Locus 4543

Sequence ID X_DroMel_CAF1
Location 11,960,964 – 11,961,081
Length 117
Max. P 0.516319
window7471

overview

Window 1

Location 11,960,964 – 11,961,081
Length 117
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 91.49
Mean single sequence MFE -44.45
Consensus MFE -33.51
Energy contribution -34.70
Covariance contribution 1.19
Combinations/Pair 1.05
Mean z-score -1.63
Structure conservation index 0.75
SVM decision value -0.03
SVM RNA-class probability 0.516319
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11960964 117 - 22224390
GACCAGGCUAAAACAAAGGACCCCACAAUGGCUGACAAUGGCAACUUGUCGAGGUUUUGGGGUUUCUGCGGG-GGUUCAUCGUGGGUUCCAUGAUGGCUUCGGGGAAAUUCCGGGGGC
....................((((.......(((((((.(....)))))).)).....(((((((((.((((-(..(((((((((...)))))))))))))).))))))))))))).. ( -44.70)
>DroSec_CAF1 252 116 - 1
GCCCAGGCUAAAACAAAGGACCCC-CAAUGGCUGACAAUGGCAACUUGUCGAGGUUUUGGGGUUUCUGCGGG-GGUUCAUCGUGGGUUCCAUGAUGGCUUCGGGGAAAUUGCGGGGAC
.(((..((.............(((-(((.(.(((((((.(....)))))).)).).))))))(((((.((((-(..(((((((((...)))))))))))))).)))))..)).))).. ( -46.20)
>DroSim_CAF1 252 117 - 1
GCCCAGGCUAAAACAAAGGACCCCACAAUGGCUGACAAUGGCAACUUGUCGAGGUUUUGGGGUUUCUGCGGG-GGUUCAUCGUGGGUUCCAUGAUGGCUUCGGGGAAAUUCCGGGGGC
((((............((((((((.....)).((((((.(....))))))).))))))(((((((((.((((-(..(((((((((...)))))))))))))).)))))))))..)))) ( -47.60)
>DroYak_CAF1 818 110 - 1
GCCCAGGCUAAAACUAAGGACCCCACAAUGGCUGACAAUGGCAACUUGUCGAGGUUUUGGGGUUUUUCCGGGGGGUUCAU--------UCAUGGUGGCUGCGGGGAAAUUCCGGCGGC
((((.((........((((((((((.(((..(.(((((.(....)))))))..))).))))))))))))...))))....--------........(((((.(((....))).))))) ( -39.30)
>consensus
GCCCAGGCUAAAACAAAGGACCCCACAAUGGCUGACAAUGGCAACUUGUCGAGGUUUUGGGGUUUCUGCGGG_GGUUCAUCGUGGGUUCCAUGAUGGCUUCGGGGAAAUUCCGGGGGC
.....((((......(..(((((((.(((..(.(((((.(....)))))))..))).)))))))..)......))))(((((((.....)))))))(((((.(((....))).))))) (-33.51 = -34.70 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:44 2006