Locus 1886

Sequence ID X_DroMel_CAF1
Location 5,232,127 – 5,232,242
Length 115
Max. P 0.998821
window3064

overview

Window 4

Location 5,232,127 – 5,232,242
Length 115
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 95.08
Mean single sequence MFE -41.12
Consensus MFE -38.90
Energy contribution -39.14
Covariance contribution 0.24
Combinations/Pair 1.08
Mean z-score -1.98
Structure conservation index 0.95
SVM decision value 3.24
SVM RNA-class probability 0.998821
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5232127 115 + 22224390
GCUACGGCAUUUAGUGGCCACAUCUCUAGGGCUUCAGGUGGCAAGCCUCUUCAGGUGGAACAGCAGGCUAUCACGGGGAAGCUCUCUCUGCUGGGCCAUUUUAGUCGAUUUGCAU
((..((((....(((((((.(((((..(((((((........))))).))..)))))...(((((((((.((....)).))).....)))))))))))))...))))....)).. ( -41.20)
>DroSec_CAF1 8451 113 + 1
GCUUCGGCAUUUAGUGGCCACAUCUCUAGGGCUUCAGGUGUUAAGCCUCUUCAGUUGGAACAGCAGGUUAUCACGGGGAAGCUC--UCUGUUGGGCCAUUUUAGUCGAUUUGCAU
((.(((((....(((((((.((.(...((((((((..(((...(((((((((.....))..)).)))))..)))...)))))))--)..).)))))))))...)))))...)).. ( -40.50)
>DroSim_CAF1 6329 113 + 1
GCUUCGGCAUUUAGUGGCCACAUCUCUAGGGCUUCAGGUGGUAAGCCUCUUCAGGUGGAACAGCAGGUUAUCACGGGGAAGCUC--UCUGUUGGGCCAUUUUAGUCGAUUUGCAU
((.(((((....(((((((.((.(...((((((((..(((((((.(((((((.....))..)).))))))))))...)))))))--)..).)))))))))...)))))...)).. ( -43.20)
>DroEre_CAF1 8520 113 + 1
GCUUCAGCAUUUAGUGGCCACAUCUCUAGGGCUUCAGGUGGUAAGCCUCUGCAGGUGGAACAGCGGGUUAUCACGGGGAAACUC--UCUGUUGGGCCAUUUUAGUCGAUUUGCAU
((.((.((....(((((((.(((((.((((((((........))))).))).)))))...((((((((....))(((....)))--.)))))))))))))...)).))...)).. ( -39.90)
>DroYak_CAF1 8718 113 + 1
GCUUCAGCAUUUAGUGGCCACAUCUCUAGGGCUUCAGGUGGUAAGCCUCUUCAGGUGGAACAGCGGGUUAUCACGGGGAAGCUC--UUUGUUGGGCCAUUUUAGUCGAUUUGCAU
((.((.((....(((((((.((.(...((((((((..(((((((.((.((((.....))..)).)).)))))))...)))))))--)..).)))))))))...)).))...)).. ( -40.80)
>consensus
GCUUCGGCAUUUAGUGGCCACAUCUCUAGGGCUUCAGGUGGUAAGCCUCUUCAGGUGGAACAGCAGGUUAUCACGGGGAAGCUC__UCUGUUGGGCCAUUUUAGUCGAUUUGCAU
((.(((((....(((((((.(((((..(((((((........))))).))..)))))...(((((((.......(((....)))..))))))))))))))...)))))...)).. (-38.90 = -39.14 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:02 2006