Locus 7276

Sequence ID dm3.chr3L
Location 13,591,344 – 13,591,449
Length 105
Max. P 0.871481
window10013 window10014

overview

Window 3

Location 13,591,344 – 13,591,449
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 83.96
Shannon entropy 0.23179
G+C content 0.49167
Mean single sequence MFE -27.00
Consensus MFE -22.49
Energy contribution -23.30
Covariance contribution 0.81
Combinations/Pair 1.04
Mean z-score -1.80
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.00
SVM RNA-class probability 0.871481
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13591344 105 + 24543557
GACUCGACUUGAGCAGCUGACAAGGAGCAUGAGGAUGCAUGCACCUGAGCUUGCUGCGACACAAUUUUGUUGCACACUCGAUUUCUUGUUCUGCUUUUUUGUCUU
.....(((..((((((..(((((((((((((......)))))...((((..((.(((((((......)))))))))))))..))))))))))))))....))).. ( -36.10, z-score =  -2.91, R)
>droSim1.chr3L 12969805 82 + 22553184
GACUCGACUUGAGCAGCUGACAAGGAGCAUGAGGAUGCAUGCACCUGAGUUUUCUGCGACACAAUUUUGUUGCACACUCGAU-----------------------
...((((.....((((..(((.(((.(((((......))))).)))..)))..))))((((......))))......)))).----------------------- ( -23.50, z-score =  -1.31, R)
>droSec1.super_0 5753301 82 + 21120651
GACUCGACUUGAGCAGCUGACAAGGAGCAUGAGGAUGCAUGCACCUGAGUUUGCUGCGACACAAUUUUGUUGCACACUCGAU-----------------------
...((((.....(((((.(((.(((.(((((......))))).)))..))).)))))((((......))))......)))).----------------------- ( -26.90, z-score =  -2.25, R)
>droEre2.scaffold_4784 13591930 82 + 25762168
GACUCGACUUAAGCAGCUGACAAGGGGAACGAGGAUGCAUGCACCUGAGUCUGCUGCGACACAAUUUUGUUGCACACUCGAU-----------------------
...((((.....(((((.(((...(....).(((.((....)))))..))).)))))((((......))))......)))).----------------------- ( -21.50, z-score =  -0.73, R)
>consensus
GACUCGACUUGAGCAGCUGACAAGGAGCAUGAGGAUGCAUGCACCUGAGUUUGCUGCGACACAAUUUUGUUGCACACUCGAU_______________________
...((((.....(((((.(((.(((.(((((......))))).)))..))).)))))((((......))))......))))........................ (-22.49 = -23.30 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 13,591,344 – 13,591,449
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 83.96
Shannon entropy 0.23179
G+C content 0.49167
Mean single sequence MFE -23.85
Consensus MFE -21.88
Energy contribution -22.00
Covariance contribution 0.12
Combinations/Pair 1.08
Mean z-score -1.04
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.41
SVM RNA-class probability 0.683303
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13591344 105 - 24543557
AAGACAAAAAAGCAGAACAAGAAAUCGAGUGUGCAACAAAAUUGUGUCGCAGCAAGCUCAGGUGCAUGCAUCCUCAUGCUCCUUGUCAGCUGCUCAAGUCGAGUC
..(((.....(((((.((((......((((.(((.(((......))).)))....)))).((.(((((......))))).))))))...)))))...)))..... ( -28.70, z-score =  -1.07, R)
>droSim1.chr3L 12969805 82 - 22553184
-----------------------AUCGAGUGUGCAACAAAAUUGUGUCGCAGAAAACUCAGGUGCAUGCAUCCUCAUGCUCCUUGUCAGCUGCUCAAGUCGAGUC
-----------------------.((((.((..(((.....)))..).((((...((..(((.(((((......))))).))).))...))))...).))))... ( -21.60, z-score =  -0.89, R)
>droSec1.super_0 5753301 82 - 21120651
-----------------------AUCGAGUGUGCAACAAAAUUGUGUCGCAGCAAACUCAGGUGCAUGCAUCCUCAUGCUCCUUGUCAGCUGCUCAAGUCGAGUC
-----------------------.((((.((..(((.....)))..).(((((..((..(((.(((((......))))).))).))..)))))...).))))... ( -25.00, z-score =  -1.85, R)
>droEre2.scaffold_4784 13591930 82 - 25762168
-----------------------AUCGAGUGUGCAACAAAAUUGUGUCGCAGCAGACUCAGGUGCAUGCAUCCUCGUUCCCCUUGUCAGCUGCUUAAGUCGAGUC
-----------------------.((((.((..(((.....)))..).(((((.(((..(((.(.(((......))).).))).))).)))))...).))))... ( -20.10, z-score =  -0.33, R)
>consensus
_______________________AUCGAGUGUGCAACAAAAUUGUGUCGCAGCAAACUCAGGUGCAUGCAUCCUCAUGCUCCUUGUCAGCUGCUCAAGUCGAGUC
........................((((.((..(((.....)))..).(((((..((..(((.(((((......))))).))).))..)))))...).))))... (-21.88 = -22.00 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:23:48 2011