Locus 4648

Sequence ID dm3.chr2R
Location 14,852,276 – 14,852,327
Length 51
Max. P 0.827722
window6382 window6383

overview

Window 2

Location 14,852,276 – 14,852,327
Length 51
Sequences 5
Columns 51
Reading direction forward
Mean pairwise identity 96.47
Shannon entropy 0.06150
G+C content 0.58039
Mean single sequence MFE -22.62
Consensus MFE -20.78
Energy contribution -20.62
Covariance contribution -0.16
Combinations/Pair 1.08
Mean z-score -1.56
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.718012
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14852276 51 + 21146708
UGCCCCUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCAAAAGGUUGGCU
.(((((....)))))..(((((((........)))))))............ ( -22.90, z-score =  -1.42, R)
>droSim1.chr2R 13550990 51 + 19596830
UGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCAAAAGGUUGGCU
.(((((....)))))..(((((((........)))))))............ ( -20.50, z-score =  -0.97, R)
>droSec1.super_1 12358318 51 + 14215200
UGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCAAAAGGUUGGCU
.(((((....)))))..(((((((........)))))))............ ( -20.50, z-score =  -0.97, R)
>droYak2.chr2R 6796692 51 - 21139217
UGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCCAAAGGUUGGCU
.(((((....)))))(((((((((........))))))))).......... ( -24.60, z-score =  -1.92, R)
>droEre2.scaffold_4845 9043886 51 + 22589142
UGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCCAAAGGUUGUCC
.(((((....)))))(((((((((........))))))))).......... ( -24.60, z-score =  -2.51, R)
>consensus
UGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCAAAAGGUUGGCU
.(((((....)))))..(((((((........)))))))............ (-20.78 = -20.62 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,852,276 – 14,852,327
Length 51
Sequences 5
Columns 51
Reading direction reverse
Mean pairwise identity 96.47
Shannon entropy 0.06150
G+C content 0.58039
Mean single sequence MFE -22.06
Consensus MFE -17.88
Energy contribution -17.88
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.43
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.82
SVM RNA-class probability 0.827722
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14852276 51 - 21146708
AGCCAACCUUUUGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAGGGGCA
.(((((....)))))((((((....)))))).....(((((....))))). ( -24.10, z-score =  -2.91, R)
>droSim1.chr2R 13550990 51 - 19596830
AGCCAACCUUUUGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCA
.(((((....)))))((((((....)))))).....((((......)))). ( -20.50, z-score =  -2.30, R)
>droSec1.super_1 12358318 51 - 14215200
AGCCAACCUUUUGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCA
.(((((....)))))((((((....)))))).....((((......)))). ( -20.50, z-score =  -2.30, R)
>droYak2.chr2R 6796692 51 + 21139217
AGCCAACCUUUGGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCA
..........((((.((((((....)))))).))))((((......)))). ( -22.60, z-score =  -2.30, R)
>droEre2.scaffold_4845 9043886 51 - 22589142
GGACAACCUUUGGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCA
..........((((.((((((....)))))).))))((((......)))). ( -22.60, z-score =  -2.33, R)
>consensus
AGCCAACCUUUUGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCA
............((.((((((....)))))).))..((((......)))). (-17.88 = -17.88 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:33:21 2011