Locus 1915

Sequence ID 3R_DroMel_CAF1
Location 5,438,841 – 5,438,961
Length 120
Max. P 0.955320
window3147

overview

Window 7

Location 5,438,841 – 5,438,961
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.33
Mean single sequence MFE -25.30
Consensus MFE -22.58
Energy contribution -22.78
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.61
Structure conservation index 0.89
SVM decision value 1.45
SVM RNA-class probability 0.955320
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5438841 120 + 27905053
UAGUUUUUUGCACAAAAAUUUUCUCACGUAACAAGUACACCAGCCAGACAUGGAUCGGGAAAAACUUUUUCAGAAAACUGAAAAGUCCGACAAGACCGGACCAAGUAAUUUACUACGGCA
((((...((((.......(((((((..(((.....))).(((........)))...)))))))...(((((((....)))))))(((((.......)))))...))))...))))..... ( -26.50)
>DroSec_CAF1 25404 110 + 1
----------CACAAAAAUUUUCUCACGUAACAAGUACACCAGCCAGACAUGGAUCGGGAAAAACUUUUUCAGAAAACUGAAAAGUCCGACAAGACCGGACCAAGUAAUUUACUUCGGCA
----------........(((((((..(((.....))).(((........)))...)))))))...(((((((....)))))))(((((.......))))).(((((...)))))..... ( -21.80)
>DroSim_CAF1 20561 120 + 1
UAGUUUUUUGCACAAAAAUUUUCUCACGUAACAAGUACACCAGCCAGACAUGGAUCGGGAAAAACUUUUUCAGAAAACUGAAAAGUCCGACAAGACCGGACCAAGUAAUUUACUUCGGCA
.(((...((((.......(((((((..(((.....))).(((........)))...)))))))...(((((((....)))))))(((((.......)))))...))))...)))...... ( -25.00)
>DroEre_CAF1 25998 120 + 1
UAGUUUUUUGCACGAAAAUUUUCUCACGUAACAAGUACACCAGCCAGACAUGGGUCGGGAAAAACUUUUUCAGAAAACUGAAAAGUCCGACAAGAGCGGACCAAGUAAUUUACUUCGGCA
........(((.((((..((((((((((((.....))).(((........))))).)))))))((((((((((....)))))).(((((.(....)))))).)))).......))))))) ( -28.20)
>DroYak_CAF1 26426 120 + 1
UAGUUUUUUGCACAAAAAUUUUCUCACGUAACAAGUACACCAGCCAGACAUGGAUCGGGAAAAACUUUUUCAGAAAACUGAAAAGUCCGACAAGACCGGACCAAGUAAUUUACUUCGGCA
.(((...((((.......(((((((..(((.....))).(((........)))...)))))))...(((((((....)))))))(((((.......)))))...))))...)))...... ( -25.00)
>consensus
UAGUUUUUUGCACAAAAAUUUUCUCACGUAACAAGUACACCAGCCAGACAUGGAUCGGGAAAAACUUUUUCAGAAAACUGAAAAGUCCGACAAGACCGGACCAAGUAAUUUACUUCGGCA
.........((.......(((((((..(((.....))).(((........)))...)))))))((((((((((....)))))).(((((.......))))).))))...........)). (-22.58 = -22.78 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:43 2006