Locus 2905

Sequence ID 2R_DroMel_CAF1
Location 10,034,329 – 10,034,438
Length 109
Max. P 0.574970
window4792

overview

Window 2

Location 10,034,329 – 10,034,438
Length 109
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 90.80
Mean single sequence MFE -33.30
Consensus MFE -24.50
Energy contribution -24.90
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.74
SVM decision value 0.08
SVM RNA-class probability 0.574970
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10034329 109 + 20766785
CGAGG----------AGUGCGAGUCCUGGCAACAUGAGUAAGUCAGCGUUAAUUAAGUCAGGACACAAUACAAAUGGCCAGCGCAUCUAAAUGUGCAUUGCAUUCCAGCGAAUUUGCAU
...((----------((((((((((((((((((.(((.....)))..)))......))))))))................((((((....)))))).))))))))).(((....))).. ( -36.10)
>DroSec_CAF1 5307 109 + 1
CGGGG----------AGUGCGAGUCCUGGCAACAUGAGUAAGUCAGCGUUAAUUAAGUCAGGACACAAUACAAAUGGCCAGCGCAUCUAAAUGUGCAUUGCAUUCCAGCGAAUUUGCAU
...((----------((((((((((((((((((.(((.....)))..)))......))))))))................((((((....)))))).))))))))).(((....))).. ( -35.90)
>DroSim_CAF1 5503 109 + 1
CGGGG----------GGUGCGAGUCCUGGCAACAUGAGUAAGUCAGCGUUAAUUAAGUCAGGACACAAUACAAAUGGCCAGCGCAUCUAAAUGUGCAUUGCAUUCCAGCGAAUUUGCAU
...((----------((((((((((((((((((.(((.....)))..)))......))))))))................((((((....)))))).))))))))).(((....))).. ( -34.90)
>DroEre_CAF1 7255 114 + 1
CAGGGAGCAGGGGGUUGUGCGAGUCCUGGCAACAUGAGUAAGUCAGCGUUAAUUAAGUCAGGACACAAUACAAAUAGCCAGCGCAUCUAAAAGUGCAUU-----GCUGCGAAUUUGCAU
......(((((...(((((((((((((((((((.(((.....)))..)))......))))))))................((((........)))).))-----)).)))).))))).. ( -30.50)
>DroYak_CAF1 6269 109 + 1
CGGGG----------UGUGCGAGUCCUGGCAACAUGAGUAAGUCAGCGUUAAUUAAGUCAGGACACAAUACAAAUGGCCAGCGCAUCUAAAAGUGCAUUCCAUGGCUGCGAAUUUGCAU
.((((----------((..(..(((((((((((.(((.....)))..)))......))))))))............((....))........)..)))))).....((((....)))). ( -29.10)
>consensus
CGGGG__________AGUGCGAGUCCUGGCAACAUGAGUAAGUCAGCGUUAAUUAAGUCAGGACACAAUACAAAUGGCCAGCGCAUCUAAAUGUGCAUUGCAUUCCAGCGAAUUUGCAU
................(((((((((((((((((.(((.....)))..)))......))))))))................((((((....)))))).................)))))) (-24.50 = -24.90 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:22 2006