Locus 53

Sequence ID 2R_DroMel_CAF1
Location 1,308,416 – 1,308,536
Length 120
Max. P 0.604993
window103

overview

Window 3

Location 1,308,416 – 1,308,536
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.92
Mean single sequence MFE -39.35
Consensus MFE -33.14
Energy contribution -34.70
Covariance contribution 1.56
Combinations/Pair 1.08
Mean z-score -1.56
Structure conservation index 0.84
SVM decision value 0.14
SVM RNA-class probability 0.604993
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1308416 120 + 20766785
CCCAUGUGAUUGCGAUUGUGCGAAUGUGCGGUGGGGGUCCUCUUCGGCACACCCGCACACAAAUAAGAGCAACAAGAGCAUUUAGCGUCACUUUGGUGGCAAAAAUGGCUUGACCCAAAU
....(((..(((....((((((..(((((.(.(((....)))..).)))))..))))))....)))..))).((((..(((((...(((((....)))))..))))).))))........ ( -36.80)
>DroSec_CAF1 26822 120 + 1
CCCAUGUGAUUGUGAUUGUGCGAGUGUGCGGUGAGGGUGCUCUUCGGCACACCCGCACACAAAUAAGAGCAACAAGAGCGUUUAGCGUCACUUUGGUGGCAAAAAUGGCUUGACCCAAAU
....(((..((((...((((((.((((((.(.(((....)))..).)))))).))))))...))))..))).((((..(((((...(((((....)))))..))))).))))........ ( -42.10)
>DroSim_CAF1 5816 120 + 1
CCCAUGUGAUUGUGAUUGUGCGAGUGUGCGGUGAGGGUGCUCUUCGGCACACCCGCACACAAAUAAGAGCAACAAGAGCGUUUAGCGUCACUUUGGUGGCAAAAAUGGCUUGACCCAAAU
....(((..((((...((((((.((((((.(.(((....)))..).)))))).))))))...))))..))).((((..(((((...(((((....)))))..))))).))))........ ( -42.10)
>DroEre_CAF1 9653 114 + 1
CCCACGUGA------UUGUGCGAAUGUGCGGCGGUGGUCCUUUUGGGCACACCCGCACACAAAUAAGAGCAACAAGAGCAUUUAGCGUCACUUUGGUGGCAAAAAUGGCUUGACCCAAAU
.....((..------((((.....(((((((..(((.(((....))))))..)))))))...))))..))..((((..(((((...(((((....)))))..))))).))))........ ( -36.40)
>consensus
CCCAUGUGAUUGUGAUUGUGCGAAUGUGCGGUGAGGGUCCUCUUCGGCACACCCGCACACAAAUAAGAGCAACAAGAGCAUUUAGCGUCACUUUGGUGGCAAAAAUGGCUUGACCCAAAU
.....((..((((...((((((.((((((.(.(((....)))..).)))))).))))))...))))..))..((((..(((((...(((((....)))))..))))).))))........ (-33.14 = -34.70 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:57 2006