Locus 3500

Sequence ID 3L_DroMel_CAF1
Location 10,275,517 – 10,275,607
Length 90
Max. P 0.987333
window5466

overview

Window 6

Location 10,275,517 – 10,275,607
Length 90
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 72.56
Mean single sequence MFE -35.02
Consensus MFE -21.43
Energy contribution -21.95
Covariance contribution 0.52
Combinations/Pair 1.25
Mean z-score -2.13
Structure conservation index 0.61
SVM decision value 2.08
SVM RNA-class probability 0.987333
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10275517 90 - 23771897
AUUACAAUGUGUGUGAUUGCUUGGCUCGCUAGGCAGCCGAAAAGGGGG--CG-CAGGGGGUGUG---------GCAGGACCCCGGACACACACACACAC--CCA
.......((((((((..(((((((....)))))))(((........))--).-...(((((.(.---------...).)))))...)))))))).....--... ( -34.50)
>DroPse_CAF1 163136 77 - 1
AUUACAAUGUGUGUGAUUGCUUGGCUGGCGGGGC-------GGGG-GG--GA-UCGAGGGGG-C---------ACAGAACCUCGCCCACACACACA------CA
.......((((((((..((((.....))))((((-------((((-.(--..-((.....))-.---------.)....)))))))).))))))))------.. ( -32.40)
>DroSec_CAF1 150597 74 - 1
AUUACAAUGUGUGUGAUUGCUUGGCUCGCUAAGCAG-----GGGGGGG--CG-CAGGGGGUGUG---------GCAGGACCC---ACACACA----------CA
.......((((((((.((((((((....))))))))-----(((..(.--((-((.....))))---------.)....)))---.))))))----------)) ( -31.60)
>DroSim_CAF1 156677 87 - 1
AUUACAAUGUGUGUGAUUGCUUGGCUCGCUAGGCAGCCGAAAAGGGGG--CG-CAGGGGGUGUG---------GCAGGACCC---ACACACACACCCAC--ACA
.......(((((((...(((((((....)))))))(((........))--))-).(((.(((((---------(......))---)))).....)))))--))) ( -31.50)
>DroAna_CAF1 162770 104 - 1
AUUACAAUGUGUGUGAUUGCUUGGCUCGCUAGGCAGCAGAAGGGGGGGUCCGCCGGGGGGUGUGGUCGGGGCAGCAGGACCUCCCACAUACACAUACACCAAUA
......(((((((((.((((((((....))))))))......((((((((((((....)))((.((....)).)).))))))))).)))))))))......... ( -45.10)
>consensus
AUUACAAUGUGUGUGAUUGCUUGGCUCGCUAGGCAGC_GAAGGGGGGG__CG_CAGGGGGUGUG_________GCAGGACCCC__ACACACACACACAC___CA
.......((((((((.((((((((....))))))))...................((((....................))))...)))))))).......... (-21.43 = -21.95 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:39 2006