Locus 15045

Sequence ID dm3.chrX
Location 17,133,917 – 17,134,096
Length 179
Max. P 0.811920
window20734 window20735 window20736

overview

Window 4

Location 17,133,917 – 17,134,023
Length 106
Sequences 7
Columns 118
Reading direction forward
Mean pairwise identity 74.57
Shannon entropy 0.44530
G+C content 0.50822
Mean single sequence MFE -31.06
Consensus MFE -14.04
Energy contribution -16.31
Covariance contribution 2.27
Combinations/Pair 1.16
Mean z-score -1.85
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.18
SVM RNA-class probability 0.582260
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17133917 106 + 22422827
-----GAUCUAUUAGCGCUGCCUGCGCAU-------CGGGCCAUUUGACUUCAUUUGAUUUCGAGAGCAGACGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGAC
-----.........((((.....)))).(-------(((((..(((((..((....))..))))).))....((((((((.....((((....))))..))))))))......)))). ( -34.70, z-score =  -2.37, R)
>droEre2.scaffold_4690 7475303 113 + 18748788
-----GACCCAUUAGCGCUGCCUGCGCACUUUAGUGCAGGCCAUUUGAAUUCACUUGAUUUCGAGAGCAGAUGCCUGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCAGUCAACCGAC
-----.....(((((.((.((((((((......))))))))..((((((.((....)).)))))).......)))))))(((....)))((((((((......))))))))....... ( -42.80, z-score =  -4.16, R)
>droYak2.chrX 15742135 112 + 21770863
UGGUCGAUCCAUUAGCGCUGCUUGCGCUGC------CGGGCCAUUUGACUUCAUUUGAUUUCGAGAGCAAAUGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCAGCCGAC
((((..(((...((((((.....)))))).------..(((.(((((.(((...(((....)))))))))))))).))))))).(((((((.(((((......))))).)).))))). ( -38.50, z-score =  -1.52, R)
>droSec1.super_17 974896 106 + 1527944
-----GAUCUAUUAGCGCUGCCUGCGCAC-------CGGGCCAUUUGACUUCAUUUGAUUUCGAGAGCAGAUGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUUCACCGAC
-----.........((((.....))))..-------(((((..(((((..((....))..))))).)).(((((((((((.....((((....))))..)))))))))..)).))).. ( -34.00, z-score =  -2.30, R)
>droSim1.chrX 13306476 106 + 17042790
-----GAUCUAUUAGCGCUGCCUGCGCAC-------CGGGCCAUUUGACUUCAUUUGAUUUCGAGAGCAGAUGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGAC
-----.........((((.....))))..-------(((((..(((((..((....))..))))).)).(((((((((((.....((((....))))..))))))))).))..))).. ( -34.20, z-score =  -2.32, R)
>droPer1.super_18 263650 84 + 1952607
-----GAUCCAUUAGCGUUGUAU-UGCUG-------CGAGCCAUUC-----CAUUUGAUUUCGAGAGCAAAUGCCAAUCGGCAGCCC-CGAUCCCCAUUCAAA---------------
-----((((.....((......(-((((.-------((((.((...-----....))..))))..))))).((((....))))))..-.))))..........--------------- ( -16.60, z-score =  -0.35, R)
>dp4.chrXL_group1e 1424160 84 + 12523060
-----GAUCCAUUAGCGUUGCAU-UGCUG-------CGAGCCAUUC-----CAUUUGAUUUCGAGAGCAAAUGCCAAUCGGCAGCCC-CGAUCCCCAUUCAAA---------------
-----((((.....((......(-((((.-------((((.((...-----....))..))))..))))).((((....))))))..-.))))..........--------------- ( -16.60, z-score =   0.06, R)
>consensus
_____GAUCCAUUAGCGCUGCCUGCGCAC_______CGGGCCAUUUGACUUCAUUUGAUUUCGAGAGCAGAUGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGAC
.....((((.....((((.....))))............((((.(((......((((....)))).((....)).......))).))))))))((((......))))........... (-14.04 = -16.31 +   2.27)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,133,944 – 17,134,057
Length 113
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 83.19
Shannon entropy 0.30183
G+C content 0.52812
Mean single sequence MFE -26.60
Consensus MFE -21.18
Energy contribution -20.90
Covariance contribution -0.28
Combinations/Pair 1.14
Mean z-score -1.52
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.77
SVM RNA-class probability 0.811920
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17133944 113 + 22422827
GCCAUUUGACUUCAUUUGAUUUCGAGAGCAGACGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGACACGGCCACCUCCCCCGCAGCCCCGUCCACAUCCU------
((((..(((.....((((....)))).((((.((((((.......)))))).))))...)))..))))........(((..(((.............)))..)))........------ ( -26.92, z-score =  -1.52, R)
>droEre2.scaffold_4690 7475337 95 + 18748788
GCCAUUUGAAUUCACUUGAUUUCGAGAGCAGAUGCCUGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCAGUCAACCGACACUGCCACCUCAUCCU------------------------
.......(((.((....)).)))(((.((((.((.(....(((....)))((((((((......))))))))....).))))))...))).....------------------------ ( -28.40, z-score =  -2.80, R)
>droYak2.chrX 15742168 113 + 21770863
GCCAUUUGACUUCAUUUGAUUUCGAGAGCAAAUGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCAGCCGACACUGCCACUGCCACCCCAUCCUCAUCCUCAUCCU------
((..(((((..((....))..))))).))...((.(((.((.((.(((((((.(((((......))))).)).)))))...)).))))).)).....................------ ( -24.70, z-score =  -1.06, R)
>droSec1.super_17 974923 113 + 1527944
GCCAUUUGACUUCAUUUGAUUUCGAGAGCAGAUGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUUCACCGACACGGUCACCUCCUCCGCAGCCCCGUCCUCAUCCU------
((...((((..((....))..))))(((.((.(((((((((.....((((....))))..)))))))))....((((...))))...)).))).)).................------ ( -26.70, z-score =  -0.84, R)
>droSim1.chrX 13306503 119 + 17042790
GCCAUUUGACUUCAUUUGAUUUCGAGAGCAGAUGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGACACGGCCACCUCCUCCGCAGCCCCACCUCCACCCUCAUCCU
(((.(((((..((....))..))))).(.((.(((((((((.....((((....))))..))))))))))).)........)))................................... ( -26.30, z-score =  -1.40, R)
>consensus
GCCAUUUGACUUCAUUUGAUUUCGAGAGCAGAUGCCAGAUGCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGACACGGCCACCUCCUCCGCAGCCCCAUCCUCAUCCU______
((((..(((.....((((....)))).((((.((((((.......)))))).))))...)))..))))................................................... (-21.18 = -20.90 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,133,984 – 17,134,096
Length 112
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 78.16
Shannon entropy 0.38352
G+C content 0.59181
Mean single sequence MFE -30.79
Consensus MFE -18.89
Energy contribution -20.06
Covariance contribution 1.17
Combinations/Pair 1.10
Mean z-score -1.72
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.61
SVM RNA-class probability 0.759877
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17133984 112 + 22422827
GCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGACACGGCCACCUCCCCCGCAGCCCCGUC------CACAUCCUCGCCACAGUUCAAUGGCAGUCAUCCACAAUGGAGCCACA
......((((((((((((((.(((((((........(((..(((.............)))..)))------.........)))).)))..)))))))))).(((.....))))))).. ( -32.75, z-score =  -2.73, R)
>droEre2.scaffold_4690 7475377 90 + 18748788
GCCAAUUGGCGAUUGCCAUUCAUUUGGCAGUCAACCGACACUGCCACCUC------------------------AUCCUCGCCAGAGUUCGAUGGCAG----CCACAAUGGAGCCGCA
.(((..((((((((((((......)))))))).........(((((..((------------------------...(((....)))...))))))))----)))...)))....... ( -31.10, z-score =  -2.33, R)
>droYak2.chrX 15742208 97 + 21770863
GCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCAGCCGACACUGCCACUGCCACCCCAUCCUCAUC------CUCAUCCUGGCCAGAGUUCGAUGGCAG----CCACA-----------
((...(((((((.(((((......))))).)).)))))....))..((((((.(.....(((..(------(.......))...)))...).))))))----.....----------- ( -27.20, z-score =  -1.27, R)
>droSec1.super_17 974963 112 + 1527944
GCCAAUUGGCGAUUGCCAUUCAUUUGGCACUUCACCGACACGGUCACCUCCUCCGCAGCCCCGUC------CUCAUCCUCGCCAGAGUUCAGUGGCAGCCAUCCACAAUGGAGCCGCA
.....(((((((.(((((......))))).......(((..(((..(.......)..)))..)))------.......)))))))......(((((..((((.....)))).))))). ( -32.00, z-score =  -1.23, R)
>droSim1.chrX 13306543 118 + 17042790
GCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGACACGGCCACCUCCUCCGCAGCCCCACCUCCACCCUCAUCCUCGCCAGAGUUCAGUGGCAGCCAUCCACAAUGGAGCCGCA
(((..((((.((.(((((......))))).))..))))...)))..........((.((.(((..............(((....)))....((((.......))))..))).)).)). ( -30.90, z-score =  -1.05, R)
>consensus
GCCAAUUGGCGAUUGCCAUUCAUUUGGCACUCCACCGACACGGCCACCUCCUCCGCAGCCCCAUC______CUCAUCCUCGCCAGAGUUCAAUGGCAG_CAUCCACAAUGGAGCCGCA
(((....)))((.(((((......))))).)).........(((....................................((((........)))).....(((.....))))))... (-18.89 = -20.06 +   1.17)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:52:00 2011