Locus 14939

Sequence ID dm3.chrX
Location 16,477,562 – 16,477,695
Length 133
Max. P 0.929710
window20580 window20581

overview

Window 0

Location 16,477,562 – 16,477,655
Length 93
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 75.15
Shannon entropy 0.36932
G+C content 0.29614
Mean single sequence MFE -19.10
Consensus MFE -11.74
Energy contribution -12.43
Covariance contribution 0.69
Combinations/Pair 1.20
Mean z-score -2.18
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.929710
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16477562 93 + 22422827
UUGAGUUUGAAUGAAACAACUAAAUAAAUUCCCCUGUUG---------------------------AUUAAAGCAUAUAAACUUUAAAACUUUAGGGUUUAUUUGCAGCAGCGAGCUUUA
..(((((((.......((((...............))))---------------------------......(((.(((((((((((....))))))))))).))).....))))))).. ( -19.96, z-score =  -2.00, R)
>droYak2.chrX 10583977 117 + 21770863
ACGAAUUUAAAUGAUACAAAUAAACAAAUUCUCUUGUGGUGAUUUAAUAACUGAAAUCCCAUUCGAGUUCUAGCAUAUAAACUUUAAAACUUUAGGGUUUAAUUGUA---ACGAGCUUUA
.(((((.................((((......))))((.(((((........))))))))))))(((((..(((..((((((((((....))))))))))..))).---..)))))... ( -21.20, z-score =  -1.79, R)
>droSec1.super_17 300713 100 + 1527944
UCAAGUUUGAAUGAAACAACUAAAUAAAUUCCCUUAUCGC--------------------AUUCGAAUUCAAGCACAUAAACUUUAAAACUUUAGGGUUUAUUUGCAGCAACGAUCUUUA
...((((((((((..........................)--------------------)))))))))...(((.(((((((((((....))))))))))).))).............. ( -17.97, z-score =  -2.57, R)
>droSim1.chrX 12672590 100 + 17042790
UCAAGUUUGAAUGAAACAACUAAAUAAAUUCCCUUAUCGC--------------------AUUCGAAUUCAAGCACAUAAACCUAAAAACUUUAGGGUUUAUUUGCAGCAACGAUCUUUA
...((((((((((..........................)--------------------)))))))))...(((.((((((((..........)))))))).))).............. ( -17.27, z-score =  -2.37, R)
>consensus
UCAAGUUUGAAUGAAACAACUAAAUAAAUUCCCUUAUCGC____________________AUUCGAAUUCAAGCACAUAAACUUUAAAACUUUAGGGUUUAUUUGCAGCAACGAGCUUUA
..(((((((..............((((......))))...................................(((.(((((((((((....))))))))))).))).....))))))).. (-11.74 = -12.43 +   0.69)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,477,601 – 16,477,695
Length 94
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 87.79
Shannon entropy 0.17026
G+C content 0.31785
Mean single sequence MFE -17.73
Consensus MFE -15.91
Energy contribution -15.80
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -1.61
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.91
SVM RNA-class probability 0.850349
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16477601 94 + 22422827
-------AUUAAAGCAUAUAAACUUUAAAACUUUAGGGUUUAUUUGCAGCAGCGAGCUUUAUCUUGACCAUUUCAAUUGCCUUAAAGUUUACGUACUGACG
-------......(((.(((((((((((....))))))))))).)))....(..(((((((..((((.....))))......)))))))..)......... ( -18.50, z-score =  -1.56, R)
>droSec1.super_17 300752 101 + 1527944
CAUUCGAAUUCAAGCACAUAAACUUUAAAACUUUAGGGUUUAUUUGCAGCAACGAUCUUUAUCAUGACCAUUUCAAUUGCAUUAAAGUUUAAGUACUGACA
.(((..((((...(((.(((((((((((....))))))))))).))).((((.(((....))).(((.....))).)))).....))))..)))....... ( -17.00, z-score =  -1.73, R)
>droSim1.chrX 12672629 101 + 17042790
CAUUCGAAUUCAAGCACAUAAACCUAAAAACUUUAGGGUUUAUUUGCAGCAACGAUCUUUAUCGUGACUAUUUCAAUUGCAUUAAAGUUUAAGUACUGACA
.(((..((((...(((.((((((((..........)))))))).))).((((((((....))))(((.....))).)))).....))))..)))....... ( -17.70, z-score =  -1.54, R)
>consensus
CAUUCGAAUUCAAGCACAUAAACUUUAAAACUUUAGGGUUUAUUUGCAGCAACGAUCUUUAUCAUGACCAUUUCAAUUGCAUUAAAGUUUAAGUACUGACA
.............(((.(((((((((((....))))))))))).))).((((.((......)).(((.....))).))))......(((........))). (-15.91 = -15.80 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:49:53 2011