Locus 1298

Sequence ID 2R_DroMel_CAF1
Location 5,057,661 – 5,057,775
Length 114
Max. P 0.555074
window2255

overview

Window 5

Location 5,057,661 – 5,057,775
Length 114
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 88.02
Mean single sequence MFE -37.48
Consensus MFE -26.50
Energy contribution -27.75
Covariance contribution 1.25
Combinations/Pair 1.09
Mean z-score -1.54
Structure conservation index 0.71
SVM decision value 0.04
SVM RNA-class probability 0.555074
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5057661 114 + 20766785
GCUUCAGGC---UUCCUAGUUUGCUGCAUCGGCAUCAGCUCCUGUUUGACCAUCAUUAUGUCGUCGGUUAUCUGCGCAGGCGGAUGGACCAAAGGCAAUGGAAAGGGAACUGACAUU
((..(((((---(....))))))..)).......((((.((((......((((.....((((...((((((((((....)))))).))))...))))))))...)))).)))).... ( -35.00)
>DroSec_CAF1 494 114 + 1
GCUUCAGAC---GUCCUAGUUUGCUGCAUUGGCAUUAGCUCCUGUUUGACCAUCAUUAUGUCGUUGGUUAUCUCCGCAGGCGGAUGAACCAACGGCAAUGGAAACGGAACUGGCAUU
((..(((((---......)))))..))....((..(((.(((.((((..((((.....(((((((((((...((((....))))..)))))))))))))))))))))).)))))... ( -40.50)
>DroSim_CAF1 494 114 + 1
GCUUCAGAC---GUCCUAGUUUGCUGCAUUGGCAUCAGCUCCUGUUUGACCAUCAUUAUGUCGUUGGUUAUCUCCGCAGGCGGAUGAACCAAGGGCAAUGGAAACGGAACUGGCAUU
((..(((((---......)))))..))....((..(((.(((.((((..((((.....((((.((((((...((((....))))..)))))).))))))))))))))).)))))... ( -38.50)
>DroEre_CAF1 494 117 + 1
ACUUCCGGUUCUUUCCUUAGUUGCUGUAUCGGCAUCAGCUCCUGUUUGACCAUCAUCAUGUCGUUGGCUAUCUGCACAGGCGGAUGAACCAAGGGCAUUGGAAACGGAACUGUCAUA
.....(((((((((((.(((..((((.........))))..))).............(((((.((((.(((((((....)))))))..)))).))))).))))..)))))))..... ( -35.90)
>consensus
GCUUCAGAC___GUCCUAGUUUGCUGCAUCGGCAUCAGCUCCUGUUUGACCAUCAUUAUGUCGUUGGUUAUCUCCGCAGGCGGAUGAACCAAGGGCAAUGGAAACGGAACUGGCAUU
.....................((((.....))))((((.(((.((((..((((.....((((.((((((((((((....)))))).)))))).))))))))))))))).)))).... (-26.50 = -27.75 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:34 2006