Locus 7880

Sequence ID	dm3.chr3L
Location	18,091,125 – 18,091,256
Length	131
Max. P	0.977489

overview

Window 2

Location	18,091,125 – 18,091,240
Length	115
Sequences	4
Columns	115
Reading direction	forward
Mean pairwise identity	93.33
Shannon entropy	0.10746
G+C content	0.45635
Mean single sequence MFE	-35.94
Consensus MFE	-31.75
Energy contribution	-32.12
Covariance contribution	0.37
Combinations/Pair	1.06
Mean z-score	-1.62
Structure conservation index	0.88
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.40
SVM RNA-class probability	0.681730
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18091125 115 + 24543557
GUGCGCUGCUCAUCUCAAAAGGCGAUUGGGAUUGCGAUUGUGUCAGCCGUGGCAAUGCAAAAUUAAAAGGAGCUGUUGCCAUGGCUAAGACUUUUUGGUCGACUAAUUAAAUAGG
.......((..(((((((.......))))))).))(((((.(((((((((((((((((.............)).))))))))))))..((((....))))))))))))....... ( -37.02, z-score =  -2.08, R)
>droEre2.scaffold_4784 9962295 113 - 25762168
GUGCGCUGCUCAUCUCAAUGGGCGAUUGUGAUUGCGAUUGUGUCAGCCGUGGCAAUGCGAAAUUGAAAU--GUUGUUGCCAUGGCUCAGACUUUUUGGUGGACUAAUUAACUAGA
((.((((((((((....))))))((((((....))))))..(((((((((((((((.............--...))))))))))))..))).....)))).))............ ( -36.49, z-score =  -1.72, R)
>droSec1.super_19 87125 115 + 1257711
GUGCGCUGCUCAUCUCAAAAGGCGAUUGGGAUUGCGAUUGUGUCAGCCGUGGCAAUGCAAAAUGAAAAGGAGCUGUUGCCAUGGCUCAGACUUUUUGGUCGACUAAUUAAAUAGG
.......((..(((((((.......))))))).))(((((.(((((((((((((((((....(....)...)).))))))))))))..((((....))))))))))))....... ( -36.70, z-score =  -1.55, R)
>droSim1.chr3L 17417981 115 + 22553184
GUGCGCUGCUCAUCUCAAAAGGCGAUUGUGAUUGUGAUUGUGUCAGCCGUGGCAAUGCAAAAUUAAAAGGAGCUGUUGCCAUGGCUCAGACUUUUUGGUCGACUAAUUAAAUAGG
...((((.............))))..........((((((.(((((((((((((((((.............)).))))))))))))..((((....)))))))))))))...... ( -33.54, z-score =  -1.15, R)
>consensus
GUGCGCUGCUCAUCUCAAAAGGCGAUUGGGAUUGCGAUUGUGUCAGCCGUGGCAAUGCAAAAUUAAAAGGAGCUGUUGCCAUGGCUCAGACUUUUUGGUCGACUAAUUAAAUAGG
.......((..(((((((.......))))))).))(((((.(((((((((((((((((.............)).))))))))))))..((((....))))))))))))....... (-31.75 = -32.12 +   0.37)

alignment

secondary structure

dotplot

Window 3

Location	18,091,165 – 18,091,256
Length	91
Sequences	4
Columns	91
Reading direction	forward
Mean pairwise identity	91.94
Shannon entropy	0.12896
G+C content	0.42817
Mean single sequence MFE	-29.83
Consensus MFE	-26.83
Energy contribution	-26.89
Covariance contribution	0.06
Combinations/Pair	1.07
Mean z-score	-2.45
Structure conservation index	0.90
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.97
SVM RNA-class probability	0.977489
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18091165 91 + 24543557
UGUCAGCCGUGGCAAUGCAAAAUUAAAAGGAGCUGUUGCCAUGGCUAAGACUUUUUGGUCGACUAAUUAAAUAGGCAAAUGCUUUGGCCAU
.(((((((((((((((((.............)).))))))))))))..((((....)))))))..........(((.((....)).))).. ( -31.92, z-score =  -3.14, R)
>droEre2.scaffold_4784 9962335 89 - 25762168
UGUCAGCCGUGGCAAUGCGAAAUUGAAAUG--UUGUUGCCAUGGCUCAGACUUUUUGGUGGACUAAUUAACUAGACAAAUGCUUUGGCCAA
.(((((((((((((((..............--..))))))))))))..)))...(((((...(((......))).(((.....)))))))) ( -25.09, z-score =  -1.29, R)
>droSec1.super_19 87165 91 + 1257711
UGUCAGCCGUGGCAAUGCAAAAUGAAAAGGAGCUGUUGCCAUGGCUCAGACUUUUUGGUCGACUAAUUAAAUAGGCAAGUGUUUUGGCCAU
.(((((((((((((((((....(....)...)).))))))))))))..((((....)))))))..........(((.((....)).))).. ( -31.30, z-score =  -2.64, R)
>droSim1.chr3L 17418021 91 + 22553184
UGUCAGCCGUGGCAAUGCAAAAUUAAAAGGAGCUGUUGCCAUGGCUCAGACUUUUUGGUCGACUAAUUAAAUAGGCAAGUGUUUUGGCCAU
.(((((((((((((((((.............)).))))))))))))..((((....)))))))..........(((.((....)).))).. ( -31.02, z-score =  -2.73, R)
>consensus
UGUCAGCCGUGGCAAUGCAAAAUUAAAAGGAGCUGUUGCCAUGGCUCAGACUUUUUGGUCGACUAAUUAAAUAGGCAAAUGCUUUGGCCAU
.(((((((((((((((((.............)).))))))))))))..)))....(((((((...(((.........)))...))))))). (-26.83 = -26.89 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:35:12 2011