Locus 4332

Sequence ID dm3.chr2R
Location 12,263,483 – 12,263,578
Length 95
Max. P 0.933126
window5939 window5940

overview

Window 9

Location 12,263,483 – 12,263,578
Length 95
Sequences 9
Columns 95
Reading direction reverse
Mean pairwise identity 81.32
Shannon entropy 0.38852
G+C content 0.49977
Mean single sequence MFE -30.34
Consensus MFE -22.86
Energy contribution -22.04
Covariance contribution -0.81
Combinations/Pair 1.31
Mean z-score -1.66
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.38
SVM RNA-class probability 0.933126
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12263483 95 - 21146708
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
..........((......))..(((((............((((((...((((((((((.(((.(....).))))))))))))))))))).))))) ( -31.02, z-score =  -1.63, R)
>droSim1.chr2R 10995159 95 - 19596830
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
..........((......))..(((((............((((((...((((((((((.(((.(....).))))))))))))))))))).))))) ( -31.02, z-score =  -1.63, R)
>droSec1.super_1 9761156 95 - 14215200
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
..........((......))..(((((............((((((...((((((((((.(((.(....).))))))))))))))))))).))))) ( -31.02, z-score =  -1.63, R)
>droYak2.chr2R 4417300 95 + 21139217
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
..........((......))..(((((............((((((...((((((((((.(((.(....).))))))))))))))))))).))))) ( -31.02, z-score =  -1.63, R)
>droEre2.scaffold_4845 8992669 95 + 22589142
UACAACUUUAGCUACAUUGCAUCAGCCCAAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGGUGGCUG
........(((((((...((....(((((((.....)))).)))....((((((((((.(((.(....).))))))))))))).))..))))))) ( -32.70, z-score =  -2.24, R)
>droAna3.scaffold_13266 15639469 90 - 19884421
-----UAAAAGCUACAUAACUGCAGCACGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUCCUAGCUG
-----....(((((....(((((((.((((...)))))))))))....((((((((((.(((.(....).)))))))))))))......))))). ( -30.20, z-score =  -2.39, R)
>droVir3.scaffold_12875 18767348 94 - 20611582
-GCUGCCUCUGCUGCAGCAUUGCAGCAUGAAAUUUGUUUGUGGUCUCGGCCAUAAGUUUGCCCGUCGACAGGCAACUUGCGGCGGCUGCCGUUUG
-((((((((((((((......)))))).))...((((((((.(...(((.((......)).))).).)))))))).....))))))......... ( -36.20, z-score =  -1.20, R)
>droMoj3.scaffold_6496 12427689 82 - 26866924
-------------GCAACAUUGCAGCAUGAAAUUUGUUUGUGGUCUUAGCCAUAAGUUUGCCCGUCGACAGGCAACUUGCGGCUGCUGCCGUUUG
-------------(((....)))((((.......))))...(((..(((((.((((((.(((.(....).))))))))).)))))..)))..... ( -24.20, z-score =  -0.31, R)
>droGri2.scaffold_15245 4846993 73 - 18325388
----------------------CAGCAUGAAAUUUGUUUGUGGUCUUAGCCAUAAGUUUGCCCGUCGACAGGCAACUUGUGGCGGCUGCCAUUUG
----------------------.((((.......)))).(((((....((((((((((.(((.(....).)))))))))))))....)))))... ( -25.70, z-score =  -2.31, R)
>consensus
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
......................(((.(((..........((((((...((((((((((.(((.(....).))))))))))))))))))))))))) (-22.86 = -22.04 +  -0.81)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,263,483 – 12,263,578
Length 95
Sequences 9
Columns 95
Reading direction reverse
Mean pairwise identity 81.40
Shannon entropy 0.38775
G+C content 0.49911
Mean single sequence MFE -30.34
Consensus MFE -22.86
Energy contribution -22.04
Covariance contribution -0.81
Combinations/Pair 1.31
Mean z-score -1.65
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.930286
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12263483 95 - 21146708
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
..........((......))..(((((............((((((...((((((((((.(((.(....).))))))))))))))))))).))))) ( -31.02, z-score =  -1.63, R)
>droSim1.chr2R 10995159 95 - 19596830
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
..........((......))..(((((............((((((...((((((((((.(((.(....).))))))))))))))))))).))))) ( -31.02, z-score =  -1.63, R)
>droSec1.super_1 9761156 95 - 14215200
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
..........((......))..(((((............((((((...((((((((((.(((.(....).))))))))))))))))))).))))) ( -31.02, z-score =  -1.63, R)
>droYak2.chr2R 4417300 95 + 21139217
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
..........((......))..(((((............((((((...((((((((((.(((.(....).))))))))))))))))))).))))) ( -31.02, z-score =  -1.63, R)
>droEre2.scaffold_4845 8992669 95 + 22589142
UACAACUUUAGCUACAUUGCAUCAGCCCAAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGGUGGCUG
........(((((((...((....(((((((.....)))).)))....((((((((((.(((.(....).))))))))))))).))..))))))) ( -32.70, z-score =  -2.24, R)
>droAna3.scaffold_13266 15639469 90 - 19884421
-----UAAAAGCUACAUAACUGCAGCACGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUCCUAGCUG
-----....(((((....(((((((.((((...)))))))))))....((((((((((.(((.(....).)))))))))))))......))))). ( -30.20, z-score =  -2.39, R)
>droVir3.scaffold_12875 18767348 95 - 20611582
UGCUGCCUCUGCUGCAGCAUUGCAGCAUGAAAUUUGUUUGUGGUCUCGGCCAUAAGUUUGCCCGUCGACAGGCAACUUGCGGCGGCUGCCGUUUG
.((((((((((((((......)))))).))...((((((((.(...(((.((......)).))).).)))))))).....))))))......... ( -36.20, z-score =  -1.07, R)
>droMoj3.scaffold_6496 12427689 82 - 26866924
-------------GCAACAUUGCAGCAUGAAAUUUGUUUGUGGUCUUAGCCAUAAGUUUGCCCGUCGACAGGCAACUUGCGGCUGCUGCCGUUUG
-------------(((....)))((((.......))))...(((..(((((.((((((.(((.(....).))))))))).)))))..)))..... ( -24.20, z-score =  -0.31, R)
>droGri2.scaffold_15245 4846993 73 - 18325388
----------------------CAGCAUGAAAUUUGUUUGUGGUCUUAGCCAUAAGUUUGCCCGUCGACAGGCAACUUGUGGCGGCUGCCAUUUG
----------------------.((((.......)))).(((((....((((((((((.(((.(....).)))))))))))))....)))))... ( -25.70, z-score =  -2.31, R)
>consensus
UACAACUUUAGCUACAUUGCAUCAGCCCGAAAUUUGUUUGCGGUCUUAGCCAUAAGUUUGUCCGUCGACAGGCAACUUGUGGCGGCUGCUGGCUG
......................(((.(((..........((((((...((((((((((.(((.(....).))))))))))))))))))))))))) (-22.86 = -22.04 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:27:10 2011