Locus 8059

Sequence ID X_DroMel_CAF1
Location 20,090,178 – 20,090,337
Length 159
Max. P 0.980216
window13226 window13227

overview

Window 6

Location 20,090,178 – 20,090,298
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.08
Mean single sequence MFE -38.37
Consensus MFE -36.27
Energy contribution -35.83
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -2.94
Structure conservation index 0.95
SVM decision value 1.86
SVM RNA-class probability 0.980216
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20090178 120 + 22224390
AAGGUGGAAUAAUGCCGGCAACGAGGAGGGGUGAGAGUGGGGCAUUUGGGGAAAGAGUGCUCGGAAGGACAACAGAAUCCUGCAGAGCAUUUCGAGUGUCCCAUAAGUGAGGCGGAAGGC
............(((((....)..............((((((((((((......((((((((...((((........))))...))))))))))))))))))))......))))...... ( -38.90)
>DroSec_CAF1 234 117 + 1
AAGGCGGAAUAAUGCCGGCAACAAGGAGUG--GAGAGUGGGGCAU-UGAGGAAAGAGUGCUCGGAAGGACAACAGAAUCCUGCAGAGCAUUUCGAGUGUCCCAUAAGUGAGGCGGAAGGC
..((((......))))(....)........--....(((((((((-(..(((....((((((...((((........))))...))))))))).))))))))))......(.(....).) ( -37.20)
>DroSim_CAF1 276 117 + 1
AAGGCGGAAUAAUGCCGGCAACAAGGAGUG--GAGAGUGGGGCAU-UGGGGAAAGAGUGCUCGGAAGGACAACAGAAUCCUGCAGAGCAUUUCGAGUGUCCCAUAAGUGAGGCGGAAGGC
..((((......))))(....)........--....(((((((((-(.(.....((((((((...((((........))))...))))))))).))))))))))......(.(....).) ( -39.00)
>consensus
AAGGCGGAAUAAUGCCGGCAACAAGGAGUG__GAGAGUGGGGCAU_UGGGGAAAGAGUGCUCGGAAGGACAACAGAAUCCUGCAGAGCAUUUCGAGUGUCCCAUAAGUGAGGCGGAAGGC
..((((......))))(....)..............(((((((((.(((......(((((((...((((........))))...)))))))))).)))))))))......(.(....).) (-36.27 = -35.83 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,090,218 – 20,090,337
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.65
Mean single sequence MFE -35.90
Consensus MFE -33.83
Energy contribution -33.83
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.94
SVM decision value 0.36
SVM RNA-class probability 0.704309
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20090218 119 + 22224390
GGCAUUUGGGGAAAGAGUGCUCGGAAGGACAACAGAAUCCUGCAGAGCAUUUCGAGUGUCCCAUAAGUGAGGCGGAAGGCUCCGUAUUU-AUAUUGGUACACUUCAGAAAACAAGCAUUC
.((...........((((((((...((((........))))...)))))))).((((((.(((...((((((((((....))))).)))-))..))).))))))..........)).... ( -35.00)
>DroSec_CAF1 272 119 + 1
GGCAU-UGAGGAAAGAGUGCUCGGAAGGACAACAGAAUCCUGCAGAGCAUUUCGAGUGUCCCAUAAGUGAGGCGGAAGGCUCCGUAUUUUUUAUUGGUACACUUCAAAAAACAAGCAGUC
.((.(-((......((((((((...((((........))))...)))))))).((((((((.(((((....(((((....)))))....))))).)).)))))).......))))).... ( -36.50)
>DroSim_CAF1 314 118 + 1
GGCAU-UGGGGAAAGAGUGCUCGGAAGGACAACAGAAUCCUGCAGAGCAUUUCGAGUGUCCCAUAAGUGAGGCGGAAGGCUCCGUAUUU-AUAUUGGUACACUUCAAAAAACAAGCAGUC
.((.(-((......((((((((...((((........))))...)))))))).((((((.(((...((((((((((....))))).)))-))..))).)))))).......))))).... ( -36.20)
>consensus
GGCAU_UGGGGAAAGAGUGCUCGGAAGGACAACAGAAUCCUGCAGAGCAUUUCGAGUGUCCCAUAAGUGAGGCGGAAGGCUCCGUAUUU_AUAUUGGUACACUUCAAAAAACAAGCAGUC
.((...........((((((((...((((........))))...)))))))).((((((.(((........(((((....))))).........))).))))))..........)).... (-33.83 = -33.83 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:26 2006