Locus 6080

Sequence ID X_DroMel_CAF1
Location 15,608,978 – 15,609,098
Length 120
Max. P 0.793918
window9873

overview

Window 3

Location 15,608,978 – 15,609,098
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.64
Mean single sequence MFE -40.20
Consensus MFE -31.04
Energy contribution -29.97
Covariance contribution -1.06
Combinations/Pair 1.28
Mean z-score -1.84
Structure conservation index 0.77
SVM decision value 0.60
SVM RNA-class probability 0.793918
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15608978 120 + 22224390
CGGGGUCUUAGCAAGACCGAGGCCAAGCUAGAGGCUAAAGCACUUCUUCGAUAUCUAAAGCUUGAGGAUUGGGAAAAGACUCUGGUUAAUGACCUGACCAUUGGACAGCGGAGAGUGCUG
...(((((.....)))))..((((........))))..((((((.(((((...(((((.....(((..((.....))..)))((((((......)))))))))))...))))))))))). ( -39.40)
>DroSec_CAF1 7067 120 + 1
CGGGGUCUCAGCAAGAUCAAGGCCAAGCUAGAGGCUAAAGCACUUCUUCGAUAUCUAAAGCUUGAGGAUUGGGAAAAGUCUCCGGUCAAUGAGCUGACCAUCGGGCAACGGAGCGUGCUG
...(((((((((..............))).))))))..(((((((((.((((......((((((..((((((((....)).))))))..))))))....))))(....))))).))))). ( -36.34)
>DroSim_CAF1 7027 120 + 1
CGGGGUCUCAGCAAGAUCAAGGCCAAGCUAGAGGCUAAAGCACUUCUUCGAUAUCUAAAGCUUGAUGGUUGGGAAAAGUCUCCGGUCAAUGAGCUGACCAUCGGGCAGCGGAGAGUGCUG
...(((((((((..............))).))))))..((((((.(((((.........(((((((((((.(((......)))(((......))))))))))))))..))))))))))). ( -41.44)
>DroEre_CAF1 7062 120 + 1
CGGGGUCUCAAGAAGAUUGAGGCCCAGCGAGAGGCUAAAACAUUUCUCCGAUAUCUAAAGUUCGAGGAUUGGGAAAACACUCCGGUUAGUGAACUGACCAUGGGACAGAGGAGAGUGGUG
..(((((((((.....)))))))))(((.....)))....((((.(((((....)....((((..(((.((......)).)))((((((....))))))...))))...))))))))... ( -43.60)
>consensus
CGGGGUCUCAGCAAGAUCAAGGCCAAGCUAGAGGCUAAAGCACUUCUUCGAUAUCUAAAGCUUGAGGAUUGGGAAAAGACUCCGGUCAAUGAGCUGACCAUCGGACAGCGGAGAGUGCUG
...(((((.....)))))..((((........))))..((((((.(((((...(((..((((((..(((((((.......)))))))..)))))).......)))...))))))))))). (-31.04 = -29.97 +  -1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:35 2006