Locus 5048

Sequence ID 3L_DroMel_CAF1
Location 13,825,460 – 13,825,564
Length 104
Max. P 0.500000
window8006

overview

Window 6

Location 13,825,460 – 13,825,564
Length 104
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 60.70
Mean single sequence MFE -18.40
Consensus MFE -9.62
Energy contribution -8.29
Covariance contribution -1.32
Combinations/Pair 1.40
Mean z-score -1.23
Structure conservation index 0.52
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13825460 104 + 23771897
-------------CGUUUAUAAAAUUAGGC---GGAUCAACGUGAUCAGUAAAGUCUCACCCCUCUUGACAAGCAAAACAGUAUUUACCAAAAAUUAAAUGUUGUGUCGAGAAAUCGCAC
-------------((((((......)))))---)((((.....))))................((((((((.....((((..((((.....))))....)))).))))))))........ ( -19.60)
>DroSim_CAF1 7290 101 + 1
-------------UGUAUAUGAAAUUAAGU---UGAUCAACGUGAUCAGUAAAGUCUCACCCCUCUUGACAAGCAAAUCUUUAAUUACCACAAAUUAAAUG---UGUCGAGAAAUCGCAC
-------------(((...(((.(((...(---(((((.....))))))...))).)))....(((((((..(((....(((((((......)))))))))---))))))))....))). ( -17.00)
>DroYak_CAF1 7677 106 + 1
AAAGACACAUAUGUAUAUAUCAUAUCACAUAUAUGAUCGUGGCGAUCAAUAAAGUUUCACCUUUAUCGGCAAUUAAAUCUUU-----UCA-GAAUUUAAUG---AACUGAUAUAU-----
...((.((((((((((((...)))).)))))).((((((...)))))).....)).)).....((((((..(((((((((..-----..)-).))))))).---..))))))...----- ( -18.60)
>consensus
_____________UGUAUAUAAAAUUAAGU___UGAUCAACGUGAUCAGUAAAGUCUCACCCCUCUUGACAAGCAAAUCUUUA_UUACCA_AAAUUAAAUG___UGUCGAGAAAUCGCAC
..................................(((((...)))))................((((((((..((........................))...))))))))........ ( -9.62 =  -8.29 +  -1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:47 2006