Locus 4788

Sequence ID 2L_DroMel_CAF1
Location 13,665,520 – 13,665,619
Length 99
Max. P 0.998304
window7579

overview

Window 9

Location 13,665,520 – 13,665,619
Length 99
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 69.91
Mean single sequence MFE -28.86
Consensus MFE -18.18
Energy contribution -17.74
Covariance contribution -0.44
Combinations/Pair 1.25
Mean z-score -2.47
Structure conservation index 0.63
SVM decision value 3.06
SVM RNA-class probability 0.998304
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13665520 99 + 22407834
CAGCG-GCAGUUCGACGUGAACUCGCGAGCGGCCAACACGUAAGCGGCGCGUUGUGCAGCUGUUUAAAAAACUCGGCAGCAAAAUAACAAA-AAAA-AAA-AU
..(((-((.(((((.((......))))))).)))....((....))..))(((((...(((((..(......)..)))))...)))))...-....-...-.. ( -28.20)
>DroVir_CAF1 29346 75 + 1
CCGCG-GCAGUGUGACGAGAACGCGUGAGCAGCCAACACGUAAACGACGCGUUGUGCGCUGC-GCCAACAA-----------UAAAAA---------------
.((((-((..............((....)).((((((.(((.....))).)))).)))))))-).......-----------......--------------- ( -25.80)
>DroGri_CAF1 35296 87 + 1
CCGCGCGCAGUGUGACGAGAACGCGUGAGCGGCCAACACGUAAGCAACGCGUUGUGCGGUGC-GCUAAAGC-----------UGAAAUCAGUUUAAAAA----
..((((((.(((..(((.(..(((....)))..)....(((.....))))))..))).))))-))..((((-----------((....)))))).....---- ( -33.90)
>DroSec_CAF1 21932 101 + 1
CAGCG-GCAGUUCGACGUGAACUCGCGAGCGGCCAACACGUAAGCGGCGCGUUGUGCAGCUGUUUAAAAAACUCGGCAGCAAAAUAACAAA-AAAAAAAAAAA
..(((-((.(((((.((......))))))).)))....((....))..))(((((...(((((..(......)..)))))...)))))...-........... ( -28.20)
>DroSim_CAF1 21752 100 + 1
CAGCG-GCAGUUCGACGUGAACUCGCGAGCGGCCAACACGUAAGCGGCGCGUUGUGCAGCUGUUUAAAAAACUCGGCAGCAGAAUAACAAA-AAAA-AAAACA
..(((-((.(((((.((......))))))).)))....((....))..))(((((...(((((..(......)..)))))...)))))...-....-...... ( -28.20)
>consensus
CAGCG_GCAGUUCGACGUGAACUCGCGAGCGGCCAACACGUAAGCGGCGCGUUGUGCAGCUGUUUAAAAAACUCGGCAGCA_AAUAACAAA_AAAA_AAA___
((((.....(((((.((......))))))).((((((.(((.....))).)))).)).))))......................................... (-18.18 = -17.74 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:23 2006