Locus 7667

Sequence ID 3R_DroMel_CAF1
Location 20,549,990 – 20,550,106
Length 116
Max. P 0.539934
window12372

overview

Window 2

Location 20,549,990 – 20,550,106
Length 116
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 81.05
Mean single sequence MFE -42.18
Consensus MFE -27.92
Energy contribution -27.74
Covariance contribution -0.19
Combinations/Pair 1.18
Mean z-score -1.62
Structure conservation index 0.66
SVM decision value 0.01
SVM RNA-class probability 0.539934
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20549990 116 + 27905053
--GGAGCCAGUGGCCAGGAUAUACGGAUGUACCGCCUGAAGGAAGAAGGGUGUGGGCAUUGGGAAGUGGGUGGGUGGGUUUUUGGCCAUGGUCUGAACCGGCGUACAAGGGCCACAGG
--....((.((((((........(.((((..((((((..........))))).)..)))).).......(((.((.(((((..(((....))).))))).)).)))...)))))).)) ( -42.50)
>DroSec_CAF1 6630 116 + 1
--GGAGCCACUGGUCAGGAUAUACGGAUGUACCGCCUGAAGCAAGAAGGGUCUGGGCAGUGGGAAGUGGUUGUGUGGGUUUUUGGCCAUGGCCUGAACCGGCGUACAAGGGCCACAGG
--....((((((.(((((.....(((.....)))(((.........))).))))).))))))...((((((((((.(((((..(((....))).))))).))..)))...)))))... ( -43.40)
>DroSim_CAF1 6671 116 + 1
--GGAGCCACUGGCCAGGAUAUACGGAUGUACCGCCUGAAGCAAGAAGGGUCUGGGCAGUGGGAAGUGGGUGGGUGGGUUUUUGGCCAUGGCCUGAACCGGCGUACAAGGGCCACAGG
--....((((((.(((((.....(((.....)))(((.........))).))))).))))))...(((((((.((.(((((..(((....))).))))).)).))).....))))... ( -47.20)
>DroYak_CAF1 6810 92 + 1
CAGGACCCACUGGCUAGGAUAUACGGAUGUACCACCCACCG--------------------------GGUUGGGUGGGUUUUCGGCCAUGGCCUGACCCGGCGUACAAGGGCCACAGG
..((.(((.(((...........))).(((((......(((--------------------------(((..(((.(((.....)))...)))..)))))).))))).)))))..... ( -35.60)
>consensus
__GGAGCCACUGGCCAGGAUAUACGGAUGUACCGCCUGAAGCAAGAAGGGUCUGGGCAGUGGGAAGUGGGUGGGUGGGUUUUUGGCCAUGGCCUGAACCGGCGUACAAGGGCCACAGG
......((..(((((.(......)...((((((((((..............................))))).((.(((((..(((....))).))))).)))))))..)))))..)) (-27.92 = -27.74 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:34 2006