Locus 3061

Sequence ID X_DroMel_CAF1
Location 8,179,979 – 8,180,085
Length 106
Max. P 0.520178
window5005

overview

Window 5

Location 8,179,979 – 8,180,085
Length 106
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 78.75
Mean single sequence MFE -30.14
Consensus MFE -20.29
Energy contribution -20.10
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.56
Structure conservation index 0.67
SVM decision value -0.03
SVM RNA-class probability 0.520178
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8179979 106 + 22224390
UUGUGGC-CAGGAUAUAUGUGCGCAUAUAUAUCUGCGGGUUAGGAUCUGGUAACCCCGACGC-CACCACCACCGCCGCCAUGGCGUCCCCGUUCCCGCAGCCAC-----CGAC
..(((((-..((((((((((....))))))))))(((((...((....((.....))(((((-((...............))))))).))...))))).)))))-----.... ( -41.56)
>DroSec_CAF1 83229 85 + 1
UUGUGGCCCAGGAUAUAUGUGCGCAUAUAUAUCUGCGGGUUAGGAUCUGGUAACCCCGACGC-CACCGCC-----------------UCCCAUCC-----CCUC-----CGAC
..(((((...((((((((((....))))))))))(.((((((........)))))))...))-)))....-----------------........-----....-----.... ( -24.00)
>DroSim_CAF1 65647 85 + 1
UUGUGGCCCAGGAUAUAUGUGCGCAUAUAUAUCUGCGGGUUAGGAUCUGGUAACCCCGACGC-CACCGCC-----------------CCCCUUCC-----CCUC-----CGAC
..(((((...((((((((((....))))))))))(.((((((........)))))))...))-)))....-----------------........-----....-----.... ( -24.00)
>DroEre_CAF1 73328 90 + 1
UUGUGGC-UAGGAUAUAUGUGCGCAUAUAUAUCUGCGGGUUAGGAUCUGGUAACCCCAAAGCGCACCGCC-----------------CCCCGCCC-----CCUCCCCGCCACA
.((((((-..((((((((((....))))))))))(((((...((...(((.....)))..(((...))))-----------------))))))..-----.......)))))) ( -31.00)
>consensus
UUGUGGC_CAGGAUAUAUGUGCGCAUAUAUAUCUGCGGGUUAGGAUCUGGUAACCCCGACGC_CACCGCC_________________CCCCUUCC_____CCUC_____CGAC
..((((....((((((((((....))))))))))(.((((((........)))))))........))))............................................ (-20.29 = -20.10 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:00 2006