Locus 5152

Sequence ID 2R_DroMel_CAF1
Location 16,767,441 – 16,767,538
Length 97
Max. P 0.746247
window8240

overview

Window 0

Location 16,767,441 – 16,767,538
Length 97
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 83.10
Mean single sequence MFE -26.37
Consensus MFE -21.52
Energy contribution -21.42
Covariance contribution -0.11
Combinations/Pair 1.16
Mean z-score -1.78
Structure conservation index 0.82
SVM decision value 0.46
SVM RNA-class probability 0.746247
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16767441 97 - 20766785
GAA-----------CGGCGGCGGGAAUGAGCGAAAUCUGCUCGAGAAUUUACUUUGCUACAAAGAUUUUCCAAAUCGUUGGGCAAAAUGGAGCUCAAGGGCAGAUUAU
...-----------.....((........))..(((((((((..((.((((.((((((.(((.((((.....)))).))))))))).))))..))..))))))))).. ( -27.00)
>DroSec_CAF1 79393 88 - 1
--------------------CGGGAAUGAGCGAAAUCUGCUCGGGAAUUUACUUUGCUACAAAGAUUUUCCAAAUCGUUGGGCAAAAUGGAGCUCAAGGGCAGAUUAU
--------------------.............(((((((((.((((..(.(((((...))))))..))))......((((((........))))))))))))))).. ( -26.40)
>DroSim_CAF1 77734 88 - 1
--------------------CGGGAAUGAGCGAAAUCUGCUCGGGAAUUUACUUUGCUACAAAGAUUUUCCAAAUCGUUGGGCAAAAUGGAGCUCAAGGGCAGAUUAU
--------------------.............(((((((((.((((..(.(((((...))))))..))))......((((((........))))))))))))))).. ( -26.40)
>DroEre_CAF1 76953 96 - 1
AA------------CGGCGGCUGGAAUGAGCGAAAUCUGCUCGGGAAUUUACUUUGCUACAAAGAUUUUCCAAAUCGUUGGGCAAAAUGGAGCUCAAGGGCAGAUUAU
..------------.....(((......)))..(((((((((.((((..(.(((((...))))))..))))......((((((........))))))))))))))).. ( -28.90)
>DroYak_CAF1 82925 108 - 1
AAACGGAACGGAGGCGGCGGAGGGAAUGAGUGAAAUCUGUUGGGGAAUUUACUUUGCUACAAAGAUUUUCCAAAUCGUUGGGCAAAAUGGAGCUCAAGGGCAGAUUAU
...((...((....)).))..............((((((((((..(((...(((((...))))))))..)))...(.((((((........)))))).)))))))).. ( -24.10)
>DroAna_CAF1 96850 96 - 1
AAU-----------CGG-AGGGAGAAUGAGGAGAAUCUGUUCAGAAAUGUAUUUUUCUCGAAAGAUUUUCCAAAUCGUUGGACGGAAUCGGGCUCAAGGGCAGAUUAU
(((-----------(.(-...(((..((((((((((((.((((((((......))))).))))))))))))...(((.....)))..)))..))).....).)))).. ( -25.40)
>consensus
AA____________CGG_GGCGGGAAUGAGCGAAAUCUGCUCGGGAAUUUACUUUGCUACAAAGAUUUUCCAAAUCGUUGGGCAAAAUGGAGCUCAAGGGCAGAUUAU
.................................((((((((((((((....(((((...)))))..)))))......((((((........))))))))))))))).. (-21.52 = -21.42 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:52 2006