Locus 4104

Sequence ID 3R_DroMel_CAF1
Location 11,205,622 – 11,205,712
Length 90
Max. P 0.962169
window6571

overview

Window 1

Location 11,205,622 – 11,205,712
Length 90
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 74.67
Mean single sequence MFE -26.22
Consensus MFE -15.50
Energy contribution -15.58
Covariance contribution 0.08
Combinations/Pair 1.29
Mean z-score -2.07
Structure conservation index 0.59
SVM decision value 1.54
SVM RNA-class probability 0.962169
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11205622 90 - 27905053
GGCAACAUCUAUAGGUGGAUGAGCAUCUUGUUGCUUGGAAACAGGUGA---UACC------UUUAAACUAUCUACAGGAAAAG---------UGGGUUCUUAUAAGCU
.....((((((....))))))(((....(((..((((....))))..)---))..------........((((((.......)---------)))))........))) ( -22.70)
>DroSec_CAF1 7672 90 - 1
GGCAACUUCUAUAGGUGGAUGAGCAUCUUGUUGCUUGAAAACAUGUGA---UACU------UUUAUUCUAUCUAUUAGAAAAU---------UGGGUUCUUUAGAACU
(....)(((((((((((((.(((.(((.((((.......))))...))---).))------)....)))))))).)))))...---------..(((((....))))) ( -21.50)
>DroSim_CAF1 7907 99 - 1
GGCAACUUCUAUAGGUGGAUGAGCAUCUUGUUGCUUGAAAACAGGUAAAGGUACUAAAGGUAUCAGUCUAUCCACUAGAAAAU---------UGGGUUCUUUAGAGCU
(....)((((...((((((((..(......(((((((....))))))).(((((.....))))).)..))))))))))))...---------..(((((....))))) ( -28.10)
>DroEre_CAF1 12769 99 - 1
GGCAACUUAUAUAGGUGGAUGAGCACCGUGUUGCUUGGAUACAGCUAA---UACC------UUAAGUCUAUCUACAGGACUCUAUCCAUCUACAGGUUCUUUAGAGCU
(....).....((((((((((......((((((((.(....)))).))---))).------...(((((.......))))).))))))))))..(((((....))))) ( -25.10)
>DroYak_CAF1 8073 99 - 1
GGCAACUUCUAUAGGUGGAUAAGCACCGUGUUGCUUGGAUACAGGUGA---UACC------CCUAGUCCACCUACAGGAAUCUAUCUAUCCACAGGUUCUUUAGAGCU
(((...((((.(((((((((.((....((((..((((....))))..)---))).------.)).))))))))).)))).((((.....((...)).....))))))) ( -33.70)
>consensus
GGCAACUUCUAUAGGUGGAUGAGCAUCUUGUUGCUUGGAAACAGGUGA___UACC______UUUAGUCUAUCUACAGGAAAAU_________UGGGUUCUUUAGAGCU
(....).....((((((((((((((......))))).......((((....))))..........)))))))))....................(((((....))))) (-15.50 = -15.58 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:12 2006