Locus 4064

Sequence ID 3R_DroMel_CAF1
Location 11,069,404 – 11,069,496
Length 92
Max. P 0.768575
window6513

overview

Window 3

Location 11,069,404 – 11,069,496
Length 92
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 80.78
Mean single sequence MFE -28.73
Consensus MFE -19.75
Energy contribution -20.25
Covariance contribution 0.50
Combinations/Pair 1.12
Mean z-score -1.82
Structure conservation index 0.69
SVM decision value 0.52
SVM RNA-class probability 0.768575
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11069404 92 + 27905053
GACCUGGCUUCAGCAGCGUGGUUUACAUAUAUUU------AAGU------AUAUGCAUGUGUGUGUGUGCUUGUGAGGGCGCGUGUGUUUGCGUUUUUAGCAUU
((((..(((.....)))..))))..........(------((((------(((((((....))))))))))))((((((((((......))))))))))..... ( -25.90)
>DroSec_CAF1 13086 102 + 1
GACCUGGCUUCAGCAGCGUGGUUUACAUAUAUAUGGUCGUAUGUACAUAAAUAUGCAUGUGU--GUGUGCUUGGGGGAGCGCGUGUGUUUGCGUUGUUAGCAUU
......(((..(((((((..(..((((((((((((..(((((........))))))))))))--))((((((....)))))))))...)..))))))))))... ( -32.50)
>DroSim_CAF1 13123 104 + 1
GACCUGGCUUCAGCAGCGUGGUUUACAUAUAUAUGGUCGUAUGUACAUAAAUAUGCAUGUGUGUGUGUGCUUGGGGGAGCGCGUGUGUUUGCGUUUUUAGCAUU
((((..(((.....)))..))))((((((((((((..(((((........)))))))))))))))))((((...(((((((((......))))))))))))).. ( -31.40)
>DroYak_CAF1 13058 82 + 1
GACCUGGCUUCAGCAGCGUGGUUUUUAUAUG------------UAC----AUACGCAUGUGUGUGUGUGCU------GGCGCGCGUGUUUGCGUUUUUAGCAUU
......((((((((.(((((.......))))------------)((----((((((....)))))))))))------)).(((((....)))))....)))... ( -25.10)
>consensus
GACCUGGCUUCAGCAGCGUGGUUUACAUAUAUAU______AUGUAC____AUAUGCAUGUGUGUGUGUGCUUGGGGGAGCGCGUGUGUUUGCGUUUUUAGCAUU
......(((.....((((..(...((((((....................((((((....))))))((((((....)))))))))))))..))))...)))... (-19.75 = -20.25 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:15 2006