Locus 6652

Sequence ID 3R_DroMel_CAF1
Location 17,478,590 – 17,478,682
Length 92
Max. P 0.667596
window10826

overview

Window 6

Location 17,478,590 – 17,478,682
Length 92
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 80.62
Mean single sequence MFE -21.27
Consensus MFE -17.02
Energy contribution -16.55
Covariance contribution -0.47
Combinations/Pair 1.29
Mean z-score -1.30
Structure conservation index 0.80
SVM decision value 0.28
SVM RNA-class probability 0.667596
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17478590 92 + 27905053
GACAACGAGUGGAGUGGAGCAAGUAGAUGA-------GUAGCUGAACAAGAAUAAGACGCGAAAGAGAGCCAAC----------GGCUCUCUGGCAAAUUAAAUAUAUA
........((..(((....((......)).-------...)))..))...........((...((((((((...----------)))))))).)).............. ( -19.00)
>DroSec_CAF1 30682 92 + 1
GACAACGAGUGGAGUGGAGCAAGUAGAUGA-------GUAGCUGAACAAGAAGAAGCCGCGAAAGAGAGCCAAC----------GGCUCUCUGGCAAAUUAAAUACAUA
......................(((..(((-------(..(((...........)))..)(..((((((((...----------))))))))..)...)))..)))... ( -20.70)
>DroSim_CAF1 31684 92 + 1
GACAACGAGUGGAGUGGAGCAAGUAGAUGA-------GUAGCUGAACAAGAAGAAGCCGCGAAAGAGAGCCAAC----------GGCUCUCUGGCAAAUUAAAUACAUA
......................(((..(((-------(..(((...........)))..)(..((((((((...----------))))))))..)...)))..)))... ( -20.70)
>DroEre_CAF1 31049 87 + 1
GACAACGAGU-----GGAGCAAGUAGAUGA-------GUAGCUGUGCAAGAGGAAGCCGCGAAAGAGAGCCAAC----------GGCUCUCUGGCAAAUUAAAUACAUA
........((-----(.(((..........-------...))).)))........(((.....((((((((...----------))))))))))).............. ( -20.92)
>DroYak_CAF1 31832 87 + 1
GACAACGAGU-----GGAGCAAGUAGAUGA-------GUAGCUGAGCAAAAAGAAGCCGCGAAAGAGAGCCAUU----------GGCUCUCUGGCAAAUUAAAUACAAA
..........-----.......(((..(((-------(..(((...........)))..)(..((((((((...----------))))))))..)...)))..)))... ( -20.70)
>DroPer_CAF1 34299 105 + 1
GACAACGCAGCGAGUAGAGCCAGUAAAUGACGAGGAUGUAGCCG-GCGAGA---GGUAGAGAGGGAGAGCCGACCGACCCAACGGGCUCUCUGCUAAAUUAAAUACAUA
.............(((..(((.((.....))..((......)))-))....---(((((((((((....))..(((......))).)))))))))........)))... ( -25.60)
>consensus
GACAACGAGUGGAGUGGAGCAAGUAGAUGA_______GUAGCUGAACAAGAAGAAGCCGCGAAAGAGAGCCAAC__________GGCUCUCUGGCAAAUUAAAUACAUA
......................(((............((.(((...........))).))(..((((((((.............))))))))..)........)))... (-17.02 = -16.55 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:50 2006