Locus 1616

Sequence ID 3R_DroMel_CAF1
Location 4,662,757 – 4,662,876
Length 119
Max. P 0.985884
window2661

overview

Window 1

Location 4,662,757 – 4,662,876
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 68.70
Mean single sequence MFE -32.12
Consensus MFE -16.23
Energy contribution -19.85
Covariance contribution 3.62
Combinations/Pair 1.04
Mean z-score -2.27
Structure conservation index 0.51
SVM decision value 2.02
SVM RNA-class probability 0.985884
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4662757 119 - 27905053
GUAGGACCACUCCCUACUACUACCACGAGCUGCUGCUGCAGAAGAAUCUCUUCGAUUCCAGUCUGAAUCUUCUGCCCCAGCAGCAGCAGCAGCAUCA-GCCGGAUCUGGCCAAGAGCAAG
(((((.......)))))...........(((((((((((.((((.....))))(((((......)))))..........))))))))))).((.((.-((((....))))...))))... ( -45.50)
>DroSim_CAF1 12716 113 - 1
GUAGGACCACGCCCUACUACUACCACGAGCUCCUGCUGCAGAAGAAUCUCUUCGAUUCCAGUCUCAAUCUUCUGCCCCAGCAGCA---GCAG---CA-GCCGGAUCUGGCCAAGAGCAAG
(((((.......)))))...........((((((((((((((.(((((.....)))))...)))........(((....))))))---))))---..-((((....))))...))))... ( -35.70)
>DroEre_CAF1 12590 97 - 1
GUAGGACCACGCCCUACUACUACCACGAGCUGCUGCUGCAGAAGAAUCUCUUCGACUCCAGCCUGAAUCUUCUGCCCCAGCAG-AGCAAGAACAGCAA----------------------
(((((.......))))).........(..((((((..((((((((.((................)).))))))))..))))))-..)...........---------------------- ( -30.69)
>DroAna_CAF1 16138 92 - 1
GUCGGACUACGCCGUACUACUACCACGAGUUGUUGCUUCAAAAGAACAUCUUCGAUUCGAGUCUGAAUCUGUUG----------------------------GAUCAAAAUAAGAACAAA
.(((((((.....(((....)))..(((((((.((.(((....)))))....)))))))))))))).((((((.----------------------------......))).)))..... ( -16.60)
>consensus
GUAGGACCACGCCCUACUACUACCACGAGCUGCUGCUGCAGAAGAAUCUCUUCGAUUCCAGUCUGAAUCUUCUGCCCCAGCAG_A___GCAG___CA_____GAUCUGGCCAAGAGCAAG
(((((.......)))))...........(((((((..((((((((.((.((........))...)).))))))))..))))))).................................... (-16.23 = -19.85 +   3.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:54 2006