Locus 6532

Sequence ID 3L_DroMel_CAF1
Location 17,279,474 – 17,279,567
Length 93
Max. P 0.690038
window10611

overview

Window 1

Location 17,279,474 – 17,279,567
Length 93
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.03
Mean single sequence MFE -34.00
Consensus MFE -20.60
Energy contribution -20.76
Covariance contribution 0.16
Combinations/Pair 1.05
Mean z-score -1.92
Structure conservation index 0.61
SVM decision value 0.33
SVM RNA-class probability 0.690038
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17279474 93 + 23771897
CGUAGUC-----GUCCGGGGAGCCGAGAAAGAAA------------------AGAGGAACGGAAGCGGGC----GAAUGUCCCACGGACAUACAGCUGUCCGUCCGGAUGAGUUUGAAGA
((.(.((-----((((((....))..........------------------...(((.((((....(((----..((((((...))))))...))).))))))))))))).).)).... ( -31.60)
>DroSec_CAF1 163172 93 + 1
CGGAGUC-----GUCCGGGAAGCCCAGAAAGCAA------------------AGAGGAACGGAAGCGGGA----GAAUAUCCCACGGACAUACAGCUGUCCGUCCGGAUGAGUUUGAAGA
((((.((-----(((((((...))).........------------------...(((.(((((((((((----.....))))..(......).))).))))))))))))).)))).... ( -35.40)
>DroSim_CAF1 158242 93 + 1
CGGAGUC-----GUCCGGGAAGCCCAGAAAGCAA------------------AGAGGAACGGAAGCGGGC----GAAUGUCCCACAGACAUACAGCUGUCCGUCCGGAUGAGUUUGAAGA
((((.((-----(((((((...))).........------------------...(((.((((....(((----..(((((.....)))))...))).))))))))))))).)))).... ( -33.20)
>DroEre_CAF1 166232 93 + 1
CG--------GAGUCCUGGAAGCCCAGAAAGGC-------------------AAAGGAACGGAAGCGGGCGGGCAAAUGUCCCACGGACAUACAGCUGUCCGUCCGGACGAGUUUGAAGA
((--------...((((....(((......)))-------------------..)))).))....((((((((((.((((((...)))))).....)))))))))).............. ( -33.00)
>DroYak_CAF1 171147 116 + 1
CGGGGUCCUGGAGUCCUGGAAGCCCAGAAAGGCACGGAUGGGAACUGAAAGGAAAGGAACGGAAGCGGGC----GAAUGUCCCACGGACAUACAGCUGUCCGUCCGGACGAGUUUGAAGA
(((....)))..((((.....(((......)))..(((((((..(((.........(..((....))..)----..((((((...)))))).)))...)))))))))))........... ( -36.80)
>consensus
CGGAGUC_____GUCCGGGAAGCCCAGAAAGCAA__________________AGAGGAACGGAAGCGGGC____GAAUGUCCCACGGACAUACAGCUGUCCGUCCGGAUGAGUUUGAAGA
............((((.((....))..............................(((.(((((((..........(((((.....)))))...))).)))))))))))........... (-20.60 = -20.76 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:15 2006