Locus 4777

Sequence ID X_DroMel_CAF1
Location 12,416,460 – 12,416,553
Length 93
Max. P 0.658389
window7820

overview

Window 0

Location 12,416,460 – 12,416,553
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 83.91
Mean single sequence MFE -24.08
Consensus MFE -20.89
Energy contribution -20.95
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -1.51
Structure conservation index 0.87
SVM decision value 0.26
SVM RNA-class probability 0.658389
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12416460 93 - 22224390
GACAGUUGCCAAUUGACAGUUGACAGUUGCUAGUUGCCAGUUGACAGUUUCCAGAAACGCAGCAGGAUGUCGCUGCAAACGAAAAGGCAGCAC
....((((((........((..((....((.....))..))..)).((((....))))(((((........))))).........)))))).. ( -27.10)
>DroSec_CAF1 10550 79 - 1
GACAGUUGCCAUUUGACAGUUGACAG--------------UUGACAGUUUCCAGAAACGCAGCAGGAUGUCGCUGCAAACGAAAAGGCAGCAC
....((((((.((((.((((.(((((--------------(((...((((....)))).))))....))))))))))))......)))))).. ( -23.10)
>DroSim_CAF1 11226 79 - 1
GACAGUUGCCAUUUGACAGUUGACAG--------------UUGACAGUUUCCAGAAACGCAGCAGGAUGUCGCUGCAAACGAAAAGGCAGCAC
....((((((.((((.((((.(((((--------------(((...((((....)))).))))....))))))))))))......)))))).. ( -23.10)
>DroYak_CAF1 10334 72 - 1
GACAGUUGCCA-------GCAGCCAG--------------UUGCCAGUUUCCAGGACCGCAGCAGGAUGUCGCUGCAAACGAAAAGGCAGCAC
....((((((.-------((((....--------------))))..............(((((........))))).........)))))).. ( -23.00)
>consensus
GACAGUUGCCAUUUGACAGUUGACAG______________UUGACAGUUUCCAGAAACGCAGCAGGAUGUCGCUGCAAACGAAAAGGCAGCAC
....((((((....................................((((....))))(((((........))))).........)))))).. (-20.89 = -20.95 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:54 2006