Locus 15083

Sequence ID	dm3.chrX
Location	17,333,645 – 17,333,745
Length	100
Max. P	0.987213

overview

Window 7

Location	17,333,645 – 17,333,745
Length	100
Sequences	4
Columns	100
Reading direction	forward
Mean pairwise identity	85.50
Shannon entropy	0.23593
G+C content	0.34118
Mean single sequence MFE	-23.36
Consensus MFE	-18.74
Energy contribution	-20.05
Covariance contribution	1.31
Combinations/Pair	1.06
Mean z-score	-2.73
Structure conservation index	0.80
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.27
SVM RNA-class probability	0.987213
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17333645 100 + 22422827
GCUCCUUGUGGAGCAUAUAUAGAUAUAUAUAUGAUACUGAUACUGACGAGUGUGCCAAGUUUUCAGAAUUUUGUUUGACCAAUUAUGGAUUAGACAAAAA
(((((....)))))(((((((....)))))))....((((.(((.............)))..))))..(((((((((((((....))).)))))))))). ( -27.22, z-score =  -3.72, R)
>droYak2.chrX 15953152 85 + 21770863
------------GCACAUAUAUA---AUAUAUAUACCUGAUCCUGACGAGUGCGCCAAGUGUUCAGCAUUUUGUUUGACCAAAUAUGGAUUAGACCAAAA
------------....((((((.---..))))))..(((((((....(((..(.....)..))).......(((((....))))).)))))))....... ( -14.60, z-score =  -0.68, R)
>droSec1.super_17 1179883 100 + 1527944
GUUCCUUGUGGAGCAUAUAUAGAUAUAUGUAUAAACCUGAUACUGACGAGUGUGCCAAGUUUUCAGAAUUUUGUUUGACCAAUUAUGGAUUAGACAAAAA
(((((....)))))(((((((....)))))))....((((.(((.............)))..))))..(((((((((((((....))).)))))))))). ( -24.62, z-score =  -2.86, R)
>droSim1.chrX 3461814 100 - 17042790
GCUCCUUGUGGAGCAUAUAUAGAUAUAUGUAUAAACCUGAUACUGACGAGUGUGCCAAGUUUUCAGAAUUUUGUUUGACCAAUUAUGGAUUAGACAAAAA
(((((....)))))(((((((....)))))))....((((.(((.............)))..))))..(((((((((((((....))).)))))))))). ( -27.02, z-score =  -3.67, R)
>consensus
GCUCCUUGUGGAGCAUAUAUAGAUAUAUAUAUAAACCUGAUACUGACGAGUGUGCCAAGUUUUCAGAAUUUUGUUUGACCAAUUAUGGAUUAGACAAAAA
(((((....)))))(((((((....)))))))..........((((.((.(......).)).))))..(((((((((((((....))).)))))))))). (-18.74 = -20.05 +   1.31)

alignment

secondary structure

dotplot

Window 8

Location	17,333,645 – 17,333,745
Length	100
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	85.50
Shannon entropy	0.23593
G+C content	0.34118
Mean single sequence MFE	-19.57
Consensus MFE	-12.39
Energy contribution	-13.70
Covariance contribution	1.31
Combinations/Pair	1.07
Mean z-score	-2.26
Structure conservation index	0.63
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.41
SVM RNA-class probability	0.682173
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17333645 100 - 22422827
UUUUUGUCUAAUCCAUAAUUGGUCAAACAAAAUUCUGAAAACUUGGCACACUCGUCAGUAUCAGUAUCAUAUAUAUAUCUAUAUAUGCUCCACAAGGAGC
.((((((.....(((....)))....))))))..((((..(((.(((......)))))).))))....(((((((....)))))))(((((....))))) ( -20.90, z-score =  -3.09, R)
>droYak2.chrX 15953152 85 - 21770863
UUUUGGUCUAAUCCAUAUUUGGUCAAACAAAAUGCUGAACACUUGGCGCACUCGUCAGGAUCAGGUAUAUAUAU---UAUAUAUGUGC------------
(((((.......(((....))).....)))))..((((...(((((((....))))))).))))(((((((((.---..)))))))))------------ ( -19.20, z-score =  -1.53, R)
>droSec1.super_17 1179883 100 - 1527944
UUUUUGUCUAAUCCAUAAUUGGUCAAACAAAAUUCUGAAAACUUGGCACACUCGUCAGUAUCAGGUUUAUACAUAUAUCUAUAUAUGCUCCACAAGGAAC
.((((((.....(((....)))....))))))......(((((((..((........))..)))))))...((((((....)))))).(((....))).. ( -17.80, z-score =  -1.89, R)
>droSim1.chrX 3461814 100 + 17042790
UUUUUGUCUAAUCCAUAAUUGGUCAAACAAAAUUCUGAAAACUUGGCACACUCGUCAGUAUCAGGUUUAUACAUAUAUCUAUAUAUGCUCCACAAGGAGC
.((((((.....(((....)))....))))))......(((((((..((........))..)))))))..................(((((....))))) ( -20.40, z-score =  -2.52, R)
>consensus
UUUUUGUCUAAUCCAUAAUUGGUCAAACAAAAUUCUGAAAACUUGGCACACUCGUCAGUAUCAGGUUUAUACAUAUAUCUAUAUAUGCUCCACAAGGAGC
.((((((.....(((....)))....))))))..((((....(((((......)))))..))))...((((((((....))))))))((((....)))). (-12.39 = -13.70 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:52:43 2011