Locus 13436

Sequence ID dm3.chrX
Location 6,531,209 – 6,531,260
Length 51
Max. P 0.996199
window18503 window18504

overview

Window 3

Location 6,531,209 – 6,531,260
Length 51
Sequences 5
Columns 53
Reading direction forward
Mean pairwise identity 92.28
Shannon entropy 0.13769
G+C content 0.55997
Mean single sequence MFE -11.86
Consensus MFE -10.56
Energy contribution -10.76
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -3.30
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.90
SVM RNA-class probability 0.996199
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6531209 51 + 22422827
UUAAUAUUUAUGGCCGCGAGUGUUAACCCC--ACCACACUACGCCCCGCCUAC
...........(((.((((((((.......--...))))).)))...)))... ( -11.80, z-score =  -3.08, R)
>droSim1.chrX 5133509 51 + 17042790
UUAUUAUUUAUGGCCGCGAGUGUUAACCCC--ACCACACUCCGCCCCGCCUUC
...........(((.((((((((.......--...))))).)))...)))... ( -11.80, z-score =  -3.52, R)
>droSec1.super_4 5905782 51 - 6179234
UUAUUAUUUAUGGCCGCGAGUGUUAACCCC--ACCACACUCCGCCCCGCCUUC
...........(((.((((((((.......--...))))).)))...)))... ( -11.80, z-score =  -3.52, R)
>droYak2.chrX 2494247 53 + 21770863
UUAUUAUUUAUGGCCGCGAGUGUUAGCCCCCCACCACACUCCGCCCCGCCUCC
...........(((.((((((((............))))).)))...)))... ( -11.60, z-score =  -3.01, R)
>droEre2.scaffold_4690 15458395 51 + 18748788
UUAUUAUUUAUGGCCGCGAGUGUGAACCCC--ACUACUCUCCGCCCCGCCUCC
...........(((.(.(((((((.....)--)).)))).).)))........ ( -12.30, z-score =  -3.38, R)
>consensus
UUAUUAUUUAUGGCCGCGAGUGUUAACCCC__ACCACACUCCGCCCCGCCUCC
...........(((.((((((((............))))).)))...)))... (-10.56 = -10.76 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 6,531,209 – 6,531,260
Length 51
Sequences 5
Columns 53
Reading direction reverse
Mean pairwise identity 92.28
Shannon entropy 0.13769
G+C content 0.55997
Mean single sequence MFE -14.98
Consensus MFE -12.32
Energy contribution -12.52
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.35
SVM RNA-class probability 0.656988
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6531209 51 - 22422827
GUAGGCGGGGCGUAGUGUGGU--GGGGUUAACACUCGCGGCCAUAAAUAUUAA
...(((...(((.(((((...--.......)))))))).)))........... ( -13.80, z-score =  -0.93, R)
>droSim1.chrX 5133509 51 - 17042790
GAAGGCGGGGCGGAGUGUGGU--GGGGUUAACACUCGCGGCCAUAAAUAAUAA
.......((.((((((((...--.......)))))).)).))........... ( -14.90, z-score =  -2.02, R)
>droSec1.super_4 5905782 51 + 6179234
GAAGGCGGGGCGGAGUGUGGU--GGGGUUAACACUCGCGGCCAUAAAUAAUAA
.......((.((((((((...--.......)))))).)).))........... ( -14.90, z-score =  -2.02, R)
>droYak2.chrX 2494247 53 - 21770863
GGAGGCGGGGCGGAGUGUGGUGGGGGGCUAACACUCGCGGCCAUAAAUAAUAA
.......((.(((((((((((.....))).)))))).)).))........... ( -16.50, z-score =  -2.02, R)
>droEre2.scaffold_4690 15458395 51 - 18748788
GGAGGCGGGGCGGAGAGUAGU--GGGGUUCACACUCGCGGCCAUAAAUAAUAA
........(((.(.((((.((--(.....))))))).).)))........... ( -14.80, z-score =  -2.13, R)
>consensus
GAAGGCGGGGCGGAGUGUGGU__GGGGUUAACACUCGCGGCCAUAAAUAAUAA
...(((...(((.(((((............)))))))).)))........... (-12.32 = -12.52 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:21:23 2011