Locus 10578

Sequence ID dm3.chr3R
Location 14,861,550 – 14,861,641
Length 91
Max. P 0.972438
window14543 window14544

overview

Window 3

Location 14,861,550 – 14,861,641
Length 91
Sequences 7
Columns 100
Reading direction forward
Mean pairwise identity 78.50
Shannon entropy 0.42279
G+C content 0.48770
Mean single sequence MFE -31.39
Consensus MFE -17.80
Energy contribution -18.77
Covariance contribution 0.97
Combinations/Pair 1.45
Mean z-score -1.96
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.18
SVM RNA-class probability 0.905063
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14861550 91 + 27905053
-AGAGCGGAAAUCCGAUCA-------CGGAUUUCCUUGGCCGUUGAUUGCUUUCGGUUUGCGGGAAUUCGCUCGAAAUUUCGU-GUGAUUGCAACACUCG
-.(((((((((((((....-------)))))))))....((((.(((((....))))).))))......))))........((-((.......))))... ( -31.90, z-score =  -2.04, R)
>droWil1.scaffold_181130 14543751 98 - 16660200
CAGAGCGGAAAUCCGAUUGGUCAUUGCGGAUUUCCUAAAGCCUUGCCCAGUU--GAUGUGGGGGAAUUCGGUUGAAUUUUUGUUGCGAUUGCAACACUCG
..(((.(((((((((...........)))))))))...((((((.((((...--....)))).))....)))).......((((((....))))))))). ( -29.70, z-score =  -0.97, R)
>droAna3.scaffold_13340 17490288 95 + 23697760
-AGAGCGGAAAUCCGAUUUGA-GCCAUGGCUCACGGAUUUCCUUAGCCAUGGGUGUUUUG--GGAAUUCGCUCGAAAUCACUC-GAGAUUGCACCACUCA
-.(((.(((((((((...(((-((....))))))))))))))...(((.(((((((((((--((......))))))).)))))-).)...))....))). ( -37.20, z-score =  -3.58, R)
>droEre2.scaffold_4770 10978775 91 - 17746568
-AGAGCGGAAAUCCGAUCA-------CGGAUUUCCUUGGCCGGUGAUUGCUUUCGGUUUGCGGGAAUUCGCUCGAAAUUUCGU-GUGAUUGCAACACUCG
-.....(((((((((....-------))))))))).....(((((.((((..(((...((((..(.(((....))).)..)))-))))..))))))).)) ( -30.60, z-score =  -1.38, R)
>droYak2.chr3R 3539754 91 + 28832112
-AGAGCGGAAAUCCGAUCA-------CGGAUUUCCUUGGCCGGUGAUUGCUUUUGGUUUGCGGGAAUACAUUCGAAAUUUCGU-GUGAUUGCAACACUCG
-.(((.(((((((((....-------))))))))).......(..((..(....(((((.((((......)))))))))....-)..))..)....))). ( -26.50, z-score =  -0.97, R)
>droSec1.super_77 40569 91 - 117255
-AGAGCGGAAAUCCGAUCA-------CGGAUUUCCUUGACCGUUGAUUGCUUUCGGUUUGCGGGAAUUUGCUCGAAAUUUCGU-GUGAUUGCAACACUCG
-.(((((((((((((....-------)))))))))....((((.(((((....))))).))))......))))........((-((.......))))... ( -31.90, z-score =  -2.70, R)
>droSim1.chr3R 20904049 91 - 27517382
-AGAGCGGAAAUCCGAUCA-------CGGAUUUCCUUGGCCGUUGAUUGCUUUCGGUUUGCGGGAAUUCGCUCGAAAUUUCGU-GUGAUUGCAACACUCG
-.(((((((((((((....-------)))))))))....((((.(((((....))))).))))......))))........((-((.......))))... ( -31.90, z-score =  -2.04, R)
>consensus
_AGAGCGGAAAUCCGAUCA_______CGGAUUUCCUUGGCCGUUGAUUGCUUUCGGUUUGCGGGAAUUCGCUCGAAAUUUCGU_GUGAUUGCAACACUCG
..(((((((((((((...........)))))))))....((((.(((((....))))).))))......))))........................... (-17.80 = -18.77 +   0.97)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,861,550 – 14,861,641
Length 91
Sequences 7
Columns 100
Reading direction reverse
Mean pairwise identity 78.50
Shannon entropy 0.42279
G+C content 0.48770
Mean single sequence MFE -28.87
Consensus MFE -13.88
Energy contribution -15.50
Covariance contribution 1.62
Combinations/Pair 1.26
Mean z-score -2.70
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.87
SVM RNA-class probability 0.972438
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14861550 91 - 27905053
CGAGUGUUGCAAUCAC-ACGAAAUUUCGAGCGAAUUCCCGCAAACCGAAAGCAAUCAACGGCCAAGGAAAUCCG-------UGAUCGGAUUUCCGCUCU-
.(((((((((..((..-.(((....))).(((......))).....))..)))))..........(((((((((-------....))))))))))))).- ( -29.20, z-score =  -2.71, R)
>droWil1.scaffold_181130 14543751 98 + 16660200
CGAGUGUUGCAAUCGCAACAAAAAUUCAACCGAAUUCCCCCACAUC--AACUGGGCAAGGCUUUAGGAAAUCCGCAAUGACCAAUCGGAUUUCCGCUCUG
.(((((((((....)))))...(((((....)))))..((((....--...))))..........(((((((((...........))))))))))))).. ( -27.10, z-score =  -2.43, R)
>droAna3.scaffold_13340 17490288 95 - 23697760
UGAGUGGUGCAAUCUC-GAGUGAUUUCGAGCGAAUUCC--CAAAACACCCAUGGCUAAGGAAAUCCGUGAGCCAUGGC-UCAAAUCGGAUUUCCGCUCU-
.((((((((....(((-(((....)))))).(......--)....)))).........((((((((((((((....))-)))...))))))))))))).- ( -35.00, z-score =  -3.41, R)
>droEre2.scaffold_4770 10978775 91 + 17746568
CGAGUGUUGCAAUCAC-ACGAAAUUUCGAGCGAAUUCCCGCAAACCGAAAGCAAUCACCGGCCAAGGAAAUCCG-------UGAUCGGAUUUCCGCUCU-
((.(((((((..((..-.(((....))).(((......))).....))..)))).))))).....(((((((((-------....))))))))).....- ( -29.50, z-score =  -2.79, R)
>droYak2.chr3R 3539754 91 - 28832112
CGAGUGUUGCAAUCAC-ACGAAAUUUCGAAUGUAUUCCCGCAAACCAAAAGCAAUCACCGGCCAAGGAAAUCCG-------UGAUCGGAUUUCCGCUCU-
((.(((((((......-.(((....)))..(((......)))........)))).))))).....(((((((((-------....))))))))).....- ( -25.30, z-score =  -2.40, R)
>droSec1.super_77 40569 91 + 117255
CGAGUGUUGCAAUCAC-ACGAAAUUUCGAGCAAAUUCCCGCAAACCGAAAGCAAUCAACGGUCAAGGAAAUCCG-------UGAUCGGAUUUCCGCUCU-
((.(((.......)))-.)).......((((......(((.....(....).......)))....(((((((((-------....))))))))))))).- ( -26.80, z-score =  -2.48, R)
>droSim1.chr3R 20904049 91 + 27517382
CGAGUGUUGCAAUCAC-ACGAAAUUUCGAGCGAAUUCCCGCAAACCGAAAGCAAUCAACGGCCAAGGAAAUCCG-------UGAUCGGAUUUCCGCUCU-
.(((((((((..((..-.(((....))).(((......))).....))..)))))..........(((((((((-------....))))))))))))).- ( -29.20, z-score =  -2.71, R)
>consensus
CGAGUGUUGCAAUCAC_ACGAAAUUUCGAGCGAAUUCCCGCAAACCGAAAGCAAUCAACGGCCAAGGAAAUCCG_______UGAUCGGAUUUCCGCUCU_
.(((((((((........((......)).(((......))).........)))))..........(((((((((...........))))))))))))).. (-13.88 = -15.50 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:26:34 2011