Locus 4187

Sequence ID 3R_DroMel_CAF1
Location 11,342,558 – 11,342,653
Length 95
Max. P 0.894841
window6734

overview

Window 4

Location 11,342,558 – 11,342,653
Length 95
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.50
Mean single sequence MFE -46.32
Consensus MFE -30.26
Energy contribution -32.26
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.65
SVM decision value 0.98
SVM RNA-class probability 0.894841
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11342558 95 + 27905053
GGCAAAUGGCAGAGGCCGG-------AUGCCGGAUGCCGGAUGGCGUCUGGUGACAUUGACAGUUGGCGGAGUCGCU------------------GAUGUCCUUGCUGGGCCUCAGCCAU
.....(((((.((((((..-------..((((((((((....))))))))))..((..((((.(..(((....))).------------------.)))))..))...)))))).))))) ( -48.20)
>DroSec_CAF1 81413 97 + 1
GGCAAAUUGCAGA--------------UGCCGUAUGCCGGAUGGCGUCUGGUGACAUUGACAGUUGGCGGAGUCGCUGAUGUC---------GCUGAUGUCCUUGCUGGGCCUCAGCCAU
(((......((((--------------((((((.......))))))))))((((((((.......((((....))))))))))---------))(((.((((.....)))).)))))).. ( -40.01)
>DroSim_CAF1 79979 97 + 1
GGCAAAUGGCAGA--------------UGCCGGAUGCCGGAUGGCGUCUGGUGACAUUGACAGUUGGCGGAGUCGCUGAUGUC---------GCUGAUGUCCUUGCUGGGCCUCAGCCAU
(((....(((.(.--------------(((((((((((....))))))))))).)...((((.(..(((....)))..)))))---------)))((.((((.....)))).)).))).. ( -43.50)
>DroEre_CAF1 77168 111 + 1
GGCAAAUGGCAGAUGCCGGAUGGCGGAUGCCGGAUGGCGGAUGGCGUCUGGUGACAUUGACAGUUGGCGGAGUGGCUGAUGUC---------GCUGAUGUCCUGGCUGGGCCUCAGCCAU
(((....(((.(.(((((((((.((..((((....))))..)).))))))))).).....(((((((((.((((((....)))---------)))..))))..))))).)))...))).. ( -47.20)
>DroYak_CAF1 79082 113 + 1
GGCAAAUGGCAGAUGCCGG-------AUGCCGGAUGGCGGAUGGCGUCUGGUGACAUUGACAGUUGGCGGAGUGGCUGAUGUCGCUGAUGUCGCUGAUGUCCUGGCUGGGCCUCAGCCAU
(((......(((((((((.-------.((((....))))..)))))))))((((((((((((.(..((......))..)))))...))))))))(((.((((.....)))).)))))).. ( -52.70)
>consensus
GGCAAAUGGCAGA_GCCGG_______AUGCCGGAUGCCGGAUGGCGUCUGGUGACAUUGACAGUUGGCGGAGUCGCUGAUGUC_________GCUGAUGUCCUUGCUGGGCCUCAGCCAU
(((....(((..................((((((((((....))))))))))((((((((((.(((((......)))))))))............))))))........)))...))).. (-30.26 = -32.26 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:50 2006