Locus 1251

Sequence ID dm3.chr2L
Location 9,467,652 – 9,467,743
Length 91
Max. P 0.947884
window1705 window1706

overview

Window 5

Location 9,467,652 – 9,467,743
Length 91
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 83.56
Shannon entropy 0.28513
G+C content 0.54482
Mean single sequence MFE -31.60
Consensus MFE -21.90
Energy contribution -22.06
Covariance contribution 0.16
Combinations/Pair 1.13
Mean z-score -2.42
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.53
SVM RNA-class probability 0.947884
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9467652 91 + 23011544
CUCGAAACUCG---------CAGCUUUGCUUUGCUUUCCGGAAAACUAUGCACGAGCGCUGACAUCAUUUGUCAUGUCUGCGCGCUGUGCGGACGAAGCG
...........---------.......((((((...((((.....)...(((((.((((.(((((........))))).))))..)))))))))))))). ( -29.00, z-score =  -0.68, R)
>droAna3.scaffold_12943 819805 83 + 5039921
-----------------CCCCCUCUGUGUUUUCCUUUCCGGAAAACUAUGCACGAGCGCUGACAUCAUUUGUCAUGUCUGCGCUCGGUGCGGGCGAAAAG
-----------------.((((.....(((((((.....)))))))...((((((((((.(((((........))))).)))))).))))))).)..... ( -35.60, z-score =  -5.19, R)
>droYak2.chr2L 12141700 99 + 22324452
CUCGAAACUCCUCGCUUUCCCGGCUUUCCUUUGCUCUCCG-AAAACUAUGCACGAGCGCUGACAUCAUUUGUCAUGUCUCUGCGCUGUGCGGGCGAAGCG
............((((((((((((........))).....-........((((.(((((.(((((........)))))...)))))))))))).)))))) ( -33.70, z-score =  -3.14, R)
>droSec1.super_3 4921755 91 + 7220098
CUCGAAACUCA---------CAGCUUUCCUUUGCUUUCCGGAAAACUAUGCACGAGCGCUGACAUCAUUUGUCAUGUCUGCGCGCUGUGCGGGCGAAGCG
.(((...(.((---------(((((((((..........)))))...........((((.(((((........))))).)))))))))).)..))).... ( -29.70, z-score =  -1.46, R)
>droSim1.chr2L 9244202 91 + 22036055
CUCGAAACUCC---------CAGCUUUCCUUUGCUUUCCGGAAAACUAUGCACGAGCGCUGACAUCAUUUGUCAUGUCUGCGCGCUGUGCGGGCGAAGCG
.......(.((---------(((.(((((..........))))).))..(((((.((((.(((((........))))).))))..)))))))).)..... ( -30.00, z-score =  -1.61, R)
>consensus
CUCGAAACUCC_________CAGCUUUCCUUUGCUUUCCGGAAAACUAUGCACGAGCGCUGACAUCAUUUGUCAUGUCUGCGCGCUGUGCGGGCGAAGCG
............................((((((((...(.....)...(((((.((((.(((((........))))).))))..))))))))))))).. (-21.90 = -22.06 +   0.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 9,467,652 – 9,467,743
Length 91
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 83.56
Shannon entropy 0.28513
G+C content 0.54482
Mean single sequence MFE -33.88
Consensus MFE -21.34
Energy contribution -21.50
Covariance contribution 0.16
Combinations/Pair 1.13
Mean z-score -2.45
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.21
SVM RNA-class probability 0.910146
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 9467652 91 - 23011544
CGCUUCGUCCGCACAGCGCGCAGACAUGACAAAUGAUGUCAGCGCUCGUGCAUAGUUUUCCGGAAAGCAAAGCAAAGCUG---------CGAGUUUCGAG
.((((..((((((((((((...(((((........))))).))))).))))...(.....))))))))...(((....))---------).......... ( -27.90, z-score =  -0.13, R)
>droAna3.scaffold_12943 819805 83 - 5039921
CUUUUCGCCCGCACCGAGCGCAGACAUGACAAAUGAUGUCAGCGCUCGUGCAUAGUUUUCCGGAAAGGAAAACACAGAGGGGG-----------------
.....(.(((((((.((((((.(((((........))))).))))))))))...(((((((.....))))))).....))).)----------------- ( -38.60, z-score =  -5.71, R)
>droYak2.chr2L 12141700 99 - 22324452
CGCUUCGCCCGCACAGCGCAGAGACAUGACAAAUGAUGUCAGCGCUCGUGCAUAGUUUU-CGGAGAGCAAAGGAAAGCCGGGAAAGCGAGGAGUUUCGAG
..((((((..(((((((((...(((((........))))).))))).))))....((..-(((....(....)....)))..)).))))))......... ( -34.40, z-score =  -1.79, R)
>droSec1.super_3 4921755 91 - 7220098
CGCUUCGCCCGCACAGCGCGCAGACAUGACAAAUGAUGUCAGCGCUCGUGCAUAGUUUUCCGGAAAGCAAAGGAAAGCUG---------UGAGUUUCGAG
....(((...(((((((((...(((((........))))).))))).))))((((((((((..........)))))))))---------)......))). ( -33.10, z-score =  -2.00, R)
>droSim1.chr2L 9244202 91 - 22036055
CGCUUCGCCCGCACAGCGCGCAGACAUGACAAAUGAUGUCAGCGCUCGUGCAUAGUUUUCCGGAAAGCAAAGGAAAGCUG---------GGAGUUUCGAG
((...(.((((((((((((...(((((........))))).))))).))))..((((((((..........)))))))))---------)).)...)).. ( -35.40, z-score =  -2.60, R)
>consensus
CGCUUCGCCCGCACAGCGCGCAGACAUGACAAAUGAUGUCAGCGCUCGUGCAUAGUUUUCCGGAAAGCAAAGGAAAGCUG_________GGAGUUUCGAG
.((((.....(((((((((...(((((........))))).))))).))))...(((((....)))))......))))...................... (-21.34 = -21.50 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:28:23 2011