Locus 3934

Sequence ID 2R_DroMel_CAF1
Location 12,977,638 – 12,977,730
Length 92
Max. P 0.606874
window6352

overview

Window 2

Location 12,977,638 – 12,977,730
Length 92
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 86.18
Mean single sequence MFE -45.38
Consensus MFE -35.84
Energy contribution -36.03
Covariance contribution 0.20
Combinations/Pair 1.11
Mean z-score -2.04
Structure conservation index 0.79
SVM decision value 0.15
SVM RNA-class probability 0.606874
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12977638 92 + 20766785
GCCGCCAGUGCUGGUGCAAUUGGAGCAGCGGCGGCGGCAGCAGCAGCGGUCCAUGGUCCGCCA------------GCUGGAACCACAGUACAGCUGCUCCAGAG
((((((...((((.(.(....).).))))))))))((.((((((.((((.(....).))))..------------((((......))))...)))))))).... ( -46.70)
>DroSec_CAF1 19249 92 + 1
GCCGCCAGUGCUGGUGCAAUUGGAGCAGCGGCGGCGGCAGCAGCAGCGGUCCAUGGUCCACCA------------GCUGGCACCACAGUACAGCUGCUCCAGAG
((((((...((((.(((.......))).)))))))))).(.((((((.(((..(((((((...------------..))).))))..).)).)))))).).... ( -42.10)
>DroSim_CAF1 21083 92 + 1
GCCGCCAGUGCUGGUGCAAUAGGAGCAGCGGCGGCGGCAGCAGCAGCGGUCCAUGGUCCACCA------------GCUGGCACCACAGUACAGCUGCUCCAGAG
((((((...((((.(((.......))).)))))))))).(.((((((.(((..(((((((...------------..))).))))..).)).)))))).).... ( -42.10)
>DroEre_CAF1 18319 92 + 1
GCCGCCAGUGCUGGUGCAAUUGGAGCAGCGGCGGCGGCAGCAGCAGCGGUCCAUGGUCCGCCG------------GCUGGCACUACAGUGCAGCUGCUUCAGAG
((((((...((((.(.(....).).))))))))))(((((((((.((((.(....).))))..------------))).((((....)))).))))))...... ( -47.40)
>DroYak_CAF1 25579 92 + 1
GCCGCCAGUGCUGGUGCAAUUGGAGCAGCGGCGGCGGCAGCAGCAGCGGUCCAUGGUCCGCCA------------GCUGGCACCACAGUACAGCUGCUCCAGGG
((((((...((((.(.(....).).))))))))))((.((((((.((((.(....).))))..------------((((......))))...)))))))).... ( -46.70)
>DroAna_CAF1 10123 104 + 1
GCCGCCAGUGCGGGAGCAAUUGGAGCGGCUGCAGCAGCGGCAGCGGCCGUACAUGGCGCACCGCCCACCACCACCGCCACCACCACAGUCCAGCUGCUGCAGUC
((..(((((((....)).))))).))((((((((((((((..((((..((....((((...))))....))..))))..))((....))...)))))))))))) ( -47.30)
>consensus
GCCGCCAGUGCUGGUGCAAUUGGAGCAGCGGCGGCGGCAGCAGCAGCGGUCCAUGGUCCACCA____________GCUGGCACCACAGUACAGCUGCUCCAGAG
((((((...((((.(((.......))).)))))))))).(.((((((......(((....)))............((((......))))...)))))).).... (-35.84 = -36.03 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:41 2006