Locus 8000

Sequence ID X_DroMel_CAF1
Location 19,901,513 – 19,901,627
Length 114
Max. P 0.771088
window13134

overview

Window 4

Location 19,901,513 – 19,901,627
Length 114
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 79.29
Mean single sequence MFE -29.30
Consensus MFE -14.23
Energy contribution -14.78
Covariance contribution 0.56
Combinations/Pair 1.24
Mean z-score -2.37
Structure conservation index 0.49
SVM decision value 0.53
SVM RNA-class probability 0.771088
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19901513 114 + 22224390
CAACGCCAAGCUGGAUGAAAAUUAAUUCAUUUUGAAGCGUUAAGAUUCCUUACGCGCUAAUGAGUU--GAAGUGUGGGCACACGGACGCAGAAAUGAGGAAUUGGUCCUUUGGCAG
....((((((..((((.((..((((((((((....(((((((((....)))).)))))))))))))--)).((((....))))...(.((....)).)...)).)))))))))).. ( -33.60)
>DroSec_CAF1 15835 97 + 1
CAACGCCAAGCUGGAUGAAAAUUAAUUCAUUUUGAAGCGUUAAGAUUCCUUACGCGCUAAUGAGUU--GAAGUGCGGGA-----------------AGGAAUUGGUCCUUUGGCAG
....((((((((.((((((......))))))....))).....((((((((.((((((........--..))))))..)-----------------)))))))......))))).. ( -31.20)
>DroSim_CAF1 11202 97 + 1
CAACGCCAAGCUGGAUGAAAAUUAAUUCAUUUUGAAGCGUUAAGAUUCCUUACGCGCUAAUGAGUU--GAAGUGCGGGA-----------------AGGAAUUGGUCCUUUGGCAG
....((((((((.((((((......))))))....))).....((((((((.((((((........--..))))))..)-----------------)))))))......))))).. ( -31.20)
>DroEre_CAF1 14868 94 + 1
CAACGCCGAGCUGGAUGAAAAUUAAUUCAUUUUGAGGCGCUAAGAUUCCUCACGCGCUAAUGAGUUAGGAAAUGGG----------------------GAGUUCGUCCUUUGGCAG
....((((((..(((((((..((((((((((....(((((..((....))...)))))))))))))))........----------------------...))))))))))))).. ( -28.52)
>DroAna_CAF1 37324 91 + 1
CAACGCCAAAUUGGAUGAAAAUUAAUUCAUUUUGAAGCGUUAAGAUUCUUUACGCGCUAAUGAGUU--GAAGUGUGGGA-----------------GCACACUACCACAU------
...........(((.......((((((((((.....((((.(((...))).))))...))))))))--))((((((...-----------------.)))))).)))...------ ( -24.70)
>DroPer_CAF1 21362 97 + 1
CAACGCCAAAUUGGAUGAAAAUUAAUUCAUUUUGAAGCGAUAAGAUUCUUUACGCGCUAAUGAGUU--GAAGUGUGUGC-----------------ACACACACCCCCACAGGCAU
....(((....(((.......((((((((((.....(((.((((....)))))))...))))))))--)).((((((..-----------------..))))))..)))..))).. ( -26.60)
>consensus
CAACGCCAAGCUGGAUGAAAAUUAAUUCAUUUUGAAGCGUUAAGAUUCCUUACGCGCUAAUGAGUU__GAAGUGUGGGA_________________AGGAAUUGGUCCUUUGGCAG
....(((((.(..((((((......))))))..).(((((((((....)))).)))))...................................................))))).. (-14.23 = -14.78 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:54 2006