Locus 12371

Sequence ID dm3.chr3R
Location 27,742,104 – 27,742,210
Length 106
Max. P 0.936253
window16999 window17000

overview

Window 9

Location 27,742,104 – 27,742,196
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 85.22
Shannon entropy 0.29036
G+C content 0.46300
Mean single sequence MFE -24.47
Consensus MFE -18.30
Energy contribution -19.55
Covariance contribution 1.25
Combinations/Pair 1.21
Mean z-score -2.11
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.936253
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27742104 92 - 27905053
UUACACUCCGCAUCCAGCAGGCAGGAUUCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAACAACAAACAAAGCU
.(((((((.(((..(((((((((((....)))))))).))))))))))))).(((........((((((.....)))))).........))) ( -28.93, z-score =  -3.33, R)
>droSim1.chr3R 27357063 92 - 27517382
UUACACUCCGCAUCCAGCUGGCAGGAUCCCCUGAUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAACAACAAACAAAGCU
.(((((((((((..(((....((((....)))).)))..)))).))))))).(((........((((((.....)))))).........))) ( -23.33, z-score =  -1.63, R)
>droSec1.super_31 396843 92 - 568655
UUACACUCCGCAUCCAGCUGGCAGGAUCCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAACAACAAACAAAGCU
.(((((((.(((..((((..(((((....)))))..).))))))))))))).(((........((((((.....)))))).........))) ( -25.53, z-score =  -2.16, R)
>droYak2.chr3R 28671772 92 - 28832112
UUACACUCCGCAUCCAGCAGGCAGGAUCCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAACAACAAACAAAGCU
.(((((((.(((..(((((((((((....)))))))).))))))))))))).(((........((((((.....)))))).........))) ( -28.93, z-score =  -3.41, R)
>droEre2.scaffold_4820 10245604 92 + 10470090
UUACACUCCGCAUCCAGCAGGCAGGCUCCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAACAACAAACAAAGCU
.(((((((.(((..(((((((((((....)))))))).))))))))))))).(((........((((((.....)))))).........))) ( -28.13, z-score =  -2.82, R)
>droWil1.scaffold_181089 10301033 75 - 12369635
--------------CUACGUACUACGUAC---GUGUGCAUGUGUGAAUGUGGAAUAUAAAGCCUGUUAACACACUUAACAACAAACAAACCU
--------------..((((((...))))---))((....(((((...(..(..........)..)...)))))...))............. ( -12.00, z-score =   0.67, R)
>consensus
UUACACUCCGCAUCCAGCAGGCAGGAUCCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAACAACAAACAAAGCU
.........((((...(((((((((....)))))))))..))))(((((((.((((.......))))..)))))))................ (-18.30 = -19.55 +   1.25) 

alignment

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secondary structure

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dotplot

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Window 0

Location 27,742,117 – 27,742,210
Length 93
Sequences 7
Columns 93
Reading direction reverse
Mean pairwise identity 71.69
Shannon entropy 0.54481
G+C content 0.49485
Mean single sequence MFE -27.96
Consensus MFE -12.36
Energy contribution -15.69
Covariance contribution 3.33
Combinations/Pair 1.12
Mean z-score -1.44
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.25
SVM RNA-class probability 0.612887
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27742117 93 - 27905053
ACGGAUGUGUGGGCUUACACUCCGCAUCCAGCAGGCAGGAUUCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAAC
......(((((.((((((((((.(((..(((((((((((....)))))))).))))))))))))).)))...(((...)))..)))))..... ( -35.30, z-score =  -2.74, R)
>droSim1.chr3R 27357076 93 - 27517382
ACGGAUGUGUGGGCUUACACUCCGCAUCCAGCUGGCAGGAUCCCCUGAUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAAC
......(((((.((((((((((((((..(((....((((....)))).)))..)))).))))))).)))...(((...)))..)))))..... ( -29.70, z-score =  -1.11, R)
>droSec1.super_31 396856 93 - 568655
ACGGAUGUGUGGGCUUACACUCCGCAUCCAGCUGGCAGGAUCCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAAC
......(((((.((((((((((.(((..((((..(((((....)))))..).))))))))))))).)))...(((...)))..)))))..... ( -31.90, z-score =  -1.65, R)
>droYak2.chr3R 28671785 93 - 28832112
ACGGAUGUGUGGGCUUACACUCCGCAUCCAGCAGGCAGGAUCCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAAC
......(((((.((((((((((.(((..(((((((((((....)))))))).))))))))))))).)))...(((...)))..)))))..... ( -35.30, z-score =  -2.64, R)
>droEre2.scaffold_4820 10245617 93 + 10470090
ACGGAUGUGUGGGCUUACACUCCGCAUCCAGCAGGCAGGCUCCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAAC
..(((((((.(((......)))))))))).((((((((((......))))))))))..(((((((.((((.......))))..)))))))... ( -36.10, z-score =  -2.63, R)
>droWil1.scaffold_181089 10301046 70 - 12369635
-----------------------GUGCCCCUCUACGUACUACGUACGUGUGCAUGUGUGAAUGUGGAAUAUAAAGCCUGUUAACACACUUAAC
-----------------------((((.....(((((((...))))))).))))(((((...(..(..........)..)...)))))..... ( -13.90, z-score =   0.00, R)
>droMoj3.scaffold_6540 18389031 75 - 34148556
-----------------AAGUUUCUGUAUGUUUGCGCA-UGUGUGUGUGUGUUUCUGUUAGUGUGCAAUAUAAUGCCUGUUAACACGCUUAAC
-----------------..(((...(..((((.(((((-(.....((((..((......))..)))).....))))..)).))))..)..))) ( -13.50, z-score =   0.67, R)
>consensus
ACGGAUGUGUGGGCUUACACUCCGCAUCCAGCUGGCAGGAUCCCCUGUUUGUCUGUGCGAGUGUGCAGCAUAAACCCUGUUAACACACUUAAC
..(((((((.(((......))))))))))......((((....))))...........(((((((.((((.......))))..)))))))... (-12.36 = -15.69 +   3.33) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:00:49 2011