Locus 4120

Sequence ID 3R_DroMel_CAF1
Location 11,238,904 – 11,239,001
Length 97
Max. P 0.720915
window6602

overview

Window 2

Location 11,238,904 – 11,239,001
Length 97
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 80.29
Mean single sequence MFE -51.88
Consensus MFE -35.62
Energy contribution -35.52
Covariance contribution -0.11
Combinations/Pair 1.26
Mean z-score -1.54
Structure conservation index 0.69
SVM decision value 0.40
SVM RNA-class probability 0.720915
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11238904 97 + 27905053
--------AAGUGGCGGCGGGUCGGGCCAAGGCGGCUCCACGCAGUCGACGGCAGCACUUAUGCUAGCCGGCGGCCUGAAGGGCGUGGGUCCGGCCCCCUCAGCA
--------..((.(.((.((((((((((...(((.(((....((((((.((((((((....)))).)))).))).)))..)))))).)))))))))))).).)). ( -49.50)
>DroPse_CAF1 10469 105 + 1
GGGGUCAUUAGUGGCGGCGGGGCUGGCCAGGGUGGCGCUACGCAGUCGGCUGCAGUUCUCUUGCUUGCAGGCGGCCUGAAGGCCUCUGGGCCAGCCUCGUCCGCC
............((((((((((((((((.(((.(((.((...((((((.(((((((......)).))))).))).))).)))))))).))))))))))).))))) ( -60.50)
>DroSec_CAF1 9987 97 + 1
--------AAGUGGCGGCGGGUCGGGCCAAGGCGGCUCCACGCAGUCGACGGCAGCACUUAUGCUGGCCGGCGGCCUGAAGGGCGUGGGUCCGGCCCCCUCAACA
--------..((.(.((.((((((((((...(((.(((....((((((.((((((((....)))).)))).))).)))..)))))).)))))))))))).).)). ( -49.20)
>DroEre_CAF1 10334 97 + 1
--------AAGUGGCGGCGGGUCGGGCCAAGGCGGCUCCACGCAGUCGACGGCAGCACUUAUGCUGGCCGGCGGCCUGAAGUUCGUGGGUCAGGCCCCCUCAGCA
--------..((.(.((.(((((..((....))(((.(((((((((((.((((((((....)))).)))).))).))).....)))))))).))))))).).)). ( -43.80)
>DroYak_CAF1 11327 97 + 1
--------AAGUGGCGGUGGGUCGGGCCAAGGCGGCUCCACGCAGUCGACGGCAGCACUUAUGCUGGCCGGCGGCCUGAAGUUUGCGGGUCCGGCCCCCUCAGCA
--------..((.(.((.((((((((((...(((......))).((((.((((((((....)))).)))).))))............)))))))))))).).)). ( -47.80)
>DroPer_CAF1 10548 105 + 1
GGGGUCAUCAGUGGCGGCGGGGCUGGCCAGGGUGGCGCUACGCAGUCGGCUGCAGUUCUCUUGCUUGCAGGCGGCCUGAAGGCCUCUGGGCCAGCCUCGUCCGCC
............((((((((((((((((.(((.(((.((...((((((.(((((((......)).))))).))).))).)))))))).))))))))))).))))) ( -60.50)
>consensus
________AAGUGGCGGCGGGUCGGGCCAAGGCGGCUCCACGCAGUCGACGGCAGCACUUAUGCUGGCCGGCGGCCUGAAGGCCGCGGGUCCGGCCCCCUCAGCA
............((.(((...(((((((...(((......)))....(.(((((((......))).)))).)))))))).((((....)))).)))))....... (-35.62 = -35.52 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:42 2006