Locus 12481

Sequence ID dm3.chrX
Location 488,362 – 488,475
Length 113
Max. P 0.993875
window17162 window17163

overview

Window 2

Location 488,362 – 488,475
Length 113
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 95.87
Shannon entropy 0.05689
G+C content 0.39823
Mean single sequence MFE -28.63
Consensus MFE -25.15
Energy contribution -25.27
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.82
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.46
SVM RNA-class probability 0.705927
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 488362 113 + 22422827
AAUGGAUACGCAUGUAUCCAUUUUCAUUUGCUCCAUUUCCAGGAGAUAGCUCCUGGCCAUAUCAAUAACCAAGUUAGAGUUGGCUUUUUGAAGAAGCAACACUUAAAUGGCAG
(((((((((....))))))))).................((((((....))))))(((((.....((((...))))((((..(((((.....)))))...))))..))))).. ( -32.50, z-score =  -2.91, R)
>droSim1.chrX 371600 113 + 17042790
AAUGGAUACGCAUGUAUCCAUUUUCAUUUGCUCCAUUUCCAGGAGAUAGCCCCUGGCCAUACCAAUAACCAAGUUAGAGUUGGCUUUUUGAAGAAUCAACAUUUAAAUGGCAA
(((((((((....)))))))))........((((.......))))...(((...(((((.((...((((...))))..)))))))..((((....)))).........))).. ( -26.10, z-score =  -1.17, R)
>droSec1.super_10 335097 113 + 3036183
AAUGGAUACGCAUGUAUCCAUUUUCAUUUGCUCCAUUUCCAGGAGAUAGCCCCCGGCCAUAUCAAUAACCAAGUUAGAGUUGGCUUUUUGAAGAAGCAACAUUUAAGUGGCAA
(((((((((....)))))))))........((((.......))))..........(((((.....((((...))))..((((.((((.....))))))))......))))).. ( -27.30, z-score =  -1.37, R)
>consensus
AAUGGAUACGCAUGUAUCCAUUUUCAUUUGCUCCAUUUCCAGGAGAUAGCCCCUGGCCAUAUCAAUAACCAAGUUAGAGUUGGCUUUUUGAAGAAGCAACAUUUAAAUGGCAA
(((((((((....)))))))))........((((.......))))..........(((((.....((((...))))..((((.((((.....))))))))......))))).. (-25.15 = -25.27 +   0.11)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 3

Location 488,362 – 488,475
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 95.87
Shannon entropy 0.05689
G+C content 0.39823
Mean single sequence MFE -33.97
Consensus MFE -33.36
Energy contribution -33.03
Covariance contribution -0.33
Combinations/Pair 1.09
Mean z-score -2.76
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.65
SVM RNA-class probability 0.993875
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 488362 113 - 22422827
CUGCCAUUUAAGUGUUGCUUCUUCAAAAAGCCAACUCUAACUUGGUUAUUGAUAUGGCCAGGAGCUAUCUCCUGGAAAUGGAGCAAAUGAAAAUGGAUACAUGCGUAUCCAUU
..............(((((((.((((..((((((.......)))))).)))).((..(((((((....)))))))..))))))))).....(((((((((....))))))))) ( -36.00, z-score =  -3.53, R)
>droSim1.chrX 371600 113 - 17042790
UUGCCAUUUAAAUGUUGAUUCUUCAAAAAGCCAACUCUAACUUGGUUAUUGGUAUGGCCAGGGGCUAUCUCCUGGAAAUGGAGCAAAUGAAAAUGGAUACAUGCGUAUCCAUU
...((((((.....((((....))))..((((((.......))))))..........(((((((....)))))))))))))..........(((((((((....))))))))) ( -31.50, z-score =  -1.81, R)
>droSec1.super_10 335097 113 - 3036183
UUGCCACUUAAAUGUUGCUUCUUCAAAAAGCCAACUCUAACUUGGUUAUUGAUAUGGCCGGGGGCUAUCUCCUGGAAAUGGAGCAAAUGAAAAUGGAUACAUGCGUAUCCAUU
..............(((((((.((((..((((((.......)))))).)))).((..(((((((....)))))))..))))))))).....(((((((((....))))))))) ( -34.40, z-score =  -2.93, R)
>consensus
UUGCCAUUUAAAUGUUGCUUCUUCAAAAAGCCAACUCUAACUUGGUUAUUGAUAUGGCCAGGGGCUAUCUCCUGGAAAUGGAGCAAAUGAAAAUGGAUACAUGCGUAUCCAUU
..............(((((((.((((..((((((.......)))))).)))).((..(((((((....)))))))..))))))))).....(((((((((....))))))))) (-33.36 = -33.03 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:03:06 2011