Locus 5336

Sequence ID 2L_DroMel_CAF1
Location 15,109,944 – 15,110,037
Length 93
Max. P 0.521902
window8474

overview

Window 4

Location 15,109,944 – 15,110,037
Length 93
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 84.05
Mean single sequence MFE -24.37
Consensus MFE -18.78
Energy contribution -19.42
Covariance contribution 0.64
Combinations/Pair 1.09
Mean z-score -1.58
Structure conservation index 0.77
SVM decision value -0.02
SVM RNA-class probability 0.521902
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15109944 93 + 22407834
CACAGCAACAACAAUUACGUGAACUUCAAUCAGUUCAUUAUGCAGCACAAUCUGGGUGGAGGAGCGCCCUCGAAUGCCAC------------CAGCACUAUGCAA
....(((...........(((((((......)))))))..(((..((.....))(((((..(((....))).....))))------------).)))...))).. ( -20.00)
>DroSec_CAF1 54097 93 + 1
CAGGGCAACAACAAUUACGUGAACUUCAAUCAGUUCAUUAUGCAGCACAAUCUGGGUGGAGGAGCGCCCUCCAAUGCCGC------------CAGCACUAUGCAA
...(((............(((((((......)))))))...............((.((((((.....))))))...))))------------).((.....)).. ( -24.80)
>DroSim_CAF1 51795 93 + 1
CAGGGCAACAACAAUUACGUGAACUUCAAUCAGUUCAUUAUGCAGCACAAUCUGGGUGGAGGAGCACCCUCCAAUGCCAC------------CAGCACUAUGCAA
...(....).........(((((((......)))))))..((((.......((((.((((((.....))))))......)------------))).....)))). ( -25.00)
>DroEre_CAF1 55713 93 + 1
CAUGGCAACAACAAUUACGUGAACUUCAAUCAGUUUAUAAUGCAGCACAAUCUGGGUGGUGGAGCGCCCACCAAUGCCAC------------AAGCACUAUGCAA
..(((((...........(((((((......))))))).((.(((......))).))(((((.....)))))..))))).------------..((.....)).. ( -23.10)
>DroYak_CAF1 69472 93 + 1
CACGGCAACAACAAUUACGUGAACUUUAAUCAGUUCAUCAUGCAGCACAAUCUGGGUGGAGGACCGCCCUCCAAUGCCAC------------UGGCACUAUGCAA
...(....).........(((((((......)))))))..((((.........((((((....)))))).....((((..------------.))))...)))). ( -25.10)
>DroAna_CAF1 59784 102 + 1
GGCGGCAACAACAACUAUGUGAACUUCAACCAGUUCAUCAUGCAGCUGAACCUCGGAGGAGGUGC---CCCCAAUGCCGCAAACUCAAGCUCCAGCUACAUGCAA
.((((((........((((((((((......)))))).))))..((...(((((....)))))))---......)))))).......(((....)))........ ( -28.20)
>consensus
CACGGCAACAACAAUUACGUGAACUUCAAUCAGUUCAUUAUGCAGCACAAUCUGGGUGGAGGAGCGCCCUCCAAUGCCAC____________CAGCACUAUGCAA
...((((...........(((((((......))))))).((.(((......))).))(((((.....)))))..))))................((.....)).. (-18.78 = -19.42 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:39 2006