Locus 3035

Sequence ID dm3.chr2R
Location 1,708,558 – 1,708,677
Length 119
Max. P 0.608526
window4164

overview

Window 4

Location 1,708,558 – 1,708,677
Length 119
Sequences 4
Columns 121
Reading direction reverse
Mean pairwise identity 77.27
Shannon entropy 0.35707
G+C content 0.48073
Mean single sequence MFE -35.26
Consensus MFE -21.67
Energy contribution -22.55
Covariance contribution 0.88
Combinations/Pair 1.29
Mean z-score -1.67
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.24
SVM RNA-class probability 0.608526
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 1708558 119 - 21146708
CAAGCGAAUGAGCGGCGUGC-AAGUGUGUAUCAAAAGAUGCAUUGGACCGUAGAAGGACAUUCUGGUCGGGAUGUGAUCCGAAGCUUUACUCACACCUUAGCAGUCCGCGUGUCCCUUUC-
.(((.((....((((..(((-(((.(((((((....)))((.(((((((......))(((((((....)))))))..))))).)).......))))))).)))..))))...)).)))..- ( -35.20, z-score =  -0.43, R)
>droYak2.chr2L 1494883 114 + 22324452
-------CAAGUGAAUGAGCGGUAUAAGUAUCAUAAUAUGCAUUGCACCGUAUAAGGGCAUUCUGGCAGGAAUGUGCUCCGAAACUUGACUUACACCUUAGCAGUCAGCAUGCCGCUUGAU
-------(((((......(((((.(((((((......)))).))).))))).....(((((.(((((.(((......)))......((.((........))))))))).)))))))))).. ( -31.40, z-score =  -0.70, R)
>droSec1.super_26 365428 108 - 826190
-----------CAAGCGAAU-GUAUGUGUAUCGAAAGAUGCAUUGGACCGUUGAAGGACAAUCUGGUCGGGAUGUGAUCCGAAACUUUACUCACACCUUAGCAGUCCGCGUGUCGCUUUC-
-----------.((((((((-((..(((((((....))))))).((((.(((((..(((......))).((.(((((.............)))))))))))).)))))))).))))))..- ( -37.22, z-score =  -2.78, R)
>droSim1.chr2R 623546 108 - 19596830
-----------CAAGCGAAU-GUAUGUGUAUCGAAAGAUGCAUUGGACCGUUGAAGGACAAUCUGGUCGGGAUGUGAUCCGAAACUUUACUCACACCUUAGCAGUCCGCGUGUCGCUUUC-
-----------.((((((((-((..(((((((....))))))).((((.(((((..(((......))).((.(((((.............)))))))))))).)))))))).))))))..- ( -37.22, z-score =  -2.78, R)
>consensus
___________CAAGCGAAC_GUAUGUGUAUCAAAAGAUGCAUUGGACCGUAGAAGGACAAUCUGGUCGGGAUGUGAUCCGAAACUUUACUCACACCUUAGCAGUCCGCGUGUCGCUUUC_
............(((((.((.....(((((((....)))))))(((((.(((.(((((((((((....))))))).....((........))...))))))).)))))...)))))))... (-21.67 = -22.55 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:02:25 2011