Locus 4407

Sequence ID 3R_DroMel_CAF1
Location 11,644,957 – 11,645,077
Length 120
Max. P 0.563424
window7196

overview

Window 6

Location 11,644,957 – 11,645,077
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.58
Mean single sequence MFE -34.48
Consensus MFE -29.16
Energy contribution -29.72
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.27
Structure conservation index 0.85
SVM decision value 0.06
SVM RNA-class probability 0.563424
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11644957 120 + 27905053
CAGCAACUUGUGAUCGCCUCAAACCAAAAGAAAUCCUCGGAAACAAAGUCGGCGCAAACAUCGGUAUCGCCGGAGGAGCAAUCAGAGGAGCAGUACACCAACAGCAAUUGGGGCGACAAG
......((((...(((((((((...........((((((....)....((((((...((....))..))))))..((....)).)))))((.((......)).))..))))))))))))) ( -36.60)
>DroSec_CAF1 25809 120 + 1
CAGCACCUUGUGAUCGCCUCAAAUCAAAAGAGAUCCUCGGAAACAAAGUCGGCGCAAACAUCGGUAUCGCCGGAGGAGCAAUCAGAGGAGCAGUACACCAACAGCGAUUGGGGCGACAAG
......((((...(((((((((.((....((..((((((....).....(((((...((....))..))))))))))....))......((.((......)).))))))))))))))))) ( -37.50)
>DroSim_CAF1 27995 120 + 1
CAGCACCUUGUGAUCGCCUCAAAUCAAAAGAGAUCAUCGGAAACAAAGUCGGCGCAAACAUCGGUAUCGCCGGAGGAGCAAUCAGAGGAGCAGUACACCAACAGCGAUUGGGGCGACAAG
......((((...(((((((((.((......(((..(((....)....((((((...((....))..))))))..))...)))......((.((......)).))))))))))))))))) ( -31.00)
>DroEre_CAF1 23704 120 + 1
CAGCACAUUGUGAUCGCCUCAAACCAAAAGAGAUCCUCGGAAACAAAGUCGGGACAGACAUCGGGAUCGCCGGAGGUGCAGUCAGAGGAGCAGUACACCAACACUAAUUGGGGCGACAAG
..........((.(((((((((.........((((((.(....)...(((......)))...))))))...((..((((.((.......)).)))).))........))))))))))).. ( -34.30)
>DroYak_CAF1 26295 120 + 1
CAGCAUAUGGUGAUCGCCUCAAACCAAAAGCGAUCAUCGGAAACAAAGUCGGCGCAACCAUCGGGAUCGCCGGAAGUUCAAUCAGAGGAGCAGUACACCAACGGUAAUUGGGGUGACAAG
........(((((((((............)))))))))(....)....((((((...((....))..))))))..((((........)))).((.((((............))))))... ( -33.00)
>consensus
CAGCACCUUGUGAUCGCCUCAAACCAAAAGAGAUCCUCGGAAACAAAGUCGGCGCAAACAUCGGUAUCGCCGGAGGAGCAAUCAGAGGAGCAGUACACCAACAGCAAUUGGGGCGACAAG
..........((.(((((((((...........((((((....)....((((((...((....))..))))))...........)))))((.((......)).))..))))))))))).. (-29.16 = -29.72 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:19 2006