Locus 6628

Sequence ID 2R_DroMel_CAF1
Location 20,721,334 – 20,721,454
Length 120
Max. P 0.651396
window10555

overview

Window 5

Location 20,721,334 – 20,721,454
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.75
Mean single sequence MFE -29.84
Consensus MFE -26.54
Energy contribution -26.42
Covariance contribution -0.12
Combinations/Pair 1.09
Mean z-score -1.24
Structure conservation index 0.89
SVM decision value 0.25
SVM RNA-class probability 0.651396
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20721334 120 + 20766785
GAUAAAACGUAUAAAUAAAAAUUAUUAAAGCAGAGCUGCGAAAGCAACGGAUUGUUGAUUGCAUCUGAUUCGUUGUCGCUUCCUGUAGUCGAAUAUGAUUAUACUUGAGGCAUAUGCGGU
.......((((((................(((....)))....((((((((((..((....))...)))))))))).(((((.(((((((......)))))))...))))).)))))).. ( -29.60)
>DroSec_CAF1 154733 120 + 1
GAUAAAACGUAUAAAUAAGAAUUAUUAAAGCAGAGCUGCGAAAGCAACGGAUUGUUGAUUGCAUAUGAUUCGUUGUCGCUUCCUGUAGUCGAAUAUGAUUAUACUUGAGGCAUGUGCGGU
.......((((((................(((....)))....(((((((((..(((....)).)..))))))))).(((((.(((((((......)))))))...))))).)))))).. ( -30.90)
>DroSim_CAF1 159818 120 + 1
GAUAAAACGUAUAAAUAAGAAUUAUUAAAGCAGAGCUGCGAAAGCAACGGAUUGUUGAUUGCAUAUGAUUCGUUGUCGCUUCCUGUAGUCGAAUAUGAUUAUACUUGAGGCAUGUGCGGU
.......((((((................(((....)))....(((((((((..(((....)).)..))))))))).(((((.(((((((......)))))))...))))).)))))).. ( -30.90)
>DroEre_CAF1 195383 120 + 1
GAUAAGACGUAUAAAUGAAAAUGAUUAAAGAAGAGCUGCGAACGCAACGGAUUGUUGAUUUCGGAUGAUUCGUUGUCGCUUCCUGUAGUCGAAUUGGAUUGUACUUUAGGCAUAUGCGGC
.......((((((........................(((...(((((((((..((.......))..))))))))))))..((((.((((((......))).))).))))..)))))).. ( -27.30)
>DroYak_CAF1 160599 120 + 1
GAUAAAACGUAUAAAUAAGAAUGAUUAAAGAAGAGCUGCGAACGCAACGGAUUGUUGGUUUCGGAUGAUUCGUUGUCGCUUUCUGUAGUCGAAUUGGAUUGUACUUCAGGCAUAUGCGGC
.......((((((........((((((....((((..(((...(((((((((..((.(...).))..)))))))))))).)))).))))))..(((((......)))))...)))))).. ( -30.50)
>consensus
GAUAAAACGUAUAAAUAAGAAUUAUUAAAGCAGAGCUGCGAAAGCAACGGAUUGUUGAUUGCAUAUGAUUCGUUGUCGCUUCCUGUAGUCGAAUAUGAUUAUACUUGAGGCAUAUGCGGU
..................................((((((...((((((((((((((....)).)))))))))))).(((((.(((((((......)))))))...)))))...)))))) (-26.54 = -26.42 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:36 2006