Locus 4457

Sequence ID 3R_DroMel_CAF1
Location 11,802,224 – 11,802,333
Length 109
Max. P 0.628452
window7284

overview

Window 4

Location 11,802,224 – 11,802,333
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 92.66
Mean single sequence MFE -35.82
Consensus MFE -28.09
Energy contribution -29.01
Covariance contribution 0.92
Combinations/Pair 1.10
Mean z-score -1.57
Structure conservation index 0.78
SVM decision value 0.19
SVM RNA-class probability 0.628452
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11802224 109 - 27905053
AGCCUUUCCCACCGCAAUCCAAUCGACCAAUAAAGACUGGACACGUGGUCGAGGAAGGCAAAAGACAUGGACGACCUAGUCGGUACUGGUAUGGAUUUCCUGGGAGGCA
.(((..(((((....((((((....((((.((..((((((...(((.(((.............)))....)))..))))))..)).)))).))))))...)))))))). ( -35.12)
>DroSec_CAF1 6504 109 - 1
AGCCUUUCCCACCGCAAUCCAAUCGACCAAUAAAGACUGGACACGUGGCCGAGGAAGGCUAAAGACAUGGACGACCGAGUCGGUAAUGGUAUGGAUUUCCUGGGAGGCA
.(((..(((((....((((((....((((.((..((((.......(((((......)))))......(((....)))))))..)).)))).))))))...)))))))). ( -36.50)
>DroSim_CAF1 6646 109 - 1
AGCCUUUCCCACCGCAAUCCAAUCGACCAAUAAAGACUGGACACGUGGCCGAGGAAGGCUAAAGACAUGGACGACCGAGUCGGUGCUGGUAUGGAUUUCCUGGGAGGCA
.(((..((((.((((..((((.((..........)).))))...))))...((((((.(((.((.(((.(((......))).)))))....))).))))))))))))). ( -36.60)
>DroEre_CAF1 6556 109 - 1
UGCCUUUCCCACCGCAAUCCAAUCGACCAAUAAAGACUGGACACGUGGUCGAGGAAAGCAAAAGACAUGGACUAUCGAGUCGGUGCUGGGUUGGAUUUCCUGGGGAGCA
.((..((((((((((..((((.((..........)).))))...)))))..((((((.(((.((.(((.((((....)))).)))))...)))..))))))))))))). ( -36.40)
>DroYak_CAF1 6583 109 - 1
AGGCUUUUCCACCGCAAUCCAAUCGACCAAUAAAUACUGGACACGUGGUCGAGAAAGGCAAAAGACAUGGACUACCGAGUCGGUGCUGGUUUGGAUUUCCUGGGAAGCA
..(((((.(((....((((((((((((((................)))))))....((((...(((.(((....))).)))..))))...)))))))...)))))))). ( -34.49)
>consensus
AGCCUUUCCCACCGCAAUCCAAUCGACCAAUAAAGACUGGACACGUGGUCGAGGAAGGCAAAAGACAUGGACGACCGAGUCGGUGCUGGUAUGGAUUUCCUGGGAGGCA
.(((..(((((((((..(((..(((((((................))))))))))..))....(((.(((....))).))))))........((....)).))))))). (-28.09 = -29.01 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:44 2006