Locus 2520

Sequence ID 3R_DroMel_CAF1
Location 6,865,543 – 6,865,648
Length 105
Max. P 0.681340
window4124

overview

Window 4

Location 6,865,543 – 6,865,648
Length 105
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 94.96
Mean single sequence MFE -25.34
Consensus MFE -20.56
Energy contribution -20.44
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -1.58
Structure conservation index 0.81
SVM decision value 0.31
SVM RNA-class probability 0.681340
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6865543 105 - 27905053
UGCCAAAGUCCAUUUCCUGCAAAAACCGGAGGAGACAGUGUUUCGUCAAUACUCAAGGAUGAACAUGGAUAAAAAUAGAUUGAACACGAGGACAAUCGUUAGAAG
.......((((.((((((.(.......).))))))..(((((.((((..........))))))))))))).......(((((..(....)..)))))........ ( -21.90)
>DroSec_CAF1 19916 102 - 1
UGCCAAAGUCCAUUUCCUGCAAAAAGCGUAGGAGACAGUGUUUCGUCAAUACUCAAGGGUGAACAUGGAUAAAAAUAGAUGGAACACGAGGACAAUCGUUA---G
.......((((.((((((((.......))))))))..((((((((((..((((....))))...((........)).))))))))))..))))........---. ( -30.20)
>DroSim_CAF1 20086 102 - 1
UGCCAAAGUCCAUUUCCUGCAAAAAGCGUAGGAGACAGUGUUUCGUCAAUACUCAAGGGUGAACAUGGAUAAAAAUAGAUUGAACACGAGGACAAUCGUUA---G
.......((((.((((((((.......))))))))..((((((.(((..((((....))))...((........)).))).))))))..))))........---. ( -25.60)
>DroEre_CAF1 20531 102 - 1
UGCCAAAGUCCAUUUCCUGCAAAAAGCGGAGGAGACAGUGUUUCGUCAAUACUCAAGGGUGAAGAUGGGUAAAAAUAGAUUGAGUACGAGGACAAUCGUUA---G
((((...(((..((..((((.....))))..))))).......((((..((((....))))..))))))))......(((((..........)))))....---. ( -21.50)
>DroYak_CAF1 20172 102 - 1
UGCCAAAGUCCAUUUCCUGCAAAAAGCGGAGGAGACAGUGUUUCGUCAAUACUCAAGGGUGAACAUGGGUAAAAAUAGAUUGAACACGAGGACAAUCGUUG---G
..((((.((((.((((((.(.......).))))))..((((((.(((..((((((.(......).))))))......))).))))))..)))).....)))---) ( -27.50)
>consensus
UGCCAAAGUCCAUUUCCUGCAAAAAGCGGAGGAGACAGUGUUUCGUCAAUACUCAAGGGUGAACAUGGAUAAAAAUAGAUUGAACACGAGGACAAUCGUUA___G
.......((((.((((((.(.......).))))))..((((((.(((..((((....))))...((........)).))).))))))..))))............ (-20.56 = -20.44 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:26 2006