Locus 3161

Sequence ID X_DroMel_CAF1
Location 8,402,386 – 8,402,546
Length 160
Max. P 0.963331
window5179 window5180

overview

Window 9

Location 8,402,386 – 8,402,506
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.00
Mean single sequence MFE -31.76
Consensus MFE -30.38
Energy contribution -30.42
Covariance contribution 0.04
Combinations/Pair 1.10
Mean z-score -1.05
Structure conservation index 0.96
SVM decision value -0.03
SVM RNA-class probability 0.516091
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8402386 120 + 22224390
GUAAUCCUCAAGCGAUCCAAGCAUUAUCUCCAGCUGAUCCUCGCGCAGCACUAUGUGCUUGGCAAUGGCCGUUAAACUAUAGAUGGCCUUCAGCCGCACAUCCUCGAUCUCAUCGUUGAA
...........((((....(((..........))).....)))).((((...((((((..(((...(((((((........)))))))....)))))))))....(((...))))))).. ( -32.20)
>DroSec_CAF1 1592 120 + 1
GUAAUCCUCAAGCGAUCCAAGCAUUAUCUCCAGCUGAUCCUCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUUAAACUAUAGAUGGCCUUCAGCCGCACAUCCUCGAUCUCGUCGUUGAA
...........((((....(((..........))).....)))).((((...((((((..(((...(((((((........)))))))....)))))))))...((....))..)))).. ( -32.50)
>DroSim_CAF1 5393 120 + 1
GUAAUCCUCAAGCGAUCCAAGCAUUAUCUCCAGCUGAUCCUCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUUAAACUAUAGAUGGCCUUCAGCCGCACAUCCUCGAUCUCGUCGUUGAA
...........((((....(((..........))).....)))).((((...((((((..(((...(((((((........)))))))....)))))))))...((....))..)))).. ( -32.50)
>DroEre_CAF1 5039 120 + 1
GUAAUCCUCAAGCGAACCAAGCAUUAUCUCCAGCUGAUCCUCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUCAAACUGUAGAUGGCCUUCAAUCGCACAUCCUCGAUCUCGUCGUUAAA
...........((((.(((.((((........((((.........)))).....)))).)))....(((((((........))))))).....)))).......((((...))))..... ( -29.42)
>DroYak_CAF1 4677 120 + 1
GUAAUCCUCCAGCGAACCAAGCAUUAUCUCCAGCUGAUCCUCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUCAAGCUGUAGAUGGCCUUCAACCGCACAUCCUCGAUCUCGUCGUUGAA
.........((((((.....((...((((.((((((((....(((((......)))))..(((....)))))).))))).))))((.......)))).......((....)))))))).. ( -32.20)
>consensus
GUAAUCCUCAAGCGAUCCAAGCAUUAUCUCCAGCUGAUCCUCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUUAAACUAUAGAUGGCCUUCAGCCGCACAUCCUCGAUCUCGUCGUUGAA
...........((((....(((..........))).....)))).((((...((((((..(((...(((((((........)))))))....)))))))))....(((...))))))).. (-30.38 = -30.42 +   0.04)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,402,426 – 8,402,546
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -38.32
Consensus MFE -34.88
Energy contribution -35.12
Covariance contribution 0.24
Combinations/Pair 1.08
Mean z-score -1.56
Structure conservation index 0.91
SVM decision value 1.55
SVM RNA-class probability 0.963331
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8402426 120 + 22224390
UCGCGCAGCACUAUGUGCUUGGCAAUGGCCGUUAAACUAUAGAUGGCCUUCAGCCGCACAUCCUCGAUCUCAUCGUUGAACAUGUCCACAAGGAAAUCUAGGCUGGUCACCGCGAAAUCC
(((((.(((((...)))))((((...(((((((........)))))))..(((((...(((..(((((......)))))..)))(((....)))......))))))))).)))))..... ( -39.20)
>DroSec_CAF1 1632 120 + 1
UCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUUAAACUAUAGAUGGCCUUCAGCCGCACAUCCUCGAUCUCGUCGUUGAACAUAUCCACAAGGAAGUCCAGGCUGGUCACCGCGAAAUCC
(((((((((...((((((..(((...(((((((........)))))))....))))))))).((.((..((.(.((.((.....)).)).).))..)).)))))).....)))))..... ( -38.50)
>DroSim_CAF1 5433 120 + 1
UCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUUAAACUAUAGAUGGCCUUCAGCCGCACAUCCUCGAUCUCGUCGUUGAACAUAUCCACAAGGAAGUCCAGGCUGGUCACCGCGAAAUCC
(((((((((...((((((..(((...(((((((........)))))))....))))))))).((.((..((.(.((.((.....)).)).).))..)).)))))).....)))))..... ( -38.50)
>DroEre_CAF1 5079 120 + 1
UCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUCAAACUGUAGAUGGCCUUCAAUCGCACAUCCUCGAUCUCGUCGUUAAACAUGUCGACAAGGAAGUCCAGGCUGGUCACCGCAAAAUCC
..(((..(.((((...(((((((...(((((((........)))))))............((((.(...(((.(((.....))).)))).)))).).)))))))))))..)))....... ( -36.10)
>DroYak_CAF1 4717 120 + 1
UCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUCAAGCUGUAGAUGGCCUUCAACCGCACAUCCUCGAUCUCGUCGUUGAACAUGUCCACAAGGAAGUCCAGGCUGGUCACCGCGAAAUCC
(((((..(.((((...(((((((...(((((((........)))))))((((((.((..(((...)))...)).))))))....(((....))).).)))))))))))..)))))..... ( -39.30)
>consensus
UCGCGCAGCACUAUGUGCCUGGCAAUGGCCGUUAAACUAUAGAUGGCCUUCAGCCGCACAUCCUCGAUCUCGUCGUUGAACAUGUCCACAAGGAAGUCCAGGCUGGUCACCGCGAAAUCC
(((((((((...((((((..(((...(((((((........)))))))....))))))))).((.(((.((.(.((.((.....)).)).).)).))).)))))).....)))))..... (-34.88 = -35.12 +   0.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:34 2006