Locus 11026

Sequence ID dm3.chr3R
Location 18,139,899 – 18,140,002
Length 103
Max. P 0.937758
window15149 window15150

overview

Window 9

Location 18,139,899 – 18,139,995
Length 96
Sequences 8
Columns 111
Reading direction reverse
Mean pairwise identity 58.78
Shannon entropy 0.80476
G+C content 0.38615
Mean single sequence MFE -20.18
Consensus MFE -4.97
Energy contribution -3.83
Covariance contribution -1.14
Combinations/Pair 1.93
Mean z-score -1.48
Structure conservation index 0.25
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.519646
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18139899 96 - 27905053
---------GUUUAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCGAGCAU-UUGACAACCCCUUAGUUGCUUUAGAAUUAUGAAAAUGGAACGAGUUUUCGCAU-----
---------.......((.....((((.((..(((((((((...(((((((.-((((.......)))).)))))..))...)))))))))..))..))))..))..----- ( -21.30, z-score =  -2.45, R)
>droSim1.chr3R 17945325 96 - 27517382
---------GUUCAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCAAGCAG-UUGACACCCCCUAAGUUGCUUUAGAAUUAUGAAAAUGGAACGAGUUUUCGCAU-----
---------.......((.....((((.((..(((((((((...((((((((-(((........))).))))))..))...)))))))))..))..))))..))..----- ( -20.40, z-score =  -2.04, R)
>droSec1.super_0 18495378 96 - 21120651
---------GUUCAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCAAGCAG-UUGACACCCCCUAAGUUGCUUUAGAAUUAUGAAAAUGGAACGAGUUUUCGCAU-----
---------.......((.....((((.((..(((((((((...((((((((-(((........))).))))))..))...)))))))))..))..))))..))..----- ( -20.40, z-score =  -2.04, R)
>droYak2.chr3R 18982196 96 - 28832112
---------GUUCAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCGAGCAC-UUGACACCUCCUAAGUUGCUUGAGAAUUAUGAAAAUGGAACGAGUUUUCCCAU-----
---------((((..(((..........))).(((((((((...((((((((-(((........)))).))))))).....)))))))))))))............----- ( -23.60, z-score =  -2.72, R)
>droEre2.scaffold_4820 528699 96 + 10470090
---------GUUCCACGCCAUAUAGACAGUGACACUUUCAUUAGCCGAGCAC-UUGACACCUCCUAAGUUGCUUAAGAAUUAUGAAAAUGGAACGAGUUUUCCCAU-----
---------(((((((((..........)))....((((((.....((((((-(((........)))).))))).......)))))).))))))............----- ( -17.90, z-score =  -1.36, R)
>droAna3.scaffold_13340 9121909 83 - 23697760
---------UUGAGGUGCUUGAUAUUUAAGGAAAUGUUUA------AAGUUU-UUGGCAUUUCUCUGGCAGCUUCCUUAUU-UGAAGAUCGGAUGUCCCC-----------
---------..((((((((.((..((((((......))))------))...)-).))))))))(((((...((((......-.)))).))))).......----------- ( -16.50, z-score =   0.29, R)
>dp4.chr2 12294759 93 - 30794189
-----GUCAAGAGAGCGGCAUUUCCGCCUUGACA--UUCGUCGGCUAAACAU-ACACCACUCUAUAAUCUCCUUAAGAAUUAUGAGUAUGGUGAGAGUUUU----------
-----((((((...((((.....))))))))))(--(((...(......)..-.((((((((.(((((((.....)).)))))))))..)))).))))...---------- ( -23.40, z-score =  -1.78, R)
>droGri2.scaffold_15203 4310770 110 + 11997470
CGCUUAACCAGAAUUUACACGUUAAUUAGAGGCACAUUUAAAAGGCUAUUUCGAUGUCGAGUUCCUUUAAACUU-GUUGUUUUGAAUAUAUAUUUGGCUUUUGGUCCACAU
....................((..(((((((((.((..(((((((....((((....))))..)))))((((..-...))))........))..)))))))))))..)).. ( -17.90, z-score =   0.22, R)
>consensus
_________GUUCAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCAAGCAC_UUGACACCCCCUAAGUUGCUUUAGAAUUAUGAAAAUGGAACGAGUUUUCGCAU_____
............................((..((.((((((.....(((((..................))))).......)))))).))..))................. ( -4.97 =  -3.83 +  -1.14)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,139,904 – 18,140,002
Length 98
Sequences 7
Columns 102
Reading direction reverse
Mean pairwise identity 70.41
Shannon entropy 0.60016
G+C content 0.37534
Mean single sequence MFE -20.49
Consensus MFE -9.39
Energy contribution -8.86
Covariance contribution -0.53
Combinations/Pair 1.61
Mean z-score -1.66
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.42
SVM RNA-class probability 0.937758
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18139904 98 - 27905053
CACUUAUGUU----UAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCGAGCAUUUGACAACCCCUUAGUUGCUUUAGAAUUAUGAAAAUGGAACGAGUUUU
.((((.((((----((........))))))((..(((((((((...(((((((.((((.......)))).)))))..))...)))))))))..))))))... ( -22.60, z-score =  -3.13, R)
>droSim1.chr3R 17945330 98 - 27517382
CACUUAUGUU----CAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCAAGCAGUUGACACCCCCUAAGUUGCUUUAGAAUUAUGAAAAUGGAACGAGUUUU
.((((..(((----(..(((..........))).(((((((((...(((((((((((........))).))))))..))...)))))))))))))))))... ( -19.10, z-score =  -1.56, R)
>droSec1.super_0 18495383 98 - 21120651
CACUUAUGUU----CAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCAAGCAGUUGACACCCCCUAAGUUGCUUUAGAAUUAUGAAAAUGGAACGAGUUUU
.((((..(((----(..(((..........))).(((((((((...(((((((((((........))).))))))..))...)))))))))))))))))... ( -19.10, z-score =  -1.56, R)
>droYak2.chr3R 18982201 98 - 28832112
CACUUAUGUU----CAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCGAGCACUUGACACCUCCUAAGUUGCUUGAGAAUUAUGAAAAUGGAACGAGUUUU
.((((..(((----(..(((..........))).(((((((((...(((((((((((........)))).))))))).....)))))))))))))))))... ( -24.10, z-score =  -2.57, R)
>droEre2.scaffold_4820 528704 98 + 10470090
UACUUAUGUU----CCACGCCAUAUAGACAGUGACACUUUCAUUAGCCGAGCACUUGACACCUCCUAAGUUGCUUAAGAAUUAUGAAAAUGGAACGAGUUUU
.((((..(((----((((((..........)))....((((((.....(((((((((........)))).))))).......)))))).))))))))))... ( -18.30, z-score =  -1.36, R)
>droAna3.scaffold_13340 9121912 86 - 23697760
-AACUCUUUG----AGGUGCUUGAUAUUUAAGGAAAUGUUUA------AAGUUUUUGGCAUUUCUCUGGCAGCUUCCUUAUU-UGAAGAUCGGAUGUC----
-........(----(((((((.((..((((((......))))------))...)).))))))))(((((...((((......-.)))).)))))....---- ( -16.50, z-score =   0.15, R)
>dp4.chr2 12294759 100 - 30794189
CAUUUCCGUCAAGAGAGCGGCAUUUCCGCCUUGACA--UUCGUCGGCUAAACAUACACCACUCUAUAAUCUCCUUAAGAAUUAUGAGUAUGGUGAGAGUUUU
.......((((((...((((.....))))))))))(--(((...(......)...((((((((.(((((((.....)).)))))))))..)))).))))... ( -23.70, z-score =  -1.61, R)
>consensus
CACUUAUGUU____CAACGCCAUAUAGACAGUGACAUUUUCAUUAGUCAAGCAUUUGACACCCCCUAAGUUGCUUUAGAAUUAUGAAAAUGGAACGAGUUUU
..............................((..(((((((((.....(((((.((...........)).))))).......)))))))))..))....... ( -9.39 =  -8.86 +  -0.53)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:34:58 2011