Locus 15824

Sequence ID dm3.chrX
Location 21,318,061 – 21,318,168
Length 107
Max. P 0.966198
window21805 window21806

overview

Window 5

Location 21,318,061 – 21,318,168
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 88.35
Shannon entropy 0.20079
G+C content 0.41650
Mean single sequence MFE -27.12
Consensus MFE -20.29
Energy contribution -22.37
Covariance contribution 2.08
Combinations/Pair 1.08
Mean z-score -1.91
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.661213
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21318061 107 + 22422827
CCCGUUUUGCGGCCACUUCUUAGCCGCAAAUCUCUUUAAUUGAGUCCCUAGGGUUGUGAGGUAUUUUUAAUUGAACGUAAGUUCAGAUUUCUAAAUCUCGUAGAGGG
(((..((((((((.........)))))))).(((.......)))......)))(((((((((........((((((....))))))........))))))))).... ( -29.09, z-score =  -1.92, R)
>droSim1.chrX 16471013 105 + 17042790
CCCGUUUUGCGGCCACUUCUUAGCCGCAAAUCUCCUUAAUUUAGUCUCUUGGGUUGUGAGGUAUUUUUAAUUGAACGUAAGUUCAGAUUUCUAAAUCUCGUAGAG--
((((.((((((((.........)))))))).)..((......))......)))(((((((((........((((((....))))))........)))))))))..-- ( -26.19, z-score =  -2.43, R)
>droSec1.super_8 3637203 105 + 3762037
CCCGUUUUGCGGCCACUUCUUAGCCGCAAAUCUCCUUAAUUUAGUCUCUUGGGUUGAGAGGUAUUUUUAAUUGAACGUAAGUUCAGAUUUCUAAAUCUCGUAGAG--
.....(((((((..(((((((((((.(((.....((......))....))))))))))))))........((((((....))))))...........))))))).-- ( -27.70, z-score =  -2.59, R)
>droYak2.chrX 20497006 97 + 21770863
CCCGUUUUGCGGCCACUUCUAAGCCGCAAAUCUCUUUAAUUGAGUCCCUUGGGUUGUAAGGUCUUUUUAAUUGAACAUAAGCUCGGAUUUCGAAAUC----------
.(((.((((((((.........))))))))....((((((((((..(((((.....)))))....))))))))))........)))...........---------- ( -22.60, z-score =  -1.06, R)
>droEre2.scaffold_4690 17845852 107 + 18748788
CCCGGUUUGCGGCCACUUCUUAGCUGCAAAUCUCUUUAAUUGAGUCCCUUGGGUUGUAAGGUCUUUUUAAUUGAACACAAGUUCAGGUUUCUGAAUCUCGUAGAGGG
(((((((((((((.........))))))))))..((((((((((..(((((.....)))))....)))))))))).((.(((((((....))))).)).))...))) ( -30.00, z-score =  -1.56, R)
>consensus
CCCGUUUUGCGGCCACUUCUUAGCCGCAAAUCUCUUUAAUUGAGUCCCUUGGGUUGUGAGGUAUUUUUAAUUGAACGUAAGUUCAGAUUUCUAAAUCUCGUAGAG__
(((..((((((((.........)))))))).(((.......)))......)))....(((((........((((((....))))))........)))))........ (-20.29 = -22.37 +   2.08)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,318,061 – 21,318,168
Length 107
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 88.35
Shannon entropy 0.20079
G+C content 0.41650
Mean single sequence MFE -26.94
Consensus MFE -20.58
Energy contribution -21.62
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -2.68
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.76
SVM RNA-class probability 0.966198
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21318061 107 - 22422827
CCCUCUACGAGAUUUAGAAAUCUGAACUUACGUUCAAUUAAAAAUACCUCACAACCCUAGGGACUCAAUUAAAGAGAUUUGCGGCUAAGAAGUGGCCGCAAAACGGG
(((.....(((...........(((((....)))))..................((....)).))).........(.((((((((((.....)))))))))).)))) ( -28.00, z-score =  -2.78, R)
>droSim1.chrX 16471013 105 - 17042790
--CUCUACGAGAUUUAGAAAUCUGAACUUACGUUCAAUUAAAAAUACCUCACAACCCAAGAGACUAAAUUAAGGAGAUUUGCGGCUAAGAAGUGGCCGCAAAACGGG
--((((....(((((((.....(((((....)))))...........(((.........))).)))))))..)))).((((((((((.....))))))))))..... ( -27.50, z-score =  -3.50, R)
>droSec1.super_8 3637203 105 - 3762037
--CUCUACGAGAUUUAGAAAUCUGAACUUACGUUCAAUUAAAAAUACCUCUCAACCCAAGAGACUAAAUUAAGGAGAUUUGCGGCUAAGAAGUGGCCGCAAAACGGG
--((((....(((((((.....(((((....)))))............((((.......)))))))))))..)))).((((((((((.....))))))))))..... ( -29.10, z-score =  -3.62, R)
>droYak2.chrX 20497006 97 - 21770863
----------GAUUUCGAAAUCCGAGCUUAUGUUCAAUUAAAAAGACCUUACAACCCAAGGGACUCAAUUAAAGAGAUUUGCGGCUUAGAAGUGGCCGCAAAACGGG
----------.............((((....))))...................(((......(((.......))).(((((((((.......)))))))))..))) ( -24.10, z-score =  -1.72, R)
>droEre2.scaffold_4690 17845852 107 - 18748788
CCCUCUACGAGAUUCAGAAACCUGAACUUGUGUUCAAUUAAAAAGACCUUACAACCCAAGGGACUCAAUUAAAGAGAUUUGCAGCUAAGAAGUGGCCGCAAACCGGG
(((..((((((.(((((....)))))))))))...........................((..(((.......))).(((((.((((.....)))).)))))))))) ( -26.00, z-score =  -1.80, R)
>consensus
__CUCUACGAGAUUUAGAAAUCUGAACUUACGUUCAAUUAAAAAUACCUCACAACCCAAGGGACUCAAUUAAAGAGAUUUGCGGCUAAGAAGUGGCCGCAAAACGGG
.........(((((....)))))((((....))))...................(((......(((.......))).((((((((((.....))))))))))..))) (-20.58 = -21.62 +   1.04)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:06:34 2011