Locus 5601

Sequence ID 2R_DroMel_CAF1
Location 17,869,771 – 17,869,879
Length 108
Max. P 0.984941
window8972 window8973

overview

Window 2

Location 17,869,771 – 17,869,879
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 98.24
Mean single sequence MFE -34.18
Consensus MFE -32.38
Energy contribution -32.62
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.79
Structure conservation index 0.95
SVM decision value 1.99
SVM RNA-class probability 0.984941
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17869771 108 + 20766785
UCGCCUGCACCUGACAUUGCGCAGAUCCGUGUAAUCCGCCACCGAAAAAGGACGCGGAAAGUGCAGGAAAACUAUUUUCCACGGAUGGCAGAGAUGGCAUAAGUAACU
..(((.(((........)))((..(((((((((.(((((..((......))..)))))...))).(((((.....))))))))))).))......))).......... ( -33.90)
>DroSec_CAF1 34625 108 + 1
UCGCCUGCACCUGACUUUGCACAGAUCCGUGUAAUCCGCCACCGAAAAAGGACGCGGAAAGUGCAGGAAAACUAUUUUCCACGGAUGGCAGAGAUGGCAUAAGUAACU
..(((..(....).((((((....(((((((((.(((((..((......))..)))))...))).(((((.....))))))))))).))))))..))).......... ( -34.00)
>DroSim_CAF1 34982 108 + 1
UCGCCUGCACUUGACUUCGCGCAGAUCCGUGUAAUCCGCCACCGAAAAAGGACGCGGAAAGUGCAGGAAAACUAUUUUCCACGGAUGGCAGAGAUGGCAUAAGUAACU
...(((((((((......((((......))))..(((((..((......))..)))))))))))))).............((..(((.((....)).)))..)).... ( -34.00)
>DroEre_CAF1 37087 108 + 1
UCGCCUGCACCUGACUUUGCGCAGAUCCGUGUAAUCCGCCACCGAAAAAGGACGCGGAAAGUGCAGGAAAACUAUUUUCCACGGAUGGCAGAGAUGGCAUAAGUAACU
..(((.(((........)))((..(((((((((.(((((..((......))..)))))...))).(((((.....))))))))))).))......))).......... ( -33.90)
>DroYak_CAF1 33573 108 + 1
UCGCCUGCACCUGACUUGGCGCAGAUCCGUGUAAUCCGCCACCGAAAAAGGACGCGGAAAGUGCAGGAAAACUAUUUUCCACGGAUGGCAGAGAUGGCAUAAGUAACU
..((((((.((......)).))).(((((((((.(((((..((......))..)))))...))).(((((.....))))))))))))))................... ( -35.10)
>consensus
UCGCCUGCACCUGACUUUGCGCAGAUCCGUGUAAUCCGCCACCGAAAAAGGACGCGGAAAGUGCAGGAAAACUAUUUUCCACGGAUGGCAGAGAUGGCAUAAGUAACU
...(((((((......((((((......))))))(((((..((......))..)))))..))))))).............((..(((.((....)).)))..)).... (-32.38 = -32.62 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 17,869,771 – 17,869,879
Length 108
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 98.24
Mean single sequence MFE -34.40
Consensus MFE -33.40
Energy contribution -33.24
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.37
Structure conservation index 0.97
SVM decision value 0.85
SVM RNA-class probability 0.866424
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17869771 108 - 20766785
AGUUACUUAUGCCAUCUCUGCCAUCCGUGGAAAAUAGUUUUCCUGCACUUUCCGCGUCCUUUUUCGGUGGCGGAUUACACGGAUCUGCGCAAUGUCAGGUGCAGGCGA
.........((((...(((((((((((((((((...((......))..)))))))).........)))))))))...........(((((........))))))))). ( -33.30)
>DroSec_CAF1 34625 108 - 1
AGUUACUUAUGCCAUCUCUGCCAUCCGUGGAAAAUAGUUUUCCUGCACUUUCCGCGUCCUUUUUCGGUGGCGGAUUACACGGAUCUGUGCAAAGUCAGGUGCAGGCGA
.........((((...(((((((((((((((((...((......))..)))))))).........)))))))))......(.(((((........))))).).)))). ( -33.70)
>DroSim_CAF1 34982 108 - 1
AGUUACUUAUGCCAUCUCUGCCAUCCGUGGAAAAUAGUUUUCCUGCACUUUCCGCGUCCUUUUUCGGUGGCGGAUUACACGGAUCUGCGCGAAGUCAAGUGCAGGCGA
.........((((...(((((((((((((((((...((......))..)))))))).........)))))))))...........(((((........))))))))). ( -34.10)
>DroEre_CAF1 37087 108 - 1
AGUUACUUAUGCCAUCUCUGCCAUCCGUGGAAAAUAGUUUUCCUGCACUUUCCGCGUCCUUUUUCGGUGGCGGAUUACACGGAUCUGCGCAAAGUCAGGUGCAGGCGA
.........((((...(((((((((((((((((...((......))..)))))))).........)))))))))......(.((((((.....).))))).).)))). ( -34.00)
>DroYak_CAF1 33573 108 - 1
AGUUACUUAUGCCAUCUCUGCCAUCCGUGGAAAAUAGUUUUCCUGCACUUUCCGCGUCCUUUUUCGGUGGCGGAUUACACGGAUCUGCGCCAAGUCAGGUGCAGGCGA
.........((((...(((((((((((((((((...((......))..)))))))).........)))))))))...........((((((......)))))))))). ( -36.90)
>consensus
AGUUACUUAUGCCAUCUCUGCCAUCCGUGGAAAAUAGUUUUCCUGCACUUUCCGCGUCCUUUUUCGGUGGCGGAUUACACGGAUCUGCGCAAAGUCAGGUGCAGGCGA
.........((((...(((((((((((((((((...((......))..)))))))).........)))))))))...........(((((........))))))))). (-33.40 = -33.24 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:39 2006