Locus 89

Sequence ID dm3.chr2L
Location 632,152 – 632,257
Length 105
Max. P 0.810357
window131 window132

overview

Window 1

Location 632,152 – 632,253
Length 101
Sequences 7
Columns 120
Reading direction forward
Mean pairwise identity 68.93
Shannon entropy 0.53797
G+C content 0.50975
Mean single sequence MFE -36.21
Consensus MFE -12.00
Energy contribution -12.06
Covariance contribution 0.06
Combinations/Pair 1.28
Mean z-score -2.02
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.16
SVM RNA-class probability 0.570084
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 632152 101 + 23011544
---------UCCUCUUUGAUCUCCGCCUGCGAUUAGC--------UCUAACUAUGGACAUCAUUCGCCUGGCGAUUAAGCCCACCAAGUUGGAAGAUUAGCUGCAGGGGCAG--AUCGAU
---------......(((((((((.((((((.(((((--------(((((((.(((.......((((...)))).........))))))))).)).)))).)))))))).))--))))). ( -34.19, z-score =  -1.95, R)
>droEre2.scaffold_4929 690169 85 + 26641161
---------UCCUCUUUGAUCUCCGCCUGCGAUUAGC--------UCUAACCAUGGUGAUUA----------------GCCCACCAAGUUGGAGGAUUAGCUUUAGGGGCAG--AUCGAU
---------......(((((((((.(((((((((..(--------((((((..(((((....----------------...))))).))))))))))).))...))))).))--))))). ( -28.60, z-score =  -1.82, R)
>droYak2.chr2L 622134 85 + 22324452
---------UCCUCUUUGAUCUCCGCCUGCGAUUAGC--------UCUAACCAUGGUGAUCA----------------GCCCACCAAGAUGGAAGAUUAGCUCUAGGGGCAG--AUCGAU
---------......(((((((((.((((.((((((.--------(((..((((((((....----------------...)))))...))).))))))).)))))))).))--))))). ( -25.00, z-score =  -0.63, R)
>droSec1.super_14 614274 96 + 2068291
--------------UUUGAUCUCCUCCUGCGAUUAGC--------UCUAACCAUGGUGAUCAUUCGCCAGGCGAUUGAGCCCACCAAGUUGAAAGAUUAGCUGCAGGGGCAG--AUCGAU
--------------.(((((((.(((((((.....((--------((...((.((((((....)))))))).....))))......((((((....))))))))))))).))--))))). ( -39.30, z-score =  -3.97, R)
>droSim1.chr2L 638643 101 + 22036055
---------UCCUCUUUGAUCUCCGCCUGCGAUUAGC--------UCUAACCAUGGUGAUCAUUCGCCAGGCGAUUGAACCCACCAAGUUGAAAGAUUAGCUGCAGGGGCAG--AUCGAU
---------......(((((((((.((((((.(((((--------(.((((..(((((.(((.((((...)))).)))...))))).))))..)).)))).)))))))).))--))))). ( -35.80, z-score =  -2.74, R)
>dp4.chr4_group3 2595647 120 - 11692001
GUCUCCGUCUCCAUCUCGGAGUCCGAGUCCGAGUCGGAGUCGGAGUCUAAUCAUGGUGAUCAUUCGAUUUGCGAUUGAGCGUGCCACAUUGGGAGAUUAGCUCUGGGGGCAUUCAACGAU
(((((((.((((..((((((.......))))))..)))).)((((.((((((.(((((.(((.(((.....))).)))...)))))(....)..)))))))))))))))).......... ( -46.30, z-score =  -1.65, R)
>droPer1.super_8 3685257 120 - 3966273
GUCUCCGUCUCCAUCUCCAUCUCGGAGUCCGAGUCGGAGUCGGAGUCUAAUCAUGGUGAUCAUUCGAUUUGCGAUUGAGCGUGCCACAUUGGGAGAUUAGCUCUGGGGGCAUUCAACGAU
(((((((.((((..((((..(((((...)))))..))))..)))).)......(((((.(((.(((.....))).)))...))))).....((((.....)))))))))).......... ( -44.30, z-score =  -1.38, R)
>consensus
_________UCCUCUUUGAUCUCCGCCUGCGAUUAGC________UCUAACCAUGGUGAUCAUUCGCCUGGCGAUUGAGCCCACCAAGUUGGAAGAUUAGCUCUAGGGGCAG__AUCGAU
................((((((......((.....))........((((((..(((((.....(((.....))).......))))).))))))))))))(((.....))).......... (-12.00 = -12.06 +   0.06)

alignment

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secondary structure

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dotplot

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Window 2

Location 632,153 – 632,257
Length 104
Sequences 7
Columns 120
Reading direction forward
Mean pairwise identity 67.38
Shannon entropy 0.57453
G+C content 0.52431
Mean single sequence MFE -36.33
Consensus MFE -15.44
Energy contribution -15.16
Covariance contribution -0.29
Combinations/Pair 1.37
Mean z-score -1.60
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.76
SVM RNA-class probability 0.810357
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 632153 104 + 23011544
-------------CCUCUUUGAUCUCCGCCUGCGAUUAGC-UCUAACUAUGGACAUCAUUCGCCUGGCGAUUAAGCCCACCAAGUUGGAAGAUUAGCUGCAGGGGCAG--AUCGAUCGGU
-------------((...(((((((((.((((((.(((((-(((((((.(((.......((((...)))).........))))))))).)).)))).)))))))).))--)))))..)). ( -35.49, z-score =  -1.68, R)
>droEre2.scaffold_4929 690170 88 + 26641161
-------------CCUCUUUGAUCUCCGCCUGCGAUUAGC-UCUAACCAUGGUGAUUA----------------GCCCACCAAGUUGGAGGAUUAGCUUUAGGGGCAG--AUCGAUCGGU
-------------((...(((((((((.(((((((((..(-((((((..(((((....----------------...))))).))))))))))).))...))))).))--)))))..)). ( -29.90, z-score =  -1.54, R)
>droYak2.chr2L 622135 88 + 22324452
-------------CCUCUUUGAUCUCCGCCUGCGAUUAGC-UCUAACCAUGGUGAUCA----------------GCCCACCAAGAUGGAAGAUUAGCUCUAGGGGCAG--AUCGAUCGGG
-------------(((..(((((((((.((((.((((((.-(((..((((((((....----------------...)))))...))).))))))).)))))))).))--)))))..))) ( -28.40, z-score =  -0.87, R)
>droSec1.super_14 614274 100 + 2068291
-----------------UUUGAUCUCCUCCUGCGAUUAGC-UCUAACCAUGGUGAUCAUUCGCCAGGCGAUUGAGCCCACCAAGUUGAAAGAUUAGCUGCAGGGGCAG--AUCGAUCGGU
-----------------.(((((((.(((((((.....((-((...((.((((((....)))))))).....))))......((((((....))))))))))))).))--)))))..... ( -39.30, z-score =  -3.13, R)
>droSim1.chr2L 638644 104 + 22036055
-------------CCUCUUUGAUCUCCGCCUGCGAUUAGC-UCUAACCAUGGUGAUCAUUCGCCAGGCGAUUGAACCCACCAAGUUGAAAGAUUAGCUGCAGGGGCAG--AUCGAUCGGU
-------------((...(((((((((.((((((.(((((-(.((((..(((((.(((.((((...)))).)))...))))).))))..)).)))).)))))))).))--)))))..)). ( -37.10, z-score =  -2.39, R)
>dp4.chr4_group3 2595651 118 - 11692001
CCGUCUCCAUCUCGGAGUCCGAGUCCGAGUCGGAGUCGGAGUCUAAUCAUGGUGAUCAUUCGAUUUGCGAUUGAGCGUGCCACAUUGGGAGAUUAGCUCUGGGGGCAUUCAACGAUCG--
..((((((((((((((.(((((.((((...)))).))))).))).....(((((.(((.(((.....))).)))...)))))......)))).......)))))))............-- ( -41.91, z-score =  -0.63, R)
>droPer1.super_8 3685261 118 - 3966273
CCGUCUCCAUCUCCAUCUCGGAGUCCGAGUCGGAGUCGGAGUCUAAUCAUGGUGAUCAUUCGAUUUGCGAUUGAGCGUGCCACAUUGGGAGAUUAGCUCUGGGGGCAUUCAACGAUCG--
..((((((..((((..(((((...)))))..))))..((((.((((((.(((((.(((.(((.....))).)))...)))))(....)..))))))))))))))))............-- ( -42.20, z-score =  -1.00, R)
>consensus
_____________CCUCUUUGAUCUCCGCCUGCGAUUAGC_UCUAACCAUGGUGAUCAUUCGCCUGGCGAUUGAGCCCACCAAGUUGGAAGAUUAGCUCUAGGGGCAG__AUCGAUCGGU
....................((((.((.((((((.((((..((((((..(((((.....(((.....))).......))))).))))))...)))).))))))))........))))... (-15.44 = -15.16 +  -0.29)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:06:29 2011