Locus 672

Sequence ID 2L_DroMel_CAF1
Location 1,971,030 – 1,971,139
Length 109
Max. P 0.916445
window1101 window1102

overview

Window 1

Location 1,971,030 – 1,971,139
Length 109
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 90.48
Mean single sequence MFE -28.23
Consensus MFE -20.37
Energy contribution -22.03
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -2.58
Structure conservation index 0.72
SVM decision value 0.15
SVM RNA-class probability 0.606434
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1971030 109 + 22407834
A---GGUAGCUUUUAGUGCAAUAUUUAGAUCUAUUCUUGUAAGUCGAAGACUCGUUUGUCCAUCAUUGAGGUCUACUGAUGAUAGAUCUAAGUCUUUAAAGCCACCAAAAUA
.---(((.(((((.((......(((((((((((((......(((.((...((((..((.....)).)))).)).)))...)))))))))))))))..))))).)))...... ( -27.50)
>DroSec_CAF1 13477 112 + 1
AGAUGGUAGCUUUUAGUGCAAUAUUUAGAUCUAGUCUUGUAUGUCCCAGACUGGCUUUUCCAUCAUUAAGGACUACUGACGAAAGAUCUAAGUCUUUAAAACCACCAAUAUA
.(.((((.((.......))...((((((((((.(((..(((.((((..((.(((.....))))).....))))))).)))...)))))))))).......)))).)...... ( -26.90)
>DroSim_CAF1 17523 112 + 1
AGAUGGUAGCUUUUAGUGCAAUAUUUAGAUCUAGUCUUGUAUGUCCCAGACUGGCUUUUCCAUCAUUAAGGACUACUGACGAAAGAUCUAAGUCUUUAAAGCCACCAAUAUA
...((((.(((((.((......((((((((((.(((..(((.((((..((.(((.....))))).....))))))).)))...))))))))))))..))))).))))..... ( -30.30)
>consensus
AGAUGGUAGCUUUUAGUGCAAUAUUUAGAUCUAGUCUUGUAUGUCCCAGACUGGCUUUUCCAUCAUUAAGGACUACUGACGAAAGAUCUAAGUCUUUAAAGCCACCAAUAUA
....(((.(((((.((......((((((((((.(((..(((.((((..((.(((.....))))).....))))))).)))...))))))))))))..))))).)))...... (-20.37 = -22.03 +   1.67)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 1,971,030 – 1,971,139
Length 109
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 90.48
Mean single sequence MFE -30.77
Consensus MFE -24.24
Energy contribution -24.80
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -3.49
Structure conservation index 0.79
SVM decision value 1.11
SVM RNA-class probability 0.916445
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1971030 109 - 22407834
UAUUUUGGUGGCUUUAAAGACUUAGAUCUAUCAUCAGUAGACCUCAAUGAUGGACAAACGAGUCUUCGACUUACAAGAAUAGAUCUAAAUAUUGCACUAAAAGCUACC---U
......(((((((((.((...(((((((((((((((...(....)..))))))......(((((...))))).......)))))))))...))......)))))))))---. ( -27.30)
>DroSec_CAF1 13477 112 - 1
UAUAUUGGUGGUUUUAAAGACUUAGAUCUUUCGUCAGUAGUCCUUAAUGAUGGAAAAGCCAGUCUGGGACAUACAAGACUAGAUCUAAAUAUUGCACUAAAAGCUACCAUCU
.....((((((((((.((...((((((((...(((.((((((((....(((((.....))).)).))))).)))..))).))))))))...))......))))))))))... ( -31.30)
>DroSim_CAF1 17523 112 - 1
UAUAUUGGUGGCUUUAAAGACUUAGAUCUUUCGUCAGUAGUCCUUAAUGAUGGAAAAGCCAGUCUGGGACAUACAAGACUAGAUCUAAAUAUUGCACUAAAAGCUACCAUCU
.....((((((((((.((...((((((((...(((.((((((((....(((((.....))).)).))))).)))..))).))))))))...))......))))))))))... ( -33.70)
>consensus
UAUAUUGGUGGCUUUAAAGACUUAGAUCUUUCGUCAGUAGUCCUUAAUGAUGGAAAAGCCAGUCUGGGACAUACAAGACUAGAUCUAAAUAUUGCACUAAAAGCUACCAUCU
......(((((((((.((...(((((((((((((((...........)))))))......(((((.(......).)))))))))))))...))......))))))))).... (-24.24 = -24.80 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:34 2006