Locus 5062

Sequence ID X_DroMel_CAF1
Location 13,254,134 – 13,254,230
Length 96
Max. P 0.607872
window8229

overview

Window 9

Location 13,254,134 – 13,254,230
Length 96
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 81.59
Mean single sequence MFE -36.22
Consensus MFE -20.88
Energy contribution -22.12
Covariance contribution 1.25
Combinations/Pair 1.19
Mean z-score -2.04
Structure conservation index 0.58
SVM decision value 0.15
SVM RNA-class probability 0.607872
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13254134 96 + 22224390
GCCCA---------GCCGACUGGAUUGGGGACGGUUGGCAAACGUAAGCUACCAAUGCCACCGAGUGUUACGGUGAAGAAGCAUCGCCAGGAACAGAGGAGCAAG
((...---------.((..(((..((((.((.(((.(((........))))))..((((((((.......))))).....))))).))))...))).)).))... ( -27.40)
>DroSec_CAF1 10531 96 + 1
ACCCA---------GCCGAACGGACUGGGGGCGGCUGGCAAGCGUAAGCUACCGAUGCCACCGAAUGUUUCGAUGAAGAAGCAUCGCCAGGAACAAAAGAACAAG
.((((---------(((....)).)))))(((((.((((((((....))).....)))))))((.((((((......)))))))))))................. ( -38.40)
>DroSim_CAF1 10544 96 + 1
GCCCA---------GCCGAACGGACUGGGGGCGGCUGGAAAGCGUAAGCUACCGAUGCCACCGAAUGUUUCGAUGAAGAAGCAUCGCCAGGAACACAAGAACAAG
.((((---------(((....)).)))))(((((((((..(((....))).)))..)))...((.((((((......)))))))))))................. ( -35.40)
>DroYak_CAF1 10671 105 + 1
GCCCAGGCGAUGCAGCCGAGCGCUGUGGGUGCGGCUGCCAAGCGGAAGCUACCCAUGCCACCAAGUGUUUCGGUCAAGAAGCAUCGGCAGGAACAGCGGAGCAAG
((((.(((......)))....(((((((((((..((((...))))..)).)))).((((.....(((((((......))))))).))))...))))))).))... ( -43.70)
>consensus
GCCCA_________GCCGAACGGACUGGGGGCGGCUGGCAAGCGUAAGCUACCGAUGCCACCGAAUGUUUCGAUGAAGAAGCAUCGCCAGGAACAGAAGAACAAG
..((..........((((..(.......)..))))((((.(((....)))..............(((((((......))))))).)))))).............. (-20.88 = -22.12 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:09 2006