Locus 1969

Sequence ID 3L_DroMel_CAF1
Location 5,446,825 – 5,446,944
Length 119
Max. P 0.868694
window3084

overview

Window 4

Location 5,446,825 – 5,446,944
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 97.07
Mean single sequence MFE -30.48
Consensus MFE -27.31
Energy contribution -27.62
Covariance contribution 0.31
Combinations/Pair 1.03
Mean z-score -2.26
Structure conservation index 0.90
SVM decision value 0.86
SVM RNA-class probability 0.868694
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5446825 119 + 23771897
GCCUUUAUUUGCGUACAAAUUAAACAACAUAUGUAAGCGAGGUGGGCUGUGCAAUUGGUGCCGACUCUUGUUUACAUCUGCAUUCAGAUAUUAAUUGACUUGGCAAAUAAUAAAGA-AAU
....((((((((.....((((((.........(((((((((((.(((............))).)).)))))))))(((((....))))).))))))......))))))))......-... ( -31.10)
>DroSec_CAF1 8381 119 + 1
GCCUUUAUUUGCGUACAAAUUAAACAACAUAUGUAAGCGAGGUGGGCUGUGCAAUUGGUGCCGACUCUUGUUUACAUCUGCAUUCAGAUUUUAAUUGACUUGGCAAAUAAUAAAGA-AAU
....((((((((.....(((((((.......((((((((((((.(((............))).)).))))))))))((((....)))).)))))))......))))))))......-... ( -31.20)
>DroSim_CAF1 8418 119 + 1
GCCUUUAUUUGCGUACAAAUUAAACAACAUAUGUAAGCGAGGUGGGCUGUGCAAUUGGUGCCGACUCUUGUUUACAUCUGCAUUCAGAUUUUAAUUGACUUGGCAAAUAAUAAAGA-AAU
....((((((((.....(((((((.......((((((((((((.(((............))).)).))))))))))((((....)))).)))))))......))))))))......-... ( -31.20)
>DroEre_CAF1 8197 120 + 1
CUCUUUAUUUGCGUACAAAUUAAACAACAUAUGUAAGCGAGGUGUUCUGUGCAAUUGGUGCCGAUUCUUGUUUACAUCUGCAUUCAGAUUUUAAUUGACUUGGCAAAUAAUAAAGAAAAU
.(((((((((((.....(((((((.......(((((((((((...((.(..(.....)..).)).)))))))))))((((....)))).)))))))......)))...)))))))).... ( -28.40)
>consensus
GCCUUUAUUUGCGUACAAAUUAAACAACAUAUGUAAGCGAGGUGGGCUGUGCAAUUGGUGCCGACUCUUGUUUACAUCUGCAUUCAGAUUUUAAUUGACUUGGCAAAUAAUAAAGA_AAU
....((((((((.....((((((........((((((((((((.(((............))).)).))))))))))((((....))))..))))))......)))))))).......... (-27.31 = -27.62 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:24 2006