Locus 1781

Sequence ID 3R_DroMel_CAF1
Location 5,112,308 – 5,112,421
Length 113
Max. P 0.890499
window2934

overview

Window 4

Location 5,112,308 – 5,112,421
Length 113
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 89.99
Mean single sequence MFE -20.42
Consensus MFE -16.39
Energy contribution -16.95
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.84
Structure conservation index 0.80
SVM decision value 0.96
SVM RNA-class probability 0.890499
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5112308 113 - 27905053
---UUCUUUGGACACCUCAUCAUUCUUAACCAAUCCGACCUUGACAAUGCCACCCAUCCAAUGCCAAUCUAACCGAAAUGUGGCUGUCAAAAGUGAAGCCACAAGCCCAAAUGGCA
---....(((((........((((.((((...........)))).)))).......)))))(((((.((.....))..(((((((.(((....))))))))))........))))) ( -21.66)
>DroSec_CAF1 13805 105 - 1
-----CUUUGGUCACCUCACCACUCUUAACCAAUUCGACCUUGACAAUGCCACCCAUCCAAUGCCAAUCUAACCGAAAUGUGGCUGUCAAAAGUGAAGCCAC------AAAUGGCA
-----...((((......))))...........((((...((((((..(((((...((................))...)))))))))))...))))((((.------...)))). ( -21.69)
>DroSim_CAF1 14360 111 - 1
-----CUUUGGUCACCUCAUCACUCUUAACCAAUUCGACCUUGACAAUGCCACCCAUCCAAUGCCAAUCUAACCGAAAUGUGGCUGUCAAAAGUGAAGCCACAAGCCCAAAUGGCA
-----....((((.......................)))).....................(((((.((.....))..(((((((.(((....))))))))))........))))) ( -20.80)
>DroEre_CAF1 15116 116 - 1
CCACUCCUUGGUCACCUAACCAUUCUCAACCAAAGCGACCUUGACAAUGCCACCCAUCCAAUGCCAAUCUAACCGAAAUGUGGCUGUCAAAAGUAAAGCCACAAGCCCAAAUGGCA
.......((((.........((((.((((...........)))).))))........))))(((((.((.....))..(((((((...........)))))))........))))) ( -21.13)
>DroYak_CAF1 15075 116 - 1
CUACUCCUUGGUCACCUAACCAUUCUCAACCAAACCGACCUUGACAAUGCCACCCAUCCAAUGCCAAUCUAACCGAAAUGUGGCUGUCAAAAGUAAAGCCACAAGCCCAAAUGACA
..........((((......((((.((((...........)))).)))).............................(((((((...........)))))))........)))). ( -16.80)
>consensus
____UCUUUGGUCACCUCACCAUUCUUAACCAAUCCGACCUUGACAAUGCCACCCAUCCAAUGCCAAUCUAACCGAAAUGUGGCUGUCAAAAGUGAAGCCACAAGCCCAAAUGGCA
.......((((.........((((.((((...........)))).))))........))))(((((.((.....))..(((((((...........)))))))........))))) (-16.39 = -16.95 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:20 2006