Locus 7539

Sequence ID 3L_DroMel_CAF1
Location 20,241,524 – 20,241,643
Length 119
Max. P 0.667145
window12253

overview

Window 3

Location 20,241,524 – 20,241,643
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 86.50
Mean single sequence MFE -29.00
Consensus MFE -23.76
Energy contribution -25.64
Covariance contribution 1.88
Combinations/Pair 1.06
Mean z-score -1.58
Structure conservation index 0.82
SVM decision value 0.28
SVM RNA-class probability 0.667145
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20241524 119 + 23771897
AGAUUCGAUUCGAUUCGAUUAAAACUCUGGUCUAUACGUGGUGAAGGCGAAUUCCAUGCAAUUCGGAUGGCAGAGUGUGUAAAUUUGAUUGAAUCAUCGAACGACAUCCAAUUGCUCAA
...((((((..((((((((((((((((((((((.(((...))).)))).....((((.(.....).)))))))))).......)))))))))))))))))).((((......)).)).. ( -31.21)
>DroSec_CAF1 11027 119 + 1
AGAUUCGAUUCGAUUCGAUUAAAACUCUGGUCUAUACGUGGUGAAGGCUAUUUCCAUGCAAUUCGGAUGGCAGAGUGUGUGAAUUUGAUUGAAUCAUUGAACGACAUCCAAUUGCUCAA
.(((((((((.((((((......((((((((((.(((...))).)))).....((((.(.....).))))))))))...)))))).))))))))).((((.(((.......))).)))) ( -31.90)
>DroSim_CAF1 12537 119 + 1
AGAUUCGAUUCGAUUCGAUUAAAACUCUGGUCUAUACGUGGUGAAGGCAAAUUCCAUGCGAUUCGGAUGGCAGAGUGUGUGAAUUUGAUUGAAUCAUUGAACGACAUCCAAUUGAUCAA
.(((((((((.((((((......((((((((((.(((...))).)))).....((((.((...)).))))))))))...)))))).))))))))).((((.(((.......))).)))) ( -33.20)
>DroEre_CAF1 11754 114 + 1
AGAUUCGA-----UUCGAUUAAAACUCUGGUCUAUUCGUGCUGAAGGCAAAUUCCAUACAAUUAAGAUGGCAGAGUGUGUGAAUUUGAUUGAAUCAUUGAACUAUAUCCAAUUGCUCAA
.(((((((-----((.((((...((((((.........(((.....)))....((((.(......))))))))))).....)))).)))))))))........................ ( -24.60)
>DroYak_CAF1 16304 99 + 1
AGAUUCAA-----UUCGAUUAAAACUUUGGUCUAUACGUGCUGAAGGCAUAUUCCAUACAAUUAGGAUGGCAGAGUGUGUGAAUUUGAUUGAAUCAU---------------UGCUCAA
.(((((((-----((.((((....(((..((........))..)))(((((((((((.(.....).))))...))))))).)))).)))))))))..---------------....... ( -24.10)
>consensus
AGAUUCGAUUCGAUUCGAUUAAAACUCUGGUCUAUACGUGGUGAAGGCAAAUUCCAUGCAAUUCGGAUGGCAGAGUGUGUGAAUUUGAUUGAAUCAUUGAACGACAUCCAAUUGCUCAA
.(((((((((.((((((......((((((((((.((.....)).)))).....((((.(.....).))))))))))...)))))).)))))))))........................ (-23.76 = -25.64 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:44 2006