Locus 3340

Sequence ID 2R_DroMel_CAF1
Location 11,349,844 – 11,349,935
Length 91
Max. P 0.998270
window5464

overview

Window 4

Location 11,349,844 – 11,349,935
Length 91
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 95.70
Mean single sequence MFE -38.84
Consensus MFE -33.82
Energy contribution -34.26
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -2.50
Structure conservation index 0.87
SVM decision value 3.05
SVM RNA-class probability 0.998270
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11349844 91 + 20766785
CAGUGGCG---GUAGCAGUGGAAAUUGAGAGUUGGCUUCGUGCCUCGCCCGCGGUCCAUCAGCCGACAAUUUCUACUGAAGCGCCGCCAAGCAG
...(((((---((..(((((((((((....(((((((..(((..(((....)))..))).))))))))))))))))))....)))))))..... ( -39.40)
>DroSec_CAF1 8024 94 + 1
CAGUGGCGGUGGUAGCAGUGGAAAUUGAGAGUUGGCUUCGUGCCUCGCCCGCGGUCCAUCAGCCGACAAUUUCUACUGAAGCACCGCCAAGCAG
...((((((((.(..(((((((((((....(((((((..(((..(((....)))..))).)))))))))))))))))).).))))))))..... ( -42.40)
>DroSim_CAF1 7848 94 + 1
CAGUGGCGGUGGUAGCAGUGGAAAUUGAGAGUUGGCUUCGUGCCUCGCCCGCGGUCCAUCAGCCGACAAUUUCUACUGAAGCGCCGCCAAGCAG
...((((((((.(..(((((((((((....(((((((..(((..(((....)))..))).)))))))))))))))))).).))))))))..... ( -42.00)
>DroEre_CAF1 10202 91 + 1
CAGUGGCA---GUAGCAGUGGAAAUUGAGAGUUGGCUUCGUGCCUCGCCCGCGGUCCAUCAGCCGACAAUUUCUACUGAAGCGCCGCCAAGCAG
..(((((.---((..(((((((((((....(((((((..(((..(((....)))..))).))))))))))))))))))..)))))))....... ( -36.50)
>DroYak_CAF1 7929 91 + 1
CAGUGGCA---GUAGCAGUGGAAGUUGAGAGUUGGCUUCGUGCCUCGCCCGCGGUCCAUCAGCCAACAAAUUCUACUGAAGCGCCGCCAAGCAG
..(((((.---((..((((((((.......(((((((..(((..(((....)))..))).)))))))...))))))))..)))))))....... ( -33.90)
>consensus
CAGUGGCG___GUAGCAGUGGAAAUUGAGAGUUGGCUUCGUGCCUCGCCCGCGGUCCAUCAGCCGACAAUUUCUACUGAAGCGCCGCCAAGCAG
...(((((...((..(((((((((((....(((((((..(((..(((....)))..))).))))))))))))))))))..))..)))))..... (-33.82 = -34.26 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:09 2006