Locus 2062

Sequence ID X_DroMel_CAF1
Location 5,661,991 – 5,662,111
Length 120
Max. P 0.535569
window3353

overview

Window 3

Location 5,661,991 – 5,662,111
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.97
Mean single sequence MFE -37.40
Consensus MFE -28.77
Energy contribution -29.27
Covariance contribution 0.50
Combinations/Pair 1.13
Mean z-score -1.41
Structure conservation index 0.77
SVM decision value 0.00
SVM RNA-class probability 0.535569
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5661991 120 + 22224390
GGUGGAGUAGUGGGUCGGAAAUGGACUUGGCCAGGGAUUAUGCCACUGAAACUUAUGGAAGUGAAAUCGAGCGCGCGAAGUUCAAGUGGCAGCCAUUGUCCACCUCGGAAAACACACACA
.(((.....(((..((.((..(((((.((((.........(((((((..(((((......(((........)))...)))))..)))))))))))..)))))..)).))...))).))). ( -39.10)
>DroSec_CAF1 1641 118 + 1
GGUGGGGUAGUGGGGCGGAAAUGGACUUGGCCAGGGAUUAUGCCACUGAAACUUAUGGAAGUGAAAUCGAGCGCGCGAAGUUCAAGUGGCAGCCAUUGUCCACCUCGGAAAACAC--ACA
.((((..(..(((((.((((((((.(((....))).....(((((((..(((((......(((........)))...)))))..))))))).))))).))).)))))..)..).)--)). ( -38.00)
>DroAna_CAF1 6749 106 + 1
----------GGGCCACGAGGAGGUCCUGCAAGGGGAUUAUGCCACUGAAACUUAUGGAAGUGAAAUCGAGCGCGUGAAGUUCAAGUGGCAGCCAUUGUCCACCUCGGAAAACA----CA
----------......(((((.((....((((..((....(((((((..(((((......(((........)))...)))))..))))))).)).)))))).))))).......----.. ( -33.80)
>DroSim_CAF1 1647 118 + 1
GGUGGGGAAGUGGGGCGGAAAUGGACUUGGCCAGGGAUUAUGCCACUGAAACUUAUGGAAGUGAAAUCGAGCGCGCGAAGUUCAAGUGGCAGCCAUUGUCCACCUCGGAAAACAC--ACA
((((((..((((((((.((.......)).)))........(((((((..(((((......(((........)))...)))))..))))))).))))).))))))...........--... ( -38.70)
>consensus
GGUGGGGUAGUGGGGCGGAAAUGGACUUGGCCAGGGAUUAUGCCACUGAAACUUAUGGAAGUGAAAUCGAGCGCGCGAAGUUCAAGUGGCAGCCAUUGUCCACCUCGGAAAACAC__ACA
...........((((.((((((((.(((....))).....(((((((..(((((......(((........)))...)))))..))))))).))))).))).)))).............. (-28.77 = -29.27 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:19 2006