Locus 6706

Sequence ID X_DroMel_CAF1
Location 16,729,538 – 16,729,647
Length 109
Max. P 0.652247
window10939

overview

Window 9

Location 16,729,538 – 16,729,647
Length 109
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.87
Mean single sequence MFE -28.15
Consensus MFE -23.67
Energy contribution -23.93
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.84
SVM decision value 0.25
SVM RNA-class probability 0.652247
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16729538 109 + 22224390
-AACCCCUGAUGGCCAAUGAUUAUACACACACACCCAGUGGCGGCUGUGCGGCAGUUGCCAAAAGCCAGUCGACCAUGGCAAAUAA----------UAAAAUGUAAGACAUUUGGCAAAC
-...........(((((((.((.((((...........(((((((((.....)))))))))...((((........))))......----------.....)))).)))).))))).... ( -30.80)
>DroSec_CAF1 10329 107 + 1
-AACCCCUGAUGGCCAAUGAUUAUACAC--ACACCCAGUGGCGGCUGUGCGGCAGUUGCCAAAAGCCAGUCGACCAUGGCAAAUAA----------UAAAAUGUAAGACACUCGGCAAAC
-...........(((..((.((.((((.--........(((((((((.....)))))))))...((((........))))......----------.....)))).))))...))).... ( -27.50)
>DroSim_CAF1 14270 108 + 1
UAACCCCUGAUGGCCAAUGAUUAUACAC--ACACCCAGUGGCGGCUGUGCGGCAGUUGCCAAAAGCCAGUCGACCAUGGCAAAUAA----------UAAAAUGUAAGACACUCGGCAAAC
............(((..((.((.((((.--........(((((((((.....)))))))))...((((........))))......----------.....)))).))))...))).... ( -27.50)
>DroYak_CAF1 9296 118 + 1
UAACCCCUGAUGGCCAAUGAGUAUACAC--ACCCCCUGCGGCGGCUGUGUGGCAGUUGCCAAAAGCCAGUCGACCAUGCCAAUGAAAAAAAAAAAACAAAAUUUAAGACACUCGGCAAAC
............(((...((((......--........((((((((...((((....))))..)))).))))..(((....))).........................))))))).... ( -26.80)
>consensus
_AACCCCUGAUGGCCAAUGAUUAUACAC__ACACCCAGUGGCGGCUGUGCGGCAGUUGCCAAAAGCCAGUCGACCAUGGCAAAUAA__________UAAAAUGUAAGACACUCGGCAAAC
............(((........................((((((((.....))))))))....((((........)))).................................))).... (-23.67 = -23.93 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:21 2006