Locus 1529

Sequence ID 3R_DroMel_CAF1
Location 4,363,861 – 4,363,960
Length 99
Max. P 0.626252
window2538

overview

Window 8

Location 4,363,861 – 4,363,960
Length 99
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 81.31
Mean single sequence MFE -34.21
Consensus MFE -26.14
Energy contribution -26.54
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.76
SVM decision value 0.19
SVM RNA-class probability 0.626252
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4363861 99 + 27905053
C--------------ACUUACCCCC--UCCGCACAACACGUGCAGCAAUGGCGGCCCACUCCAUUUUCAGCGCCCACUCGCCCACUCGUGUGUGUGGUCACAGGGGUGGACCGCA
.--------------..........--...((((.....)))).......((((.(((((((.......(((......)))((((........)))).....))))))).)))). ( -34.60)
>DroSec_CAF1 50986 101 + 1
C--------------ACUUACCCCCUCUCCACACAACACGUGCAGCAAUGGCGGCCCACUCCAUUUUCAGCGCCCACUCGCCCACUCGUGUGUGUGGUCACAGGGGUGGACCGCA
.--------------..(((((((....(((((((.((((.(....(((((.(.....).)))))....(((......)))...).))))))))))).....)))))))...... ( -33.50)
>DroSim_CAF1 41322 101 + 1
C--------------ACUUACCCCCUCUCCGCACAACACGUGCAGCAAUGGCGGCCCACUCCAUUUUCAGCGCCCACUCGCCCACUCGUGUGUGUGGUCACAGGGGUGGACCGCA
.--------------...............((((.....)))).......((((.(((((((.......(((......)))((((........)))).....))))))).)))). ( -34.60)
>DroEre_CAF1 51244 106 + 1
CACUUGCCACUUGCCCCCUACU--CACCCCUCACCACACGUACAGCAAUGGCGACCCACUCCACUUUCAGCGCCCACUCG------AGUGUGUGUGGUCAC-GGGGUGGACCGCA
.....................(--((((((..(((((((((((......((((.................))))......------.)))))))))))...-)))))))...... ( -30.55)
>DroYak_CAF1 43419 109 + 1
CGCUUGCCACUUGCCACUUGCCCCCUCCCCCCACCACACGUGCAGCAAUGGCGACCCACUCCAUUUGCAGCGCCCACUCG------UGUGUGUGUGGUCACAGGGGUGGACCGCA
.((...((((..((.....)).((((......(((((((((((.(((((((.(.....).))).)))).)))).(((...------.))).)))))))...))))))))...)). ( -37.80)
>consensus
C______________ACUUACCCCCUCUCCGCACAACACGUGCAGCAAUGGCGGCCCACUCCAUUUUCAGCGCCCACUCGCCCACUCGUGUGUGUGGUCACAGGGGUGGACCGCA
......................................(((......)))((((.(((((((.......((((.(((..........))).)))).......))))))).)))). (-26.14 = -26.54 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:53 2006