Locus 1880

Sequence ID 3R_DroMel_CAF1
Location 5,399,219 – 5,399,316
Length 97
Max. P 0.978548
window3089

overview

Window 9

Location 5,399,219 – 5,399,316
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 95.88
Mean single sequence MFE -35.20
Consensus MFE -32.39
Energy contribution -33.17
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -3.36
Structure conservation index 0.92
SVM decision value 1.82
SVM RNA-class probability 0.978548
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5399219 97 + 27905053
GCUGAACGGCUGUGGACGACAUUUUGUUGUUGUUGCUAUUUGUGCGAAAAAAUUCCACGGGUUGCAGUGAUGAUAAUUUAUGCGUCCAAACUCGUUG
....(((((...((((((.(((.((((..(..((((.(((((((.(((....)))))))))).))))..)..))))...)))))))))...))))). ( -36.70)
>DroSim_CAF1 8947 97 + 1
GCUGAACGGCUGUGGACGACAUUUUGUUGUUGUUGCUAUUUGUGCGAAAAAAUUCCACGGGGCGCAGUGAUGAUAAUUUAUGCGUCCAAACUCGUUG
....(((((...((((((.(((.((((..(..((((..((((((.(((....)))))))))..))))..)..))))...)))))))))...))))). ( -34.60)
>DroYak_CAF1 9301 97 + 1
GCUGAACGGCGGCGGACGACAUUUUGUUGUUGUUGCUAUUUGUGCGAAAAAAUUCCACGGGUCGCAGUGAUGGUAAUUUAUGCGUCCAAACUCGAUG
((((.....))))(((((.(((.(((..((..((((.(((((((.(((....)))))))))).))))..))..)))...)))))))).......... ( -34.30)
>consensus
GCUGAACGGCUGUGGACGACAUUUUGUUGUUGUUGCUAUUUGUGCGAAAAAAUUCCACGGGUCGCAGUGAUGAUAAUUUAUGCGUCCAAACUCGUUG
....(((((...((((((.(((.((((..(..((((.(((((((.(((....)))))))))).))))..)..))))...)))))))))...))))). (-32.39 = -33.17 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:47 2006