Locus 4493

Sequence ID 2L_DroMel_CAF1
Location 12,873,890 – 12,873,993
Length 103
Max. P 0.637172
window7066

overview

Window 6

Location 12,873,890 – 12,873,993
Length 103
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 87.05
Mean single sequence MFE -27.97
Consensus MFE -19.02
Energy contribution -20.90
Covariance contribution 1.88
Combinations/Pair 1.05
Mean z-score -2.02
Structure conservation index 0.68
SVM decision value 0.21
SVM RNA-class probability 0.637172
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12873890 103 + 22407834
CAAGUA--CAACAAUUGUGUUGACAGGCGCGGCAAUGCGACGCUGCCAACAAACAAACCGCGCUACAAACCGCGCAACAAAAAUGCCGCAACAAUGGCG--UGGCCA-
...((.--(((((....))))))).((((((((........))))).............((((........)))).......((((((......)))))--).))).- ( -30.40)
>DroGri_CAF1 73145 104 + 1
UUUGCUAACAACGAUUGUGUUGACAGCAGCGGGAAUGCGUUGCAACCAACAAACAAACCGCGCAACAAGGC-CGCAACAAAACAGGCGGAACAAUGGCGACUGC---G
..((((..(((((....)))))..))))((((......((((....))))..........(((.......(-(((..........)))).......))).))))---. ( -26.04)
>DroSec_CAF1 53049 103 + 1
CAAGUA--CAACAAUUGUGUUGACAGGCGCGGCAAUGCGACGCUGCCAACAAACAAACCGCGCUACAAACCGCGCAACAAAAAUGCCGCAACAAUGGCC--UGGCCA-
......--(((((....))))).(((((((((((..(((....))).............((((........))))........)))))).......)))--))....- ( -29.81)
>DroSim_CAF1 55810 103 + 1
CAAGUA--CAACAAUUGUGUUGACAGGCGCGGCAAUGCGACGCUACCAACAAACAAACCGCGCUACAAACCGCGCAACAAAAAUGCCGCAACAAUGGCC--UGGCCC-
......--(((((....))))).(((((((((((..((...))................((((........))))........)))))).......)))--))....- ( -28.21)
>DroEre_CAF1 59044 103 + 1
CAAGUA--CAACAAUUGUGUUGACAGGCGCGGCAAUGCGACGCUGCCAACAAACAAACCGCGCUACAAACCACGCAACAAAAAUGCCGCAACAAUGGCU--UGGCCA-
...((.--(((((....))))))).(((((((((..(((....))).............(((..........)))........))))))..(((....)--))))).- ( -25.40)
>consensus
CAAGUA__CAACAAUUGUGUUGACAGGCGCGGCAAUGCGACGCUGCCAACAAACAAACCGCGCUACAAACCGCGCAACAAAAAUGCCGCAACAAUGGCC__UGGCCA_
.................(((((...((((((((........))))).............((((........)))).........))).)))))..(((.....))).. (-19.02 = -20.90 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:07 2006