Locus 4194

Sequence ID dm3.chr2R
Location 11,165,096 – 11,165,165
Length 69
Max. P 0.666566
window5751

overview

Window 1

Location 11,165,096 – 11,165,165
Length 69
Sequences 5
Columns 69
Reading direction reverse
Mean pairwise identity 67.10
Shannon entropy 0.59507
G+C content 0.40580
Mean single sequence MFE -15.90
Consensus MFE -8.29
Energy contribution -8.77
Covariance contribution 0.48
Combinations/Pair 1.50
Mean z-score -0.89
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.38
SVM RNA-class probability 0.666566
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11165096 69 - 21146708
UAGCUUUUUCAGCUGUUACUUUUUCCACAAGCGGAAAUAAAUGGGGGAAAGUUGUGCUUGAGGGGAAAU
...((((((.(((....(((((..((.((............))))..)))))...))).)))))).... ( -16.20, z-score =  -0.77, R)
>droSim1.chr2R 9902114 69 - 19596830
UAGCUUUUCCAGCUGUUAUUUUUUCCACAAGCGGAAUUAAAUGGGGGAAAGUUGUGCUUGAGGGGAAAU
(((((.....)))))....(((..((.((((((.((((...........)))).)))))).))..))). ( -18.80, z-score =  -1.50, R)
>droSec1.super_1 8657706 69 - 14215200
UAGCUUUUCCAGCUGUUACCUUUUCCACAAGCGGAAUUAAAUGGGGGAAUGUUGUGCUUGAGGGGAAAU
(((((.....))))).....((..((.((((((.(((.............))).)))))).))..)).. ( -17.52, z-score =  -0.42, R)
>droEre2.scaffold_4845 7883850 69 + 22589142
UAGCAUUUUCAGCUGUUUCUUUUUCCACGAGCUGACUGAAAUGGGGGAAAGUUGCGUUGGAGGAGGUAU
((.(.((((((((.((..((((..((.....(.....).....))..))))..)))))))))).).)). ( -18.00, z-score =  -0.79, R)
>dp4.chr3 556915 63 - 19779522
-----UUAUAUGAUUCACUUUUGUCCAAACACACAAUGGGCCAAAAAACUAUGGU-CACAUAGCUAAAU
-----.............(((((((((.........)))).)))))..(((((..-..)))))...... (  -9.00, z-score =  -0.95, R)
>consensus
UAGCUUUUUCAGCUGUUACUUUUUCCACAAGCGGAAUUAAAUGGGGGAAAGUUGUGCUUGAGGGGAAAU
...((((((.(((....(((((((((.................)))))))))...))).)))))).... ( -8.29 =  -8.77 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:24:33 2011