Locus 5026

Sequence ID 3R_DroMel_CAF1
Location 13,241,241 – 13,241,335
Length 94
Max. P 0.528003
window8212

overview

Window 2

Location 13,241,241 – 13,241,335
Length 94
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.42
Mean single sequence MFE -20.80
Consensus MFE -17.48
Energy contribution -17.44
Covariance contribution -0.04
Combinations/Pair 1.22
Mean z-score -1.39
Structure conservation index 0.84
SVM decision value -0.01
SVM RNA-class probability 0.528003
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13241241 94 - 27905053
CGCA--------------------------AUAGCAUCACUAGUGGGCAGCUAAUUAAAUAAUAUAAAUACUCUCAAGCAGGGCAUAAAUCACAACCUUGUGGUAUAUGCAGGCUAGGAA
....--------------------------.((((.(((....)))...))))..................(((..(((...(((((.((((((....)))))).)))))..))).))). ( -21.50)
>DroSec_CAF1 271031 94 - 1
CGCA--------------------------AUGGCAUCGUUGGUAGGCAGCUAAUUAAAUAAUAUAAAUACUCUAAAGCAAGGCAUAAAUCACAACCUUGUGGUAUAUGCAGGCUAGGAA
.((.--------------------------...))...((((((.....))))))................(((..(((...(((((.((((((....)))))).)))))..))).))). ( -20.50)
>DroSim_CAF1 256525 94 - 1
CGCA--------------------------AUGGCAUCGUUGGUAAGCAGCUAAUUAAAUAAUAUAAAUACUCUAAAGCAAGGCAUAAAUCACAACCUUGUGGUAUAUGCAGGCUAGGAA
.((.--------------------------...))...((((((.....))))))................(((..(((...(((((.((((((....)))))).)))))..))).))). ( -20.50)
>DroEre_CAF1 260191 120 - 1
CGCAAUAGCACACCGCAAUAGCACACCGCAAUAGCACAGCUGGUAAGCAGCUAAUUAAAUAAUACAAAUACUCCAACGCAGGGCAUAAAUCACUACCUCAUGGUAUGUGCAGGCUAGGAA
.((....(((((..((..((((.....((....))...(((....))).))))...................((......)))).........((((....)))))))))..))...... ( -24.40)
>DroYak_CAF1 270134 94 - 1
CGCA--------------------------AUAGCAUCGCCGGCAAGCAGCUAAUUAAAUAAUAUAAAUACUCCAACGCAAGGCAUAAAUCACAACCUUAUGGUAUAUGCAGGCUAGGAA
.((.--------------------------...))...((((((.....)))........................(....)(((((.((((........)))).))))).)))...... ( -17.10)
>consensus
CGCA__________________________AUAGCAUCGCUGGUAAGCAGCUAAUUAAAUAAUAUAAAUACUCUAAAGCAAGGCAUAAAUCACAACCUUGUGGUAUAUGCAGGCUAGGAA
...............................((((...(((....))).))))..................(((...((...(((((.((((((....)))))).)))))..))..))). (-17.48 = -17.44 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:34 2006