Locus 5149

Sequence ID 3R_DroMel_CAF1
Location 13,538,111 – 13,538,227
Length 116
Max. P 0.564704
window8403

overview

Window 3

Location 13,538,111 – 13,538,227
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 97.27
Mean single sequence MFE -26.72
Consensus MFE -25.92
Energy contribution -26.42
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.97
SVM decision value 0.06
SVM RNA-class probability 0.564704
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13538111 116 + 27905053
CAACGGUUUUGUGUGCUCCACUUUUUGUAGGUCAAACUUUAAAGGCACUCCUCCAAUACAAGCAGGCCAACCCAUACAUGCGAAGAAACGGCAUAAACAAGCCGGCACACAGACAU
.......(((((((((.....(((((((((......)......(((.((.((........)).)))))..........))))))))..((((........)))))))))))))... ( -29.20)
>DroSec_CAF1 12972 116 + 1
CAACGGUUUUGUGUGCUCCACUUUUUGUAGGUCAAACUUUAAAGGCACUCCUCCAAUAAAAGCAGGCCAACCCAUACAUGCGAAGAAACGGCAUAAACAAGCCGGAACACAGACAU
.......(((((((..(((..(((((((((......)......(((.((.((........)).)))))..........))))))))...(((........)))))))))))))... ( -24.20)
>DroSim_CAF1 9900 116 + 1
CAACGGUUUUGUGUGCUCCACUUUUUGUAGGUCAAACUUUAAAGGCACUCCUCCAAUACAAGCAGGCCAACCCAUACAUGCGAAGAAACGGCAUAAACAAGCCGGCACACAGACAU
.......(((((((((.....(((((((((......)......(((.((.((........)).)))))..........))))))))..((((........)))))))))))))... ( -29.20)
>DroYak_CAF1 16799 116 + 1
CAACAGUUUUGUGUACUCCACUUUUUGUAGGUCAAACUUUAAAGGCACUUCUCCAAUAACAGCAGGCCAACCCAUACAUGCGAAGAAACGGCAUAAACAAGCCGGCACACAGACAU
.....(((((((((.......(((((((((......)......(((.((.((........)).)))))..........))))))))..((((........))))))))).)))).. ( -24.30)
>consensus
CAACGGUUUUGUGUGCUCCACUUUUUGUAGGUCAAACUUUAAAGGCACUCCUCCAAUAAAAGCAGGCCAACCCAUACAUGCGAAGAAACGGCAUAAACAAGCCGGCACACAGACAU
.......(((((((((.....(((((((((......)......(((.((.((........)).)))))..........))))))))..((((........)))))))))))))... (-25.92 = -26.42 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:35 2006