Locus 14718

Sequence ID dm3.chrX
Location 15,025,983 – 15,026,138
Length 155
Max. P 0.947715
window20260 window20261

overview

Window 0

Location 15,025,983 – 15,026,138
Length 155
Sequences 7
Columns 157
Reading direction forward
Mean pairwise identity 78.77
Shannon entropy 0.40428
G+C content 0.51996
Mean single sequence MFE -50.82
Consensus MFE -24.86
Energy contribution -26.68
Covariance contribution 1.82
Combinations/Pair 1.12
Mean z-score -1.94
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.31
SVM RNA-class probability 0.639183
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15025983 155 + 22422827
ACGUUCGGAUCGAAUUGGAGUCAUUGCCAACUGGCAGCAGGUGAAGCUGCAGUCGCCGUCGCCGUUG-ACUU-CAGCAUCGACUUCGACGUGACCGCCAGACGAGUCGACAUGAAUCGAAAGACCCCAAAGUCGAAUGCAUCAAAUGAUACUAUUCC
.(((((((.(((..((((((((.(((((....))))).....((.((((.(((((.((....)).))-))).-)))).))))))))))..))))))...))))..(((((.((..((....))...))..)))))....(((....)))........ ( -48.20, z-score =  -0.88, R)
>droSim1.chrX_random 3908894 155 + 5698898
ACGUUCGGCUCGAAUUGGAGUCAUUGCCAACUG-CAGCAGCUGAAGCUGCAGUCGCAGUCGCCGUUG-ACUUUCAGCAUCGACUUCGACGUGACCGCCAGACGAGUCGACAUGAAUCGAAAGACCCCAAAGUCGAAUGCAUCAAAUGAUACUAUUCC
.(((((((((((..((((.((((((((.....)-))(((((....))))).((((.(((((..((((-.....))))..))))).)))))))))..)))).))))))(((.((..((....))...))..)))))))).(((....)))........ ( -53.50, z-score =  -2.71, R)
>droPer1.super_28 767890 145 - 1111753
CGGUUCGGUUCGAAUUCGAGUCAUUGCCAACUGGCCGCAGGUGAUGGCUCAGUCGCAGUUGCAGUUGCAGUUGCAGUCGACGUCGCUGCAUGAUCGCCAGACGAGUCGACAUGAAUUGAUAGACUCCAAAGUCAAAUGCAACACA------------
....((((((((.....(((((((..((...........))..)))))))....(((..(((....)))..))).((((((.(((((((......).))).))))))))).))))))))..((((....))))............------------ ( -50.70, z-score =  -1.11, R)
>dp4.chrXL_group1a 7252645 145 - 9151740
CGGUUCGGUUCGAAUUCGAGUCAUUGCCAACUGGCCGCAGGUGAUGGCUCAGUCGGACUUGCAGUUGCAGUUGCAGUCGACGCCGCUGCAUGAUCGCCAGACGAGUCGACAUGAAUUGAUAGACUCCAAAGUCAAAUGCAACACA------------
......(((((((....(((((((..((...........))..)))))))..)))))))(((....)))((((((((((((..((((((......).))).)).))))))...........((((....))))...))))))...------------ ( -51.80, z-score =  -1.32, R)
>droEre2.scaffold_4690 6761337 130 - 18748788
ACGUUCGGCUCGAAUUGGAGUCAUUGCCAACUGGCAGCAGGUGAAGCUGCAGUCGCAGU------UG-ACUC-C------GACUUCGACGUGACCGCCAGACGAGUUC-------------GACCCCAAAGUCGAAUGCAUCAAAUGAUACUGUUAU
.(((..(((((((((((((((((((((..((((.((((.......)))))))).)))).------))-))))-)------)).))))).......)))..))).((((-------------(((......)))))))..(((....)))........ ( -48.71, z-score =  -3.05, R)
>droYak2.chrX 9216327 143 + 21770863
ACGUUCGGCUCGAAUUGGAGUCAUUGCCAACUGGCAGCAGGUGAAGCUGCAGUCGCAGU------UG-ACUU-C------GACUUCGACGUGACCGCCAGACGAGUCGACAUGAAUCGAAAGACCCCAAAGUCGAAUGCAUCAAAUGAUACUGUUAU
.(((((((((((..((((.(((((((((....))))((((......)))).((((.(((------((-....-)------)))).)))))))))..)))).))))))(((.((..((....))...))..)))))))).(((....)))........ ( -48.50, z-score =  -2.10, R)
>droSec1.super_32 472802 156 + 562834
ACGUUCGGCUCGAAUUGGAGUCAUUGCCAACUGGCAGCAGGUGAAGCUGCAGUCGCAGUCGCCGUUG-ACUUUCAGCAUCGACUUCGACGUGACCGCCAGACGAGUCGACAUGAAUCGAAAGACCCCAAAGUCGAAUGCAUCAAAUGAUACUAUUCC
.(((((((((((..((((.(((((((((....))))((((......)))).((((.(((((..((((-.....))))..))))).)))))))))..)))).))))))(((.((..((....))...))..)))))))).(((....)))........ ( -54.30, z-score =  -2.40, R)
>consensus
ACGUUCGGCUCGAAUUGGAGUCAUUGCCAACUGGCAGCAGGUGAAGCUGCAGUCGCAGUCGCCGUUG_ACUU_CAGCAUCGACUUCGACGUGACCGCCAGACGAGUCGACAUGAAUCGAAAGACCCCAAAGUCGAAUGCAUCAAAUGAUACUAUUCC
....((((((((..((((........))))(((((.((((......)))).((((........((((......))))........))))......))))).))))))))............(((......)))........................ (-24.86 = -26.68 +   1.82)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,025,983 – 15,026,138
Length 155
Sequences 7
Columns 157
Reading direction reverse
Mean pairwise identity 78.77
Shannon entropy 0.40428
G+C content 0.51996
Mean single sequence MFE -54.29
Consensus MFE -28.13
Energy contribution -30.16
Covariance contribution 2.03
Combinations/Pair 1.15
Mean z-score -2.44
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.53
SVM RNA-class probability 0.947715
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15025983 155 - 22422827
GGAAUAGUAUCAUUUGAUGCAUUCGACUUUGGGGUCUUUCGAUUCAUGUCGACUCGUCUGGCGGUCACGUCGAAGUCGAUGCUG-AAGU-CAACGGCGACGGCGACUGCAGCUUCACCUGCUGCCAGUUGGCAAUGACUCCAAUUCGAUCCGAACGU
(((...(((((....)))))..((((..((((((((...........((((.(.(((.((((..((((((((....))))).))-).))-))))))))))(.((((((((((.......)))).)))))).)...)))))))).)))))))...... ( -62.20, z-score =  -3.30, R)
>droSim1.chrX_random 3908894 155 - 5698898
GGAAUAGUAUCAUUUGAUGCAUUCGACUUUGGGGUCUUUCGAUUCAUGUCGACUCGUCUGGCGGUCACGUCGAAGUCGAUGCUGAAAGU-CAACGGCGACUGCGACUGCAGCUUCAGCUGCUG-CAGUUGGCAAUGACUCCAAUUCGAGCCGAACGU
((....(((((....))))).(((((..((((((((..(((((....))))).(((((((((..((((((((....))))).)))..))-))..))))).((((((((((((.......))))-))))).)))..)))))))).)))))))...... ( -64.00, z-score =  -3.65, R)
>droPer1.super_28 767890 145 + 1111753
------------UGUGUUGCAUUUGACUUUGGAGUCUAUCAAUUCAUGUCGACUCGUCUGGCGAUCAUGCAGCGACGUCGACUGCAACUGCAACUGCAACUGCGACUGAGCCAUCACCUGCGGCCAGUUGGCAAUGACUCGAAUUCGAACCGAACCG
------------.(.(((...(((((..((.(((((...........((((((((((...((......)).)))).))))))(((...(((....)))....((((((.(((.........))))))))))))..))))).)).)))))...)))). ( -43.90, z-score =  -0.51, R)
>dp4.chrXL_group1a 7252645 145 + 9151740
------------UGUGUUGCAUUUGACUUUGGAGUCUAUCAAUUCAUGUCGACUCGUCUGGCGAUCAUGCAGCGGCGUCGACUGCAACUGCAACUGCAAGUCCGACUGAGCCAUCACCUGCGGCCAGUUGGCAAUGACUCGAAUUCGAACCGAACCG
------------.(.(((...(((((..((.(((((...........((((((((((...((......)).)))).))))))((((........)))).(.(((((((.(((.........)))))))))))...))))).)).)))))...)))). ( -43.70, z-score =   0.06, R)
>droEre2.scaffold_4690 6761337 130 + 18748788
AUAACAGUAUCAUUUGAUGCAUUCGACUUUGGGGUC-------------GAACUCGUCUGGCGGUCACGUCGAAGUC------G-GAGU-CA------ACUGCGACUGCAGCUUCACCUGCUGCCAGUUGGCAAUGACUCCAAUUCGAGCCGAACGU
......(((((....))))).(((((((....))))-------------)))..(((.(((((....).(((((...------(-((((-((------..((((((((((((.......)))).))))).))).)))))))..))))))))).))). ( -52.20, z-score =  -3.53, R)
>droYak2.chrX 9216327 143 - 21770863
AUAACAGUAUCAUUUGAUGCAUUCGACUUUGGGGUCUUUCGAUUCAUGUCGACUCGUCUGGCGGUCACGUCGAAGUC------G-AAGU-CA------ACUGCGACUGCAGCUUCACCUGCUGCCAGUUGGCAAUGACUCCAAUUCGAGCCGAACGU
......(((((....))))).(((((..((((((((.((((((((((((.(((.((.....))))))))).).))))------)-))((-((------((((.....(((((.......)))))))))))))...)))))))).)))))........ ( -53.80, z-score =  -3.30, R)
>droSec1.super_32 472802 156 - 562834
GGAAUAGUAUCAUUUGAUGCAUUCGACUUUGGGGUCUUUCGAUUCAUGUCGACUCGUCUGGCGGUCACGUCGAAGUCGAUGCUGAAAGU-CAACGGCGACUGCGACUGCAGCUUCACCUGCUGCCAGUUGGCAAUGACUCCAAUUCGAGCCGAACGU
((....(((((....))))).(((((..((((((((..(((((....))))).(((((((((..((((((((....))))).)))..))-))..))))).((((((((((((.......)))).))))).)))..)))))))).)))))))...... ( -60.20, z-score =  -2.83, R)
>consensus
GGAAUAGUAUCAUUUGAUGCAUUCGACUUUGGGGUCUUUCGAUUCAUGUCGACUCGUCUGGCGGUCACGUCGAAGUCGAUGCUG_AAGU_CAACGGCGACUGCGACUGCAGCUUCACCUGCUGCCAGUUGGCAAUGACUCCAAUUCGAGCCGAACGU
......(((((....))))).(((((..((((((((......................(((((....)))))..............................((((((((((.......)))).)))))).....)))))))).)))))........ (-28.13 = -30.16 +   2.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:45:24 2011