Locus 3294

Sequence ID X_DroMel_CAF1
Location 8,768,549 – 8,768,669
Length 120
Max. P 0.531010
window5393

overview

Window 3

Location 8,768,549 – 8,768,669
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.83
Mean single sequence MFE -42.50
Consensus MFE -33.04
Energy contribution -32.72
Covariance contribution -0.32
Combinations/Pair 1.20
Mean z-score -1.44
Structure conservation index 0.78
SVM decision value -0.00
SVM RNA-class probability 0.531010
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8768549 120 + 22224390
UCCAAGCUAUAAUCGGAUCCAUUGAGGCGGCACUGCUGGAUGCACUUCUCUAGGCGAUUCUCAAAAUCGGAUAUACCCUGCUGUACGAAGCAGCGUGAUCGGGUCAAACGGAUUUGGCAG
.....((((.((((.(((((.((((((((((...))))..(((.((.....)))))..)))))).....(((.(((.(((((......))))).))))))))))).....)))))))).. ( -34.20)
>DroSec_CAF1 16227 120 + 1
UCCAAGCCAUAAUCGGAUCCAUUGAGGCGGCACUGCUGGAUGCACUUCUCCAGGCGAUUCUCAAAGUCGGAUACACCCUGCUGCACGAAGCAGCGGGCUCGGGUCAAACGGAUCUGGCAG
.....((((......(((((.((((((..((....(((((........)))))))...)))))).((..(((....((((((((.....)))))))).....)))..))))))))))).. ( -41.90)
>DroSim_CAF1 17151 120 + 1
UCCAUGCCAUAAUCGGAUCCACUGAGGCGGCACUGCUGGAUGCACUUCUCCAGGCGAUUCUCAAAGUCGGAUACACCCUGCUGCACGAAGCAGCGGGCUCGUGUCAAACGGAUCUGGCAG
....((((....((((.....))))...))))((((..(((.(...........(((((.....)))))(((((..((((((((.....))))))))...)))))....).)))..)))) ( -45.40)
>DroEre_CAF1 15531 120 + 1
UCCAAGCUAUAUGCAGAUCCAUGGAUUCGGCACUGCUGGAUGCACUUCUCCAAACGAUUCUCAAAGUCUGAUAUCCCCUGCUGCACGAAGCAGCGGGCUCUUGUCAAACGGAUCUGGCAC
...........(((((((((.((.(((((((...))))))).)).....................((.(((((...((((((((.....))))))))....))))).)))))))).))). ( -41.60)
>DroYak_CAF1 16050 120 + 1
UCCGAGCCAUAGGCAGAUCCAUGGAGGCGACACUGCUGGAUGCACUUCUCCAGGCGAUUCUCAAAGUCGGAUAUGCCCUGCUGCACGAAGCAGCGGGCUCGGGUCAAGCGGAUCUGGCAG
.(((((((...((((.((((.((((((.(....(((.....)))).))))))(((..........))))))).)))).((((((.....)))))))))))))((((........)))).. ( -49.40)
>consensus
UCCAAGCCAUAAUCGGAUCCAUUGAGGCGGCACUGCUGGAUGCACUUCUCCAGGCGAUUCUCAAAGUCGGAUAUACCCUGCUGCACGAAGCAGCGGGCUCGGGUCAAACGGAUCUGGCAG
.....(((......((((((.......((((....(((((........)))))..(.....)...))))(((....((((((((.....)))))))).....)))....))))))))).. (-33.04 = -32.72 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:47 2006