Locus 1725

Sequence ID X_DroMel_CAF1
Location 4,801,581 – 4,801,686
Length 105
Max. P 0.558387
window2832

overview

Window 2

Location 4,801,581 – 4,801,686
Length 105
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 82.91
Mean single sequence MFE -29.87
Consensus MFE -22.18
Energy contribution -25.30
Covariance contribution 3.12
Combinations/Pair 1.08
Mean z-score -1.64
Structure conservation index 0.74
SVM decision value 0.05
SVM RNA-class probability 0.558387
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4801581 105 + 22224390
AGUUUCGUUGGUCACCUAACGGUUGUUUUCCAAAAGGCUGACGUCAAUAAAUGCUGCAGCCCAAAAGUAUGCUAUGCUUUUCUGUGAGUUAA------------ACAGUAGCUUUUU
(((..(.((((.((((....)).))....))))..(((((.((.((.....)).))))))).....)...)))..(((...((((.......------------)))).)))..... ( -22.20)
>DroSec_CAF1 8786 117 + 1
AGUUGCGUUAGUCUCCUAACGGUUGUUUUCCAAAAAGCUGACGGCCAUUUAUGCCGCAGCCCAAAAGUAUGCAAUGCUUUUUAGCCAUUAAAGAAGACGACAUGAAAGUAGCUUUUU
(((((((((((....))))).(((((((((......((((.((((.......))))))))..((((((((...))))))))...........)))))))))......)))))).... ( -35.20)
>DroSim_CAF1 8684 117 + 1
AGUUGCGUUGGUCUCCUAACGGUUGUUUUCCAAAAAGCUGACGGCCAUUAAUGUCGCAGCCCAAAAGUAUGCAAUGCUUUUUAGCGAUUAAAGAAGACGACAUGAAAGUAGCUUUUU
(((((((((((....))))).(((((((((......((((.((((.......))))))))..((((((((...))))))))...........)))))))))......)))))).... ( -32.20)
>consensus
AGUUGCGUUGGUCUCCUAACGGUUGUUUUCCAAAAAGCUGACGGCCAUUAAUGCCGCAGCCCAAAAGUAUGCAAUGCUUUUUAGCGAUUAAAGAAGACGACAUGAAAGUAGCUUUUU
(((((((((((....))))).(((((((((......((((.((((.......))))))))..((((((((...))))))))...........)))))))))......)))))).... (-22.18 = -25.30 +   3.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:34 2006