Locus 3416

Sequence ID X_DroMel_CAF1
Location 9,129,650 – 9,129,742
Length 92
Max. P 0.698449
window5589

overview

Window 9

Location 9,129,650 – 9,129,742
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 77.54
Mean single sequence MFE -29.29
Consensus MFE -19.42
Energy contribution -23.04
Covariance contribution 3.62
Combinations/Pair 1.08
Mean z-score -1.70
Structure conservation index 0.66
SVM decision value 0.35
SVM RNA-class probability 0.698449
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9129650 92 + 22224390
GGCCAAAGAGAGUCGUUCUCGUUCCAAUUGGCUCGCGAGGCAAGUGGAAAAACGAUUGGAUUCGACUCAGAGCCGAGCUCAAUCGUCUCGCG
((((((...(((.((....)))))...))))))((((((((..((......))(((((..((((.(.....).))))..))))))))))))) ( -33.50)
>DroSec_CAF1 5652 92 + 1
GGCCAAAGAGAGCCGUUCUCGUUCCAAUUGGCUCGCGAGGCAAGUGGAAAAACGAUUGGAUUCGACUCAGAGCCGAGCUCAAUCGCCUCGCG
((((((...((((.......))))...))))))((((((((..((......))(((((..((((.(.....).))))..))))))))))))) ( -36.70)
>DroSim_CAF1 4316 92 + 1
GGCCAAAGAGAGCCGUUCUCGUUUCAAUUGGCUCGCGAGGCAAGUGGAAAAACGAUUGGAUUNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
.(((...(.((((((.............)))))).)..)))..((......))....................................... ( -14.32)
>DroYak_CAF1 5612 84 + 1
--------AGAGCCGUUCUCGUUCCAAUUGGCUCGCGAGGCAAGUGGAAAAACGAUUGGAUUCGACUCAGAGCCGAGCUCAUUCGCCUCGCG
--------.((((((.............))))))(((((((..((......))((.((..((((.(.....).))))..)).))))))))). ( -32.62)
>consensus
GGCCAAAGAGAGCCGUUCUCGUUCCAAUUGGCUCGCGAGGCAAGUGGAAAAACGAUUGGAUUCGACUCAGAGCCGAGCUCAAUCGCCUCGCG
.........((((((.............))))))(((((((..((......))(((((..((((.(.....).))))..)))))))))))). (-19.42 = -23.04 +   3.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:50 2006