Locus 11513

Sequence ID dm3.chr3R
Location 21,714,167 – 21,714,272
Length 105
Max. P 0.767786
window15819 window15820

overview

Window 9

Location 21,714,167 – 21,714,272
Length 105
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 59.44
Shannon entropy 0.78316
G+C content 0.36601
Mean single sequence MFE -20.89
Consensus MFE -4.95
Energy contribution -4.45
Covariance contribution -0.50
Combinations/Pair 1.83
Mean z-score -1.88
Structure conservation index 0.24
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.767786
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21714167 105 + 27905053
------GGUAAAUUCAUGUUAGCGAGUACACACCUCCAUUUAGCGGGGUUACGUUCCAGAAAGAACAUCGAUACAACAAAUAUCGAUAGAUAUAUACUAUGCAUAUCGAUU
------..........(((...((((((...((((((.....).))))))))((((......)))).)))..)))......(((((((..((((...))))..))))))). ( -19.70, z-score =  -1.03, R)
>droYak2.chr3R 4064907 105 - 28832112
------GUUAAAUUCCCGUUAGCGAAUACAGCCUCCCAUUUAGCGGAGCCACACUCCAUUUAGAACAUCGAUACAACUAGUAUCGAUAGUUAUCUAUCAUACGAAUCGACU
------(((((((........((.......)).....)))))))((((.....))))...((((((((((((((.....)))))))).))..))))............... ( -20.62, z-score =  -2.48, R)
>droEre2.scaffold_4820 4135112 87 - 10470090
------------------------GCUAAAUUUCCUUAUAUAGCGGAGGUACCUUUCACUCAGAAUAUCGAUAUAACAAAUAUCGAUAGUUAUCUACUAUACUUAUCGAUU
------------------------..............(((((..((...((..(((.....)))(((((((((.....)))))))))))..))..))))).......... ( -14.90, z-score =  -1.50, R)
>droSec1.super_13 497497 105 + 2104621
------GGUAAAUUCCUCUUAGCGAGUACACGUCUCCAGUUAGCGGGGUUACCAACCAAACAGAACAUCGAUAAAACAAAUAUCGAUAGUUAUAUACUAUGCAUAUCGAUU
------(((((...((((((((((((.......)))..))))).)))))))))..........((((((((((.......))))))).))).................... ( -20.30, z-score =  -1.41, R)
>droSim1.chr3R 21558914 105 + 27517382
------GGUAAAUUCCUCUUAGCGAGUACACAUCUCCAGUUAGCGGGGUUACCAACCAAACAGAACAUCGAUACAACAUAUAUCGAUAGUUAUAUACUAUGCAUAUCGAUU
------(((((...((((((((((((.......)))..))))).)))))))))..........((((((((((.......))))))).))).................... ( -20.10, z-score =  -1.61, R)
>droVir3.scaffold_13049 17206875 105 - 25233164
AAAUUUACAGCUUUCAGCUAAUUGAAAGCGAAUUCGAAUUUGUUGCUAUCGUUGUUGUUAUCGCAUGUCAUUGCACUCGAUAGCAAUAGUUAGUAAAGGUUUCUU------
.........((((((((....))))))))......(((....((((((...((((((((((((..(((....)))..)))))))))))).))))))....)))..------ ( -29.70, z-score =  -3.24, R)
>consensus
______GGUAAAUUCCUCUUAGCGAGUACACAUCCCCAUUUAGCGGGGUUACCAUCCAAACAGAACAUCGAUACAACAAAUAUCGAUAGUUAUAUACUAUGCAUAUCGAUU
...............................(((((........))))).................(((((((.......)))))))........................ ( -4.95 =  -4.45 +  -0.50)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 0

Location 21,714,167 – 21,714,272
Length 105
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 59.44
Shannon entropy 0.78316
G+C content 0.36601
Mean single sequence MFE -23.88
Consensus MFE -6.32
Energy contribution -6.27
Covariance contribution -0.05
Combinations/Pair 1.56
Mean z-score -1.52
Structure conservation index 0.26
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.563525
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21714167 105 - 27905053
AAUCGAUAUGCAUAGUAUAUAUCUAUCGAUAUUUGUUGUAUCGAUGUUCUUUCUGGAACGUAACCCCGCUAAAUGGAGGUGUGUACUCGCUAACAUGAAUUUACC------
..(((....((..(((((((((((((((((((.....))))))))(((((....)))))......(((.....)))))))))))))).)).....))).......------ ( -25.70, z-score =  -1.90, R)
>droYak2.chr3R 4064907 105 + 28832112
AGUCGAUUCGUAUGAUAGAUAACUAUCGAUACUAGUUGUAUCGAUGUUCUAAAUGGAGUGUGGCUCCGCUAAAUGGGAGGCUGUAUUCGCUAACGGGAAUUUAAC------
......(((((....((((....(((((((((.....))))))))).))))....(((((..(((((........))).))..)))))....)))))........------ ( -29.40, z-score =  -1.93, R)
>droEre2.scaffold_4820 4135112 87 + 10470090
AAUCGAUAAGUAUAGUAGAUAACUAUCGAUAUUUGUUAUAUCGAUAUUCUGAGUGAAAGGUACCUCCGCUAUAUAAGGAAAUUUAGC------------------------
.........((((((((((....(((((((((.....))))))))).)))........((.....))))))))).............------------------------ ( -16.40, z-score =  -0.64, R)
>droSec1.super_13 497497 105 - 2104621
AAUCGAUAUGCAUAGUAUAUAACUAUCGAUAUUUGUUUUAUCGAUGUUCUGUUUGGUUGGUAACCCCGCUAACUGGAGACGUGUACUCGCUAAGAGGAAUUUACC------
..((.....((..(((((((...((((((((.......)))))))).....((..((((((......))))))..))...))))))).))...))..........------ ( -23.20, z-score =  -0.69, R)
>droSim1.chr3R 21558914 105 - 27517382
AAUCGAUAUGCAUAGUAUAUAACUAUCGAUAUAUGUUGUAUCGAUGUUCUGUUUGGUUGGUAACCCCGCUAACUGGAGAUGUGUACUCGCUAAGAGGAAUUUACC------
..((.....((..((((((((..(((((((((.....)))))))))...(.((..((((((......))))))..)).))))))))).))...))..........------ ( -25.50, z-score =  -1.22, R)
>droVir3.scaffold_13049 17206875 105 + 25233164
------AAGAAACCUUUACUAACUAUUGCUAUCGAGUGCAAUGACAUGCGAUAACAACAACGAUAGCAACAAAUUCGAAUUCGCUUUCAAUUAGCUGAAAGCUGUAAAUUU
------........(((((......(((((((((...(((......)))(....).....))))))))).............(((((((......))))))).)))))... ( -23.10, z-score =  -2.76, R)
>consensus
AAUCGAUAUGCAUAGUAUAUAACUAUCGAUAUUUGUUGUAUCGAUGUUCUGUAUGGAAGGUAACCCCGCUAAAUGGAGAUGUGUACUCGCUAAGAGGAAUUUACC______
.......................(((((((((.....)))))))))................................................................. ( -6.32 =  -6.27 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:44:20 2011