Locus 8519

Sequence ID dm3.chr3L
Location 24,345,918 – 24,345,970
Length 52
Max. P 0.996108
window11703 window11704

overview

Window 3

Location 24,345,918 – 24,345,970
Length 52
Sequences 3
Columns 52
Reading direction forward
Mean pairwise identity 58.33
Shannon entropy 0.57793
G+C content 0.33949
Mean single sequence MFE -13.50
Consensus MFE -4.71
Energy contribution -5.83
Covariance contribution 1.12
Combinations/Pair 1.40
Mean z-score -3.21
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.89
SVM RNA-class probability 0.996108
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 24345918 52 + 24543557
AUGUUUGCUUACAUAAAUAAGCAAAUAAAUGAGCAAGGGGAAAACAAUAAUU
.((((((((((......))))))))))......................... (  -9.30, z-score =  -2.58, R)
>droSec1.super_5 5744069 52 - 5866729
AUGUUUGCUUAUAUAAAUAAGCAAAUAAAUGAGCAAGGAGGAAACUAUGAUA
.(((((((((((....)))))))))))...........((....))...... ( -13.10, z-score =  -4.07, R)
>droEre2.scaffold_4929 25837476 50 + 26641161
AUGUUUAUGUUCGCUGGUGGUCCAGCUGAAGGGCAUGGGCAACGAUAAAA--
.((((((((((((((((....)))))....))))))))))).........-- ( -18.10, z-score =  -2.98, R)
>consensus
AUGUUUGCUUACAUAAAUAAGCAAAUAAAUGAGCAAGGGGAAAACUAUAAU_
..((((((((((....)))))))))).......................... ( -4.71 =  -5.83 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 24,345,918 – 24,345,970
Length 52
Sequences 3
Columns 52
Reading direction reverse
Mean pairwise identity 58.33
Shannon entropy 0.57793
G+C content 0.33949
Mean single sequence MFE -8.73
Consensus MFE -2.66
Energy contribution -3.67
Covariance contribution 1.00
Combinations/Pair 1.38
Mean z-score -2.55
Structure conservation index 0.30
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.20
SVM RNA-class probability 0.908505
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 24345918 52 - 24543557
AAUUAUUGUUUUCCCCUUGCUCAUUUAUUUGCUUAUUUAUGUAAGCAAACAU
...........................(((((((((....)))))))))... (  -8.50, z-score =  -2.74, R)
>droSec1.super_5 5744069 52 + 5866729
UAUCAUAGUUUCCUCCUUGCUCAUUUAUUUGCUUAUUUAUAUAAGCAAACAU
...........................(((((((((....)))))))))... (  -8.20, z-score =  -2.99, R)
>droEre2.scaffold_4929 25837476 50 - 26641161
--UUUUAUCGUUGCCCAUGCCCUUCAGCUGGACCACCAGCGAACAUAAACAU
--.(((((.(((((....))......(((((....))))).))))))))... (  -9.50, z-score =  -1.92, R)
>consensus
_AUUAUAGUUUUCCCCUUGCUCAUUUAUUUGCUUAUUUAUGUAAGCAAACAU
............................((((((((....)))))))).... ( -2.66 =  -3.67 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:47:09 2011