Locus 6743

Sequence ID dm3.chr3L
Location 9,353,558 – 9,353,688
Length 130
Max. P 0.659339
window9280 window9281

overview

Window 0

Location 9,353,558 – 9,353,661
Length 103
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 91.80
Shannon entropy 0.14143
G+C content 0.47308
Mean single sequence MFE -32.66
Consensus MFE -24.98
Energy contribution -25.78
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3L 9353558 103 - 24543557
UUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAGCUAGCUUCUCUGGCUGAUAACUGCUAGCUGAUAACCGAUGAGUGGAACCCCUUUAGGCGGAGAU
......(((((((((((((.....(((((..(((...((((((.....)))))))))..))))).)))))))))...((((.((....)))))).)))).... ( -33.30, z-score =  -1.58, R)
>droEre2.scaffold_4784 9352839 99 - 25762168
UUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAG----CUUCUCCAGCUGAUAACUGAUAGCUGAUAACUGAUGAGUGGAACCCUCCUAGGCGGAGAC
......((((((((((((((..(((((..(....)...)----))))..).))))))))).............(((..(((.(....)))).))))))).... ( -30.60, z-score =  -1.69, R)
>droYak2.chr3L 21633851 99 + 24197627
UUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAG----CUUCUCUAGCUGAUAACUUAUAGCUGAUAAGCGAUGAGUGGAAUCCUCUUAGGAGGAGAU
......((....(((((((.(((((((..(....)...)----)))).)).)))))))((((((.(((....))).))))))))..(((((....)))))... ( -35.50, z-score =  -3.30, R)
>droSec1.super_0 1603051 102 - 21120651
UUAUUACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAGCUAGCUUCUCUGGCUGAUAACUGAUAGCUGAUAACCGAUGAGUGGAACCCC-UUAGGCGGAGAU
((((((.(..(((((((((.(((((((.((.........)).))))).)).))))))))).....).))))))(((.((((.((...)))-)))..))).... ( -32.50, z-score =  -1.65, R)
>droSim1.chr3L 8746851 102 - 22553184
UUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAGCUAGCUUCUCUGGCUGAUAACUGAUAGCUGAUAACCGAUGAGUGGAACCCC-UUAGGCGGAGAU
......(((((((((((((.(((((((.((.........)).))))).)).))))))))).................((((.((...)))-))).)))).... ( -31.40, z-score =  -1.40, R)
>consensus
UUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAGCUAGCUUCUCUGGCUGAUAACUGAUAGCUGAUAACCGAUGAGUGGAACCCC_UUAGGCGGAGAU
......(((((((((((((.(((((((...............))))).)).))))))))).....(((.((.....)).))).............)))).... (-24.98 = -25.78 +   0.80)

alignment

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secondary structure

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dotplot

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Window 1

Location 9,353,583 – 9,353,688
Length 105
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 91.85
Shannon entropy 0.13586
G+C content 0.46678
Mean single sequence MFE -28.45
Consensus MFE -22.18
Energy contribution -22.78
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.03
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.659339
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 9353583 105 - 24543557
CACACACACACACACAGAGGAGAUAGCUUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAGCUAGCUUCUCUGGCUGAUAACUGCUAGCUGAUAACCGAU
..................................((.(((((((((.....(((((..(((...((((((.....)))))))))..))))).))))))))))).. ( -29.00, z-score =  -1.81, R)
>droEre2.scaffold_4784 9352864 96 - 25762168
--CACACACGCACACAGA---GAUAGCUUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAG----CUUCUCCAGCUGAUAACUGAUAGCUGAUAACUGAU
--............(((.---..(((((.........((((((((((..(((((..(....)...)----))))..).)))))))))....)))))....))).. ( -26.82, z-score =  -2.20, R)
>droYak2.chr3L 21633876 96 + 24197627
--CACACACGCACACAGA---GAUAGCUUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAG----CUUCUCUAGCUGAUAACUUAUAGCUGAUAAGCGAU
--......(((.(.....---).(((((.((((....(((((((((.(((((((..(....)...)----)))).)).))))))))))))))))))....))).. ( -28.80, z-score =  -2.91, R)
>droSec1.super_0 1603075 103 - 21120651
--CACACACGCACACAGAGGAGAUAGCUUAUUACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAGCUAGCUUCUCUGGCUGAUAACUGAUAGCUGAUAACCGAU
--................((...(((((.((((....(((((((((.(((((((.((.........)).))))).)).))))))))))))))))))....))... ( -29.50, z-score =  -1.81, R)
>droSim1.chr3L 8746875 103 - 22553184
--CACACACGCACACAGAGGAGAUAGCUUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAGCUAGCUUCUCUGGCUGAUAACUGAUAGCUGAUAACCGAU
--................((...(((((.........(((((((((.(((((((.((.........)).))))).)).)))))))))....)))))....))... ( -28.12, z-score =  -1.41, R)
>consensus
__CACACACGCACACAGAGGAGAUAGCUUAUAACCGUGUUAUCAGCGAGGGAGCGGGAAUUCAUAGCUAGCUUCUCUGGCUGAUAACUGAUAGCUGAUAACCGAU
.......................(((((.........(((((((((.(((((((...............))))).)).)))))))))....)))))......... (-22.18 = -22.78 +   0.60)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:13:36 2011