Locus 6619

Sequence ID 2R_DroMel_CAF1
Location 20,709,826 – 20,709,940
Length 114
Max. P 0.554240
window10539

overview

Window 9

Location 20,709,826 – 20,709,940
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.35
Mean single sequence MFE -22.70
Consensus MFE -16.52
Energy contribution -18.04
Covariance contribution 1.52
Combinations/Pair 1.11
Mean z-score -1.61
Structure conservation index 0.73
SVM decision value 0.04
SVM RNA-class probability 0.554240
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20709826 114 - 20766785
CGCGUGAACUCAUGCAAAAAUGUAUUUU-----UUAAGACUGUAAUUAAA-AUCACAAACCAGCAAUAAUGGCACAGCAAGCCAAAGUUUGCUAUGCAAAUGACAGGACAAUGAAAACUG
.(((((....)))))..........(((-----(((...((((.(((...-.........((.......))(((.(((((((....))))))).))).))).)))).....))))))... ( -23.10)
>DroSec_CAF1 143346 114 - 1
CGCGUGAACUCAUGCAAAAAUGUAUUUU-----UUAAGACUGUAAUUAAA-AUCAAAAACCAGCAAUAAUGGAAAAGCAAGACAAAGUUUGCUGUGCAAAUGACAGGACAAUGAAAACUG
.(((((....)))))..........(((-----(((...((((.(((...-........(((.......)))...((((((......)))))).....))).)))).....))))))... ( -18.40)
>DroSim_CAF1 148339 114 - 1
CGCGUGAACUCAUGCAAAAAUGUAUUUU-----UUAAGACUGUAAUUAAA-AUCAAAAACCAGCAAUAAUGGACCAGCAAGACAAAGUUUGCUGUGCAAAUGACAGGACAAUGAAAACUG
.(((((....)))))..........(((-----(((...((((.(((...-........(((.......)))..(((((((......)))))))....))).)))).....))))))... ( -20.90)
>DroEre_CAF1 184380 120 - 1
CGGGUGAACUCAUGCAAAAAUAUCUUUUUUUUUUCAAGACUAUAAUUAAAUAACAAAAAGCAGUGAUGGUGGCGCAGCAAACCCAAGUUUGCUGUGCAAAUGACAGGACAAUGGAAACUG
.(((....))).((.(((((........))))).))..........................((.((....(((((((((((....)))))))))))..)).))........(....).. ( -25.60)
>DroYak_CAF1 149229 104 - 1
CGGGUGAACUCAUGCAAAAAU----------------GACUAUAAUUAAAAAACAAAAACCCGCGAUGAUGGCACAGCAAGCCCAAGUUUGCUGUGCAAAUGACAGGACAAUGAAAACUG
(((((....((((......))----------------))...................)))))........(((((((((((....)))))))))))......(((...........))) ( -25.50)
>consensus
CGCGUGAACUCAUGCAAAAAUGUAUUUU_____UUAAGACUGUAAUUAAA_AUCAAAAACCAGCAAUAAUGGCACAGCAAGCCAAAGUUUGCUGUGCAAAUGACAGGACAAUGAAAACUG
.(((((....)))))........................................................(((((((((((....)))))))))))......(((...........))) (-16.52 = -18.04 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:20 2006