Locus 5282

Sequence ID 3R_DroMel_CAF1
Location 13,782,477 – 13,782,572
Length 95
Max. P 0.732481
window8620

overview

Window 0

Location 13,782,477 – 13,782,572
Length 95
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 78.07
Mean single sequence MFE -22.08
Consensus MFE -13.28
Energy contribution -13.00
Covariance contribution -0.28
Combinations/Pair 1.06
Mean z-score -1.67
Structure conservation index 0.60
SVM decision value 0.43
SVM RNA-class probability 0.732481
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13782477 95 - 27905053
GGCAGGCUGGUAAUGGCAGGGUGGGAAUGG------AGAGUCUCGGCUGAUUAGCAUAAUUGACUUUGUGUUAAAUUUAGCAUUUAAUUAAUGCGAAUGCA
.(((.(((......))).((.(((((....------....))))).))..(((((((((......))))))))).....(((((.....)))))...))). ( -22.20)
>DroSec_CAF1 54762 93 - 1
AGCAGGCUGGAAAU-GCAGGGUGGGAAUGG-------CAGUCUUGGCUGAUUAGCAUAAUUGACUUUGUGUUAAAUUUAGCAUUUAAUUAAUGCGAAUGCA
.(((..(....(((-(((((((.((....(-------(((((......)))).))....)).)))))))))).......(((((.....))))))..))). ( -23.60)
>DroSim_CAF1 54007 93 - 1
AGCAGGCUGGAAAU-GCAGGGUGGGAAUGG-------CAGUCUUGGCUGAUUAGCAUAAUUGACUUUGUGUUAAAUUUAGCAUUUAAUUAAUGCGAAUGCA
.(((..(....(((-(((((((.((....(-------(((((......)))).))....)).)))))))))).......(((((.....))))))..))). ( -23.60)
>DroEre_CAF1 53332 73 - 1
AGCAGGGUG----------------------------GGGUUUCGGCUGAUUAGCAUAAUUGACUUUGUGUUAAAUUUAGCAUUUAAUUAAUGCGGCUGCA
.(((((((.----------------------------(.....).)))..(((((((((......))))))))).....(((((.....)))))..)))). ( -19.40)
>DroYak_CAF1 61411 95 - 1
AACAGGGUGGAAAU-G-----UGUAAGUGGCAGGCUGGAGUUUCGGCUGAUUAGCAUAAUUGACUUUGUGUUAAAUUUAGCAUUUAAUUAAUGCGACUGCA
.(((.(.......)-.-----))).....(((((((((....)))))...(((((((((......))))))))).....(((((.....)))))..)))). ( -22.20)
>DroAna_CAF1 55801 84 - 1
--GAGGAAGGCAUA-CCAGAGUG--------------GAGUGUCGGCUGAUUAGCAUAAUUGACUUUGUGUUAAAUUUAGCAUUUAAUUAAUGUGGAAACA
--......(((((.-((.....)--------------).))))).((((((((((((((......)))))))))..)))))............((....)) ( -21.50)
>consensus
AGCAGGCUGGAAAU_GCAGGGUGGGAAUGG_______GAGUCUCGGCUGAUUAGCAUAAUUGACUUUGUGUUAAAUUUAGCAUUUAAUUAAUGCGAAUGCA
.............................................((((((((((((((......)))))))))..)))))..........(((....))) (-13.28 = -13.00 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:01 2006