Locus 2273

Sequence ID dm3.chr2L
Location 17,512,990 – 17,513,041
Length 51
Max. P 0.995181
window3130 window3131

overview

Window 0

Location 17,512,990 – 17,513,041
Length 51
Sequences 12
Columns 51
Reading direction forward
Mean pairwise identity 80.36
Shannon entropy 0.40777
G+C content 0.56209
Mean single sequence MFE -20.18
Consensus MFE -12.87
Energy contribution -12.98
Covariance contribution 0.11
Combinations/Pair 1.50
Mean z-score -2.29
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.06
SVM RNA-class probability 0.980855
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17512990 51 + 23011544
CGAAAAACUGGCCAUGUUGGCCAAAGUGGAGGCCAACCUGGCCGCCAUCCA
.........(((((.(((((((........))))))).)))))........ ( -23.80, z-score =  -3.29, R)
>droGri2.scaffold_15252 13852230 51 + 17193109
CGAGAAGUUGGCCCAACUGGCUCGAGUCGAAGCCAAUCUGGCCGCCAUUCA
...(((..(((((....(((((((...)).)))))....)))))...))). ( -17.20, z-score =  -1.45, R)
>droMoj3.scaffold_6500 21359677 51 + 32352404
CGAAAAGCUAGCUCAAUUGGCCAGGGUCGAGGCCAACUUGGCCGCUAUUCA
.(((.(((..((.(((((((((........)))))).))))).))).))). ( -18.70, z-score =  -1.92, R)
>droVir3.scaffold_12963 16429435 51 + 20206255
CGAGAAGUUGGCCCAACUGGCCCGCGUCGAAGCGAAUCUGGCGGCCAUUCA
...(((..(((((...(..(..(((......)))...)..).)))))))). ( -15.30, z-score =   0.14, R)
>droWil1.scaffold_180764 2945181 51 - 3949147
UGAAAAGUUGGCUCAAUUGGCACGAGUUGAGGCUAACUUGGCUGCUAUACA
.(..((((((((((((((......)))))).))))))))..)......... ( -15.10, z-score =  -1.97, R)
>droPer1.super_8 1831227 51 - 3966273
CGAAAAAUUGGCACAAUUGGCCAGAGUUGAGGCCAAUCUGGCGGCUAUUCA
.(((....((((.(((((((((........))))))).))...))))))). ( -15.90, z-score =  -1.71, R)
>dp4.chr4_group3 768199 51 - 11692001
CGAAAAAUUGGCACAAUUGGCCAGAGUUGAGGCCAAUCUGGCGGCUAUUCA
.(((....((((.(((((((((........))))))).))...))))))). ( -15.90, z-score =  -1.71, R)
>droAna3.scaffold_12916 12812903 51 - 16180835
CGAAAAGUUGGCCCAGUUGGCCAGGGUGGAGGCCAAUCUGGCAGCCAUCCA
........(((((.....)))))((((((..(((.....)))..)))))). ( -24.90, z-score =  -2.87, R)
>droEre2.scaffold_4845 15853772 51 - 22589142
CGAAAAGCUGGCCAUGUUGGCCAAAGUGGAGGCCAAUCUGGCCGCCAUCCA
......((.(((((.(((((((........))))))).)))))))...... ( -23.70, z-score =  -2.93, R)
>droYak2.chr2R 17552784 51 - 21139217
CGAGAAACUGGCCAUGUUGGCCAAAGUGGAGGCCAACCUGGCCGCCAUCCA
.(.((...((((((.(((((((........))))))).))))))...))). ( -24.00, z-score =  -3.17, R)
>droSec1.super_7 1154024 51 + 3727775
CGAAAAACUGGCCAUGUUGGCCAAAGUGGAGGCCAACCUGGCCGCCAUCCA
.........(((((.(((((((........))))))).)))))........ ( -23.80, z-score =  -3.29, R)
>droSim1.chr2L 17217231 51 + 22036055
UGAAAAACUGGCCAUGUUGGCCAAAGUGGAGGCCAACCUGGCCGCCAUCCA
.........(((((.(((((((........))))))).)))))........ ( -23.80, z-score =  -3.28, R)
>consensus
CGAAAAACUGGCCCAAUUGGCCAGAGUGGAGGCCAACCUGGCCGCCAUCCA
..........(((..(((((((........)))))))..)))......... (-12.87 = -12.98 +   0.11)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 1

Location 17,512,990 – 17,513,041
Length 51
Sequences 12
Columns 51
Reading direction reverse
Mean pairwise identity 80.36
Shannon entropy 0.40777
G+C content 0.56209
Mean single sequence MFE -20.92
Consensus MFE -13.00
Energy contribution -12.89
Covariance contribution -0.11
Combinations/Pair 1.55
Mean z-score -2.81
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.77
SVM RNA-class probability 0.995181
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17512990 51 - 23011544
UGGAUGGCGGCCAGGUUGGCCUCCACUUUGGCCAACAUGGCCAGUUUUUCG
.(((..(((((((.(((((((........))))))).))))).))..))). ( -27.50, z-score =  -4.25, R)
>droGri2.scaffold_15252 13852230 51 - 17193109
UGAAUGGCGGCCAGAUUGGCUUCGACUCGAGCCAGUUGGGCCAACUUCUCG
.(((.(..((((.(((((((((......))))))))).))))..))))... ( -21.80, z-score =  -2.80, R)
>droMoj3.scaffold_6500 21359677 51 - 32352404
UGAAUAGCGGCCAAGUUGGCCUCGACCCUGGCCAAUUGAGCUAGCUUUUCG
.(((.((((((..((((((((........))))))))..))).))).))). ( -22.60, z-score =  -3.97, R)
>droVir3.scaffold_12963 16429435 51 - 20206255
UGAAUGGCCGCCAGAUUCGCUUCGACGCGGGCCAGUUGGGCCAACUUCUCG
.((((((((((..(.(((((......))))))..))..)))))..)))... ( -13.40, z-score =   0.68, R)
>droWil1.scaffold_180764 2945181 51 + 3949147
UGUAUAGCAGCCAAGUUAGCCUCAACUCGUGCCAAUUGAGCCAACUUUUCA
.........(..(((((.((.((((..........)))))).)))))..). (  -5.70, z-score =   0.61, R)
>droPer1.super_8 1831227 51 + 3966273
UGAAUAGCCGCCAGAUUGGCCUCAACUCUGGCCAAUUGUGCCAAUUUUUCG
.(((.....((..((((((((........))))))))..))......))). ( -15.10, z-score =  -2.48, R)
>dp4.chr4_group3 768199 51 + 11692001
UGAAUAGCCGCCAGAUUGGCCUCAACUCUGGCCAAUUGUGCCAAUUUUUCG
.(((.....((..((((((((........))))))))..))......))). ( -15.10, z-score =  -2.48, R)
>droAna3.scaffold_12916 12812903 51 + 16180835
UGGAUGGCUGCCAGAUUGGCCUCCACCCUGGCCAACUGGGCCAACUUUUCG
.((.((((..((((.((((((........)))))))))))))).))..... ( -22.10, z-score =  -2.92, R)
>droEre2.scaffold_4845 15853772 51 + 22589142
UGGAUGGCGGCCAGAUUGGCCUCCACUUUGGCCAACAUGGCCAGCUUUUCG
.(((.((((((((..((((((........))))))..))))).))).))). ( -27.10, z-score =  -4.51, R)
>droYak2.chr2R 17552784 51 + 21139217
UGGAUGGCGGCCAGGUUGGCCUCCACUUUGGCCAACAUGGCCAGUUUCUCG
.((..((((((((.(((((((........))))))).))))).)))..)). ( -25.60, z-score =  -3.40, R)
>droSec1.super_7 1154024 51 - 3727775
UGGAUGGCGGCCAGGUUGGCCUCCACUUUGGCCAACAUGGCCAGUUUUUCG
.(((..(((((((.(((((((........))))))).))))).))..))). ( -27.50, z-score =  -4.25, R)
>droSim1.chr2L 17217231 51 - 22036055
UGGAUGGCGGCCAGGUUGGCCUCCACUUUGGCCAACAUGGCCAGUUUUUCA
.(((..(((((((.(((((((........))))))).))))).))..))). ( -27.50, z-score =  -3.97, R)
>consensus
UGGAUGGCGGCCAGAUUGGCCUCCACUCUGGCCAACUGGGCCAACUUUUCG
....((((......(((((((........)))))))...))))........ (-13.00 = -12.89 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:48:07 2011