Locus 9293

Sequence ID dm3.chr3R
Location 5,695,903 – 5,696,001
Length 98
Max. P 0.990170
window12739 window12740

overview

Window 9

Location 5,695,903 – 5,696,001
Length 98
Sequences 7
Columns 112
Reading direction forward
Mean pairwise identity 78.33
Shannon entropy 0.40551
G+C content 0.43743
Mean single sequence MFE -22.07
Consensus MFE -11.41
Energy contribution -14.37
Covariance contribution 2.96
Combinations/Pair 1.10
Mean z-score -1.81
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.641156
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5695903 98 + 27905053
AAACAAUGAAAACUGUUGUCUGUUUUUCACCAGAAUUUAUGACCCAAUGUCAACAGCACGCACAGUUUUCAUGUUGGAGGCGCAGCUCCUCCUUUCCA--------------
.((((.(((((((((((((((((..(((....)))....((((.....)))))))).))).))))))))))))))(((((.......)))))......-------------- ( -29.10, z-score =  -3.36, R)
>droSim1.chrU 889334 102 + 15797150
AAACAAUGAAAACUGUUGUCUGUAUUUCACCAGAAUUUAUGACCCAAUGUCAACAGCACGCACAGUUUCCAUGUUGGAGGCGCAGCUCCUCCCUGCUUUCCA----------
.((((.((.((((((((((((((..(((....)))....((((.....)))))))).))).))))))).))))))(((((.((((.......))))))))).---------- ( -27.60, z-score =  -2.49, R)
>droSec1.super_0 4899215 102 - 21120651
AAACAAUGAAAACUGUUGUCUGUAUUUCACCAGAAUUUAUGACCCAAUGUCAACAGCACGCACAGUUUCCAUGUUGGAGGCGCAGCUCCUCCCUCCUUUCCA----------
.((((.((.((((((((((((((..(((....)))....((((.....)))))))).))).))))))).))))))(((((.(.((...))))))))......---------- ( -25.20, z-score =  -2.27, R)
>droYak2.chr3R 9738890 98 + 28832112
AAACAAUGAAAACUGUUGUCUGUUUUUCACCAGAAUUUAUGACCCAAUGUCAACAGCACGCACAGUUUUCAUGUUGGAGGCGCAGCUUCUCCUUUCCU--------------
.((((.(((((((((((((((((..(((....)))....((((.....)))))))).))).))))))))))))))(((((.......)))))......-------------- ( -27.00, z-score =  -2.70, R)
>droEre2.scaffold_4770 1836094 98 - 17746568
AAACAAUGAAAACCGUUGUCUGUUUUUCACCAGAAUUUAUGACCCAAUGUCAACAGCACGCACAGUUUCCAUGUUGGAGGCGCAGCUCCUCCUUUCCU--------------
.((((.((.((((.(((((((((..(((....)))....((((.....)))))))).))).)).)))).))))))(((((.......)))))......-------------- ( -20.10, z-score =  -0.70, R)
>droAna3.scaffold_13340 6255505 112 + 23697760
AAACAAUGAAAACUGUUGUCUGUUUUCCGCCAGAAUUUAUGACCCAAUGUCAACAGCACGCACAGCCUUAGCCCUACACUGCAAUUCUAUUCCCCUAUUAUAUUGUUUUCCA
(((((((((((((........))))))....((((((..((((.....))))...(((......((....)).......))))))))).............))))))).... ( -15.92, z-score =  -1.09, R)
>droWil1.scaffold_181130 267210 93 - 16660200
AAACAAUGAAAAUGCCUGUCUGUUUUCCACGAAAAUUUAUGACCCAAUGUCAACAGCACGCACAGCCAUCACCAC-CAUCACCACCAUCUCGCC------------------
............(((.((.((((((((...)))).....((((.....)))))))))).))).............-..................------------------ (  -9.60, z-score =  -0.05, R)
>consensus
AAACAAUGAAAACUGUUGUCUGUUUUUCACCAGAAUUUAUGACCCAAUGUCAACAGCACGCACAGUUUUCAUGUUGGAGGCGCAGCUCCUCCCUUCCU______________
.....(((.((((((((((((((..(((....)))....((((.....)))))))).))).))))))).)))...(((((.......))))).................... (-11.41 = -14.37 +   2.96)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,695,903 – 5,696,001
Length 98
Sequences 7
Columns 112
Reading direction reverse
Mean pairwise identity 78.33
Shannon entropy 0.40551
G+C content 0.43743
Mean single sequence MFE -30.87
Consensus MFE -23.94
Energy contribution -24.30
Covariance contribution 0.36
Combinations/Pair 1.33
Mean z-score -2.17
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.41
SVM RNA-class probability 0.990170
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5695903 98 - 27905053
--------------UGGAAAGGAGGAGCUGCGCCUCCAACAUGAAAACUGUGCGUGCUGUUGACAUUGGGUCAUAAAUUCUGGUGAAAAACAGACAACAGUUUUCAUUGUUU
--------------......(((((.......)))))((((((((((((((..((.(((((..(((..((........))..)))...))))))).)))))))))).)))). ( -35.40, z-score =  -3.80, R)
>droSim1.chrU 889334 102 - 15797150
----------UGGAAAGCAGGGAGGAGCUGCGCCUCCAACAUGGAAACUGUGCGUGCUGUUGACAUUGGGUCAUAAAUUCUGGUGAAAUACAGACAACAGUUUUCAUUGUUU
----------....(((((((((((.......)))))....((((((((((..((.((((...(((..((........))..)))....)))))).)))))))))))))))) ( -33.50, z-score =  -2.26, R)
>droSec1.super_0 4899215 102 + 21120651
----------UGGAAAGGAGGGAGGAGCUGCGCCUCCAACAUGGAAACUGUGCGUGCUGUUGACAUUGGGUCAUAAAUUCUGGUGAAAUACAGACAACAGUUUUCAUUGUUU
----------..........(((((.......)))))((((((((((((((..((.((((...(((..((........))..)))....)))))).)))))))))).)))). ( -33.00, z-score =  -2.30, R)
>droYak2.chr3R 9738890 98 - 28832112
--------------AGGAAAGGAGAAGCUGCGCCUCCAACAUGAAAACUGUGCGUGCUGUUGACAUUGGGUCAUAAAUUCUGGUGAAAAACAGACAACAGUUUUCAUUGUUU
--------------......((((.........))))((((((((((((((..((.(((((..(((..((........))..)))...))))))).)))))))))).)))). ( -31.80, z-score =  -2.81, R)
>droEre2.scaffold_4770 1836094 98 + 17746568
--------------AGGAAAGGAGGAGCUGCGCCUCCAACAUGGAAACUGUGCGUGCUGUUGACAUUGGGUCAUAAAUUCUGGUGAAAAACAGACAACGGUUUUCAUUGUUU
--------------......(((((.......)))))((((((((((((((..((.(((((..(((..((........))..)))...))))))).)))))))))).)))). ( -34.20, z-score =  -3.12, R)
>droAna3.scaffold_13340 6255505 112 - 23697760
UGGAAAACAAUAUAAUAGGGGAAUAGAAUUGCAGUGUAGGGCUAAGGCUGUGCGUGCUGUUGACAUUGGGUCAUAAAUUCUGGCGGAAAACAGACAACAGUUUUCAUUGUUU
....(((((((............((((((((((.((((.(((....))).)))))))...((((.....))))..)))))))...((((((........))))))))))))) ( -27.70, z-score =  -1.63, R)
>droWil1.scaffold_181130 267210 93 + 16660200
------------------GGCGAGAUGGUGGUGAUG-GUGGUGAUGGCUGUGCGUGCUGUUGACAUUGGGUCAUAAAUUUUCGUGGAAAACAGACAGGCAUUUUCAUUGUUU
------------------..................-..((..((((..((((.(((((((..(((..((........))..)))...))))).)).))))..))))..)). ( -20.50, z-score =   0.75, R)
>consensus
______________AGGAAGGGAGGAGCUGCGCCUCCAACAUGAAAACUGUGCGUGCUGUUGACAUUGGGUCAUAAAUUCUGGUGAAAAACAGACAACAGUUUUCAUUGUUU
....................((((.........))))...(((((((((((..((.(((((..(((..((........))..)))...))))))).)))))))))))..... (-23.94 = -24.30 +   0.36)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:01:36 2011