Locus 3628

Sequence ID X_DroMel_CAF1
Location 9,703,053 – 9,703,148
Length 95
Max. P 0.845437
window5939

overview

Window 9

Location 9,703,053 – 9,703,148
Length 95
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.67
Mean single sequence MFE -29.57
Consensus MFE -20.78
Energy contribution -21.21
Covariance contribution 0.42
Combinations/Pair 1.22
Mean z-score -1.72
Structure conservation index 0.70
SVM decision value 0.77
SVM RNA-class probability 0.845437
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9703053 95 + 22224390
GAAAUUAAAA--UGCACACCAAAAACCGCGCGUUUUGAAUUUUCGCGCGCGUUUUUUGGGCAC------------CCGCUUUUGCAUAAAUUCAG-----------GGCGUACAUUUUGC
.....(((((--((....(((((((.(((((((...........))))))).)))))))((.(------------((....((.....))....)-----------)).)).))))))). ( -28.70)
>DroGri_CAF1 24546 104 + 1
GAAAUUAAAAUAUGCAGACACAAAACCGCGCGUUUUGAAUUUUGGCGCG--AUUUUUGGUU--------------ACGGCUUUGCAUAAAUUUCCGAGUGCCAAGGAGGCAACAAUACUC
((((((....((((((((..(..(((((((((((.........))))))--.....)))))--------------..)..))))))))))))))....((((.....))))......... ( -25.20)
>DroSec_CAF1 44521 98 + 1
GAAAUUAAAAUAUGCAGACCGAAAACCGCGCGUUUUGAAUUUUCGCGCGCGUUUUUUGGGCCC------------GCGCUUUUGCAUAAAUUCAG----------GGGCGUACACUUCGC
(((...............(((((((.(((((((...........))))))).)))))))....------------(((((((((........)))----------))))))....))).. ( -29.70)
>DroSim_CAF1 18951 98 + 1
GAAAUUAAAAUAUGCAGACCGAAAACCGCGCGUUUUGAAUUUUCGCGCGCGUUUUUUGGGCCC------------CCGCUUUUGCAUAAAUUCAG----------GGGCGUACACUUCGC
............(((...(((((((.(((((((...........))))))).)))))))((((------------(.(..(((....)))..).)----------)))))))........ ( -30.80)
>DroEre_CAF1 21915 96 + 1
GAAAUUAAAAUAUGCAGACCGAAAACCGCGCGUUUUGAAUUUUCGCGCGCGUUUUUUGGGC-------------ACCGCUUUUGCAUAAAUUCGG-----------GGCAUGCCGCUUGC
..........(((((((((((((((.(((((((...........))))))).)))))))((-------------...)).)))))))).....(.-----------((....)).).... ( -29.70)
>DroYak_CAF1 20908 109 + 1
GAAAUUAAAAUAUGCAGACCGAAAACCGCGCGUUUUGAAUUUUCGCGCGCGUUUUUUGUGCCCCGCCCCCUCCCACCGCGUUUGCAUAAAUUCAG-----------GGCGUGCAGUUUGC
.............((((((.(.....)(((((((((((((((..(((((((.....)))))..(((...........)))...))..))))))))-----------))))))).)))))) ( -33.30)
>consensus
GAAAUUAAAAUAUGCAGACCGAAAACCGCGCGUUUUGAAUUUUCGCGCGCGUUUUUUGGGCCC____________CCGCUUUUGCAUAAAUUCAG___________GGCGUACACUUCGC
..........(((((((((((((((.(((((((...........))))))).)))))))((................)).))))))))...................(((.......))) (-20.78 = -21.21 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:08 2006