Locus 10898

Sequence ID dm3.chr3R
Location 17,366,214 – 17,366,327
Length 113
Max. P 0.809411
window14974 window14975

overview

Window 4

Location 17,366,214 – 17,366,327
Length 113
Sequences 7
Columns 130
Reading direction forward
Mean pairwise identity 74.09
Shannon entropy 0.45175
G+C content 0.48376
Mean single sequence MFE -31.40
Consensus MFE -16.72
Energy contribution -18.74
Covariance contribution 2.03
Combinations/Pair 1.26
Mean z-score -1.69
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.770156
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17366214 113 + 27905053
GUCAAGUUUCCUUCUAAAAAUGUAGCCCACACGAGAUGCUACAAUGUGCCAAAGCACUUGGCUAUGGGAAAGUUCUUUUUGGUCCCAUCCCGAAGGCUUUUCCAGGGAAACCC-----------------
.....(((((((........((((((...........))))))....(((((.....)))))..(((((((((.((((..((......)).))))))))))))))))))))..----------------- ( -33.00, z-score =  -1.77, R)
>droPer1.super_7 3761785 124 - 4445127
GCCAACUUUCAGCUCGAAAAUGUUACCUAGACAAGAUGCUACAAUGUGCCUAAGCAC------AUUCGGAAAUUCCUUUGGGUUUAUGCUCCAAACCCAUCCCGAGGCCUUCCUUCCUCAUCCCCGCCCA
...........((.......((((.....)))).((((....(((((((....))))------))).((((...(((((((((((.......)))))))....))))..)))).....))))...))... ( -26.30, z-score =  -1.43, R)
>dp4.chr2 3666932 129 + 30794189
GCCAACUUUCAGCUCGAAAAUGUUACCUAGACAAGAUGCUACAAUGUGCCUAAGCACU-AGCCAUUCGGAAAUUCCUUUGGGUUUAUGCUCCAAACCCAUCCCGAGGCCUUCCUUCCUCAUCCCCGCCCA
...........((..(((..((((.....))))....((((....((((....)))))-)))..)))(((........(((((((.......)))))))....((((........)))).)))..))... ( -25.20, z-score =  -0.74, R)
>droEre2.scaffold_4770 13446246 113 - 17746568
GUCAAGUUUCCUUCGGAAAAUGUAGCCCACACGAGAUGCUACAAUGUGCCAAAGCACUUGGCUAAAGGAAAGUUCCUUUUGGUCCCAUCCCGCAGGCUUUUCCGGGGAAACCC-----------------
.....(((((((.((((((....((((....((.((((.......((((....))))..((((((((((....))).))))))).)))).))..)))))))))))))))))..----------------- ( -38.10, z-score =  -2.53, R)
>droYak2.chr3R 6195264 113 + 28832112
GUCAAGUUUCCUUCGAAAAAUGUAGCCCACACGAAAUGCUACAAUGUUCCAAAGCACUUGGCUACAGGAAAGUUCUUUUUGGUCCCAUCCCGAAGGCUUUUCCAGGAAAACCC-----------------
......((((((........(((((((......((.((((............)))).)))))))))((((((..((((..((......)).))))..))))))))))))....----------------- ( -26.70, z-score =  -1.15, R)
>droSec1.super_6 235013 113 - 4358794
GUCCAGUUUCCUUCGGAAAAUGUAGCCCACACGAGAUGCUACAAUGUGCCAAAGCACUUGGCUAUGGGAAAGUUCUUUUUGGUCCCAUCCCGAAGGCUUUUCCAGGGAAACCC-----------------
.....((((((((.((((((((((((...........))))))..((((....))))((((..((((((..(.......)..)))))).))))....))))))))))))))..----------------- ( -35.80, z-score =  -1.81, R)
>droSim1.chrU 2374798 113 - 15797150
GUCAAGUUUCCUUCGAAAAAUGUAGCCCACACGAGAUGCUACAAUGUGCCAAAGCACUUGGCUAUGGGAAAGUUCUUUUUGGUCCCGUCCCGAAGGCUUUUCCAAGGAAACCC-----------------
.....((((((((.(((((.((((((...........))))))....(((..(((.....))).(((((..(..((....))..)..)))))..)))))))).))))))))..----------------- ( -34.70, z-score =  -2.38, R)
>consensus
GUCAAGUUUCCUUCGGAAAAUGUAGCCCACACGAGAUGCUACAAUGUGCCAAAGCACUUGGCUAUGGGAAAGUUCUUUUUGGUCCCAUCCCGAAGGCUUUUCCAGGGAAACCC_________________
.....((((((((.......((((((...........))))))..((((....)))).........((((((...(((((((.......))))))).))))))))))))))................... (-16.72 = -18.74 +   2.03)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,366,214 – 17,366,327
Length 113
Sequences 7
Columns 130
Reading direction reverse
Mean pairwise identity 74.09
Shannon entropy 0.45175
G+C content 0.48376
Mean single sequence MFE -39.00
Consensus MFE -19.04
Energy contribution -20.23
Covariance contribution 1.19
Combinations/Pair 1.28
Mean z-score -1.92
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.76
SVM RNA-class probability 0.809411
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17366214 113 - 27905053
-----------------GGGUUUCCCUGGAAAAGCCUUCGGGAUGGGACCAAAAAGAACUUUCCCAUAGCCAAGUGCUUUGGCACAUUGUAGCAUCUCGUGUGGGCUACAUUUUUAGAAGGAAACUUGAC
-----------------((((((((((((((((((((.((((((((((.............))))...(((((((((....)))).)))..))))))))...)))))...)))))))..))))))))... ( -38.32, z-score =  -2.21, R)
>droPer1.super_7 3761785 124 + 4445127
UGGGCGGGGAUGAGGAAGGAAGGCCUCGGGAUGGGUUUGGAGCAUAAACCCAAAGGAAUUUCCGAAU------GUGCUUAGGCACAUUGUAGCAUCUUGUCUAGGUAACAUUUUCGAGCUGAAAGUUGGC
(.(((((..((((((........))))....((((((((.....)))))))).....))..))((((------(((((((((((...((...))...))))))))).))))))....))).)........ ( -37.20, z-score =  -0.95, R)
>dp4.chr2 3666932 129 - 30794189
UGGGCGGGGAUGAGGAAGGAAGGCCUCGGGAUGGGUUUGGAGCAUAAACCCAAAGGAAUUUCCGAAUGGCU-AGUGCUUAGGCACAUUGUAGCAUCUUGUCUAGGUAACAUUUUCGAGCUGAAAGUUGGC
....((..((((.........((((((((((((((((((.....)))))))).......))))))..))))-..((((((((((...((...))...)))))))))).))))..)).((..(...)..)) ( -39.81, z-score =  -1.17, R)
>droEre2.scaffold_4770 13446246 113 + 17746568
-----------------GGGUUUCCCCGGAAAAGCCUGCGGGAUGGGACCAAAAGGAACUUUCCUUUAGCCAAGUGCUUUGGCACAUUGUAGCAUCUCGUGUGGGCUACAUUUUCCGAAGGAAACUUGAC
-----------------((((((((.(((((((((((((((((((((....((((((....))))))..))..((((....)))).......))))))))..)))))....))))))..))))))))... ( -46.10, z-score =  -3.64, R)
>droYak2.chr3R 6195264 113 - 28832112
-----------------GGGUUUUCCUGGAAAAGCCUUCGGGAUGGGACCAAAAAGAACUUUCCUGUAGCCAAGUGCUUUGGAACAUUGUAGCAUUUCGUGUGGGCUACAUUUUUCGAAGGAAACUUGAC
-----------------.((((((((((((......)))))))..)))))....................(((((.((((((((...((((((...........))))))..))))))))...))))).. ( -31.00, z-score =  -0.38, R)
>droSec1.super_6 235013 113 + 4358794
-----------------GGGUUUCCCUGGAAAAGCCUUCGGGAUGGGACCAAAAAGAACUUUCCCAUAGCCAAGUGCUUUGGCACAUUGUAGCAUCUCGUGUGGGCUACAUUUUCCGAAGGAAACUGGAC
-----------------.(((((((.(((((((((((.((((((((((.............))))...(((((((((....)))).)))..))))))))...)))))....))))))..))))))).... ( -39.72, z-score =  -2.02, R)
>droSim1.chrU 2374798 113 + 15797150
-----------------GGGUUUCCUUGGAAAAGCCUUCGGGACGGGACCAAAAAGAACUUUCCCAUAGCCAAGUGCUUUGGCACAUUGUAGCAUCUCGUGUGGGCUACAUUUUUCGAAGGAAACUUGAC
-----------------((((((((((.(((((((((.(((((.((((.............))))...(((((((((....)))).)))..)).)))))...))))).....)))).))))))))))... ( -40.82, z-score =  -3.04, R)
>consensus
_________________GGGUUUCCCUGGAAAAGCCUUCGGGAUGGGACCAAAAAGAACUUUCCCAUAGCCAAGUGCUUUGGCACAUUGUAGCAUCUCGUGUGGGCUACAUUUUCCGAAGGAAACUUGAC
..................((((((((((((......))))))..)))))).........(((((.........((((....))))..((((((.((......)))))))).........)))))...... (-19.04 = -20.23 +   1.19)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:32:34 2011