Locus 8391

Sequence ID dm3.chr3L
Location 22,422,562 – 22,422,655
Length 93
Max. P 0.933351
window11530 window11531

overview

Window 0

Location 22,422,562 – 22,422,655
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 79.49
Shannon entropy 0.30400
G+C content 0.44907
Mean single sequence MFE -20.57
Consensus MFE -15.32
Energy contribution -15.88
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.07
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.38
SVM RNA-class probability 0.933351
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22422562 93 + 24543557
UAUUAGUGCAGUGCUAUUGAUCCACCGCAGCUCGGCGGCGGAGAACAAAUGGACAUAUUAUACAUACAUACGUACAUAUUUCUGUCCAUACAG
...((((.....))))(((.(((.((((......)))).)))...)))(((((((....(((..(((....)))..)))...))))))).... ( -23.60, z-score =  -1.81, R)
>droEre2.scaffold_4784 22093192 70 + 25762168
UACU-GUCCAGGUCUAUUGAUCCACCGCACUUCGUCGGCAGAGAACAAAUGGACAU----------------------UUUUUGACCGUACAG
(((.-(((...(((((((..((..((((.....).)))..)).....)))))))..----------------------.....))).)))... ( -13.70, z-score =  -0.25, R)
>droSec1.super_11 2359358 76 + 2888827
UAUUAGUUCAGUGCUAUUGAUCCACCGCAGCUCGGCGGCGGAGAACAAAUGGACAUA-----------------CAUAUUUUUGUCCAUACAG
.....((((....(....).(((.((((......)))).)))))))..(((((((..-----------------........))))))).... ( -22.50, z-score =  -3.11, R)
>droSim1.chr3L 21731413 76 + 22553184
UAUUAGUUCAGUGCUAUUGAUCCACCGCAGCUCGGCGGCGGAGAACAAAUGGACAUA-----------------CAUAUUUUUGUCCAUACAG
.....((((....(....).(((.((((......)))).)))))))..(((((((..-----------------........))))))).... ( -22.50, z-score =  -3.11, R)
>consensus
UAUUAGUUCAGUGCUAUUGAUCCACCGCAGCUCGGCGGCGGAGAACAAAUGGACAUA_________________CAUAUUUUUGUCCAUACAG
................(((.(((.((((......)))).)))...)))(((((((...........................))))))).... (-15.32 = -15.88 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 22,422,562 – 22,422,655
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 79.49
Shannon entropy 0.30400
G+C content 0.44907
Mean single sequence MFE -23.15
Consensus MFE -16.92
Energy contribution -17.48
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -2.08
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.34
SVM RNA-class probability 0.928206
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22422562 93 - 24543557
CUGUAUGGACAGAAAUAUGUACGUAUGUAUGUAUAAUAUGUCCAUUUGUUCUCCGCCGCCGAGCUGCGGUGGAUCAAUAGCACUGCACUAAUA
.((((((((((...((((((((....))))))))....)))))).(((((.((((((((......))))))))..)))))...))))...... ( -29.50, z-score =  -2.38, R)
>droEre2.scaffold_4784 22093192 70 - 25762168
CUGUACGGUCAAAAA----------------------AUGUCCAUUUGUUCUCUGCCGACGAAGUGCGGUGGAUCAAUAGACCUGGAC-AGUA
...............----------------------.((((((((((((.((..(((........)))..))..))))))..)))))-)... ( -18.90, z-score =  -1.18, R)
>droSec1.super_11 2359358 76 - 2888827
CUGUAUGGACAAAAAUAUG-----------------UAUGUCCAUUUGUUCUCCGCCGCCGAGCUGCGGUGGAUCAAUAGCACUGAACUAAUA
.((((((((((........-----------------..)))))))(((...((((((((......)))))))).)))..)))........... ( -22.10, z-score =  -2.38, R)
>droSim1.chr3L 21731413 76 - 22553184
CUGUAUGGACAAAAAUAUG-----------------UAUGUCCAUUUGUUCUCCGCCGCCGAGCUGCGGUGGAUCAAUAGCACUGAACUAAUA
.((((((((((........-----------------..)))))))(((...((((((((......)))))))).)))..)))........... ( -22.10, z-score =  -2.38, R)
>consensus
CUGUAUGGACAAAAAUAUG_________________UAUGUCCAUUUGUUCUCCGCCGCCGAGCUGCGGUGGAUCAAUAGCACUGAACUAAUA
(((((((((((...........................)))))))......((((((((......))))))))...))))............. (-16.92 = -17.48 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:44:49 2011