Locus 11732

Sequence ID dm3.chr3R
Location 23,394,767 – 23,394,918
Length 151
Max. P 0.968832
window16117 window16118

overview

Window 7

Location 23,394,767 – 23,394,885
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 92.20
Shannon entropy 0.13502
G+C content 0.54576
Mean single sequence MFE -48.24
Consensus MFE -42.96
Energy contribution -43.00
Covariance contribution 0.04
Combinations/Pair 1.14
Mean z-score -2.36
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.80
SVM RNA-class probability 0.968832
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23394767 118 - 27905053
UGGCCAAAAGCUGGGCUUUGCGGUUGGUGGUGUCCAACUGGCGAAGUCCAUUUGGGCCUCUCGGUUAACGUGGACUGCCGGAGAAAGUUCAGCUGGCGGGAACGGAAUUCAGGACUCA
.((((...((.((((((((((((((((......)))))).)))))))))).)).))))((..((....(((...(((((((.((....))..)))))))..)))....))..)).... ( -48.10, z-score =  -1.90, R)
>droSim1.chr3R 23126033 118 - 27517382
UGGCCAAAAUCUGGGCUUUGCGGUUGGUAGUGUCCAGCUGGCGAAGUCCAUUUGGGCCUCUCGGUUAACGCGGUCUGCCAGAGAAAGUUCAGCUGGCGGGAAUGGAAUUCAGGAUUCA
.((((...(..((((((((((((((((......)))))).))))))))))..).))))((..((....((...((((((((.((....))..))))))))..))....))..)).... ( -45.10, z-score =  -1.58, R)
>droSec1.super_22 28518 118 - 1066717
UGGCCAAAAUCUGGGCUUUGCGGUUGGUAGUGUCCAGCUGGCGAAGUCCAUUUGGGCCUCUCGGUUAUCGCGGUCUGCCAGAGAAAGUUCAGCUGGCGGGAAUGGAAUUCAGGAUUCA
.((((...(..((((((((((((((((......)))))).))))))))))..).))))(((..(((.(((...((((((((.((....))..))))))))..))))))..)))..... ( -45.40, z-score =  -1.62, R)
>droYak2.chr3R 5737709 118 + 28832112
UGGCCAAAUUCUGGGCUCUGCGGUUGGCAUUGUCCAGCUGGCAAUGUCCAUUUGGGCCUCUCGGUUUUCGUGGUCAGCCGGAGAAAGUUCAGCUGGCGGGAACGGAAUUCAGGAUUCA
.((((......(((((..(((((((((......)))))).)))..)))))....))))((..(..((((((.((((((.(((.....))).))))))....))))))..)..)).... ( -42.90, z-score =  -0.69, R)
>droEre2.scaffold_4820 5826877 118 + 10470090
UGGCCAAAUUCUGGGCUUUGCGGUUGGUAGUGUCCAGCUGGCGAAGUCCAUUUUGGCCUCUUGAUUUUCGUGGUCUGCCGGAGAAAGUUCAGCUGGCGGGAACGGAAUUCAGGAUUCA
.(((((((...((((((((((((((((......)))))).)))))))))).)))))))((((((.((((((..((((((((.((....))..)))))))).)))))).)))))).... ( -59.70, z-score =  -6.01, R)
>consensus
UGGCCAAAAUCUGGGCUUUGCGGUUGGUAGUGUCCAGCUGGCGAAGUCCAUUUGGGCCUCUCGGUUAUCGUGGUCUGCCGGAGAAAGUUCAGCUGGCGGGAACGGAAUUCAGGAUUCA
.((((......((((((((((((((((......)))))).))))))))))....))))(((.((....(((...(((((((.((....))..)))))))..)))....)).))).... (-42.96 = -43.00 +   0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 23,394,803 – 23,394,918
Length 115
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 69.83
Shannon entropy 0.58118
G+C content 0.53633
Mean single sequence MFE -38.87
Consensus MFE -24.03
Energy contribution -26.42
Covariance contribution 2.39
Combinations/Pair 1.40
Mean z-score -1.28
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.72
SVM RNA-class probability 0.963544
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23394803 115 - 27905053
CAGUCAGUUACAACUCGCAAACCGAACACAAGUUGGCCAAAAGCUGGGCUUUGCGGUUGGUGGUGUCCAACUGGCGAAGUCCAUUUGGGCCUCUCGGUUAACGUGGACUGCCGGA
((((((((....)))(((.((((((((....)).((((...((.((((((((((((((((......)))))).)))))))))).)).))))..))))))...))))))))..... ( -43.80, z-score =  -1.63, R)
>dp4.chr2 9041767 96 - 30794189
--GGGAAUUAAAAUGGAAUGUGU-----AAAUUUAAUUAAACGCCGAG----GCGUCUGCUGCCAUUUGCC--GCAAGGAC----UGAGCGGCU--GUUGCUGCCUUUUGCCGCA
--((.((.......((...((.(-----((......))).)).))(((----(((.(.(((((((....((--....))..----)).))))).--...).)))))))).))... ( -24.20, z-score =   1.12, R)
>droSim1.chr3R 23126069 114 - 27517382
CAGUCAGUUACAAUUCGC-AGCCGAACACAAGUUGGCCAAAAUCUGGGCUUUGCGGUUGGUAGUGUCCAGCUGGCGAAGUCCAUUUGGGCCUCUCGGUUAACGCGGUCUGCCAGA
................((-(((((...((.....((((...(..((((((((((((((((......)))))).))))))))))..).)))).....)).....))).)))).... ( -42.80, z-score =  -2.04, R)
>droSec1.super_22 28554 114 - 1066717
CAGUCAGUUACAAUUCGC-AGCCGAACACAAGUUGGCCAAAAUCUGGGCUUUGCGGUUGGUAGUGUCCAGCUGGCGAAGUCCAUUUGGGCCUCUCGGUUAUCGCGGUCUGCCAGA
................((-(((((...((.....((((...(..((((((((((((((((......)))))).))))))))))..).)))).....)).....))).)))).... ( -42.80, z-score =  -2.16, R)
>droYak2.chr3R 5737745 107 + 28832112
--------CAGCAGUCACAAGCCGAACACAAGUUGGCCAAAUUCUGGGCUCUGCGGUUGGCAUUGUCCAGCUGGCAAUGUCCAUUUGGGCCUCUCGGUUUUCGUGGUCAGCCGGA
--------............(((.(((....))))))......((((((..(((.....)))..))))))(((((..((.((((..(((((....)))))..)))).))))))). ( -36.10, z-score =  -0.24, R)
>droEre2.scaffold_4820 5826913 109 + 10470090
CAGUCAGUUACAGCUCGCAAGC------GAAGUUGGCCAAAUUCUGGGCUUUGCGGUUGGUAGUGUCCAGCUGGCGAAGUCCAUUUUGGCCUCUUGAUUUUCGUGGUCUGCCGGA
..(.(((((((((((((....)------).))))(((((((...((((((((((((((((......)))))).)))))))))).)))))))...........)))).))).)... ( -43.50, z-score =  -2.74, R)
>consensus
CAGUCAGUUACAAUUCGCAAGCCGAACACAAGUUGGCCAAAAUCUGGGCUUUGCGGUUGGUAGUGUCCAGCUGGCGAAGUCCAUUUGGGCCUCUCGGUUAUCGCGGUCUGCCGGA
..............((((.((((((.........((((......((((((((((((((((......)))))).))))))))))....))))..))))))...))))......... (-24.03 = -26.42 +   2.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:48:30 2011