Locus 2330

Sequence ID X_DroMel_CAF1
Location 6,260,775 – 6,260,891
Length 116
Max. P 0.572430
window3780

overview

Window 0

Location 6,260,775 – 6,260,891
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 73.04
Mean single sequence MFE -28.06
Consensus MFE -11.61
Energy contribution -12.05
Covariance contribution 0.44
Combinations/Pair 1.47
Mean z-score -2.31
Structure conservation index 0.41
SVM decision value 0.08
SVM RNA-class probability 0.572430
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6260775 116 + 22224390
AACUACACGUGGCAGGAAAUCAUACCGGAAGAAAUAAUA---GCUCAAAUUGAUGGUA-UAAUGUUUAUUCUAAUAGAUAUUUUCAUAUUUUACAGCUAUAGAGCUGCUGUCAAGAAGGC
.........((((((.(..((....(....).....(((---(((.......((((..-.(((((((((....))))))))).)))).......)))))).))..).))))))....... ( -23.84)
>DroSec_CAF1 2481 120 + 1
AACUACACCUGGCAGGAAACCAUACUGCGAGAAAUAGUAGCAGCUCAAGCUGAUAGUAGUAAUAUUUAUUCAAAUAGCUAUUUCCCUAUUUUCCAGCUAUAGAGCUGCUGCCAAGAAUGG
........((.((((.........)))).)).....((((((((((.(((((..(((((.((((.((((....)))).))))...)))))...)))))...))))))))))......... ( -36.20)
>DroSim_CAF1 2381 120 + 1
AACUACACCUGGCAGGAAACCAUACUGCGAGAAAUACUAGCAGCUCAAGUUGAUAGUAGUAAUAUUUAUUCUGAUAGCUAUUUCCCUAUUUUCCAGCUAUAGAGCUGCUGCCAAGAAUGG
........((.((((.........)))).))......(((((((((.(((((..(((((.((((.((((....)))).))))...)))))...)))))...)))))))))(((....))) ( -30.90)
>DroYak_CAF1 1969 105 + 1
AAUAAUUCGUAGCAGGAGACCAUACUGAAAGAAAUAAUA---ACUCAAGUUAUGUGUA-UAACACAUAUUCUUGUAACUAUAGAAUUAUUUUAUGGCUGUAGAAUUAUU-----------
((((((((...((((........................---...((((.((((((..-...))))))..))))...(((((((.....))))))))))).))))))))----------- ( -21.30)
>consensus
AACUACACCUGGCAGGAAACCAUACUGCAAGAAAUAAUA___GCUCAAGUUGAUAGUA_UAAUAUUUAUUCUAAUAGCUAUUUCCCUAUUUUACAGCUAUAGAGCUGCUGCCAAGAAUGG
.........((((((...............(((((((...((((....))))..((((((..((((......))))))))))...))))))).(((((....)))))))))))....... (-11.61 = -12.05 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:46 2006