Locus 8047

Sequence ID 3L_DroMel_CAF1
Location 21,217,755 – 21,217,934
Length 179
Max. P 0.853270
window13148 window13149

overview

Window 8

Location 21,217,755 – 21,217,874
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 83.01
Mean single sequence MFE -25.87
Consensus MFE -22.54
Energy contribution -23.67
Covariance contribution 1.12
Combinations/Pair 1.18
Mean z-score -1.55
Structure conservation index 0.87
SVM decision value 0.59
SVM RNA-class probability 0.792909
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21217755 119 - 23771897
UUGAUGAUAAGUUCGCUGGGAACUUAUAUGAUGGGUUAUAUAACGAUUUCAUUAAUGGUUCUUUCCCACCAUAUACAAUUUUCAGCAUUUGCUA-UUGGCUUUCAAAGAAUUAAGCACAU
.((.((...(((((((((..((..((((((.((((......(((.(((.....))).)))....)))).))))))...))..))))....((..-...)).......)))))...)))). ( -27.30)
>DroSim_CAF1 84818 119 - 1
UUGAUGAUAAGUUCGCUGGGAACUUAUAUGAUGGGUUAUAUAACGAUUUCAUUAAUGGUUGUUCCCCACUAUAUAAAAUUUUCAGCAUUUGCUA-UUGGCAUUCAAAGAAUUAAGAACAU
..........((((((((..((.(((((((.((((....(((((.(((.....))).)))))..)))).)))))))..))..))))...(((..-...))).............)))).. ( -31.30)
>DroEre_CAF1 37203 119 - 1
CUAAUGAUAAAUUCGCUUGGAACUUAUAUGACGGGUUAUAUAACGAUUUCAU-GAUGGUUAUACUCCACUUUAUUACAUUCUUAGCAGUUGUUGGCAGGCUUUCUAAAACUUAAGAAAAU
((..((((((....(((.((((.....((((.(((...((((((.(((....-))).))))))..)).).))))....)))).)))..))))))..))..(((((........))))).. ( -19.00)
>consensus
UUGAUGAUAAGUUCGCUGGGAACUUAUAUGAUGGGUUAUAUAACGAUUUCAUUAAUGGUUAUUCCCCACUAUAUAAAAUUUUCAGCAUUUGCUA_UUGGCUUUCAAAGAAUUAAGAACAU
..........((((((((((((..((((((.((((....(((((.(((.....))).)))))..)))).))))))...))))))))....(((....)))..............)))).. (-22.54 = -23.67 +   1.12)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,217,834 – 21,217,934
Length 100
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.00
Mean single sequence MFE -25.18
Consensus MFE -16.29
Energy contribution -16.73
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.08
Structure conservation index 0.65
SVM decision value 0.80
SVM RNA-class probability 0.853270
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21217834 100 - 23771897
UUUGUGAGGCAUCCAAAACUU--------------------ACGCAUGGCACACAGCCGUAAAGCCCAAAUAAACAAAACUUGAUGAUAAGUUCGCUGGGAACUUAUAUGAUGGGUUAUA
...(((((..........)))--------------------))..(((((.....)))))..((((((......((.....))...((((((((.....))))))))....))))))... ( -24.30)
>DroSim_CAF1 84897 100 - 1
UUUGUGAGGCAGCCAAAACUU--------------------ACGCAUGGCACAAAGCCGUAAAGCCCAAAUAAACAAAACUUGAUGAUAAGUUCGCUGGGAACUUAUAUGAUGGGUUAUA
...(((((..........)))--------------------))..(((((.....)))))..((((((......((.....))...((((((((.....))))))))....))))))... ( -24.30)
>DroEre_CAF1 37282 120 - 1
UUUAUCAAGCAGCCAAAACUGUUGAUAAAAUCAAAAGGCCCUCGCAUGGCACAAAGCCGUAAGUCCCAAAUAAACAAAACCUAAUGAUAAAUUCGCUUGGAACUUAUAUGACGGGUUAUA
((((((((.(((......))))))))))).......((((((((...(((.....)))((((((.((((...........................)))).)))))).))).)))))... ( -26.93)
>consensus
UUUGUGAGGCAGCCAAAACUU____________________ACGCAUGGCACAAAGCCGUAAAGCCCAAAUAAACAAAACUUGAUGAUAAGUUCGCUGGGAACUUAUAUGAUGGGUUAUA
.............................................(((((.....)))))..(((((.......((........))((((((((.....)))))))).....)))))... (-16.29 = -16.73 +   0.45)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:48 2006