Locus 10479

Sequence ID dm3.chr3R
Location 14,023,561 – 14,023,665
Length 104
Max. P 0.988588
window14415 window14416

overview

Window 5

Location 14,023,561 – 14,023,665
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 94.62
Shannon entropy 0.09288
G+C content 0.51639
Mean single sequence MFE -38.42
Consensus MFE -33.86
Energy contribution -35.02
Covariance contribution 1.16
Combinations/Pair 1.09
Mean z-score -2.18
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.25
SVM RNA-class probability 0.915876
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14023561 104 + 27905053
CGUUCCACUCAGGUGAGUGAGGAGCAGACAGUGAUGCUCUUGGCCUCUCGGCUUAGUACACAUUGUACACAGGUAGGUUGCUACCUAAAAGCCUAAAGGCCAGC
.....(((((....)))))(((((((........)))))))(((((...(((((.((((.....))))..((((((....))))))..)))))...)))))... ( -43.00, z-score =  -3.36, R)
>droSim1.chr3R 20059787 104 - 27517382
CGUUCCACUCAGGUGAGUGAGGAACAGACAGUGAUGCUCUUGGCCUCUCGGCUUAGUACACAUUGUACACAGGUAGGUUGCUACCUAAAAGCCUAAAGGCCAGC
.(((((((((....))))..)))))(((((....)).)))((((((...(((((.((((.....))))..((((((....))))))..)))))...)))))).. ( -41.00, z-score =  -3.15, R)
>droSec1.super_12 1994753 104 - 2123299
CGUUCCACUCAGGUGAGUGGGGAACAGACAGUGAUGCUCUUGGCCUCUCGGCUUAGUACACAUUGUACACAGGUAGGUUGCUACCUAAAAGCCUAAAGGCCAGC
..((((((((....))))))))...(((((....)).)))((((((...(((((.((((.....))))..((((((....))))))..)))))...)))))).. ( -41.40, z-score =  -2.94, R)
>droYak2.chr3R 2625401 103 + 28832112
CGUUCCGCACAGGUGAGUGAGU-GUAGACAGUGAUGCUCUUGGCCUCUCGGCUUAGUUCACAUUGUACACAGGUAGGUUGCUACCUAACAGCCUUAAGGCCAGC
......((..((((..((..((-((..((((((.((..((.((((....)))).))..))))))))))))((((((....)))))).)).))))....)).... ( -31.60, z-score =  -0.03, R)
>droEre2.scaffold_4770 10134537 104 - 17746568
CGUUCCGCACAGGUGAGUGAGGAGUAGACAGUGAUGCUCUUGGCCUCUCGGCUUAGUACACAUUGUACACAGGUAGGUUUCUACCUAAAUGCCUAAAGGCCAGC
..((((.(((......))).)))).(((((....)).)))((((((...(((...((((.....))))..((((((....))))))....)))...)))))).. ( -35.10, z-score =  -1.42, R)
>consensus
CGUUCCACUCAGGUGAGUGAGGAGCAGACAGUGAUGCUCUUGGCCUCUCGGCUUAGUACACAUUGUACACAGGUAGGUUGCUACCUAAAAGCCUAAAGGCCAGC
.....(((((....)))))(((((((........)))))))(((((...(((((.((((.....))))..((((((....))))))..)))))...)))))... (-33.86 = -35.02 +   1.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,023,561 – 14,023,665
Length 104
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 94.62
Shannon entropy 0.09288
G+C content 0.51639
Mean single sequence MFE -39.82
Consensus MFE -32.80
Energy contribution -34.24
Covariance contribution 1.44
Combinations/Pair 1.03
Mean z-score -3.30
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.33
SVM RNA-class probability 0.988588
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14023561 104 - 27905053
GCUGGCCUUUAGGCUUUUAGGUAGCAACCUACCUGUGUACAAUGUGUACUAAGCCGAGAGGCCAAGAGCAUCACUGUCUGCUCCUCACUCACCUGAGUGGAACG
..((((((((.(((((.(((((((....))))))).((((.....)))).))))).)))))))).(((((........))))).((((((....)))))).... ( -43.40, z-score =  -4.07, R)
>droSim1.chr3R 20059787 104 + 27517382
GCUGGCCUUUAGGCUUUUAGGUAGCAACCUACCUGUGUACAAUGUGUACUAAGCCGAGAGGCCAAGAGCAUCACUGUCUGUUCCUCACUCACCUGAGUGGAACG
((((((((((.(((((.(((((((....))))))).((((.....)))).))))).)))))))...)))..........(((((..((((....))))))))). ( -41.90, z-score =  -3.81, R)
>droSec1.super_12 1994753 104 + 2123299
GCUGGCCUUUAGGCUUUUAGGUAGCAACCUACCUGUGUACAAUGUGUACUAAGCCGAGAGGCCAAGAGCAUCACUGUCUGUUCCCCACUCACCUGAGUGGAACG
..((((((((.(((((.(((((((....))))))).((((.....)))).))))).)))))))).(((((........))))).((((((....)))))).... ( -43.80, z-score =  -4.49, R)
>droYak2.chr3R 2625401 103 - 28832112
GCUGGCCUUAAGGCUGUUAGGUAGCAACCUACCUGUGUACAAUGUGAACUAAGCCGAGAGGCCAAGAGCAUCACUGUCUAC-ACUCACUCACCUGUGCGGAACG
(((((((((..((((..(((((((....)))))))........(....)..))))..))))))...))).......((..(-((..........)))..))... ( -31.30, z-score =  -0.75, R)
>droEre2.scaffold_4770 10134537 104 + 17746568
GCUGGCCUUUAGGCAUUUAGGUAGAAACCUACCUGUGUACAAUGUGUACUAAGCCGAGAGGCCAAGAGCAUCACUGUCUACUCCUCACUCACCUGUGCGGAACG
((((((((((.(((...(((((((....))))))).((((.....))))...))).)))))))...)))............(((.(((......))).)))... ( -38.70, z-score =  -3.38, R)
>consensus
GCUGGCCUUUAGGCUUUUAGGUAGCAACCUACCUGUGUACAAUGUGUACUAAGCCGAGAGGCCAAGAGCAUCACUGUCUGCUCCUCACUCACCUGAGUGGAACG
((((((((((.(((((.(((((((....))))))).((((.....)))).))))).)))))))...)))...............((((((....)))))).... (-32.80 = -34.24 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:24:47 2011