Locus 3428

Sequence ID 3R_DroMel_CAF1
Location 9,304,621 – 9,304,717
Length 96
Max. P 0.654307
window5503

overview

Window 3

Location 9,304,621 – 9,304,717
Length 96
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.84
Mean single sequence MFE -25.08
Consensus MFE -17.51
Energy contribution -17.38
Covariance contribution -0.12
Combinations/Pair 1.15
Mean z-score -1.06
Structure conservation index 0.70
SVM decision value 0.25
SVM RNA-class probability 0.654307
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9304621 96 + 27905053
AUCGUAAAAUUGGAUAUAAAAUUUUACGAGCGUGAGGCUGCGUCUCGUCCCCAAUCCCCAAUCC--------------CGGAUCUUGAAUCUC----------GAGUCUCGAGUGUUCUG
.((((((((((........))))))))))((.(((((((.((.....((....((((.......--------------.))))...))....)----------)))))))).))...... ( -23.60)
>DroPse_CAF1 73092 72 + 1
AUCGUAAAAUUGGAUAUAAAAUUUUACGAGCGUGUGGCUGGGCCUCGUCUC-----------------------------------GAGUCUC----------GAGUGUU---CGUUCUG
...((((((((........))))))))(((((....((((((.((((...)-----------------------------------))).)))----------.)))...---))))).. ( -20.00)
>DroSim_CAF1 77134 96 + 1
AUCGUAAAAUUGGAUAUAAAAUUUUACGAGCGUGAGGCUGCGUCUCGUCCCCAAUCCCCAAUCC--------------CGGAUCUUGAAUCUC----------GAGUCUCGAGUGUUCUG
.((((((((((........))))))))))((.(((((((.((.....((....((((.......--------------.))))...))....)----------)))))))).))...... ( -23.60)
>DroEre_CAF1 76604 110 + 1
AUCGUAAAAUUGGAUAUAAAAUUUUACGAGCGAGAGGCUGCGUCUCGUCCCCAAUCCCCAAUCCCCAAUCCCCAAUCCGGGAUCUUGAAUCUC----------GAGUCUCGAGUGUUCUG
.((((((((((........))))))))))((((((.(...).))))))...................(((((......)))))...(((((((----------(.....)))).)))).. ( -28.90)
>DroYak_CAF1 76610 95 + 1
AUCGUAAAAUUGGAUAUAAAAUUUUACGAGCGUGAGGCUGCGCCUCGUCCCCAAUCCCCAAUCC---------------GGAUCUUGAAUCUC----------GAGUCUCGAGUGUUCUG
.((((((((((........))))))))))(..((((((...))))))..)...((((.......---------------))))...(((((((----------(.....)))).)))).. ( -25.50)
>DroAna_CAF1 74561 92 + 1
AUCGUAAAAUUGGAUAUAAAAUUUUACGAGCGUGUGGCUGGGCCUCGUCUCA----------------------------GAUCUUGGGGCUCGUCCCUCUUGGACUCUUGAGUGUUCGG
.((((((((((........))))))))))........(((((((((((((((----------------------------(...)))))))..((((.....))))....))).)))))) ( -28.90)
>consensus
AUCGUAAAAUUGGAUAUAAAAUUUUACGAGCGUGAGGCUGCGCCUCGUCCCCAAUCCCCAAUCC_______________GGAUCUUGAAUCUC__________GAGUCUCGAGUGUUCUG
...((((((((........))))))))(((((.(((((...))))).....................................(((((..(((..........)))..)))))))))).. (-17.51 = -17.38 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:46 2006