Locus 1498

Sequence ID 2L_DroMel_CAF1
Location 4,023,826 – 4,023,945
Length 119
Max. P 0.994177
window2429 window2430

overview

Window 9

Location 4,023,826 – 4,023,924
Length 98
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 92.91
Mean single sequence MFE -35.86
Consensus MFE -33.32
Energy contribution -33.52
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.20
Structure conservation index 0.93
SVM decision value 0.48
SVM RNA-class probability 0.751719
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4023826 98 + 22407834
GGCAAAGC-------GGCAGCAG-GGGGUUAAGGCAAAUGAUCAGGGUGCUAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGAAACGGUCCACUCC
......((-------....))..-((((((((((((..(.....)..)))....(((....)))......)))))))))..(((((..(((....)))...))))) ( -36.50)
>DroSec_CAF1 157261 98 + 1
GGCAAAGC-------GGCGGCAG-GGGGUUAAGGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGGAACGGUCCACUCC
......((-------....))..-((((((((((((..(.....)..)))....(((....)))......)))))))))..(((((..(((....)))...))))) ( -34.90)
>DroSim_CAF1 161707 98 + 1
GGCAAAGC-------GGCGGCAG-GGGGUUAAGGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGGAACGGUCCACUCC
......((-------....))..-((((((((((((..(.....)..)))....(((....)))......)))))))))..(((((..(((....)))...))))) ( -34.90)
>DroEre_CAF1 163857 106 + 1
GGCAAAGCGCAAAACGGCAACGGGGGGGUUAAGGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGCAGCGGACCACUCC
.((..(((.(....((....))...).)))...))......(((((((..(((.(((....)))......))).)))))))(((((.((((....))))..))))) ( -37.20)
>DroYak_CAF1 168254 99 + 1
GGCAAAGC-------GGCAGCAGGGGGGUUAAGGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCCCCGGCAACGGUCCACUCC
......((-------....))...((((((((((((..(.....)..)))....(((....)))......)))))))))..(((((..(((....)))...))))) ( -35.80)
>consensus
GGCAAAGC_______GGCAGCAG_GGGGUUAAGGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGCAACGGUCCACUCC
.((...((........)).))...((((((((((((..(.....)..)))....(((....)))......)))))))))..(((((..(((....)))...))))) (-33.32 = -33.52 +   0.20)

alignment

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secondary structure

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dotplot

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Window 0

Location 4,023,850 – 4,023,945
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 90.30
Mean single sequence MFE -34.45
Consensus MFE -30.85
Energy contribution -31.10
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.84
Structure conservation index 0.90
SVM decision value 2.46
SVM RNA-class probability 0.994177
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4023850 95 + 22407834
GGCAAAUGAUCAGGGUGCUAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGAAACGGUCCACUCCUCACCAUCGUCAUCAUCAUCG
(((........(((((...((.(((....)))......))..)))))(((((((..(((....)))...)))))))......))).......... ( -34.90)
>DroSec_CAF1 157285 83 + 1
GGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGGAACGGUCCACUCCUCAUC------------AUCG
.....(((((.(((((..(((.(((....)))......))).)))))(((((((..(((....)))...))))))))))------------)).. ( -33.30)
>DroSim_CAF1 161731 95 + 1
GGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGGAACGGUCCACUCCUCAUCAUCGUCAUCAUCAUCG
(((..(((((.(((((..(((.(((....)))......))).)))))(((((((..(((....)))...)))))))))))).))).......... ( -36.00)
>DroYak_CAF1 168279 92 + 1
GGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCCCCGGCAACGGUCCACUCCUCAUCAUCAU---CAUCAUCG
.....(((((.(((((..(((.(((....)))......))).)))))(((((((..(((....)))...))))))))))))...---........ ( -33.60)
>consensus
GGCAAAUGAUCAGGGUGCGAGGGUCGCAAGACAUAUUACUUAACCCUGGGGAGUCUCCGGGAACGGUCCACUCCUCAUCAUCGU___CAUCAUCG
.......(((.(((((..(((.(((....)))......))).)))))(((((((..(((....)))...)))))))...............))). (-30.85 = -31.10 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:04 2006