Locus 170

Sequence ID X_DroMel_CAF1
Location 623,362 – 623,473
Length 111
Max. P 0.500000
window272

overview

Window 2

Location 623,362 – 623,473
Length 111
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.31
Mean single sequence MFE -40.65
Consensus MFE -27.99
Energy contribution -29.55
Covariance contribution 1.56
Combinations/Pair 1.03
Mean z-score -1.51
Structure conservation index 0.69
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 623362 111 - 22224390
GAAACGAAAGCGCCGCCAGAGAUGAGAUGCGC-----GCCUGGCUCGGAUGAC----UGGCUAUCUAGCUGGAAGCGGAUAUCUGGCUCAGACGUCCACUCAAAUGGAGAUGGAGGCAGC
....(....).(((((((((......((.(((-----..(..(((.(((((..----....))))))))..)..))).)).)))))).......(((((((.....))).)))))))... ( -40.20)
>DroSec_CAF1 7793 111 - 1
GAAACGAAAGCGCCGCCAGAGAUGAGAUGCGC-----GACUGGCUCGGAUGAC----UGGCUAUCUAGCUGGAAGCGGAUAUCUGGCUCAGACGUCCACUCAAAUGGAGAUGGAGGCAGC
....(....).(((((((((......((.(((-----..(..(((.(((((..----....))))))))..)..))).)).)))))).......(((((((.....))).)))))))... ( -41.10)
>DroSim_CAF1 2054 111 - 1
GAAACGAAAGCGCCGCCAGAGAUGAGAUGCGC-----GACUGGCUCGGAUGAC----UGGCUAUCUAGCUGGAAGCGGAUAUCUGGCUCAGACGUCCACUCAAAUGGAGAUGGAGGCAGC
....(....).(((((((((......((.(((-----..(..(((.(((((..----....))))))))..)..))).)).)))))).......(((((((.....))).)))))))... ( -41.10)
>DroEre_CAF1 8079 114 - 1
GAAACGAAAGCGCCGCCAGAGAUGAGAUGGGCUUGGAGACCGGCUCGGAUGAGCGAACGGCUAUCUAGCUGGAUACGUUAAUCUGGCCCAGACGUCCACUCA------GAUGCAGGCAGC
....(....).((.(((.(...((((.(((((..(....).(((.(((((.((((..(((((....)))))....)))).)))))))).....)))))))))------....).))).)) ( -40.20)
>consensus
GAAACGAAAGCGCCGCCAGAGAUGAGAUGCGC_____GACUGGCUCGGAUGAC____UGGCUAUCUAGCUGGAAGCGGAUAUCUGGCUCAGACGUCCACUCAAAUGGAGAUGGAGGCAGC
....(....).(((((((((......((.(((.......((((((.(((((..........)))))))))))..))).)).)))))).......(((((((.....))).)))))))... (-27.99 = -29.55 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:59 2006