Locus 10460

Sequence ID dm3.chr3R
Location 13,920,211 – 13,920,306
Length 95
Max. P 0.879874
window14389 window14390

overview

Window 9

Location 13,920,211 – 13,920,306
Length 95
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 78.32
Shannon entropy 0.42504
G+C content 0.47067
Mean single sequence MFE -25.40
Consensus MFE -14.84
Energy contribution -16.98
Covariance contribution 2.14
Combinations/Pair 1.09
Mean z-score -1.84
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.04
SVM RNA-class probability 0.879874
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13920211 95 + 27905053
CCGUGUGAUGACGCCAAUGGCCACGGAAAGUGAAAGCCGAAAAUCGUAGAGCUUAUCAACGAUGAUAAGCGAAUUACGUUUGCCAAAUACACGCA
..(((((((...((...(((((((.....)))...)))).....(((((.((((((((....))))))))...)))))...))...)).))))). ( -27.20, z-score =  -2.62, R)
>droAna3.scaffold_13340 11893226 78 - 23697760
CCCCGUUGUGACG------GAUAUGGAAAGUGAAAGCGAACAUUUUGGCAGCUUAUCGUGACUGAUAACCGAGAGAUUCCCGUG-----------
..((((....)))------).(((((...((....))(((..((((((....((((((....))))))))))))..))))))))----------- ( -18.20, z-score =  -1.11, R)
>droEre2.scaffold_4770 10031389 95 - 17746568
CCGUGUGAUGACGCCAAUGGCCACGGAAAGUGAAAGCCGAAAAUCGUACAGCUUAUCUGCGGUGAUAAGCGAAAUACGUUUGCGAAAUACACGCA
..(((((((..(((...(((((((.....)))...)))).....((((..(((((((......)))))))....))))...)))..)).))))). ( -29.00, z-score =  -1.93, R)
>droYak2.chr3R 2516964 95 + 28832112
CUGAGUGAUGACGCCAAUGGCCACGAAAAGUGAAAGCCGAAUAUCGUAAAGCUUAUCUCUGGUGAUAAGCGAAAUACGUUUGGGAAAUACACGCA
....(((((..(.(((((((((((.....)))...)))).....((((..(((((((......)))))))....)))).)))))..)).)))... ( -24.50, z-score =  -1.72, R)
>droSec1.super_12 1877270 95 - 2123299
CCGUGUGAUGACGCCAAUGGCCACGGAAAGUGAAAGCCGAAAAUCGUAGAGCUUAUCUCCGGUGAUAAGCGAAUUACGUUUGCCAAAUACACGCA
..(((((((...((...(((((((.....)))...)))).....(((((.(((((((......)))))))...)))))...))...)).))))). ( -27.00, z-score =  -1.75, R)
>droSim1.chr3R 19951853 95 - 27517382
CCGUGUGAUGACGCCAAUGGCCAUGGAAAGUGAAAUCCGAAAAUCGUAGAGCUUAUCUCCGGUGAUAAGCGAAUUACGUUUGCCAAAUACACGCA
..(((((.((....)).((((..((((........)))).....(((((.(((((((......)))))))...)))))...))))....))))). ( -26.50, z-score =  -1.92, R)
>consensus
CCGUGUGAUGACGCCAAUGGCCACGGAAAGUGAAAGCCGAAAAUCGUAGAGCUUAUCUCCGGUGAUAAGCGAAAUACGUUUGCCAAAUACACGCA
..(((((..........(((((((.....)))...)))).....((((..(((((((......)))))))....))))...........))))). (-14.84 = -16.98 +   2.14)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 0

Location 13,920,211 – 13,920,306
Length 95
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 78.32
Shannon entropy 0.42504
G+C content 0.47067
Mean single sequence MFE -25.20
Consensus MFE -11.59
Energy contribution -13.95
Covariance contribution 2.36
Combinations/Pair 1.05
Mean z-score -2.23
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.84
SVM RNA-class probability 0.832522
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13920211 95 - 27905053
UGCGUGUAUUUGGCAAACGUAAUUCGCUUAUCAUCGUUGAUAAGCUCUACGAUUUUCGGCUUUCACUUUCCGUGGCCAUUGGCGUCAUCACACGG
..(((((...((((...((((....((((((((....))))))))..))))......(((...(((.....))))))......))))..))))). ( -29.10, z-score =  -3.16, R)
>droAna3.scaffold_13340 11893226 78 + 23697760
-----------CACGGGAAUCUCUCGGUUAUCAGUCACGAUAAGCUGCCAAAAUGUUCGCUUUCACUUUCCAUAUC------CGUCACAACGGGG
-----------...(((((......(.(((((......))))).).((.((....)).))......)))))...((------(((....))))). ( -12.60, z-score =   0.37, R)
>droEre2.scaffold_4770 10031389 95 + 17746568
UGCGUGUAUUUCGCAAACGUAUUUCGCUUAUCACCGCAGAUAAGCUGUACGAUUUUCGGCUUUCACUUUCCGUGGCCAUUGGCGUCAUCACACGG
..(((((((..(((...(((((...(((((((......))))))).)))))......(((...(((.....))))))....)))..)).))))). ( -29.90, z-score =  -3.02, R)
>droYak2.chr3R 2516964 95 - 28832112
UGCGUGUAUUUCCCAAACGUAUUUCGCUUAUCACCAGAGAUAAGCUUUACGAUAUUCGGCUUUCACUUUUCGUGGCCAUUGGCGUCAUCACUCAG
((.(((.((..(((((.((((....(((((((......)))))))..))))......(((...(((.....)))))).)))).)..))))).)). ( -24.50, z-score =  -2.91, R)
>droSec1.super_12 1877270 95 + 2123299
UGCGUGUAUUUGGCAAACGUAAUUCGCUUAUCACCGGAGAUAAGCUCUACGAUUUUCGGCUUUCACUUUCCGUGGCCAUUGGCGUCAUCACACGG
..(((((...((((...((((....(((((((......)))))))..))))......(((...(((.....))))))......))))..))))). ( -27.60, z-score =  -2.09, R)
>droSim1.chr3R 19951853 95 + 27517382
UGCGUGUAUUUGGCAAACGUAAUUCGCUUAUCACCGGAGAUAAGCUCUACGAUUUUCGGAUUUCACUUUCCAUGGCCAUUGGCGUCAUCACACGG
..(((((...((((...((((....(((((((......)))))))..))))......(((........)))...(((...)))))))..))))). ( -27.50, z-score =  -2.53, R)
>consensus
UGCGUGUAUUUCGCAAACGUAAUUCGCUUAUCACCGGAGAUAAGCUCUACGAUUUUCGGCUUUCACUUUCCGUGGCCAUUGGCGUCAUCACACGG
..(((((..........((((....(((((((......)))))))..))))......((((............))))............))))). (-11.59 = -13.95 +   2.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:24:26 2011