Locus 1061

Sequence ID 3L_DroMel_CAF1
Location 3,110,111 – 3,110,203
Length 92
Max. P 0.945747
window1642

overview

Window 2

Location 3,110,111 – 3,110,203
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 76.03
Mean single sequence MFE -17.30
Consensus MFE -5.34
Energy contribution -5.06
Covariance contribution -0.28
Combinations/Pair 1.27
Mean z-score -2.19
Structure conservation index 0.31
SVM decision value 1.36
SVM RNA-class probability 0.945747
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3110111 92 - 23771897
AAAAAGGAACUCCCGCAGACAUAGACACGCACCCGCAGAUGUAUAUACACUAUACAUAUAUUUCGGUGUAGAUAUGUGCCACACAUCCCUGA
.....(((......((..(((((.((((((....))..(((((((.....)))))))........))))...)))))))......))).... ( -17.50)
>DroSec_CAF1 42991 84 - 1
AAAAAGGAACUCCCGCAG------ACACGCACCCGCAGAUGUAUAUACACUAUAUAUAUA--UCGCUGUAGAUAUGUGCCACACAUCCCUGA
....(((.....(..(((------.(..((....)).((((((((((.....))))))))--))))))..)..(((((...))))).))).. ( -18.50)
>DroSim_CAF1 47418 90 - 1
AAAAAGGAACUCCCGCAGACAUAGACACGCACCCGCAGAUGUAUAUACACUAUAUAUAUA--UCGGUGUAGAUAUGUGCCACACAUCCCUGA
.....(((......((..(((((.((((((....)).((((((((((.....))))))))--)).))))...)))))))......))).... ( -21.50)
>DroEre_CAF1 47378 82 - 1
AAAAAAGAACUCCCACAGAUAUACAAACGCACUAAGA---GUAUGUAUA-CAUAUGUAUA------UGUAUAUGUGUGCCACACAUCCCUGA
.............((((.(((((((.(((.((.....---)).)))(((-(....)))).------))))))).)))).............. ( -14.50)
>DroYak_CAF1 47064 70 - 1
AAAAAGGAACUCCCGCAGAUGUACA----------------UAUAUACACCAUGUGUACA------UAAAUAUAUGUGCCACACAUCCCUGA
.....((.....)).((((((((((----------------(((.......)))))))))------)......(((((...)))))..))). ( -14.50)
>consensus
AAAAAGGAACUCCCGCAGACAUACACACGCACCCGCAGAUGUAUAUACACUAUAUAUAUA__UCG_UGUAGAUAUGUGCCACACAUCCCUGA
...............(((......................(((((((.....)))))))..............(((((...)))))..))). ( -5.34 =  -5.06 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:03 2006