Locus 1040

Sequence ID 3R_DroMel_CAF1
Location 3,236,526 – 3,236,623
Length 97
Max. P 0.922490
window1685

overview

Window 5

Location 3,236,526 – 3,236,623
Length 97
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 89.49
Mean single sequence MFE -23.82
Consensus MFE -19.42
Energy contribution -20.74
Covariance contribution 1.32
Combinations/Pair 1.07
Mean z-score -1.88
Structure conservation index 0.82
SVM decision value 1.15
SVM RNA-class probability 0.922490
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3236526 97 - 27905053
GCAGAAUCAUUUGAAUUGCAAAACAAACACGAGAGCGUUGACGACAUCGGCCUAUAUAACUAUAUAUAU------CUAUACUCGUUGGACGGGAGUCCAGCUA
((((..((....)).))))...........(((...(((((.....))))).((((((....)))))).------.....)))(((((((....))))))).. ( -22.10)
>DroSec_CAF1 3808 103 - 1
GCAAAUUGAUUUGAAUUGCAAAACAAACACGAGAGCGUUGACGACAUCGGCCUAUAGAACUAUAUAUAUAUAUGUAUAUACACGUUGGACGGGAGUCCAGCUA
((...(((.((((.....)))).)))...(((...((....))...))))).........((((((((....))))))))...(((((((....))))))).. ( -24.20)
>DroSim_CAF1 3856 102 - 1
GCAAAUUCAUUUGAAUUGCAAAACAAACACGAGAGCGUUGACGACAUCG-CCUAUAGAACUAUAUAUAUAUACAUAUAUACUCGUUGGACGGGAGUCCAGCUA
((((.(((....)))))))...........(((.(((.((....)).))-)...........(((((((....))))))))))(((((((....))))))).. ( -26.70)
>DroEre_CAF1 3875 95 - 1
GCAAAUUCAUUUGAAUUGCAAAACAAACACGAGAGCGUCGACGACAUCAGCCUAUAGGACUAUAUA--------UAUAUACUCGUUGGACGGGAGUCCAGCUA
((((.(((....)))))))...........(((...(((...)))...((((....)).)).....--------......)))(((((((....))))))).. ( -23.60)
>DroYak_CAF1 3926 99 - 1
GCAAAUUCAUUUGAAUUGCAAAACAAACACGAGAGACUUGACGACAUCAGCCUAUAGGACUAUAUACA----CAUAUAUACUCGUUGGACGGGAGUCCAGCUA
((((.(((....)))))))...........(((.................((....))..((((((..----..)))))))))(((((((....))))))).. ( -22.50)
>consensus
GCAAAUUCAUUUGAAUUGCAAAACAAACACGAGAGCGUUGACGACAUCGGCCUAUAGAACUAUAUAUAU_____UAUAUACUCGUUGGACGGGAGUCCAGCUA
((((.(((....)))))))...........(((((.(((((.....))))))).......((((((........)))))))))(((((((....))))))).. (-19.42 = -20.74 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:04 2006