Locus 6497

Sequence ID 3R_DroMel_CAF1
Location 17,111,894 – 17,111,999
Length 105
Max. P 0.612862
window10568

overview

Window 8

Location 17,111,894 – 17,111,999
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 80.79
Mean single sequence MFE -23.50
Consensus MFE -10.44
Energy contribution -15.88
Covariance contribution 5.44
Combinations/Pair 1.15
Mean z-score -3.00
Structure conservation index 0.44
SVM decision value 0.16
SVM RNA-class probability 0.612862
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17111894 105 + 27905053
AGGCUGAGGCAUUCAGCACGGUUCAACUUAUUAAAUUGUCCAACUCGCUGAUUUGGAUAUUUAAUAUAAAAAUGGAAAAACCACAUUUUACAGAACCAACGAGAA
..((((((...))))))..(((((....((((((((.((((((.((...)).))))))))))))))..((((((.........))))))...)))))........ ( -26.70)
>DroSec_CAF1 24179 105 + 1
AGGCUGAAGCGUUCAGCACGGUUCAACUUAUUAAAUAGUCCAACUCACUGAUUUGGACAUUUAAUGUAAAAAUGGAAAAACCACAUUUUCCAGAACCAACGAGAA
..(((((.....)))))..(((((....((((((((.((((((.((...)).))))))))))))))......(((((((......))))))))))))........ ( -32.20)
>DroSim_CAF1 24326 105 + 1
AGGAUGAAGCAUUCAGCACGGUUCAACUUAUUAAAUUGUCCAACUCGCUGAAUUGGACAUUUAAUAUAAAAAUUGAAAAACCACAUUUUCCAGAGCCAACGAGAA
.(((((...))))).....(((((....((((((((.((((((.((...)).))))))))))))))........(((((......)))))..)))))........ ( -23.10)
>DroEre_CAF1 24162 81 + 1
AGGCUGAAGCGUUCAACACGGUUCAACUUAUUAAAUUGUCCAACACACUAAG--GGA--------------------AAACCACAUUUUCCA--AAUAACGAGAA
(((.((((.(((.....))).)))).)))......................(--(((--------------------((......)))))).--........... ( -12.00)
>consensus
AGGCUGAAGCAUUCAGCACGGUUCAACUUAUUAAAUUGUCCAACUCACUGAUUUGGACAUUUAAUAUAAAAAUGGAAAAACCACAUUUUCCAGAACCAACGAGAA
..((((((...))))))..(((((....((((((((.((((((.((...)).))))))))))))))......(((((((......))))))))))))........ (-10.44 = -15.88 +   5.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:46 2006