Locus 4431

Sequence ID dm3.chr2R
Location 13,021,455 – 13,021,589
Length 134
Max. P 0.688990
window6067 window6068

overview

Window 7

Location 13,021,455 – 13,021,561
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 80.75
Shannon entropy 0.37789
G+C content 0.47312
Mean single sequence MFE -31.48
Consensus MFE -22.33
Energy contribution -23.55
Covariance contribution 1.22
Combinations/Pair 1.44
Mean z-score -1.31
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.688990
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 13021455 106 - 21146708
AAGUCGGGGUCCGAGAGGCAUUAGCUUGUUAGUUCUACAACCUGCUGGCAAAUGUGCCAAUAUGUUUGCACGCUGAUAAGGCCUACAUGGCACCGAAUUGAAAACC
...((((.(((....((((((((((((((((((..........))))))))..((((.((....)).))))))))))...))))....))).)))).......... ( -31.70, z-score =  -1.01, R)
>droEre2.scaffold_4845 9768116 105 + 22589142
AAGUCGGGGUCCGAGAGGCAUUAGCUUGUCAGUUGUACAACCUGUUGGCAAAUGUGCGGGUAUAUUUGCACGCUGAUAAGG-CUACAUGGCACCCAAUUGGAAGCC
.....((..(((((..(((((((((((((((((.((.(((....)))(((((((((....))))))))))))))))))).)-))).)))....))..)))))..)) ( -34.00, z-score =  -0.80, R)
>droYak2.chr2R 2696385 106 + 21139217
AAGUCGGGGUCCGAGAGGCAUUAGCUUAUUAGUUCUACAACCUACUGGCAAAUGUGCGAGUAUACAUGCACGCUGAUAAGGUCUACAUGGCACCCAAUUGGAAAGC
......(((((((.(((((.....(((((((((.........((((.(((....))).)))).........))))))))))))).).))).))))........... ( -27.97, z-score =  -0.33, R)
>droSec1.super_1 10537093 106 - 14215200
AAGUCGGGGUCCGAGAGGCAUUAGCUUGUUAGUUCUACAACCUGCUGGCAAAUGUGCGAAUAUGUUUGCACGCUGAUAAGGCCUACAUGGCACCCAAUUGGAAACC
......(((((((.(((((((((((((((((((..........))))))))..(((((((....)))))))))))))...)))).).))).))))....(....). ( -37.10, z-score =  -2.31, R)
>droSim1.chr2R 11760203 106 - 19596830
AAGUCGGGGUCCGAGAGGCAUUAGCUUGUUAGUUCUACAACCUGCUGGCAAAUGUGCGAAUAUGUUUGCACGCUGAUAAGGCCUACAUGGCACCCAAUUGGAAACC
......(((((((.(((((((((((((((((((..........))))))))..(((((((....)))))))))))))...)))).).))).))))....(....). ( -37.10, z-score =  -2.31, R)
>droAna3.scaffold_13266 6304362 95 + 19884421
UAGCCGGAAAAAGAGACUUGUUGGCUUGUUAGUU---CGAGCUUCCGUCGAGAAUG----UUUGUUU---UGCCGAUAAGACGAACA-GGAAAAUAAAUAAAAACC
...((.........(((..(..((((((......---))))))..)))).....((----(((((((---((....)))))))))))-))................ ( -21.00, z-score =  -1.08, R)
>consensus
AAGUCGGGGUCCGAGAGGCAUUAGCUUGUUAGUUCUACAACCUGCUGGCAAAUGUGCGAAUAUGUUUGCACGCUGAUAAGGCCUACAUGGCACCCAAUUGGAAACC
......(((((((..((((((((((((((((((..........))))))))..(((((((....)))))))))))))...))))...))).))))........... (-22.33 = -23.55 +   1.22)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 13,021,493 – 13,021,589
Length 96
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 77.89
Shannon entropy 0.40803
G+C content 0.47068
Mean single sequence MFE -28.65
Consensus MFE -19.33
Energy contribution -19.87
Covariance contribution 0.53
Combinations/Pair 1.33
Mean z-score -1.26
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.35
SVM RNA-class probability 0.656327
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 13021493 96 - 21146708
UCAGUUUCGGAUCCACUUCG------------AGAGGCAGAAGUCGGGGUCCGAGAGGCAUUAGCUUGUUAGUUCUACAACCUGCUGGCAAAUGUGCCAAUAUGUUUG
....(((((((((((((((.------------.......)))))..))))))))))(((((....((((((((..........))))))))..))))).......... ( -34.30, z-score =  -2.79, R)
>droEre2.scaffold_4845 9768153 96 + 22589142
UCAGUUUGGGAUCCACUUCG------------AGAGGCAGAAGUCGGGGUCCGAGAGGCAUUAGCUUGUCAGUUGUACAACCUGUUGGCAAAUGUGCGGGUAUAUUUG
.(((.((((((((((((((.------------.......)))))..))))))((.((((....)))).)).......))).)))....((((((((....)))))))) ( -29.80, z-score =  -1.36, R)
>droYak2.chr2R 2696423 101 + 21139217
UCAGUUUCGGAUCCACUUCGUGA-------GAAGAAGCAGAAGUCGGGGUCCGAGAGGCAUUAGCUUAUUAGUUCUACAACCUACUGGCAAAUGUGCGAGUAUACAUG
....((((((((((.((((....-------)))).....(....).))))))))))(((....)))................((((.(((....))).))))...... ( -29.50, z-score =  -1.68, R)
>droSec1.super_1 10537131 96 - 14215200
UCAGUUUCGGAUCCACUUCG------------AGAGGCAGAAGUCGGGGUCCGAGAGGCAUUAGCUUGUUAGUUCUACAACCUGCUGGCAAAUGUGCGAAUAUGUUUG
((..(((((((((((((((.------------.......)))))..)))))))))).((((....((((((((..........))))))))..))))))......... ( -30.90, z-score =  -1.66, R)
>droSim1.chr2R 11760241 96 - 19596830
UCAGUUUCGGAUCCACUUCG------------AGAGGCAGAAGUCGGGGUCCGAGAGGCAUUAGCUUGUUAGUUCUACAACCUGCUGGCAAAUGUGCGAAUAUGUUUG
((..(((((((((((((((.------------.......)))))..)))))))))).((((....((((((((..........))))))))..))))))......... ( -30.90, z-score =  -1.66, R)
>droAna3.scaffold_13266 6304397 100 + 19884421
UCAGUUUCAGAUUCAUUUAGAAAAUCAUUCAGAGAGACAGUAGCCGGAAAAAGAGACUUGUUGGCUUGUUAGUUCGAGCUUCCGUCGA-GAAUGUUUGUUU-------
....((((.((.....)).))))..(((((.....(((.(.(((((((....(((.((....))))).....)))).))).).)))..-))))).......------- ( -16.50, z-score =   1.59, R)
>consensus
UCAGUUUCGGAUCCACUUCG____________AGAGGCAGAAGUCGGGGUCCGAGAGGCAUUAGCUUGUUAGUUCUACAACCUGCUGGCAAAUGUGCGAAUAUGUUUG
....(((((((((((((((....................)))))..)))))))))).((((....((((((((..........))))))))..))))........... (-19.33 = -19.87 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:29:00 2011