Locus 2057

Sequence ID X_DroMel_CAF1
Location 5,648,949 – 5,649,052
Length 103
Max. P 0.733100
window3344

overview

Window 4

Location 5,648,949 – 5,649,052
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 77.78
Mean single sequence MFE -33.77
Consensus MFE -21.12
Energy contribution -21.38
Covariance contribution 0.25
Combinations/Pair 1.27
Mean z-score -1.83
Structure conservation index 0.63
SVM decision value 0.43
SVM RNA-class probability 0.733100
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5648949 103 + 22224390
CUGGAUUUUGGCCUUCAGAUUCUGGAGACUGGAACUUUGGACUCUGGACUUUGGACUCUGGACUCUGGACUAGGGAUCCGACCCAACCUAACAGAGUGCAGAA
......((..(..((((((.((..(((.......)))..)).))))))..)..)).((((.((((((...((((............)))).)))))).)))). ( -33.40)
>DroSec_CAF1 38274 95 + 1
CUGGAUUUUGGACUGCAGAUUCUGGAGCCUGGAACC--------AGUAACCAGGACCCUGGACUCUGGAUUCGGGAUCCGACCCAACCUGACAGAGUGCAGAG
(((.((((((.....(((....((((.((((((.((--------((...((((....))))...)))).)))))).)))).......))).)))))).))).. ( -35.40)
>DroSim_CAF1 37386 95 + 1
CUGGAUUUUGGACUGCAGAUUCUGGAGCCUGGAACC--------AGUAACCAGGACCCUGGACUCUGGACUCGGGAUCCGACCCAACCUGACAGAGUGCAGAG
((((.(((..(.((.(((...))).)).)..)))))--------))...((((....)))).(((((.(((((((......))).........)))).))))) ( -34.20)
>DroYak_CAF1 38428 88 + 1
CUAAAUUCUGGAUGCUGGGUUCUGGAUACUGGAACC---------------UGGACUUUGGACUUUGGACUCGGGAUCUGAGCCAAUCUGACAGAGUGCAGAG
......((((....(..(((((..(...)..)))))---------------..)((((((....((((.(((((...))))))))).....)))))).)))). ( -32.10)
>consensus
CUGGAUUUUGGACUGCAGAUUCUGGAGACUGGAACC________AGUAACCAGGACCCUGGACUCUGGACUCGGGAUCCGACCCAACCUGACAGAGUGCAGAG
.....(((..(.((((((...)))))).)..))).......................(((.((((((.....(((......))).......)))))).))).. (-21.12 = -21.38 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:11 2006