Locus 4261

Sequence ID X_DroMel_CAF1
Location 11,191,401 – 11,191,516
Length 115
Max. P 0.618149
window7003

overview

Window 3

Location 11,191,401 – 11,191,516
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.67
Mean single sequence MFE -39.30
Consensus MFE -28.85
Energy contribution -28.72
Covariance contribution -0.13
Combinations/Pair 1.17
Mean z-score -1.56
Structure conservation index 0.73
SVM decision value 0.17
SVM RNA-class probability 0.618149
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11191401 115 + 22224390
GUAGACGCCACAUAGAAAGCGAUGGCAGG-----UGGCUAAGUGACUUACCCCUCUGCGUGGUGUUGAACCAAUUGAACCAGGCCUGGACACGCGGAUAGAGCCGCUCCAGCGUGGCCAA
...((((((((.((((..((....)).((-----.((.((((...)))))))))))).))))))))............(((.((.((((...((((......)))))))))).))).... ( -39.60)
>DroSim_CAF1 950 115 + 1
GUAGACGCCACAUAGAAAGCGAUGGCAGG-----UGGCUUGGUGACUUACCCUUCUGCGUGGUGUUGAACCAAUUGAACCAGGCCUGGACACGCGGAUACAGCCGCUCCAGCGUGGCCAA
...((((((((.(((((.((....)).((-----(((...(....)))))).))))).))))))))............(((.((.((((...((((......)))))))))).))).... ( -40.10)
>DroEre_CAF1 2157 115 + 1
AUGAACACCACUUAGACAAGGAUAGCAGG-----CAACGUAGUAACUUACCCUUCUGCGUGGUGUUAAACCAGUUGAACCAGGCCUGCACACGCGGAUACAGCCGCUCCAGUGUGGCUAA
...((((((((.((((..(((......(.-----...)((((....))))))))))).))))))))...............((((.((((..((((......))))....)))))))).. ( -35.20)
>DroYak_CAF1 921 120 + 1
AUGAACACCACAUAGACAGGGAUAGCAGGAUAGGUGACUUAAUAACUUACCCUUCUGCGUGGUGUUAAACCAAUUGAACCAGGCCUGCACACGCGGAUACAACCGCUCCAGCGUGGCCAA
...((((((((.((((.((((..((......((....))......))..)))))))).))))))))...............(((((((....((((......))))....))).)))).. ( -42.30)
>consensus
AUAAACACCACAUAGAAAGCGAUAGCAGG_____UGACUUAGUAACUUACCCUUCUGCGUGGUGUUAAACCAAUUGAACCAGGCCUGCACACGCGGAUACAGCCGCUCCAGCGUGGCCAA
...((((((((.((........))(((((......((........))......)))))))))))))............(((.((.((((...((((......)))))))))).))).... (-28.85 = -28.72 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:34 2006