Locus 10188

Sequence ID dm3.chr3R
Location 12,016,756 – 12,016,821
Length 65
Max. P 0.960268
window14008 window14009

overview

Window 8

Location 12,016,756 – 12,016,821
Length 65
Sequences 7
Columns 66
Reading direction forward
Mean pairwise identity 71.27
Shannon entropy 0.58369
G+C content 0.43611
Mean single sequence MFE -15.03
Consensus MFE -5.88
Energy contribution -6.54
Covariance contribution 0.67
Combinations/Pair 1.25
Mean z-score -2.24
Structure conservation index 0.39
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.68
SVM RNA-class probability 0.960268
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12016756 65 + 27905053
AACCAGCGGGUUUCAACCGGUUGA-ACUCAACAUUGAACUGCUGAUAACACUUGCUUAAAAGCGAU
...((((((...((((...((((.-...)))).)))).)))))).......(((((....))))). ( -18.10, z-score =  -3.11, R)
>droSim1.chr3R 18057933 65 - 27517382
AACCAGCGGGUUUCAACCGGUUGA-ACUCAACCUUGAACUGCUGAUAACACUUGCUUAAAAGCGAU
...((((((...((((..(((((.-...))))))))).)))))).......(((((....))))). ( -20.40, z-score =  -3.94, R)
>droSec1.super_0 11177778 65 - 21120651
AACCAGCUGGUUUCAACCGGUUGA-ACUCAGCCUUGAACUGCUGAUAAGACUUGCUUAAAAGCGAU
...((((((((....)))))))).-..(((((........)))))......(((((....))))). ( -18.80, z-score =  -2.74, R)
>droEre2.scaffold_4770 11540452 65 + 17746568
AACCAGCGGGUUUCAACCGGUUGA-ACUCAACCUUAAACUACUGAUAACACUUGCUUAAAAGCGAU
...(((..(((....)))(((((.-...)))))........))).......(((((....))))). ( -13.40, z-score =  -1.94, R)
>droYak2.chr3R 14417164 65 - 28832112
AACCAGCGGGUUUCAACCGGUUGA-ACUCAACCUUGAACUGCUGAUAACACUUGCUUAAAAGCGAU
...((((((...((((..(((((.-...))))))))).)))))).......(((((....))))). ( -20.40, z-score =  -3.94, R)
>droAna3.scaffold_12911 2838700 51 - 5364042
AGCCAGCGGGCUAGAACCGGUUCGCAGUUAGUGG---AACUAUUAGAAGACCAC------------
.....(((((((......))))))).....((((---..((......)).))))------------ ( -11.80, z-score =  -0.48, R)
>droWil1.scaffold_181130 8840597 62 - 16660200
AGUAAGCAAGUUUUAACUAGUUCA-ACUUAGUCC---AGUUCUCAUUAUACCCAUUCAUAAACGCU
....(((........(((((....-..)))))..---........((((........))))..))) (  -2.30, z-score =   0.43, R)
>consensus
AACCAGCGGGUUUCAACCGGUUGA_ACUCAACCUUGAACUGCUGAUAACACUUGCUUAAAAGCGAU
...((((.(((....))).))))............................(((((....))))). ( -5.88 =  -6.54 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 12,016,756 – 12,016,821
Length 65
Sequences 7
Columns 66
Reading direction reverse
Mean pairwise identity 71.27
Shannon entropy 0.58369
G+C content 0.43611
Mean single sequence MFE -15.07
Consensus MFE -6.28
Energy contribution -7.11
Covariance contribution 0.83
Combinations/Pair 1.33
Mean z-score -1.40
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.33
SVM RNA-class probability 0.648846
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12016756 65 - 27905053
AUCGCUUUUAAGCAAGUGUUAUCAGCAGUUCAAUGUUGAGU-UCAACCGGUUGAAACCCGCUGGUU
..(((((......)))))..((((((..((((((((((...-.))))..))))))....)))))). ( -16.10, z-score =  -1.66, R)
>droSim1.chr3R 18057933 65 + 27517382
AUCGCUUUUAAGCAAGUGUUAUCAGCAGUUCAAGGUUGAGU-UCAACCGGUUGAAACCCGCUGGUU
..(((((......)))))..((((((.......(((((...-.)))))(((....))).)))))). ( -18.20, z-score =  -2.17, R)
>droSec1.super_0 11177778 65 + 21120651
AUCGCUUUUAAGCAAGUCUUAUCAGCAGUUCAAGGCUGAGU-UCAACCGGUUGAAACCAGCUGGUU
...(((....)))........(((((........)))))..-..(((((((((....))))))))) ( -19.40, z-score =  -2.41, R)
>droEre2.scaffold_4770 11540452 65 - 17746568
AUCGCUUUUAAGCAAGUGUUAUCAGUAGUUUAAGGUUGAGU-UCAACCGGUUGAAACCCGCUGGUU
..(((((......)))))..((((((.((((..(((((...-.))))).....))))..)))))). ( -16.00, z-score =  -1.76, R)
>droYak2.chr3R 14417164 65 + 28832112
AUCGCUUUUAAGCAAGUGUUAUCAGCAGUUCAAGGUUGAGU-UCAACCGGUUGAAACCCGCUGGUU
..(((((......)))))..((((((.......(((((...-.)))))(((....))).)))))). ( -18.20, z-score =  -2.17, R)
>droAna3.scaffold_12911 2838700 51 + 5364042
------------GUGGUCUUCUAAUAGUU---CCACUAACUGCGAACCGGUUCUAGCCCGCUGGCU
------------((((.((......))..---)))).(((((.....)))))..((((....)))) ( -10.30, z-score =   0.01, R)
>droWil1.scaffold_181130 8840597 62 + 16660200
AGCGUUUAUGAAUGGGUAUAAUGAGAACU---GGACUAAGU-UGAACUAGUUAAAACUUGCUUACU
............((((((.......((((---((.......-....))))))......)))))).. (  -7.32, z-score =   0.36, R)
>consensus
AUCGCUUUUAAGCAAGUGUUAUCAGCAGUUCAAGGUUGAGU_UCAACCGGUUGAAACCCGCUGGUU
...(((....)))........(((((........))))).....(((((((........))))))) ( -6.28 =  -7.11 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:19:09 2011