Locus 15034

Sequence ID dm3.chrX
Location 17,059,515 – 17,059,644
Length 129
Max. P 0.883868
window20719 window20720 window20721

overview

Window 9

Location 17,059,515 – 17,059,633
Length 118
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 92.81
Shannon entropy 0.12512
G+C content 0.49496
Mean single sequence MFE -39.00
Consensus MFE -35.24
Energy contribution -34.76
Covariance contribution -0.48
Combinations/Pair 1.15
Mean z-score -1.43
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.38
SVM RNA-class probability 0.666520
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17059515 118 - 22422827
UGGAGAUUAUCUACGGAAUGGGUGAGGUGGACCGUACGUGUACGUGCGGAAGGUCCACCUUAAAUGGUUUCUACUUUUUUUU-UUUUGGUCAGCCUGGUGGAAGGCCUCUCACAUAGCC
(((((((((((....)).....((((((((((((((((....)))))....)))))))))))..))))))))).........-....((((..((....))..))))............ ( -40.10, z-score =  -1.87, R)
>droEre2.scaffold_4690 7405872 118 - 18748788
UGGAGAUUAUCUAC-GAAUGGGUGGGGUGGACCGUACGUGUGCGUGUGGUAGGUCCACCUUAAAUGGUUUCUACUUUUUUUUGUAUUGGUCAGCUUGGUGGAAGGCCCGUCACAUAGCC
((((.....)))).-((.(((((((((((((((.((((....)))).....))))))))))......((((((((.....(((.......)))...)))))))))))))))........ ( -36.00, z-score =  -0.47, R)
>droYak2.chrX 15669053 115 - 21770863
UGGAGAUUAUCUAC-GAAUGGGUGGGGUGGACCGCACGUGUGCGUGUGGUAGGUCCACCUUAAAUGGUUUCUACUUUUUUUU---UUGGUCAGCCUGGCGGAAGGCCUCUCACAUAGCC
((((((((((.((.-....(((((((.(..((((((((....)))))))).).))))))))).)))))))))).........---..((((..((....))..))))............ ( -38.90, z-score =  -1.07, R)
>droSec1.super_17 901177 116 - 1527944
CGGAGAUUAUCUACGGAAUGGGUGGGGUGGACCGU-CGUGUACGUGCGGAAGGUCCACCUUAAAUGGUUUCUAC-UUUUUUU-UUUUGGUCAGCCUGGUGGAAGGUCUCUCACAUAGCC
.((((((..((((((((((.(.(((((((((((.(-(((......))))..)))))))))))..).)))))...-.......-....((....))..)))))..))))))......... ( -40.60, z-score =  -2.08, R)
>droSim1.chrX 13241802 117 - 17042790
UGGAGAUUAUCUACGGAAUGGAUGGGGUGGACCGUACGUGUACGUGCGGAAGGUCCACCUUAAAUGGUUUCUAC-UUUUUUU-UUUUGGUCAGCCUGGUGGAAGGCCUCUCACAUAGCC
(((((((((((....)).....((((((((((((((((....)))))....)))))))))))..))))))))).-.......-....((((..((....))..))))............ ( -39.40, z-score =  -1.65, R)
>consensus
UGGAGAUUAUCUACGGAAUGGGUGGGGUGGACCGUACGUGUACGUGCGGAAGGUCCACCUUAAAUGGUUUCUACUUUUUUUU_UUUUGGUCAGCCUGGUGGAAGGCCUCUCACAUAGCC
(((((((((((....)).....((((((((((((((((....)))))....)))))))))))..)))))))))..............((((..((....))..))))............ (-35.24 = -34.76 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,059,526 – 17,059,644
Length 118
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 92.81
Shannon entropy 0.12512
G+C content 0.49665
Mean single sequence MFE -28.06
Consensus MFE -25.00
Energy contribution -25.60
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.746116
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17059526 118 + 22422827
AGGCCUUCCACCAGGCUGACCAAAA-AAAAAAAAGUAGAAACCAUUUAAGGUGGACCUUCCGCACGUACACGUACGGUCCACCUCACCCAUUCCGUAGAUAAUCUCCAUUGGCAUCUGC
.(((((......)))))........-........(((((..(((....(((((((((....(.(((....))).))))))))))..........(.((.....)).)..)))..))))) ( -30.00, z-score =  -2.19, R)
>droEre2.scaffold_4690 7405883 118 + 18748788
GGGCCUUCCACCAAGCUGACCAAUACAAAAAAAAGUAGAAACCAUUUAAGGUGGACCUACCACACGCACACGUACGGUCCACCCCACCCAUUC-GUAGAUAAUCUCCACUGGCAUCUGC
((........))......................(((((..(((.....(((((((((((...........))).))))))))..........-((.((.....)).)))))..))))) ( -24.70, z-score =  -0.83, R)
>droYak2.chrX 15669064 115 + 21770863
AGGCCUUCCGCCAGGCUGACCAA---AAAAAAAAGUAGAAACCAUUUAAGGUGGACCUACCACACGCACACGUGCGGUCCACCCCACCCAUUC-GUAGAUAAUCUCCAUUGGCAUCUGC
.(((((......)))))......---........(((((..(((.....((((((((.....((((....)))).))))))))..........-(.((.....)).)..)))..))))) ( -31.00, z-score =  -2.03, R)
>droSec1.super_17 901188 116 + 1527944
AGACCUUCCACCAGGCUGACCAAAA-AAAAAAA-GUAGAAACCAUUUAAGGUGGACCUUCCGCACGUACACG-ACGGUCCACCCCACCCAUUCCGUAGAUAAUCUCCGUUGGCAUCUGC
((.(((......)))))........-.......-(((((..(((.....((((((((.((...........)-).))))))))..........((.((.....)).)).)))..))))) ( -25.60, z-score =  -1.02, R)
>droSim1.chrX 13241813 117 + 17042790
AGGCCUUCCACCAGGCUGACCAAAA-AAAAAAA-GUAGAAACCAUUUAAGGUGGACCUUCCGCACGUACACGUACGGUCCACCCCAUCCAUUCCGUAGAUAAUCUCCAUUGGCAUCUGC
.(((((......)))))........-.......-(((((..(((.....((((((((....(.(((....))).)))))))))...........(.((.....)).)..)))..))))) ( -29.00, z-score =  -1.92, R)
>consensus
AGGCCUUCCACCAGGCUGACCAAAA_AAAAAAAAGUAGAAACCAUUUAAGGUGGACCUUCCGCACGUACACGUACGGUCCACCCCACCCAUUCCGUAGAUAAUCUCCAUUGGCAUCUGC
.(((((......))))).................(((((..(((.....((((((((......(((....)))..))))))))...........(.((.....)).)..)))..))))) (-25.00 = -25.60 +   0.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,059,526 – 17,059,644
Length 118
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 92.81
Shannon entropy 0.12512
G+C content 0.49665
Mean single sequence MFE -40.30
Consensus MFE -37.22
Energy contribution -36.74
Covariance contribution -0.48
Combinations/Pair 1.15
Mean z-score -1.72
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.06
SVM RNA-class probability 0.883868
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17059526 118 - 22422827
GCAGAUGCCAAUGGAGAUUAUCUACGGAAUGGGUGAGGUGGACCGUACGUGUACGUGCGGAAGGUCCACCUUAAAUGGUUUCUACUUUUUUUU-UUUUGGUCAGCCUGGUGGAAGGCCU
..(((.((((..........((....)).....((((((((((((((((....)))))....)))))))))))..)))).)))..........-....((((..((....))..)))). ( -41.20, z-score =  -2.16, R)
>droEre2.scaffold_4690 7405883 118 - 18748788
GCAGAUGCCAGUGGAGAUUAUCUAC-GAAUGGGUGGGGUGGACCGUACGUGUGCGUGUGGUAGGUCCACCUUAAAUGGUUUCUACUUUUUUUUGUAUUGGUCAGCUUGGUGGAAGGCCC
(((((....((((((((((((((((-......))))((((((((.((((....)))).....))))))))....))))))))))))....)))))...((((..((....))..)))). ( -41.20, z-score =  -1.96, R)
>droYak2.chrX 15669064 115 - 21770863
GCAGAUGCCAAUGGAGAUUAUCUAC-GAAUGGGUGGGGUGGACCGCACGUGUGCGUGUGGUAGGUCCACCUUAAAUGGUUUCUACUUUUUUUU---UUGGUCAGCCUGGCGGAAGGCCU
((...(((((.((((((((((.((.-....(((((((.(..((((((((....)))))))).).))))))))).)))))))))).........---..((....)))))))....)).. ( -42.10, z-score =  -1.86, R)
>droSec1.super_17 901188 116 - 1527944
GCAGAUGCCAACGGAGAUUAUCUACGGAAUGGGUGGGGUGGACCGU-CGUGUACGUGCGGAAGGUCCACCUUAAAUGGUUUCUAC-UUUUUUU-UUUUGGUCAGCCUGGUGGAAGGUCU
((....))......((((..((((((((((.(.(((((((((((.(-(((......))))..)))))))))))..).)))))...-.......-....((....))..)))))..)))) ( -36.50, z-score =  -0.65, R)
>droSim1.chrX 13241813 117 - 17042790
GCAGAUGCCAAUGGAGAUUAUCUACGGAAUGGAUGGGGUGGACCGUACGUGUACGUGCGGAAGGUCCACCUUAAAUGGUUUCUAC-UUUUUUU-UUUUGGUCAGCCUGGUGGAAGGCCU
..(((.((((..........((....)).....((((((((((((((((....)))))....)))))))))))..)))).)))..-.......-....((((..((....))..)))). ( -40.50, z-score =  -1.96, R)
>consensus
GCAGAUGCCAAUGGAGAUUAUCUACGGAAUGGGUGGGGUGGACCGUACGUGUACGUGCGGAAGGUCCACCUUAAAUGGUUUCUACUUUUUUUU_UUUUGGUCAGCCUGGUGGAAGGCCU
..(((.((((.((((.....)))).........((((((((((((((((....)))))....)))))))))))..)))).)))...............((((..((....))..)))). (-37.22 = -36.74 +  -0.48)

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 01:51:48 2011