Locus 13282

Sequence ID dm3.chrX
Location 5,570,541 – 5,570,679
Length 138
Max. P 0.997714
window18274 window18275

overview

Window 4

Location 5,570,541 – 5,570,658
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.46
Shannon entropy 0.38239
G+C content 0.39233
Mean single sequence MFE -23.40
Consensus MFE -16.32
Energy contribution -16.20
Covariance contribution -0.12
Combinations/Pair 1.10
Mean z-score -1.40
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.747882
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5570541 117 - 22422827
CAAUGUAUUGCUAUUGGAUACAAUACAUAUACAAGUAGUUGUUGAAAAGAAAGCAGCGAAAAC---UGGUCAGGUAAUGAGUCAUCAUCAUCGGAGUCAUCUUGGCUGAUUAGCACAAAA
...(((((((.(((((....))))))).)))))....((((((........)))))).....(---(((((((.((((((.((..........)).))))..)).))))))))....... ( -27.10, z-score =  -1.43, R)
>droSim1.chrX 4321652 93 - 17042790
------------------------CAAUAUACGAGUAGUUGUUGAAAAGAAAGCAGCGAAAAC---UGGUCAGGUAAUGAGUCAUCAUCAUCGGAGUCAUCUUGGCUGAUUAGCACAAAA
------------------------.............((((((........)))))).....(---(((((((.((((((.((..........)).))))..)).))))))))....... ( -20.00, z-score =  -0.97, R)
>droSec1.super_4 4991645 93 + 6179234
------------------------CAAUAUACGAGUAGUUGUUGAAAAGAAAGCAGCGAAAAC---UGGUCAGGUAAUGAGUCAUCAUCAUCAGAGUCAUCUUGGCUGAUUAGCACAAAA
------------------------.............((((((........)))))).....(---(((((((.((((((.((..........)).))))..)).))))))))....... ( -20.10, z-score =  -1.13, R)
>droYak2.chrX 18872070 103 + 21770863
-----------CUAUAAUGGCUAUACGUAUACGUAUAGUUGUUGCAAAGAAAGCAGCGUAAACUGGUGGUCAGGUAAUGAGUCAUCA------GAGUCAUCUUGGCUGAUUAGCACAAAA
-----------.......(((((((((....)))))))))(((((.......)))))......((.(((((((.((((((.((....------)).))))..)).))))))).))..... ( -31.20, z-score =  -3.09, R)
>droEre2.scaffold_4690 2923407 90 - 18748788
--------------------CAAAGCCAAUACAUAUAGUUGUUGAAAAGAAAGCGACGCAAAC---UGGUCAGGUAAUGCGUCAUC-------GAGUCAUCUUGGCUGAUUAGCACAAAA
--------------------...((((((...........(((........)))((((((.((---(.....)))..))))))...-------........))))))............. ( -18.60, z-score =  -0.40, R)
>consensus
____________________C_A_ACAUAUACGAGUAGUUGUUGAAAAGAAAGCAGCGAAAAC___UGGUCAGGUAAUGAGUCAUCAUCAUC_GAGUCAUCUUGGCUGAUUAGCACAAAA
.....................................((((((........)))))).........(((((((.((((((.((..........)).))))..)).)))))))........ (-16.32 = -16.20 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 5

Location 5,570,581 – 5,570,679
Length 98
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 76.76
Shannon entropy 0.37366
G+C content 0.39768
Mean single sequence MFE -21.46
Consensus MFE -16.88
Energy contribution -16.92
Covariance contribution 0.04
Combinations/Pair 1.15
Mean z-score -2.91
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.16
SVM RNA-class probability 0.997714
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5570581 98 - 22422827
CGUGACUAGACCAUGGAAAUCCAAUGUAUUGCUAUUGGAUACAAUACAUAUACAAGUAGUUGUUGAAAAGAAAGCAGCGAAAAC---UGGUCAGGUAAUGA
(((.(((.((((((((....))).(((((((.(((((....))))))).)))))....((((((........))))))......---))))).))).))). ( -26.20, z-score =  -3.24, R)
>droSim1.chrX 4321692 74 - 17042790
CGUGACUAGACCAUGGAAAUCCAAU------------------------AUACGAGUAGUUGUUGAAAAGAAAGCAGCGAAAAC---UGGUCAGGUAAUGA
(((.(((.((((((((....)))..------------------------.........((((((........))))))......---))))).))).))). ( -19.50, z-score =  -3.39, R)
>droSec1.super_4 4991685 74 + 6179234
CGUGACUAGACCAUGGAAAUCCAAU------------------------AUACGAGUAGUUGUUGAAAAGAAAGCAGCGAAAAC---UGGUCAGGUAAUGA
(((.(((.((((((((....)))..------------------------.........((((((........))))))......---))))).))).))). ( -19.50, z-score =  -3.39, R)
>droYak2.chrX 18872104 90 + 21770863
CGUGACUAGACCAAUGAAAUCCUAU-----------AAUGGCUAUACGUAUACGUAUAGUUGUUGCAAAGAAAGCAGCGUAAACUGGUGGUCAGGUAAUGA
(((.(((.(((((............-----------...(((((((((....)))))))))(((((.......))))).........))))).))).))). ( -27.30, z-score =  -3.28, R)
>droEre2.scaffold_4690 2923440 78 - 18748788
CGUGACUAGACCAAUGAAAUCCAAA--------------------GCCAAUACAUAUAGUUGUUGAAAAGAAAGCGACGCAAAC---UGGUCAGGUAAUGC
(.(((((((.....((.....))..--------------------.............((((((........)))))).....)---)))))).)...... ( -14.80, z-score =  -1.24, R)
>consensus
CGUGACUAGACCAUGGAAAUCCAAU_____________________C__AUACGAGUAGUUGUUGAAAAGAAAGCAGCGAAAAC___UGGUCAGGUAAUGA
(((.(((.((((((((....)))...................................((((((........)))))).........))))).))).))). (-16.88 = -16.92 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:18:16 2011