Locus 7068

Sequence ID dm3.chr3L
Location 11,899,019 – 11,899,075
Length 56
Max. P 0.980068
window9734 window9735

overview

Window 4

Location 11,899,019 – 11,899,075
Length 56
Sequences 5
Columns 56
Reading direction forward
Mean pairwise identity 88.57
Shannon entropy 0.19427
G+C content 0.46786
Mean single sequence MFE -17.50
Consensus MFE -14.28
Energy contribution -14.44
Covariance contribution 0.16
Combinations/Pair 1.14
Mean z-score -2.65
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.04
SVM RNA-class probability 0.980068
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11899019 56 + 24543557
UAACCGUAACUCGUUUUAUUGCCGCCUGAUUUUGACGGCAAUGGGGCGAAACGUAG
....(((...((((((((((((((.(.......).)))))))))))))).)))... ( -20.10, z-score =  -3.13, R)
>droEre2.scaffold_4784 11888812 56 + 25762168
UAACCGUAACUCGUUUUAUUGCCGCCUGAUUUUGACGGCAAUGGGAUGGAACUCAC
..........((((((((((((((.(.......).))))))))))))))....... ( -16.90, z-score =  -2.96, R)
>droYak2.chr3L 11942056 56 + 24197627
UAACCGUAACUCGUUUUAUUGCCGUCUGAUUGUGACGGCAAUGGGGUGAAACUCAC
..........(((..(((((((((((.......)))))))))))..)))....... ( -20.70, z-score =  -3.87, R)
>droSec1.super_0 4087215 56 + 21120651
UAAACGUAACCCAUUUUAUUGCCGCCUGAUUUUGUCGGCAAUGGGGCGAAACUCUG
....(((..(((((.....(((((.(.......).)))))))))))))........ ( -14.90, z-score =  -1.72, R)
>droSim1.chr3L 11267535 56 + 22553184
UAAACGUAACCCAUUUUAUUGCCGCCUGAUUUUGUCGGCAAUGGGGCGAAACUCAG
....(((..(((((.....(((((.(.......).)))))))))))))........ ( -14.90, z-score =  -1.57, R)
>consensus
UAACCGUAACUCGUUUUAUUGCCGCCUGAUUUUGACGGCAAUGGGGCGAAACUCAG
...........(((((((((((((.(.......).)))))))))))))........ (-14.28 = -14.44 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,899,019 – 11,899,075
Length 56
Sequences 5
Columns 56
Reading direction reverse
Mean pairwise identity 88.57
Shannon entropy 0.19427
G+C content 0.46786
Mean single sequence MFE -15.44
Consensus MFE -11.50
Energy contribution -11.82
Covariance contribution 0.32
Combinations/Pair 1.11
Mean z-score -2.08
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.55
SVM RNA-class probability 0.739998
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11899019 56 - 24543557
CUACGUUUCGCCCCAUUGCCGUCAAAAUCAGGCGGCAAUAAAACGAGUUACGGUUA
...(((((((....(((((((((.......)))))))))....))))..))).... ( -17.80, z-score =  -2.90, R)
>droEre2.scaffold_4784 11888812 56 - 25762168
GUGAGUUCCAUCCCAUUGCCGUCAAAAUCAGGCGGCAAUAAAACGAGUUACGGUUA
((((.(((......(((((((((.......))))))))).....)))))))..... ( -15.80, z-score =  -2.59, R)
>droYak2.chr3L 11942056 56 - 24197627
GUGAGUUUCACCCCAUUGCCGUCACAAUCAGACGGCAAUAAAACGAGUUACGGUUA
((((.((.......(((((((((.......))))))))).....)).))))..... ( -16.20, z-score =  -3.02, R)
>droSec1.super_0 4087215 56 - 21120651
CAGAGUUUCGCCCCAUUGCCGACAAAAUCAGGCGGCAAUAAAAUGGGUUACGUUUA
....((...((((.(((((((.(........)))))))).....)))).))..... ( -13.70, z-score =  -1.08, R)
>droSim1.chr3L 11267535 56 - 22553184
CUGAGUUUCGCCCCAUUGCCGACAAAAUCAGGCGGCAAUAAAAUGGGUUACGUUUA
....((...((((.(((((((.(........)))))))).....)))).))..... ( -13.70, z-score =  -0.78, R)
>consensus
CUGAGUUUCGCCCCAUUGCCGUCAAAAUCAGGCGGCAAUAAAACGAGUUACGGUUA
..............(((((((((.......)))))))))................. (-11.50 = -11.82 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:54 2011