Locus 1213

Sequence ID X_DroMel_CAF1
Location 3,592,293 – 3,592,394
Length 101
Max. P 0.961418
window1949

overview

Window 9

Location 3,592,293 – 3,592,394
Length 101
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 89.32
Mean single sequence MFE -22.38
Consensus MFE -17.50
Energy contribution -19.00
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.79
Structure conservation index 0.78
SVM decision value 1.53
SVM RNA-class probability 0.961418
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3592293 101 - 22224390
---UCGUUUUAUAGAUGGGAUUGUGUGUAUAUAUCUCGAGACCCCCCUCCUCUCCCCUUUGGACCACUCUCUCCAACGGAUAUACAUAUAUACAUAUACACCAU
---...........((((...(((((((((((((...((((.........)))).((.(((((........))))).))......)))))))))))))..)))) ( -24.80)
>DroSec_CAF1 51257 102 - 1
GCGUCGUUUUAUAGAUGGGAUUGUGUGUAUAUAUCUCGAG--UCCCCUCCUCUCCCCUUUGGACCACUCUCUCCAACGGAUAUACAUAUAUACAUAUACACCAU
.((((........))))((..(((((((((((((...(((--.......)))...((.(((((........))))).))......)))))))))))))..)).. ( -25.50)
>DroSim_CAF1 38062 102 - 1
GCGUCGUUUUAUAGAUGGGAUUGUGUGUAUAUAUCUCGAG--CCCCCUCCUCUCCCCUUUGGACCACUCUCUCCAACGGAUAUACAUAUAUACAUAUACACCAU
.((((........))))((..(((((((((((((...(((--.......)))...((.(((((........))))).))......)))))))))))))..)).. ( -25.20)
>DroYak_CAF1 47523 95 - 1
GCGUCGUUUUAUAGAUGGGAUUGUGUGUAUAUAUCUCGAG--CCCCCUCUCC--CCCUUUUCACCCCACUCUUCAACAGAUAC----AUAUACAUAUACA-CAU
.((((........)))).....((((((((((.....(((--....)))...--...............(((.....)))...----......)))))))-))) ( -14.00)
>consensus
GCGUCGUUUUAUAGAUGGGAUUGUGUGUAUAUAUCUCGAG__CCCCCUCCUCUCCCCUUUGGACCACUCUCUCCAACGGAUAUACAUAUAUACAUAUACACCAU
..............((((...(((((((((((((...(((......)))......((.(((((........))))).))......)))))))))))))..)))) (-17.50 = -19.00 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:04 2006