Locus 12521

Sequence ID dm3.chrX
Location 697,025 – 697,140
Length 115
Max. P 0.844496
window17219 window17220

overview

Window 9

Location 697,025 – 697,140
Length 115
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 70.61
Shannon entropy 0.46652
G+C content 0.58907
Mean single sequence MFE -41.92
Consensus MFE -26.83
Energy contribution -25.96
Covariance contribution -0.87
Combinations/Pair 1.41
Mean z-score -1.34
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.89
SVM RNA-class probability 0.844496
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 697025 115 + 22422827
CGGAGAGCAAGGCAGUCAAUGAUGCUAUGACUCUGCCAAGUGACCUCCAGGUCGGCGGGGAUUGGUGUUCCCUCUGACGCCAAGCAGCCCUGACUCGUCAUUACUUGUUUCUGGC
((((((.(((((((((((....((((....(((((((....((((....)))))))))))..(((((((......)))))))))))....))))).)).....)))))))))).. ( -42.30, z-score =  -1.10, R)
>droSec1.super_10 547595 97 + 3036183
CGGAGAUCAAGGCAGUCAAUGCUGCUAUGAUUCUGCCAGGCGACCUCCAUGUCGGCGGGGAUGGGUUUCCCUUCUGACGCUGAGCAGACCUU-CUGGC-----------------
(((((((((.((((((....)))))).))))(((((..((((.....)..(((((.(((((......))))).))))))))..)))))..))-)))..----------------- ( -39.70, z-score =  -1.62, R)
>droSim1.chrX 570236 97 + 17042790
CGGAGAUCAAGGCAGUCAAUGCUGCUAUGACUCUGCCAGGCGACCUCCAGGUCAGCGGGGAUGGGUUUCCCUUCUGACGCUGAGCAGACCUU-CUGGC-----------------
.((((.(((.((((((....)))))).)))))))((((((.(..(((((((((((.(((((......))))).))))).))).).))..).)-)))))----------------- ( -43.70, z-score =  -2.42, R)
>droEre2.scaffold_4644 666830 109 + 2521924
CGGGGAUCACGGCAGCCGGUGAGGCUAGGACUUUGCCAGAUGACCUCCAGCUUAGCCGGGAUUGGUUUCUCGUCUGGCGCUUGGUAGUCCCAACUUAGGCGUUCCUGGG------
..(((((.(((((((((.....))))........(((((((((...((((((......)).))))....))))))))))))..)).)))))..((((((....))))))------ ( -42.00, z-score =  -0.23, R)
>consensus
CGGAGAUCAAGGCAGUCAAUGAUGCUAUGACUCUGCCAGGCGACCUCCAGGUCAGCGGGGAUGGGUUUCCCUUCUGACGCUGAGCAGACCUU_CUGGC_________________
.((((.(((.(((((.................)))))...))).))))..(((((.(((((......))))).)))))..................................... (-26.83 = -25.96 +  -0.87)

alignment

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secondary structure

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dotplot

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Window 0

Location 697,025 – 697,140
Length 115
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 70.61
Shannon entropy 0.46652
G+C content 0.58907
Mean single sequence MFE -36.52
Consensus MFE -22.06
Energy contribution -23.50
Covariance contribution 1.44
Combinations/Pair 1.17
Mean z-score -1.22
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.38
SVM RNA-class probability 0.669012
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 697025 115 - 22422827
GCCAGAAACAAGUAAUGACGAGUCAGGGCUGCUUGGCGUCAGAGGGAACACCAAUCCCCGCCGACCUGGAGGUCACUUGGCAGAGUCAUAGCAUCAUUGACUGCCUUGCUCUCCG
...................(((.((((((((((.((((.....((((.......))))))))((((....))))....)))).(((((.........)))))))))))))).... ( -37.20, z-score =  -0.43, R)
>droSec1.super_10 547595 97 - 3036183
-----------------GCCAG-AAGGUCUGCUCAGCGUCAGAAGGGAAACCCAUCCCCGCCGACAUGGAGGUCGCCUGGCAGAAUCAUAGCAGCAUUGACUGCCUUGAUCUCCG
-----------------(((((-..(..((.(.((..(((.(..((((......))))..).))).)))))..)..)))))(((.(((..((((......))))..))))))... ( -33.00, z-score =  -1.04, R)
>droSim1.chrX 570236 97 - 17042790
-----------------GCCAG-AAGGUCUGCUCAGCGUCAGAAGGGAAACCCAUCCCCGCUGACCUGGAGGUCGCCUGGCAGAGUCAUAGCAGCAUUGACUGCCUUGAUCUCCG
-----------------(((((-..(..((.(.(((.(((((..((((......))))..)))))))))))..)..))))).((((((..((((......))))..))).))).. ( -42.80, z-score =  -3.27, R)
>droEre2.scaffold_4644 666830 109 - 2521924
------CCCAGGAACGCCUAAGUUGGGACUACCAAGCGCCAGACGAGAAACCAAUCCCGGCUAAGCUGGAGGUCAUCUGGCAAAGUCCUAGCCUCACCGGCUGCCGUGAUCCCCG
------....(((.(((.....((((.....))))((((((((.((....((....(((((...))))).)))).))))))........((((.....)))))).))).)))... ( -33.10, z-score =  -0.14, R)
>consensus
_________________GCCAG_AAGGUCUGCUCAGCGUCAGAAGGGAAACCAAUCCCCGCCGACCUGGAGGUCACCUGGCAGAGUCAUAGCAGCAUUGACUGCCUUGAUCUCCG
................................((((((......((....))......))))))...((((((((...((((..((((.........)))))))).)))))))). (-22.06 = -23.50 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:03:53 2011