Locus 4404

Sequence ID X_DroMel_CAF1
Location 11,620,498 – 11,620,589
Length 91
Max. P 0.637627
window7232

overview

Window 2

Location 11,620,498 – 11,620,589
Length 91
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 81.50
Mean single sequence MFE -31.90
Consensus MFE -21.55
Energy contribution -23.30
Covariance contribution 1.75
Combinations/Pair 1.04
Mean z-score -1.70
Structure conservation index 0.68
SVM decision value 0.21
SVM RNA-class probability 0.637627
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11620498 91 - 22224390
--CAGGUGGGGCAACUGAAAACUGAAAUCUUUGCAGCCGGAAUCGGAAUCCACAGGUGAG------CUUGAGCUG------------GAGCUUGAGCUACAGGUGACAGUC
--...(((((((((..((.........)).))))..(((....)))..)))))..((.((------((..(((..------------..)))..)))))).(....).... ( -26.90)
>DroSec_CAF1 51206 103 - 1
--CAGGUGGGGCAACUGAAAACUGAAGUCUCUGCAGCCGGAAUCGGAAUCCACAGGUGAG------CUUGAGCUGGAGCUGAAGCUGGAGCUUGAGCUACAGGUGACAGUC
--(((.(.((....)).)...)))..(((((((.(((.(((.......))).(((((.((------(((.(((....))).)))))...))))).))).)))).))).... ( -35.70)
>DroEre_CAF1 51659 90 - 1
--CAGGUGGGGCAACUG-A------AAUCUGUGCAGCCGGAAUCGGAAUCCACAGGUGAGCCUGAGCUUGAGCUU------------GAGCUUGAGCUACAGGUGACAGCC
--.......(((.....-.------.(((((((...(((....)))....)))))))..(((((((((..(((..------------..)))..)))).)))))....))) ( -36.80)
>DroYak_CAF1 53032 87 - 1
AACAGGUGGGGCAACUCAA------AAUCUGUGCAGCCGGAAUCGGAAUCCACAGGUGAG------CUUCAGCUU------------AAGCUUGAGCUACAGGUGACAGUC
......((((....)))).------.(((((((...(((....)))....))))))).((------(((.(((..------------..))).)))))...(....).... ( -28.20)
>consensus
__CAGGUGGGGCAACUGAA______AAUCUGUGCAGCCGGAAUCGGAAUCCACAGGUGAG______CUUGAGCUG____________GAGCUUGAGCUACAGGUGACAGUC
.....(((((....)...........(((((((...(((....)))....))))))).........((..(((((((((....)))))))))..)))))).(....).... (-21.55 = -23.30 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:08 2006