Locus 5241

Sequence ID X_DroMel_CAF1
Location 13,675,314 – 13,675,418
Length 104
Max. P 0.980537
window8490

overview

Window 0

Location 13,675,314 – 13,675,418
Length 104
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 79.05
Mean single sequence MFE -19.19
Consensus MFE -13.96
Energy contribution -13.78
Covariance contribution -0.19
Combinations/Pair 1.12
Mean z-score -2.27
Structure conservation index 0.73
SVM decision value 1.86
SVM RNA-class probability 0.980537
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13675314 104 - 22224390
UAUUAACAACCCACCGCUAACCACCG--AUACCGAUACUCCAUUG------CCAAUUCCAAUUCCAAUUCCAAUUUUGGCUCCCAUCUGGGGGCUAUUG---AUAAGCCACUUCU-----
.........((((...........((--....))..........(------((((....................))))).......))))((((....---...))))......----- ( -15.55)
>DroSec_CAF1 7140 91 - 1
UAUUAACAACCCACCGCUAACCACCG--AUACCGAUACUC------------------CAAUUCCAAUUCCAAUUUUGGCUCCCAUCUGGGGGCUAUUG---AUAAG-CACUUCU-----
...............(((......((--....))......------------------..................((((((((....))))))))...---...))-)......----- ( -16.30)
>DroEre_CAF1 5938 108 - 1
UAUUAACAGCCCACCGCUAACCAAUUUCAACCCGAUACUCCACUU------CGAAUUCCACUUCCAAUUCCAAUUUUGGCUCCCAUCUGGGGGCCAUUGAUGAUAAG-CGAUUCU-----
..............((((..............(((.........)------)).................((.(..((((((((....))))))))..).))...))-)).....----- ( -22.30)
>DroYak_CAF1 6639 115 - 1
UAUUAACAGCCCAACGCUAACCAAUUCCAAC-CGAUACUCCAAUUCCGAAUCGGAUUCCAAUUCCAAUUCCAAUUUUGGCUCCCAUCUGGGGGCUAUUG---AUAAG-CACUUCUGACAC
((((((.(((((...................-.......((((....((((.(((.......))).)))).....))))...((....))))))).)))---)))..-............ ( -22.60)
>consensus
UAUUAACAACCCACCGCUAACCAACG__AAACCGAUACUCCA_UU______CGAAUUCCAAUUCCAAUUCCAAUUUUGGCUCCCAUCUGGGGGCUAUUG___AUAAG_CACUUCU_____
............................................................................((((((((....))))))))........................ (-13.96 = -13.78 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:02 2006