Locus 8278

Sequence ID dm3.chr3L
Location 21,599,313 – 21,599,410
Length 97
Max. P 0.951594
window11376 window11377

overview

Window 6

Location 21,599,313 – 21,599,410
Length 97
Sequences 7
Columns 97
Reading direction forward
Mean pairwise identity 84.05
Shannon entropy 0.29610
G+C content 0.52165
Mean single sequence MFE -29.30
Consensus MFE -20.20
Energy contribution -21.39
Covariance contribution 1.19
Combinations/Pair 1.24
Mean z-score -2.32
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.45
SVM RNA-class probability 0.939031
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21599313 97 + 24543557
CCGUUGACGGUAUUGAGUGACGGCAAGAGCCGAGAAUAAGCCGCGAAUAUCCAAAGACGGAUGAGCAGACAGCCGCGUAUUAGCGGCAGCCAAAUAU
........(((.....((..((((....))))..........((...(((((......))))).))..)).(((((......))))).)))...... ( -28.60, z-score =  -2.30, R)
>droPer1.super_96 185493 91 - 202244
ACUUUGACGGUAUUGAGUGACGGCAACCGUCGAGAAUAAGC-GAGUAUAAGCGG-GACGG--GACCCGAUGGAUGAGCAU--GCGGCUACCAAAAAU
........(((((((.(((.(..((.(((((........((-........))((-(....--..)))))))).)).))))--.))).))))...... ( -23.00, z-score =  -0.53, R)
>dp4.chrXR_group8 451250 91 + 9212921
ACUUUGACGGUAUUGAGUGACGGCAACCGUCGAGAAUAAGC-GAGUAUAAGCGG-GACGG--GACCCGAUGGAUGAGCAU--GCGGCUACCAAAAAU
........(((((((.(((.(..((.(((((........((-........))((-(....--..)))))))).)).))))--.))).))))...... ( -23.00, z-score =  -0.53, R)
>droEre2.scaffold_4784 21254380 97 + 25762168
AUGUUGACGGUAUUGAGUGACGGCAAGAGCCGAGAAUAAGCCGCGAGUAUCCGAAGACGGAUGAGCAGACAGCCGCGUAUUAGCGGCUACCAAACAU
(((((...(((.....((..((((....))))..........((...((((((....)))))).))..))((((((......))))))))).))))) ( -33.30, z-score =  -3.60, R)
>droYak2.chr3L 5285088 97 - 24197627
CUGUUGACGGUAUUGAGUGACGGCAAGAGCCGAGAAUAAGCCGCGAAUAUCCGAAGACGGAUGAGCAGUCAGCCGCGUAUUAGCGGCUACUAAAUAU
.....((((((.(((..(..((((....)))).)..))))))((...((((((....)))))).)).)))((((((......))))))......... ( -32.50, z-score =  -2.79, R)
>droSec1.super_11 1519571 97 + 2888827
CCGUUGACGGUAUUGAGUGACGGCAAGAGCCGAAAUUAAGCCGCGAGUAUCCGAAGACGGAUGAGCAGAGAGCCGCGUAUUAGCGGCUACCAAAUAU
.....(.((((.((((....((((....))))...)))))))))(..((((((....))))))..).(..((((((......))))))..)...... ( -32.90, z-score =  -3.44, R)
>droSim1.chr3L 20936163 97 + 22553184
CCGUUGACGGUAUUGAGUGACGGCAAGAGCCGAGAAUAAGCCGCGAGUAUCCGAAGACGGAUGAGCAGACAGCCGCGUAUUAGCGGCUACCAAAUAU
........(((.....((..((((....))))..........((...((((((....)))))).))..))((((((......)))))))))...... ( -31.80, z-score =  -3.03, R)
>consensus
CCGUUGACGGUAUUGAGUGACGGCAAGAGCCGAGAAUAAGCCGCGAAUAUCCGAAGACGGAUGAGCAGACAGCCGCGUAUUAGCGGCUACCAAAUAU
........(((.........((((....))))..........((...((((((....)))))).))....((((((......)))))))))...... (-20.20 = -21.39 +   1.19)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,599,313 – 21,599,410
Length 97
Sequences 7
Columns 97
Reading direction reverse
Mean pairwise identity 84.05
Shannon entropy 0.29610
G+C content 0.52165
Mean single sequence MFE -27.40
Consensus MFE -17.73
Energy contribution -19.14
Covariance contribution 1.41
Combinations/Pair 1.14
Mean z-score -2.53
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.57
SVM RNA-class probability 0.951594
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21599313 97 - 24543557
AUAUUUGGCUGCCGCUAAUACGCGGCUGUCUGCUCAUCCGUCUUUGGAUAUUCGCGGCUUAUUCUCGGCUCUUGCCGUCACUCAAUACCGUCAACGG
.....((((.(((((......((((....))))..(((((....)))))....)))))........(((....))))))).......(((....))) ( -28.90, z-score =  -2.48, R)
>droPer1.super_96 185493 91 + 202244
AUUUUUGGUAGCCGC--AUGCUCAUCCAUCGGGUC--CCGUC-CCGCUUAUACUC-GCUUAUUCUCGACGGUUGCCGUCACUCAAUACCGUCAAAGU
......(((((((((--.............(((..--....)-))((........-))........).))))))))..................... ( -19.70, z-score =  -0.85, R)
>dp4.chrXR_group8 451250 91 - 9212921
AUUUUUGGUAGCCGC--AUGCUCAUCCAUCGGGUC--CCGUC-CCGCUUAUACUC-GCUUAUUCUCGACGGUUGCCGUCACUCAAUACCGUCAAAGU
......(((((((((--.............(((..--....)-))((........-))........).))))))))..................... ( -19.70, z-score =  -0.85, R)
>droEre2.scaffold_4784 21254380 97 - 25762168
AUGUUUGGUAGCCGCUAAUACGCGGCUGUCUGCUCAUCCGUCUUCGGAUACUCGCGGCUUAUUCUCGGCUCUUGCCGUCACUCAAUACCGUCAACAU
(((((((((((((((......((((....))))..(((((....)))))....))))).......((((....))))........)))))..))))) ( -32.10, z-score =  -3.64, R)
>droYak2.chr3L 5285088 97 + 24197627
AUAUUUAGUAGCCGCUAAUACGCGGCUGACUGCUCAUCCGUCUUCGGAUAUUCGCGGCUUAUUCUCGGCUCUUGCCGUCACUCAAUACCGUCAACAG
.....((((((((((......)))))).))))...(((((....)))))....((((........((((....))))..........))))...... ( -29.37, z-score =  -3.06, R)
>droSec1.super_11 1519571 97 - 2888827
AUAUUUGGUAGCCGCUAAUACGCGGCUCUCUGCUCAUCCGUCUUCGGAUACUCGCGGCUUAAUUUCGGCUCUUGCCGUCACUCAAUACCGUCAACGG
.((((.(((((((((......((((....))))..(((((....)))))....))))))......((((....))))..))).))))(((....))) ( -31.00, z-score =  -3.64, R)
>droSim1.chr3L 20936163 97 - 22553184
AUAUUUGGUAGCCGCUAAUACGCGGCUGUCUGCUCAUCCGUCUUCGGAUACUCGCGGCUUAUUCUCGGCUCUUGCCGUCACUCAAUACCGUCAACGG
.((((.(((((((((......((((....))))..(((((....)))))....))))))......((((....))))..))).))))(((....))) ( -31.00, z-score =  -3.15, R)
>consensus
AUAUUUGGUAGCCGCUAAUACGCGGCUGUCUGCUCAUCCGUCUUCGGAUAUUCGCGGCUUAUUCUCGGCUCUUGCCGUCACUCAAUACCGUCAACGG
.....((((((((((........(((.....))).(((((....)))))....))))).......((((....))))........)))))....... (-17.73 = -19.14 +   1.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:42:40 2011