Locus 2234

Sequence ID dm3.chr2L
Location 17,224,719 – 17,224,780
Length 61
Max. P 0.992331
window3081 window3082

overview

Window 1

Location 17,224,719 – 17,224,780
Length 61
Sequences 7
Columns 61
Reading direction forward
Mean pairwise identity 86.34
Shannon entropy 0.28491
G+C content 0.42124
Mean single sequence MFE -17.94
Consensus MFE -15.01
Energy contribution -15.59
Covariance contribution 0.57
Combinations/Pair 1.00
Mean z-score -2.61
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.53
SVM RNA-class probability 0.992331
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17224719 61 + 23011544
UCGAGUGUAUUUGCCAGUUGGCAAUAAUAUCAAAUUGCACUCGACUUGCUUUCCCUGAGGA
(((((((((.(((((....)))))...........))))))))).......(((....))) ( -18.10, z-score =  -2.69, R)
>droSim1.chr2L 16922375 61 + 22036055
UCGAGUGUAUUUGCCAGUUGGCAAUAAUAUCAAAUUGCACUCGACUUGCUUUCCCUGAGGA
(((((((((.(((((....)))))...........))))))))).......(((....))) ( -18.10, z-score =  -2.69, R)
>droSec1.super_7 851169 61 + 3727775
UCGAGUGUAUUUGCCAGUUGGCAAUAAUAUCAAAUUGCACUCGACUUGCUUUCCCUGAGGA
(((((((((.(((((....)))))...........))))))))).......(((....))) ( -18.10, z-score =  -2.69, R)
>droYak2.chr2R 17259468 61 - 21139217
UCGAGUGUAUUUGCCAGUUGGCAAUAAUAUCAAAUUGCACUCGACUUGGUUUCCCUGAGGA
(((((((((.(((((....)))))...........)))))))))((..(.....)..)).. ( -20.10, z-score =  -3.16, R)
>droEre2.scaffold_4845 15567099 61 - 22589142
UCGAGUGUAUUUGCCAGUUGGCAAUAAUAUCAAAUUGCACUCGACUUGGUUUCCCUGAGGA
(((((((((.(((((....)))))...........)))))))))((..(.....)..)).. ( -20.10, z-score =  -3.16, R)
>droAna3.scaffold_12916 12553477 61 - 16180835
UCGAGUGUAUUUGCCAGUUGGCAAUAAUAUCAAAUUGCACUCGACUUUGCUUCCCCCGGGA
(((((((((.(((((....)))))...........))))))))).......(((....))) ( -20.00, z-score =  -3.17, R)
>droWil1.scaffold_180703 898779 53 + 3946847
CUUAGAGUAUUUGCCAGUUGGCAAUAAUAUCAAAUUGCACUUUUUGCAGGCAA--------
....((....(((((....))))).....))...(((((.....)))))....-------- ( -11.10, z-score =  -0.66, R)
>consensus
UCGAGUGUAUUUGCCAGUUGGCAAUAAUAUCAAAUUGCACUCGACUUGGUUUCCCUGAGGA
(((((((((.(((((....)))))...........)))))))))................. (-15.01 = -15.59 +   0.57)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,224,719 – 17,224,780
Length 61
Sequences 7
Columns 61
Reading direction reverse
Mean pairwise identity 86.34
Shannon entropy 0.28491
G+C content 0.42124
Mean single sequence MFE -16.19
Consensus MFE -12.41
Energy contribution -13.30
Covariance contribution 0.89
Combinations/Pair 1.00
Mean z-score -2.33
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.83
SVM RNA-class probability 0.970417
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17224719 61 - 23011544
UCCUCAGGGAAAGCAAGUCGAGUGCAAUUUGAUAUUAUUGCCAACUGGCAAAUACACUCGA
(((....))).......(((((((.(((.....))).(((((....)))))...))))))) ( -16.00, z-score =  -2.06, R)
>droSim1.chr2L 16922375 61 - 22036055
UCCUCAGGGAAAGCAAGUCGAGUGCAAUUUGAUAUUAUUGCCAACUGGCAAAUACACUCGA
(((....))).......(((((((.(((.....))).(((((....)))))...))))))) ( -16.00, z-score =  -2.06, R)
>droSec1.super_7 851169 61 - 3727775
UCCUCAGGGAAAGCAAGUCGAGUGCAAUUUGAUAUUAUUGCCAACUGGCAAAUACACUCGA
(((....))).......(((((((.(((.....))).(((((....)))))...))))))) ( -16.00, z-score =  -2.06, R)
>droYak2.chr2R 17259468 61 + 21139217
UCCUCAGGGAAACCAAGUCGAGUGCAAUUUGAUAUUAUUGCCAACUGGCAAAUACACUCGA
......((....))...(((((((.(((.....))).(((((....)))))...))))))) ( -18.80, z-score =  -3.50, R)
>droEre2.scaffold_4845 15567099 61 + 22589142
UCCUCAGGGAAACCAAGUCGAGUGCAAUUUGAUAUUAUUGCCAACUGGCAAAUACACUCGA
......((....))...(((((((.(((.....))).(((((....)))))...))))))) ( -18.80, z-score =  -3.50, R)
>droAna3.scaffold_12916 12553477 61 + 16180835
UCCCGGGGGAAGCAAAGUCGAGUGCAAUUUGAUAUUAUUGCCAACUGGCAAAUACACUCGA
(((....))).......(((((((.(((.....))).(((((....)))))...))))))) ( -17.10, z-score =  -1.78, R)
>droWil1.scaffold_180703 898779 53 - 3946847
--------UUGCCUGCAAAAAGUGCAAUUUGAUAUUAUUGCCAACUGGCAAAUACUCUAAG
--------((((((......)).))))..........(((((....))))).......... ( -10.60, z-score =  -1.32, R)
>consensus
UCCUCAGGGAAACCAAGUCGAGUGCAAUUUGAUAUUAUUGCCAACUGGCAAAUACACUCGA
(((....))).......(((((((.(((.....))).(((((....)))))...))))))) (-12.41 = -13.30 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:47:26 2011