Locus 3485

Sequence ID X_DroMel_CAF1
Location 9,350,510 – 9,350,605
Length 95
Max. P 0.659032
window5698

overview

Window 8

Location 9,350,510 – 9,350,605
Length 95
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 87.16
Mean single sequence MFE -26.48
Consensus MFE -18.17
Energy contribution -18.85
Covariance contribution 0.68
Combinations/Pair 1.09
Mean z-score -2.03
Structure conservation index 0.69
SVM decision value 0.26
SVM RNA-class probability 0.659032
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9350510 95 - 22224390
GCGGCCAUUUGAUUUGCAAAAUGUGCGGGACAAACAAACAUCGCUUGGUCCUCGCUAAGCA---CCAUGAUCAUAAUCAUGUAGGGCAAAAUUAAUGG
...(((.((((.((((((.....)))))).))))........(((((((....))))))).---.((((((....))))))...)))........... ( -23.60)
>DroSec_CAF1 130434 95 - 1
GCGGCCAUUUGGUUUGCAAAAUGUGCGGGGCAAACAAACAUCAGUUGGUCCUCGCUAAGCA---CCAUGAUCAUAAUCAUGUAGGGCAAAAUUAAUGG
....(((((...(((((.......(((((((.(((........))).)))).)))......---.((((((....))))))....)))))...))))) ( -26.40)
>DroSim_CAF1 127952 95 - 1
GCGGCCAUUUGGUUUGCAAAAUGUGCGGGGCAAACAAACAUCAGUUGGUCCUCGCUAAGCA---CCAUGAUCAUAAUCAUGUAGGGCAAAAUUAAUGG
....(((((...(((((.......(((((((.(((........))).)))).)))......---.((((((....))))))....)))))...))))) ( -26.40)
>DroEre_CAF1 139612 86 - 1
ACGGUCAUU-----UGCAAAAUAUGCGGGGCAA----ACAUCAGUUUGUCCUCGCUAAGCA---UCAUCAUCAUAAUCAUGUAGGGCAAAAUUAAUAG
.......((-----(((.......(((((((((----((....)))))))).)))...(((---(.((.......)).))))...)))))........ ( -20.70)
>DroYak_CAF1 133995 94 - 1
GUGGCCAUUUGGUUUGCAAAAUGUGAGGGGCAA----ACAUCGGUUUGUCCUCGCUAAGCUUAACCAUGAUUAUAAUCAUGUAGGGCAAACUUAAUGG
....(((((.(((((((.....(((((((.(((----((....))))))))))))....((((..((((((....))))))))))))))))).))))) ( -35.30)
>consensus
GCGGCCAUUUGGUUUGCAAAAUGUGCGGGGCAAACAAACAUCAGUUGGUCCUCGCUAAGCA___CCAUGAUCAUAAUCAUGUAGGGCAAAAUUAAUGG
....(((((...(((((.......(((((((................)))).)))..........((((((....))))))....)))))...))))) (-18.17 = -18.85 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:28 2006