Locus 5567

Sequence ID X_DroMel_CAF1
Location 14,384,565 – 14,384,670
Length 105
Max. P 0.554198
window9035

overview

Window 5

Location 14,384,565 – 14,384,670
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 93.20
Mean single sequence MFE -22.09
Consensus MFE -18.19
Energy contribution -17.88
Covariance contribution -0.31
Combinations/Pair 1.12
Mean z-score -1.57
Structure conservation index 0.82
SVM decision value 0.04
SVM RNA-class probability 0.554198
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14384565 105 + 22224390
GCGCAAUUAGCGCAAAUAGCGUAAAUGUGCAACUUGCAACCACCCACGCACGAGCUAAACAGCAGCAUCACCCCAUCUAAGCGCCCAACUAGUGGCAAAACACCA
((((.(((.((((.....)))).)))((((..(.(((..........))).).(((....))).))))............)))).......(((......))).. ( -21.70)
>DroSec_CAF1 100606 101 + 1
GCGCAAUUAGCGCAAAUGGCGUAAAUGUGCAACUUGCAACCACCCACGCACGAGCCAAACAGCAGCA----CCCAUCUAAGCGCCCAACUAGUGGCAAAACACCA
((((.....))))....(((((....((((..(.(((..........))).).((......)).)))----)........)))))......(((......))).. ( -23.00)
>DroSim_CAF1 95492 101 + 1
GCGCAAUUAGCGCAAAUGGCGUAAAUGUGCAACUUGCAACCACCCACGCACGAGCCAAACAGCAGCA----CCCAUCUAAGCGCCCAACUAGUGGCAAAACACCA
((((.....))))....(((((....((((..(.(((..........))).).((......)).)))----)........)))))......(((......))).. ( -23.00)
>DroYak_CAF1 102295 101 + 1
GCGCAAUUAGCGCAAAUGGCGUAAAUGUGCAAGUUGCAACCACCCACGCACGAGCCGAAUAACAGCA----CCCAUCUAACCACCCAACUGCUGGCAAAACACCA
(((((.((.((((.....)))).)))))))...((((..........((....)).......(((((----..................)))))))))....... ( -20.67)
>consensus
GCGCAAUUAGCGCAAAUGGCGUAAAUGUGCAACUUGCAACCACCCACGCACGAGCCAAACAGCAGCA____CCCAUCUAAGCGCCCAACUAGUGGCAAAACACCA
((((.....))))...((((.....(((((.................))))).)))).........................(((........)))......... (-18.19 = -17.88 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:05 2006