Locus 10626

Sequence ID dm3.chr3R
Location 15,152,742 – 15,152,834
Length 92
Max. P 0.973083
window14613 window14614

overview

Window 3

Location 15,152,742 – 15,152,834
Length 92
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 76.90
Shannon entropy 0.36742
G+C content 0.39943
Mean single sequence MFE -23.71
Consensus MFE -18.41
Energy contribution -18.23
Covariance contribution -0.19
Combinations/Pair 1.32
Mean z-score -1.98
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.88
SVM RNA-class probability 0.973083
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15152742 92 + 27905053
ACUUCUG-CUGAAGACGUUUUCAGAGAC--GGAAAAUGCAUCAUCAUA-UGAAUUUUUUUGGCUCUGAUAACUUCUCCAGGA-CUGUCGCUCUUAUG
.......-(((.(((.(((.((((((.(--((((((..(((......)-))...))))))).)))))).))).))).)))..-.............. ( -22.80, z-score =  -1.88, R)
>droSim1.chr3R 21188117 92 - 27517382
ACUUCUG-UUGAAGAAGUUUUCAGAGAC--UGAAAAUGCAUCAUCAUA-UGAAUUUUUUUGGCUCUGAAAACUUCUCCAGGU-CUGCCGCUCCUAUG
.......-.((.((((((((((((((.(--..((((....((((...)-)))...))))..))))))))))))))).))((.-...))......... ( -28.60, z-score =  -3.92, R)
>droSec1.super_25 212311 92 - 827797
ACUUCUG-CUGAAGAAAUUUUCAGAGAC--UGAAAAUGCAUCAUCAUA-UGAAUUUUGUUGGCUCUGAAAACUUCUCCAGGU-CUGCCGCUCCUAUG
......(-(((.((((.(((((((((.(--..(.......((((...)-)))......)..)))))))))).)))).))((.-...))))....... ( -21.12, z-score =  -1.59, R)
>droEre2.scaffold_4784 21223725 97 + 25762168
ACACCUGACAGAGAAAGAUUUCCGAGCCAAUGGAAAUGCAUUUGCAAAAUGAAUUUCAAGGGUCCAGACAUUUUUUUCUGCUUCUGCUGCUCUUCUU
........(((((((((((.((.(..((....(((((.((((.....)))).)))))...))..).)).)))))))))))................. ( -22.30, z-score =  -0.54, R)
>consensus
ACUUCUG_CUGAAGAAGUUUUCAGAGAC__UGAAAAUGCAUCAUCAUA_UGAAUUUUUUUGGCUCUGAAAACUUCUCCAGGU_CUGCCGCUCCUAUG
........(((.((((((((((((((.....((((((.((.........)).))))))....)))))))))))))).)))................. (-18.41 = -18.23 +  -0.19)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 15,152,742 – 15,152,834
Length 92
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 76.90
Shannon entropy 0.36742
G+C content 0.39943
Mean single sequence MFE -23.70
Consensus MFE -20.70
Energy contribution -20.07
Covariance contribution -0.63
Combinations/Pair 1.31
Mean z-score -1.50
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.51
SVM RNA-class probability 0.945270
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15152742 92 - 27905053
CAUAAGAGCGACAG-UCCUGGAGAAGUUAUCAGAGCCAAAAAAAUUCA-UAUGAUGAUGCAUUUUCC--GUCUCUGAAAACGUCUUCAG-CAGAAGU
..............-..(((((((.(((.((((((.(...(((((.((-(......))).)))))..--).)))))).))).)))))))-....... ( -21.30, z-score =  -1.57, R)
>droSim1.chr3R 21188117 92 + 27517382
CAUAGGAGCGGCAG-ACCUGGAGAAGUUUUCAGAGCCAAAAAAAUUCA-UAUGAUGAUGCAUUUUCA--GUCUCUGAAAACUUCUUCAA-CAGAAGU
.........((...-.))(((((((((((((((((.(...(((((.((-(......))).)))))..--).))))))))))))))))).-....... ( -26.80, z-score =  -2.73, R)
>droSec1.super_25 212311 92 + 827797
CAUAGGAGCGGCAG-ACCUGGAGAAGUUUUCAGAGCCAACAAAAUUCA-UAUGAUGAUGCAUUUUCA--GUCUCUGAAAAUUUCUUCAG-CAGAAGU
.......((((...-.))(((((((((((((((((.(...(((((.((-(......))).)))))..--).))))))))))))))))))-)...... ( -27.10, z-score =  -2.61, R)
>droEre2.scaffold_4784 21223725 97 - 25762168
AAGAAGAGCAGCAGAAGCAGAAAAAAAUGUCUGGACCCUUGAAAUUCAUUUUGCAAAUGCAUUUCCAUUGGCUCGGAAAUCUUUCUCUGUCAGGUGU
.......(((.(....(((((.(((.((.((((..((..((((((.((((.....)))).)))).))..))..)))).)).))).)))))..).))) ( -19.60, z-score =   0.90, R)
>consensus
CAUAAGAGCGGCAG_ACCUGGAGAAGUUUUCAGAGCCAAAAAAAUUCA_UAUGAUGAUGCAUUUUCA__GUCUCUGAAAACUUCUUCAG_CAGAAGU
.................((((((((((((((((((.(...(((((.((.........)).)))))....).))))))))))))))))))........ (-20.70 = -20.07 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:32 2011