Locus 1947

Sequence ID 3L_DroMel_CAF1
Location 5,400,161 – 5,400,281
Length 120
Max. P 0.947021
window3043

overview

Window 3

Location 5,400,161 – 5,400,281
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.78
Mean single sequence MFE -34.95
Consensus MFE -34.73
Energy contribution -34.29
Covariance contribution -0.44
Combinations/Pair 1.05
Mean z-score -2.20
Structure conservation index 0.99
SVM decision value 1.37
SVM RNA-class probability 0.947021
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5400161 120 + 23771897
AGAUGACAGCCAUGAAUGGCAUUUCUUCUGCUACCUCCGAGCAUAAUUUACAUUGUAUUUCAACUUGAGUGUGCAGUUGAGGCUGUCUUUUAUGGUUUGUCUUGGCUCGCUUCGGGCUUU
....((((((((((((.((((((((..((((.(((((.(((.......(((...)))......)))))).))))))..)))).)))).))))))).)))))..((((((...)))))).. ( -35.62)
>DroSec_CAF1 49011 120 + 1
AGAUGACAGCCAUGAAUGGCAUUUCUUCUGCUACCUCCGAGCAUAAUUUACAUUGUAUUUCAACUUGAGUGUGCAGUUGAGGCUGUCUUUUAUGGUUUGUCUUGGCUCGCUACGGGCUUU
....((((((((((((.((((((((..((((.(((((.(((.......(((...)))......)))))).))))))..)))).)))).))))))).)))))..((((((...)))))).. ( -35.62)
>DroYak_CAF1 49025 120 + 1
AGAUGACAGCCAUGAAUGGCAUUUCUUCUGCUACCUUCGAGCAUAAUUUACAUUGUAUUUCAACUUGAGUGUGCAGUUGAGGCUGUCUUUUAUGGUUUGUCUUGGCUCGCUUUGGGUUUU
....((((((((((((.((((((((..((((.((.((((((.......(((...)))......)))))).))))))..)))).)))).))))))).)))))..(((((.....))))).. ( -33.62)
>consensus
AGAUGACAGCCAUGAAUGGCAUUUCUUCUGCUACCUCCGAGCAUAAUUUACAUUGUAUUUCAACUUGAGUGUGCAGUUGAGGCUGUCUUUUAUGGUUUGUCUUGGCUCGCUUCGGGCUUU
....((((((((((((.((((((((..((((.((((.((((.......(((...)))......)))))).))))))..)))).)))).))))))).)))))..((((((...)))))).. (-34.73 = -34.29 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:45 2006