Locus 4148

Sequence ID 3R_DroMel_CAF1
Location 11,319,608 – 11,319,715
Length 107
Max. P 0.905357
window6645

overview

Window 5

Location 11,319,608 – 11,319,715
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.32
Mean single sequence MFE -38.78
Consensus MFE -33.36
Energy contribution -34.60
Covariance contribution 1.24
Combinations/Pair 0.97
Mean z-score -1.57
Structure conservation index 0.86
SVM decision value 1.04
SVM RNA-class probability 0.905357
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11319608 107 + 27905053
GGCAAAUGCGGAUCCGCUGGUCCCCGGGGAGUCGCCGACUAGGAUAAGGAGCUGG-------------CCUCCUCCCACAGCAGUCGAGUAAUUAAACUUGAUUAAUUGUCUAGUCAGCA
.((....(((..(((.((((...)))))))..))).((((((.((((...((((.-------------..........))))((((((((......))))))))..)))))))))).)). ( -37.70)
>DroSec_CAF1 58790 107 + 1
GGCAAAUGCGGAUCCGCUGGUCCCCGGGGAGUCCCCGACUAGGAUAAGGAGCUGG-------------CCUCCUCCCACAGCAGUCGAGUAAUUAAACUUGAUUAAUUGUCUAGUCAGCA
......((((((((....)))))..((((...))))((((((.((((...((((.-------------..........))))((((((((......))))))))..)))))))))).))) ( -35.60)
>DroSim_CAF1 55031 107 + 1
GGCAAAUGCGGAUCCGCUGGUCCCCGGGGAGUCCCCGACUAGGAUAAGGAGCUGG-------------CCUCCUCCCACAGCAGUCGAGUAAUUAAACUUGAUUAAUUGUCUAGUCAGCA
......((((((((....)))))..((((...))))((((((.((((...((((.-------------..........))))((((((((......))))))))..)))))))))).))) ( -35.60)
>DroEre_CAF1 53964 107 + 1
GGCGAAUGCGGAUCCGCUGGUCCCCGGGGAGUCCCCGACUAGGAUAAGGAGCUGG-------------CCUCCUCCCACAGCAGUCGAGUAAUUAAACUUGAUUAAUUGUCUAGUCAGCA
((.((..(((....)))...)).))((((...))))((((((.((((...((((.-------------..........))))((((((((......))))))))..)))))))))).... ( -37.30)
>DroYak_CAF1 55449 119 + 1
GGCAAAUGCGGAUCCACUGGUCCCCGGGGAGUC-CCGACUAGGAUAAGGAGCUGGAGCUGGAGGAGGAGCUCCUCCCACAGCGGUCGAGUAAUUAAACUUGAUUAAUUGUCUAGUCAGCA
......(((((((((.((((...))))))).))-).((((((.((((.........((((..(((((....)))))..))))((((((((......))))))))..)))))))))).))) ( -47.70)
>consensus
GGCAAAUGCGGAUCCGCUGGUCCCCGGGGAGUCCCCGACUAGGAUAAGGAGCUGG_____________CCUCCUCCCACAGCAGUCGAGUAAUUAAACUUGAUUAAUUGUCUAGUCAGCA
......(((((.(((.((((...)))))))....))((((((.((((((((..((((((.....))))))..))))......((((((((......))))))))..)))))))))).))) (-33.36 = -34.60 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:24 2006