Locus 4699

Sequence ID 3R_DroMel_CAF1
Location 12,348,788 – 12,348,878
Length 90
Max. P 0.544832
window7724

overview

Window 4

Location 12,348,788 – 12,348,878
Length 90
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.20
Mean single sequence MFE -31.45
Consensus MFE -21.89
Energy contribution -22.14
Covariance contribution 0.25
Combinations/Pair 1.16
Mean z-score -1.70
Structure conservation index 0.70
SVM decision value 0.02
SVM RNA-class probability 0.544832
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12348788 90 + 27905053
AC---CGCAUCCGCGGC---CUCU------------GCCGCACAAUUGGAGCGCUUCCAAAGCGUUCCUAAAUCUAAUCAAAGUGCGCCUGGCUUGUCGUCGCAGUUG------------
.(---(((....)))).---..((------------(((((((....((((((((.....))))))))((....))......)))))...(((.....)))))))...------------ ( -29.50)
>DroSec_CAF1 17547 90 + 1
AC---CGCAUCCGCGGC---CUCU------------GCCGCACAAUUGGAGCGCUUCCAAAGCGUUCCUAAAUCUAAUCAAAGUGCGCCUGGCUUGUCGUCGCAGUUG------------
.(---(((....)))).---..((------------(((((((....((((((((.....))))))))((....))......)))))...(((.....)))))))...------------ ( -29.50)
>DroSim_CAF1 16715 90 + 1
AC---CGCAUCCGCGGC---CUCU------------GCCGCACAAUUGGAGCGCUUCCAAAGCGUUCCUAAAUCUAAUCAAAGUGCGCCUGGCUUGUCGUCGCAGUUG------------
.(---(((....)))).---..((------------(((((((....((((((((.....))))))))((....))......)))))...(((.....)))))))...------------ ( -29.50)
>DroEre_CAF1 17447 90 + 1
AC---CGCAUCCGCGGC---CUCU------------GCCGCACAAUUGGAGCGCUUCCAAAGCGUUCCUAAAUCUAAUCAAAGUGCGCCUGGCUUGUCGUCGCAGUUG------------
.(---(((....)))).---..((------------(((((((....((((((((.....))))))))((....))......)))))...(((.....)))))))...------------ ( -29.50)
>DroYak_CAF1 13611 97 + 1
AC---CGCAUCCGCGGC---CUCU------------GCCGCACAAUUGGAGCGCUUCCAAAGCGUUCCUAAAUCUAAUCAAAGUGCG-----AUUGUCGUCGCAGUUGCUGUUGCUUUUG
..---.(((...(((((---....------------)))))(((...((((((((.....))))))))................(((-----(((((....))))))))))))))..... ( -33.40)
>DroAna_CAF1 1338 108 + 1
GCGGCGGCAUCCGCGGCAGUCUCUUCUGUCUCUCCAGUCGCACAAUUGGAGCGGUUCCAGAGCGUCGCUAAAUCUAAUCAAAAUGCGACUCGUUUGCCGUCCAUGUUG------------
(.(((((((.(((((((((......)))))..((((((......)))))))))).......(.(((((................))))).)...))))))))......------------ ( -37.29)
>consensus
AC___CGCAUCCGCGGC___CUCU____________GCCGCACAAUUGGAGCGCUUCCAAAGCGUUCCUAAAUCUAAUCAAAGUGCGCCUGGCUUGUCGUCGCAGUUG____________
.....(((((..(((((...................)))))......(((((((((...)))))))))..............)))))................................. (-21.89 = -22.14 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:53 2006