Locus 3572

Sequence ID 2R_DroMel_CAF1
Location 11,892,676 – 11,892,796
Length 120
Max. P 0.862676
window5820

overview

Window 0

Location 11,892,676 – 11,892,796
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.99
Mean single sequence MFE -29.19
Consensus MFE -26.48
Energy contribution -26.73
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.91
SVM decision value 0.83
SVM RNA-class probability 0.862676
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11892676 120 + 20766785
AUAAAAUUUAAAUCAUGUAUAUACGCAUACAAUAAUGGCAUUGCCUUUUGCACAUUAGGGGUGACACUUGAACCCCAAGUGGCCAUCUUAAUCUGACUCCAGGUUAGUUCCAUCGUUGGG
...............(((((......)))))...(((((.(..(((((........)))))..)((((((.....))))))))))).((((((((....))))))))..(((....))). ( -30.40)
>DroSec_CAF1 33207 120 + 1
AUAAAAUUUAAAUCAUGUAUAUACACAUAUAAUAAUGGCAUUGCCUUUUGCACAUUAGGGGUGACACUUGAACCCCAAGUGGCCAUCUUAAUCUGACUCCAGGUUAGUUCCAUCUUUGGG
..............((((......))))......(((((.(..(((((........)))))..)((((((.....))))))))))).((((((((....))))))))..(((....))). ( -29.00)
>DroEre_CAF1 35118 107 + 1
AUACAAUUUGAAUCAUGC------------CAUAAUGGCUUUGCCU-AUGCACAUUAGGGGUGACACUUGAACCCCAAGUGGCCAUCUUAAUCUGAUUCCAGGUUAGUUCCAUCGUUGGG
....(((((((((((...------------....(((((..(((..-..)))((((.(((((.........))))).))))))))).......))))).))))))....(((....))). ( -28.44)
>DroYak_CAF1 33660 107 + 1
AUGAAAUUUGAAUCAUGU------------AAUAAUGGCUUUCCCU-UUGCACAUUAGGGGUGACACUUGAACCCCAAGUGGCCAUCUUAAUCUGGUUCCAGGUUAGUUCCAUCCUUGGG
((((........))))..------------....(((((...((((-(........)))))...((((((.....))))))))))).((((((((....))))))))..(((....))). ( -28.90)
>consensus
AUAAAAUUUAAAUCAUGU____________AAUAAUGGCAUUGCCU_UUGCACAUUAGGGGUGACACUUGAACCCCAAGUGGCCAUCUUAAUCUGACUCCAGGUUAGUUCCAUCGUUGGG
..................................(((((..(((.....)))((((.(((((.........))))).))))))))).((((((((....))))))))..(((....))). (-26.48 = -26.73 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:53 2006