((.((((..(((((...))))).)))).))).(......).))))).))))))).))))).)))))... (-27.15 = -27.93 +   0.78)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 5,669,496 – 5,669,611
Length 115
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.09
Mean single sequence MFE -25.45
Consensus MFE -23.01
Energy contribution -23.34
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.90
SVM decision value 0.63
SVM RNA-class probability 0.804811
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5669496 115 - 22224390
CUGUAACUAAGCUGCAGAAAUUUCACAGCCAUAAAAGUGGAGGUUGAAAAGCACAGCUUUAACAACUA-CGCUGCAUAAUUUCUUCAGCUAAAUCAGUAGUAUUUCGAAAUAACUC----
(((......(((((.(((((((...(((((((....)))(.(((((.(((((...)))))..))))).-)))))...))))))).)))))....)))...................---- ( -26.60)
>DroSec_CAF1 8529 114 - 1
GUGUAACUAAGCUGCAGAAAUUUUACAGCCAUAAAAGUGGAGGUUGAAAUGC--UGCUUUAACAACUUCCUCUGCAUAAUUUCUUCAGCUAAAUCAGUAGUAUUUCGAAAUAACUU----
.....(((((((((.(((((((...(((..........((((((((......--........)))))))).)))...))))))).))))).......))))...............---- ( -22.55)
>DroSim_CAF1 9330 118 - 1
GUGUAACUAAGCUGCAGAAAUUUCACAGCCAUAAAAGUGGAGGUUGAAAAGC--AGCUUUAACAACUUCCUCUGCAUAAUUUCUUCAGCUAAAUCAGUAGUAUUUCGAAAUAACUCGAAA
.....(((((((((.(((((((...(((..........((((((((.((((.--..))))..)))))))).)))...))))))).))))).......)))).((((((......)))))) ( -27.21)
>consensus
GUGUAACUAAGCUGCAGAAAUUUCACAGCCAUAAAAGUGGAGGUUGAAAAGC__AGCUUUAACAACUUCCUCUGCAUAAUUUCUUCAGCUAAAUCAGUAGUAUUUCGAAAUAACUC____
.....(((((((((.(((((((...(((((((....)))).(((((.(((((...)))))..)))))....)))...))))))).))))).......))))................... (-23.01 = -23.34 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:32 2006