Locus 10100

Sequence ID dm3.chr3R
Location 11,302,251 – 11,302,343
Length 92
Max. P 0.947175
window13888 window13889

overview

Window 8

Location 11,302,251 – 11,302,343
Length 92
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 61.73
Shannon entropy 0.65069
G+C content 0.45088
Mean single sequence MFE -24.50
Consensus MFE -12.40
Energy contribution -13.52
Covariance contribution 1.12
Combinations/Pair 1.57
Mean z-score -1.26
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.53
SVM RNA-class probability 0.947175
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11302251 92 + 27905053
AGCGCGGCUUAAAAGAGCACUCGAACGCUCUCUUAAGUGCGCCUCUG-----CUUACUCAAU---AUUUUUGCACAUGUGAGGAUUAAGUGUGUGGACAU
.(((((.(((((.(((((........))))).)))))))))).((..-----(.((((....---(((((..(....)..)))))..)))).)..))... ( -30.70, z-score =  -2.35, R)
>droSim1.chr3R 17341537 92 - 27517382
AGCACGGCUUAAAAGAGCACUCGAUCGCUCUCUUAAGUGCGCCUCUG-----CUUACUCAAU---AUUUUUGCACAUGUGAGGAUUAAAUGUGUGGACAU
.(((((((((((.(((((........))))).))))))...((((.(-----(.....(((.---....))).....))))))......)))))...... ( -23.10, z-score =  -0.67, R)
>droSec1.super_0 10473766 92 - 21120651
AGCACGGCUUAAAAGAGCACUCGAUCGCUCUCUUAAGUGCGCCUCUG-----CUUACUCAAU---AUUUCUGCACAUGUGAGGAUUAAAUGUGUGGACAU
((((((((((((.(((((........))))).)))))).))....))-----))........---...((..(((((...........)))))..))... ( -24.40, z-score =  -1.03, R)
>droYak2.chr3R 13705061 89 - 28832112
AGCGCGACUUCAAAACUCAUUCCGUGGAUCUCUUAAAUGUGCCUCUGUGCUUCUGGCUCGAU---AUUUUCGCACAUGUGCGGAUUAUACUC--------
.((((((..((...((.......)).))..))....((((((....(.((.....)).)((.---....))))))))))))...........-------- ( -17.10, z-score =   0.06, R)
>droGri2.scaffold_14906 4424587 81 + 14172833
UGAAUGGCUGGAAAACUUGCCUGAAGAC-------AGCGUUUUUCAGUUGUAUUGCAUCGAUGUGAUCUCGACGCGAGCAGAGAUCAU------------
...(..(((((((((((((.(....).)-------)).))))))))))..)...........((((((((..(....)..))))))))------------ ( -27.20, z-score =  -2.31, R)
>consensus
AGCACGGCUUAAAAGAGCACUCGAUCGCUCUCUUAAGUGCGCCUCUG_____CUUACUCAAU___AUUUUUGCACAUGUGAGGAUUAAAUGUGUGGACAU
.((((.((((((.(((((........))))).)))))))))).......................((((((((....))))))))............... (-12.40 = -13.52 +   1.12)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,302,251 – 11,302,343
Length 92
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 61.73
Shannon entropy 0.65069
G+C content 0.45088
Mean single sequence MFE -22.54
Consensus MFE -9.76
Energy contribution -11.16
Covariance contribution 1.40
Combinations/Pair 1.44
Mean z-score -1.14
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.51
SVM RNA-class probability 0.724446
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11302251 92 - 27905053
AUGUCCACACACUUAAUCCUCACAUGUGCAAAAAU---AUUGAGUAAG-----CAGAGGCGCACUUAAGAGAGCGUUCGAGUGCUCUUUUAAGCCGCGCU
...........((((...((((.((((......))---))))))))))-----....(((((.((((((((((((......))))))))))))..))))) ( -27.60, z-score =  -2.19, R)
>droSim1.chr3R 17341537 92 + 27517382
AUGUCCACACAUUUAAUCCUCACAUGUGCAAAAAU---AUUGAGUAAG-----CAGAGGCGCACUUAAGAGAGCGAUCGAGUGCUCUUUUAAGCCGUGCU
..................((((.((((......))---))))))....-----....(((((.((((((((((((......))))))))))))..))))) ( -25.00, z-score =  -1.69, R)
>droSec1.super_0 10473766 92 + 21120651
AUGUCCACACAUUUAAUCCUCACAUGUGCAGAAAU---AUUGAGUAAG-----CAGAGGCGCACUUAAGAGAGCGAUCGAGUGCUCUUUUAAGCCGUGCU
..................((((.((((......))---))))))....-----....(((((.((((((((((((......))))))))))))..))))) ( -25.00, z-score =  -1.38, R)
>droYak2.chr3R 13705061 89 + 28832112
--------GAGUAUAAUCCGCACAUGUGCGAAAAU---AUCGAGCCAGAAGCACAGAGGCACAUUUAAGAGAUCCACGGAAUGAGUUUUGAAGUCGCGCU
--------.................((((((....---.(((((((...........))).(((((..(.....)...)))))....))))..)))))). ( -14.80, z-score =   1.07, R)
>droGri2.scaffold_14906 4424587 81 - 14172833
------------AUGAUCUCUGCUCGCGUCGAGAUCACAUCGAUGCAAUACAACUGAAAAACGCU-------GUCUUCAGGCAAGUUUUCCAGCCAUUCA
------------.............(((((((.......))))))).......(((.(((((..(-------(((....)))).))))).)))....... ( -20.30, z-score =  -1.48, R)
>consensus
AUGUCCACACAUUUAAUCCUCACAUGUGCAAAAAU___AUUGAGUAAG_____CAGAGGCGCACUUAAGAGAGCGAUCGAGUGCUCUUUUAAGCCGUGCU
.........................................................(((((.(((((((((((........)))))))))))..))))) ( -9.76 = -11.16 +   1.40)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:17:30 2011