Locus 863

Sequence ID X_DroMel_CAF1
Location 2,443,463 – 2,443,615
Length 152
Max. P 0.888542
window1392 window1393

overview

Window 2

Location 2,443,463 – 2,443,575
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -35.73
Consensus MFE -29.62
Energy contribution -32.40
Covariance contribution 2.78
Combinations/Pair 1.04
Mean z-score -2.00
Structure conservation index 0.83
SVM decision value -0.01
SVM RNA-class probability 0.527361
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2443463 112 + 22224390
CAAGUGCCUGAAGACGUAUACGGGUCACAAGAAUGAGAAGUACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCAC--------AUUUAGGCUUUA
.....(((((((..((....)).((((.((((((((...(.....)..(((((((..(((((((....)))))))...))))))))))).)))).)).))--------.))))))).... ( -35.10)
>DroSec_CAF1 4374 120 + 1
CAAGUGCCUGAAGACGUAUACGGGUCACAAGAACGAGAAGUACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCACACUAAAACAUUGAGGCUUUA
.....((((.(((((........)))............(((..((((((((((((..(((((((....)))))))...))))))).........))))).)))......)).)))).... ( -34.00)
>DroSim_CAF1 6527 120 + 1
CAAGUGCCUGAAGACGUAUACGGGUCACAAGAACGAGAAGUACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUGUGCACACUAAAACAUUGAGGCUUUG
((((.((((.((..((....)).(((((((((((.....)).......(((((((..(((((((....)))))))...))))))).....))))))).)).........)).)))))))) ( -38.10)
>consensus
CAAGUGCCUGAAGACGUAUACGGGUCACAAGAACGAGAAGUACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCACACUAAAACAUUGAGGCUUUA
.....((((.(((((........))).................((((((((((((..(((((((....)))))))...))))))).........)))))..........)).)))).... (-29.62 = -32.40 +   2.78) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,443,503 – 2,443,615
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.78
Mean single sequence MFE -41.63
Consensus MFE -35.52
Energy contribution -38.63
Covariance contribution 3.11
Combinations/Pair 1.03
Mean z-score -2.68
Structure conservation index 0.85
SVM decision value 0.95
SVM RNA-class probability 0.888542
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2443503 112 + 22224390
UACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCAC--------AUUUAGGCUUUAACUCACAAGCGUCCAUUGUAGUGGAUCGUGAGUGGCAGCG
...((((((((((((..(((((((....)))))))...))))))).........))))).--------......(((...((((((....((((((....)))))).))))))...))). ( -40.70)
>DroSec_CAF1 4414 120 + 1
UACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCACACUAAAACAUUGAGGCUUUAACUCACAAGCGUCCAUUGCAGUGGAUCGUGAGUGGCAGCG
....((..(((((((..(((((((....)))))))...)))))))..........(((.((((.......((((.......))))...((((((((....))))).))).))))))))). ( -41.70)
>DroSim_CAF1 6567 120 + 1
UACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUGUGCACACUAAAACAUUGAGGCUUUGACUCACAAGCGUCGAUUGCAGUGGAUCGUGAGUGGCAGCG
..((((..(((((((..(((((((....)))))))...)))))))((((((((..((((.........(((((.((((........)))).)))))))))..)))).))))...)))).. ( -42.50)
>consensus
UACUGCAUAUUCGCCAACUUCUCGGUGACGGGAGGAAAGGUGAGUUCAUAUCUUAUGCACACUAAAACAUUGAGGCUUUAACUCACAAGCGUCCAUUGCAGUGGAUCGUGAGUGGCAGCG
...((((((((((((..(((((((....)))))))...))))))).........)))))...............(((...((((((....((((((....)))))).))))))...))). (-35.52 = -38.63 +   3.11) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:36 2006