Locus 14241

Sequence ID dm3.chrX
Location 12,112,115 – 12,112,178
Length 63
Max. P 0.993686
window19607 window19608

overview

Window 7

Location 12,112,115 – 12,112,178
Length 63
Sequences 5
Columns 63
Reading direction forward
Mean pairwise identity 97.78
Shannon entropy 0.03833
G+C content 0.47302
Mean single sequence MFE -19.92
Consensus MFE -19.66
Energy contribution -19.82
Covariance contribution 0.16
Combinations/Pair 1.05
Mean z-score -1.50
Structure conservation index 0.99
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.892455
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12112115 63 + 22422827
AUCUAUGUAUCUGCCGGAUUGCCGGAUUUGCCAAAUGGCGGCAUGCAGAUGGAGUAUAGAGUA
.((((((((((((((((....)))...(((((....)))))...)))))))...))))))... ( -20.60, z-score =  -1.60, R)
>droSim1.chrX_random 3293569 63 + 5698898
AUCUAUGUAUCUGCCGGAUUGCCGGAUUUGCCAAAUGGCGGCAUGCAGAUGGAGUAUAGAGUA
.((((((((((((((((....)))...(((((....)))))...)))))))...))))))... ( -20.60, z-score =  -1.60, R)
>droSec1.super_45 130552 63 + 245362
AUCUAUGUAUCUGCCGGAUUGCCGGAUUUGCCAAAUGGCGGCAUGCAGAUGGAGUAUAGAGUA
.((((((((((((((((....)))...(((((....)))))...)))))))...))))))... ( -20.60, z-score =  -1.60, R)
>droYak2.chrX 20022090 63 - 21770863
AUCUACGUUUCUGCCGGAUUGCCGGAUUUGCCAAAUGGCGGCAUGCAGAUAGAGUAUAGAGUA
.((((..((((((((((....)))...(((((....)))))...)))))...))..))))... ( -16.90, z-score =  -0.64, R)
>droEre2.scaffold_4690 4019082 63 - 18748788
AUCUAUGUAUCUGCCGGAUUGCCGGAUUUGCCAAAUGGCGGCAUGCAGAUAGAGUAUAGAGUA
.((((((((((((((((....)))...(((((....)))))...)))))))...))))))... ( -20.90, z-score =  -2.07, R)
>consensus
AUCUAUGUAUCUGCCGGAUUGCCGGAUUUGCCAAAUGGCGGCAUGCAGAUGGAGUAUAGAGUA
.((((((((((((((((....)))...(((((....)))))...)))))))...))))))... (-19.66 = -19.82 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,112,115 – 12,112,178
Length 63
Sequences 5
Columns 63
Reading direction reverse
Mean pairwise identity 97.78
Shannon entropy 0.03833
G+C content 0.47302
Mean single sequence MFE -17.94
Consensus MFE -17.78
Energy contribution -17.82
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -2.73
Structure conservation index 0.99
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.63
SVM RNA-class probability 0.993686
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12112115 63 - 22422827
UACUCUAUACUCCAUCUGCAUGCCGCCAUUUGGCAAAUCCGGCAAUCCGGCAGAUACAUAGAU
...(((((.....((((((.(((((.....)))))....(((....)))))))))..))))). ( -17.80, z-score =  -2.68, R)
>droSim1.chrX_random 3293569 63 - 5698898
UACUCUAUACUCCAUCUGCAUGCCGCCAUUUGGCAAAUCCGGCAAUCCGGCAGAUACAUAGAU
...(((((.....((((((.(((((.....)))))....(((....)))))))))..))))). ( -17.80, z-score =  -2.68, R)
>droSec1.super_45 130552 63 - 245362
UACUCUAUACUCCAUCUGCAUGCCGCCAUUUGGCAAAUCCGGCAAUCCGGCAGAUACAUAGAU
...(((((.....((((((.(((((.....)))))....(((....)))))))))..))))). ( -17.80, z-score =  -2.68, R)
>droYak2.chrX 20022090 63 + 21770863
UACUCUAUACUCUAUCUGCAUGCCGCCAUUUGGCAAAUCCGGCAAUCCGGCAGAAACGUAGAU
...(((((......(((((.(((((.....)))))....(((....))))))))...))))). ( -16.80, z-score =  -2.15, R)
>droEre2.scaffold_4690 4019082 63 + 18748788
UACUCUAUACUCUAUCUGCAUGCCGCCAUUUGGCAAAUCCGGCAAUCCGGCAGAUACAUAGAU
...(((((....(((((((.(((((.....)))))....(((....)))))))))).))))). ( -19.50, z-score =  -3.43, R)
>consensus
UACUCUAUACUCCAUCUGCAUGCCGCCAUUUGGCAAAUCCGGCAAUCCGGCAGAUACAUAGAU
...(((((.....((((((.(((((.....)))))....(((....)))))))))..))))). (-17.78 = -17.82 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:36:33 2011