Locus 13175

Sequence ID dm3.chrX
Location 4,817,290 – 4,817,449
Length 159
Max. P 0.998498
window18109 window18110

overview

Window 9

Location 4,817,290 – 4,817,449
Length 159
Sequences 3
Columns 160
Reading direction forward
Mean pairwise identity 87.50
Shannon entropy 0.17218
G+C content 0.54900
Mean single sequence MFE -64.90
Consensus MFE -58.59
Energy contribution -58.27
Covariance contribution -0.33
Combinations/Pair 1.09
Mean z-score -3.74
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.37
SVM RNA-class probability 0.998458
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4817290 159 + 22422827
ACAAGUCCCUCC-UUCCGCUCGACAGACGCUGGAAAAUCAAAGCCAGCGGAAGUGACUUCCGGCGGUUAAGAUUUUCCAGCGCCUGUGAAGCGCCGGGAGCGAACUUGUUGGAGUCAAACUACAGGCUACCAGGGCGCUACAUUCAAUAAUUAACACACU
((((((.(((((-(..((((..((((.((((((((((((..((((..((((((...))))))..))))..)))))))))))).))))..))))..))))).).))))))(((((((........)))).)))............................ ( -64.50, z-score =  -4.95, R)
>droSim1.chrX 3726739 160 + 17042790
ACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCCGGCGGUUAAGAAACUCCAGCGCCGGUGAAGCGGAAGGAGCGAGCUUGUUGGAGUCAAACUACAGGCUACCAGGGCGCCUCAUUCAACUAUUAACACUAC
....((((...(((((((((..((((..((.((((..((..(((((.((((((...)))))).)))))..))..)))).))..))))..)))))))))....(((((((.(........).)))))))....))))........................ ( -65.60, z-score =  -3.15, R)
>droSec1.super_4 4251128 160 - 6179234
ACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCCGGCGGUUAAGAAACUCCAGCGCCGGUGAAGCGGAAGGAGCGAGAUUGUUGGAGUCAAACUUCAGGCUACCAGGGCGCCUCAAUUAACUAUUAACACUAC
....((((((((((((((((..((((..((.((((..((..(((((.((((((...)))))).)))))..))..)))).))..))))..)))))))))...))).....(((((((........)))).)))))))........................ ( -64.60, z-score =  -3.12, R)
>consensus
ACAAGUCCCUCCCUUCUGCUCGACCGAAGCCGGAGCAUCGAAGCCGGCGGAAGUAGCUUCCGGCGGUUAAGAAACUCCAGCGCCGGUGAAGCGGAAGGAGCGAGCUUGUUGGAGUCAAACUACAGGCUACCAGGGCGCCUCAUUCAACUAUUAACACUAC
....((((((((.(((((((..((((..((.((((..((..(((((.((((((...)))))).)))))..))..)))).))..))))..))))))))))).........(((((((........)))).)))))))........................ (-58.59 = -58.27 +  -0.33)

alignment

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secondary structure

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dotplot

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Window 0

Location 4,817,290 – 4,817,449
Length 159
Sequences 3
Columns 160
Reading direction reverse
Mean pairwise identity 87.50
Shannon entropy 0.17218
G+C content 0.54900
Mean single sequence MFE -69.73
Consensus MFE -60.86
Energy contribution -61.20
Covariance contribution 0.34
Combinations/Pair 1.11
Mean z-score -3.88
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.38
SVM RNA-class probability 0.998498
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4817290 159 - 22422827
AGUGUGUUAAUUAUUGAAUGUAGCGCCCUGGUAGCCUGUAGUUUGACUCCAACAAGUUCGCUCCCGGCGCUUCACAGGCGCUGGAAAAUCUUAACCGCCGGAAGUCACUUCCGCUGGCUUUGAUUUUCCAGCGUCUGUCGAGCGGAA-GGAGGGACUUGU
((.(((((((((....))).)))))).))((.((.(........).)))).((((((((.((((...(((((.(((((((((((((((((..(.(((.((((((...)))))).))).)..))))))))))))))))).)))))...-)))))))))))) ( -70.70, z-score =  -5.17, R)
>droSim1.chrX 3726739 160 - 17042790
GUAGUGUUAAUAGUUGAAUGAGGCGCCCUGGUAGCCUGUAGUUUGACUCCAACAAGCUCGCUCCUUCCGCUUCACCGGCGCUGGAGUUUCUUAACCGCCGGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGU
...........(((..(((.((((((....)).))))...)))..)))...((((((((..((((((.((((.(((((.((((((((.((..(.(((.((((((...)))))).))).)..)).)))))))).))))).)))).)))))).))).))))) ( -70.90, z-score =  -3.38, R)
>droSec1.super_4 4251128 160 + 6179234
GUAGUGUUAAUAGUUAAUUGAGGCGCCCUGGUAGCCUGAAGUUUGACUCCAACAAUCUCGCUCCUUCCGCUUCACCGGCGCUGGAGUUUCUUAACCGCCGGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGU
....((((...((((((((.((((((....)).)))).))..))))))..)))).((((..((((((.((((.(((((.((((((((.((..(.(((.((((((...)))))).))).)..)).)))))))).))))).)))).)))))).))))..... ( -67.60, z-score =  -3.09, R)
>consensus
GUAGUGUUAAUAGUUGAAUGAGGCGCCCUGGUAGCCUGUAGUUUGACUCCAACAAGCUCGCUCCUUCCGCUUCACCGGCGCUGGAGUUUCUUAACCGCCGGAAGCUACUUCCGCCGGCUUCGAUGCUCCGGCUUCGGUCGAGCAGAAGGGAGGGACUUGU
............(((((((.((((((....)).))))...)))))))....(((((.((.((((((.(((((.(((((.((((((((.((..(.(((.((((((...)))))).))).)..)).)))))))).))))).)))).).)))))).))))))) (-60.86 = -61.20 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:16:03 2011