Locus 7947

Sequence ID X_DroMel_CAF1
Location 19,821,945 – 19,822,045
Length 100
Max. P 0.630076
window13039

overview

Window 9

Location 19,821,945 – 19,822,045
Length 100
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 89.64
Mean single sequence MFE -23.20
Consensus MFE -18.88
Energy contribution -19.50
Covariance contribution 0.62
Combinations/Pair 1.05
Mean z-score -1.52
Structure conservation index 0.81
SVM decision value 0.20
SVM RNA-class probability 0.630076
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19821945 100 - 22224390
ACGCGGGCCAAAAGGUGUGCAGGCAGCGAG-AGAAAGAAAGAAAGAGAGUCUAACACCCAUAAGCAGAGGCAAUAAAUAAUGUUUGCUGCUUUGGAAAAAC
..(((.(((....))).)))((((......-.................)))).....(((.(((((((((((........))))).)))))))))...... ( -23.10)
>DroSec_CAF1 27866 92 - 1
ACGCGGACCAAAAGGUGUGCAGCCAGCGAG-AGAA--------AGAGCGUCUAACACCCAUAAGCAGAGGCAAUAAAUAAUGUUUGCUGCUUUGGAAAAAC
..(((.(((....))).))).(((..(...-.)..--------.).)).........(((.(((((((((((........))))).)))))))))...... ( -24.30)
>DroSim_CAF1 25713 92 - 1
ACGCGGACCAAAAGGUGUGCAGCCAGCGAG-AGAA--------AGAGCGUCUAACACCCAUAAGCAGAGGCAAUAAAUAAUGUUUGCUGCUUUGGAAAAAC
..(((.(((....))).))).(((..(...-.)..--------.).)).........(((.(((((((((((........))))).)))))))))...... ( -24.30)
>DroEre_CAF1 18227 93 - 1
ACGCGGUGCAAAAGGUGUGCAGCCAGCGGGGAAAG--------CGAGAGUCUAACAGCCAUAAGCAGAGCCAAUAAAUAAUGUUUGCUGCUUUGGAAAAAC
.(((((((((.......)))).)).))).(..(..--------(....)..)..)..(((.((((((....((((.....))))..)))))))))...... ( -21.10)
>consensus
ACGCGGACCAAAAGGUGUGCAGCCAGCGAG_AGAA________AGAGAGUCUAACACCCAUAAGCAGAGGCAAUAAAUAAUGUUUGCUGCUUUGGAAAAAC
..(((.(((....))).))).....................................(((.(((((((((((........))))).)))))))))...... (-18.88 = -19.50 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:28 2006