Locus 15507

Sequence ID dm3.chrX
Location 19,319,722 – 19,319,853
Length 131
Max. P 0.834907
window21381 window21382

overview

Window 1

Location 19,319,722 – 19,319,840
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 91.62
Shannon entropy 0.14180
G+C content 0.51090
Mean single sequence MFE -30.52
Consensus MFE -27.78
Energy contribution -27.30
Covariance contribution -0.48
Combinations/Pair 1.11
Mean z-score -1.48
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.774208
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19319722 118 + 22422827
GCCCCCUUGGCGGGAAUAUGAAUACCGACCGAUUCUCGACAAUGGAAUGGAAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACAUAGGACAUAGCACUUGCAUUG
((.((((((((((...........))).))))...........((..((....))))))).))..........((((((((....)))))))).............((....)).... ( -31.70, z-score =  -1.83, R)
>droSim1.chrX 14941976 112 + 17042790
--CCCCCCGGCGGGAAUAUGAAUACCGAGCGAUUCUCGACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACAUAGGACG----ACUUGCAUUG
--...((((((((((((.((.........))))))))).........((....))))))).((((........((((((((....))))))))......(....----.))))).... ( -29.20, z-score =  -0.89, R)
>droSec1.super_8 1611728 112 + 3762037
--CCCCCCGGCGGGAAUAUGAAUACCGAGCGAUUCUCGACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACAUACAGGACG----ACUUGCAUUG
--...((((((((((((.((.........))))))))).........((....))))))).((((........((((((((....))))))))......(....----.))))).... ( -29.20, z-score =  -0.89, R)
>droYak2.chrX 9761986 110 - 21770863
GCCCCCCCGGCGGGAAUAUGAAUACC----GAUUCUCGACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACACAGGACG----ACUUGCAUUG
((.((((((.(((((((.((.....)----))))))))....)))...((.....))))).))..........((((((((....))))))))....((((...----.))))..... ( -31.40, z-score =  -1.59, R)
>droEre2.scaffold_4690 9568873 108 + 18748788
--CCCUCCGGCGGGAAUAUGAAUACG----GAUUCUCGACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACAUCAGACG----ACUUGCAUUG
--(((((((.(((((((.((....))----.)))))))....))))..((.....))))).((((........((((((((....))))))))....((....)----).)))).... ( -31.10, z-score =  -2.18, R)
>consensus
__CCCCCCGGCGGGAAUAUGAAUACCGA_CGAUUCUCGACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACAUAGGACG____ACUUGCAUUG
.....((((((((((((..............))))))).........((....))))))).((((........((((((((....))))))))(......).........)))).... (-27.78 = -27.30 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,319,759 – 19,319,853
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.32
Shannon entropy 0.30565
G+C content 0.50462
Mean single sequence MFE -26.39
Consensus MFE -19.34
Energy contribution -19.34
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.85
SVM RNA-class probability 0.834907
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19319759 94 + 22422827
GACAAUGGAAUGGAAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACAUAGGACAUAGCACUUGCAUUGUGGCAGUGCGAUG--------------------------
(....(((..((....)))))....)..........((((((((....)))))))).........(((.(((((.((......))))))).)))-------------------------- ( -25.30, z-score =  -2.22, R)
>droSim1.chrX 14942011 90 + 17042790
GACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACAUAGGACG----ACUUGCAUUGUGGGACGAUGAUG--------------------------
.((((((...(((.....))).(((((.........((((((((....)))))))).........))----.))).))))))............-------------------------- ( -20.87, z-score =  -1.92, R)
>droSec1.super_8 1611763 90 + 3762037
GACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACAUACAGGACG----ACUUGCAUUGUGGGACGAUGAUG--------------------------
.((((((...(((.....))).(((((.........((((((((....)))))))).........))----.))).))))))............-------------------------- ( -20.87, z-score =  -1.92, R)
>droYak2.chrX 9762019 116 - 21770863
GACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACACAGGACG----ACUUGCAUUGUGGAACGAUGAUGGCGACCUCCUGGCUGGCACUGCGAUG
...........((...(((((((((.(.........((((((((....)))))))).........((----.((..(((((.....)))))..)))).)))))))).))...))...... ( -31.50, z-score =  -1.11, R)
>droEre2.scaffold_4690 9568904 109 + 18748788
GACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACAUCAGACG----ACUUGCAUUGUGGGACGGUGAUGGCGACCA-------GGCAGUGCGUUG
..(((((.(.((((....))((..((..........((((((((....))))))))..(((((..((----.((..(...)..)).)).)))))))..)).-------..)).).))))) ( -33.40, z-score =  -1.82, R)
>consensus
GACAAUGGAAUGGGAACACCGGGAGCGAAACAAAGAUCUUUGGCAUUAGCCAAGGACACAUAGGACG____ACUUGCAUUGUGGGACGAUGAUG__________________________
.((((((.(((((.....)))...............((((((((....)))))))).................)).))))))...................................... (-19.34 = -19.34 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:46 2011