Locus 3110

Sequence ID 3R_DroMel_CAF1
Location 8,199,178 – 8,199,298
Length 120
Max. P 0.516666
window5047

overview

Window 7

Location 8,199,178 – 8,199,298
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.22
Mean single sequence MFE -41.80
Consensus MFE -33.99
Energy contribution -34.42
Covariance contribution 0.44
Combinations/Pair 1.08
Mean z-score -1.49
Structure conservation index 0.81
SVM decision value -0.03
SVM RNA-class probability 0.516666
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8199178 120 - 27905053
AUUGGAGACAUUGGCGAGAAUGGCAAUGUCGGCGACGGUAUACUGGUCCCCAGCCACGUAGUCCUGACCCUCCAGGAAUGUGUUUAGGAAAUCGAAAGUCUCCUGGACCUUUUUGUAGUC
......(((((((.(......).)))))))(((.((((......(((((.....(((((..(((((......))))))))))...((((...(....)..)))))))))...)))).))) ( -37.70)
>DroSim_CAF1 14866 120 - 1
AUUGGAGACAUUGGCGAGAAUGGCAAUGUCGGCCACGGUAUACUGGUCCCCAGCCACGUAGUCCUGACCCUCCAGGAAUGUGUUCAGAAAAUCGAAAGUCUCCUGGACCUUUUUGUAGUC
.((((.(((((((.(......).)))))))(((((.(.....)))))).))))..((((..(((((......)))))))))((((((.....(....)....))))))............ ( -34.30)
>DroEre_CAF1 14538 120 - 1
AUUGGACACAUUGGCGAGAAUGGCAAUGUCGGCCACGGAGUACUGGUCACCAGCCACGUAGUCCUGGCCGUCCAGGAAUGUGUUCAGAAACCCGAAGGUCUCCUGGACCUUCUUGUAGUC
.(((((((((((.((.......))...(.((((((.(((.(((((((.....)))).))).))))))))).)....)))))))))))......(((((((.....)))))))........ ( -49.20)
>DroYak_CAF1 14583 120 - 1
AUUGGACACAUUGGCGAGAAUGGCAAUGUCGGCCACGGUGUACUGGUCUCCAGCCACGUAGUCCUGGCCAUCCAGGAAUGUGUUCAGAAAAGCGAAGGUGUCCUGCACCUUCUUGUAGUC
.((((((((((((((((((.((((.......))))(((....))).))))..)))).....((((((....))))))))))))))))......(((((((.....)))))))........ ( -46.00)
>consensus
AUUGGACACAUUGGCGAGAAUGGCAAUGUCGGCCACGGUAUACUGGUCCCCAGCCACGUAGUCCUGACCCUCCAGGAAUGUGUUCAGAAAAUCGAAAGUCUCCUGGACCUUCUUGUAGUC
.((((((((((..(((....((((..((..(((((.(.....))))))..)))))))))..(((((......)))))))))))))))......(((((((.....)))))))........ (-33.99 = -34.42 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:21 2006