Locus 5208

Sequence ID X_DroMel_CAF1
Location 13,617,654 – 13,617,771
Length 117
Max. P 0.968463
window8442

overview

Window 2

Location 13,617,654 – 13,617,771
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -43.65
Consensus MFE -42.54
Energy contribution -42.98
Covariance contribution 0.44
Combinations/Pair 1.12
Mean z-score -1.43
Structure conservation index 0.97
SVM decision value 1.63
SVM RNA-class probability 0.968463
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13617654 117 - 22224390
CUUGCGGGAGAGAUGCGACGCGCACGCAGCGUCGUCAAUGGAGAAAAAUAAAAGAGAAAGCGCCCGCUCAGCUCAGCCAGUCUCCGUUGACCGCGCGGUUGGCGAGCUUUCUUGCAA
..((((((((((.((((...))))(((.((((.(((((((((((.........(((..(((....)))...)))......))))))))))).)))).....)))..)))))))))). ( -49.46)
>DroSec_CAF1 3545 117 - 1
CUUGGGGGAGAGAUGCGACGCGCACGCAGCGUCGUCAAUGGAGAAAAAUAAAAGAAAAAGCGCCCGCUCAGCUCAGCCAGUCUUCGUUGACCGCGUGGUUGGCGAGCUUUCUAGCAA
..((..((((((.((((...))))(((.((((.(((((((((((........((....(((....)))...)).......))))))))))).)))).....)))..))))))..)). ( -36.46)
>DroSim_CAF1 3533 117 - 1
CUUGGGGGAGAGAUGCGACGCGCACGCAGCGUCGUCAAUGGAGAAAAAUAAAAGAGAAAGCGCCCGCUCAGCUCAGCCAGUCUUCGUUGACCGCGCGGUUGGCGAGCUUUCUAGCAA
..((..((((((.((((...))))(((.((((.(((((((((((.........(((..(((....)))...)))......))))))))))).)))).....)))..))))))..)). ( -40.56)
>DroEre_CAF1 3508 117 - 1
CUUGCGGCAGAGAUGCGACGCGCACGCAGCGUCGUCUAUGGAGAAAAAUAAAAGAGAAAGCGCCCGCUCAGCUCAGCCAGUCUCUGUUGACCGCGCGGUCGGCGAGCUUUCUUGCAA
(((((((((((((((((((((.......)))))))..................(((..(((....)))...))).....)))))))))((((....)))).)))))........... ( -41.40)
>DroYak_CAF1 3279 117 - 1
UUUGCGGGGGAGAUGCGACGCGCACGCAGCGUCGUCAAUGGAGAAAAAUAAAAGAGAAAGCGCCCGCUCAGCUCAGCCAGUCUCCGUUGACCGCGCGGUCGGCGAGCUUUCUUGCAA
.(((((((..((.((((((((....)).((((.(((((((((((.........(((..(((....)))...)))......))))))))))).)))).))).)))..))..))))))) ( -50.36)
>consensus
CUUGCGGGAGAGAUGCGACGCGCACGCAGCGUCGUCAAUGGAGAAAAAUAAAAGAGAAAGCGCCCGCUCAGCUCAGCCAGUCUCCGUUGACCGCGCGGUUGGCGAGCUUUCUUGCAA
.(((((((((((.((((((((....)).((((.(((((((((((.........(((..(((....)))...)))......))))))))))).)))).))).)))..))))))))))) (-42.54 = -42.98 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:18 2006