Locus 10206

Sequence ID dm3.chr3R
Location 12,142,178 – 12,142,280
Length 102
Max. P 0.998327
window14036 window14037

overview

Window 6

Location 12,142,178 – 12,142,280
Length 102
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 94.47
Shannon entropy 0.09766
G+C content 0.53367
Mean single sequence MFE -38.72
Consensus MFE -36.06
Energy contribution -36.30
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -3.38
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.02
SVM RNA-class probability 0.996975
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12142178 102 + 27905053
GGCGGUGGAUGCAAGAUGAAUUGGUAUAUGGAUGGCUGGCAGGCAACUCAAUGAGCCACUUGAGAGUGGGACAAUAGAGAAAGCCCCCCCCACUCUACCGCC
(((((((((..(((......)))......((..((((..(((....))...((..(((((....)))))..)).....)..))))..))....))))))))) ( -32.80, z-score =  -0.78, R)
>droEre2.scaffold_4770 11667014 100 + 17746568
GGCGGUGGAUGCAAGAUGAAUUGGUACAUGGAUGGCUAGAAGCCAACUCAAUGAGCCACUUGAGAGUGGCACAAUAGAGAAAGC--CUCCCAAUCCACCGCC
((((((((((.(((......))).....(((.((((.....)))).(((..((.((((((....)))))).))...))).....--...))))))))))))) ( -40.70, z-score =  -4.55, R)
>droYak2.chr3R 14556597 100 - 28832112
GGCGGUGGAUGCAAGAUGCAUUGCUAUAUGGAUGGCUAGAAGCCAACUCAAUGAGCCACUUGAGAGUGGCACAAUAGAGAAAGC--CUCCCACUCCACCGCC
(((((((((.((((......))))....(((.((((.....)))).(((..((.((((((....)))))).))...))).....--...))).))))))))) ( -42.10, z-score =  -4.51, R)
>droSec1.super_12 118242 101 - 2123299
GGCGGUGGAUGCAAGAUGAAUUGGUAUAUGGAUGGCUGGAAGCCAACUCAAUGAGCCACUUGAGAGUGGCACAAUAGAGAAAGCA-CCCCCACUCCACCGCC
(((((((((..(((......))).....(((.((((.....)))).(((..((.((((((....)))))).))...)))......-...))).))))))))) ( -39.00, z-score =  -3.53, R)
>droSim1.chr3R 18194659 101 - 27517382
GGCGGUGGAUGCAAGAUGAAUUGGUAUAUGGAUGGCUGGAAGCCAACUCAAUGAGCCACUUGAGAGUGGCACAAUAGAGAAAGCA-CCCCCACUCCACCGCC
(((((((((..(((......))).....(((.((((.....)))).(((..((.((((((....)))))).))...)))......-...))).))))))))) ( -39.00, z-score =  -3.53, R)
>consensus
GGCGGUGGAUGCAAGAUGAAUUGGUAUAUGGAUGGCUGGAAGCCAACUCAAUGAGCCACUUGAGAGUGGCACAAUAGAGAAAGC__CCCCCACUCCACCGCC
(((((((((..(((......))).....(((.((((.....)))).(((..((.((((((....)))))).))...)))..........))).))))))))) (-36.06 = -36.30 +   0.24)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,142,178 – 12,142,280
Length 102
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 94.47
Shannon entropy 0.09766
G+C content 0.53367
Mean single sequence MFE -43.38
Consensus MFE -37.64
Energy contribution -38.20
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -4.21
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.32
SVM RNA-class probability 0.998327
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12142178 102 - 27905053
GGCGGUAGAGUGGGGGGGGCUUUCUCUAUUGUCCCACUCUCAAGUGGCUCAUUGAGUUGCCUGCCAGCCAUCCAUAUACCAAUUCAUCUUGCAUCCACCGCC
((((((.((((((((.((((...(((...((..(((((....)))))..))..)))..)))).))..))))........(((......)))..)).)))))) ( -35.70, z-score =  -1.51, R)
>droEre2.scaffold_4770 11667014 100 - 17746568
GGCGGUGGAUUGGGAG--GCUUUCUCUAUUGUGCCACUCUCAAGUGGCUCAUUGAGUUGGCUUCUAGCCAUCCAUGUACCAAUUCAUCUUGCAUCCACCGCC
((((((((((..((((--(((..(((...((.((((((....)))))).))..)))..))))))).((.....(((........)))...)))))))))))) ( -45.20, z-score =  -5.38, R)
>droYak2.chr3R 14556597 100 + 28832112
GGCGGUGGAGUGGGAG--GCUUUCUCUAUUGUGCCACUCUCAAGUGGCUCAUUGAGUUGGCUUCUAGCCAUCCAUAUAGCAAUGCAUCUUGCAUCCACCGCC
(((((((((((.((((--(((..(((...((.((((((....)))))).))..)))..))))))).))..........((((......)))).))))))))) ( -48.80, z-score =  -5.48, R)
>droSec1.super_12 118242 101 + 2123299
GGCGGUGGAGUGGGGG-UGCUUUCUCUAUUGUGCCACUCUCAAGUGGCUCAUUGAGUUGGCUUCCAGCCAUCCAUAUACCAAUUCAUCUUGCAUCCACCGCC
((((((((((((((((-((((..(((...((.((((((....)))))).))..)))..))).....))).)))))....(((......)))..))))))))) ( -43.60, z-score =  -4.33, R)
>droSim1.chr3R 18194659 101 + 27517382
GGCGGUGGAGUGGGGG-UGCUUUCUCUAUUGUGCCACUCUCAAGUGGCUCAUUGAGUUGGCUUCCAGCCAUCCAUAUACCAAUUCAUCUUGCAUCCACCGCC
((((((((((((((((-((((..(((...((.((((((....)))))).))..)))..))).....))).)))))....(((......)))..))))))))) ( -43.60, z-score =  -4.33, R)
>consensus
GGCGGUGGAGUGGGGG__GCUUUCUCUAUUGUGCCACUCUCAAGUGGCUCAUUGAGUUGGCUUCCAGCCAUCCAUAUACCAAUUCAUCUUGCAUCCACCGCC
((((((((((..(((........(((...((.((((((....)))))).))..))).((((.....))))................)))..).))))))))) (-37.64 = -38.20 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:19:31 2011