Locus 3598

Sequence ID X_DroMel_CAF1
Location 9,652,384 – 9,652,503
Length 119
Max. P 0.646047
window5892

overview

Window 2

Location 9,652,384 – 9,652,503
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.86
Mean single sequence MFE -22.47
Consensus MFE -16.12
Energy contribution -16.90
Covariance contribution 0.78
Combinations/Pair 1.09
Mean z-score -2.49
Structure conservation index 0.72
SVM decision value 0.23
SVM RNA-class probability 0.646047
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9652384 119 - 22224390
AGACAAACCAAUUUUGUAAGUAUGAAAUGUAUG-GCAAAUAAAUAAAAAUGUUUUAGUUGUGAAUACAUUUUAUGAAUAAAAUGAAAAUCGACAAUAGUCGAAAUUCAUAAAGUGCAACG
.............(((((..((((((((((((.-((((..(((((....)))))...))))..))))))))))))......(((((..(((((....)))))..)))))....))))).. ( -26.80)
>DroSim_CAF1 3121 119 - 1
AGGCAAACCAAUUUUGUAAAUUUGAAAUGUAUG-GCAAAUAAAUAAAAAUGUUUUAGUUCUGAAUACAUUUUAUGAAUAAAAUAAAAAUCGACAACAGUCGAAAUUCAUAAAGUGCAACG
..(((.....(((((((.....((((((((((.-.((((((((((....)))))..))).)).))))))))))...))))))).....(((((....)))))...........))).... ( -19.00)
>DroYak_CAF1 2788 120 - 1
UCAGAAACCAAUUUUGUAAAUUUGUUAUGUAUGGGCAAAUAAAUAAAAAUGUUUUCGUUGUGCAUACAUAUUAGAAAUAAAAUAAAAAUGGACAACGAUCGAAAUUCAUAAAGUGCAACG
.......(((.((((((........((((((((.((((..(((((....)))))...)))).))))))))(((....))).)))))).)))............................. ( -21.60)
>consensus
AGACAAACCAAUUUUGUAAAUUUGAAAUGUAUG_GCAAAUAAAUAAAAAUGUUUUAGUUGUGAAUACAUUUUAUGAAUAAAAUAAAAAUCGACAACAGUCGAAAUUCAUAAAGUGCAACG
..........(((((((...((((((((((((..((((..(((((....)))))...))))..)))))))))))).............(((((....))))).....)))))))...... (-16.12 = -16.90 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:25 2006