Locus 12573

Sequence ID	dm3.chrX
Location	995,270 – 995,384
Length	114
Max. P	0.878948

overview

Window 0

Location	995,270 – 995,381
Length	111
Sequences	4
Columns	111
Reading direction	forward
Mean pairwise identity	83.86
Shannon entropy	0.26261
G+C content	0.44349
Mean single sequence MFE	-33.27
Consensus MFE	-21.46
Energy contribution	-24.65
Covariance contribution	3.19
Combinations/Pair	1.12
Mean z-score	-2.39
Structure conservation index	0.65
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.04
SVM RNA-class probability	0.878948
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 995270 111 + 22422827
GAGAUGCCAGAUGCCAAUCUUGUAUCUUGUGGGUUGGGUUGGCUUCCCUAUUUUCGAGGAUUGCGAAUGCAUUUGGCAUUCUUUCCGCUAAUGACAAUCGCAAAUGUCUUG
(((((((.((((....)))).)))))))(((((..((.....))..)))))...(((((.((((((.((((((.(((.........))))))).)).))))))...))))) ( -32.90, z-score =  -1.35, R)
>droEre2.scaffold_4644 973002 85 + 2521924
-------GAGAUGCCAAUCUUGU------------GGAUUGGUUUCCCUAUUUUCGGGGAUUG------CAUU-GCCAUUCUUUUCGCUAAUGACAAUCGCAAAUGUCUUG
-------((((((((((((....------------.))))))).(((((......)))))(((------((((-(.((((.........)))).)))).))))..))))). ( -24.10, z-score =  -2.09, R)
>droSec1.super_10 822377 110 + 3036183
GAGAUACCAGAUGCCAAUCUUGUAUCUUGUGGGUUGGGUUGGCUUCCCUAUUUUCGGGGAUUGCAAAUGCAUU-GGCAUUCUUUCCGCUAAUGACAAUCGCAAAUGUCUUG
((((((......((((((((...(((.....))).)))))))).(((((......)))))((((...((((((-(((.........))))))).))...)))).)))))). ( -34.00, z-score =  -1.89, R)
>droSim1.chrX_random 857896 110 + 5698898
GAGAUGCCAGAUGCCAAUCUGGUAUCUUGUGGGUUGGGUUGGCUUCCCUAUUUUCGAAGAUUGCGAAUGCAUU-GGCAUUCUUUCCGCUAAUGACAAUCGCAAAUGUCUUG
((((((((((((....))))))))))))(((((..((.....))..))))).....((((((((((.((((((-(((.........))))))).)).)))))...))))). ( -42.10, z-score =  -4.22, R)
>consensus
GAGAUGCCAGAUGCCAAUCUUGUAUCUUGUGGGUUGGGUUGGCUUCCCUAUUUUCGAGGAUUGCGAAUGCAUU_GGCAUUCUUUCCGCUAAUGACAAUCGCAAAUGUCUUG
((((((((((((....)))))))))))).........((((((.(((((......)))))....((((((.....)))))).....))))))((((........))))... (-21.46 = -24.65 +   3.19)

alignment

secondary structure

dotplot

Window 1

Location	995,273 – 995,384
Length	111
Sequences	4
Columns	111
Reading direction	forward
Mean pairwise identity	84.01
Shannon entropy	0.25810
G+C content	0.44349
Mean single sequence MFE	-32.22
Consensus MFE	-21.62
Energy contribution	-21.50
Covariance contribution	-0.12
Combinations/Pair	1.14
Mean z-score	-1.87
Structure conservation index	0.67
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.14
SVM RNA-class probability	0.562162
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 995273 111 + 22422827
AUGCCAGAUGCCAAUCUUGUAUCUUGUGGGUUGGGUUGGCUUCCCUAUUUUCGAGGAUUGCGAAUGCAUUUGGCAUUCUUUCCGCUAAUGACAAUCGCAAAUGUCUUGCGA
(((((((((((.....((((((((((..(((.(((.......))).)))..)))))..)))))..)))))))))))......(((....((((........))))..))). ( -34.30, z-score =  -1.58, R)
>droEre2.scaffold_4644 973005 85 + 2521924
-------AUGCCAAUCUUGU------------GGAUUGGUUUCCCUAUUUUCGGGGAUUGCA------UU-GCCAUUCUUUUCGCUAAUGACAAUCGCAAAUGUCUUGCGA
-------..(((((((....------------.))))))).(((((......)))))(((((------((-((.(......).)).)))).)))((((((.....)))))) ( -23.90, z-score =  -1.90, R)
>droSec1.super_10 822380 110 + 3036183
AUACCAGAUGCCAAUCUUGUAUCUUGUGGGUUGGGUUGGCUUCCCUAUUUUCGGGGAUUGCAAAUGCAUU-GGCAUUCUUUCCGCUAAUGACAAUCGCAAAUGUCUUGCGA
.........((((((((...(((.....))).)))))))).(((((......))))).......((((((-(((.........))))))).)).((((((.....)))))) ( -32.50, z-score =  -1.24, R)
>droSim1.chrX_random 857899 110 + 5698898
AUGCCAGAUGCCAAUCUGGUAUCUUGUGGGUUGGGUUGGCUUCCCUAUUUUCGAAGAUUGCGAAUGCAUU-GGCAUUCUUUCCGCUAAUGACAAUCGCAAAUGUCUUGCGA
(((((((((....)))))))))...(((((..((.....))..)))))..(((((((((((((.((((((-(((.........))))))).)).)))))...))))).))) ( -38.20, z-score =  -2.76, R)
>consensus
AUGCCAGAUGCCAAUCUUGUAUCUUGUGGGUUGGGUUGGCUUCCCUAUUUUCGAGGAUUGCAAAUGCAUU_GGCAUUCUUUCCGCUAAUGACAAUCGCAAAUGUCUUGCGA
......((.((((((((...(((.....))).)))))))).)).........(((((.(((...........))).))))).(((....((((........))))..))). (-21.62 = -21.50 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:04:51 2011