Locus 3083

Sequence ID 3R_DroMel_CAF1
Location 8,130,412 – 8,130,513
Length 101
Max. P 0.885491
window5003

overview

Window 3

Location 8,130,412 – 8,130,513
Length 101
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 88.04
Mean single sequence MFE -28.70
Consensus MFE -22.54
Energy contribution -24.10
Covariance contribution 1.56
Combinations/Pair 1.07
Mean z-score -1.96
Structure conservation index 0.79
SVM decision value 0.94
SVM RNA-class probability 0.885491
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8130412 101 + 27905053
CCAAACCCAAUCCCCCCCCACACUCAACACUUAUUUGCUCUUGAGUGGUGCUGAUCGGAUGAAGGCAAGUACCGAGUACUUGGCUCUAGGCACAUGAUUGA
.......(((((........(((((((..(......)...)))))))(((((....(((....(.(((((((...))))))).)))).)))))..))))). ( -26.80)
>DroSec_CAF1 24064 98 + 1
CCAAACCCAAUCCC---CCACACUCCACACUUAUUUGCUCUUGAGUGGUGCUGAUCGGCUGAAGCCGAGUACCGAGUACUUGGCUCUAGGCACAUGAUUGA
.......(((((..---.(((((....((((((........))))))))).))...(.(((.((((((((((...)))))))))).))).)....))))). ( -30.00)
>DroSim_CAF1 25613 91 + 1
CCAAACCCAAUCCC---CCACACUCAACACUUAUUUGCUCUUGAGUGGUGCUGAUCGGCUGAAA-------CCGAGUACUUGGCUCUAGGCACAUGAUUGA
.......(((((..---...(((((((..(......)...)))))))(((((....((......-------))((((.....))))..)))))..))))). ( -23.20)
>DroEre_CAF1 23852 93 + 1
-----CCCAAUCCC---UCACACUCGCCACUUAUUUGCUCUUGAGUGGUGCUGAUCGGAUGAAGCCGAGUACUGAGUACUUGGCUCUAGGCACAUGAUUGA
-----.((.((((.---(((....(((((((((........))))))))).)))..))))..((((((((((...))))))))))...))........... ( -31.30)
>DroYak_CAF1 23265 93 + 1
-----CCCAAUCCC---CCACACUCGGCACUUAUUUGCUCUUGAGUGGUGCUGAUCGCAUGAAGCCGGGUACUGAGUACUUGGCUCUAGGCACAUGAUUGA
-----..(((((..---......((((((((.((((......))))))))))))..((.((.((((((((((...)))))))))).)).))....))))). ( -32.20)
>consensus
CCAAACCCAAUCCC___CCACACUCAACACUUAUUUGCUCUUGAGUGGUGCUGAUCGGAUGAAGCCGAGUACCGAGUACUUGGCUCUAGGCACAUGAUUGA
.......(((((...............((((((........))))))(((((..((....))((((((((((...))))))))))...)))))..))))). (-22.54 = -24.10 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:38 2006