Locus 208

Sequence ID 2R_DroMel_CAF1
Location 1,501,047 – 1,501,143
Length 96
Max. P 0.997871
window472 window473

overview

Window 2

Location 1,501,047 – 1,501,143
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 95.31
Mean single sequence MFE -25.58
Consensus MFE -23.90
Energy contribution -23.70
Covariance contribution -0.20
Combinations/Pair 1.08
Mean z-score -1.70
Structure conservation index 0.93
SVM decision value 2.22
SVM RNA-class probability 0.990610
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1501047 96 + 20766785
GUUUACUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGUGCUAAAGCGCUCAGUUCCGUGCACAUGAACUUUCUU
......(((((((.............(((....))).((((((((((((....)))).((((....)))))))..))))))))))))......... ( -24.20)
>DroSec_CAF1 32223 96 + 1
GUUUACUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGCGCUAAAGCGCUCAGUUCCGUGCACAUGAACUUUCUU
......(((((((.............(((....))).((((((((((((....)))).((((....)))))))..))))))))))))......... ( -26.10)
>DroSim_CAF1 36288 96 + 1
GUUUACUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGCGCUAAAGCGCUCAGUUCCGUGCACAUGAACUUUCUU
......(((((((.............(((....))).((((((((((((....)))).((((....)))))))..))))))))))))......... ( -26.10)
>DroEre_CAF1 40317 95 + 1
GUUUGCUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGUGCUG-AGCGCUCAGUUCCGUGCACAUGAACUUUCUU
(((((((((((((......)))))..))))(..((.....))..)((((....)))).((((.(-(((.....))))...))))..))))...... ( -25.50)
>DroYak_CAF1 55292 96 + 1
GUUUGCUAUGUGCUAAAAUGCACAACUGGCUUACAAAACGGGUGAUACAUUUUUGUAAGUGCUGGAGCACUCUAUUCCGUGCACAUGAACUUUCUU
(((((((((((((......)))))..))))((((((((..(......)..))))))))(((((((((.......))))).))))..))))...... ( -26.00)
>consensus
GUUUACUAUGUGCUAAAAUGCACAACUGGCUUGCCAAACGGGUGAUACAUUUUUGUAAGUGCUAAAGCGCUCAGUUCCGUGCACAUGAACUUUCUU
......(((((((.............(((....))).(((((...((((....))))(((((....)))))....))))))))))))......... (-23.90 = -23.70 +  -0.20) 

alignment

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secondary structure

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dotplot

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Window 3

Location 1,501,047 – 1,501,143
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 95.31
Mean single sequence MFE -25.70
Consensus MFE -23.32
Energy contribution -23.76
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -2.08
Structure conservation index 0.91
SVM decision value 2.95
SVM RNA-class probability 0.997871
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1501047 96 - 20766785
AAGAAAGUUCAUGUGCACGGAACUGAGCGCUUUAGCACUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGUAAAC
..........((((((.......((((.((....)).))))..(((((((((.((.....(((....))))).))))))))).))))))....... ( -22.60)
>DroSec_CAF1 32223 96 - 1
AAGAAAGUUCAUGUGCACGGAACUGAGCGCUUUAGCGCUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGUAAAC
..........((((((.......(((((((....)))))))..(((((((((.((.....(((....))))).))))))))).))))))....... ( -28.00)
>DroSim_CAF1 36288 96 - 1
AAGAAAGUUCAUGUGCACGGAACUGAGCGCUUUAGCGCUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGUAAAC
..........((((((.......(((((((....)))))))..(((((((((.((.....(((....))))).))))))))).))))))....... ( -28.00)
>DroEre_CAF1 40317 95 - 1
AAGAAAGUUCAUGUGCACGGAACUGAGCGCU-CAGCACUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGCAAAC
......(((.((((((......((((....)-)))........(((((((((.((.....(((....))))).))))))))).))))))))).... ( -23.30)
>DroYak_CAF1 55292 96 - 1
AAGAAAGUUCAUGUGCACGGAAUAGAGUGCUCCAGCACUUACAAAAAUGUAUCACCCGUUUUGUAAGCCAGUUGUGCAUUUUAGCACAUAGCAAAC
......(((.((((((........((((((....))))))...(((((((((.((..(((.....)))..)).))))))))).))))))))).... ( -26.60)
>consensus
AAGAAAGUUCAUGUGCACGGAACUGAGCGCUUUAGCACUUACAAAAAUGUAUCACCCGUUUGGCAAGCCAGUUGUGCAUUUUAGCACAUAGUAAAC
..........((((((.......(((((((....)))))))..(((((((((.((..(((.....)))..)).))))))))).))))))....... (-23.32 = -23.76 +   0.44) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:29 2006