Locus 2872

Sequence ID 2R_DroMel_CAF1
Location 9,932,862 – 9,932,954
Length 92
Max. P 0.782313
window4747

overview

Window 7

Location 9,932,862 – 9,932,954
Length 92
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 72.32
Mean single sequence MFE -16.54
Consensus MFE -10.72
Energy contribution -10.12
Covariance contribution -0.60
Combinations/Pair 1.22
Mean z-score -1.48
Structure conservation index 0.65
SVM decision value 0.56
SVM RNA-class probability 0.782313
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9932862 92 - 20766785
AGCUGGUGGCAUA-------------------GCCAACAAGCGAACCGCAAAUGGCAAAAGAUUUAUUUAAUACAAAUCAAAAUUAUGAUUUGAUAUUUUUUUUUUGUUUU
.(((..((((...-------------------))))...)))...........(((((((((.......(((((((((((......))))))).))))..))))))))).. ( -19.70)
>DroSec_CAF1 68357 72 - 1
AGCUGG-----------------------------------CGAACCGCAAAUGGCAAAUGAUUUAUUUAAUACAAAUCAAAAUUAUGAUUUGAUAUUU----UUCGGUUU
......-----------------------------------.(((((((.....)).................(((((((......)))))))......----...))))) ( -12.10)
>DroSim_CAF1 54218 72 - 1
AGCUGG-----------------------------------CGAACCGCAAAUGGCAAAUGAUUUAUUUAAUACAAAUCAAAAUUAUGAUUUGAUAUUU----UUCGGUUU
......-----------------------------------.(((((((.....)).................(((((((......)))))))......----...))))) ( -12.10)
>DroEre_CAF1 56223 107 - 1
AGCUGGUGGCAUACAAGCCAACAAGCCAACAAGCCAGCAAGCGGACCGCAAACGGCAAAUGAUUUAUUUAAUACAAAUCAAAAUUAUGAUUUGAUAUUU----UUCGGUUU
.(((((((((......))).....(....)..))))))....(((((((.....)).................(((((((......)))))))......----...))))) ( -24.80)
>DroAna_CAF1 50388 82 - 1
AGCAA-------C-----------------GCAGCAACAAACAAACCGCAAAUGGCAAAUGAUUUAUUUAAUAAAAAUCAAAAUUAUGAUUUU-UGUUU----UCGGGUUU
.((..-------.-----------------...)).......(((((((.....)).............(((((((((((......)))))))-)))).----...))))) ( -14.00)
>consensus
AGCUGG____________________________CA_CAA_CGAACCGCAAAUGGCAAAUGAUUUAUUUAAUACAAAUCAAAAUUAUGAUUUGAUAUUU____UUCGGUUU
..........................................(((((((.....)).............(((((((((((......))))))).))))........))))) (-10.72 = -10.12 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:38 2006