Locus 4861

Sequence ID dm3.chr2R
Location 16,066,229 – 16,066,326
Length 97
Max. P 0.898773
window6680 window6681

overview

Window 0

Location 16,066,229 – 16,066,326
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 88.66
Shannon entropy 0.15834
G+C content 0.30584
Mean single sequence MFE -19.13
Consensus MFE -15.91
Energy contribution -16.13
Covariance contribution 0.23
Combinations/Pair 1.08
Mean z-score -2.15
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.14
SVM RNA-class probability 0.898773
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16066229 97 + 21146708
UGUAGUCCUAAGCAACAUUGCUUAUAUAAACGUGAUAUUAUAUAAUGAUUAUGAAUAUGGAACAGGGAGUUUUCUUUCCCUUAACUUUUAAUUUACU
.(((((((((((((....))))))......(((((((((....))).)))))).....)))..((((((......))))))...........)))). ( -18.00, z-score =  -1.44, R)
>droSec1.super_1 13627330 97 + 14215200
GGCACUCCUAAGCAAUACUGCUUAUAUAAACGUGAUAUUAUAUUAUGUUUAUGAAUGUGGAACAGCGAAUUUUCUUUCGCUUAACUUAGAAUUUACU
.....(((((((((....))))))(((((((((((((...))))))))))))).....)))..((((((......))))))................ ( -23.70, z-score =  -3.82, R)
>droSim1.chr2R 14721889 97 + 19596830
GGCACUCCUAAGCAAUACUGCUUAUAUAAACGUGAUACGAUAUAAUGUUUAUGAAUGUGGAACAGAGAAUUUUCUUUCCCCUAACUUAGAAUUUACU
.(((.((.((((((....)))))).((((((((...........)))))))))).)))((((.((((....)))))))).................. ( -15.70, z-score =  -1.18, R)
>consensus
GGCACUCCUAAGCAAUACUGCUUAUAUAAACGUGAUAUUAUAUAAUGUUUAUGAAUGUGGAACAGAGAAUUUUCUUUCCCUUAACUUAGAAUUUACU
.....(((((((((....))))))(((((((((.(((...))).))))))))).....)))...(((((......)))))................. (-15.91 = -16.13 +   0.23)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 1

Location 16,066,229 – 16,066,326
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 88.66
Shannon entropy 0.15834
G+C content 0.30584
Mean single sequence MFE -16.71
Consensus MFE -15.32
Energy contribution -14.99
Covariance contribution -0.33
Combinations/Pair 1.17
Mean z-score -1.28
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.48
SVM RNA-class probability 0.714376
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16066229 97 - 21146708
AGUAAAUUAAAAGUUAAGGGAAAGAAAACUCCCUGUUCCAUAUUCAUAAUCAUUAUAUAAUAUCACGUUUAUAUAAGCAAUGUUGCUUAGGACUACA
.(((............(((((........)))))..(((................(((((........)))))((((((....))))))))).))). ( -16.50, z-score =  -1.50, R)
>droSec1.super_1 13627330 97 - 14215200
AGUAAAUUCUAAGUUAAGCGAAAGAAAAUUCGCUGUUCCACAUUCAUAAACAUAAUAUAAUAUCACGUUUAUAUAAGCAGUAUUGCUUAGGAGUGCC
................((((((......))))))......(((((((((((...............)))))).(((((......))))).))))).. ( -17.26, z-score =  -1.67, R)
>droSim1.chr2R 14721889 97 - 19596830
AGUAAAUUCUAAGUUAGGGGAAAGAAAAUUCUCUGUUCCACAUUCAUAAACAUUAUAUCGUAUCACGUUUAUAUAAGCAGUAUUGCUUAGGAGUGCC
.................((((.(((......))).)))).(((((((((((...............)))))).(((((......))))).))))).. ( -16.36, z-score =  -0.69, R)
>consensus
AGUAAAUUCUAAGUUAAGGGAAAGAAAAUUCCCUGUUCCACAUUCAUAAACAUUAUAUAAUAUCACGUUUAUAUAAGCAGUAUUGCUUAGGAGUGCC
.(((............((((((......))))))..(((......((((((...............)))))).((((((....))))))))).))). (-15.32 = -14.99 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:37:25 2011