Locus 9101

Sequence ID dm3.chr3R
Location 4,082,103 – 4,082,183
Length 80
Max. P 0.863844
window12483 window12484

overview

Window 3

Location 4,082,103 – 4,082,183
Length 80
Sequences 6
Columns 80
Reading direction forward
Mean pairwise identity 95.83
Shannon entropy 0.08125
G+C content 0.47708
Mean single sequence MFE -21.61
Consensus MFE -19.82
Energy contribution -20.16
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.97
SVM RNA-class probability 0.863844
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 4082103 80 + 27905053
AACGAUUACCACAAUUGGCAACAUGUGCCACUCGCACAUAAUGGCUUGCCAUUAGCCGCCUUAGAAUCGGUUUCAAAUGC
..(((((........((((....(((((.....)))))((((((....))))))))))......)))))........... ( -21.44, z-score =  -1.95, R)
>droSec1.super_0 3374120 80 - 21120651
AACGAUUACCACAAUUGGCAACAUGUGCCACUCGCACAUAAUGGCUUGCCAUUAGCCGCCUUAGAAUCGGUUUCAAAUGC
..(((((........((((....(((((.....)))))((((((....))))))))))......)))))........... ( -21.44, z-score =  -1.95, R)
>droSim1.chr3R 10342245 80 - 27517382
AACGAUUACCACAAUUGGCAACAUGUGCCACUCGCACAUAAUGGCUUGCCAUUAGCCGCCUUAGAAUCGGUUUCAAAUGC
..(((((........((((....(((((.....)))))((((((....))))))))))......)))))........... ( -21.44, z-score =  -1.95, R)
>droYak2.chr3R 8155937 80 + 28832112
AACGAUUACCACAAUUGGCAACAUGUGCCACUCGCACAUAAUGGCUUGCCAUUAGCCGCCUUAGAAUCGGUUUCAAAUGC
..(((((........((((....(((((.....)))))((((((....))))))))))......)))))........... ( -21.44, z-score =  -1.95, R)
>droEre2.scaffold_4770 252582 80 - 17746568
AACGAUUACCAGAAUUGGCAACAUGUGCCACUCGCAGAUAAUGGCUUGCCAUUAGCCGCCUUAGAAUCGGUUUCAAAUGC
..(((((...((...(((((.....)))))...((.(.((((((....)))))).).))))...)))))........... ( -19.50, z-score =  -0.88, R)
>droAna3.scaffold_12911 1909134 80 - 5364042
ACCGAUUACCACAAUUGGCCACAUGCGCCACUGGCCCAUAAUGGCCUGCCAUUAGCCGCCUUAGAAUCGGUUUCGAACGC
(((((((........(((((....).))))..(((...((((((....))))))...)))....)))))))......... ( -24.40, z-score =  -2.04, R)
>consensus
AACGAUUACCACAAUUGGCAACAUGUGCCACUCGCACAUAAUGGCUUGCCAUUAGCCGCCUUAGAAUCGGUUUCAAAUGC
..(((((........((((....(((((.....)))))((((((....))))))))))......)))))........... (-19.82 = -20.16 +   0.33)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 4,082,103 – 4,082,183
Length 80
Sequences 6
Columns 80
Reading direction reverse
Mean pairwise identity 95.83
Shannon entropy 0.08125
G+C content 0.47708
Mean single sequence MFE -26.15
Consensus MFE -23.30
Energy contribution -23.80
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.43
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.509838
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 4082103 80 - 27905053
GCAUUUGAAACCGAUUCUAAGGCGGCUAAUGGCAAGCCAUUAUGUGCGAGUGGCACAUGUUGCCAAUUGUGGUAAUCGUU
...........((((((((.((((((.(((((....)))))((((((.....)))))))))))).....))).))))).. ( -25.40, z-score =  -1.36, R)
>droSec1.super_0 3374120 80 + 21120651
GCAUUUGAAACCGAUUCUAAGGCGGCUAAUGGCAAGCCAUUAUGUGCGAGUGGCACAUGUUGCCAAUUGUGGUAAUCGUU
...........((((((((.((((((.(((((....)))))((((((.....)))))))))))).....))).))))).. ( -25.40, z-score =  -1.36, R)
>droSim1.chr3R 10342245 80 + 27517382
GCAUUUGAAACCGAUUCUAAGGCGGCUAAUGGCAAGCCAUUAUGUGCGAGUGGCACAUGUUGCCAAUUGUGGUAAUCGUU
...........((((((((.((((((.(((((....)))))((((((.....)))))))))))).....))).))))).. ( -25.40, z-score =  -1.36, R)
>droYak2.chr3R 8155937 80 - 28832112
GCAUUUGAAACCGAUUCUAAGGCGGCUAAUGGCAAGCCAUUAUGUGCGAGUGGCACAUGUUGCCAAUUGUGGUAAUCGUU
...........((((((((.((((((.(((((....)))))((((((.....)))))))))))).....))).))))).. ( -25.40, z-score =  -1.36, R)
>droEre2.scaffold_4770 252582 80 + 17746568
GCAUUUGAAACCGAUUCUAAGGCGGCUAAUGGCAAGCCAUUAUCUGCGAGUGGCACAUGUUGCCAAUUCUGGUAAUCGUU
...........((((((((..((((.((((((....)))))).))))((((((((.....)))).))))))).))))).. ( -25.80, z-score =  -1.98, R)
>droAna3.scaffold_12911 1909134 80 + 5364042
GCGUUCGAAACCGAUUCUAAGGCGGCUAAUGGCAGGCCAUUAUGGGCCAGUGGCGCAUGUGGCCAAUUGUGGUAAUCGGU
.........((((((((((.....((.....)).((((((.(((.(((...))).))))))))).....))).))))))) ( -29.50, z-score =  -1.14, R)
>consensus
GCAUUUGAAACCGAUUCUAAGGCGGCUAAUGGCAAGCCAUUAUGUGCGAGUGGCACAUGUUGCCAAUUGUGGUAAUCGUU
...........((((((((.((((((.(((((....)))))((((((.....)))))))))))).....))).))))).. (-23.30 = -23.80 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:58:01 2011