Locus 1441

Sequence ID X_DroMel_CAF1
Location 4,340,729 – 4,340,819
Length 90
Max. P 0.963654
window2300

overview

Window 0

Location 4,340,729 – 4,340,819
Length 90
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 81.90
Mean single sequence MFE -32.32
Consensus MFE -21.07
Energy contribution -21.98
Covariance contribution 0.92
Combinations/Pair 1.12
Mean z-score -4.09
Structure conservation index 0.65
SVM decision value 1.56
SVM RNA-class probability 0.963654
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4340729 90 + 22224390
-GCGGCGGCAUUAUUAUAUUUA--UACGGCGGUGCUG-UCUUUUUGCGGUUUUAUGCCAGUUGGCAUUGCUGCAAUUUUUAGCACGAAAGGUUG
-((((((((((..(..((....--))..)..))))))-))...(((((((...(((((....))))).)))))))......)).(....).... ( -32.40)
>DroVir_CAF1 211218 71 + 1
-UCGGCUGC-----------------GACUGCGGCAGCGGC---UGCGGU--UAUGUCAGUUGGCCUGGCUAUAAUUUUUCGCACGAAACAUUU
-(((..(((-----------------(((((((((....))---)))))(--((((((((.....))))).))))....))))))))....... ( -23.90)
>DroSec_CAF1 126569 89 + 1
-GCGGCGGCAUUAUUAUAUUUAUAUACGGUGGUGCUG-UCU---UGCGGUUUUAUGCCAGUUGGCAUUGCUGCAAUUUUUAGCACGAAAGGUUG
-(((((((((((((..(((....)))..)))))))))-))(---((((((...(((((....))))).)))))))......)).(....).... ( -36.50)
>DroSim_CAF1 119952 89 + 1
-GCGGCGGCAUUAUUAUAUUUAUAUACGGUGGUGCUG-UCU---UGCGGUUUUAUGCCAGUUGGCAUUGCUGCAAUUUUUAGCACGAAAGGUUG
-(((((((((((((..(((....)))..)))))))))-))(---((((((...(((((....))))).)))))))......)).(....).... ( -36.50)
>DroEre_CAF1 134641 85 + 1
---GGCGGCAUUAUUAUAUUUA--UACGGUGGUGCUG-UCU---UGCGGUUUUAUGCCAGUUGGCAUUGCUGUAAUUUUUAGCACGAAAGGUUG
---(((((((((((..((....--))..)))))))))-))(---((((((...(((((....))))).)))))))....((((.(....))))) ( -31.70)
>DroYak_CAF1 128581 88 + 1
GGCGGCGGCAUUAUUAUAUUUA--UACGGUGGUGCUG-UCU---UGCGGUUUUAUGCCAGUUGGCAUUGCUGUAAUUUUUAGCACGAAAGGUUG
.(((((((((((((..((....--))..)))))))))-))(---((((((...(((((....))))).)))))))......)).(....).... ( -32.90)
>consensus
_GCGGCGGCAUUAUUAUAUUUA__UACGGUGGUGCUG_UCU___UGCGGUUUUAUGCCAGUUGGCAUUGCUGCAAUUUUUAGCACGAAAGGUUG
..((((((((((((..((......))..))))))))........((((((...(((((....))))).)))))).......)).))........ (-21.07 = -21.98 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:31 2006