Locus 2066

Sequence ID dm3.chr2L
Location 16,001,768 – 16,001,866
Length 98
Max. P 0.994545
window2843 window2844

overview

Window 3

Location 16,001,768 – 16,001,866
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 91.02
Shannon entropy 0.15521
G+C content 0.38776
Mean single sequence MFE -28.41
Consensus MFE -21.60
Energy contribution -22.32
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -3.60
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.71
SVM RNA-class probability 0.994545
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16001768 98 + 23011544
UUAGUAGUGGAUAUAAUAGUUCUGUGUCGCCCUUUACCGACUCAGCAAAGGCAAUUUCCCAUUGUGAAAAACAAUGGAUGUACCGCUAUUAAAAAUUC
((((((((((((((....((((((.((((........)))).)))....)))......(((((((.....))))))))))).))))))))))...... ( -29.50, z-score =  -4.57, R)
>droEre2.scaffold_4929 7698655 98 + 26641161
UUUGUAGUGGAAAUUAUAGUUCUGUGUCGCACUUCACCAACUCUGCAAUCGCAAUUUCCCAUUGUGGAAAACAAUGGGUGUGCUGGCAUUAAAAAUUC
.(((((((....)))))))((..(((((((((...........(((....)))....((((((((.....)))))))).)))).)))))..))..... ( -27.50, z-score =  -2.55, R)
>droYak2.chr2L 2992039 98 - 22324452
UUAGUAGUGGAAAUUAUAGUUCUGUCUUGCCCUUUACCGACUCUGCAAAGGCAAUUUCCCAUUGUGAAAAACAAUGGAUGUGCUGCUAUUAAAAAUUC
(((((((..(............((((((((..............)).)))))).....(((((((.....))))))).....)..)))))))...... ( -23.04, z-score =  -2.26, R)
>droSec1.super_5 4735340 98 + 5866729
UUAGUGGUGGAAAUAAUAGUUCUGUGUCGUCCUUUACCGACUCAGCAAAGGCAAUUUCCCAUUGUGAAAAACAAUGGAUGUGCCGCCAUUAAAAAUUC
((((((((.............(((.((((........)))).)))....((((.....(((((((.....)))))))...))))))))))))...... ( -31.00, z-score =  -4.32, R)
>droSim1.chr2L 15716586 98 + 22036055
UUAGUGGUGGAAAUAAUAGUUCUGUGUCGUCCUUUACCGACUCAGCAAAGGCAAUUUCCCAUUGUGAAAAACAAUGGAUGUGCCGCCAUUAAAAAUUC
((((((((.............(((.((((........)))).)))....((((.....(((((((.....)))))))...))))))))))))...... ( -31.00, z-score =  -4.32, R)
>consensus
UUAGUAGUGGAAAUAAUAGUUCUGUGUCGCCCUUUACCGACUCAGCAAAGGCAAUUUCCCAUUGUGAAAAACAAUGGAUGUGCCGCCAUUAAAAAUUC
((((((((((...........(((.((((........)))).))).............(((((((.....))))))).....))))))))))...... (-21.60 = -22.32 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,001,768 – 16,001,866
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 91.02
Shannon entropy 0.15521
G+C content 0.38776
Mean single sequence MFE -23.79
Consensus MFE -17.84
Energy contribution -17.96
Covariance contribution 0.12
Combinations/Pair 1.28
Mean z-score -2.10
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.664230
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16001768 98 - 23011544
GAAUUUUUAAUAGCGGUACAUCCAUUGUUUUUCACAAUGGGAAAUUGCCUUUGCUGAGUCGGUAAAGGGCGACACAGAACUAUUAUAUCCACUACUAA
..........(((..((...((((((((.....))))))))...((((((((((((...))))))).)))))..................))..))). ( -23.10, z-score =  -1.94, R)
>droEre2.scaffold_4929 7698655 98 - 26641161
GAAUUUUUAAUGCCAGCACACCCAUUGUUUUCCACAAUGGGAAAUUGCGAUUGCAGAGUUGGUGAAGUGCGACACAGAACUAUAAUUUCCACUACAAA
...........((((((...((((((((.....))))))))...((((....)))).))))))(.((((.((...............)))))).)... ( -24.16, z-score =  -2.07, R)
>droYak2.chr2L 2992039 98 + 22324452
GAAUUUUUAAUAGCAGCACAUCCAUUGUUUUUCACAAUGGGAAAUUGCCUUUGCAGAGUCGGUAAAGGGCAAGACAGAACUAUAAUUUCCACUACUAA
..........(((.((......((((((.....))))))(((((((((((((((.......)))))))...((......)).)))))))).)).))). ( -19.70, z-score =  -1.06, R)
>droSec1.super_5 4735340 98 - 5866729
GAAUUUUUAAUGGCGGCACAUCCAUUGUUUUUCACAAUGGGAAAUUGCCUUUGCUGAGUCGGUAAAGGACGACACAGAACUAUUAUUUCCACCACUAA
(((....((((((.((((..((((((((.....))))))))....))))....(((.((((........)))).)))..)))))).)))......... ( -26.00, z-score =  -2.71, R)
>droSim1.chr2L 15716586 98 - 22036055
GAAUUUUUAAUGGCGGCACAUCCAUUGUUUUUCACAAUGGGAAAUUGCCUUUGCUGAGUCGGUAAAGGACGACACAGAACUAUUAUUUCCACCACUAA
(((....((((((.((((..((((((((.....))))))))....))))....(((.((((........)))).)))..)))))).)))......... ( -26.00, z-score =  -2.71, R)
>consensus
GAAUUUUUAAUGGCGGCACAUCCAUUGUUUUUCACAAUGGGAAAUUGCCUUUGCUGAGUCGGUAAAGGGCGACACAGAACUAUUAUUUCCACUACUAA
..........(((.((....((((((((.....))))))))...((((((((((((...))))))))).)))...................)).))). (-17.84 = -17.96 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:44:08 2011