Locus 5589

Sequence ID dm3.chr3LHet
Location 1,529,835 – 1,529,894
Length 59
Max. P 0.938232
window7676 window7677

overview

Window 6

Location 1,529,835 – 1,529,894
Length 59
Sequences 4
Columns 59
Reading direction forward
Mean pairwise identity 77.68
Shannon entropy 0.35240
G+C content 0.43220
Mean single sequence MFE -16.42
Consensus MFE -11.89
Energy contribution -10.58
Covariance contribution -1.31
Combinations/Pair 1.69
Mean z-score -1.94
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.42
SVM RNA-class probability 0.938232
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1529835 59 + 2555491
UAAUGGUCCAGCUCUCCUUGUAGCUUUGUAUCUGUUUACCAUGUGGGUAGAGCUGAACU
....(((.(((((((.((..((.....(((......)))..))..)).))))))).))) ( -17.50, z-score =  -1.97, R)
>droSec1.super_48 78017 59 - 230265
UGAUGGUCCAGCUCUCCUUGCAGCUUUAUACCUGUCUACCAUGCAGGUAAAGCUGAAAU
.((.((.....)).))....((((((..(((((((.......))))))))))))).... ( -15.90, z-score =  -1.56, R)
>droSim1.chr2h_random 741813 59 + 3178526
UGAUGGUCCAGCUCUCCUUGCAGCUUUAUACCUGUCUACCAUGCAGGUAAAGCUGUAAU
.((.((.....)).)).(((((((((..(((((((.......)))))))))))))))). ( -19.20, z-score =  -2.80, R)
>droYak2.chrU 26578999 59 - 28119190
UAAUUAUUUAACUCUGCUUGCAGUUUUGUAUCCGUUGAUCAUGCGGAUGGAGGUUAACU
.......(((((((((....)))...(.(((((((.......))))))).))))))).. ( -13.10, z-score =  -1.42, R)
>consensus
UAAUGGUCCAGCUCUCCUUGCAGCUUUAUACCUGUCUACCAUGCAGGUAAAGCUGAAAU
....................((((((..(((((((.......))))))))))))).... (-11.89 = -10.58 +  -1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 1,529,835 – 1,529,894
Length 59
Sequences 4
Columns 59
Reading direction reverse
Mean pairwise identity 77.68
Shannon entropy 0.35240
G+C content 0.43220
Mean single sequence MFE -14.96
Consensus MFE -9.25
Energy contribution -10.00
Covariance contribution 0.75
Combinations/Pair 1.31
Mean z-score -1.85
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.766807
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1529835 59 - 2555491
AGUUCAGCUCUACCCACAUGGUAAACAGAUACAAAGCUACAAGGAGAGCUGGACCAUUA
.((((((((((.((....((((.............))))...))))))))))))..... ( -18.02, z-score =  -3.39, R)
>droSec1.super_48 78017 59 + 230265
AUUUCAGCUUUACCUGCAUGGUAGACAGGUAUAAAGCUGCAAGGAGAGCUGGACCAUCA
..(((((((((.(((((.((.....))(((.....))))).))))))))))))...... ( -16.90, z-score =  -1.31, R)
>droSim1.chr2h_random 741813 59 - 3178526
AUUACAGCUUUACCUGCAUGGUAGACAGGUAUAAAGCUGCAAGGAGAGCUGGACCAUCA
....(((((((.(((((.((.....))(((.....))))).))))))))))........ ( -15.70, z-score =  -1.05, R)
>droYak2.chrU 26578999 59 + 28119190
AGUUAACCUCCAUCCGCAUGAUCAACGGAUACAAAACUGCAAGCAGAGUUAAAUAAUUA
..(((((....(((((.........)))))......(((....))).)))))....... (  -9.20, z-score =  -1.63, R)
>consensus
AGUUCAGCUCUACCCGCAUGGUAAACAGAUACAAAGCUGCAAGGAGAGCUGGACCAUCA
.(((((((((((((.....))))..(((........)))......)))))))))..... ( -9.25 = -10.00 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:51:20 2011