Locus 12486

Sequence ID dm3.chrX
Location 519,222 – 519,289
Length 67
Max. P 0.957692
window17169 window17170

overview

Window 9

Location 519,222 – 519,289
Length 67
Sequences 5
Columns 69
Reading direction forward
Mean pairwise identity 82.15
Shannon entropy 0.30933
G+C content 0.49846
Mean single sequence MFE -20.29
Consensus MFE -16.40
Energy contribution -16.96
Covariance contribution 0.56
Combinations/Pair 1.20
Mean z-score -1.87
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.47
SVM RNA-class probability 0.941560
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 519222 67 + 22422827
CCGCUGCACGAUAACCACGAG--AACAAUCGAUAGCUUCGCGCUUUCGAUUGGCUGUGCGUGUUAUCGG
........(((((((.(((.(--..(((((((.(((.....))).)))))))..)...)))))))))). ( -24.90, z-score =  -2.79, R)
>droEre2.scaffold_4644 473632 69 + 2521924
CCGCUGCACGAUAACCGCAAACCGCAAAUCGAUAGAUGCGCGCUUUCGAUUGGCUAUGUGUGUUAUCGU
.......((((((((((((....((.((((((.((.......)).)))))).))..)))).)))))))) ( -21.60, z-score =  -1.38, R)
>droYak2.chrX 440109 67 + 21770863
CCGCUGCACGAUAACCGCAAA--UUCCAUCGAUAGCUGCCUGCUUUCGAUAUACUACGCGUGUUAUCGC
........((((((((((...--....(((((.(((.....))).))))).......))).))))))). ( -21.64, z-score =  -3.68, R)
>droSec1.super_10 365572 67 + 3036183
CAGCUGCACAAUAACCAUGAG--AACAAUCGAUAGCUUCGCGCUUUCGAUUAGCUGUGUGUGUUAUCGG
........(.(((((((((((--...((((((.(((.....))).))))))..)).)))).))))).). ( -15.60, z-score =  -0.29, R)
>droSim1.chrX 402514 67 + 17042790
CCGCUGCACAAUAACCAUGAG--AACAAUCGAUAGCUUCGCGCUUUCGAUUAGCUGUGUGUGUUAUCGG
(((..(((((...((....((--...((((((.(((.....))).))))))..)))).)))))...))) ( -17.70, z-score =  -1.19, R)
>consensus
CCGCUGCACGAUAACCACGAG__AACAAUCGAUAGCUUCGCGCUUUCGAUUAGCUGUGUGUGUUAUCGG
........(((((((((((.......((((((.(((.....))).)))))).....)))).))))))). (-16.40 = -16.96 +   0.56)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 519,222 – 519,289
Length 67
Sequences 5
Columns 69
Reading direction reverse
Mean pairwise identity 82.15
Shannon entropy 0.30933
G+C content 0.49846
Mean single sequence MFE -21.22
Consensus MFE -17.08
Energy contribution -17.36
Covariance contribution 0.28
Combinations/Pair 1.25
Mean z-score -2.01
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.64
SVM RNA-class probability 0.957692
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 519222 67 - 22422827
CCGAUAACACGCACAGCCAAUCGAAAGCGCGAAGCUAUCGAUUGUU--CUCGUGGUUAUCGUGCAGCGG
.(((((((.(((.....(((((((.(((.....))).)))))))..--...))))))))))........ ( -23.80, z-score =  -2.43, R)
>droEre2.scaffold_4644 473632 69 - 2521924
ACGAUAACACACAUAGCCAAUCGAAAGCGCGCAUCUAUCGAUUUGCGGUUUGCGGUUAUCGUGCAGCGG
((((((((.(.((.((((...(....).(((.(((....))).))))))))).)))))))))....... ( -20.10, z-score =  -0.97, R)
>droYak2.chrX 440109 67 - 21770863
GCGAUAACACGCGUAGUAUAUCGAAAGCAGGCAGCUAUCGAUGGAA--UUUGCGGUUAUCGUGCAGCGG
((((((((.((((.....((((((.(((.....))).))))))...--..))))))))))))....... ( -26.60, z-score =  -3.66, R)
>droSec1.super_10 365572 67 - 3036183
CCGAUAACACACACAGCUAAUCGAAAGCGCGAAGCUAUCGAUUGUU--CUCAUGGUUAUUGUGCAGCUG
.(((((((......(((.((((((.(((.....))).)))))))))--......)))))))........ ( -17.80, z-score =  -1.58, R)
>droSim1.chrX 402514 67 - 17042790
CCGAUAACACACACAGCUAAUCGAAAGCGCGAAGCUAUCGAUUGUU--CUCAUGGUUAUUGUGCAGCGG
.(((((((......(((.((((((.(((.....))).)))))))))--......)))))))........ ( -17.80, z-score =  -1.43, R)
>consensus
CCGAUAACACACACAGCCAAUCGAAAGCGCGAAGCUAUCGAUUGUU__CUCGUGGUUAUCGUGCAGCGG
.(((((((.(((.....(((((((.(((.....))).))))))).......))))))))))........ (-17.08 = -17.36 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:03:12 2011