Locus 11948

Sequence ID dm3.chr3R
Location 24,683,435 – 24,683,529
Length 94
Max. P 0.998902
window16417 window16418

overview

Window 7

Location 24,683,435 – 24,683,529
Length 94
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 68.06
Shannon entropy 0.55802
G+C content 0.51891
Mean single sequence MFE -31.74
Consensus MFE -16.48
Energy contribution -19.00
Covariance contribution 2.52
Combinations/Pair 1.16
Mean z-score -2.86
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.54
SVM RNA-class probability 0.998902
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24683435 94 + 27905053
AUACCGAACCAUUCCAUCGGUUGUCUGGGUCUCUCGGCGUUAUCGUCGACAAGCCGCACUUACAAUUAGGUAAGUGCU---UGGGCAGUGCCGGAAU-----------
...(((((((........))))((((.((..(.((((((....)))))).)..))((((((((......)))))))).---.)))).....)))...----------- ( -33.90, z-score =  -2.55, R)
>droSim1.chr3R 24366452 94 + 27517382
AUACCAUACUAUUCCAUCGCUUGUCGGGGGCUCUCGGCGUUAUCGUCGACAAGCCGCACUUACAAUUAAGUAAGUGCU---UGGGCAGUGCCGGAAU-----------
..........(((((..((((.(((.((((((.((((((....))))))..))))((((((((......)))))))))---).)))))))..)))))----------- ( -37.20, z-score =  -3.92, R)
>droSec1.super_4 3546727 94 + 6179234
AUACCAAACUAUUCCAUCGCUUGUCGGGGGCUCUCGGCGUUAUCGUCGACAAGCCGCACUUACAAUUAAGUAAGUGCU---UGGGCAGUGCCGGAAU-----------
..........(((((..((((.(((.((((((.((((((....))))))..))))((((((((......)))))))))---).)))))))..)))))----------- ( -37.20, z-score =  -4.00, R)
>droAna3.scaffold_13340 15794959 83 - 23697760
--------------CCUCGUCUGGUCGGAAUUCUGUGCGAUAUCGUCGACAAGCCGCACUUACAAUUAAGUAAGUGCUGCCUGGGCAGUGCCGGAAC-----------
--------------((....(((.((((.....(((.((((...))))))).((.((((((((......)))))))).)))))).)))....))...----------- ( -27.40, z-score =  -1.48, R)
>droMoj3.scaffold_6540 24961876 102 - 34148556
ACAGCACACAUUUCCGUUGGCUGC------CUUAUCGCUCUGCCCUCUACAAGCCGCACUUACAAUUAAGUAAGUGCCUCUCCCUCAGAGAUUGCUCUGUCCCUCUCU
((((..((.(((((.(..(((.((------......))...)))..)........((((((((......))))))))..........)))))))..))))........ ( -23.00, z-score =  -2.33, R)
>consensus
AUACCAAACUAUUCCAUCGCUUGUCGGGGGCUCUCGGCGUUAUCGUCGACAAGCCGCACUUACAAUUAAGUAAGUGCU___UGGGCAGUGCCGGAAU___________
..................((((((((((....)))((((....))))))))))).((((((((......))))))))......(((...)))................ (-16.48 = -19.00 +   2.52)

alignment

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secondary structure

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dotplot

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Window 8

Location 24,683,435 – 24,683,529
Length 94
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 68.06
Shannon entropy 0.55802
G+C content 0.51891
Mean single sequence MFE -29.94
Consensus MFE -16.98
Energy contribution -17.22
Covariance contribution 0.24
Combinations/Pair 1.21
Mean z-score -2.23
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.88
SVM RNA-class probability 0.996058
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24683435 94 - 27905053
-----------AUUCCGGCACUGCCCA---AGCACUUACCUAAUUGUAAGUGCGGCUUGUCGACGAUAACGCCGAGAGACCCAGACAACCGAUGGAAUGGUUCGGUAU
-----------....(((((..(((..---.((((((((......))))))))))).)))))........((((((....(((.........))).....)))))).. ( -30.20, z-score =  -2.24, R)
>droSim1.chr3R 24366452 94 - 27517382
-----------AUUCCGGCACUGCCCA---AGCACUUACUUAAUUGUAAGUGCGGCUUGUCGACGAUAACGCCGAGAGCCCCCGACAAGCGAUGGAAUAGUAUGGUAU
-----------...(((..((((.(((---.((((((((......)))))))).((((((((.((....)).(....)....))))))))..)))..)))).)))... ( -31.70, z-score =  -2.86, R)
>droSec1.super_4 3546727 94 - 6179234
-----------AUUCCGGCACUGCCCA---AGCACUUACUUAAUUGUAAGUGCGGCUUGUCGACGAUAACGCCGAGAGCCCCCGACAAGCGAUGGAAUAGUUUGGUAU
-----------...((((.((((.(((---.((((((((......)))))))).((((((((.((....)).(....)....))))))))..)))..))))))))... ( -31.80, z-score =  -2.88, R)
>droAna3.scaffold_13340 15794959 83 + 23697760
-----------GUUCCGGCACUGCCCAGGCAGCACUUACUUAAUUGUAAGUGCGGCUUGUCGACGAUAUCGCACAGAAUUCCGACCAGACGAGG--------------
-----------....(((..(((..(((((.((((((((......)))))))).)))))..(.((....))).)))....)))...........-------------- ( -24.60, z-score =  -1.37, R)
>droMoj3.scaffold_6540 24961876 102 + 34148556
AGAGAGGGACAGAGCAAUCUCUGAGGGAGAGGCACUUACUUAAUUGUAAGUGCGGCUUGUAGAGGGCAGAGCGAUAAG------GCAGCCAACGGAAAUGUGUGCUGU
........((((.(((..(((((...(((..((((((((......))))))))..))).)))))(((...((......------)).)))..........))).)))) ( -31.40, z-score =  -1.78, R)
>consensus
___________AUUCCGGCACUGCCCA___AGCACUUACUUAAUUGUAAGUGCGGCUUGUCGACGAUAACGCCGAGAGCCCCCGACAACCGAUGGAAUAGUUUGGUAU
................(((...)))......((((((((......))))))))((((((((...))))).)))................................... (-16.98 = -17.22 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:52:42 2011