Locus 6676

Sequence ID dm3.chr3L
Location 8,749,968 – 8,750,069
Length 101
Max. P 0.983263
window9190 window9191

overview

Window 0

Location 8,749,968 – 8,750,069
Length 101
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 69.18
Shannon entropy 0.54654
G+C content 0.52840
Mean single sequence MFE -34.35
Consensus MFE -15.22
Energy contribution -15.87
Covariance contribution 0.64
Combinations/Pair 1.25
Mean z-score -2.40
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.13
SVM RNA-class probability 0.983263
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 8749968 101 + 24543557
CAGUCUUGAACCGGAUGAGUUUACGAAAUCCGAUCCAG------AUACGGAAACGGAUCCACCGCCAACUACUGAUUUGACUGAAGAUCCGGAAACGGAUCGAGAUG------------
(((((..(((.(((...((((..((..(((((.(((..------....)))..)))))....))..)))).))).))))))))..((((((....))))))......------------ ( -32.00, z-score =  -3.33, R)
>droSim1.chr3L 8194665 101 + 22553184
CAGUCUUGAUCCGGAUCUGAUUUCGAAAUCCGAUCCAG------AUACGGGAACGGAUCCACCGCCAACUACUGAUUUGACUGAAGAUCCGGAAACGGAUCGAGAUG------------
..((((((((((((((((....((((((((((.(((..------.....))).))))).......((.....)).)))))....))))))(....))))))))))).------------ ( -37.80, z-score =  -3.75, R)
>droSec1.super_0 1027381 101 + 21120651
CAGUCUUGAUCCGGAUGAGAUUUCGAAAUCCGAUCCAG------AUACGGGAACGGAUCCACCGCCAACUACUGAUUUGACUGAAGAUCCGGAAACGGAUCGAGAUG------------
(((((..((((((((......))))..(((((.(((..------.....))).)))))...............)))).)))))..((((((....))))))......------------ ( -33.70, z-score =  -2.56, R)
>droYak2.chr3L 21037128 101 - 24197627
CAGCCUCGAACCGGAGGAGAUAAAGAAAUCCGAUCCAG------AUACGGAUACGGAUCCACCGCCAGCAACUGAUCAGACUGAAGAUCCGGAAACGGAUCACGAUG------------
(((.((.((..(((.(((..........((((((((..------....)))).))))))).))).(((...))).)))).)))..((((((....))))))......------------ ( -32.30, z-score =  -3.29, R)
>droEre2.scaffold_4784 20471517 107 - 25762168
CAGCCUUGAACCGGAUGAGACUAAGAAAUCCGAUCCAGCUACGGAUACGGAUACGGAUCCACCGCCAACGACUGAUCGGACUGAAGAUCCAGAAACGGAUCGAGAAG------------
....(((((.((((((.((........(((((((((......)))).))))).(((.....))).......)).)))((((....).))).....))).)))))...------------ ( -30.60, z-score =  -2.54, R)
>droAna3.scaffold_13337 15402751 119 - 23293914
UGGCGGUGGCAAGGACGGAAGCAUGGAUACGGAUCCCGACACGGACCCCCCACCGAAAAUCCCGACACCGGAUCCAGUCAACGUUGCUCCGAUGCGCGAGCGCGGUCGUGAGCGUGACC
(((((((((...(..((.......((((....)))).....))..)...))))))......(((....)))..)))((((....((((((((((((....))).)))).))))))))). ( -39.70, z-score =   1.08, R)
>consensus
CAGCCUUGAACCGGAUGAGAUUACGAAAUCCGAUCCAG______AUACGGAAACGGAUCCACCGCCAACUACUGAUUUGACUGAAGAUCCGGAAACGGAUCGAGAUG____________
(((.(.......((((..(((......)))..)))).................(((.....)))..............).)))..((((((....)))))).................. (-15.22 = -15.87 +   0.64)

alignment

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secondary structure

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dotplot

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Window 1

Location 8,749,968 – 8,750,069
Length 101
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 69.18
Shannon entropy 0.54654
G+C content 0.52840
Mean single sequence MFE -35.63
Consensus MFE -23.75
Energy contribution -23.40
Covariance contribution -0.35
Combinations/Pair 1.46
Mean z-score -1.44
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.95
SVM RNA-class probability 0.976312
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 8749968 101 - 24543557
------------CAUCUCGAUCCGUUUCCGGAUCUUCAGUCAAAUCAGUAGUUGGCGGUGGAUCCGUUUCCGUAU------CUGGAUCGGAUUUCGUAAACUCAUCCGGUUCAAGACUG
------------......((((((....))))))..(((((.........(..(((((.....)))))..)....------.((((((((((...........)))))))))).))))) ( -32.10, z-score =  -2.47, R)
>droSim1.chr3L 8194665 101 - 22553184
------------CAUCUCGAUCCGUUUCCGGAUCUUCAGUCAAAUCAGUAGUUGGCGGUGGAUCCGUUCCCGUAU------CUGGAUCGGAUUUCGAAAUCAGAUCCGGAUCAAGACUG
------------......((((((....))))))..(((((.........(..(((((.....)))))..)(.((------(((((((.((((....)))).))))))))))..))))) ( -36.10, z-score =  -2.43, R)
>droSec1.super_0 1027381 101 - 21120651
------------CAUCUCGAUCCGUUUCCGGAUCUUCAGUCAAAUCAGUAGUUGGCGGUGGAUCCGUUCCCGUAU------CUGGAUCGGAUUUCGAAAUCUCAUCCGGAUCAAGACUG
------------......((((((....))))))..(((((.........(..(((((.....)))))..)(.((------((((((.(((((....))))).)))))))))..))))) ( -34.50, z-score =  -2.25, R)
>droYak2.chr3L 21037128 101 + 24197627
------------CAUCGUGAUCCGUUUCCGGAUCUUCAGUCUGAUCAGUUGCUGGCGGUGGAUCCGUAUCCGUAU------CUGGAUCGGAUUUCUUUAUCUCCUCCGGUUCGAGGCUG
------------......((((((....))))))..((((((((......(((((.((.(((((((.(((((...------.))))))))))).......).)).))))))).)))))) ( -33.71, z-score =  -1.42, R)
>droEre2.scaffold_4784 20471517 107 + 25762168
------------CUUCUCGAUCCGUUUCUGGAUCUUCAGUCCGAUCAGUCGUUGGCGGUGGAUCCGUAUCCGUAUCCGUAGCUGGAUCGGAUUUCUUAGUCUCAUCCGGUUCAAGGCUG
------------......((((((....))))))...........(((((.((((((((((((....)))))...))))((((((((.(((((....))))).)))))))))))))))) ( -34.10, z-score =  -1.63, R)
>droAna3.scaffold_13337 15402751 119 + 23293914
GGUCACGCUCACGACCGCGCUCGCGCAUCGGAGCAACGUUGACUGGAUCCGGUGUCGGGAUUUUCGGUGGGGGGUCCGUGUCGGGAUCCGUAUCCAUGCUUCCGUCCUUGCCACCGCCA
((((........))))((.((((.((((((((.((........))..))))))))))))......(((((.(((..((.((..((((....))))..))...))..))).))))))).. ( -43.30, z-score =   1.58, R)
>consensus
____________CAUCUCGAUCCGUUUCCGGAUCUUCAGUCAAAUCAGUAGUUGGCGGUGGAUCCGUUUCCGUAU______CUGGAUCGGAUUUCGUAAUCUCAUCCGGUUCAAGACUG
..................((((((....))))))..(((((.............((((.....))))..............((((((.(((((....))))).)))))).....))))) (-23.75 = -23.40 +  -0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:12:22 2011