Locus 11859

Sequence ID dm3.chr3R
Location 24,250,841 – 24,250,934
Length 93
Max. P 0.951917
window16300 window16301

overview

Window 0

Location 24,250,841 – 24,250,934
Length 93
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 79.73
Shannon entropy 0.37482
G+C content 0.59217
Mean single sequence MFE -31.55
Consensus MFE -23.44
Energy contribution -24.83
Covariance contribution 1.39
Combinations/Pair 1.04
Mean z-score -1.20
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.664534
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24250841 93 + 27905053
-------CGUCCUAGUCCUGCACCCGGAGUCCUGAGCCUGGCCUGAAGCACUUUUAGGCGCUCUUAGCGCGCCCAAACUUCGAGUGGCCAGGCUGAAACG
-------.....(((..((.(....).))..)))((((((((((((((....(((.(((((.......))))).))))))))...)))))))))...... ( -34.80, z-score =  -1.41, R)
>droSim1.chr3R 23938564 93 + 27517382
-------CGUCCUAGUCCUGAACCCGGAGUCCUGAGCCUGGCCUGAAGCACUUUUAGGCGCUCUUAGCGCGCCCAAACUUCGAGUGGCCAGGCUGAAACA
-------..(((..((.....))..)))((..(.((((((((((((((....(((.(((((.......))))).))))))))...))))))))).).)). ( -33.80, z-score =  -1.34, R)
>droSec1.super_22 854505 91 + 1066717
-------CGUCCUAGUCCUGAACCUG--GUCCUGAGCCUGGCCUGAAGCACUUUUAGGCGCUCUUAGCGCGCCCAAACUUCGAGUGGCCAGGCUGAAACA
-------.(..((((........)))--)..)(.((((((((((((((....(((.(((((.......))))).))))))))...))))))))).).... ( -34.60, z-score =  -1.88, R)
>droYak2.chr3R 6583711 79 - 28832112
--------------------CACCCU-AGUCCUGAGCCUGGCCUGAAGCACUUUUAGGCGCUCUUAGCGCGCCCAAACUUCGAGUAGCCAGGCUGAAACA
--------------------......-.((..(.((((((((((((((....(((.(((((.......))))).))))))).))..)))))))).).)). ( -28.60, z-score =  -2.05, R)
>droEre2.scaffold_4820 6679212 93 - 10470090
-------CGCCCUAGUCCUGAACACGGGGUCCUGAGCCUGGCCUGAAGCACUUUUAGGCGCCCUUAGCGCGCCCAAAGUUCGAGUGGCCAGGCUGAAACG
-------.(((((.((.......)))))))..(.(((((((((....(.(((((..(((((.......))))).))))).)....))))))))).).... ( -37.60, z-score =  -1.56, R)
>droAna3.scaffold_13340 17050569 89 + 23697760
GGAGCCACGGCCUGGUCCUGUUCCUG--GUCCUGAUCCCGGCCUGAAGCGAUUUUA-----UC----CGCACACAAACUUCGAGUGCCCAGAAUGAACUG
((.((.((((((.((.((.......)--).)).(....)))))....(((......-----..----))).............))))))........... ( -19.90, z-score =   1.05, R)
>consensus
_______CGUCCUAGUCCUGAACCCG_AGUCCUGAGCCUGGCCUGAAGCACUUUUAGGCGCUCUUAGCGCGCCCAAACUUCGAGUGGCCAGGCUGAAACA
................................(.((((((((((((((....(((.(((((.......))))).))))))))...))))))))).).... (-23.44 = -24.83 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 24,250,841 – 24,250,934
Length 93
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 79.73
Shannon entropy 0.37482
G+C content 0.59217
Mean single sequence MFE -37.05
Consensus MFE -29.42
Energy contribution -30.23
Covariance contribution 0.81
Combinations/Pair 1.15
Mean z-score -1.73
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.58
SVM RNA-class probability 0.951917
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24250841 93 - 27905053
CGUUUCAGCCUGGCCACUCGAAGUUUGGGCGCGCUAAGAGCGCCUAAAAGUGCUUCAGGCCAGGCUCAGGACUCCGGGUGCAGGACUAGGACG-------
.((((.(((((((((....(((((((((((((.......))))))))....))))).)))))))))..))))(((.(((.....))).)))..------- ( -41.70, z-score =  -2.26, R)
>droSim1.chr3R 23938564 93 - 27517382
UGUUUCAGCCUGGCCACUCGAAGUUUGGGCGCGCUAAGAGCGCCUAAAAGUGCUUCAGGCCAGGCUCAGGACUCCGGGUUCAGGACUAGGACG-------
.((((.(((((((((....(((((((((((((.......))))))))....))))).)))))))))..))))(((.((((...)))).)))..------- ( -41.40, z-score =  -2.56, R)
>droSec1.super_22 854505 91 - 1066717
UGUUUCAGCCUGGCCACUCGAAGUUUGGGCGCGCUAAGAGCGCCUAAAAGUGCUUCAGGCCAGGCUCAGGAC--CAGGUUCAGGACUAGGACG-------
.((((.(((((((((....(((((((((((((.......))))))))....))))).)))))))))..))))--...((((.......)))).------- ( -39.20, z-score =  -2.46, R)
>droYak2.chr3R 6583711 79 + 28832112
UGUUUCAGCCUGGCUACUCGAAGUUUGGGCGCGCUAAGAGCGCCUAAAAGUGCUUCAGGCCAGGCUCAGGACU-AGGGUG--------------------
.((((.(((((((((....(((((((((((((.......))))))))....))))).)))))))))..)))).-......-------------------- ( -35.40, z-score =  -2.53, R)
>droEre2.scaffold_4820 6679212 93 + 10470090
CGUUUCAGCCUGGCCACUCGAACUUUGGGCGCGCUAAGGGCGCCUAAAAGUGCUUCAGGCCAGGCUCAGGACCCCGUGUUCAGGACUAGGGCG-------
.((((.(((((((((......(((((((((((.(...).)))))).)))))......)))))))))..))))(((..(((...)))..)))..------- ( -39.30, z-score =  -1.29, R)
>droAna3.scaffold_13340 17050569 89 - 23697760
CAGUUCAUUCUGGGCACUCGAAGUUUGUGUGCG----GA-----UAAAAUCGCUUCAGGCCGGGAUCAGGAC--CAGGAACAGGACCAGGCCGUGGCUCC
........((((.((((.........)))).))----))-----.......(((...((((.((.((..(..--......)..)))).))))..)))... ( -25.30, z-score =   0.75, R)
>consensus
CGUUUCAGCCUGGCCACUCGAAGUUUGGGCGCGCUAAGAGCGCCUAAAAGUGCUUCAGGCCAGGCUCAGGACU_CGGGUUCAGGACUAGGACG_______
.((((.(((((((((....(((((((((((((.......))))))))....))))).)))))))))..))))............................ (-29.42 = -30.23 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:51:03 2011