Locus 12163

Sequence ID dm3.chr3R
Location 26,130,812 – 26,130,932
Length 120
Max. P 0.812618
window16725 window16726

overview

Window 5

Location 26,130,812 – 26,130,932
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.25
Shannon entropy 0.20981
G+C content 0.39970
Mean single sequence MFE -26.02
Consensus MFE -18.50
Energy contribution -19.34
Covariance contribution 0.84
Combinations/Pair 1.12
Mean z-score -2.21
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.69
SVM RNA-class probability 0.786814
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26130812 120 + 27905053
AAAUUAAACGAUUCUCCAUAAUCGAUUAAGGGCAUUUUCGAGUGGUAAAUUAAACACUUUCGGCCUUUAAAUUAUCCAAUCACCCGAUUAUCGAUUAUGGCCACCGCAGGCUCUCCACAU
................(((((((((((((((((......(((((..........)))))...)))))))).......((((....)))).)))))))))(((......)))......... ( -29.10, z-score =  -2.96, R)
>droSim1.chr3R 25800747 120 + 27517382
AAAUUAAACGGUUCUUCAUAAUCGAUUAAUGGCCUUUUCGAGUGGUACAUUGAACACUUUCGGCCGCUAAAUUAACCAAUCACCCGAUUAUCGAUUAUGGCCACCGCAGGCUCCCCACAU
.........((.....((((((((((((.(((((.....(((((..........)))))..))))).))).......((((....)))).)))))))))(((......)))...)).... ( -29.00, z-score =  -2.07, R)
>droSec1.super_4 4980252 120 + 6179234
AAAUUAAACGGUUCUCCAUAAUCGAUUGAUGGCAUUUUCGAGUGGUACAUUGAACACUUUUGGCCUUUAAAUUAACCAAUCACCCGAUUAUCGAUUAUGGCCACCGCAGGCUCUCCACAU
........((((...((((((((((((((.(((......(((((..........)))))...))).)))).......((((....)))).))))))))))..))))..((....)).... ( -29.00, z-score =  -2.13, R)
>droYak2.chr3R 27068387 120 + 28832112
ACAUUAAACGGUUCUCCAUAAUCGAUUAAUGGCAUUUUCGAGUGCUACAUUGAACACUUUCGGUUUGUAAAUUAUCCAAUCACCCGAUUAUCGAUUAUAGCCACCACAUGCUCUCCACAU
.........((((....(((((((((((((((((((....)))))..))))))......((((.(((.........)))....))))...)))))))))))).................. ( -20.50, z-score =  -1.17, R)
>droEre2.scaffold_4820 8607994 110 - 10470090
AAAUUAU-CGGUUCACCAUAAUCGAUU---------UUCGAGUGCUACAUUGAACACUUUCGGUUUGUAAAUUAUCCAAUCACCCGAUUAUCGAUUAUGUCCACCACAUGCUCUCCACAU
.......-.(((....((((((((((.---------.(((.(((.......(((....)))((............))...))).)))..))))))))))...)))............... ( -22.50, z-score =  -2.72, R)
>consensus
AAAUUAAACGGUUCUCCAUAAUCGAUUAAUGGCAUUUUCGAGUGGUACAUUGAACACUUUCGGCCUGUAAAUUAUCCAAUCACCCGAUUAUCGAUUAUGGCCACCGCAGGCUCUCCACAU
.........(((...(((((((((((....(((......(((((..........)))))...)))............((((....)))))))))))))))..)))............... (-18.50 = -19.34 +   0.84)

alignment

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secondary structure

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dotplot

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Window 6

Location 26,130,812 – 26,130,932
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.25
Shannon entropy 0.20981
G+C content 0.39970
Mean single sequence MFE -32.46
Consensus MFE -26.70
Energy contribution -26.98
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -1.79
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.77
SVM RNA-class probability 0.812618
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26130812 120 - 27905053
AUGUGGAGAGCCUGCGGUGGCCAUAAUCGAUAAUCGGGUGAUUGGAUAAUUUAAAGGCCGAAAGUGUUUAAUUUACCACUCGAAAAUGCCCUUAAUCGAUUAUGGAGAAUCGUUUAAUUU
....((....)).(((((..(((((((((((....((((((.(((.(((.(((((.(.(....)).))))).)))))).))......))))...)))))))))))...)))))....... ( -34.10, z-score =  -2.14, R)
>droSim1.chr3R 25800747 120 - 27517382
AUGUGGGGAGCCUGCGGUGGCCAUAAUCGAUAAUCGGGUGAUUGGUUAAUUUAGCGGCCGAAAGUGUUCAAUGUACCACUCGAAAAGGCCAUUAAUCGAUUAUGAAGAACCGUUUAAUUU
....((....)).(((((...((((((((((((((((....))))))).......((((...((((..........))))......)))).....)))))))))....)))))....... ( -31.50, z-score =  -0.36, R)
>droSec1.super_4 4980252 120 - 6179234
AUGUGGAGAGCCUGCGGUGGCCAUAAUCGAUAAUCGGGUGAUUGGUUAAUUUAAAGGCCAAAAGUGUUCAAUGUACCACUCGAAAAUGCCAUCAAUCGAUUAUGGAGAACCGUUUAAUUU
....((....)).(((((..(((((((((((..(((((((.((((((........))))))..(((.......))))))))))...((....)))))))))))))...)))))....... ( -34.80, z-score =  -2.11, R)
>droYak2.chr3R 27068387 120 - 28832112
AUGUGGAGAGCAUGUGGUGGCUAUAAUCGAUAAUCGGGUGAUUGGAUAAUUUACAAACCGAAAGUGUUCAAUGUAGCACUCGAAAAUGCCAUUAAUCGAUUAUGGAGAACCGUUUAAUGU
.........((((.((((..(((((((((((..(((((((((((((((.(((........))).))))))))....)))))))...........)))))))))))...))))....)))) ( -29.62, z-score =  -1.23, R)
>droEre2.scaffold_4820 8607994 110 + 10470090
AUGUGGAGAGCAUGUGGUGGACAUAAUCGAUAAUCGGGUGAUUGGAUAAUUUACAAACCGAAAGUGUUCAAUGUAGCACUCGAA---------AAUCGAUUAUGGUGAACCG-AUAAUUU
((((.....)))).((((...((((((((((..(((((((((((((((.(((........))).))))))))....))))))).---------.))))))))))....))))-....... ( -32.30, z-score =  -3.11, R)
>consensus
AUGUGGAGAGCCUGCGGUGGCCAUAAUCGAUAAUCGGGUGAUUGGAUAAUUUAAAGGCCGAAAGUGUUCAAUGUACCACUCGAAAAUGCCAUUAAUCGAUUAUGGAGAACCGUUUAAUUU
.............(((((..(((((((((((..(((((((((((((((.(((........))).))))))))....)))))))...........)))))))))))...)))))....... (-26.70 = -26.98 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:56:58 2011