Locus 5664

Sequence ID 3R_DroMel_CAF1
Location 14,880,936 – 14,881,040
Length 104
Max. P 0.549924
window9259

overview

Window 9

Location 14,880,936 – 14,881,040
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 80.33
Mean single sequence MFE -19.49
Consensus MFE -14.68
Energy contribution -15.16
Covariance contribution 0.48
Combinations/Pair 1.05
Mean z-score -1.43
Structure conservation index 0.75
SVM decision value 0.03
SVM RNA-class probability 0.549924
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14880936 104 + 27905053
GGCAUUGCCAAAAAGGCCAAAAAACAAAAAAAAAACAUCUCCCUUCCCACCAAAGUGGAUGAUGAUCCAUCGAUAAUUGCUGGCUCUAUGGAAUGCAUAAUUUC
.(((((.(((....(((((................((((((((((.......))).))).))))(((....)))......)))))...))))))))........ ( -23.20)
>DroSec_CAF1 8689 90 + 1
GGCAUUGCCAAAAAGGCCAAAAAC-----------UCUCUUCCUUCCCCCCAAAGUGGAU---GAUCCAUUGAUAAUUGCUGGCUCUAUGGAAUGCAUAAUUCA
.(((((.(((....(((((.....-----------..................(((((..---...)))))(.......))))))...))))))))........ ( -16.80)
>DroSim_CAF1 8540 90 + 1
GGCAUUGCCAAAAAGGCCAAAAAC-----------CCACUCCCUGCCCCCCAAAGUGGAU---GAUCCAUUGAUAAUUGCUGGCUCUAUGGAAUGCAUAAUUCA
.(((((.(((....(((((.....-----------(((((.............)))))..---.(((....)))......)))))...))))))))........ ( -19.62)
>DroEre_CAF1 8572 81 + 1
GGCAUUGCCAAAAAGGCCAAAAA--------------------CCCCUCCCAAAGUGGAU---GAUCCACCGAUAAUUGCUGGCUAUAUGGAAUGCAUAAUUUC
.(((((.(((....(((((....--------------------...........((((..---...))))(((...))).)))))...))))))))........ ( -18.10)
>DroYak_CAF1 9232 90 + 1
GGCAUUGCCAAAAAGGCAAAAAAG-----------UAAAAAAGCCCCUCCCAAACUGGAU---GAUCCAUCGAUAAUUGCUGGGUCUAUGGAAUGCAUAAUUUC
.(((((.(((....(((.......-----------.......)))..(((......))).---((((((.(((...))).))))))..))))))))........ ( -19.74)
>consensus
GGCAUUGCCAAAAAGGCCAAAAAC___________CAACUCCCUCCCCCCCAAAGUGGAU___GAUCCAUCGAUAAUUGCUGGCUCUAUGGAAUGCAUAAUUUC
.(((((.(((....(((((...................................((((((....)))))).(.......))))))...))))))))........ (-14.68 = -15.16 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:09 2006