Locus 12772

Sequence ID dm3.chrX
Location 2,089,124 – 2,089,229
Length 105
Max. P 0.992803
window17557 window17558

overview

Window 7

Location 2,089,124 – 2,089,229
Length 105
Sequences 5
Columns 122
Reading direction forward
Mean pairwise identity 72.25
Shannon entropy 0.46693
G+C content 0.51778
Mean single sequence MFE -27.93
Consensus MFE -18.82
Energy contribution -18.50
Covariance contribution -0.32
Combinations/Pair 1.07
Mean z-score -2.22
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.57
SVM RNA-class probability 0.992803
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2089124 105 + 22422827
CAGACUCUUAAAU---AUGUGUGAUCUUGUACAUCCGAUCGGAUCACCGAUCUCCGAUA-------AUCACACCG---AUCCAAUCCUCCAGAAGCGAAGCGCCAUCGCCUGGAGUCG----
..(((........---..(((((((..(((......((((((....))))))....)))-------)))))))..---.........(((((..((((.......)))))))))))).---- ( -28.90, z-score =  -2.09, R)
>droEre2.scaffold_4644 2052327 99 + 2521924
------CUUACAU---AUAUAUGAUUUCUUACAUCUGAUCGGAUCACCGAUCACCGAUC-------ACCACACCG---AUCCAAUCCUCCAGAGGCGCAGCGCCAUCGCCUGGAGUCG----
------.......---......((((.........(((((((....)))))))..((((-------........)---))).))))((((((.((((...)))).....))))))...---- ( -25.00, z-score =  -2.04, R)
>droYak2.chrX 15536273 92 - 21770863
------CUAAAGUUCUAUGUCGUAACUCUUACCUCGGAUUGGAUCACCAAUC------------------------CAAUCCAAUCCUCCAGAGGCGCCUCCCCAUCGCCUGGAGUCUUUGG
------((((((.......................(((((((((.....)))------------------------))))))....(((((..((((.........))))))))).)))))) ( -27.00, z-score =  -3.31, R)
>droSec1.super_10 1872411 115 + 3036183
CAGACUCUCAAAU---AUGUGUGAUCUUUUACAUCUGAUCGGAUCACCGAUCACCGAUCUCCGAUCACCACACCGCCGAUCCAAUCCUCCAGAAGCGAAACGCCAUCGCCUGGAGUCG----
..(((........---.(((((((((.........(((((((....))))))).........))))).))))...............(((((..((((.......)))))))))))).---- ( -31.87, z-score =  -2.65, R)
>droSim1.chrX 1462996 110 + 17042790
CAGACUCUCAAAU---AUGUGUGAUCUUUUACAUCUGAUCGGAUCACCGAUCUCCGAUCUCCGAGCACCACACCGCCGAUCCAAUCCUCCAGAAGCG-----CCAUCGCCUGGAGUCG----
..(((........---..(((((..(((....(((.((((((....))))))...)))....)))...)))))..............(((((..(((-----....))))))))))).---- ( -26.90, z-score =  -1.03, R)
>consensus
CAGACUCUCAAAU___AUGUGUGAUCUUUUACAUCUGAUCGGAUCACCGAUCACCGAUC_______ACCACACCG_C_AUCCAAUCCUCCAGAAGCGAAGCGCCAUCGCCUGGAGUCG____
....................................((((((....))))))..................................((((((..(((.........)))))))))....... (-18.82 = -18.50 +  -0.32)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 2,089,124 – 2,089,229
Length 105
Sequences 5
Columns 122
Reading direction reverse
Mean pairwise identity 72.25
Shannon entropy 0.46693
G+C content 0.51778
Mean single sequence MFE -35.42
Consensus MFE -24.68
Energy contribution -26.12
Covariance contribution 1.44
Combinations/Pair 1.11
Mean z-score -1.28
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.893460
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2089124 105 - 22422827
----CGACUCCAGGCGAUGGCGCUUCGCUUCUGGAGGAUUGGAU---CGGUGUGAU-------UAUCGGAGAUCGGUGAUCCGAUCGGAUGUACAAGAUCACACAU---AUUUAAGAGUCUG
----...((((((((((.......))))..))))))..((((((---..(((((((-------(..((..((((((....))))))...)).....))))))))..---))))))....... ( -35.90, z-score =  -1.35, R)
>droEre2.scaffold_4644 2052327 99 - 2521924
----CGACUCCAGGCGAUGGCGCUGCGCCUCUGGAGGAUUGGAU---CGGUGUGGU-------GAUCGGUGAUCGGUGAUCCGAUCAGAUGUAAGAAAUCAUAUAU---AUGUAAG------
----...(((((((....((((...)))))))))))..(((.((---..(((((((-------...((.(((((((....)))))))..))......)))))))..---)).))).------ ( -30.90, z-score =  -0.49, R)
>droYak2.chrX 15536273 92 + 21770863
CCAAAGACUCCAGGCGAUGGGGAGGCGCCUCUGGAGGAUUGGAUUG------------------------GAUUGGUGAUCCAAUCCGAGGUAAGAGUUACGACAUAGAACUUUAG------
((.....(((((((((.........))))..)))))..((((((((------------------------((((...))))))))))))))..((((((.(......)))))))..------ ( -31.60, z-score =  -2.37, R)
>droSec1.super_10 1872411 115 - 3036183
----CGACUCCAGGCGAUGGCGUUUCGCUUCUGGAGGAUUGGAUCGGCGGUGUGGUGAUCGGAGAUCGGUGAUCGGUGAUCCGAUCAGAUGUAAAAGAUCACACAU---AUUUGAGAGUCUG
----...((((((((((.......))))..))))))....(((((...((((((((((((..(.(((..(((((((....)))))))))).)....)))))).)))---)))...)).))). ( -42.20, z-score =  -1.68, R)
>droSim1.chrX 1462996 110 - 17042790
----CGACUCCAGGCGAUGG-----CGCUUCUGGAGGAUUGGAUCGGCGGUGUGGUGCUCGGAGAUCGGAGAUCGGUGAUCCGAUCAGAUGUAAAAGAUCACACAU---AUUUGAGAGUCUG
----...(((((((((....-----)))..))))))((((...((((..(((((((.((...(.(((...((((((....)))))).))).)...)))))))))..---..)))).)))).. ( -36.50, z-score =  -0.48, R)
>consensus
____CGACUCCAGGCGAUGGCGCUGCGCUUCUGGAGGAUUGGAU_G_CGGUGUGGU_______GAUCGGAGAUCGGUGAUCCGAUCAGAUGUAAAAGAUCACACAU___AUUUAAGAGUCUG
.......(((((((((.........)))..))))))((((((((((.((((.((((........))))...)))).)))))))))).................................... (-24.68 = -26.12 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:08:30 2011