Locus 9150

Sequence ID dm3.chr3R
Location 4,506,436 – 4,506,628
Length 192
Max. P 0.994541
window12549 window12550

overview

Window 9

Location 4,506,436 – 4,506,531
Length 95
Sequences 7
Columns 109
Reading direction forward
Mean pairwise identity 63.01
Shannon entropy 0.68514
G+C content 0.36529
Mean single sequence MFE -23.56
Consensus MFE -8.80
Energy contribution -10.08
Covariance contribution 1.27
Combinations/Pair 1.50
Mean z-score -2.48
Structure conservation index 0.37
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.71
SVM RNA-class probability 0.994541
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 4506436 95 + 27905053
GAAAUCAAAGGAAACUUA----UCUCAAAAGAUAUUCACUCAAUCUGUAACGAUCUCAACUCAAAGU------GAGUUGAGUUUUUAGA----UAGGGGUGGAUUUAUG
.(((((.(((....)))(----(((....))))...(((((.(((((.......((((((((.....------))))))))....))))----)..))))))))))... ( -27.00, z-score =  -3.47, R)
>droSim1.chr3R 10738819 99 - 27517382
GAAAUCAAAGGAAACUUACAUAUCUCAAAAGAUAUUCACUCAAUCUGCAGCGAUCUCAUCUCAAAGU------GAGUUGAGUUUUUAGA----UAGGGGUGGAUUUAUG
.(((((.(((....)))..((((((....)))))).(((((.(((((.......((((.(((.....------))).))))....))))----)..))))))))))... ( -24.10, z-score =  -2.03, R)
>droSec1.super_0 3773430 99 - 21120651
GAAAUCAAAGGAAACUUACAUAUCUCAAAAGAUAUUCACUCAAUCUGCAGCGAUCUCAACUCAAAGU------GAGUUGAGUUUUUAGA----UAGGGGUGGAUUUAUG
.(((((.(((....)))..((((((....)))))).(((((.(((((.......((((((((.....------))))))))....))))----)..))))))))))... ( -28.20, z-score =  -3.64, R)
>droYak2.chr3R 8569302 95 + 28832112
GAAAUCAAAGGAAAAGUA----UCUCAAAAGAUAUUCACUCGAUCUGCAGCUAUCUCAACUCAAAGU------GAGUUGAGUUUUAAAA----UAGGGGUGGAUUUAUG
..........((..((((----(((....)))))))...))((((..(..((((((((((((.....------)))))))).......)----)))..)..)))).... ( -22.81, z-score =  -2.39, R)
>droEre2.scaffold_4770 666765 100 - 17746568
GAAAUCAAAGGAAAUGUA----UCUCAAAAGGUAUUCACUCAAUCUGAAGCGAUCUCAACUCAAUAUGAGUG-GAGUUGAGUCUUAAAU----AAGGGGUGGAUUUAUG
.(((((.........(((----(((....)))))).(((((......(((....((((((((.((....)).-)))))))).)))....----...))))))))))... ( -22.42, z-score =  -1.49, R)
>droAna3.scaffold_13340 10923275 91 + 23697760
-----------GAACCUA-------UAACUGAAUUUCACUCGAUUUCUGUUGAGUGAGUUUUAAAAUGAACAUCCCCUAAGAUCCUAUACUCAUAGGCUUCGAGUUGAG
-----------.......-------..........((((((((..(((((.(((((.((((......))))(((......)))....))))))))))..))))).))). ( -20.00, z-score =  -2.16, R)
>droMoj3.scaffold_6540 17444908 81 + 34148556
-----------AUACUCA---AACUCGAAC----UCCAUUCAACUCCCCGCUGCUGCUGCAUGUAUU------GAGUUUUCACUCGAAA----UAGGGGUUGAGAUUUU
-----------...((((---(....(((.----....)))....(((((((((....))).)).((------((((....))))))..----..)))))))))..... ( -20.40, z-score =  -2.16, R)
>consensus
GAAAUCAAAGGAAACUUA____UCUCAAAAGAUAUUCACUCAAUCUGCAGCGAUCUCAACUCAAAGU______GAGUUGAGUUUUUAAA____UAGGGGUGGAUUUAUG
.................................((((((((.............((((((((...........))))))))...............))))))))..... ( -8.80 = -10.08 +   1.27)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 4,506,531 – 4,506,628
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 81.82
Shannon entropy 0.28709
G+C content 0.34310
Mean single sequence MFE -21.10
Consensus MFE -13.46
Energy contribution -13.28
Covariance contribution -0.19
Combinations/Pair 1.26
Mean z-score -1.99
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.688559
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 4506531 97 - 27905053
AGUGGAUGUUGUUCUUUCUUUGGCCACUCAAAAAGUGAGUAAAAGAGAGUGCUACUCAAAACUAAGAAAAUCUAUAUCUCGAUGGAUCCUCAUACAA
(((.((.((.((.((((((((.((((((.....)))).)).)))))))).)).))))...)))..((..((((((......))))))..))...... ( -23.10, z-score =  -1.84, R)
>droSim1.chr3R 10738918 90 + 27517382
-------AGUGGAUUUUUUUUUGCCACUCAAAAAGUGAGUAAAAGAGAGUGCAACUCAAAAUUGAGAAAAUCUAUAGUUCACUGGAUCCUCAUAAAA
-------..((.((((((((((((((((.....)))).)))))))))))).)).........((((...(((((........))))).))))..... ( -20.90, z-score =  -2.01, R)
>droSec1.super_0 3773529 89 + 21120651
-------AGUGGA-UUUUUUUUACCACUCAAAAAGUGAGUAAAAGAGAGUGCUACUCAAAAUUGAGAAAAUCUUUAGCUCGCUGGAUCCUCAUAAAA
-------(((((.-((((((((((((((.....)))).))))))))))...)))))......((((...((((..((....)))))).))))..... ( -20.50, z-score =  -1.70, R)
>droYak2.chr3R 8569397 88 - 28832112
-------AGUGGAUUUCCUUUGCCCACUCAAAAAGUGAGUAAAAGAGAGUUAUACUCAAAAC--AAAAAAUCUAUAGCUCACUGGAUCCUCAAAGAA
-------.(.(((((((.(((((.((((.....)))).))))).))((((((((........--........))))))))....))))).)...... ( -19.89, z-score =  -2.41, R)
>consensus
_______AGUGGAUUUUCUUUGGCCACUCAAAAAGUGAGUAAAAGAGAGUGCUACUCAAAACUGAGAAAAUCUAUAGCUCACUGGAUCCUCAUAAAA
.......((((.....((((((((((((.....)))).))))))))(((.....)))......................)))).............. (-13.46 = -13.28 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:58:55 2011