Locus 4247

Sequence ID 3R_DroMel_CAF1
Location 11,384,095 – 11,384,215
Length 120
Max. P 0.808514
window6893

overview

Window 3

Location 11,384,095 – 11,384,215
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.33
Mean single sequence MFE -28.76
Consensus MFE -27.98
Energy contribution -28.02
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.25
Structure conservation index 0.97
SVM decision value 0.64
SVM RNA-class probability 0.808514
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11384095 120 + 27905053
AACAAGUUUGAGUUUGUUUUCAUCUUUGUGGGCGAAAAUAAUACAAGGCGCGCCUUUGGCUGCUUUAUUAUUAACCAAGGUAAAUAGCAAAAGGGCUAACACACAAAAAGGUAGCUGCCA
.(((((..((((......))))..))))).(((...........((((....)))).(((((((((.......((....))...((((......)))).........)))))))))))). ( -28.60)
>DroSec_CAF1 131818 119 + 1
AACAAGUUUGAGUUUGUUUUCAUCUUUGUGGGCGAAAAUAAUACAAGGCUCGCCUUUGGCUGCUUUAUUAUUAACCAAGGUAAAUAGCAAAAGGGCUAACACA-AAAAAGGUAGCUGCCA
.(((((..((((......))))..))))).(((...........((((....)))).(((((((((.......((....))...((((......)))).....-...)))))))))))). ( -28.60)
>DroSim_CAF1 122921 120 + 1
AACAAGUUUGAGUUUGUUUUCAUCUUUGUGGGCGAAAAUAAUACAAGGCGCGCCUUUGGCUGCUUUAUUAUUAACCAAGGUAAAUAGCAAAAGGGCUAACACACAAAAAGGUAGCUGCCA
.(((((..((((......))))..))))).(((...........((((....)))).(((((((((.......((....))...((((......)))).........)))))))))))). ( -28.60)
>DroEre_CAF1 119278 120 + 1
AACAAGUUUGAAUUUGUUUUCAUCUUUGUGGGCGAAAAUAAUACAAGGCGCGCCUUUGGCUGCUUUAUUAUUAACCAAGGCAAAUAGCAAAAGGGCUAACGUACAAAAAGGUAGCUGCCA
.(((((..((((......))))..))))).(((...........((((....)))).(((((((((........((...((.....))....))((....)).....)))))))))))). ( -29.20)
>DroYak_CAF1 122028 120 + 1
AACAAGUUUGAGUUUGUUUUCAUCUUUGUGGGCGAAAAUAAAACAAGGCGCGCCUUUGGCUGCUUUAUUAUUAACCAAGGUAAAUAGCAAAAGGGCUAACGUACAAAAAGGUAGCUGCCA
.......(((..(((((((((..((....))..))))))))).)))(((((((((((...((((...(((((......)))))..)))).)))))).....(((......))))).))). ( -28.80)
>consensus
AACAAGUUUGAGUUUGUUUUCAUCUUUGUGGGCGAAAAUAAUACAAGGCGCGCCUUUGGCUGCUUUAUUAUUAACCAAGGUAAAUAGCAAAAGGGCUAACACACAAAAAGGUAGCUGCCA
.(((((..((((......))))..))))).(((...........((((....)))).(((((((((.......((....))...((((......)))).........)))))))))))). (-27.98 = -28.02 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:26 2006