Locus 7238

Sequence ID X_DroMel_CAF1
Location 18,081,804 – 18,081,900
Length 96
Max. P 0.533542
window11845

overview

Window 5

Location 18,081,804 – 18,081,900
Length 96
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 89.47
Mean single sequence MFE -30.45
Consensus MFE -21.55
Energy contribution -21.80
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.71
SVM decision value -0.00
SVM RNA-class probability 0.533542
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18081804 96 + 22224390
GCACCAUGUAGC-GAGGGAUACCUGG-CACAUCCAAUUAACCCAAUCGGCUCAGUUCAGCUUAGCACCUGGCGCUAAAUUUAGCCAUUGGCAUUUGGC---------------
.....((((.((-.(((....))).)-)))))((((.....(((((.((((.((((.(((((((...)))).))).)))).)))))))))...)))).--------------- ( -29.40)
>DroSec_CAF1 4164 96 + 1
GCACCAUGUAGC-GAGGGAUACCUGG-CACAUCCAAUUAACCCAAUCGGCUCAGUUCAGCUUAGCACCUGGCGCUAAAUUUAGCCAUUGGCAUUUGGC---------------
.....((((.((-.(((....))).)-)))))((((.....(((((.((((.((((.(((((((...)))).))).)))).)))))))))...)))).--------------- ( -29.40)
>DroSim_CAF1 3972 96 + 1
GCACCAUGUAGC-GAGGGAUACCUGG-CACAUCCAAUUAACCCAAUCGGCUCAGUUCAGCUUAGCACCUGGCGCUAAAUUUAGCCAUUGGCAUUUGGC---------------
.....((((.((-.(((....))).)-)))))((((.....(((((.((((.((((.(((((((...)))).))).)))).)))))))))...)))).--------------- ( -29.40)
>DroYak_CAF1 2611 113 + 1
GCACCACGUAGCGUAGGGAUACCUGGGCACAUCCAAUUAAACCAAUCGGCUCAGUUCAGCUUAGCACCUGGCGCUAAAUUUAGCCACUGCCAUUUGGCCAUUCGGCAAUGGCU
((.(((.((.((.((((....)))).))....................(((.((.....)).))))).))).)).......(((((.((((............)))).))))) ( -33.60)
>consensus
GCACCAUGUAGC_GAGGGAUACCUGG_CACAUCCAAUUAACCCAAUCGGCUCAGUUCAGCUUAGCACCUGGCGCUAAAUUUAGCCAUUGGCAUUUGGC_______________
((.(((.((......(((.((..(((......)))..)).))).....(((.((.....)).))))).))).))........((((........))))............... (-21.55 = -21.80 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:49 2006