Locus 11064

Sequence ID dm3.chr3R
Location 18,419,366 – 18,419,485
Length 119
Max. P 0.773928
window15197 window15198

overview

Window 7

Location 18,419,366 – 18,419,470
Length 104
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 69.40
Shannon entropy 0.50183
G+C content 0.49163
Mean single sequence MFE -29.41
Consensus MFE -15.40
Energy contribution -15.32
Covariance contribution -0.08
Combinations/Pair 1.33
Mean z-score -1.18
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.510221
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18419366 104 + 27905053
ACUACUACUA--AAAAAUUUGCUGUAGGUC-----AGUGCACA--AGAGAAUCUCUUGAAAGUAGCCAUAGCUAUAAGCUAGCCAACUGGUCAUCACCGCCUCGGCGGCUGAC------
..........--..............(..(-----(((((.((--((((...))))))...(((((....)))))......))..))))..).(((((((....)))).))).------ ( -29.00, z-score =  -1.45, R)
>droSim1.chr3R 18230998 87 + 27517382
ACUACUAUUACUUAAAAUCUGCUGUAGUCC-----AGU---------------------UAGUAGCCAUAGCUAUAAGCUAGCCAACUGGCCAUCACCGCCUCGGCGGCUGAC------
(((((..................)))))..-----(((---------------------(.(((((....))))).)))).(((....)))..(((((((....)))).))).------ ( -23.37, z-score =  -0.97, R)
>droSec1.super_0 18772164 87 + 21120651
ACUACUACUACUUGAAAUCUGCUGUAGGCC-----AGU---------------------AAGUAGCCAUAGCUACAAGCUAGCCAACUGGCCAUCACCGCCUCGGCGGCUGAC------
..........................((((-----(((---------------------..(((((....)))))..(....)..))))))).(((((((....)))).))).------ ( -27.90, z-score =  -1.47, R)
>droYak2.chr3R 19267967 116 + 28832112
---ACGACUGCUGAAAAUCUGAUAUGGUUAGUGCAAGUUAUGAACAGAGAAUCUUCUGAAAGUAAUCAUAGCUACAAGCUAGCCAACUGGCCAUCACCUCCUCGGUGGCUGACUCAGAU
---.............((((((..((((((((...((((((((.(((((....))))).......))))))))....))))))))...(((((((........)))))))...)))))) ( -35.80, z-score =  -2.64, R)
>droEre2.scaffold_4820 813726 110 - 10470090
---ACGACUGCUGAAAAUCUGCUGCGGUCAGUGGAAAUGAUGUGCAGAGCACCCCUUGAAAGUAGCCAUAGCUAGGAGCUAGCCAACUGGCCAUCACCUCCUCGGUGGCUGAC------
---..((((((............))))))............((((...))))..........(((((((....(((((...(((....)))......)))))..)))))))..------ ( -31.00, z-score =   0.61, R)
>consensus
ACUACUACUACUGAAAAUCUGCUGUAGUCC_____AGU_______AGAG_A_C___UGAAAGUAGCCAUAGCUACAAGCUAGCCAACUGGCCAUCACCGCCUCGGCGGCUGAC______
.......((((............))))..................................(((((....)))))..(((((....)))))..(((((((....)))).)))....... (-15.40 = -15.32 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,419,385 – 18,419,485
Length 100
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 73.09
Shannon entropy 0.42100
G+C content 0.52111
Mean single sequence MFE -31.73
Consensus MFE -20.84
Energy contribution -20.90
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -1.38
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.773928
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18419385 100 - 27905053
UCAAUCUGAAUCUGAGUCAGCCGCCGAGGCGGUGAUGACCAGUUGGCUAGCUUAUAGCUAUGGCUACUUUCAAGAGAUUCUCUUGUGCACUGACCUACAG-------
.....(((...(((.(((((((((....)))))..))))))).((((((.....)))))).(((......((((((...))))))......).))..)))------- ( -29.50, z-score =  -0.73, R)
>droSim1.chr3R 18231019 81 - 27517382
UCAAUCUGAAUCUGAGUCAGCCGCCGAGGCGGUGAUGGCCAGUUGGCUAGCUUAUAGCUAUGGCUACUAACUGGA----CUACAG----------------------
...........(((.((((.((((....))))))))((((((((((.(((((.........))))))))))))).----)).)))---------------------- ( -30.00, z-score =  -2.17, R)
>droSec1.super_0 18772185 81 - 21120651
UCAAUCUGAAUCUGAGUCAGCCGCCGAGGCGGUGAUGGCCAGUUGGCUAGCUUGUAGCUAUGGCUACUUACUGGC----CUACAG----------------------
.....(((...(((.(((((((((....)))))..)))))))..((((((...(((((....)))))...)))))----)..)))---------------------- ( -33.90, z-score =  -2.57, R)
>droEre2.scaffold_4820 813744 107 + 10470090
UCAAUCUGAAUCUGAGUCAGCCACCGAGGAGGUGAUGGCCAGUUGGCUAGCUCCUAGCUAUGGCUACUUUCAAGGGGUGCUCUGCACAUCAUUUCCACUGACCGCAG
...........(((.((((((....).((((((((((((((..(((((((...))))))))))))...........((((...))))))))))))).)))))..))) ( -33.50, z-score =  -0.05, R)
>consensus
UCAAUCUGAAUCUGAGUCAGCCGCCGAGGCGGUGAUGGCCAGUUGGCUAGCUUAUAGCUAUGGCUACUUACAAGA____CUACAG______________________
...........(((.(((((((((....)))))..))))))).((((((((.....)))..)))))......................................... (-20.84 = -20.90 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:35:39 2011