Locus 4

Sequence ID sp_ag.0
Location 1,420,866 – 1,420,944
Length 78
Max. P 0.999697
window53 window54

overview

Window 3

Location 1,420,866 – 1,420,944
Length 78
Sequences 4
Columns 78
Reading direction forward
Mean pairwise identity 70.66
Mean single sequence MFE -12.78
Consensus MFE -11.40
Energy contribution -9.78
Covariance contribution -1.62
Combinations/Pair 1.45
Mean z-score -1.88
Structure conservation index 0.89
SVM decision value 3.17
SVM RNA-class probability 0.998630
Prediction RNA

Download alignment: ClustalW | MAF

>sp_ag.0 1420866 78 - 2160267
CUGAAUUCUUCUCUCAUCCAGACUUUACUGUCGGUACUGGAAUCACACCAGUUCAUGCUCGAAAGCUCGCGGACUAUA
................((((((((........))).)))))........(((((.((..(....)..)).)))))... ( -14.30)
>sp_pn.0 173890 78 + 2038615
CUUUUAUCUUCUUUCAUCCAGACUAUACUGUCGGCUUUGGAAUUUCACCAAAUCAUGCCUUUCGGCUCGUGGGCUAUA
....................(((......)))((((((((.......)))))....)))....((((....))))... ( -13.80)
>sy_au.0 1565355 77 + 2809422
CCUCCAUCUUCUCCCAUCCAGACUAUACUGUCGGCUCUAGAAUCUCACUAGAUCA-GCCACUAAUAUGAUACAUACUA
.....(((............(((......)))((((((((.......)))))...-)))........)))........ ( -11.80)
>sy_sa.0 1211878 76 - 2516575
CCUCCAUCUUCUCCCAUCCAGACUUUACUGUCGGCUCUAGAUUUUCACUAGAUCA-GCCAUUU-UAUUAUAUAUAAUA
....................(((......)))((((((((.......)))))...-)))....-.............. ( -11.20)
>consensus
CCUCCAUCUUCUCCCAUCCAGACUAUACUGUCGGCUCUAGAAUCUCACCAGAUCA_GCCAUUAAGAUCAUAGACAAUA
....................(((......)))((((((((.......)))))....)))................... (-11.40 =  -9.78 +  -1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,420,866 – 1,420,944
Length 78
Sequences 3
Columns 78
Reading direction forward
Mean pairwise identity 67.95
Mean single sequence MFE -13.10
Consensus MFE -11.20
Energy contribution -9.43
Covariance contribution -1.77
Combinations/Pair 1.45
Mean z-score -1.58
Structure conservation index 0.86
SVM decision value 3.91
SVM RNA-class probability 0.999697
Prediction RNA

Download alignment: ClustalW | MAF

>sp_ag.0 1420866 78 - 2160267/0-78
CUGAAUUCUUCUCUCAUCCAGACUUUACUGUCGGUACUGGAAUCACACCAGUUCAUGCUCGAAAGCUCGCGGACUAUA
................((((((((........))).)))))........(((((.((..(....)..)).)))))... ( -14.30)
>sp_pn.0 173890 78 + 2038615/0-78
CUUUUAUCUUCUUUCAUCCAGACUAUACUGUCGGCUUUGGAAUUUCACCAAAUCAUGCCUUUCGGCUCGUGGGCUAUA
....................(((......)))((((((((.......)))))....)))....((((....))))... ( -13.80)
>sy_sa.0 1211878 76 - 2516575/0-78
CCUCCAUCUUCUCCCAUCCAGACUUUACUGUCGGCUCUAGAUUUUCACUAGAUCA-GCCAUUU-UAUUAUAUAUAAUA
....................(((......)))((((((((.......)))))...-)))....-.............. ( -11.20)
>consensus
CUUAAAUCUUCUCUCAUCCAGACUUUACUGUCGGCUCUGGAAUUUCACCAGAUCAUGCCAUUA_GCUCGUGGACUAUA
....................(((......)))((((((((.......)))))....)))................... (-11.20 =  -9.43 +  -1.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:51:06 2006