Locus 10110

Sequence ID dm3.chr3R
Location 11,343,339 – 11,343,430
Length 91
Max. P 0.946889
window13904 window13905

overview

Window 4

Location 11,343,339 – 11,343,430
Length 91
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 73.54
Shannon entropy 0.44704
G+C content 0.51463
Mean single sequence MFE -28.42
Consensus MFE -18.88
Energy contribution -18.80
Covariance contribution -0.08
Combinations/Pair 1.17
Mean z-score -1.46
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.05
SVM RNA-class probability 0.881165
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11343339 91 + 27905053
CCGCAAAUUUAUGACAUGCCAACAGCCAUUUUGGCUGUAUAGGCCGUGCAGUAGUGUGCGUGAGCUG----ACACGCGUGUGCGUUAGGCUUUCC
.((((...((((..((((((.((((((.....))))))...)).))))..))))..)))).(((((.----..((((....))))..)))))... ( -32.70, z-score =  -1.40, R)
>droSim1.chr3R 17384519 95 - 27517382
CCGCAAAUUUAUGACAUGCCAACAGCCAUUUUGGCUGUCUAGGCCGUGCAGUAGUGUGCGUGAGCUGACUGACACGCGUGUGUAUUAGGCUUUCC
..((.....(((.((((((..((((((.....)))))).......(((((((.....((....))..)))).))))))))))))....))..... ( -31.90, z-score =  -1.18, R)
>droSec1.super_0 10518986 95 - 21120651
CCGCAAAUUUAUGACAUGCCAACAGCCAUUUUGGCUGUCUAGGCCGUGCAGUAGUGUGCGAGAGCUGACUGACACGCGUGUGUAUUAGGCUUUCC
..(((...((((..((((((.((((((.....))))))...)).))))..))))..)))(((((((.....((((....))))....))))))). ( -34.70, z-score =  -2.30, R)
>droEre2.scaffold_4770 10871413 71 + 17746568
CCGCAAAUUUAUGACAUGCCAACAGCCAUUUUGGCUGUCUAGGCCGUGCAGUAGUGUGCGUGAGGCUCUCU------------------------
.((((...((((..((((((.((((((.....))))))...)).))))..))))..))))...........------------------------ ( -23.10, z-score =  -1.10, R)
>droAna3.scaffold_13340 15957221 71 + 23697760
CCGUAAAUUUAUGACAUGCCAACAGCCAUUUUGGCUGUCUAGGAAGAGCGCGUGUCUGUGUGAGGUUUCCC------------------------
((....((....((((((((..(((((.....)))))(((....)))).))))))).))....))......------------------------ ( -19.70, z-score =  -1.32, R)
>consensus
CCGCAAAUUUAUGACAUGCCAACAGCCAUUUUGGCUGUCUAGGCCGUGCAGUAGUGUGCGUGAGCUGACCGACACGCGUGUG__UUAGGCUUUCC
.((((......((.((((((.((((((.....))))))...)).))))))......))))................................... (-18.88 = -18.80 +  -0.08)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 11,343,339 – 11,343,430
Length 91
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 73.54
Shannon entropy 0.44704
G+C content 0.51463
Mean single sequence MFE -25.88
Consensus MFE -17.07
Energy contribution -17.87
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.52
SVM RNA-class probability 0.946889
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11343339 91 - 27905053
GGAAAGCCUAACGCACACGCGUGU----CAGCUCACGCACACUACUGCACGGCCUAUACAGCCAAAAUGGCUGUUGGCAUGUCAUAAAUUUGCGG
((....))...((((...(((((.----.....))))).......((.((((((...((((((.....)))))).))).)))))......)))). ( -30.50, z-score =  -2.07, R)
>droSim1.chr3R 17384519 95 + 27517382
GGAAAGCCUAAUACACACGCGUGUCAGUCAGCUCACGCACACUACUGCACGGCCUAGACAGCCAAAAUGGCUGUUGGCAUGUCAUAAAUUUGCGG
((....)).........((((((.((((..((....)).....))))))).(((..(((((((.....)))))))))).............))). ( -27.70, z-score =  -0.95, R)
>droSec1.super_0 10518986 95 + 21120651
GGAAAGCCUAAUACACACGCGUGUCAGUCAGCUCUCGCACACUACUGCACGGCCUAGACAGCCAAAAUGGCUGUUGGCAUGUCAUAAAUUUGCGG
((....)).........((((((.((((..((....)).....))))))).(((..(((((((.....)))))))))).............))). ( -27.70, z-score =  -1.00, R)
>droEre2.scaffold_4770 10871413 71 - 17746568
------------------------AGAGAGCCUCACGCACACUACUGCACGGCCUAGACAGCCAAAAUGGCUGUUGGCAUGUCAUAAAUUUGCGG
------------------------.(((...))).((((......((.((((((..(((((((.....)))))))))).)))))......)))). ( -22.90, z-score =  -1.82, R)
>droAna3.scaffold_13340 15957221 71 - 23697760
------------------------GGGAAACCUCACACAGACACGCGCUCUUCCUAGACAGCCAAAAUGGCUGUUGGCAUGUCAUAAAUUUACGG
------------------------((....)).......((((.((..........(((((((.....))))))).)).))))............ ( -20.60, z-score =  -2.74, R)
>consensus
GGAAAGCCUAA__CACACGCGUGUCAGUCAGCUCACGCACACUACUGCACGGCCUAGACAGCCAAAAUGGCUGUUGGCAUGUCAUAAAUUUGCGG
...................................((((............(((..(((((((.....))))))))))............)))). (-17.07 = -17.87 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:17:43 2011