Locus 10957

Sequence ID dm3.chr3R
Location 17,768,768 – 17,768,887
Length 119
Max. P 0.906716
window15059 window15060

overview

Window 9

Location 17,768,768 – 17,768,887
Length 119
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 97.20
Shannon entropy 0.03858
G+C content 0.48877
Mean single sequence MFE -40.53
Consensus MFE -37.82
Energy contribution -38.60
Covariance contribution 0.78
Combinations/Pair 1.02
Mean z-score -2.00
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.19
SVM RNA-class probability 0.906716
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17768768 119 + 27905053
GUGUGUGUGCUCCGUGUUUAAGUGUGUGUUUCUGUGGUUGUUCGAGCCGCAGGCGCUUCGGCAGUUGUUGCAUUCAUCUGUGCGGCAUUUGGCAGGAAGCCAAAUAAAUUGUAGAGAUU
......((((..((..(......)..))...((((((((.....))))))))))))(((.(((((((((((((......)))))))(((((((.....))))))).)))))).)))... ( -38.10, z-score =  -1.32, R)
>droSim1.chr3R 17579837 119 + 27517382
GUGUGUGUGCUGCGUGUUUAAGUGUGUGUUUCUGUGGUUGUUCGAGCCGCAGGCGCUUCGGCAGUUGUUGCAUUCAUCUGUGCGGCAUUUGGCAGGAAGCCAAAUAAAUUGUACAGAUU
...((.((((.((((((..((((((......((((((((.....))))))))))))))..)))..))).)))).))(((((((((.(((((((.....)))))))...))))))))).. ( -43.30, z-score =  -2.22, R)
>droSec1.super_0 18139281 118 + 21120651
GUGUGUGUGCUCCGUGUUUAAGUGUGUGUUUCUGUGGUUGUUCGAGCCGCAGUCGCUUCGGCAGUUGUUGCAUUCAUCUGUGCGGCAUUUGGCAGGAAGCCAAAUAAAUUGU-CGGAUU
.........................(((...((((((((.....)))))))).)))(((((((((((((((((......)))))))(((((((.....))))))).))))))-)))).. ( -40.20, z-score =  -2.46, R)
>consensus
GUGUGUGUGCUCCGUGUUUAAGUGUGUGUUUCUGUGGUUGUUCGAGCCGCAGGCGCUUCGGCAGUUGUUGCAUUCAUCUGUGCGGCAUUUGGCAGGAAGCCAAAUAAAUUGUACAGAUU
...((.((((..(((((..((((((......((((((((.....))))))))))))))..)))..))..)))).))(((((((((.(((((((.....)))))))...))))))))).. (-37.82 = -38.60 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 17,768,768 – 17,768,887
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 97.20
Shannon entropy 0.03858
G+C content 0.48877
Mean single sequence MFE -25.54
Consensus MFE -21.66
Energy contribution -22.44
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -2.06
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.44
SVM RNA-class probability 0.697622
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17768768 119 - 27905053
AAUCUCUACAAUUUAUUUGGCUUCCUGCCAAAUGCCGCACAGAUGAAUGCAACAACUGCCGAAGCGCCUGCGGCUCGAACAACCACAGAAACACACACUUAAACACGGAGCACACACAC
...((((.......(((((((.....)))))))((((((.........(((.....))).........))))))................................))))......... ( -23.87, z-score =  -1.60, R)
>droSim1.chr3R 17579837 119 - 27517382
AAUCUGUACAAUUUAUUUGGCUUCCUGCCAAAUGCCGCACAGAUGAAUGCAACAACUGCCGAAGCGCCUGCGGCUCGAACAACCACAGAAACACACACUUAAACACGCAGCACACACAC
..(((((.......(((((((.....)))))))((((((.........(((.....))).........))))))..........))))).............................. ( -26.17, z-score =  -1.75, R)
>droSec1.super_0 18139281 118 - 21120651
AAUCCG-ACAAUUUAUUUGGCUUCCUGCCAAAUGCCGCACAGAUGAAUGCAACAACUGCCGAAGCGACUGCGGCUCGAACAACCACAGAAACACACACUUAAACACGGAGCACACACAC
..((((-.......(((((((.....)))))))((((((.........(((.....))).........))))))...............................)))).......... ( -26.57, z-score =  -2.83, R)
>consensus
AAUCUGUACAAUUUAUUUGGCUUCCUGCCAAAUGCCGCACAGAUGAAUGCAACAACUGCCGAAGCGCCUGCGGCUCGAACAACCACAGAAACACACACUUAAACACGGAGCACACACAC
..(((((.......(((((((.....)))))))((((((.........(((.....))).........))))))..............................))))).......... (-21.66 = -22.44 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:33:44 2011