Locus 15490

Sequence ID dm3.chrX
Location 19,290,554 – 19,290,699
Length 145
Max. P 0.979925
window21354 window21355 window21356 window21357

overview

Window 4

Location 19,290,554 – 19,290,659
Length 105
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 91.65
Shannon entropy 0.13723
G+C content 0.56051
Mean single sequence MFE -43.03
Consensus MFE -38.54
Energy contribution -39.10
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.89
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.20
SVM RNA-class probability 0.908873
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19290554 105 + 22422827
UAGUAUG-GGUAUGGUGGCUAGCCUGGGCCAUGGGGCAAUACGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUUGCAA
..(((.(-(((...((((((......))))))(((((.........((((((((.....)))))))).((((((((........)))))))))))))))))))).. ( -45.70, z-score =  -2.18, R)
>droSim1.chrX 14911277 106 + 17042790
UAGUAUUUGGUAUGGUGGCUAGACUGGGCCAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUUGCAA
.........(((.(((((...(((((((...(..(((........)))..).....)))))))..((.((((((((........)))))))).))))))).))).. ( -46.00, z-score =  -2.70, R)
>droSec1.super_8 1582669 104 + 3762037
UAGUAUG-G-UAUGGCGGCUAGACUGGGCCAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUUGCAA
..(((.(-(-(.....((((......))))..(((((.........((((((((.....)))))))).((((((((........)))))))))))))))).))).. ( -43.60, z-score =  -1.96, R)
>droEre2.scaffold_4690 9541064 99 + 18748788
-------UGAUGUGGUGGCUAGACGGGGCUAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUUCGGCUCCACCUUGCAA
-------...((((((((...(((((((..(((((((........))))).))..)))).)))..((.((((((((........)))))))).)))))))..))). ( -36.80, z-score =  -0.71, R)
>consensus
UAGUAUG_GGUAUGGUGGCUAGACUGGGCCAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUUGCAA
.............(((((...(((((((...(..(((........)))..).....)))))))..((.((((((((........)))))))).)))))))...... (-38.54 = -39.10 +   0.56)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,290,554 – 19,290,659
Length 105
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 91.65
Shannon entropy 0.13723
G+C content 0.56051
Mean single sequence MFE -38.48
Consensus MFE -36.50
Energy contribution -37.06
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.18
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.03
SVM RNA-class probability 0.979925
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19290554 105 - 22422827
UUGCAAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGUAUUGCCCCAUGGCCCAGGCUAGCCACCAUACC-CAUACUA
......((((((((((((((((........)))))))(((......((((.(((((........).)))).)))).)))...))))..))))).....-....... ( -39.50, z-score =  -2.07, R)
>droSim1.chrX 14911277 106 - 17042790
UUGCAAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUGGCCCAGUCUAGCCACCAUACCAAAUACUA
......(((((((.((((((((........)))))))).))..(((((((..........(....)............)))))))...)))))............. ( -40.95, z-score =  -2.82, R)
>droSec1.super_8 1582669 104 - 3762037
UUGCAAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUGGCCCAGUCUAGCCGCCAUA-C-CAUACUA
......(((((((.((((((((........)))))))).))..(((((((..........(....)............)))))))...)))))...-.-....... ( -40.55, z-score =  -2.34, R)
>droEre2.scaffold_4690 9541064 99 - 18748788
UUGCAAGGUGGAGCCGAAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUAGCCCCGUCUAGCCACCACAUCA-------
..((.((..((.(((((((((((............)))))))))..((((.(((((.........))))).))))..)).))..)).))..........------- ( -32.90, z-score =  -1.50, R)
>consensus
UUGCAAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUGGCCCAGUCUAGCCACCAUACC_CAUACUA
......(((((((.((((((((........)))))))).))..(((((((.........((........)).......)))))))...)))))............. (-36.50 = -37.06 +   0.56)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,290,579 – 19,290,699
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.30
Shannon entropy 0.09733
G+C content 0.57816
Mean single sequence MFE -47.98
Consensus MFE -44.14
Energy contribution -44.02
Covariance contribution -0.12
Combinations/Pair 1.05
Mean z-score -2.17
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.61
SVM RNA-class probability 0.955106
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19290579 120 + 22422827
GGCCAUGGGGCAAUACGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUUGCAAGCCAAAGUGGGCGGUGUUACUUUGCUUUCCCCAUACCCAG
((..((((((.((..(((((((((((((.....)))))))).((((((((........))))))))((.((((.(((.....))).)))))).......)))))..))))))))..)).. ( -48.50, z-score =  -2.44, R)
>droSim1.chrX 14911303 120 + 17042790
GGCCAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUUGCAAGCCAAAGUGGGCGGUGUUACUUUGCUUUCCCCAUCCCCAG
((..((((((.((..(((((((((((((.....)))))))).((((((((........))))))))((.((((.(((.....))).)))))).......)))))..))))))))..)).. ( -48.50, z-score =  -2.12, R)
>droSec1.super_8 1582693 120 + 3762037
GGCCAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUUGCAAGCCAAGGUGGGCGGUGUUACUUUGCUUUCCCCAUCCCCAG
((..((((((.((..(((((((((((((.....)))))))).((((((((........))))))))((.((((((((.....)))))))))).......)))))..))))))))..)).. ( -55.00, z-score =  -3.45, R)
>droYak2.chrX 9732108 114 - 21770863
GGCCAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUAGCAAGCCAAAGUGGGCGGUGUUACUUCGCUUUCCCCAG------
.....(((((.((..(((((((((((((.....)))))))).((((((((........))))))))........(((((.(((......)))..))))))))))..))))))).------ ( -45.90, z-score =  -1.89, R)
>droEre2.scaffold_4690 9541083 114 + 18748788
GGCUAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUUCGGCUCCACCUUGCAAGCCAAAGUGGGCGGUGUUACUUUGCUUUCCCCAG------
.....(((((.((..(((((((((((((.....)))))))).((((((((........))))))))((.((((.(((.....))).)))))).......)))))..))))))).------ ( -42.00, z-score =  -0.97, R)
>consensus
GGCCAUGGGGCAAUCCGAAGCUUUGAUUAUCCCAGUCAAAGGCGGAGGCGUUUUGGACCGCCUCCGGCUCCACCUUGCAAGCCAAAGUGGGCGGUGUUACUUUGCUUUCCCCAU_CCCAG
.....(((((.((..(((((((((((((.....)))))))).((((((((........))))))))((.((((.(((.....))).)))))).......)))))..)))))))....... (-44.14 = -44.02 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,290,579 – 19,290,699
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.30
Shannon entropy 0.09733
G+C content 0.57816
Mean single sequence MFE -46.56
Consensus MFE -41.88
Energy contribution -42.56
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -1.47
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.30
SVM RNA-class probability 0.635026
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19290579 120 - 22422827
CUGGGUAUGGGGAAAGCAAAGUAACACCGCCCACUUUGGCUUGCAAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGUAUUGCCCCAUGGCC
..((.(((((((((.((.((((......((((((((((.....)))))))).))((((((((........))))))))(((......))).........)))).)).)).))))))).)) ( -50.60, z-score =  -2.46, R)
>droSim1.chrX 14911303 120 - 17042790
CUGGGGAUGGGGAAAGCAAAGUAACACCGCCCACUUUGGCUUGCAAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUGGCC
..((..((((((..(((((((.......((((((((((.....)))))))).))((((((((........)))))))).))))).))....(((((.........)))))))))))..)) ( -47.10, z-score =  -1.01, R)
>droSec1.super_8 1582693 120 - 3762037
CUGGGGAUGGGGAAAGCAAAGUAACACCGCCCACCUUGGCUUGCAAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUGGCC
..((..((((((..(((((((.......((((((((((.....)))))))).))((((((((........)))))))).))))).))....(((((.........)))))))))))..)) ( -49.80, z-score =  -1.54, R)
>droYak2.chrX 9732108 114 + 21770863
------CUGGGGAAAGCGAAGUAACACCGCCCACUUUGGCUUGCUAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUGGCC
------.(((((.((.((((((......(((......)))...((((..((((.((((((((........)))))))).))))..))))..........))))))..)).)))))..... ( -46.10, z-score =  -1.65, R)
>droEre2.scaffold_4690 9541083 114 - 18748788
------CUGGGGAAAGCAAAGUAACACCGCCCACUUUGGCUUGCAAGGUGGAGCCGAAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUAGCC
------.(((((..............((((((((((((.....)))))))).))(((((((((............)))))))))...))..(((((.........))))))))))..... ( -39.20, z-score =  -0.70, R)
>consensus
CUGGG_AUGGGGAAAGCAAAGUAACACCGCCCACUUUGGCUUGCAAGGUGGAGCCGGAGGCGGUCCAAAACGCCUCCGCCUUUGACUGGGAUAAUCAAAGCUUCGGAUUGCCCCAUGGCC
......((((((..(((((((.......((((((((((.....)))))))).))((((((((........)))))))).))))).))....(((((.........))))))))))).... (-41.88 = -42.56 +   0.68)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:26 2011