Locus 5366

Sequence ID X_DroMel_CAF1
Location 13,964,253 – 13,964,355
Length 102
Max. P 0.716655
window8711

overview

Window 1

Location 13,964,253 – 13,964,355
Length 102
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.74
Mean single sequence MFE -25.70
Consensus MFE -19.58
Energy contribution -20.57
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.76
SVM decision value 0.39
SVM RNA-class probability 0.716655
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13964253 102 + 22224390
CAGAGCACGUGUGUGUCCCUCUUCACACCCUCA-----------------ACCGCUCACCACGCCCCCAAGUCCGCCC-ACUUGGUCCCUAAAAAAGCGAGCGGAGUCCUUGCAUUUUAU
....(((.(.(((((........))))).)...-----------------.((((((.........((((((......-))))))...((.....)).))))))......)))....... ( -25.00)
>DroSec_CAF1 15683 102 + 1
CAGAGCACGUGUGUGUCCCUCUUCACACCCUCA-----------------ACCGCUCACCACGCCCCCAAGUCCGCCC-ACUUGGUCUCUAAAAAAGCGAGCGGAGUCCUUGCAUUUUAU
....(((.(.(((((........))))).)...-----------------.((((((.........((((((......-))))))...((.....)).))))))......)))....... ( -24.80)
>DroSim_CAF1 16208 102 + 1
CAGAGCACGUGUGUGUCCCUCUUCACACCCUCA-----------------ACCGCUCACCACGCCCCCAAGUCCGCCC-ACUUGGUCUCUAAAAAAGCGAGCGGAGUCCUUGCAUUUUAU
....(((.(.(((((........))))).)...-----------------.((((((.........((((((......-))))))...((.....)).))))))......)))....... ( -24.80)
>DroYak_CAF1 16067 120 + 1
CAGAGCACGUGUGUGUCCCACUUCACACCCUCACCAGAGCCACCAGCUCACCAGCUCACCACGCCCCCAAGACCGCCCAACUUGCUCUCUAAAAAAGCGAGCGAAGUCCUUGCAUUUUAU
..((((..(.(((((........))))).)......((((.....))))....)))).................((...((((((((.((.....)).)))).))))....))....... ( -28.20)
>consensus
CAGAGCACGUGUGUGUCCCUCUUCACACCCUCA_________________ACCGCUCACCACGCCCCCAAGUCCGCCC_ACUUGGUCUCUAAAAAAGCGAGCGGAGUCCUUGCAUUUUAU
....(((.(.(((((........))))).).....................((((((.........((((((.......))))))...((.....)).))))))......)))....... (-19.58 = -20.57 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:16 2006