Locus 1959

Sequence ID 3L_DroMel_CAF1
Location 5,429,982 – 5,430,095
Length 113
Max. P 0.526685
window3065

overview

Window 5

Location 5,429,982 – 5,430,095
Length 113
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.56
Mean single sequence MFE -30.62
Consensus MFE -26.17
Energy contribution -26.30
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -1.42
Structure conservation index 0.85
SVM decision value -0.01
SVM RNA-class probability 0.526685
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5429982 113 - 23771897
GCCUCCAGUUGGGUUCCAUCUCAGCAUCUCACUCCAACUGGCCAUCUCUCAUCCGACCUCGACAAUUUUUGAAUAACUAAUGAAGGUGCCAGUUAAACGAGGAACGAGGAG-------CA
((.(((.((((((......)))))).((((.....(((((((.((((.((((......((((......)))).......)))))))))))))))....)))).....))))-------). ( -31.42)
>DroSec_CAF1 160 113 - 1
GCCUCCAGUUGGGUUCCACCUCAGCAUCUCACUCCAACUGGCCAUCUCUCAUCCGACCUCGACUAUUUUUGAAUAACUAAUGAAGGUGCCAGUUAAACGAGGAACGAGCAG-------CA
(((((..((((((......)))))).((((.....(((((((.((((.((((......((((......)))).......)))))))))))))))....))))...)))..)-------). ( -27.82)
>DroSim_CAF1 201 113 - 1
GCAUCCAGUUGGGUUCCACCUCAGCAUCUCACUCCAACUGGCCAUCUCUCAUCCGACCUCAACUAUUUUUGAAUAACUAAUGAAGGUGCCAGUUAAACGAGGAACGAGCAG-------CA
((.....((((((......))))))..(((..((((((((((.((((.((((......((((......)))).......)))))))))))))))......)))..)))..)-------). ( -27.82)
>DroEre_CAF1 134 120 - 1
GCCUCCAGUUGGGUUCCACCUCAGCAUCCCACUCCAACUGGCCACCUCCCAUCCGAACUCGACUAUUUUUGAAUAACUAAUGAAGGUGCCAGUUAAACGAGGAACGAGGAGCGAGGAGCG
((.(((.((((((......))))))....(.(((((((((((.((((..(((......((((......)))).......))).)))))))))))...((.....)).)))).).))))). ( -35.42)
>consensus
GCCUCCAGUUGGGUUCCACCUCAGCAUCUCACUCCAACUGGCCAUCUCUCAUCCGACCUCGACUAUUUUUGAAUAACUAAUGAAGGUGCCAGUUAAACGAGGAACGAGCAG_______CA
.((((..((((((......))))))..........(((((((.((((.((((......((((......)))).......)))))))))))))))....)))).................. (-26.17 = -26.30 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:05 2006