Locus 2339

Sequence ID X_DroMel_CAF1
Location 6,267,495 – 6,267,615
Length 120
Max. P 0.957117
window3801

overview

Window 1

Location 6,267,495 – 6,267,615
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -33.10
Consensus MFE -31.95
Energy contribution -32.20
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.84
Structure conservation index 0.97
SVM decision value 1.47
SVM RNA-class probability 0.957117
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6267495 120 - 22224390
AAAGUGUCGAAAAUGCGAGUCAAGGCGCCGUUUUUGCAAUUUGUGUGCGACGCGAUGUCAAAAUACAUUGCCAGCUACAAAAACAACAGUAGCAACAGCAACAAAAACCGCACAUGGCAA
....((.((((((((.(.((....)).)))))))))))..(..((((((..(((((((......)))))))..(((((..........)))))...............))))))..)... ( -33.40)
>DroSec_CAF1 9682 120 - 1
AAAGUGUCGAAAAUGCGAGUCAAGGCGACGUUUUUGCAAUUUGUGUGCGACGCGAUGUCAAAAUACAUUGCCAGCAACAAAAACAACAGUAGCAACAGCAACAAAAUCCGCACAUGGCAA
....(((((....((((.(((.....)))(((.((((..(((((.(((...(((((((......)))))))..)))))))).((....)).)))).))).........))))..))))). ( -30.60)
>DroSim_CAF1 11031 120 - 1
AAAGUGUCGAAAAUGCGAGUCAAGGCGCCGUUUUUGCAAUUUGUGUGCGACGCGAUGUCAAAAUACAUUGCCAGCUACAAAAACAACAGUAGCAACAGCAACAAAAACCGCACAUGGCAA
....((.((((((((.(.((....)).)))))))))))..(..((((((..(((((((......)))))))..(((((..........)))))...............))))))..)... ( -33.40)
>DroYak_CAF1 6803 120 - 1
AAAGUGUCGAAAAUGCGAGUCAAGGCGCCGUUUUUGCAAUUUGUGUGCGACGCGAUGUCAAAAUACAUUGCCAGCUACAAAAACAACAGUAGCAACAGCAACACAAACCGCACAUGGCAA
......(((......)))((....))(((((...(((..(((((((((...(((((((......)))))))..(((((..........)))))....)).)))))))..))).))))).. ( -35.00)
>consensus
AAAGUGUCGAAAAUGCGAGUCAAGGCGCCGUUUUUGCAAUUUGUGUGCGACGCGAUGUCAAAAUACAUUGCCAGCUACAAAAACAACAGUAGCAACAGCAACAAAAACCGCACAUGGCAA
....((((.(((.((((((....(....)...)))))).)))(((((((..(((((((......)))))))..(((((..........)))))...............))))))))))). (-31.95 = -32.20 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:05 2006