Locus 5682

Sequence ID X_DroMel_CAF1
Location 14,703,736 – 14,703,838
Length 102
Max. P 0.565433
window9225

overview

Window 5

Location 14,703,736 – 14,703,838
Length 102
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 82.19
Mean single sequence MFE -22.68
Consensus MFE -16.67
Energy contribution -17.43
Covariance contribution 0.75
Combinations/Pair 1.14
Mean z-score -1.53
Structure conservation index 0.74
SVM decision value 0.06
SVM RNA-class probability 0.565433
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14703736 102 + 22224390
AGUUUCAGUUAAAA---------AUAUACUAAUUUUUCGCAGUGUACCAUUGCUAGUGCGUGCCAAAUGUUAAUUAAAACUAUGCACUGGCCAUUAAGGCAACAAAUCGAA
...(((.((.((((---------((......)))))).))..(((......(((((((((((......(((......)))))))))))))).......))).......))) ( -18.52)
>DroSec_CAF1 22728 102 + 1
AGUUUCAGCUAAAA---------AUAUAAUGAUUUUUAGCAGUGUACUAUUGCUAGUGCGUGCCAAUUGUUAAUUAAAACUAUGCACUGGCCAUUAAGGCAACAAAUCGAA
...(((.(((((((---------((......)))))))))..(((...((.(((((((((((....(((.....)))...))))))))))).))....))).......))) ( -25.20)
>DroEre_CAF1 23097 111 + 1
ACUUUAAAUUAAAAAAAAUUCAGGUACACCCAUUUCGCCCAGUGUAUUACUGCAAGUGCGUGCCAAAUGUUAAUUAAAACUAUGCACUGGCCAUUAAGGCAACAAAUCGAA
.((((((...............((....))......(.(((((((((..........((((.....))))...........))))))))).).))))))............ ( -18.60)
>DroYak_CAF1 20841 111 + 1
AGUUGAAGUUCGAAAAUUUGCAAAUAUACUGAUUUUUCGCGGUGUAUUACUGCUGGUGCGUGCCAAAUGUUAAUUAAAACUAUGCACUGGCCAUUGAGGCAACAAAUCGAA
........(((((....((((.(((((((((........)))))))))...((..(((((((......(((......))))))))))..)).......))))....))))) ( -28.40)
>consensus
AGUUUAAGUUAAAA_________AUAUACUGAUUUUUCGCAGUGUACUACUGCUAGUGCGUGCCAAAUGUUAAUUAAAACUAUGCACUGGCCAUUAAGGCAACAAAUCGAA
........................(((((((........))))))).....(((((((((((......(((......))))))))))))))......(....)........ (-16.67 = -17.43 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:54 2006