Locus 7029

Sequence ID dm3.chr3L
Location 11,594,245 – 11,594,352
Length 107
Max. P 0.957906
window9678 window9679

overview

Window 8

Location 11,594,245 – 11,594,352
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.39
Shannon entropy 0.45285
G+C content 0.50684
Mean single sequence MFE -28.91
Consensus MFE -16.32
Energy contribution -17.79
Covariance contribution 1.47
Combinations/Pair 1.11
Mean z-score -2.03
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.53
SVM RNA-class probability 0.947619
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11594245 107 + 24543557
GUGUGUUUUUAUUCCAGCCACUUUGCGAGAGU-------UCCUACUGUUGGCUCUCGCUGUUUAUUCUCGCUCCGCUCUCU--U----CCGCACACGAGCGUAGUUAGACCAACUAAUGC
(((.(((........))))))...((((((((-------(.........))))))))).(((...(((.(((.(((((...--.----........))))).))).)))..)))...... ( -27.10, z-score =  -1.53, R)
>droYak2.chr3L 11625601 114 + 24197627
GUGUGUUUUUAUGCCAGCCACUUUGCGAGAGUGUGGAGCCCCAAUUGUUGGCUCUCGCCGUUUAUUCUCGCUCCGCUCUCU--C----CCGCACGCGAGCGUAGUUAGACCAACUAAUGC
((((((..........((......))(((((.(((((((...(((...((((....))))...)))...))))))).))))--)----..))))))..((((((((.....)))).)))) ( -38.90, z-score =  -3.00, R)
>droEre2.scaffold_4784 11581201 111 + 25762168
GUGUGUUUUCAUUCCAGCCACUUUGCGAGAGC-------CCCAAUUGUUGGCUCUCGCUGUUUAUUCUCGCUCCGCUCUCU--CUCUGCCGCACACGAGCGUAGUUAGACCAACUAAUGC
(((.(((........))))))...((((((((-------(.........))))))))).(((...(((.(((.(((((...--.............))))).))).)))..)))...... ( -31.29, z-score =  -2.27, R)
>droSec1.super_0 3783459 107 + 21120651
GUGUGUUUUUAUUCCAGCCACUUUGCGAGAGU-------CCCAACUGUUGGCUCUCGCUGUUUAUUCUCGCUCCGCUCUCU--U----CCGCACACGAGCGUAGUUAGACCAACUAAUGC
(((.(((........))))))...((((((((-------(.........))))))))).(((...(((.(((.(((((...--.----........))))).))).)))..)))...... ( -28.90, z-score =  -2.17, R)
>droSim1.chr3L 10969948 107 + 22553184
GUCUGUUUUUAUUCCAGCCACUUUGCGAGAGU-------CCCAACUGUUGGCUCUCGCUGUUUAUUCUCGCUCCGCUCUCU--U----CCGCACACGAGCGUAGUUAGACCAACUAAUGC
(((((...................((((((((-------(.........)))))))))...........(((.(((((...--.----........))))).)))))))).......... ( -27.00, z-score =  -1.86, R)
>droMoj3.scaffold_6680 18419350 100 + 24764193
UCAAGCGGUAAUUUUCACAACUUUAAGAGAGC-------------AACUAGCUCUCGCUAACUCUCUCCCACUCGCUGUCUGGCCUAUUCUCUCAUGCUCCUAGCAUGCACAA-------
(((..((((.............(((.((((((-------------.....))))))..))).............))))..)))..........(((((.....))))).....------- ( -20.27, z-score =  -1.34, R)
>consensus
GUGUGUUUUUAUUCCAGCCACUUUGCGAGAGU_______CCCAACUGUUGGCUCUCGCUGUUUAUUCUCGCUCCGCUCUCU__C____CCGCACACGAGCGUAGUUAGACCAACUAAUGC
........................((((((((..................)))))))).......(((.(((.(((((..................))))).))).)))........... (-16.32 = -17.79 +   1.47)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,594,245 – 11,594,352
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.39
Shannon entropy 0.45285
G+C content 0.50684
Mean single sequence MFE -34.88
Consensus MFE -18.27
Energy contribution -20.11
Covariance contribution 1.84
Combinations/Pair 1.15
Mean z-score -2.25
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.65
SVM RNA-class probability 0.957906
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11594245 107 - 24543557
GCAUUAGUUGGUCUAACUACGCUCGUGUGCGG----A--AGAGAGCGGAGCGAGAAUAAACAGCGAGAGCCAACAGUAGGA-------ACUCUCGCAAAGUGGCUGGAAUAAAAACACAC
......(((..((((.((((((((.(((.(..----.--.)...)))))))...........(((((((((.......)).-------.)))))))...)))).)))).....))).... ( -32.40, z-score =  -2.10, R)
>droYak2.chr3L 11625601 114 - 24197627
GCAUUAGUUGGUCUAACUACGCUCGCGUGCGG----G--AGAGAGCGGAGCGAGAAUAAACGGCGAGAGCCAACAAUUGGGGCUCCACACUCUCGCAAAGUGGCUGGCAUAAAAACACAC
......((..(((..((((((....)))((((----(--((...(.(((((..........(((....)))..(....)..))))).).)))))))..))))))..))............ ( -37.50, z-score =  -1.75, R)
>droEre2.scaffold_4784 11581201 111 - 25762168
GCAUUAGUUGGUCUAACUACGCUCGUGUGCGGCAGAG--AGAGAGCGGAGCGAGAAUAAACAGCGAGAGCCAACAAUUGGG-------GCUCUCGCAAAGUGGCUGGAAUGAAAACACAC
......(((..((((.((((.(((((...(.((....--.....)).).)))))........(((((((((.........)-------))))))))...)))).)))).....))).... ( -36.90, z-score =  -2.23, R)
>droSec1.super_0 3783459 107 - 21120651
GCAUUAGUUGGUCUAACUACGCUCGUGUGCGG----A--AGAGAGCGGAGCGAGAAUAAACAGCGAGAGCCAACAGUUGGG-------ACUCUCGCAAAGUGGCUGGAAUAAAAACACAC
......(((..((((.((((((((.(((.(..----.--.)...)))))))...........(((((((((........))-------.)))))))...)))).)))).....))).... ( -35.00, z-score =  -2.54, R)
>droSim1.chr3L 10969948 107 - 22553184
GCAUUAGUUGGUCUAACUACGCUCGUGUGCGG----A--AGAGAGCGGAGCGAGAAUAAACAGCGAGAGCCAACAGUUGGG-------ACUCUCGCAAAGUGGCUGGAAUAAAAACAGAC
......(((..((((.((((((((.(((.(..----.--.)...)))))))...........(((((((((........))-------.)))))))...)))).)))).....))).... ( -35.00, z-score =  -2.53, R)
>droMoj3.scaffold_6680 18419350 100 - 24764193
-------UUGUGCAUGCUAGGAGCAUGAGAGAAUAGGCCAGACAGCGAGUGGGAGAGAGUUAGCGAGAGCUAGUU-------------GCUCUCUUAAAGUUGUGAAAAUUACCGCUUGA
-------.....(((((.....)))))..................(((((((((((((((((((....))))...-------------))))))))..((((.....)))).))))))). ( -32.50, z-score =  -2.37, R)
>consensus
GCAUUAGUUGGUCUAACUACGCUCGUGUGCGG____A__AGAGAGCGGAGCGAGAAUAAACAGCGAGAGCCAACAGUUGGG_______ACUCUCGCAAAGUGGCUGGAAUAAAAACACAC
......(((..((((.((((.(((((.(((..............)))..)))))........(((((((....................)))))))...)))).)))).....))).... (-18.27 = -20.11 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:07 2011