Locus 1315

Sequence ID X_DroMel_CAF1
Location 3,918,475 – 3,918,568
Length 93
Max. P 0.789840
window2099

overview

Window 9

Location 3,918,475 – 3,918,568
Length 93
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.45
Mean single sequence MFE -25.36
Consensus MFE -9.06
Energy contribution -9.70
Covariance contribution 0.64
Combinations/Pair 1.18
Mean z-score -1.90
Structure conservation index 0.36
SVM decision value 0.58
SVM RNA-class probability 0.789840
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3918475 93 + 22224390
------A-CACCAUAUUGGACA------CGAAUUUUCCAUCA--------------GCGAUCUGCAUUUUGGCCAAGGCCACCACUAGCCCCAAAUGAAUUUUUCGUGUUCGUUGGUGGA
------.-(((((...((((((------((((..(((.....--------------((.....))....((((....))))...............)))...)))))))))).))))).. ( -29.50)
>DroSec_CAF1 35099 93 + 1
------A-CUCCAUACUGGACA------CGAAUUUUCCAUCA--------------GCGUUGUGCAUUUUGGCCAAGGCCACCACUAGCCCCAAAUGAAUUUUUCGUGUUCGUCGGUGGA
------.-.(((((..((((((------((((..(((.....--------------((...(((.....((((....)))).)))..)).......)))...))))))))))...))))) ( -28.50)
>DroEre_CAF1 41075 93 + 1
------A-GUCCGUACUGGACA------CGAAUUUUCCAUCA--------------GCGAUCUGCUUUUCGGCCAAGGCCACCACUAGCCCCAAAUGAAUUUUUCGUGUUCGUUGGUGGA
------.-((((.....)))).------.......(((((((--------------((((...(((....(((....)))......))).....((((.....))))..))))))))))) ( -28.60)
>DroYak_CAF1 40143 100 + 1
------ACCUCGAUACUGGACACGAACACGAAUUUUCCAUCA--------------GCGAUCUGCUUUUUGGACAAGGCCACCACUAGCCCCAAAUGAAUUUUUCGUGUUCGUCAAUGGA
------.((........))..(((((((((((...((((..(--------------((.....)))...))))...(((........)))............)))))))))))....... ( -26.10)
>DroAna_CAF1 25083 107 + 1
UUGAUUUUCUUUAAUCCGGACA------CGAAUUUUCCAUUUUCCUUCCAUCCAACGCGAUCUU-------CCCAAGGCCACCACUAUACUCAAAUGAAUUUUUCGUGUUAUGCUGGAGA
..............((((((((------((((.....(((((.......(((......)))...-------.....((...)).........))))).....)))))))....))))).. ( -14.10)
>consensus
______A_CUCCAUACUGGACA______CGAAUUUUCCAUCA______________GCGAUCUGCAUUUUGGCCAAGGCCACCACUAGCCCCAAAUGAAUUUUUCGUGUUCGUCGGUGGA
.................(((...............)))................................(((....))).(((((.((.....((((.....))))....)).))))). ( -9.06 =  -9.70 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:21 2006