Locus 5364

Sequence ID X_DroMel_CAF1
Location 13,960,996 – 13,961,108
Length 112
Max. P 0.761024
window8708

overview

Window 8

Location 13,960,996 – 13,961,108
Length 112
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 87.25
Mean single sequence MFE -19.00
Consensus MFE -16.65
Energy contribution -16.90
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.88
SVM decision value 0.50
SVM RNA-class probability 0.761024
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13960996 112 + 22224390
CUGAUUAUUAU------UUAUCCUGAUUAUCCUUACCAAUGUAACUGGUAUACCCCGAUUCGCAUACCCUGCACAUCUGCCCCUAUAUAGGGUAUAAAAAUUGCACUUUUUUCGCAAU
...........------.(((((((........(((((.......)))))......(((..(((.....)))..)))..........))))))).....(((((.........))))) ( -15.90)
>DroSec_CAF1 12543 114 + 1
CUAACAACUCUUGAA----CUCCUGAUUAUCCUUACCAAUGGAACUGGUAUACCCCGAUUUGCAUACCCUGCACAUCUGCCCCUAUAUAGGGUAUGAAAAUUGCACUUUUUUCGCAAU
............(((----..............(((((.......))))).....((((((.(((((((((((....)))........)))))))).)))))).......)))..... ( -19.90)
>DroSim_CAF1 13059 118 + 1
CUUAUAACUUUUGAUUUUUCUCCUGAUUAUCCUUACCAAUGUAACUGGUAUACCCCGUUUCGCAUACCCUGCACAUCUGCCCCUAUAUAGGGUAUGAAAAUUGCACUUUUUUCGCAAU
............(((...((....))..)))..(((((.......)))))............(((((((((((....)))........))))))))...(((((.........))))) ( -18.60)
>DroYak_CAF1 12878 118 + 1
CCAAAAAGAUUUAAUUCUUAUCCUGAUUAUCCUUACCAAUGCAACUGGUAUACCCCAAAUCACAUACCCUGCACCUCUGCCCCUAUAUAGGGUAUGAAAAUUGCACUUUUUUCGCAAU
.....((((......))))....(((((.....(((((.......))))).......)))))(((((((((((....)))........))))))))...(((((.........))))) ( -21.60)
>consensus
CUAAUAACUUUUGAU__UUAUCCUGAUUAUCCUUACCAAUGUAACUGGUAUACCCCGAUUCGCAUACCCUGCACAUCUGCCCCUAUAUAGGGUAUGAAAAUUGCACUUUUUUCGCAAU
.................................(((((.......)))))............(((((((((((....)))........))))))))...(((((.........))))) (-16.65 = -16.90 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:14 2006