Locus 617

Sequence ID 2R_DroMel_CAF1
Location 3,132,023 – 3,132,113
Length 90
Max. P 0.955618
window1108

overview

Window 8

Location 3,132,023 – 3,132,113
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 72.22
Mean single sequence MFE -13.84
Consensus MFE -5.70
Energy contribution -5.70
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.41
SVM decision value 1.46
SVM RNA-class probability 0.955618
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3132023 90 + 20766785
CGUAAGGCGCUCGGGCGCCAAUGCACCACCACACACCACUCAUCAUCACUCACAACUCGCAAUUACAGCAAUUUCUUUUAAUUGCAAUCA
.(((((((((....)))))..(((..................................))).)))).((((((......))))))..... ( -18.48)
>DroPse_CAF1 19194 71 + 1
C---------UCGGAUGUCCAUG----------CAAUCGUCUCAGCACUUGGCAAGUCGCAAUUACAGCAAUUUCUUUUAAUUGCAAUCA
.---------...(((..(((((----------(..........)))..)))...))).........((((((......))))))..... ( -11.40)
>DroSec_CAF1 22039 69 + 1
CGU----------GGCGCCU-UG----------CACCACUCACCACCCAUCACAACUCGCAAUUACAGCAAUUUCUUUUAAUUGCAAUCA
.((----------((.((..-.)----------).))))............................((((((......))))))..... ( -12.90)
>DroSim_CAF1 22498 69 + 1
CGU----------GGCGCCU-UG----------CAGCACUCACCGCCCAUCACAACUCGCAAUUACAGCAAUUUCUUUUAAUUGCAAUCA
.(.----------((((...-.(----------.....)....)))))...................((((((......))))))..... ( -10.20)
>DroPer_CAF1 19039 71 + 1
C---------UCGGAUGCCCAUG----------CAAUCGUCUCAGCACUUGGCAAGUCGCAAUUACAGCAAUUUCUUUUAAUUGCGAUCA
.---------.....((((..((----------(..........)))...)))).((((((((((.((......))..)))))))))).. ( -16.20)
>consensus
CGU_______UCGGGCGCCCAUG__________CAACACUCACCGCCCAUCACAACUCGCAAUUACAGCAAUUUCUUUUAAUUGCAAUCA
...................................................................((((((......))))))..... ( -5.70 =  -5.70 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:55 2006