Locus 5999

Sequence ID 3R_DroMel_CAF1
Location 15,791,263 – 15,791,383
Length 120
Max. P 0.739952
window9794

overview

Window 4

Location 15,791,263 – 15,791,383
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.17
Mean single sequence MFE -33.08
Consensus MFE -26.46
Energy contribution -28.42
Covariance contribution 1.96
Combinations/Pair 1.11
Mean z-score -1.72
Structure conservation index 0.80
SVM decision value 0.45
SVM RNA-class probability 0.739952
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15791263 120 - 27905053
AGUUGGCCAAGAGGUGUUUACUUGCAGGUCAACAUGUACAACUUAAUCAAGAUCGGGUUAAGAGCGCUGCGGUUUUUGCUGAAGCUAAAAGUAUCUACGGAGCAGCGUUGUAAUACGAUU
.(((((((..(((.......)))...))))))).................(((((..(((..((((((((((((((....)))))).......((....)))))))))).)))..))))) ( -38.40)
>DroSec_CAF1 12568 120 - 1
AGUUGGCCAAGAGGUGUUUACUUGCAGGUCAACAUGUACAACUUAAUGAAGAUUGGGUUAAGAGCGCUGCGGUUUUUUCAGGAGCUAAAAGUAUCUACGGAGCAGGGUUUUAAUACGAUU
.(((((((..(((.......)))...))))))).((((.((((((((....)))))))).(((((.((((((((((....)))))).......((....)))))).)))))..))))... ( -34.20)
>DroSim_CAF1 17056 120 - 1
AGUUGGCCAAGAGGUGUUUACUUGCAGGUCAACAUGUACAACUUAAUCAAGAUCGGGUUAAGAGCGCUGCGGUUUUUGCUGGAGCUAAAAGUAUCUACGGAGCAGGGUUUUAAUACGAUU
.(((((((..(((.......)))...))))))).................(((((..((((((.(.((((((((((....)))))).......((....))))))).))))))..))))) ( -34.70)
>DroEre_CAF1 16580 120 - 1
AGUUGGCCAAGAGGUGUUUACUUGCAGGUCAACAUGUAAAACUUAAUCAAGAUUGGGUUAACAGGGCUGCGGUUCUCGUUGGAGCUAAAAGUAUCUACGGAGCAGUGUUUUAAUACGAUU
.(((((((..(((.......)))...))))))).((((.((((((((....))))))))...((.(((((((((((....)))))).......((....))))))).))....))))... ( -33.30)
>DroYak_CAF1 34323 96 - 1
AGUUGUCCAAGAGGUGUUUACUUGCA------------------------GAUUGAGUUAACAGGGCUGCGGUUUUUGUUGGAUCUGCAAGUAUCUACGGAGCAGUGUUUUAAUACGAUU
...(((((.....(((..((((((((------------------------((((....(((((((((....).))))))))))))))))))))..)))))).))((((....)))).... ( -24.80)
>consensus
AGUUGGCCAAGAGGUGUUUACUUGCAGGUCAACAUGUACAACUUAAUCAAGAUUGGGUUAAGAGCGCUGCGGUUUUUGCUGGAGCUAAAAGUAUCUACGGAGCAGGGUUUUAAUACGAUU
.(((((((..(((.......)))...))))))).................(((((.(((((.((((((((((((((....)))))).......((....))))))))))))))).))))) (-26.46 = -28.42 +   1.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:09 2006