Locus 8066

Sequence ID X_DroMel_CAF1
Location 20,096,594 – 20,096,765
Length 171
Max. P 0.978666
window13235 window13236

overview

Window 5

Location 20,096,594 – 20,096,685
Length 91
Sequences 3
Columns 91
Reading direction forward
Mean pairwise identity 97.07
Mean single sequence MFE -22.07
Consensus MFE -21.50
Energy contribution -21.83
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.65
Structure conservation index 0.97
SVM decision value 1.82
SVM RNA-class probability 0.978666
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20096594 91 + 22224390
AAAUGGCGCGAUGACGAGAGUGAGUUUUAAAAAUGCAACCAGUGCAGAAAAGGACGUGGUGAACAGGUCGAAAAAGCGAGCAUCGCAAGAA
.......((((((((....))..(((((.....((((.....))))......(((.((.....)).)))...)))))...))))))..... ( -23.30)
>DroSec_CAF1 6463 90 + 1
AAAUGGCGC-AUGACGAGAGUGAGUUUUAAAAAUGCAACCAGUGCAGAAAAAGACGUGGUGAACAGGUCGAAAAAGCGAGCAUCGCAAAAA
.....(((.-(((((....))..(((((.....((((.....))))......(((.((.....)).)))...)))))...))))))..... ( -19.40)
>DroSim_CAF1 6485 91 + 1
AAGUGGCGCGAUGACGAGAGUGAGUUUUAAAAAUGCAACCAGUGCAGAAAAAGACGUGGUGAACAGGUCGAAAAAGCGAGCAUCGCAAGAA
.......((((((((....))..(((((.....((((.....))))......(((.((.....)).)))...)))))...))))))..... ( -23.50)
>consensus
AAAUGGCGCGAUGACGAGAGUGAGUUUUAAAAAUGCAACCAGUGCAGAAAAAGACGUGGUGAACAGGUCGAAAAAGCGAGCAUCGCAAGAA
.......((((((((....))..(((((.....((((.....))))......(((.((.....)).)))...)))))...))))))..... (-21.50 = -21.83 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,096,673 – 20,096,765
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 97.10
Mean single sequence MFE -20.73
Consensus MFE -20.95
Energy contribution -20.73
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.19
Structure conservation index 1.01
SVM decision value 1.55
SVM RNA-class probability 0.963103
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20096673 92 + 22224390
GCAUCGCAAGAAAGCAAUACCGGCAAAUAAAAAACAAUCGAAUGGCAAAUACAAAAUGAAUUGUGGGAUGCCAUCGGUGGCGAGUAGAGAUG
((.((((......((.......))............(((((.(((((..(((((......)))))...)))))))))).))))))....... ( -22.00)
>DroSec_CAF1 6541 92 + 1
GCAUCGCAAAAAAGCAAUACCGGCAAAUAAAAAACAAUCGAAUGGCAAAUAUAAAACGAAUUGUGGGAUGCCAUCGGUGGCGAGUAGAGAUU
((.((((......((.......))............(((((.(((((..(((((......)))))...)))))))))).))))))....... ( -20.10)
>DroSim_CAF1 6564 92 + 1
GCAUCGCAAGAAAGCAAUACCGGCAAAUAAAAAACAAUCGAAUGGCAAAUAUAAAACGAAUUGUGGGAUGCCAUCGGUGGCGAGUAGAGAUU
((.((((......((.......))............(((((.(((((..(((((......)))))...)))))))))).))))))....... ( -20.10)
>consensus
GCAUCGCAAGAAAGCAAUACCGGCAAAUAAAAAACAAUCGAAUGGCAAAUAUAAAACGAAUUGUGGGAUGCCAUCGGUGGCGAGUAGAGAUU
((.((((......((.......))............(((((.(((((..(((((......)))))...)))))))))).))))))....... (-20.95 = -20.73 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:34 2006