Locus 1956

Sequence ID X_DroMel_CAF1
Location 5,366,105 – 5,366,220
Length 115
Max. P 0.768237
window3179

overview

Window 9

Location 5,366,105 – 5,366,220
Length 115
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 97.91
Mean single sequence MFE -25.23
Consensus MFE -23.52
Energy contribution -23.20
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -1.34
Structure conservation index 0.93
SVM decision value 0.52
SVM RNA-class probability 0.768237
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5366105 115 - 22224390
AAUACAAAAACAGAAUAAAGCAACAGCCGAUGAAAGAUGAAGGCGGCAAGAAAACGACCAAAGAUGCCUUCAUGCCAUCAUUUAUUUUGGCCGCAUUAGCAUCCCAAAGCGUUUG
....((((..(((((((((((....)).((((....(((((((((...................)))))))))..)))).)))))))))..(((..............))))))) ( -23.15)
>DroSec_CAF1 40741 115 - 1
AAUACAAAAACAGAAUAAAGCAACAGCCGAUGAAAGAUGAAGGCGGCAAGAAAACGACCAAAGAUGCCUUCAUGCCAUCAUUUAUUUUGGCCGCAUUAGCAUCCCAAAGCGUUUG
....((((..(((((((((((....)).((((....(((((((((...................)))))))))..)))).)))))))))..(((..............))))))) ( -23.15)
>DroSim_CAF1 38553 115 - 1
AAUACAAAAACAGAAUAAAGCAACAGCCGAUGAAAGAUGAAGGCGGCAAGAAAACGACCAAAGAUGCCUUCAUGCCAUCAUUUAUUUUGGCCGCAUUAGCAUCCCAAAGCGUUUG
....((((..(((((((((((....)).((((....(((((((((...................)))))))))..)))).)))))))))..(((..............))))))) ( -23.15)
>DroEre_CAF1 43130 115 - 1
AAUACAAAAACAGAAUAAAGCAACAGCCGAUGAAAGAUGAAGGCGGCAAGAAAACGGCCGAAGAUGCCUUCAUGCCAUCAUUUAUUUUGGCCGCAUUAGCAUCCCAAAGCGUUUG
.......((((........((....(((((....((((((.((((((.........)))((((....))))..))).))))))...))))).))....((........)))))). ( -28.30)
>DroYak_CAF1 43512 115 - 1
AAUACAAAAACGAAAUAAAGCAACAGCCGAUGAAAGAUGAAGGCGGCAAGAAAACGGCCGAAGAUGCCUUCAUGUCAUCAUUUAUUUUGGCCGCAUUAGCAUCCCAAAGCGUUUG
.......((((((((((((((....)).(((((...(((((((((((.........)))......)))))))).))))).)))))))(((..((....))...)))...))))). ( -28.40)
>consensus
AAUACAAAAACAGAAUAAAGCAACAGCCGAUGAAAGAUGAAGGCGGCAAGAAAACGACCAAAGAUGCCUUCAUGCCAUCAUUUAUUUUGGCCGCAUUAGCAUCCCAAAGCGUUUG
....((((..(((((((((((....)).((((....(((((((((....(........).....)))))))))..)))).)))))))))..(((..............))))))) (-23.52 = -23.20 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:44 2006