Locus 2175

Sequence ID X_DroMel_CAF1
Location 5,898,549 – 5,898,730
Length 181
Max. P 0.973881
window3526 window3527

overview

Window 6

Location 5,898,549 – 5,898,651
Length 102
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.10
Mean single sequence MFE -36.00
Consensus MFE -29.52
Energy contribution -29.72
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.82
SVM decision value 1.00
SVM RNA-class probability 0.898746
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5898549 102 - 22224390
UGCUAGUGGGUUAACUUGGCUAAAAGGCUUAUCCUAUGCCACAAAUGCCAGUCUUGGUA------------------GACUCGGUAGACCUGGUGGAAAACCCAACCAGUCCAAGAGUCG
((((((..(((.....((((....(((.....)))..)))).....)))....))))))------------------(((((....(((.((((((.....)).)))))))...))))). ( -31.00)
>DroSec_CAF1 15281 102 - 1
UGCUAGUGGGUUAAGUUGGCUAAAAGGCUUAUCCUAUGCCACAAAUGCCAGUCUUGGUA------------------GACUCGGUAGACCUGGUGGAAAACCCAACCAGUCCAAGAGUCG
.((..(((((.((((((........)))))).)))))))......((((......))))------------------(((((....(((.((((((.....)).)))))))...))))). ( -31.40)
>DroSim_CAF1 12588 102 - 1
UGCUAGUGGGUUAAGUUGGCUAAAAGGCUUAUCCUAUGCCACAAAUGCCAGUCUUGGUA------------------GACUCGGUAGACCUGGUGGAAAACCCAACCAGUCCAAGAGUCG
.((..(((((.((((((........)))))).)))))))......((((......))))------------------(((((....(((.((((((.....)).)))))))...))))). ( -31.40)
>DroEre_CAF1 15370 111 - 1
GGCUAGUGGGUUAAGUUGGCUAAAAGGCUUAUCCUAUGCCACAAAUGCCAGUCUUGGUA---------GAUUCGGCAGACUCGGCAGACCUGGUGGAAAGCCCAACCAGUCCGAGAGUCG
(((..(((((.((((((........)))))).)))))))).....(((((((((....)---------)))).))))(((((..(.(((.((((((.....)).))))))).).))))). ( -42.00)
>DroYak_CAF1 15475 120 - 1
UGCCAGUGGGUUAAGUUGCCUAAAAGGCUUAUCCUAUGCCACAAAUGCCAGUCUUGGUAGACGCGGUAGAUGCGGUAGACUCGGCAGACCUGGUGGAAAACCCAACCAGUCCAAGAGUCG
.(((..(((((......)))))...)))........((((.((..((((.((((....))))..))))..)).))))(((((....(((.((((((.....)).)))))))...))))). ( -44.20)
>consensus
UGCUAGUGGGUUAAGUUGGCUAAAAGGCUUAUCCUAUGCCACAAAUGCCAGUCUUGGUA__________________GACUCGGUAGACCUGGUGGAAAACCCAACCAGUCCAAGAGUCG
.((..(((((.((((((........)))))).)))))))......((((......))))..................(((((....(((.((((((.....)).)))))))...))))). (-29.52 = -29.72 +   0.20)

alignment

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secondary structure

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dotplot

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Window 7

Location 5,898,611 – 5,898,730
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.89
Mean single sequence MFE -32.12
Consensus MFE -25.50
Energy contribution -25.42
Covariance contribution -0.08
Combinations/Pair 1.14
Mean z-score -2.49
Structure conservation index 0.79
SVM decision value 1.72
SVM RNA-class probability 0.973881
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5898611 119 - 22224390
AAAUCAUGGGAAACCCUAAUUACCGUAGC-ACAAACCAAACAGUAAGCAAACGUUUACUUUUCGUUAAUUUAGCAAUGGCUGCUAGUGGGUUAACUUGGCUAAAAGGCUUAUCCUAUGCC
....((((((((((((..((((..(((((-.((........(((((((....)))))))....((((...))))..)))))))))))))))).....((((....))))..))))))).. ( -29.90)
>DroSec_CAF1 15343 119 - 1
AAAUCAUGGGAAACCCUAAUUACCGUAGC-ACAAACCAAACAGUAAGCAAACGUUUACUUUUCGCUAAUUUAGCAAUGGCUGCUAGUGGGUUAAGUUGGCUAAAAGGCUUAUCCUAUGCC
....((((((((((((..((((..(((((-.((........(((((((....)))))))....((((...))))..)))))))))))))))).....((((....))))..))))))).. ( -32.30)
>DroSim_CAF1 12650 119 - 1
AAAUCAUGGGAAACCCUAAUUACCGUAGC-ACAAACCGAACAGUAAGCAAACGUUUACUUUUCGCUAAUUUAGCAAUGGCUGCUAGUGGGUUAAGUUGGCUAAAAGGCUUAUCCUAUGCC
....((((((((((((..((((..(((((-.((....(((.(((((((....))))))).)))((((...))))..)))))))))))))))).....((((....))))..))))))).. ( -36.00)
>DroEre_CAF1 15441 119 - 1
AAAUCAUGGGAAACUCUAAUUACCGCAGC-AAAAACGAAACAGUAAGCAAACGUUUACUUUUCGCUAAUUUAGCAACGGCGGCUAGUGGGUUAAGUUGGCUAAAAGGCUUAUCCUAUGCC
....((((((((((((..((((((((...-......((((.(((((((....)))))))))))((((...))))....)))).))))))))).....((((....))))..))))))).. ( -34.00)
>DroYak_CAF1 15555 120 - 1
AAAUCAUGAGAAACUCUAAUUACCGUAGCGAAAAACAAAGCAGUGAGCAAACGUUUACUUUUCGCUAAUUUAGCAACGGUUGCCAGUGGGUUAAGUUGCCUAAAAGGCUUAUCCUAUGCC
....((((.((..........((((((((((((........(((((((....)))))))))))))).........))))).(((..(((((......)))))...)))...)).)))).. ( -28.40)
>consensus
AAAUCAUGGGAAACCCUAAUUACCGUAGC_ACAAACCAAACAGUAAGCAAACGUUUACUUUUCGCUAAUUUAGCAAUGGCUGCUAGUGGGUUAAGUUGGCUAAAAGGCUUAUCCUAUGCC
....((((((((((((..((((..(((((............(((((((....)))))))....((((...))))....)))))))))))))).....((((....))))..))))))).. (-25.50 = -25.42 +  -0.08)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:57 2006