Locus 1000

Sequence ID 2R_DroMel_CAF1
Location 4,200,021 – 4,200,126
Length 105
Max. P 0.976580
window1770

overview

Window 0

Location 4,200,021 – 4,200,126
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -28.03
Consensus MFE -26.97
Energy contribution -26.72
Covariance contribution -0.25
Combinations/Pair 1.11
Mean z-score -1.38
Structure conservation index 0.96
SVM decision value 1.77
SVM RNA-class probability 0.976580
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4200021 105 - 20766785
CUCCUUUAGCGCAAUUGUGUCUCGGACAUGAAUUACGUUCACCGACAAUUAAUUUCAAGUGAAAAUGUGCUAAAACUUUUAAUUGGGCAGCCAAGUGGCUGGCAG---------------
....(((((((((((((....((((...(((((...))))))))))))))..((((....))))..))))))))...........(.(((((....))))).)..--------------- ( -28.30)
>DroSec_CAF1 11808 105 - 1
CUCCUUUAUCGCAAUUGUGUCUCGGACAUGAAUUACGUUCACCGACAAUUAUUUUCAAGUGAAAAUGUGCUAAAACUUUUAAUUGGGCAGCCAAAUGGCUGGCAG---------------
....((((.((((((((....((((...(((((...))))))))))))))((((((....))))))))).))))...........(.(((((....))))).)..--------------- ( -23.50)
>DroSim_CAF1 35966 105 - 1
CUCCUUUAGCGCAAUUGUGUCUCGGACAUGAAUUACGUUCACCGACAAUUAAUUUCAAGUGAAAAUGUGCUAAAACUUUUAAUUGGGCAGCCAAGUGGCUGGCAG---------------
....(((((((((((((....((((...(((((...))))))))))))))..((((....))))..))))))))...........(.(((((....))))).)..--------------- ( -28.30)
>DroEre_CAF1 14374 105 - 1
CUCCUUUAGCGCAAUUGUGUCUCGGACAUGAAUUACGUUCACCGACAAUUAAUUUCAAGUGAAAAUGUGCUAAAACUUUUAAUUGGGCAGCCAAGUGGCUGGCAG---------------
....(((((((((((((....((((...(((((...))))))))))))))..((((....))))..))))))))...........(.(((((....))))).)..--------------- ( -28.30)
>DroYak_CAF1 13531 105 - 1
CUCCUUUAGCGCAAUUGUGUCUCGGACAUGAAUUACGUUCACCGACAAUUAAUUUCAAGUGAAAAUGUGCUAAAACUUUUAAUUGGGCAGCCAAGUGGCUGGCAG---------------
....(((((((((((((....((((...(((((...))))))))))))))..((((....))))..))))))))...........(.(((((....))))).)..--------------- ( -28.30)
>DroAna_CAF1 10563 120 - 1
CUCCUUUAGCGCAUUCGUGUCUCGGACAUGAAUUACGUUUACCGACAAUUAAUUUCAAGUGAAAAUGUGCUAAAACUUUUAAUUGGGCAGCCAAGUGGUUGGCAGAGUGAGAAGGUCAUG
....(((((((((((((((((...))))))))....................((((....)))).))))))))).(((((.(((.(.(((((....))))).)..))).)))))...... ( -31.50)
>consensus
CUCCUUUAGCGCAAUUGUGUCUCGGACAUGAAUUACGUUCACCGACAAUUAAUUUCAAGUGAAAAUGUGCUAAAACUUUUAAUUGGGCAGCCAAGUGGCUGGCAG_______________
....(((((((((.(((((((...)))))))......(((((................)))))..)))))))))...........(.(((((....))))).)................. (-26.97 = -26.72 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:44 2006