Locus 4492

Sequence ID 3L_DroMel_CAF1
Location 12,979,093 – 12,979,213
Length 120
Max. P 0.992034
window7015 window7016

overview

Window 5

Location 12,979,093 – 12,979,213
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.83
Mean single sequence MFE -26.22
Consensus MFE -24.04
Energy contribution -23.48
Covariance contribution -0.56
Combinations/Pair 1.08
Mean z-score -1.23
Structure conservation index 0.92
SVM decision value 0.05
SVM RNA-class probability 0.559331
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12979093 120 + 23771897
ACCAUUUUGCAUUGUUCGCCACAAAGUAUGCAACAAUAAUUGACAACGCGCAAAGCGGAAACAAAACGCAAACUAAACAAAAAGGGAGCUUUGAAGCAAAGUCCUGGUUAUUUGCCUCAU
(((..(((((((((((.((..........))))))))..(((....(((.....)))....)))...)))))...........((((.(((((...))))))))))))............ ( -22.60)
>DroSec_CAF1 96409 120 + 1
ACCACUUUGCAUUGUUCGCCGCAAAGUAUGCAACAAUAAUUGACAACGCGCAAAGCGGAAACAAAACGCAAACUAAACAAAAAGGGAGCUUUGAAGCAAAGUCCUGGUUAUUUGCCUCAU
.((.((((((((((((....(((.....)))))))))....(......))))))).)).........(((((...(((.....((((.(((((...))))))))).))).)))))..... ( -24.90)
>DroSim_CAF1 106089 120 + 1
ACCACUUUGCAUUGUUCGCCGCAAAGUAUGCAACAAUAAUUGACAACGCGCAAAGCGGAAACAAAACGCAAACUAAACAAAAAGGGAGCUUUGAAGCAAAGUCCUGGUUAUUUGCCUCAU
.((.((((((((((((....(((.....)))))))))....(......))))))).)).........(((((...(((.....((((.(((((...))))))))).))).)))))..... ( -24.90)
>DroEre_CAF1 102213 120 + 1
ACCACUUUGCAUUGUUCGCCACAAAGUAUGCAACAAUAAUUGACAACGCGCAAAGCGGAAACAAAACGCGAACUAAACGAAAAGGGAGCUUUGAGGCAAAGUCCUGGUUAUUUGCCUCAU
.((.((((.....((((((.........(((((......))).)).(((.....)))..........)))))).......)))))).....(((((((((..........))))))))). ( -29.80)
>DroYak_CAF1 100512 120 + 1
ACCACUUUGCAUUGUUCGCCGCAAAGUAUGCAACAAUAAUUGACAACGCGCAAAGCGGAAACAAAACGCAAACUAAACGAAAAGGGAGCUUUGAGGCAAAGUCCUGGUUAUUUGCCUCAU
.(((((((((..........))))))).(((................((.....))(....).....))).............))......(((((((((..........))))))))). ( -28.90)
>consensus
ACCACUUUGCAUUGUUCGCCGCAAAGUAUGCAACAAUAAUUGACAACGCGCAAAGCGGAAACAAAACGCAAACUAAACAAAAAGGGAGCUUUGAAGCAAAGUCCUGGUUAUUUGCCUCAU
.((.((((((.((((.....)))).((.(((((......))).))))..)))))).)).........(((((...(((.....((((.(((((...))))))))).))).)))))..... (-24.04 = -23.48 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 6

Location 12,979,093 – 12,979,213
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.83
Mean single sequence MFE -33.26
Consensus MFE -32.76
Energy contribution -32.48
Covariance contribution -0.28
Combinations/Pair 1.06
Mean z-score -1.74
Structure conservation index 0.98
SVM decision value 2.30
SVM RNA-class probability 0.992034
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12979093 120 - 23771897
AUGAGGCAAAUAACCAGGACUUUGCUUCAAAGCUCCCUUUUUGUUUAGUUUGCGUUUUGUUUCCGCUUUGCGCGUUGUCAAUUAUUGUUGCAUACUUUGUGGCGAACAAUGCAAAAUGGU
.(((((((((..........)))))))))......((.((((((...((((((((...((....))...)))).............((..((.....))..))))))...)))))).)). ( -29.00)
>DroSec_CAF1 96409 120 - 1
AUGAGGCAAAUAACCAGGACUUUGCUUCAAAGCUCCCUUUUUGUUUAGUUUGCGUUUUGUUUCCGCUUUGCGCGUUGUCAAUUAUUGUUGCAUACUUUGCGGCGAACAAUGCAAAGUGGU
.(((((((((..........)))))))))..((...((........))...)).........(((((((((..(((((......((((((((.....)))))))))))))))))))))). ( -33.50)
>DroSim_CAF1 106089 120 - 1
AUGAGGCAAAUAACCAGGACUUUGCUUCAAAGCUCCCUUUUUGUUUAGUUUGCGUUUUGUUUCCGCUUUGCGCGUUGUCAAUUAUUGUUGCAUACUUUGCGGCGAACAAUGCAAAGUGGU
.(((((((((..........)))))))))..((...((........))...)).........(((((((((..(((((......((((((((.....)))))))))))))))))))))). ( -33.50)
>DroEre_CAF1 102213 120 - 1
AUGAGGCAAAUAACCAGGACUUUGCCUCAAAGCUCCCUUUUCGUUUAGUUCGCGUUUUGUUUCCGCUUUGCGCGUUGUCAAUUAUUGUUGCAUACUUUGUGGCGAACAAUGCAAAGUGGU
.(((((((((..........)))))))))..((...((........))...)).........(((((((((..(((((......((((..((.....))..)))))))))))))))))). ( -34.10)
>DroYak_CAF1 100512 120 - 1
AUGAGGCAAAUAACCAGGACUUUGCCUCAAAGCUCCCUUUUCGUUUAGUUUGCGUUUUGUUUCCGCUUUGCGCGUUGUCAAUUAUUGUUGCAUACUUUGCGGCGAACAAUGCAAAGUGGU
.(((((((((..........)))))))))..((...((........))...)).........(((((((((..(((((......((((((((.....)))))))))))))))))))))). ( -36.20)
>consensus
AUGAGGCAAAUAACCAGGACUUUGCUUCAAAGCUCCCUUUUUGUUUAGUUUGCGUUUUGUUUCCGCUUUGCGCGUUGUCAAUUAUUGUUGCAUACUUUGCGGCGAACAAUGCAAAGUGGU
.(((((((((..........)))))))))..((...((........))...)).........(((((((((..(((((......((((((((.....)))))))))))))))))))))). (-32.76 = -32.48 +  -0.28)

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 11:24:51 2006