Locus 8538

Sequence ID 3L_DroMel_CAF1
Location 22,319,850 – 22,319,959
Length 109
Max. P 0.949436
window13988

overview

Window 8

Location 22,319,850 – 22,319,959
Length 109
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.30
Mean single sequence MFE -49.12
Consensus MFE -41.57
Energy contribution -41.63
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.51
Structure conservation index 0.85
SVM decision value 1.39
SVM RNA-class probability 0.949436
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22319850 109 - 23771897
GCGCCGCAUGCGAUUACCC-----------AGCAGUUAGUCUGGUCUGGCGGCCAGGCAGUACAUCAGCAUGCCAAGCUGGUGCCCGGCACCUCCUGCUCCUGGUAAAUUGCUGCUGUGC
((((.(((.(((((((((.-----------(((((...((((((((....)))))))).(..(((((((.......)))))))..)........)))))...))).))))))))).)))) ( -47.70)
>DroSec_CAF1 78523 109 - 1
GCGCCGCAUGCGAUUACCC-----------AGCAGUUAGUCUGGUCUGGCGGCCAGGCAGUACAUCAGCAUGCCAAGCUGGUGCCCGGCACCUCCUGCUCCUGGUAAAUUGCUGCUGUGC
((((.(((.(((((((((.-----------(((((...((((((((....)))))))).(..(((((((.......)))))))..)........)))))...))).))))))))).)))) ( -47.70)
>DroEre_CAF1 76859 120 - 1
GCGCCGCAUGCGAUUACCCAGCCAGCAGCCAGCAGUUACUCUGGUCUGGCGGCCAGGCAGUACAUCAGCAUGCCAAGCCGGUGCCCGGCACCUCCUGCUCCUGGUAAAUUGCUGCUGUGC
((((.(((.((((((..((((..((((((((((((.....)))..)))))(((..((((((......)).))))..)))(((((...)))))...)))).))))..))))))))).)))) ( -53.60)
>DroYak_CAF1 56912 109 - 1
GCGCCGCAUGCGAUUACCC-----------AGCAGUUACUCUGGUCUGGCGGCUAGGCAGUACAUCAGCAUGCCAGGCUGGUGCCCGGCACCUCCUGCUCCUGGUAAAUUGCUGCUGUGC
((((.(((.(((((((((.-----------(((((.......((((((((((((.((.......))))).)))))))))(((((...)))))..)))))...))).))))))))).)))) ( -47.50)
>consensus
GCGCCGCAUGCGAUUACCC___________AGCAGUUACUCUGGUCUGGCGGCCAGGCAGUACAUCAGCAUGCCAAGCUGGUGCCCGGCACCUCCUGCUCCUGGUAAAUUGCUGCUGUGC
((((.(((.(((((((((............(((((.....((((((....))))))((.(..(((((((.......)))))))..).)).....)))))...))).))))))))).)))) (-41.57 = -41.63 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:25 2006