Locus 14425

Sequence ID dm3.chrX
Location 13,247,763 – 13,247,815
Length 52
Max. P 0.947967
window19859 window19860

overview

Window 9

Location 13,247,763 – 13,247,815
Length 52
Sequences 6
Columns 59
Reading direction forward
Mean pairwise identity 90.80
Shannon entropy 0.16526
G+C content 0.62588
Mean single sequence MFE -21.15
Consensus MFE -15.08
Energy contribution -15.42
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.70
SVM RNA-class probability 0.791342
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13247763 52 + 22422827
GUCUCCGGACCGGAGUCGCAAUGCGAAUCCGGCCACG-------GGACUCUACAAUGCC
(((((.((.(((((.((((...)))).)))))))..)-------))))........... ( -22.30, z-score =  -2.91, R)
>droAna3.scaffold_13335 2432648 58 - 3335858
GUCUCCGGGCCGGAGUC-CGUUGCGAAUCCGGCCACAAAAGCACGGACUCUACAAUGGC
..(((((...))))).(-(((((.((.((((((.......)).)))).))..)))))). ( -19.10, z-score =  -0.86, R)
>droEre2.scaffold_4690 5122608 52 - 18748788
GUCUCCGGACCGGAGUCGCAAUGCGAAUCCGGCCACG-------GGACUCUACAAUGCC
(((((.((.(((((.((((...)))).)))))))..)-------))))........... ( -22.30, z-score =  -2.91, R)
>droYak2.chrX 7527537 52 + 21770863
GUCUCCGGACCGGAGUAGCAAUGCGAAUCCGGCCAAG-------GGACUCUACAAUGCC
(((((.((.(((((...((...))...)))))))..)-------))))........... ( -18.60, z-score =  -1.96, R)
>droSec1.super_21 1002575 52 + 1102487
GUCUCCGGACCGGAGUCGCAAUGCGAAUCCGGCCACG-------GGACUCUACAAUGCC
(((((.((.(((((.((((...)))).)))))))..)-------))))........... ( -22.30, z-score =  -2.91, R)
>droSim1.chrX 10140046 52 + 17042790
GUCUCCGGACCGGAGUCGCAAUGCGAAUCCGGCCACG-------GGACUCUACAAUGCC
(((((.((.(((((.((((...)))).)))))))..)-------))))........... ( -22.30, z-score =  -2.91, R)
>consensus
GUCUCCGGACCGGAGUCGCAAUGCGAAUCCGGCCACG_______GGACUCUACAAUGCC
((((..((.(((((.((((...)))).)))))))..........))))........... (-15.08 = -15.42 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,247,763 – 13,247,815
Length 52
Sequences 6
Columns 59
Reading direction reverse
Mean pairwise identity 90.80
Shannon entropy 0.16526
G+C content 0.62588
Mean single sequence MFE -24.70
Consensus MFE -16.61
Energy contribution -16.83
Covariance contribution 0.22
Combinations/Pair 1.15
Mean z-score -3.05
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.54
SVM RNA-class probability 0.947967
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13247763 52 - 22422827
GGCAUUGUAGAGUCC-------CGUGGCCGGAUUCGCAUUGCGACUCCGGUCCGGAGAC
...........((((-------((.(((((((.((((...)))).)))))))))).))) ( -25.70, z-score =  -3.40, R)
>droAna3.scaffold_13335 2432648 58 + 3335858
GCCAUUGUAGAGUCCGUGCUUUUGUGGCCGGAUUCGCAACG-GACUCCGGCCCGGAGAC
.((.((((.(((((((.(((.....)))))))))))))).)-).(((((...))))).. ( -25.40, z-score =  -2.75, R)
>droEre2.scaffold_4690 5122608 52 + 18748788
GGCAUUGUAGAGUCC-------CGUGGCCGGAUUCGCAUUGCGACUCCGGUCCGGAGAC
...........((((-------((.(((((((.((((...)))).)))))))))).))) ( -25.70, z-score =  -3.40, R)
>droYak2.chrX 7527537 52 - 21770863
GGCAUUGUAGAGUCC-------CUUGGCCGGAUUCGCAUUGCUACUCCGGUCCGGAGAC
((((.(((.((((((-------.......))))))))).)))).(((((...))))).. ( -20.00, z-score =  -1.96, R)
>droSec1.super_21 1002575 52 - 1102487
GGCAUUGUAGAGUCC-------CGUGGCCGGAUUCGCAUUGCGACUCCGGUCCGGAGAC
...........((((-------((.(((((((.((((...)))).)))))))))).))) ( -25.70, z-score =  -3.40, R)
>droSim1.chrX 10140046 52 - 17042790
GGCAUUGUAGAGUCC-------CGUGGCCGGAUUCGCAUUGCGACUCCGGUCCGGAGAC
...........((((-------((.(((((((.((((...)))).)))))))))).))) ( -25.70, z-score =  -3.40, R)
>consensus
GGCAUUGUAGAGUCC_______CGUGGCCGGAUUCGCAUUGCGACUCCGGUCCGGAGAC
......................((.(((((((.((((...)))).)))))))))..... (-16.61 = -16.83 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:39:55 2011