Locus 5433

Sequence ID dm3.chr2R
Location 20,269,653 – 20,269,746
Length 93
Max. P 0.814781
window7454 window7455

overview

Window 4

Location 20,269,653 – 20,269,746
Length 93
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 91.23
Shannon entropy 0.15088
G+C content 0.38568
Mean single sequence MFE -22.74
Consensus MFE -17.02
Energy contribution -17.02
Covariance contribution -0.00
Combinations/Pair 1.15
Mean z-score -2.34
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.78
SVM RNA-class probability 0.814781
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20269653 93 + 21146708
UGCCAAUGGCACACAUAAAUUGAAACAAGUCCAGCGGUCAAAGAGAUACGUAUCUUUUGAAAAUGC-------AAUUCUGGCAUUUGUUUCAUUUAUAGC
((((...))))...((((((.(((((((((((((((.((((.(((((....)))))))))...)))-------.....))).)))))))))))))))... ( -25.00, z-score =  -2.89, R)
>droYak2.chr2R 20230680 98 + 21139217
GGCCAAUGGCACACAUAAAUUGAAACAAGUUCGGCGGUCAAAGAGAUACGUAUCUUU--AAAAUGCUUUUCUGGUUUCUGGCACUCGUUUCAAUUAUAGC
.(((...))).......(((((((((.(((((((.(..(((((((.....((....)--).....))))).))..).)))).))).)))))))))..... ( -21.20, z-score =  -1.21, R)
>droEre2.scaffold_4845 21627899 91 + 22589142
UGCCAAUGGCACACAUAAAUUGAAACCAGUGCAGUGGUCAAAGAGAUACGUAUCUUU--AAAAUGC-------AAUUCUGGCACUCGUUUCAAUUAUAGC
((((...))))......(((((((((.(((((((..((...((((((....))))))--.....))-------....)).))))).)))))))))..... ( -23.10, z-score =  -2.25, R)
>droSec1.super_23 140177 91 + 989336
UGCCAAUGGCACACAUAAAUUGAAACAAGUCCAGCGGUCAACGAGAUACGUAUCUUU--AAAAUGC-------AAUUCUGGCACUCGUUUCAAUUAUAGC
((((...))))......(((((((((.(((((((..((....(((((....))))).--.....))-------....)))).))).)))))))))..... ( -21.80, z-score =  -2.45, R)
>droSim1.chr2R 18720920 91 + 19596830
UGCCAAUGGCACACAUAAAUUGAAACAAGUCCAGCGGUCAAAGAGAUACGUAUCUUU--AAAAUGC-------AAUUCUGGCACUCGUUUCAAUUAUAGC
((((...))))......(((((((((.(((((((..((...((((((....))))))--.....))-------....)))).))).)))))))))..... ( -22.60, z-score =  -2.88, R)
>consensus
UGCCAAUGGCACACAUAAAUUGAAACAAGUCCAGCGGUCAAAGAGAUACGUAUCUUU__AAAAUGC_______AAUUCUGGCACUCGUUUCAAUUAUAGC
.(((...))).......(((((((((.(((((((((.....((((((....))))))......)))............))).))).)))))))))..... (-17.02 = -17.02 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 20,269,653 – 20,269,746
Length 93
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 91.23
Shannon entropy 0.15088
G+C content 0.38568
Mean single sequence MFE -23.85
Consensus MFE -17.15
Energy contribution -18.43
Covariance contribution 1.28
Combinations/Pair 1.04
Mean z-score -2.28
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.690109
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20269653 93 - 21146708
GCUAUAAAUGAAACAAAUGCCAGAAUU-------GCAUUUUCAAAAGAUACGUAUCUCUUUGACCGCUGGACUUGUUUCAAUUUAUGUGUGCCAUUGGCA
((((((((((((((((...((((....-------......(((((((((....)))).)))))...))))..))))))).))))))).))(((...))). ( -21.82, z-score =  -1.77, R)
>droYak2.chr2R 20230680 98 - 21139217
GCUAUAAUUGAAACGAGUGCCAGAAACCAGAAAAGCAUUUU--AAAGAUACGUAUCUCUUUGACCGCCGAACUUGUUUCAAUUUAUGUGUGCCAUUGGCC
((...(((((((((((((((..............))...((--(((((........))))))).......)))))))))))))...))..(((...))). ( -20.24, z-score =  -1.47, R)
>droEre2.scaffold_4845 21627899 91 - 22589142
GCUAUAAUUGAAACGAGUGCCAGAAUU-------GCAUUUU--AAAGAUACGUAUCUCUUUGACCACUGCACUGGUUUCAAUUUAUGUGUGCCAUUGGCA
((...(((((((((.(((((.((...(-------(....((--(((((........))))))).))))))))).)))))))))...)).((((...)))) ( -24.50, z-score =  -2.35, R)
>droSec1.super_23 140177 91 - 989336
GCUAUAAUUGAAACGAGUGCCAGAAUU-------GCAUUUU--AAAGAUACGUAUCUCGUUGACCGCUGGACUUGUUUCAAUUUAUGUGUGCCAUUGGCA
((...(((((((((((((.((((....-------.((....--..((((....))))...))....)))))))))))))))))...)).((((...)))) ( -26.00, z-score =  -2.57, R)
>droSim1.chr2R 18720920 91 - 19596830
GCUAUAAUUGAAACGAGUGCCAGAAUU-------GCAUUUU--AAAGAUACGUAUCUCUUUGACCGCUGGACUUGUUUCAAUUUAUGUGUGCCAUUGGCA
((...(((((((((((((.((((....-------.....((--(((((........)))))))...)))))))))))))))))...)).((((...)))) ( -26.70, z-score =  -3.25, R)
>consensus
GCUAUAAUUGAAACGAGUGCCAGAAUU_______GCAUUUU__AAAGAUACGUAUCUCUUUGACCGCUGGACUUGUUUCAAUUUAUGUGUGCCAUUGGCA
((...(((((((((((((.((((....................(((((........))))).....)))))))))))))))))...))..(((...))). (-17.15 = -18.43 +   1.28)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:48:14 2011