Locus 5551

Sequence ID dm3.chr3LHet
Location 517,378 – 517,479
Length 101
Max. P 0.991732
window7625 window7626

overview

Window 5

Location 517,378 – 517,479
Length 101
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 51.60
Shannon entropy 0.68599
G+C content 0.45220
Mean single sequence MFE -29.03
Consensus MFE -9.13
Energy contribution -9.37
Covariance contribution 0.24
Combinations/Pair 1.59
Mean z-score -2.03
Structure conservation index 0.31
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.18
SVM RNA-class probability 0.905945
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 517378 101 + 2555491
ACAACAUUCGACGGUAUAAUCGGGGCCGACCUGUUAACACAGGCCGGUGCAUCACUUUGCCUCGCCUCCGCCCAACUCAAAUGGGGUC-AGGAAGUUGAGAA---
.((((.((((((((......((((((((.(((((....))))).))))(((......)))))))...)).((((.......)))))))-.))).))))....--- ( -33.10, z-score =  -1.07, R)
>droEre2.scaffold_4845 20482470 102 - 22589142
AAAACAUUUGACGGCAUAAUUAGCCUUGACCUAUUAGCGCAAGUAGGUGCGACAAUUGACGUCAAGGCCAAUUCCAUCAAGUAUAAUAGAGGACGUGAAGGA---
.....((((((.((...((((.((((((((..(((..((((......))))..)))....)))))))).)))))).))))))....................--- ( -25.70, z-score =  -1.84, R)
>droPer1.super_109 48952 105 - 183219
ACUACAUUUUAUGAGAUCAUAGGACUUGACCUACUAAAACAAGUAGGGGCAGUAUUAUGUCUUGAUGAAGACACAAUAAAAAUAGGUGCAACUUCGGAGGCGCUG
......(((((((....))))))).(((.((((((......))))))..)))((((.((((((....)))))).))))......(((((..(....)..))))). ( -28.30, z-score =  -3.19, R)
>consensus
ACAACAUUUGACGGCAUAAUAGGACUUGACCUAUUAACACAAGUAGGUGCAACAAUUUGCCUCGACGCCGACACAAUCAAAUAAGGUA_AGGAAGUGAAGAA___
......................(((((((((((((......))))))((((......)))))))))))..................................... ( -9.13 =  -9.37 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 517,378 – 517,479
Length 101
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 51.60
Shannon entropy 0.68599
G+C content 0.45220
Mean single sequence MFE -30.93
Consensus MFE -7.93
Energy contribution -7.40
Covariance contribution -0.53
Combinations/Pair 1.68
Mean z-score -3.08
Structure conservation index 0.26
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.49
SVM RNA-class probability 0.991732
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 517378 101 - 2555491
---UUCUCAACUUCCU-GACCCCAUUUGAGUUGGGCGGAGGCGAGGCAAAGUGAUGCACCGGCCUGUGUUAACAGGUCGGCCCCGAUUAUACCGUCGAAUGUUGU
---....(((((((..-(((((((.......))))(((.(((...(((......)))..((((((((....))))))))))))))........)))))).)))). ( -36.30, z-score =  -1.68, R)
>droEre2.scaffold_4845 20482470 102 + 22589142
---UCCUUCACGUCCUCUAUUAUACUUGAUGGAAUUGGCCUUGACGUCAAUUGUCGCACCUACUUGCGCUAAUAGGUCAAGGCUAAUUAUGCCGUCAAAUGUUUU
---..................(((.((((((((((((((((((((.(..((((.((((......)))).))))).)))))))))))))...))))))).)))... ( -32.50, z-score =  -4.67, R)
>droPer1.super_109 48952 105 + 183219
CAGCGCCUCCGAAGUUGCACCUAUUUUUAUUGUGUCUUCAUCAAGACAUAAUACUGCCCCUACUUGUUUUAGUAGGUCAAGUCCUAUGAUCUCAUAAAAUGUAGU
..(((.((....)).))).........(((((((((((....)))))))))))((((.((((((......))))))........((((....))))....)))). ( -24.00, z-score =  -2.90, R)
>consensus
___UCCUUCACAUCCU_CACCAAAUUUGAUUGAGUCGGCAUCGAGGCAAAAUGAUGCACCUACUUGUGUUAAUAGGUCAAGCCCAAUUAUACCGUCAAAUGUUGU
......................((((((((..((((((.(((...(((......)))....(((((......)))))..))))))))).....)))))))).... ( -7.93 =  -7.40 +  -0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:50:39 2011