Locus 11755

Sequence ID dm3.chr3R
Location 23,546,130 – 23,546,186
Length 56
Max. P 0.995785
window16154 window16155

overview

Window 4

Location 23,546,130 – 23,546,186
Length 56
Sequences 3
Columns 56
Reading direction forward
Mean pairwise identity 83.93
Shannon entropy 0.22508
G+C content 0.68709
Mean single sequence MFE -28.93
Consensus MFE -24.88
Energy contribution -26.33
Covariance contribution 1.45
Combinations/Pair 1.15
Mean z-score -3.04
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.84
SVM RNA-class probability 0.995785
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 23546130 56 + 27905053
GUGGCAGUAGCAGUGGUAGUGGCAGCCAUGGCCAGUCGCCGCCACAGCCAUAGCCA
.((((.((.((.((((..(((((.((....))..)))))..)))).)).)).)))) ( -26.00, z-score =  -2.86, R)
>droSec1.super_22 188671 51 + 1066717
-----AGUGGCAGUGGCUGUGCCAGCCAGGGCCAGUCGCCGCCACAGCCAGAGUCA
-----.(((((.(((((((.(((......)))))))))).)))))........... ( -26.80, z-score =  -3.29, R)
>droSim1.chr3R 23275020 56 + 27517382
GUGGCAGUGGCAGUGGCUGUGGCAGCCAGGGCCAGUCGCCGCCGCAGCCACAGCCA
.((((.(((((.(((((.(((((.((....))..))))).))))).))))).)))) ( -34.00, z-score =  -2.98, R)
>consensus
GUGGCAGUGGCAGUGGCUGUGGCAGCCAGGGCCAGUCGCCGCCACAGCCACAGCCA
..(((.(((((.(((((.(((((.((....))..))))).))))).))))).))). (-24.88 = -26.33 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 23,546,130 – 23,546,186
Length 56
Sequences 3
Columns 56
Reading direction reverse
Mean pairwise identity 83.93
Shannon entropy 0.22508
G+C content 0.68709
Mean single sequence MFE -26.90
Consensus MFE -23.05
Energy contribution -24.50
Covariance contribution 1.45
Combinations/Pair 1.06
Mean z-score -2.49
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.20
SVM RNA-class probability 0.985412
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 23546130 56 - 27905053
UGGCUAUGGCUGUGGCGGCGACUGGCCAUGGCUGCCACUACCACUGCUACUGCCAC
((((..(((..((((((((.(.......).))))))))..)))..))))....... ( -23.80, z-score =  -2.04, R)
>droSec1.super_22 188671 51 - 1066717
UGACUCUGGCUGUGGCGGCGACUGGCCCUGGCUGGCACAGCCACUGCCACU-----
......((((.(((((.(.(.(..((....))..)).).))))).))))..----- ( -24.00, z-score =  -2.09, R)
>droSim1.chr3R 23275020 56 - 27517382
UGGCUGUGGCUGCGGCGGCGACUGGCCCUGGCUGCCACAGCCACUGCCACUGCCAC
((((.(((((((.((((((.(.......).)))))).))))))).))))....... ( -32.90, z-score =  -3.34, R)
>consensus
UGGCUAUGGCUGUGGCGGCGACUGGCCCUGGCUGCCACAGCCACUGCCACUGCCAC
((((..(((((((((((((.(.......).)))))))))))))..))))....... (-23.05 = -24.50 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:49:00 2011